Multiple sequence alignment - TraesCS3B01G574700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3B01G574700 chr3B 100.000 6523 0 0 1 6523 805043287 805036765 0.000000e+00 12046.0
1 TraesCS3B01G574700 chr3B 97.214 1400 38 1 5124 6523 805022598 805021200 0.000000e+00 2368.0
2 TraesCS3B01G574700 chr3B 95.717 1214 49 2 2437 3648 482731125 482732337 0.000000e+00 1951.0
3 TraesCS3B01G574700 chr3B 94.707 1058 54 2 3958 5013 436215311 436216368 0.000000e+00 1642.0
4 TraesCS3B01G574700 chr3B 94.628 1061 52 4 3958 5013 615726968 615728028 0.000000e+00 1639.0
5 TraesCS3B01G574700 chr3B 97.727 396 9 0 5928 6323 805077299 805076904 0.000000e+00 682.0
6 TraesCS3B01G574700 chr3B 96.919 357 11 0 2084 2440 482730615 482730971 3.370000e-167 599.0
7 TraesCS3B01G574700 chr3B 94.663 356 15 2 289 641 760623602 760623956 3.440000e-152 549.0
8 TraesCS3B01G574700 chr3B 78.447 863 146 21 1246 2085 782677576 782678421 1.610000e-145 527.0
9 TraesCS3B01G574700 chr3B 92.717 357 16 6 289 641 29243213 29242863 2.100000e-139 507.0
10 TraesCS3B01G574700 chr3B 93.410 349 11 2 1 349 545672625 545672289 2.100000e-139 507.0
11 TraesCS3B01G574700 chr3B 91.854 356 27 2 289 642 36209292 36209647 4.540000e-136 496.0
12 TraesCS3B01G574700 chr3B 92.157 357 18 6 292 642 121794862 121794510 4.540000e-136 496.0
13 TraesCS3B01G574700 chr3B 91.877 357 24 3 289 641 26100658 26101013 1.630000e-135 494.0
14 TraesCS3B01G574700 chr3B 76.107 858 168 19 1246 2083 732886067 732885227 1.310000e-111 414.0
15 TraesCS3B01G574700 chr3B 90.086 232 17 2 1854 2085 805038243 805038018 4.950000e-76 296.0
16 TraesCS3B01G574700 chr3B 90.086 232 17 2 5045 5270 805041434 805041203 4.950000e-76 296.0
17 TraesCS3B01G574700 chr3B 96.512 172 6 0 6352 6523 805076906 805076735 1.070000e-72 285.0
18 TraesCS3B01G574700 chr3B 88.889 153 11 2 1933 2085 805022598 805022452 4.020000e-42 183.0
19 TraesCS3B01G574700 chr3B 81.407 199 27 9 997 1187 732110617 732110813 3.150000e-33 154.0
20 TraesCS3B01G574700 chr3B 96.875 32 1 0 3931 3962 522894925 522894894 3.000000e-03 54.7
21 TraesCS3B01G574700 chr1B 95.738 1220 50 1 2437 3654 24182351 24181132 0.000000e+00 1964.0
22 TraesCS3B01G574700 chr1B 95.495 1221 52 2 2437 3654 158414842 158413622 0.000000e+00 1947.0
23 TraesCS3B01G574700 chr1B 95.094 1060 46 5 3958 5012 193553143 193554201 0.000000e+00 1664.0
24 TraesCS3B01G574700 chr1B 94.910 1061 48 5 3958 5012 495639855 495638795 0.000000e+00 1655.0
25 TraesCS3B01G574700 chr1B 94.727 1062 39 10 3958 5013 24181139 24180089 0.000000e+00 1635.0
26 TraesCS3B01G574700 chr1B 94.345 1061 54 6 3958 5013 25375423 25374364 0.000000e+00 1622.0
27 TraesCS3B01G574700 chr1B 94.262 1063 56 5 3958 5016 49014497 49015558 0.000000e+00 1620.0
28 TraesCS3B01G574700 chr1B 94.256 1062 51 5 3958 5009 164792097 164793158 0.000000e+00 1615.0
29 TraesCS3B01G574700 chr1B 96.919 357 11 0 2084 2440 164790375 164790731 3.370000e-167 599.0
30 TraesCS3B01G574700 chr1B 98.294 293 3 2 1 291 123430970 123431262 4.510000e-141 512.0
31 TraesCS3B01G574700 chr1B 97.603 292 5 2 1 291 208861211 208861501 3.510000e-137 499.0
32 TraesCS3B01G574700 chr1B 97.595 291 6 1 1 291 73567770 73567481 1.260000e-136 497.0
33 TraesCS3B01G574700 chr1B 97.260 292 6 2 1 291 282616195 282615905 1.630000e-135 494.0
34 TraesCS3B01G574700 chr1B 92.547 322 21 2 323 641 593145613 593145292 5.960000e-125 459.0
35 TraesCS3B01G574700 chr1B 95.631 206 8 1 643 847 613230632 613230427 4.880000e-86 329.0
36 TraesCS3B01G574700 chr1B 95.146 206 9 1 643 847 667676447 667676242 2.270000e-84 324.0
37 TraesCS3B01G574700 chr1B 96.875 32 1 0 3931 3962 462032164 462032133 3.000000e-03 54.7
38 TraesCS3B01G574700 chr1B 96.875 32 1 0 3931 3962 462113272 462113241 3.000000e-03 54.7
39 TraesCS3B01G574700 chr1B 96.875 32 1 0 3931 3962 462419277 462419246 3.000000e-03 54.7
40 TraesCS3B01G574700 chr2B 95.717 1214 49 2 2437 3648 790312313 790313525 0.000000e+00 1951.0
41 TraesCS3B01G574700 chr2B 95.387 1214 53 2 2437 3648 44631383 44632595 0.000000e+00 1929.0
42 TraesCS3B01G574700 chr2B 95.164 1220 57 1 2437 3654 772558589 772557370 0.000000e+00 1925.0
43 TraesCS3B01G574700 chr2B 95.099 1061 46 6 3958 5013 133853938 133852879 0.000000e+00 1666.0
44 TraesCS3B01G574700 chr2B 96.919 357 11 0 2084 2440 431557410 431557054 3.370000e-167 599.0
45 TraesCS3B01G574700 chr2B 93.277 357 20 3 289 641 69956961 69956605 2.080000e-144 523.0
46 TraesCS3B01G574700 chr2B 93.220 354 19 2 289 638 267308613 267308965 3.490000e-142 516.0
47 TraesCS3B01G574700 chr2B 98.282 291 4 1 1 291 255367792 255367503 5.840000e-140 508.0
48 TraesCS3B01G574700 chr2B 85.864 382 32 10 2084 2463 299879033 299879394 2.850000e-103 387.0
49 TraesCS3B01G574700 chr2B 95.588 204 8 1 642 844 483515741 483515944 6.310000e-85 326.0
50 TraesCS3B01G574700 chr2B 98.039 51 1 0 5934 5984 306883666 306883616 9.010000e-14 89.8
51 TraesCS3B01G574700 chr5B 95.634 1214 51 1 2437 3648 676392930 676394143 0.000000e+00 1947.0
52 TraesCS3B01G574700 chr5B 95.164 1220 56 2 2437 3654 659864349 659863131 0.000000e+00 1923.0
53 TraesCS3B01G574700 chr5B 94.539 1062 52 5 3958 5013 659863138 659862077 0.000000e+00 1635.0
54 TraesCS3B01G574700 chr5B 83.626 855 125 9 1246 2085 636901728 636900874 0.000000e+00 789.0
55 TraesCS3B01G574700 chr5B 97.260 292 5 3 1 291 115965725 115966014 5.880000e-135 492.0
56 TraesCS3B01G574700 chr5B 97.251 291 6 2 1 291 137357118 137357406 5.880000e-135 492.0
57 TraesCS3B01G574700 chr5B 90.808 359 27 5 289 642 351092191 351091834 5.920000e-130 475.0
58 TraesCS3B01G574700 chr5B 83.301 521 64 13 5045 5543 636901105 636900586 5.960000e-125 459.0
59 TraesCS3B01G574700 chr5B 88.451 355 39 2 289 642 3739307 3739660 1.680000e-115 427.0
60 TraesCS3B01G574700 chr5B 95.545 202 8 1 644 844 672099249 672099450 8.160000e-84 322.0
61 TraesCS3B01G574700 chr5B 83.810 315 37 4 3647 3959 605788114 605788416 2.980000e-73 287.0
62 TraesCS3B01G574700 chr5B 81.852 270 36 10 941 1202 636901991 636901727 1.420000e-51 215.0
63 TraesCS3B01G574700 chr5B 80.678 295 39 14 918 1202 636909727 636909441 5.120000e-51 213.0
64 TraesCS3B01G574700 chr5B 100.000 30 0 0 3931 3960 46821250 46821221 1.000000e-03 56.5
65 TraesCS3B01G574700 chr7B 95.473 1215 50 4 2437 3648 526850444 526851656 0.000000e+00 1934.0
66 TraesCS3B01G574700 chr7B 95.104 1062 46 5 3958 5013 21505230 21506291 0.000000e+00 1668.0
67 TraesCS3B01G574700 chr7B 94.732 1063 51 5 3958 5016 588058014 588059075 0.000000e+00 1648.0
68 TraesCS3B01G574700 chr7B 86.111 648 42 19 1 641 149004162 149004768 0.000000e+00 654.0
69 TraesCS3B01G574700 chr7B 97.199 357 10 0 2084 2440 588056303 588056659 7.230000e-169 604.0
70 TraesCS3B01G574700 chr7B 94.444 360 13 3 289 641 738973824 738973465 1.240000e-151 547.0
71 TraesCS3B01G574700 chr7B 92.179 358 24 4 286 642 680415474 680415828 2.710000e-138 503.0
72 TraesCS3B01G574700 chr7B 92.068 353 22 4 289 641 664547452 664547798 5.880000e-135 492.0
73 TraesCS3B01G574700 chr7B 90.678 354 30 3 289 641 187262624 187262273 9.900000e-128 468.0
74 TraesCS3B01G574700 chr7B 92.949 312 12 7 3650 3959 170882704 170882401 4.640000e-121 446.0
75 TraesCS3B01G574700 chr7B 83.486 327 40 5 3642 3966 78069652 78069338 6.400000e-75 292.0
76 TraesCS3B01G574700 chr7B 83.575 207 20 9 3646 3848 519995577 519995773 1.440000e-41 182.0
77 TraesCS3B01G574700 chr6B 95.019 1064 47 5 3958 5015 275027990 275026927 0.000000e+00 1666.0
78 TraesCS3B01G574700 chr6B 94.722 1061 50 5 3958 5012 256867598 256868658 0.000000e+00 1644.0
79 TraesCS3B01G574700 chr6B 86.754 536 37 23 1 507 89890788 89890258 3.410000e-157 566.0
80 TraesCS3B01G574700 chr6B 89.415 359 31 5 289 641 674662406 674662763 4.640000e-121 446.0
81 TraesCS3B01G574700 chr6B 88.983 354 33 5 289 641 647156561 647156213 3.610000e-117 433.0
82 TraesCS3B01G574700 chr6B 95.588 204 7 2 643 844 689226183 689226386 6.310000e-85 326.0
83 TraesCS3B01G574700 chr4B 94.455 1064 53 6 3958 5016 279907764 279906702 0.000000e+00 1633.0
84 TraesCS3B01G574700 chr4B 94.245 1060 52 5 3958 5013 72726750 72727804 0.000000e+00 1611.0
85 TraesCS3B01G574700 chr4B 93.697 1063 60 5 3958 5013 207807972 207806910 0.000000e+00 1585.0
86 TraesCS3B01G574700 chr4B 97.199 357 10 0 2084 2440 72725029 72725385 7.230000e-169 604.0
87 TraesCS3B01G574700 chr4B 96.639 357 12 0 2084 2440 176920534 176920890 1.570000e-165 593.0
88 TraesCS3B01G574700 chr4B 86.623 456 46 9 20 465 560796257 560795807 2.110000e-134 490.0
89 TraesCS3B01G574700 chr4B 96.575 292 7 3 1 291 549753969 549753680 1.270000e-131 481.0
90 TraesCS3B01G574700 chr4B 96.246 293 8 2 1 291 473972438 473972147 1.650000e-130 477.0
91 TraesCS3B01G574700 chr4B 96.233 292 9 2 1 291 565296794 565296504 1.650000e-130 477.0
92 TraesCS3B01G574700 chr4B 90.462 325 24 6 324 642 639720727 639721050 7.820000e-114 422.0
93 TraesCS3B01G574700 chr4B 95.074 203 9 1 643 844 465024398 465024600 1.060000e-82 318.0
94 TraesCS3B01G574700 chr4B 94.660 206 10 1 643 847 621065016 621064811 1.060000e-82 318.0
95 TraesCS3B01G574700 chr4B 97.059 34 1 0 3929 3962 652662113 652662146 2.540000e-04 58.4
96 TraesCS3B01G574700 chr4B 87.500 48 4 1 3931 3978 259909345 259909390 3.000000e-03 54.7
97 TraesCS3B01G574700 chr1A 93.874 1061 57 7 3958 5012 550850082 550851140 0.000000e+00 1592.0
98 TraesCS3B01G574700 chr1A 92.554 1061 67 10 3958 5012 226241694 226240640 0.000000e+00 1511.0
99 TraesCS3B01G574700 chr1A 92.170 1060 71 7 3958 5012 396832709 396831657 0.000000e+00 1487.0
100 TraesCS3B01G574700 chr1A 91.321 1060 82 9 3958 5013 161281558 161280505 0.000000e+00 1439.0
101 TraesCS3B01G574700 chr1A 86.981 361 35 10 290 642 166554754 166555110 4.740000e-106 396.0
102 TraesCS3B01G574700 chr1A 94.175 206 11 1 643 847 101099279 101099074 4.910000e-81 313.0
103 TraesCS3B01G574700 chr1A 95.652 46 2 0 5933 5978 276333844 276333799 2.520000e-09 75.0
104 TraesCS3B01G574700 chr2D 93.579 1059 60 6 3958 5012 103695639 103694585 0.000000e+00 1572.0
105 TraesCS3B01G574700 chr2D 88.022 359 37 4 289 642 396402668 396403025 2.810000e-113 420.0
106 TraesCS3B01G574700 chr2D 100.000 32 0 0 3931 3962 261166981 261166950 7.060000e-05 60.2
107 TraesCS3B01G574700 chr2D 100.000 32 0 0 3931 3962 261236162 261236131 7.060000e-05 60.2
108 TraesCS3B01G574700 chr5A 93.396 1060 62 6 3958 5012 273106502 273105446 0.000000e+00 1563.0
109 TraesCS3B01G574700 chr5A 90.223 358 21 7 292 641 21983540 21983189 7.710000e-124 455.0
110 TraesCS3B01G574700 chr6A 93.233 1064 61 9 3958 5013 47586333 47587393 0.000000e+00 1555.0
111 TraesCS3B01G574700 chr6A 92.918 1059 63 9 3958 5012 146763885 146762835 0.000000e+00 1530.0
112 TraesCS3B01G574700 chr6A 92.823 1059 67 8 3958 5012 468895984 468897037 0.000000e+00 1526.0
113 TraesCS3B01G574700 chr6A 92.648 1061 71 6 3958 5014 15992931 15993988 0.000000e+00 1520.0
114 TraesCS3B01G574700 chr6A 83.810 315 37 4 3647 3959 605396078 605396380 2.980000e-73 287.0
115 TraesCS3B01G574700 chrUn 93.208 1060 65 7 3958 5012 309212112 309213169 0.000000e+00 1552.0
116 TraesCS3B01G574700 chrUn 93.208 1060 65 7 3958 5012 377781117 377780060 0.000000e+00 1552.0
117 TraesCS3B01G574700 chrUn 92.669 1064 70 7 3958 5016 31151603 31152663 0.000000e+00 1526.0
118 TraesCS3B01G574700 chrUn 91.922 1077 68 11 3958 5019 322588957 322587885 0.000000e+00 1489.0
119 TraesCS3B01G574700 chrUn 89.953 1065 61 20 3958 5012 403372577 403371549 0.000000e+00 1332.0
120 TraesCS3B01G574700 chrUn 89.182 1063 97 16 3958 5012 215020976 215022028 0.000000e+00 1310.0
121 TraesCS3B01G574700 chrUn 86.803 1076 113 19 3958 5012 49918930 49919997 0.000000e+00 1173.0
122 TraesCS3B01G574700 chrUn 88.285 939 83 18 4082 5012 34710302 34709383 0.000000e+00 1099.0
123 TraesCS3B01G574700 chrUn 87.751 947 100 15 3958 4898 126501985 126502921 0.000000e+00 1092.0
124 TraesCS3B01G574700 chrUn 88.087 873 90 11 4153 5013 34308012 34307142 0.000000e+00 1024.0
125 TraesCS3B01G574700 chrUn 96.639 357 12 0 2084 2440 361515088 361514732 1.570000e-165 593.0
126 TraesCS3B01G574700 chrUn 96.639 357 12 0 2084 2440 361517149 361516793 1.570000e-165 593.0
127 TraesCS3B01G574700 chrUn 97.305 334 7 1 3958 4291 79760270 79759939 3.410000e-157 566.0
128 TraesCS3B01G574700 chrUn 95.640 344 13 1 3958 4301 465412237 465411896 9.560000e-153 551.0
129 TraesCS3B01G574700 chrUn 97.945 292 3 3 1 291 9387178 9387467 2.710000e-138 503.0
130 TraesCS3B01G574700 chrUn 96.928 293 7 1 1 291 9412746 9413038 2.110000e-134 490.0
131 TraesCS3B01G574700 chrUn 96.928 293 7 1 1 291 9418304 9418012 2.110000e-134 490.0
132 TraesCS3B01G574700 chrUn 96.233 292 9 2 1 291 9442246 9441956 1.650000e-130 477.0
133 TraesCS3B01G574700 chrUn 95.904 293 8 2 1 291 404687195 404687485 7.660000e-129 472.0
134 TraesCS3B01G574700 chrUn 95.890 292 8 4 1 291 60497139 60496851 2.750000e-128 470.0
135 TraesCS3B01G574700 chrUn 88.279 401 36 7 1 394 324408534 324408138 2.750000e-128 470.0
136 TraesCS3B01G574700 chrUn 95.890 292 8 4 1 291 340949149 340948861 2.750000e-128 470.0
137 TraesCS3B01G574700 chrUn 95.890 292 8 4 1 291 377036312 377036600 2.750000e-128 470.0
138 TraesCS3B01G574700 chrUn 89.538 325 27 6 324 642 271883888 271883565 7.880000e-109 405.0
139 TraesCS3B01G574700 chrUn 96.000 250 8 2 393 641 389955863 389956111 7.880000e-109 405.0
140 TraesCS3B01G574700 chrUn 96.296 243 9 0 3958 4200 326302066 326301824 3.660000e-107 399.0
141 TraesCS3B01G574700 chrUn 85.838 346 37 9 300 642 10734173 10734509 2.240000e-94 357.0
142 TraesCS3B01G574700 chrUn 85.838 346 37 9 300 642 10737554 10737890 2.240000e-94 357.0
143 TraesCS3B01G574700 chrUn 95.074 203 9 1 643 844 87115144 87115346 1.060000e-82 318.0
144 TraesCS3B01G574700 chrUn 94.608 204 10 1 645 847 53422713 53422510 1.370000e-81 315.0
145 TraesCS3B01G574700 chrUn 94.089 203 11 1 643 844 79735632 79735834 2.280000e-79 307.0
146 TraesCS3B01G574700 chrUn 94.089 203 11 1 643 844 95449388 95449590 2.280000e-79 307.0
147 TraesCS3B01G574700 chr3D 94.048 840 50 0 1246 2085 598097315 598096476 0.000000e+00 1275.0
148 TraesCS3B01G574700 chr3D 92.153 548 25 5 5045 5574 598096707 598096160 0.000000e+00 758.0
149 TraesCS3B01G574700 chr3D 95.280 339 14 1 864 1202 598097650 598097314 2.680000e-148 536.0
150 TraesCS3B01G574700 chr3D 88.235 357 32 6 289 642 572712355 572712704 1.010000e-112 418.0
151 TraesCS3B01G574700 chr3D 87.606 355 36 8 289 641 610060051 610059703 7.880000e-109 405.0
152 TraesCS3B01G574700 chr3D 86.849 365 33 10 289 641 197208365 197208726 1.700000e-105 394.0
153 TraesCS3B01G574700 chr3D 86.555 357 43 5 289 642 232907749 232908103 7.930000e-104 388.0
154 TraesCS3B01G574700 chr3D 94.444 180 10 0 5585 5764 598098011 598097832 1.790000e-70 278.0
155 TraesCS3B01G574700 chr3D 90.385 156 5 3 5784 5929 598097771 598097616 5.160000e-46 196.0
156 TraesCS3B01G574700 chr3D 79.688 192 32 6 1013 1199 586035809 586035998 1.480000e-26 132.0
157 TraesCS3B01G574700 chr3D 80.620 129 25 0 1010 1138 551624363 551624491 4.160000e-17 100.0
158 TraesCS3B01G574700 chr3A 93.571 840 54 0 1246 2085 728106732 728105893 0.000000e+00 1253.0
159 TraesCS3B01G574700 chr3A 90.000 840 57 11 1246 2085 728256406 728255594 0.000000e+00 1061.0
160 TraesCS3B01G574700 chr3A 91.115 529 29 5 5064 5574 728255806 728255278 0.000000e+00 701.0
161 TraesCS3B01G574700 chr3A 91.373 510 26 5 5045 5536 728106124 728105615 0.000000e+00 682.0
162 TraesCS3B01G574700 chr3A 94.690 339 16 1 864 1202 728256741 728256405 5.790000e-145 525.0
163 TraesCS3B01G574700 chr3A 92.625 339 22 2 865 1202 728107067 728106731 9.830000e-133 484.0
164 TraesCS3B01G574700 chr3A 90.341 352 29 4 291 641 24928678 24929025 2.140000e-124 457.0
165 TraesCS3B01G574700 chr3A 88.556 367 15 13 5585 5929 728257068 728256707 2.810000e-113 420.0
166 TraesCS3B01G574700 chr3A 86.685 368 19 17 5585 5929 728107393 728107033 1.330000e-101 381.0
167 TraesCS3B01G574700 chr3A 88.108 185 9 4 5931 6108 728020191 728020013 2.380000e-49 207.0
168 TraesCS3B01G574700 chr3A 88.108 185 9 4 5931 6108 728034982 728034804 2.380000e-49 207.0
169 TraesCS3B01G574700 chr3A 87.766 188 10 4 5928 6108 729689077 729689258 2.380000e-49 207.0
170 TraesCS3B01G574700 chr3A 96.970 33 0 1 5542 5574 728105556 728105525 3.000000e-03 54.7
171 TraesCS3B01G574700 chr7D 91.138 835 50 2 1245 2079 555404366 555403556 0.000000e+00 1110.0
172 TraesCS3B01G574700 chr7D 90.984 366 29 4 2081 2445 17686363 17686725 2.110000e-134 490.0
173 TraesCS3B01G574700 chr7D 92.012 338 18 6 865 1202 555404692 555404364 3.560000e-127 466.0
174 TraesCS3B01G574700 chr7D 93.857 293 18 0 5282 5574 555394701 555394409 6.000000e-120 442.0
175 TraesCS3B01G574700 chr7D 87.465 359 35 6 289 641 473131671 473131317 7.880000e-109 405.0
176 TraesCS3B01G574700 chr7D 87.052 363 34 10 289 643 414112873 414112516 1.320000e-106 398.0
177 TraesCS3B01G574700 chr7D 95.909 220 9 0 5045 5264 555403775 555403556 2.240000e-94 357.0
178 TraesCS3B01G574700 chr7D 95.146 206 9 1 643 847 1007522 1007317 2.270000e-84 324.0
179 TraesCS3B01G574700 chr7D 95.146 206 9 1 643 847 442676296 442676091 2.270000e-84 324.0
180 TraesCS3B01G574700 chr7D 94.608 204 10 1 642 844 10112156 10112359 1.370000e-81 315.0
181 TraesCS3B01G574700 chr7D 92.857 126 7 1 5731 5856 555422959 555422836 1.440000e-41 182.0
182 TraesCS3B01G574700 chr7D 90.000 50 2 3 3931 3980 143070949 143070903 1.960000e-05 62.1
183 TraesCS3B01G574700 chr7D 90.909 44 2 2 3931 3974 428504583 428504624 2.540000e-04 58.4
184 TraesCS3B01G574700 chr7D 89.130 46 4 1 3931 3975 418139139 418139094 1.000000e-03 56.5
185 TraesCS3B01G574700 chr4D 84.158 1092 125 35 3958 5012 435112682 435113762 0.000000e+00 1014.0
186 TraesCS3B01G574700 chr4D 81.860 1075 135 36 3958 5013 496567274 496568307 0.000000e+00 850.0
187 TraesCS3B01G574700 chr4D 81.130 1097 139 48 3958 5013 270010061 270008992 0.000000e+00 817.0
188 TraesCS3B01G574700 chr4D 82.090 871 119 30 4155 5009 167172981 167172132 0.000000e+00 710.0
189 TraesCS3B01G574700 chr4D 81.898 685 91 24 4344 5012 468631987 468632654 1.240000e-151 547.0
190 TraesCS3B01G574700 chr4D 83.004 506 75 10 4444 4941 418716910 418717412 1.290000e-121 448.0
191 TraesCS3B01G574700 chr4D 85.650 446 41 15 3958 4396 468631656 468632085 1.290000e-121 448.0
192 TraesCS3B01G574700 chr4D 79.935 618 93 21 4344 4941 42218278 42217672 6.050000e-115 425.0
193 TraesCS3B01G574700 chr4D 85.000 440 38 18 3958 4376 277864288 277863856 7.820000e-114 422.0
194 TraesCS3B01G574700 chr4D 92.833 293 16 5 1 291 432076258 432076547 2.810000e-113 420.0
195 TraesCS3B01G574700 chr4D 92.230 296 15 6 1 291 9934687 9934395 4.710000e-111 412.0
196 TraesCS3B01G574700 chr4D 92.256 297 14 5 1 291 369985874 369985581 4.710000e-111 412.0
197 TraesCS3B01G574700 chr4D 93.214 280 12 4 364 643 500118354 500118626 7.880000e-109 405.0
198 TraesCS3B01G574700 chr4D 91.582 297 17 4 1 291 183298276 183298570 2.830000e-108 403.0
199 TraesCS3B01G574700 chr4D 91.611 298 15 5 1 291 411167370 411167076 2.830000e-108 403.0
200 TraesCS3B01G574700 chr4D 86.327 373 38 6 289 649 141767315 141766944 1.700000e-105 394.0
201 TraesCS3B01G574700 chr4D 85.714 364 38 12 289 641 248234166 248234526 7.990000e-99 372.0
202 TraesCS3B01G574700 chr4D 94.089 203 11 1 643 844 416580776 416580978 2.280000e-79 307.0
203 TraesCS3B01G574700 chr4D 93.689 206 12 1 643 847 488258973 488258768 2.280000e-79 307.0
204 TraesCS3B01G574700 chr4D 93.596 203 12 1 646 847 483855891 483855689 1.060000e-77 302.0
205 TraesCS3B01G574700 chr4D 93.596 203 12 1 643 844 505822007 505822209 1.060000e-77 302.0
206 TraesCS3B01G574700 chr4D 75.778 450 91 16 4573 5012 274444628 274444187 1.840000e-50 211.0
207 TraesCS3B01G574700 chr4D 95.000 40 2 0 5934 5973 218329483 218329522 5.460000e-06 63.9
208 TraesCS3B01G574700 chr4D 100.000 30 0 0 3931 3960 412531962 412531991 1.000000e-03 56.5
209 TraesCS3B01G574700 chr4D 96.875 32 1 0 3931 3962 397930473 397930504 3.000000e-03 54.7
210 TraesCS3B01G574700 chr6D 83.395 1084 132 36 3958 5012 69569342 69568278 0.000000e+00 961.0
211 TraesCS3B01G574700 chr6D 82.807 1076 134 37 3958 5013 384640706 384639662 0.000000e+00 915.0
212 TraesCS3B01G574700 chr6D 82.424 1081 134 39 3958 5013 294979396 294978347 0.000000e+00 893.0
213 TraesCS3B01G574700 chr6D 82.397 1068 141 33 3959 5012 167220266 167221300 0.000000e+00 887.0
214 TraesCS3B01G574700 chr6D 82.276 1072 131 40 3958 5019 72922517 72923539 0.000000e+00 872.0
215 TraesCS3B01G574700 chr6D 80.522 1073 126 50 3958 5012 221890477 221889470 0.000000e+00 747.0
216 TraesCS3B01G574700 chr6D 82.664 871 109 31 4153 5012 175169759 175168920 0.000000e+00 734.0
217 TraesCS3B01G574700 chr6D 79.483 1121 141 51 3937 5014 27756105 27757179 0.000000e+00 713.0
218 TraesCS3B01G574700 chr6D 85.871 637 74 14 4388 5012 468536554 468537186 0.000000e+00 664.0
219 TraesCS3B01G574700 chr6D 96.639 357 12 0 2084 2440 64922392 64922748 1.570000e-165 593.0
220 TraesCS3B01G574700 chr6D 84.509 581 75 14 4445 5016 4036366 4035792 1.590000e-155 560.0
221 TraesCS3B01G574700 chr6D 80.559 751 111 27 4276 5013 143730969 143731697 4.450000e-151 545.0
222 TraesCS3B01G574700 chr6D 89.835 423 23 9 3958 4364 468535679 468536097 5.790000e-145 525.0
223 TraesCS3B01G574700 chr6D 84.335 549 39 25 1 525 4892973 4893498 1.630000e-135 494.0
224 TraesCS3B01G574700 chr6D 81.790 637 71 28 3958 4583 430608238 430608840 5.880000e-135 492.0
225 TraesCS3B01G574700 chr6D 88.161 397 27 10 1 379 470253839 470253445 7.710000e-124 455.0
226 TraesCS3B01G574700 chr6D 91.809 293 20 4 1 291 441365167 441365457 7.880000e-109 405.0
227 TraesCS3B01G574700 chr6D 87.222 360 34 10 289 641 118083838 118084192 3.660000e-107 399.0
228 TraesCS3B01G574700 chr6D 91.525 295 18 5 1 291 179273344 179273635 3.660000e-107 399.0
229 TraesCS3B01G574700 chr6D 87.187 359 37 5 289 641 410198229 410198584 3.660000e-107 399.0
230 TraesCS3B01G574700 chr6D 91.497 294 18 6 1 289 28166361 28166652 1.320000e-106 398.0
231 TraesCS3B01G574700 chr6D 91.468 293 19 5 1 291 28401404 28401692 1.320000e-106 398.0
232 TraesCS3B01G574700 chr6D 91.554 296 14 7 1 291 98581479 98581190 1.320000e-106 398.0
233 TraesCS3B01G574700 chr6D 91.156 294 22 4 1 291 50638624 50638332 4.740000e-106 396.0
234 TraesCS3B01G574700 chr6D 91.246 297 17 7 1 291 136151866 136151573 4.740000e-106 396.0
235 TraesCS3B01G574700 chr6D 86.427 361 42 3 289 642 468303834 468303474 7.930000e-104 388.0
236 TraesCS3B01G574700 chr6D 86.389 360 38 9 289 641 40982379 40982734 3.690000e-102 383.0
237 TraesCS3B01G574700 chr6D 86.389 360 36 10 289 641 273726069 273725716 1.330000e-101 381.0
238 TraesCS3B01G574700 chr6D 82.767 412 43 19 3937 4327 333364013 333364417 6.260000e-90 342.0
239 TraesCS3B01G574700 chr6D 85.672 335 32 13 317 640 2056058 2055729 8.100000e-89 339.0
240 TraesCS3B01G574700 chr6D 83.287 359 53 4 289 641 296530518 296530161 2.270000e-84 324.0
241 TraesCS3B01G574700 chr6D 84.661 339 35 14 317 643 409131971 409131638 8.160000e-84 322.0
242 TraesCS3B01G574700 chr6D 94.581 203 10 1 643 844 175150286 175150488 4.910000e-81 313.0
243 TraesCS3B01G574700 chr6D 88.716 257 23 6 392 645 430202470 430202217 6.350000e-80 309.0
244 TraesCS3B01G574700 chr6D 93.689 206 12 1 643 847 59193761 59193556 2.280000e-79 307.0
245 TraesCS3B01G574700 chr6D 87.132 272 30 4 371 641 182167013 182167280 2.960000e-78 303.0
246 TraesCS3B01G574700 chr6D 91.781 219 15 3 4159 4376 58558440 58558656 1.060000e-77 302.0
247 TraesCS3B01G574700 chr6D 93.204 206 13 1 643 847 355881892 355881687 1.060000e-77 302.0
248 TraesCS3B01G574700 chr6D 92.788 208 14 1 638 844 336316988 336316781 3.820000e-77 300.0
249 TraesCS3B01G574700 chr6D 93.596 203 10 2 643 844 386077718 386077918 3.820000e-77 300.0
250 TraesCS3B01G574700 chr6D 92.754 207 14 1 643 848 463197666 463197872 1.380000e-76 298.0
251 TraesCS3B01G574700 chr6D 95.187 187 9 0 661 847 34739314 34739128 4.950000e-76 296.0
252 TraesCS3B01G574700 chr6D 92.718 206 13 2 643 847 58745816 58745612 4.950000e-76 296.0
253 TraesCS3B01G574700 chr6D 93.103 203 13 1 643 844 126623579 126623781 4.950000e-76 296.0
254 TraesCS3B01G574700 chr6D 93.103 203 13 1 643 844 144465786 144465988 4.950000e-76 296.0
255 TraesCS3B01G574700 chr6D 88.532 218 13 4 4158 4375 4036573 4036368 3.020000e-63 254.0
256 TraesCS3B01G574700 chr6D 80.112 357 43 10 289 641 244695834 244696166 2.350000e-59 241.0
257 TraesCS3B01G574700 chr6D 79.009 343 52 13 4270 4596 386816783 386816445 3.960000e-52 217.0
258 TraesCS3B01G574700 chr6D 80.159 252 36 13 4393 4636 80937327 80937082 6.720000e-40 176.0
259 TraesCS3B01G574700 chr6D 76.786 168 33 6 4848 5012 12333067 12333231 9.010000e-14 89.8
260 TraesCS3B01G574700 chr6D 75.625 160 33 4 4857 5013 160290368 160290212 2.520000e-09 75.0
261 TraesCS3B01G574700 chr6D 91.304 46 0 3 4970 5012 240625439 240625395 7.060000e-05 60.2
262 TraesCS3B01G574700 chr6D 94.444 36 1 1 3931 3966 299469063 299469097 3.000000e-03 54.7
263 TraesCS3B01G574700 chr6D 96.875 32 1 0 3931 3962 351639839 351639870 3.000000e-03 54.7
264 TraesCS3B01G574700 chr5D 82.319 854 129 12 1246 2085 506163095 506162250 0.000000e+00 721.0
265 TraesCS3B01G574700 chr5D 82.524 515 73 10 5045 5543 506162475 506161962 2.790000e-118 436.0
266 TraesCS3B01G574700 chr5D 86.630 359 43 3 2086 2440 509616996 509617353 6.130000e-105 392.0
267 TraesCS3B01G574700 chr5D 86.111 360 44 5 2091 2445 560542074 560541716 3.690000e-102 383.0
268 TraesCS3B01G574700 chr5D 95.074 203 9 1 646 847 48312021 48311819 1.060000e-82 318.0
269 TraesCS3B01G574700 chr5D 94.581 203 10 1 643 844 458909227 458909429 4.910000e-81 313.0
270 TraesCS3B01G574700 chr5D 94.581 203 10 1 643 844 486145811 486146013 4.910000e-81 313.0
271 TraesCS3B01G574700 chr5D 79.672 305 38 14 913 1202 506163389 506163094 1.430000e-46 198.0
272 TraesCS3B01G574700 chr5D 100.000 30 0 0 3931 3960 173810619 173810590 1.000000e-03 56.5
273 TraesCS3B01G574700 chr5D 94.444 36 1 1 3931 3966 273976107 273976073 3.000000e-03 54.7
274 TraesCS3B01G574700 chr7A 92.493 373 22 5 2084 2451 625235910 625236281 4.480000e-146 529.0
275 TraesCS3B01G574700 chr7A 91.317 357 26 4 289 641 643938598 643938243 3.540000e-132 483.0
276 TraesCS3B01G574700 chr4A 89.636 357 33 4 289 641 712309324 712308968 9.970000e-123 451.0
277 TraesCS3B01G574700 chr2A 89.326 356 34 4 289 641 71499543 71499189 1.670000e-120 444.0
278 TraesCS3B01G574700 chr2A 84.459 444 52 14 71 508 753381347 753380915 7.820000e-114 422.0
279 TraesCS3B01G574700 chr2A 85.479 365 46 5 2086 2445 60004413 60004775 2.220000e-99 374.0
280 TraesCS3B01G574700 chr1D 87.324 355 39 5 289 641 232863233 232863583 1.020000e-107 401.0
281 TraesCS3B01G574700 chr1D 86.630 359 40 4 289 641 172717330 172716974 2.210000e-104 390.0
282 TraesCS3B01G574700 chr1D 86.740 362 31 13 289 641 287786810 287787163 2.850000e-103 387.0
283 TraesCS3B01G574700 chr1D 94.581 203 10 1 643 844 337959580 337959782 4.910000e-81 313.0
284 TraesCS3B01G574700 chr1D 94.175 206 11 1 643 847 417586072 417585867 4.910000e-81 313.0
285 TraesCS3B01G574700 chr1D 96.970 33 1 0 3931 3963 446708524 446708556 1.000000e-03 56.5
286 TraesCS3B01G574700 chr1D 96.875 32 1 0 3931 3962 167820204 167820173 3.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G574700 chr3B 805036765 805043287 6522 True 12046.000000 12046 100.000000 1 6523 1 chr3B.!!$R6 6522
1 TraesCS3B01G574700 chr3B 436215311 436216368 1057 False 1642.000000 1642 94.707000 3958 5013 1 chr3B.!!$F3 1055
2 TraesCS3B01G574700 chr3B 615726968 615728028 1060 False 1639.000000 1639 94.628000 3958 5013 1 chr3B.!!$F4 1055
3 TraesCS3B01G574700 chr3B 805021200 805022598 1398 True 1275.500000 2368 93.051500 1933 6523 2 chr3B.!!$R7 4590
4 TraesCS3B01G574700 chr3B 482730615 482732337 1722 False 1275.000000 1951 96.318000 2084 3648 2 chr3B.!!$F8 1564
5 TraesCS3B01G574700 chr3B 782677576 782678421 845 False 527.000000 527 78.447000 1246 2085 1 chr3B.!!$F7 839
6 TraesCS3B01G574700 chr3B 805076735 805077299 564 True 483.500000 682 97.119500 5928 6523 2 chr3B.!!$R9 595
7 TraesCS3B01G574700 chr3B 732885227 732886067 840 True 414.000000 414 76.107000 1246 2083 1 chr3B.!!$R5 837
8 TraesCS3B01G574700 chr3B 805038018 805041434 3416 True 296.000000 296 90.086000 1854 5270 2 chr3B.!!$R8 3416
9 TraesCS3B01G574700 chr1B 158413622 158414842 1220 True 1947.000000 1947 95.495000 2437 3654 1 chr1B.!!$R3 1217
10 TraesCS3B01G574700 chr1B 24180089 24182351 2262 True 1799.500000 1964 95.232500 2437 5013 2 chr1B.!!$R12 2576
11 TraesCS3B01G574700 chr1B 193553143 193554201 1058 False 1664.000000 1664 95.094000 3958 5012 1 chr1B.!!$F3 1054
12 TraesCS3B01G574700 chr1B 495638795 495639855 1060 True 1655.000000 1655 94.910000 3958 5012 1 chr1B.!!$R8 1054
13 TraesCS3B01G574700 chr1B 25374364 25375423 1059 True 1622.000000 1622 94.345000 3958 5013 1 chr1B.!!$R1 1055
14 TraesCS3B01G574700 chr1B 49014497 49015558 1061 False 1620.000000 1620 94.262000 3958 5016 1 chr1B.!!$F1 1058
15 TraesCS3B01G574700 chr1B 164790375 164793158 2783 False 1107.000000 1615 95.587500 2084 5009 2 chr1B.!!$F5 2925
16 TraesCS3B01G574700 chr2B 790312313 790313525 1212 False 1951.000000 1951 95.717000 2437 3648 1 chr2B.!!$F5 1211
17 TraesCS3B01G574700 chr2B 44631383 44632595 1212 False 1929.000000 1929 95.387000 2437 3648 1 chr2B.!!$F1 1211
18 TraesCS3B01G574700 chr2B 772557370 772558589 1219 True 1925.000000 1925 95.164000 2437 3654 1 chr2B.!!$R6 1217
19 TraesCS3B01G574700 chr2B 133852879 133853938 1059 True 1666.000000 1666 95.099000 3958 5013 1 chr2B.!!$R2 1055
20 TraesCS3B01G574700 chr5B 676392930 676394143 1213 False 1947.000000 1947 95.634000 2437 3648 1 chr5B.!!$F6 1211
21 TraesCS3B01G574700 chr5B 659862077 659864349 2272 True 1779.000000 1923 94.851500 2437 5013 2 chr5B.!!$R5 2576
22 TraesCS3B01G574700 chr5B 636900586 636901991 1405 True 487.666667 789 82.926333 941 5543 3 chr5B.!!$R4 4602
23 TraesCS3B01G574700 chr7B 526850444 526851656 1212 False 1934.000000 1934 95.473000 2437 3648 1 chr7B.!!$F4 1211
24 TraesCS3B01G574700 chr7B 21505230 21506291 1061 False 1668.000000 1668 95.104000 3958 5013 1 chr7B.!!$F1 1055
25 TraesCS3B01G574700 chr7B 588056303 588059075 2772 False 1126.000000 1648 95.965500 2084 5016 2 chr7B.!!$F7 2932
26 TraesCS3B01G574700 chr7B 149004162 149004768 606 False 654.000000 654 86.111000 1 641 1 chr7B.!!$F2 640
27 TraesCS3B01G574700 chr6B 275026927 275027990 1063 True 1666.000000 1666 95.019000 3958 5015 1 chr6B.!!$R2 1057
28 TraesCS3B01G574700 chr6B 256867598 256868658 1060 False 1644.000000 1644 94.722000 3958 5012 1 chr6B.!!$F1 1054
29 TraesCS3B01G574700 chr6B 89890258 89890788 530 True 566.000000 566 86.754000 1 507 1 chr6B.!!$R1 506
30 TraesCS3B01G574700 chr4B 279906702 279907764 1062 True 1633.000000 1633 94.455000 3958 5016 1 chr4B.!!$R2 1058
31 TraesCS3B01G574700 chr4B 207806910 207807972 1062 True 1585.000000 1585 93.697000 3958 5013 1 chr4B.!!$R1 1055
32 TraesCS3B01G574700 chr4B 72725029 72727804 2775 False 1107.500000 1611 95.722000 2084 5013 2 chr4B.!!$F6 2929
33 TraesCS3B01G574700 chr1A 550850082 550851140 1058 False 1592.000000 1592 93.874000 3958 5012 1 chr1A.!!$F2 1054
34 TraesCS3B01G574700 chr1A 226240640 226241694 1054 True 1511.000000 1511 92.554000 3958 5012 1 chr1A.!!$R3 1054
35 TraesCS3B01G574700 chr1A 396831657 396832709 1052 True 1487.000000 1487 92.170000 3958 5012 1 chr1A.!!$R5 1054
36 TraesCS3B01G574700 chr1A 161280505 161281558 1053 True 1439.000000 1439 91.321000 3958 5013 1 chr1A.!!$R2 1055
37 TraesCS3B01G574700 chr2D 103694585 103695639 1054 True 1572.000000 1572 93.579000 3958 5012 1 chr2D.!!$R1 1054
38 TraesCS3B01G574700 chr5A 273105446 273106502 1056 True 1563.000000 1563 93.396000 3958 5012 1 chr5A.!!$R2 1054
39 TraesCS3B01G574700 chr6A 47586333 47587393 1060 False 1555.000000 1555 93.233000 3958 5013 1 chr6A.!!$F2 1055
40 TraesCS3B01G574700 chr6A 146762835 146763885 1050 True 1530.000000 1530 92.918000 3958 5012 1 chr6A.!!$R1 1054
41 TraesCS3B01G574700 chr6A 468895984 468897037 1053 False 1526.000000 1526 92.823000 3958 5012 1 chr6A.!!$F3 1054
42 TraesCS3B01G574700 chr6A 15992931 15993988 1057 False 1520.000000 1520 92.648000 3958 5014 1 chr6A.!!$F1 1056
43 TraesCS3B01G574700 chrUn 309212112 309213169 1057 False 1552.000000 1552 93.208000 3958 5012 1 chrUn.!!$F10 1054
44 TraesCS3B01G574700 chrUn 377780060 377781117 1057 True 1552.000000 1552 93.208000 3958 5012 1 chrUn.!!$R13 1054
45 TraesCS3B01G574700 chrUn 31151603 31152663 1060 False 1526.000000 1526 92.669000 3958 5016 1 chrUn.!!$F3 1058
46 TraesCS3B01G574700 chrUn 322587885 322588957 1072 True 1489.000000 1489 91.922000 3958 5019 1 chrUn.!!$R9 1061
47 TraesCS3B01G574700 chrUn 403371549 403372577 1028 True 1332.000000 1332 89.953000 3958 5012 1 chrUn.!!$R14 1054
48 TraesCS3B01G574700 chrUn 215020976 215022028 1052 False 1310.000000 1310 89.182000 3958 5012 1 chrUn.!!$F9 1054
49 TraesCS3B01G574700 chrUn 49918930 49919997 1067 False 1173.000000 1173 86.803000 3958 5012 1 chrUn.!!$F4 1054
50 TraesCS3B01G574700 chrUn 34709383 34710302 919 True 1099.000000 1099 88.285000 4082 5012 1 chrUn.!!$R4 930
51 TraesCS3B01G574700 chrUn 126501985 126502921 936 False 1092.000000 1092 87.751000 3958 4898 1 chrUn.!!$F8 940
52 TraesCS3B01G574700 chrUn 34307142 34308012 870 True 1024.000000 1024 88.087000 4153 5013 1 chrUn.!!$R3 860
53 TraesCS3B01G574700 chrUn 361514732 361517149 2417 True 593.000000 593 96.639000 2084 2440 2 chrUn.!!$R16 356
54 TraesCS3B01G574700 chrUn 10734173 10737890 3717 False 357.000000 357 85.838000 300 642 2 chrUn.!!$F14 342
55 TraesCS3B01G574700 chr3D 598096160 598098011 1851 True 608.600000 1275 93.262000 864 5929 5 chr3D.!!$R2 5065
56 TraesCS3B01G574700 chr3A 728255278 728257068 1790 True 676.750000 1061 91.090250 864 5929 4 chr3A.!!$R4 5065
57 TraesCS3B01G574700 chr3A 728105525 728107393 1868 True 570.940000 1253 92.244800 865 5929 5 chr3A.!!$R3 5064
58 TraesCS3B01G574700 chr7D 555403556 555404692 1136 True 644.333333 1110 93.019667 865 5264 3 chr7D.!!$R9 4399
59 TraesCS3B01G574700 chr4D 435112682 435113762 1080 False 1014.000000 1014 84.158000 3958 5012 1 chr4D.!!$F9 1054
60 TraesCS3B01G574700 chr4D 496567274 496568307 1033 False 850.000000 850 81.860000 3958 5013 1 chr4D.!!$F10 1055
61 TraesCS3B01G574700 chr4D 270008992 270010061 1069 True 817.000000 817 81.130000 3958 5013 1 chr4D.!!$R5 1055
62 TraesCS3B01G574700 chr4D 167172132 167172981 849 True 710.000000 710 82.090000 4155 5009 1 chr4D.!!$R4 854
63 TraesCS3B01G574700 chr4D 468631656 468632654 998 False 497.500000 547 83.774000 3958 5012 2 chr4D.!!$F13 1054
64 TraesCS3B01G574700 chr4D 418716910 418717412 502 False 448.000000 448 83.004000 4444 4941 1 chr4D.!!$F7 497
65 TraesCS3B01G574700 chr4D 42217672 42218278 606 True 425.000000 425 79.935000 4344 4941 1 chr4D.!!$R2 597
66 TraesCS3B01G574700 chr6D 69568278 69569342 1064 True 961.000000 961 83.395000 3958 5012 1 chr6D.!!$R6 1054
67 TraesCS3B01G574700 chr6D 384639662 384640706 1044 True 915.000000 915 82.807000 3958 5013 1 chr6D.!!$R19 1055
68 TraesCS3B01G574700 chr6D 294978347 294979396 1049 True 893.000000 893 82.424000 3958 5013 1 chr6D.!!$R15 1055
69 TraesCS3B01G574700 chr6D 167220266 167221300 1034 False 887.000000 887 82.397000 3959 5012 1 chr6D.!!$F14 1053
70 TraesCS3B01G574700 chr6D 72922517 72923539 1022 False 872.000000 872 82.276000 3958 5019 1 chr6D.!!$F9 1061
71 TraesCS3B01G574700 chr6D 221889470 221890477 1007 True 747.000000 747 80.522000 3958 5012 1 chr6D.!!$R12 1054
72 TraesCS3B01G574700 chr6D 175168920 175169759 839 True 734.000000 734 82.664000 4153 5012 1 chr6D.!!$R11 859
73 TraesCS3B01G574700 chr6D 27756105 27757179 1074 False 713.000000 713 79.483000 3937 5014 1 chr6D.!!$F3 1077
74 TraesCS3B01G574700 chr6D 468535679 468537186 1507 False 594.500000 664 87.853000 3958 5012 2 chr6D.!!$F27 1054
75 TraesCS3B01G574700 chr6D 143730969 143731697 728 False 545.000000 545 80.559000 4276 5013 1 chr6D.!!$F12 737
76 TraesCS3B01G574700 chr6D 4892973 4893498 525 False 494.000000 494 84.335000 1 525 1 chr6D.!!$F1 524
77 TraesCS3B01G574700 chr6D 430608238 430608840 602 False 492.000000 492 81.790000 3958 4583 1 chr6D.!!$F24 625
78 TraesCS3B01G574700 chr6D 4035792 4036573 781 True 407.000000 560 86.520500 4158 5016 2 chr6D.!!$R25 858
79 TraesCS3B01G574700 chr5D 506161962 506163389 1427 True 451.666667 721 81.505000 913 5543 3 chr5D.!!$R5 4630

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
756 4171 0.038251 CCAGAAGTGCACGACAGCTA 60.038 55.000 12.01 0.0 34.99 3.32 F
762 4177 0.173481 GTGCACGACAGCTATGAGGA 59.827 55.000 0.00 0.0 34.99 3.71 F
1374 4811 0.243907 ACCTCACCATCGACGACTTG 59.756 55.000 0.00 0.0 0.00 3.16 F
1447 4884 1.031029 AGACTACTCGCCTTCCGTCC 61.031 60.000 0.00 0.0 38.35 4.79 F
1683 5138 1.075659 GGTCTTCTGCCCCAAGCTT 59.924 57.895 0.00 0.0 44.23 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1722 5186 0.038159 CCTTGGAGACGACGAAAGCT 60.038 55.000 0.00 0.00 0.00 3.74 R
1747 5211 0.671781 GCACGCTTGAGAGTGGTGAT 60.672 55.000 15.07 0.00 44.35 3.06 R
5349 10267 0.393808 CCCCATCCGAATTCCACGTT 60.394 55.000 0.00 0.00 0.00 3.99 R
5414 10332 1.683385 CCGCTGTCCATCAGATAGACA 59.317 52.381 10.79 10.79 46.27 3.41 R
5578 10549 6.530120 TCACAACTTAAAATCTAGCAGTGGA 58.470 36.000 0.00 0.00 0.00 4.02 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 87 6.435428 CGCCACTAGTAACAGAAAAACAAAT 58.565 36.000 0.00 0.00 0.00 2.32
215 223 7.553334 TGTCCTAGACATCAACAAGGTATAAC 58.447 38.462 0.00 0.00 37.67 1.89
291 299 4.508662 GGGTTGGATAGAACTCTGAAGTG 58.491 47.826 0.00 0.00 35.36 3.16
293 301 3.510388 TGGATAGAACTCTGAAGTGCG 57.490 47.619 0.00 0.00 36.01 5.34
294 302 3.089284 TGGATAGAACTCTGAAGTGCGA 58.911 45.455 0.00 0.00 36.01 5.10
296 304 4.160439 TGGATAGAACTCTGAAGTGCGATT 59.840 41.667 0.00 0.00 36.01 3.34
297 305 5.112686 GGATAGAACTCTGAAGTGCGATTT 58.887 41.667 0.00 0.00 36.01 2.17
298 306 5.006165 GGATAGAACTCTGAAGTGCGATTTG 59.994 44.000 0.00 0.00 36.01 2.32
323 331 8.768019 TGACTTGAGATTAAGCATATTGATTCG 58.232 33.333 0.00 0.00 0.00 3.34
341 349 6.816136 TGATTCGAGATTAAGCCATAGTGAA 58.184 36.000 0.00 0.00 0.00 3.18
345 353 4.747108 CGAGATTAAGCCATAGTGAACTGG 59.253 45.833 0.00 0.00 35.53 4.00
357 3746 7.628580 GCCATAGTGAACTGGGATTAAGAAAAC 60.629 40.741 7.06 0.00 32.90 2.43
545 3960 1.128200 ACCATAGGTGCGCCATTAGA 58.872 50.000 20.59 0.00 32.98 2.10
600 4015 2.128035 CTGTAGTGCGCCATTAGTAGC 58.872 52.381 4.18 0.00 0.00 3.58
614 4029 0.949105 AGTAGCGAAAACAGGTGCGG 60.949 55.000 0.00 0.00 0.00 5.69
631 4046 2.658548 GGCACTAGCAGCCCTTTTT 58.341 52.632 14.34 0.00 46.50 1.94
642 4057 4.041691 AGCAGCCCTTTTTCTAGTAGTGAA 59.958 41.667 0.00 0.00 0.00 3.18
643 4058 4.760204 GCAGCCCTTTTTCTAGTAGTGAAA 59.240 41.667 0.00 0.00 0.00 2.69
644 4059 5.240844 GCAGCCCTTTTTCTAGTAGTGAAAA 59.759 40.000 0.00 5.75 40.34 2.29
645 4060 6.568653 GCAGCCCTTTTTCTAGTAGTGAAAAG 60.569 42.308 21.58 21.58 42.12 2.27
646 4061 5.473846 AGCCCTTTTTCTAGTAGTGAAAAGC 59.526 40.000 22.36 17.34 42.12 3.51
647 4062 5.473846 GCCCTTTTTCTAGTAGTGAAAAGCT 59.526 40.000 22.36 0.00 42.12 3.74
648 4063 6.016192 GCCCTTTTTCTAGTAGTGAAAAGCTT 60.016 38.462 22.36 0.00 42.12 3.74
649 4064 7.470147 GCCCTTTTTCTAGTAGTGAAAAGCTTT 60.470 37.037 22.36 5.69 42.12 3.51
650 4065 8.414003 CCCTTTTTCTAGTAGTGAAAAGCTTTT 58.586 33.333 24.08 24.08 42.12 2.27
655 4070 8.475331 TTCTAGTAGTGAAAAGCTTTTATCCG 57.525 34.615 23.90 7.98 0.00 4.18
656 4071 7.833786 TCTAGTAGTGAAAAGCTTTTATCCGA 58.166 34.615 23.90 8.67 0.00 4.55
657 4072 8.308931 TCTAGTAGTGAAAAGCTTTTATCCGAA 58.691 33.333 23.90 5.85 0.00 4.30
658 4073 7.923414 AGTAGTGAAAAGCTTTTATCCGAAT 57.077 32.000 23.90 8.03 0.00 3.34
660 4075 9.099454 AGTAGTGAAAAGCTTTTATCCGAATAG 57.901 33.333 23.90 0.00 0.00 1.73
661 4076 7.923414 AGTGAAAAGCTTTTATCCGAATAGT 57.077 32.000 23.90 0.00 0.00 2.12
662 4077 7.752695 AGTGAAAAGCTTTTATCCGAATAGTG 58.247 34.615 23.90 0.00 0.00 2.74
663 4078 7.606456 AGTGAAAAGCTTTTATCCGAATAGTGA 59.394 33.333 23.90 0.00 0.00 3.41
664 4079 8.234546 GTGAAAAGCTTTTATCCGAATAGTGAA 58.765 33.333 23.90 0.00 0.00 3.18
665 4080 8.956426 TGAAAAGCTTTTATCCGAATAGTGAAT 58.044 29.630 23.90 0.00 0.00 2.57
666 4081 9.788960 GAAAAGCTTTTATCCGAATAGTGAATT 57.211 29.630 23.90 0.00 0.00 2.17
667 4082 9.788960 AAAAGCTTTTATCCGAATAGTGAATTC 57.211 29.630 22.70 0.00 40.63 2.17
668 4083 7.497925 AGCTTTTATCCGAATAGTGAATTCC 57.502 36.000 2.27 0.00 40.91 3.01
669 4084 7.054124 AGCTTTTATCCGAATAGTGAATTCCA 58.946 34.615 2.27 0.00 40.91 3.53
670 4085 7.721399 AGCTTTTATCCGAATAGTGAATTCCAT 59.279 33.333 2.27 0.00 40.91 3.41
671 4086 8.017946 GCTTTTATCCGAATAGTGAATTCCATC 58.982 37.037 2.27 0.00 40.91 3.51
672 4087 7.979444 TTTATCCGAATAGTGAATTCCATCC 57.021 36.000 2.27 0.00 40.91 3.51
673 4088 3.990092 TCCGAATAGTGAATTCCATCCG 58.010 45.455 2.27 0.00 40.91 4.18
674 4089 3.067106 CCGAATAGTGAATTCCATCCGG 58.933 50.000 2.27 0.00 40.91 5.14
675 4090 3.067106 CGAATAGTGAATTCCATCCGGG 58.933 50.000 0.00 0.00 40.91 5.73
676 4091 3.244078 CGAATAGTGAATTCCATCCGGGA 60.244 47.826 0.00 0.00 46.61 5.14
683 4098 3.612251 TCCATCCGGGAGTTCGAC 58.388 61.111 0.00 0.00 42.15 4.20
684 4099 1.304630 TCCATCCGGGAGTTCGACA 60.305 57.895 0.00 0.00 42.15 4.35
685 4100 0.901114 TCCATCCGGGAGTTCGACAA 60.901 55.000 0.00 0.00 42.15 3.18
686 4101 0.739813 CCATCCGGGAGTTCGACAAC 60.740 60.000 0.00 0.00 40.01 3.32
687 4102 0.246635 CATCCGGGAGTTCGACAACT 59.753 55.000 0.00 0.00 46.21 3.16
688 4103 1.475280 CATCCGGGAGTTCGACAACTA 59.525 52.381 0.00 0.00 43.37 2.24
689 4104 0.883833 TCCGGGAGTTCGACAACTAC 59.116 55.000 0.00 0.00 43.37 2.73
690 4105 0.886563 CCGGGAGTTCGACAACTACT 59.113 55.000 0.00 0.00 43.37 2.57
691 4106 1.271656 CCGGGAGTTCGACAACTACTT 59.728 52.381 0.00 0.00 43.37 2.24
692 4107 2.593257 CGGGAGTTCGACAACTACTTC 58.407 52.381 0.00 0.00 43.37 3.01
693 4108 2.030540 CGGGAGTTCGACAACTACTTCA 60.031 50.000 0.00 0.00 43.37 3.02
694 4109 3.551454 CGGGAGTTCGACAACTACTTCAA 60.551 47.826 0.00 0.00 43.37 2.69
695 4110 3.988517 GGGAGTTCGACAACTACTTCAAG 59.011 47.826 0.00 0.00 43.37 3.02
696 4111 4.501058 GGGAGTTCGACAACTACTTCAAGT 60.501 45.833 0.00 0.00 43.37 3.16
697 4112 4.444720 GGAGTTCGACAACTACTTCAAGTG 59.555 45.833 0.00 0.00 43.37 3.16
698 4113 3.802685 AGTTCGACAACTACTTCAAGTGC 59.197 43.478 0.00 0.00 41.39 4.40
699 4114 3.446310 TCGACAACTACTTCAAGTGCA 57.554 42.857 0.00 0.00 0.00 4.57
700 4115 3.787785 TCGACAACTACTTCAAGTGCAA 58.212 40.909 0.00 0.00 0.00 4.08
701 4116 3.802139 TCGACAACTACTTCAAGTGCAAG 59.198 43.478 0.00 0.00 0.00 4.01
702 4117 3.802139 CGACAACTACTTCAAGTGCAAGA 59.198 43.478 0.00 0.00 0.00 3.02
703 4118 4.270084 CGACAACTACTTCAAGTGCAAGAA 59.730 41.667 0.00 0.00 0.00 2.52
704 4119 5.557136 CGACAACTACTTCAAGTGCAAGAAG 60.557 44.000 18.13 18.13 45.14 2.85
705 4120 4.576463 ACAACTACTTCAAGTGCAAGAAGG 59.424 41.667 21.64 11.84 44.20 3.46
706 4121 4.689612 ACTACTTCAAGTGCAAGAAGGA 57.310 40.909 21.64 15.72 44.20 3.36
707 4122 5.234466 ACTACTTCAAGTGCAAGAAGGAT 57.766 39.130 21.64 9.87 44.20 3.24
708 4123 5.625150 ACTACTTCAAGTGCAAGAAGGATT 58.375 37.500 21.64 10.38 44.20 3.01
709 4124 4.843220 ACTTCAAGTGCAAGAAGGATTG 57.157 40.909 21.64 6.40 44.20 2.67
716 4131 1.508088 CAAGAAGGATTGCACCGGC 59.492 57.895 0.00 0.00 41.68 6.13
726 4141 2.672996 GCACCGGCACACTTGGAT 60.673 61.111 0.00 0.00 40.72 3.41
727 4142 2.268076 GCACCGGCACACTTGGATT 61.268 57.895 0.00 0.00 40.72 3.01
728 4143 1.875963 CACCGGCACACTTGGATTC 59.124 57.895 0.00 0.00 0.00 2.52
729 4144 0.888736 CACCGGCACACTTGGATTCA 60.889 55.000 0.00 0.00 0.00 2.57
730 4145 0.889186 ACCGGCACACTTGGATTCAC 60.889 55.000 0.00 0.00 0.00 3.18
731 4146 1.586154 CCGGCACACTTGGATTCACC 61.586 60.000 0.00 0.00 39.54 4.02
732 4147 0.606401 CGGCACACTTGGATTCACCT 60.606 55.000 0.00 0.00 39.86 4.00
733 4148 1.168714 GGCACACTTGGATTCACCTC 58.831 55.000 0.00 0.00 39.86 3.85
734 4149 0.798776 GCACACTTGGATTCACCTCG 59.201 55.000 0.00 0.00 39.86 4.63
735 4150 1.608025 GCACACTTGGATTCACCTCGA 60.608 52.381 0.00 0.00 39.86 4.04
736 4151 2.936993 GCACACTTGGATTCACCTCGAT 60.937 50.000 0.00 0.00 39.86 3.59
737 4152 2.932614 CACACTTGGATTCACCTCGATC 59.067 50.000 0.00 0.00 39.86 3.69
738 4153 2.093447 ACACTTGGATTCACCTCGATCC 60.093 50.000 0.00 0.00 39.86 3.36
739 4154 2.093500 CACTTGGATTCACCTCGATCCA 60.093 50.000 0.00 0.00 41.05 3.41
740 4155 2.169352 ACTTGGATTCACCTCGATCCAG 59.831 50.000 3.57 2.12 43.26 3.86
741 4156 2.159179 TGGATTCACCTCGATCCAGA 57.841 50.000 0.00 0.00 38.19 3.86
742 4157 2.466846 TGGATTCACCTCGATCCAGAA 58.533 47.619 0.00 0.00 38.19 3.02
743 4158 2.432146 TGGATTCACCTCGATCCAGAAG 59.568 50.000 0.00 0.00 38.19 2.85
744 4159 2.432510 GGATTCACCTCGATCCAGAAGT 59.567 50.000 0.00 0.00 35.41 3.01
745 4160 3.452474 GATTCACCTCGATCCAGAAGTG 58.548 50.000 0.00 0.00 34.73 3.16
746 4161 0.532573 TCACCTCGATCCAGAAGTGC 59.467 55.000 0.00 0.00 33.75 4.40
747 4162 0.247460 CACCTCGATCCAGAAGTGCA 59.753 55.000 0.00 0.00 0.00 4.57
748 4163 0.247736 ACCTCGATCCAGAAGTGCAC 59.752 55.000 9.40 9.40 0.00 4.57
749 4164 0.803768 CCTCGATCCAGAAGTGCACG 60.804 60.000 12.01 0.00 0.00 5.34
750 4165 0.171231 CTCGATCCAGAAGTGCACGA 59.829 55.000 12.01 2.12 0.00 4.35
751 4166 0.109272 TCGATCCAGAAGTGCACGAC 60.109 55.000 12.01 9.65 0.00 4.34
752 4167 0.388520 CGATCCAGAAGTGCACGACA 60.389 55.000 12.01 0.00 0.00 4.35
753 4168 1.354040 GATCCAGAAGTGCACGACAG 58.646 55.000 12.01 6.48 0.00 3.51
754 4169 0.671781 ATCCAGAAGTGCACGACAGC 60.672 55.000 12.01 0.25 0.00 4.40
755 4170 1.301244 CCAGAAGTGCACGACAGCT 60.301 57.895 12.01 2.74 34.99 4.24
756 4171 0.038251 CCAGAAGTGCACGACAGCTA 60.038 55.000 12.01 0.00 34.99 3.32
757 4172 1.404717 CCAGAAGTGCACGACAGCTAT 60.405 52.381 12.01 0.00 34.99 2.97
758 4173 1.657594 CAGAAGTGCACGACAGCTATG 59.342 52.381 12.01 0.00 34.99 2.23
759 4174 1.546029 AGAAGTGCACGACAGCTATGA 59.454 47.619 12.01 0.00 34.99 2.15
760 4175 1.923204 GAAGTGCACGACAGCTATGAG 59.077 52.381 12.01 0.00 34.99 2.90
761 4176 0.174389 AGTGCACGACAGCTATGAGG 59.826 55.000 12.01 0.00 34.99 3.86
762 4177 0.173481 GTGCACGACAGCTATGAGGA 59.827 55.000 0.00 0.00 34.99 3.71
763 4178 1.114627 TGCACGACAGCTATGAGGAT 58.885 50.000 0.00 0.00 34.99 3.24
764 4179 1.202452 TGCACGACAGCTATGAGGATG 60.202 52.381 0.00 0.00 34.99 3.51
765 4180 1.495878 CACGACAGCTATGAGGATGC 58.504 55.000 0.00 0.00 0.00 3.91
766 4181 1.068281 CACGACAGCTATGAGGATGCT 59.932 52.381 0.00 0.00 37.56 3.79
767 4182 1.759445 ACGACAGCTATGAGGATGCTT 59.241 47.619 0.00 0.00 34.51 3.91
768 4183 2.133553 CGACAGCTATGAGGATGCTTG 58.866 52.381 0.00 0.00 34.51 4.01
769 4184 1.872313 GACAGCTATGAGGATGCTTGC 59.128 52.381 0.00 0.00 34.51 4.01
770 4185 1.211212 ACAGCTATGAGGATGCTTGCA 59.789 47.619 0.00 0.00 34.51 4.08
771 4186 2.158652 ACAGCTATGAGGATGCTTGCAT 60.159 45.455 7.91 7.91 34.51 3.96
772 4187 3.072038 ACAGCTATGAGGATGCTTGCATA 59.928 43.478 8.17 0.00 34.51 3.14
773 4188 3.436015 CAGCTATGAGGATGCTTGCATAC 59.564 47.826 9.65 9.65 34.51 2.39
774 4189 2.414481 GCTATGAGGATGCTTGCATACG 59.586 50.000 11.63 0.00 0.00 3.06
775 4190 1.888215 ATGAGGATGCTTGCATACGG 58.112 50.000 11.63 0.00 0.00 4.02
776 4191 0.829990 TGAGGATGCTTGCATACGGA 59.170 50.000 11.63 0.66 0.00 4.69
777 4192 1.202568 TGAGGATGCTTGCATACGGAG 60.203 52.381 11.63 0.00 0.00 4.63
778 4193 0.533755 AGGATGCTTGCATACGGAGC 60.534 55.000 11.63 0.21 36.95 4.70
779 4194 0.533755 GGATGCTTGCATACGGAGCT 60.534 55.000 8.17 0.00 37.32 4.09
780 4195 0.864455 GATGCTTGCATACGGAGCTC 59.136 55.000 4.71 4.71 37.32 4.09
781 4196 0.533755 ATGCTTGCATACGGAGCTCC 60.534 55.000 23.79 23.79 37.32 4.70
782 4197 1.889573 GCTTGCATACGGAGCTCCC 60.890 63.158 27.20 12.95 33.72 4.30
794 4209 3.033368 GGAGCTCCCGATAATTCACTC 57.967 52.381 23.19 0.00 0.00 3.51
795 4210 2.608261 GGAGCTCCCGATAATTCACTCG 60.608 54.545 23.19 0.00 34.73 4.18
796 4211 2.293677 GAGCTCCCGATAATTCACTCGA 59.706 50.000 0.87 0.00 37.05 4.04
797 4212 2.034812 AGCTCCCGATAATTCACTCGAC 59.965 50.000 6.57 0.00 37.05 4.20
798 4213 2.651701 CTCCCGATAATTCACTCGACG 58.348 52.381 6.57 0.00 37.05 5.12
799 4214 2.289820 CTCCCGATAATTCACTCGACGA 59.710 50.000 0.00 0.00 37.05 4.20
800 4215 2.032550 TCCCGATAATTCACTCGACGAC 59.967 50.000 0.00 0.00 37.05 4.34
801 4216 2.033049 CCCGATAATTCACTCGACGACT 59.967 50.000 0.00 0.00 37.05 4.18
802 4217 3.249320 CCCGATAATTCACTCGACGACTA 59.751 47.826 0.00 0.00 37.05 2.59
803 4218 4.083431 CCCGATAATTCACTCGACGACTAT 60.083 45.833 0.00 0.00 37.05 2.12
804 4219 4.846677 CCGATAATTCACTCGACGACTATG 59.153 45.833 0.00 0.00 37.05 2.23
805 4220 4.846677 CGATAATTCACTCGACGACTATGG 59.153 45.833 0.00 0.00 37.05 2.74
806 4221 3.438297 AATTCACTCGACGACTATGGG 57.562 47.619 0.00 0.00 0.00 4.00
807 4222 0.454600 TTCACTCGACGACTATGGGC 59.545 55.000 0.00 0.00 0.00 5.36
808 4223 1.298413 CACTCGACGACTATGGGCG 60.298 63.158 1.30 1.30 0.00 6.13
809 4224 2.353607 CTCGACGACTATGGGCGC 60.354 66.667 3.32 0.00 0.00 6.53
810 4225 3.120979 CTCGACGACTATGGGCGCA 62.121 63.158 10.83 5.70 0.00 6.09
811 4226 2.027605 CGACGACTATGGGCGCAT 59.972 61.111 20.92 20.92 0.00 4.73
812 4227 2.302952 CGACGACTATGGGCGCATG 61.303 63.158 25.20 16.78 0.00 4.06
813 4228 1.956170 GACGACTATGGGCGCATGG 60.956 63.158 25.20 24.02 0.00 3.66
814 4229 3.349006 CGACTATGGGCGCATGGC 61.349 66.667 25.20 15.91 42.51 4.40
825 4240 4.408821 GCATGGCCGAGTCCACCA 62.409 66.667 0.00 1.44 39.25 4.17
826 4241 2.436646 CATGGCCGAGTCCACCAC 60.437 66.667 0.00 0.00 39.25 4.16
827 4242 3.717294 ATGGCCGAGTCCACCACC 61.717 66.667 0.00 0.00 39.25 4.61
829 4244 3.717294 GGCCGAGTCCACCACCAT 61.717 66.667 0.00 0.00 0.00 3.55
830 4245 2.351276 GCCGAGTCCACCACCATT 59.649 61.111 0.00 0.00 0.00 3.16
831 4246 2.040544 GCCGAGTCCACCACCATTG 61.041 63.158 0.00 0.00 0.00 2.82
832 4247 1.676968 CCGAGTCCACCACCATTGA 59.323 57.895 0.00 0.00 0.00 2.57
833 4248 0.391661 CCGAGTCCACCACCATTGAG 60.392 60.000 0.00 0.00 0.00 3.02
834 4249 0.321671 CGAGTCCACCACCATTGAGT 59.678 55.000 0.00 0.00 0.00 3.41
835 4250 1.813513 GAGTCCACCACCATTGAGTG 58.186 55.000 0.00 0.00 37.51 3.51
836 4251 1.072331 GAGTCCACCACCATTGAGTGT 59.928 52.381 5.08 0.00 35.93 3.55
837 4252 1.494721 AGTCCACCACCATTGAGTGTT 59.505 47.619 5.08 0.00 35.93 3.32
838 4253 2.091885 AGTCCACCACCATTGAGTGTTT 60.092 45.455 5.08 0.00 35.93 2.83
839 4254 2.293399 GTCCACCACCATTGAGTGTTTC 59.707 50.000 5.08 0.00 35.93 2.78
840 4255 2.174639 TCCACCACCATTGAGTGTTTCT 59.825 45.455 5.08 0.00 35.93 2.52
841 4256 3.392947 TCCACCACCATTGAGTGTTTCTA 59.607 43.478 5.08 0.00 35.93 2.10
842 4257 3.502211 CCACCACCATTGAGTGTTTCTAC 59.498 47.826 5.08 0.00 35.93 2.59
843 4258 4.133820 CACCACCATTGAGTGTTTCTACA 58.866 43.478 5.08 0.00 35.93 2.74
844 4259 4.761739 CACCACCATTGAGTGTTTCTACAT 59.238 41.667 5.08 0.00 36.50 2.29
845 4260 4.761739 ACCACCATTGAGTGTTTCTACATG 59.238 41.667 0.00 0.00 36.50 3.21
846 4261 4.761739 CCACCATTGAGTGTTTCTACATGT 59.238 41.667 2.69 2.69 36.50 3.21
847 4262 5.937540 CCACCATTGAGTGTTTCTACATGTA 59.062 40.000 5.25 5.25 36.50 2.29
848 4263 6.092670 CCACCATTGAGTGTTTCTACATGTAG 59.907 42.308 24.37 24.37 36.50 2.74
849 4264 6.092670 CACCATTGAGTGTTTCTACATGTAGG 59.907 42.308 28.33 13.63 36.50 3.18
850 4265 6.013725 ACCATTGAGTGTTTCTACATGTAGGA 60.014 38.462 28.33 20.37 36.50 2.94
851 4266 6.878923 CCATTGAGTGTTTCTACATGTAGGAA 59.121 38.462 28.33 24.66 36.50 3.36
852 4267 7.554118 CCATTGAGTGTTTCTACATGTAGGAAT 59.446 37.037 25.89 13.01 33.56 3.01
853 4268 8.950210 CATTGAGTGTTTCTACATGTAGGAATT 58.050 33.333 25.89 16.10 33.56 2.17
854 4269 7.905604 TGAGTGTTTCTACATGTAGGAATTG 57.094 36.000 25.89 5.63 33.56 2.32
855 4270 6.371548 TGAGTGTTTCTACATGTAGGAATTGC 59.628 38.462 25.89 18.63 33.56 3.56
856 4271 5.648092 AGTGTTTCTACATGTAGGAATTGCC 59.352 40.000 25.89 15.24 33.56 4.52
857 4272 4.947388 TGTTTCTACATGTAGGAATTGCCC 59.053 41.667 25.89 14.92 33.56 5.36
858 4273 4.853468 TTCTACATGTAGGAATTGCCCA 57.147 40.909 28.33 6.99 37.37 5.36
859 4274 4.150897 TCTACATGTAGGAATTGCCCAC 57.849 45.455 28.33 0.00 37.37 4.61
860 4275 2.897271 ACATGTAGGAATTGCCCACA 57.103 45.000 0.00 4.77 37.37 4.17
861 4276 3.386932 ACATGTAGGAATTGCCCACAT 57.613 42.857 0.00 8.45 37.37 3.21
862 4277 3.025978 ACATGTAGGAATTGCCCACATG 58.974 45.455 26.85 26.85 43.40 3.21
863 4278 2.142356 TGTAGGAATTGCCCACATGG 57.858 50.000 0.00 0.00 37.37 3.66
922 4338 0.247460 TGCAAGAGCGCTACACATCT 59.753 50.000 11.50 0.00 46.23 2.90
923 4339 1.476488 TGCAAGAGCGCTACACATCTA 59.524 47.619 11.50 0.00 46.23 1.98
930 4346 4.023279 AGAGCGCTACACATCTATCTCTTG 60.023 45.833 11.50 0.00 0.00 3.02
935 4351 5.008118 CGCTACACATCTATCTCTTGACTCA 59.992 44.000 0.00 0.00 0.00 3.41
938 4354 5.971763 ACACATCTATCTCTTGACTCAACC 58.028 41.667 0.00 0.00 0.00 3.77
939 4355 5.719085 ACACATCTATCTCTTGACTCAACCT 59.281 40.000 0.00 0.00 0.00 3.50
1140 4571 1.033746 CCGCCGTCTACTTCTACCCA 61.034 60.000 0.00 0.00 0.00 4.51
1164 4598 0.318762 GCTCCGGACTCAGTGACTTT 59.681 55.000 0.00 0.00 0.00 2.66
1213 4647 4.873129 CCATGGACGGGCGTCTCG 62.873 72.222 5.56 0.00 44.04 4.04
1214 4648 3.822192 CATGGACGGGCGTCTCGA 61.822 66.667 6.13 0.00 44.04 4.04
1215 4649 3.823330 ATGGACGGGCGTCTCGAC 61.823 66.667 6.13 0.00 44.04 4.20
1217 4651 3.823330 GGACGGGCGTCTCGACAT 61.823 66.667 6.13 0.00 44.04 3.06
1218 4652 2.579787 GACGGGCGTCTCGACATG 60.580 66.667 6.13 0.00 41.57 3.21
1219 4653 4.129737 ACGGGCGTCTCGACATGG 62.130 66.667 6.13 0.00 36.10 3.66
1220 4654 3.822192 CGGGCGTCTCGACATGGA 61.822 66.667 0.00 0.00 36.10 3.41
1221 4655 2.202756 GGGCGTCTCGACATGGAC 60.203 66.667 0.00 0.00 36.10 4.02
1225 4659 2.571757 GTCTCGACATGGACGGCA 59.428 61.111 12.97 0.26 0.00 5.69
1226 4660 1.080093 GTCTCGACATGGACGGCAA 60.080 57.895 12.97 0.00 0.00 4.52
1227 4661 1.080093 TCTCGACATGGACGGCAAC 60.080 57.895 12.97 0.00 0.00 4.17
1324 4761 1.875813 GAGATCGACTGCACTGGCG 60.876 63.158 0.00 0.00 45.35 5.69
1374 4811 0.243907 ACCTCACCATCGACGACTTG 59.756 55.000 0.00 0.00 0.00 3.16
1375 4812 0.243907 CCTCACCATCGACGACTTGT 59.756 55.000 0.00 0.00 0.00 3.16
1447 4884 1.031029 AGACTACTCGCCTTCCGTCC 61.031 60.000 0.00 0.00 38.35 4.79
1473 4910 1.202818 GCTGTCCAGGTGACCTTCTTT 60.203 52.381 0.00 0.00 43.78 2.52
1497 4934 4.123545 GGCGGGGTGGCATTAGGT 62.124 66.667 0.00 0.00 44.08 3.08
1574 5011 1.920835 GGTCTGCCTTCTCCAGGGT 60.921 63.158 0.00 0.00 44.16 4.34
1651 5103 2.928396 CCCCACCCTTCGTCCACT 60.928 66.667 0.00 0.00 0.00 4.00
1653 5105 1.913762 CCCACCCTTCGTCCACTCT 60.914 63.158 0.00 0.00 0.00 3.24
1683 5138 1.075659 GGTCTTCTGCCCCAAGCTT 59.924 57.895 0.00 0.00 44.23 3.74
1722 5186 1.802337 CGGAGACTGTCGTCACCCAA 61.802 60.000 1.52 0.00 44.95 4.12
1747 5211 1.241990 CGTCGTCTCCAAGGACCAGA 61.242 60.000 0.00 0.00 39.16 3.86
1753 5217 1.203300 TCTCCAAGGACCAGATCACCA 60.203 52.381 0.00 0.00 0.00 4.17
4320 8297 2.047179 GGCGTCAAGGTCAGGGTC 60.047 66.667 0.00 0.00 0.00 4.46
4326 8303 4.658786 AAGGTCAGGGTCGGGGCT 62.659 66.667 0.00 0.00 0.00 5.19
4329 8306 4.410400 GTCAGGGTCGGGGCTTGG 62.410 72.222 0.00 0.00 0.00 3.61
5279 10182 3.805422 CGATAGACTACTTCGAGCTCACT 59.195 47.826 15.40 2.35 34.92 3.41
5349 10267 1.673993 CTTGGCATGCCGGTGTACA 60.674 57.895 30.87 9.56 39.42 2.90
5357 10275 1.594836 GCCGGTGTACAACGTGGAA 60.595 57.895 29.87 0.00 40.49 3.53
5363 10281 2.406130 GTGTACAACGTGGAATTCGGA 58.594 47.619 0.00 0.00 0.00 4.55
5385 10303 1.077716 GGGAAGCCGCTGGTAATGT 60.078 57.895 0.00 0.00 0.00 2.71
5578 10549 0.474184 CCTTTCACCCTGTCACACCT 59.526 55.000 0.00 0.00 0.00 4.00
5616 10587 9.482627 TTTTAAGTTGTGAACTGTGAAAAACAT 57.517 25.926 0.00 0.00 41.91 2.71
5667 10638 3.186409 CACAGTGTCCATACAGAAAACGG 59.814 47.826 0.00 0.00 35.91 4.44
5787 10758 6.070656 TGAATTGAACCATGATAATCTCCCC 58.929 40.000 0.00 0.00 0.00 4.81
5898 10869 2.656698 AAACCCCTGGACCTTGTGCC 62.657 60.000 0.00 0.00 0.00 5.01
5918 10889 5.992217 GTGCCTGTAGACTATAAAATGGGAG 59.008 44.000 0.00 0.00 0.00 4.30
5926 10897 3.877508 ACTATAAAATGGGAGAAGCGCAC 59.122 43.478 11.47 2.78 42.69 5.34
5984 10955 2.936919 ACTGCATCAGACAGGAAACA 57.063 45.000 0.29 0.00 39.55 2.83
6044 11015 5.120830 GCATCTTAATATAAGTGTCCTGCCG 59.879 44.000 0.00 0.00 0.00 5.69
6336 11307 7.116662 CCAAATGTACAATCAAAATGTCTGTGG 59.883 37.037 0.00 0.00 32.27 4.17
6466 11437 5.874261 CACAAGAATGTCCACCAAAGTTTTT 59.126 36.000 0.00 0.00 37.82 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
190 198 7.179516 TGTTATACCTTGTTGATGTCTAGGACA 59.820 37.037 2.80 2.80 46.90 4.02
291 299 5.221891 TGCTTAATCTCAAGTCAAATCGC 57.778 39.130 0.00 0.00 0.00 4.58
297 305 8.768019 CGAATCAATATGCTTAATCTCAAGTCA 58.232 33.333 0.00 0.00 0.00 3.41
298 306 8.982685 TCGAATCAATATGCTTAATCTCAAGTC 58.017 33.333 0.00 0.00 0.00 3.01
320 328 6.042777 CAGTTCACTATGGCTTAATCTCGAA 58.957 40.000 0.00 0.00 0.00 3.71
321 329 5.451937 CCAGTTCACTATGGCTTAATCTCGA 60.452 44.000 0.00 0.00 0.00 4.04
323 331 5.059833 CCCAGTTCACTATGGCTTAATCTC 58.940 45.833 0.00 0.00 35.10 2.75
341 349 6.702716 TTTCGTTGTTTTCTTAATCCCAGT 57.297 33.333 0.00 0.00 0.00 4.00
472 3886 0.029834 GCTGGTGCGCCATTAGAATG 59.970 55.000 21.54 7.31 45.05 2.67
491 3906 0.949105 GGGATACTAATGGCGCACCG 60.949 60.000 10.83 0.00 39.70 4.94
508 3923 1.512926 GTGCGCCATTAGTATCTGGG 58.487 55.000 4.18 0.00 32.90 4.45
552 3967 1.762957 ACTAGCACCACGCCATTAGAT 59.237 47.619 0.00 0.00 44.04 1.98
600 4015 1.225376 TAGTGCCGCACCTGTTTTCG 61.225 55.000 19.96 0.00 34.49 3.46
601 4016 0.517316 CTAGTGCCGCACCTGTTTTC 59.483 55.000 19.96 0.00 34.49 2.29
614 4029 1.539157 AGAAAAAGGGCTGCTAGTGC 58.461 50.000 0.00 0.00 40.20 4.40
624 4039 7.511959 AAGCTTTTCACTACTAGAAAAAGGG 57.488 36.000 19.11 0.00 42.45 3.95
631 4046 7.833786 TCGGATAAAAGCTTTTCACTACTAGA 58.166 34.615 27.03 13.68 0.00 2.43
642 4057 8.406297 GGAATTCACTATTCGGATAAAAGCTTT 58.594 33.333 5.69 5.69 43.01 3.51
643 4058 7.556275 TGGAATTCACTATTCGGATAAAAGCTT 59.444 33.333 7.93 0.00 43.01 3.74
644 4059 7.054124 TGGAATTCACTATTCGGATAAAAGCT 58.946 34.615 7.93 0.00 43.01 3.74
645 4060 7.259290 TGGAATTCACTATTCGGATAAAAGC 57.741 36.000 7.93 0.00 43.01 3.51
646 4061 8.507249 GGATGGAATTCACTATTCGGATAAAAG 58.493 37.037 7.93 0.00 43.01 2.27
647 4062 7.172532 CGGATGGAATTCACTATTCGGATAAAA 59.827 37.037 7.93 0.00 43.01 1.52
648 4063 6.649141 CGGATGGAATTCACTATTCGGATAAA 59.351 38.462 7.93 0.00 43.01 1.40
649 4064 6.163476 CGGATGGAATTCACTATTCGGATAA 58.837 40.000 7.93 0.00 43.01 1.75
650 4065 5.720202 CGGATGGAATTCACTATTCGGATA 58.280 41.667 7.93 0.00 43.01 2.59
651 4066 4.569943 CGGATGGAATTCACTATTCGGAT 58.430 43.478 7.93 0.00 43.01 4.18
652 4067 3.990092 CGGATGGAATTCACTATTCGGA 58.010 45.455 7.93 0.00 43.01 4.55
653 4068 3.067106 CCGGATGGAATTCACTATTCGG 58.933 50.000 16.84 16.84 43.01 4.30
654 4069 3.067106 CCCGGATGGAATTCACTATTCG 58.933 50.000 0.73 8.71 43.01 3.34
655 4070 4.202367 ACTCCCGGATGGAATTCACTATTC 60.202 45.833 0.73 0.00 44.57 1.75
656 4071 3.716872 ACTCCCGGATGGAATTCACTATT 59.283 43.478 0.73 0.00 44.57 1.73
657 4072 3.318313 ACTCCCGGATGGAATTCACTAT 58.682 45.455 0.73 0.00 44.57 2.12
658 4073 2.759355 ACTCCCGGATGGAATTCACTA 58.241 47.619 0.73 0.00 44.57 2.74
659 4074 1.584724 ACTCCCGGATGGAATTCACT 58.415 50.000 0.73 0.00 44.57 3.41
660 4075 2.289565 GAACTCCCGGATGGAATTCAC 58.710 52.381 0.73 0.00 46.42 3.18
661 4076 2.710096 GAACTCCCGGATGGAATTCA 57.290 50.000 0.73 0.00 46.42 2.57
662 4077 1.138266 TCGAACTCCCGGATGGAATTC 59.862 52.381 0.73 0.00 44.25 2.17
663 4078 1.134491 GTCGAACTCCCGGATGGAATT 60.134 52.381 0.73 0.00 44.57 2.17
664 4079 0.464452 GTCGAACTCCCGGATGGAAT 59.536 55.000 0.73 0.00 44.57 3.01
665 4080 0.901114 TGTCGAACTCCCGGATGGAA 60.901 55.000 0.73 0.00 44.57 3.53
666 4081 0.901114 TTGTCGAACTCCCGGATGGA 60.901 55.000 0.73 0.00 42.41 3.41
667 4082 0.739813 GTTGTCGAACTCCCGGATGG 60.740 60.000 0.73 0.00 0.00 3.51
668 4083 0.246635 AGTTGTCGAACTCCCGGATG 59.753 55.000 0.73 0.00 38.01 3.51
669 4084 1.475682 GTAGTTGTCGAACTCCCGGAT 59.524 52.381 0.73 0.00 41.75 4.18
670 4085 0.883833 GTAGTTGTCGAACTCCCGGA 59.116 55.000 0.73 0.00 41.75 5.14
671 4086 0.886563 AGTAGTTGTCGAACTCCCGG 59.113 55.000 0.00 0.00 41.75 5.73
672 4087 2.030540 TGAAGTAGTTGTCGAACTCCCG 60.031 50.000 0.00 0.00 41.75 5.14
673 4088 3.655276 TGAAGTAGTTGTCGAACTCCC 57.345 47.619 0.00 0.00 41.75 4.30
674 4089 4.444720 CACTTGAAGTAGTTGTCGAACTCC 59.555 45.833 0.00 0.00 41.75 3.85
675 4090 4.085004 GCACTTGAAGTAGTTGTCGAACTC 60.085 45.833 0.00 0.00 41.75 3.01
676 4091 3.802685 GCACTTGAAGTAGTTGTCGAACT 59.197 43.478 0.00 0.00 44.90 3.01
677 4092 3.554324 TGCACTTGAAGTAGTTGTCGAAC 59.446 43.478 0.00 0.00 0.00 3.95
678 4093 3.787785 TGCACTTGAAGTAGTTGTCGAA 58.212 40.909 0.00 0.00 0.00 3.71
679 4094 3.446310 TGCACTTGAAGTAGTTGTCGA 57.554 42.857 0.00 0.00 0.00 4.20
680 4095 3.802139 TCTTGCACTTGAAGTAGTTGTCG 59.198 43.478 0.00 0.00 0.00 4.35
681 4096 5.277538 CCTTCTTGCACTTGAAGTAGTTGTC 60.278 44.000 16.90 0.00 38.30 3.18
682 4097 4.576463 CCTTCTTGCACTTGAAGTAGTTGT 59.424 41.667 16.90 0.00 38.30 3.32
683 4098 4.816385 TCCTTCTTGCACTTGAAGTAGTTG 59.184 41.667 16.90 6.44 38.30 3.16
684 4099 5.036117 TCCTTCTTGCACTTGAAGTAGTT 57.964 39.130 16.90 0.00 38.30 2.24
685 4100 4.689612 TCCTTCTTGCACTTGAAGTAGT 57.310 40.909 16.90 0.00 38.30 2.73
686 4101 5.936054 CAATCCTTCTTGCACTTGAAGTAG 58.064 41.667 16.90 0.00 38.30 2.57
687 4102 5.947228 CAATCCTTCTTGCACTTGAAGTA 57.053 39.130 16.90 6.74 38.30 2.24
688 4103 4.843220 CAATCCTTCTTGCACTTGAAGT 57.157 40.909 16.90 0.00 38.30 3.01
698 4113 1.243342 TGCCGGTGCAATCCTTCTTG 61.243 55.000 1.90 0.00 46.66 3.02
699 4114 1.074775 TGCCGGTGCAATCCTTCTT 59.925 52.632 1.90 0.00 46.66 2.52
700 4115 2.756400 TGCCGGTGCAATCCTTCT 59.244 55.556 1.90 0.00 46.66 2.85
709 4124 2.200170 GAATCCAAGTGTGCCGGTGC 62.200 60.000 1.90 0.00 38.26 5.01
710 4125 0.888736 TGAATCCAAGTGTGCCGGTG 60.889 55.000 1.90 0.00 0.00 4.94
711 4126 0.889186 GTGAATCCAAGTGTGCCGGT 60.889 55.000 1.90 0.00 0.00 5.28
712 4127 1.586154 GGTGAATCCAAGTGTGCCGG 61.586 60.000 0.00 0.00 35.97 6.13
713 4128 0.606401 AGGTGAATCCAAGTGTGCCG 60.606 55.000 0.00 0.00 39.02 5.69
714 4129 1.168714 GAGGTGAATCCAAGTGTGCC 58.831 55.000 0.00 0.00 39.02 5.01
715 4130 0.798776 CGAGGTGAATCCAAGTGTGC 59.201 55.000 0.00 0.00 39.02 4.57
716 4131 2.455674 TCGAGGTGAATCCAAGTGTG 57.544 50.000 0.00 0.00 39.02 3.82
717 4132 2.093447 GGATCGAGGTGAATCCAAGTGT 60.093 50.000 0.00 0.00 39.02 3.55
718 4133 2.093500 TGGATCGAGGTGAATCCAAGTG 60.093 50.000 0.65 0.00 39.95 3.16
719 4134 2.169352 CTGGATCGAGGTGAATCCAAGT 59.831 50.000 4.82 0.00 42.03 3.16
720 4135 2.432146 TCTGGATCGAGGTGAATCCAAG 59.568 50.000 4.78 0.68 42.03 3.61
721 4136 2.466846 TCTGGATCGAGGTGAATCCAA 58.533 47.619 4.78 0.00 42.03 3.53
722 4137 2.159179 TCTGGATCGAGGTGAATCCA 57.841 50.000 4.78 3.31 40.56 3.41
723 4138 2.432510 ACTTCTGGATCGAGGTGAATCC 59.567 50.000 4.78 0.00 0.00 3.01
724 4139 3.452474 CACTTCTGGATCGAGGTGAATC 58.548 50.000 4.78 0.00 41.83 2.52
725 4140 2.419297 GCACTTCTGGATCGAGGTGAAT 60.419 50.000 15.10 0.00 41.83 2.57
726 4141 1.066858 GCACTTCTGGATCGAGGTGAA 60.067 52.381 15.10 0.00 41.83 3.18
727 4142 0.532573 GCACTTCTGGATCGAGGTGA 59.467 55.000 15.10 0.00 41.83 4.02
728 4143 0.247460 TGCACTTCTGGATCGAGGTG 59.753 55.000 4.78 7.24 42.07 4.00
729 4144 0.247736 GTGCACTTCTGGATCGAGGT 59.752 55.000 10.32 0.00 0.00 3.85
730 4145 0.803768 CGTGCACTTCTGGATCGAGG 60.804 60.000 16.19 0.00 0.00 4.63
731 4146 0.171231 TCGTGCACTTCTGGATCGAG 59.829 55.000 16.19 0.00 0.00 4.04
732 4147 0.109272 GTCGTGCACTTCTGGATCGA 60.109 55.000 16.19 0.13 0.00 3.59
733 4148 0.388520 TGTCGTGCACTTCTGGATCG 60.389 55.000 16.19 0.00 0.00 3.69
734 4149 1.354040 CTGTCGTGCACTTCTGGATC 58.646 55.000 16.19 0.67 0.00 3.36
735 4150 0.671781 GCTGTCGTGCACTTCTGGAT 60.672 55.000 16.19 0.00 0.00 3.41
736 4151 1.300931 GCTGTCGTGCACTTCTGGA 60.301 57.895 16.19 0.73 0.00 3.86
737 4152 0.038251 TAGCTGTCGTGCACTTCTGG 60.038 55.000 16.19 0.00 34.99 3.86
738 4153 1.657594 CATAGCTGTCGTGCACTTCTG 59.342 52.381 16.19 12.03 34.99 3.02
739 4154 1.546029 TCATAGCTGTCGTGCACTTCT 59.454 47.619 16.19 6.82 34.99 2.85
740 4155 1.923204 CTCATAGCTGTCGTGCACTTC 59.077 52.381 16.19 8.18 34.99 3.01
741 4156 1.404717 CCTCATAGCTGTCGTGCACTT 60.405 52.381 16.19 0.00 34.99 3.16
742 4157 0.174389 CCTCATAGCTGTCGTGCACT 59.826 55.000 16.19 0.00 34.99 4.40
743 4158 0.173481 TCCTCATAGCTGTCGTGCAC 59.827 55.000 6.82 6.82 34.99 4.57
744 4159 1.114627 ATCCTCATAGCTGTCGTGCA 58.885 50.000 0.00 0.00 34.99 4.57
745 4160 1.495878 CATCCTCATAGCTGTCGTGC 58.504 55.000 0.00 0.00 0.00 5.34
746 4161 1.068281 AGCATCCTCATAGCTGTCGTG 59.932 52.381 0.00 0.00 37.20 4.35
747 4162 1.407936 AGCATCCTCATAGCTGTCGT 58.592 50.000 0.00 0.00 37.20 4.34
748 4163 2.133553 CAAGCATCCTCATAGCTGTCG 58.866 52.381 0.00 0.00 38.86 4.35
749 4164 1.872313 GCAAGCATCCTCATAGCTGTC 59.128 52.381 0.00 0.00 38.86 3.51
750 4165 1.211212 TGCAAGCATCCTCATAGCTGT 59.789 47.619 0.00 0.00 38.86 4.40
751 4166 1.963172 TGCAAGCATCCTCATAGCTG 58.037 50.000 0.00 0.00 38.86 4.24
752 4167 2.953284 ATGCAAGCATCCTCATAGCT 57.047 45.000 0.86 0.00 41.03 3.32
753 4168 2.414481 CGTATGCAAGCATCCTCATAGC 59.586 50.000 11.32 0.00 37.82 2.97
754 4169 2.998670 CCGTATGCAAGCATCCTCATAG 59.001 50.000 11.32 0.00 37.82 2.23
755 4170 2.632512 TCCGTATGCAAGCATCCTCATA 59.367 45.455 11.32 0.00 37.82 2.15
756 4171 1.417517 TCCGTATGCAAGCATCCTCAT 59.582 47.619 11.32 0.00 37.82 2.90
757 4172 0.829990 TCCGTATGCAAGCATCCTCA 59.170 50.000 11.32 0.00 37.82 3.86
758 4173 1.506493 CTCCGTATGCAAGCATCCTC 58.494 55.000 11.32 3.21 37.82 3.71
759 4174 0.533755 GCTCCGTATGCAAGCATCCT 60.534 55.000 11.32 0.00 37.82 3.24
760 4175 0.533755 AGCTCCGTATGCAAGCATCC 60.534 55.000 11.32 0.00 38.51 3.51
761 4176 0.864455 GAGCTCCGTATGCAAGCATC 59.136 55.000 11.32 2.99 38.51 3.91
762 4177 0.533755 GGAGCTCCGTATGCAAGCAT 60.534 55.000 19.06 12.66 38.51 3.79
763 4178 1.153369 GGAGCTCCGTATGCAAGCA 60.153 57.895 19.06 0.00 38.51 3.91
764 4179 1.889573 GGGAGCTCCGTATGCAAGC 60.890 63.158 26.36 5.37 36.71 4.01
765 4180 4.445699 GGGAGCTCCGTATGCAAG 57.554 61.111 26.36 0.00 36.71 4.01
774 4189 2.608261 CGAGTGAATTATCGGGAGCTCC 60.608 54.545 25.59 25.59 35.33 4.70
775 4190 2.293677 TCGAGTGAATTATCGGGAGCTC 59.706 50.000 4.71 4.71 39.38 4.09
776 4191 2.034812 GTCGAGTGAATTATCGGGAGCT 59.965 50.000 7.18 0.00 39.38 4.09
777 4192 2.395654 GTCGAGTGAATTATCGGGAGC 58.604 52.381 7.18 0.00 39.38 4.70
778 4193 2.289820 TCGTCGAGTGAATTATCGGGAG 59.710 50.000 0.00 1.47 39.38 4.30
779 4194 2.032550 GTCGTCGAGTGAATTATCGGGA 59.967 50.000 0.00 3.76 39.38 5.14
780 4195 2.033049 AGTCGTCGAGTGAATTATCGGG 59.967 50.000 0.72 1.95 39.38 5.14
781 4196 3.335786 AGTCGTCGAGTGAATTATCGG 57.664 47.619 0.72 0.00 39.38 4.18
782 4197 4.846677 CCATAGTCGTCGAGTGAATTATCG 59.153 45.833 12.90 1.78 40.26 2.92
783 4198 5.154932 CCCATAGTCGTCGAGTGAATTATC 58.845 45.833 12.90 0.00 0.00 1.75
784 4199 4.558898 GCCCATAGTCGTCGAGTGAATTAT 60.559 45.833 12.90 0.00 0.00 1.28
785 4200 3.243301 GCCCATAGTCGTCGAGTGAATTA 60.243 47.826 12.90 0.00 0.00 1.40
786 4201 2.481449 GCCCATAGTCGTCGAGTGAATT 60.481 50.000 12.90 0.00 0.00 2.17
787 4202 1.067212 GCCCATAGTCGTCGAGTGAAT 59.933 52.381 12.90 0.00 0.00 2.57
788 4203 0.454600 GCCCATAGTCGTCGAGTGAA 59.545 55.000 12.90 0.00 0.00 3.18
789 4204 1.712018 CGCCCATAGTCGTCGAGTGA 61.712 60.000 12.90 0.00 0.00 3.41
790 4205 1.298413 CGCCCATAGTCGTCGAGTG 60.298 63.158 12.90 4.26 0.00 3.51
791 4206 3.108343 CGCCCATAGTCGTCGAGT 58.892 61.111 7.87 7.87 0.00 4.18
792 4207 2.353607 GCGCCCATAGTCGTCGAG 60.354 66.667 0.00 0.00 0.00 4.04
793 4208 2.486663 ATGCGCCCATAGTCGTCGA 61.487 57.895 4.18 0.00 0.00 4.20
794 4209 2.027605 ATGCGCCCATAGTCGTCG 59.972 61.111 4.18 0.00 0.00 5.12
795 4210 1.956170 CCATGCGCCCATAGTCGTC 60.956 63.158 4.18 0.00 0.00 4.20
796 4211 2.108976 CCATGCGCCCATAGTCGT 59.891 61.111 4.18 0.00 0.00 4.34
797 4212 3.349006 GCCATGCGCCCATAGTCG 61.349 66.667 4.18 0.00 0.00 4.18
808 4223 4.408821 TGGTGGACTCGGCCATGC 62.409 66.667 2.24 0.00 40.68 4.06
809 4224 2.436646 GTGGTGGACTCGGCCATG 60.437 66.667 2.24 0.00 40.68 3.66
810 4225 3.717294 GGTGGTGGACTCGGCCAT 61.717 66.667 2.24 0.00 40.68 4.40
812 4227 3.268103 AATGGTGGTGGACTCGGCC 62.268 63.158 0.00 0.00 0.00 6.13
813 4228 2.040544 CAATGGTGGTGGACTCGGC 61.041 63.158 0.00 0.00 0.00 5.54
814 4229 0.391661 CTCAATGGTGGTGGACTCGG 60.392 60.000 0.00 0.00 0.00 4.63
815 4230 0.321671 ACTCAATGGTGGTGGACTCG 59.678 55.000 0.00 0.00 0.00 4.18
816 4231 1.072331 ACACTCAATGGTGGTGGACTC 59.928 52.381 6.77 0.00 41.09 3.36
817 4232 1.140312 ACACTCAATGGTGGTGGACT 58.860 50.000 6.77 0.00 41.09 3.85
818 4233 1.981256 AACACTCAATGGTGGTGGAC 58.019 50.000 6.77 0.00 41.09 4.02
819 4234 2.174639 AGAAACACTCAATGGTGGTGGA 59.825 45.455 6.77 0.00 41.09 4.02
820 4235 2.586425 AGAAACACTCAATGGTGGTGG 58.414 47.619 6.77 0.00 41.09 4.61
821 4236 4.133820 TGTAGAAACACTCAATGGTGGTG 58.866 43.478 6.77 4.29 41.09 4.17
822 4237 4.431416 TGTAGAAACACTCAATGGTGGT 57.569 40.909 6.77 0.00 41.09 4.16
823 4238 4.761739 ACATGTAGAAACACTCAATGGTGG 59.238 41.667 0.00 0.00 41.09 4.61
824 4239 5.947228 ACATGTAGAAACACTCAATGGTG 57.053 39.130 0.00 1.30 38.78 4.17
825 4240 6.013725 TCCTACATGTAGAAACACTCAATGGT 60.014 38.462 30.41 0.00 38.78 3.55
826 4241 6.406370 TCCTACATGTAGAAACACTCAATGG 58.594 40.000 30.41 12.49 38.78 3.16
827 4242 7.905604 TTCCTACATGTAGAAACACTCAATG 57.094 36.000 30.41 11.67 38.78 2.82
828 4243 8.950210 CAATTCCTACATGTAGAAACACTCAAT 58.050 33.333 30.41 13.19 38.78 2.57
829 4244 7.094805 GCAATTCCTACATGTAGAAACACTCAA 60.095 37.037 30.41 11.81 38.78 3.02
830 4245 6.371548 GCAATTCCTACATGTAGAAACACTCA 59.628 38.462 30.41 8.18 38.78 3.41
831 4246 6.183360 GGCAATTCCTACATGTAGAAACACTC 60.183 42.308 30.41 14.65 38.78 3.51
832 4247 5.648092 GGCAATTCCTACATGTAGAAACACT 59.352 40.000 30.41 5.87 38.78 3.55
833 4248 5.163652 GGGCAATTCCTACATGTAGAAACAC 60.164 44.000 30.41 15.94 34.89 3.32
834 4249 4.947388 GGGCAATTCCTACATGTAGAAACA 59.053 41.667 30.41 13.46 35.94 2.83
835 4250 4.947388 TGGGCAATTCCTACATGTAGAAAC 59.053 41.667 30.41 14.58 35.21 2.78
836 4251 4.947388 GTGGGCAATTCCTACATGTAGAAA 59.053 41.667 30.41 19.97 44.91 2.52
837 4252 4.523083 GTGGGCAATTCCTACATGTAGAA 58.477 43.478 30.41 21.95 44.91 2.10
838 4253 4.150897 GTGGGCAATTCCTACATGTAGA 57.849 45.455 30.41 14.66 44.91 2.59
845 4260 1.750778 CACCATGTGGGCAATTCCTAC 59.249 52.381 3.77 4.27 45.68 3.18
846 4261 1.959508 GCACCATGTGGGCAATTCCTA 60.960 52.381 3.77 0.00 42.05 2.94
847 4262 1.259840 GCACCATGTGGGCAATTCCT 61.260 55.000 3.77 0.00 42.05 3.36
848 4263 1.218854 GCACCATGTGGGCAATTCC 59.781 57.895 3.77 0.00 42.05 3.01
849 4264 0.538118 ATGCACCATGTGGGCAATTC 59.462 50.000 13.94 0.00 42.00 2.17
850 4265 0.250793 CATGCACCATGTGGGCAATT 59.749 50.000 13.94 0.00 42.00 2.32
851 4266 1.901820 CATGCACCATGTGGGCAAT 59.098 52.632 13.94 2.51 42.00 3.56
852 4267 3.378767 CATGCACCATGTGGGCAA 58.621 55.556 13.94 0.47 42.00 4.52
859 4274 7.308770 CCCATTTTATAGTCTACATGCACCATG 60.309 40.741 3.80 3.80 46.18 3.66
860 4275 6.716628 CCCATTTTATAGTCTACATGCACCAT 59.283 38.462 0.00 0.00 0.00 3.55
861 4276 6.061441 CCCATTTTATAGTCTACATGCACCA 58.939 40.000 0.00 0.00 0.00 4.17
862 4277 6.296026 TCCCATTTTATAGTCTACATGCACC 58.704 40.000 0.00 0.00 0.00 5.01
863 4278 7.217200 TCTCCCATTTTATAGTCTACATGCAC 58.783 38.462 0.00 0.00 0.00 4.57
922 4338 4.400884 GCTGAGAGGTTGAGTCAAGAGATA 59.599 45.833 5.62 0.00 0.00 1.98
923 4339 3.195396 GCTGAGAGGTTGAGTCAAGAGAT 59.805 47.826 5.62 0.00 0.00 2.75
930 4346 1.892474 ACTGAGCTGAGAGGTTGAGTC 59.108 52.381 7.36 0.00 0.00 3.36
935 4351 0.607620 GCTGACTGAGCTGAGAGGTT 59.392 55.000 7.36 0.00 45.21 3.50
1071 4502 3.453070 GAGCGGGGAGAGCCACATC 62.453 68.421 0.00 0.00 37.48 3.06
1115 4546 3.892104 AAGTAGACGGCGGGGGTGA 62.892 63.158 13.24 0.00 0.00 4.02
1151 4582 3.061139 CACGTCGAAAAAGTCACTGAGTC 60.061 47.826 0.00 0.00 0.00 3.36
1152 4583 2.858344 CACGTCGAAAAAGTCACTGAGT 59.142 45.455 0.00 0.00 0.00 3.41
1154 4585 2.198406 CCACGTCGAAAAAGTCACTGA 58.802 47.619 0.00 0.00 0.00 3.41
1156 4587 0.935196 GCCACGTCGAAAAAGTCACT 59.065 50.000 0.00 0.00 0.00 3.41
1164 4598 3.876589 GAGCCTGGCCACGTCGAAA 62.877 63.158 16.57 0.00 0.00 3.46
1202 4636 4.129737 CCATGTCGAGACGCCCGT 62.130 66.667 0.00 0.00 0.00 5.28
1203 4637 3.822192 TCCATGTCGAGACGCCCG 61.822 66.667 0.00 0.00 0.00 6.13
1204 4638 2.202756 GTCCATGTCGAGACGCCC 60.203 66.667 0.00 0.00 0.00 6.13
1208 4642 1.080093 TTGCCGTCCATGTCGAGAC 60.080 57.895 8.71 0.00 0.00 3.36
1209 4643 1.080093 GTTGCCGTCCATGTCGAGA 60.080 57.895 8.71 0.00 0.00 4.04
1210 4644 2.444624 CGTTGCCGTCCATGTCGAG 61.445 63.158 8.71 1.89 0.00 4.04
1211 4645 2.431771 CGTTGCCGTCCATGTCGA 60.432 61.111 8.71 0.00 0.00 4.20
1212 4646 3.487202 CCGTTGCCGTCCATGTCG 61.487 66.667 0.00 0.00 0.00 4.35
1213 4647 3.799755 GCCGTTGCCGTCCATGTC 61.800 66.667 0.00 0.00 0.00 3.06
1225 4659 4.719369 GAGTGCCGAGACGCCGTT 62.719 66.667 0.00 0.00 0.00 4.44
1231 4665 4.357947 TGCCACGAGTGCCGAGAC 62.358 66.667 0.00 0.00 41.76 3.36
1232 4666 4.357947 GTGCCACGAGTGCCGAGA 62.358 66.667 0.00 0.00 41.76 4.04
1233 4667 4.363990 AGTGCCACGAGTGCCGAG 62.364 66.667 0.00 0.00 41.76 4.63
1234 4668 4.357947 GAGTGCCACGAGTGCCGA 62.358 66.667 0.00 0.00 41.76 5.54
1236 4670 4.664677 ACGAGTGCCACGAGTGCC 62.665 66.667 0.00 0.00 34.70 5.01
1237 4671 3.406361 CACGAGTGCCACGAGTGC 61.406 66.667 11.52 0.00 34.70 4.40
1238 4672 2.734723 CCACGAGTGCCACGAGTG 60.735 66.667 15.50 15.50 32.87 3.51
1239 4673 4.664677 GCCACGAGTGCCACGAGT 62.665 66.667 0.00 0.00 34.70 4.18
1240 4674 3.865929 AAGCCACGAGTGCCACGAG 62.866 63.158 0.00 0.00 34.70 4.18
1241 4675 3.454587 AAAGCCACGAGTGCCACGA 62.455 57.895 0.00 0.00 34.70 4.35
1242 4676 2.954753 GAAAGCCACGAGTGCCACG 61.955 63.158 0.00 0.00 0.00 4.94
1243 4677 0.320421 TAGAAAGCCACGAGTGCCAC 60.320 55.000 0.00 0.00 0.00 5.01
1244 4678 0.320421 GTAGAAAGCCACGAGTGCCA 60.320 55.000 0.00 0.00 0.00 4.92
1298 4735 2.037053 CAGTCGATCTCTGCCCGAT 58.963 57.895 0.00 0.00 34.71 4.18
1447 4884 3.046087 CACCTGGACAGCGCACAG 61.046 66.667 11.47 12.15 0.00 3.66
1590 5042 2.581074 GTGGAACGGGAGCTCTAGT 58.419 57.895 14.64 11.08 0.00 2.57
1633 5085 4.029809 GTGGACGAAGGGTGGGGG 62.030 72.222 0.00 0.00 0.00 5.40
1651 5103 0.894184 AAGACCGAGAAGGCGTCAGA 60.894 55.000 2.69 0.00 46.52 3.27
1653 5105 0.894184 AGAAGACCGAGAAGGCGTCA 60.894 55.000 2.69 0.00 46.52 4.35
1683 5138 0.464373 ACGGCTCGACGGATAGGTTA 60.464 55.000 0.00 0.00 38.39 2.85
1710 5174 0.878523 CGAAAGCTTGGGTGACGACA 60.879 55.000 0.00 0.00 0.00 4.35
1722 5186 0.038159 CCTTGGAGACGACGAAAGCT 60.038 55.000 0.00 0.00 0.00 3.74
1747 5211 0.671781 GCACGCTTGAGAGTGGTGAT 60.672 55.000 15.07 0.00 44.35 3.06
1753 5217 2.358003 GCAGGCACGCTTGAGAGT 60.358 61.111 5.20 0.00 0.00 3.24
5349 10267 0.393808 CCCCATCCGAATTCCACGTT 60.394 55.000 0.00 0.00 0.00 3.99
5357 10275 2.927056 GGCTTCCCCCATCCGAAT 59.073 61.111 0.00 0.00 0.00 3.34
5414 10332 1.683385 CCGCTGTCCATCAGATAGACA 59.317 52.381 10.79 10.79 46.27 3.41
5578 10549 6.530120 TCACAACTTAAAATCTAGCAGTGGA 58.470 36.000 0.00 0.00 0.00 4.02
5616 10587 6.710499 TCTGTGGATAGATCTGAGAGGATA 57.290 41.667 5.18 0.00 0.00 2.59
5667 10638 2.541762 GTGAGATAGATGGCTTGCGAAC 59.458 50.000 0.00 0.00 0.00 3.95
5787 10758 4.033243 GTCGGCTTTGTACCCTTATAAACG 59.967 45.833 0.00 0.00 0.00 3.60
5898 10869 6.642950 CGCTTCTCCCATTTTATAGTCTACAG 59.357 42.308 0.00 0.00 0.00 2.74
5918 10889 5.992489 AAAAATAGATTTTCGTGCGCTTC 57.008 34.783 9.73 0.35 38.92 3.86
5941 10912 0.597898 TCGTCGATTTTGGTGTCGCA 60.598 50.000 0.00 0.00 37.74 5.10
6044 11015 6.200854 CCAAAACAAACTAGAGGCACATTTTC 59.799 38.462 0.00 0.00 0.00 2.29
6420 11391 5.754890 GTGAAGCTGGATGAACATTTTTGTT 59.245 36.000 0.00 0.00 34.29 2.83
6487 11458 6.618287 TGTCGATTATTTGATGGACATTCC 57.382 37.500 0.00 0.00 39.04 3.01


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.