Multiple sequence alignment - TraesCS7A01G011800

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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 TraesCS7A01G011800 chr7A 100.000 4444 0 0 1 4444 5150100 5154543 0.000000e+00 8207.0
1 TraesCS7A01G011800 chr7A 88.496 1582 137 21 2903 4444 14773549 14771973 0.000000e+00 1871.0
2 TraesCS7A01G011800 chr7A 88.129 1550 139 20 2935 4444 14745615 14747159 0.000000e+00 1801.0
3 TraesCS7A01G011800 chr7A 87.115 877 89 14 737 1610 14821684 14820829 0.000000e+00 972.0
4 TraesCS7A01G011800 chr7A 86.538 676 76 9 2903 3566 14820831 14820159 0.000000e+00 730.0
5 TraesCS7A01G011800 chr7A 85.462 736 60 17 599 1315 14774790 14774083 0.000000e+00 723.0
6 TraesCS7A01G011800 chr7A 87.304 638 59 9 599 1222 5171071 5171700 0.000000e+00 710.0
7 TraesCS7A01G011800 chr7A 93.949 314 5 3 1635 1939 25584794 25585102 3.130000e-126 462.0
8 TraesCS7A01G011800 chr7A 81.528 563 94 6 2903 3464 91294880 91295433 5.240000e-124 455.0
9 TraesCS7A01G011800 chr7A 93.603 297 19 0 1314 1610 14773843 14773547 1.130000e-120 444.0
10 TraesCS7A01G011800 chr7A 91.483 317 15 6 1635 1939 687451993 687452309 4.110000e-115 425.0
11 TraesCS7A01G011800 chr7A 93.782 193 0 5 2722 2903 56770934 56771125 3.380000e-71 279.0
12 TraesCS7A01G011800 chr7A 78.947 133 26 2 4264 4395 164396650 164396781 6.120000e-14 89.8
13 TraesCS7A01G011800 chr7D 89.575 1669 88 27 1 1610 15854245 15852604 0.000000e+00 2039.0
14 TraesCS7A01G011800 chr7D 87.119 1312 121 25 3179 4444 15840987 15839678 0.000000e+00 1443.0
15 TraesCS7A01G011800 chr7D 89.065 759 65 10 853 1610 15913424 15912683 0.000000e+00 926.0
16 TraesCS7A01G011800 chr7D 86.377 668 84 5 2903 3566 15912685 15912021 0.000000e+00 723.0
17 TraesCS7A01G011800 chr7D 92.191 461 29 4 2442 2902 125376868 125376415 0.000000e+00 645.0
18 TraesCS7A01G011800 chr7D 90.610 426 32 7 2477 2902 476316939 476317356 3.880000e-155 558.0
19 TraesCS7A01G011800 chr7D 90.311 289 7 8 1935 2202 347311669 347311381 4.230000e-95 359.0
20 TraesCS7A01G011800 chr7D 75.083 602 127 16 1019 1610 16004439 16003851 4.410000e-65 259.0
21 TraesCS7A01G011800 chr7D 79.562 137 27 1 4259 4395 163253501 163253636 3.660000e-16 97.1
22 TraesCS7A01G011800 chr4A 85.938 1152 109 28 3314 4444 719141888 719143007 0.000000e+00 1181.0
23 TraesCS7A01G011800 chr4A 86.490 829 98 7 786 1610 719052329 719053147 0.000000e+00 898.0
24 TraesCS7A01G011800 chr4A 91.429 630 53 1 981 1610 719140735 719141363 0.000000e+00 863.0
25 TraesCS7A01G011800 chr4A 86.547 669 81 8 2903 3566 719053145 719053809 0.000000e+00 728.0
26 TraesCS7A01G011800 chr4A 89.655 493 33 9 419 902 719140252 719140735 2.940000e-171 612.0
27 TraesCS7A01G011800 chr4A 91.542 402 34 0 2903 3304 719141361 719141762 5.020000e-154 555.0
28 TraesCS7A01G011800 chr4A 92.059 340 21 5 1 340 719137741 719138074 1.450000e-129 473.0
29 TraesCS7A01G011800 chr4A 92.971 313 14 4 1635 1939 352063202 352063514 2.440000e-122 449.0
30 TraesCS7A01G011800 chr4A 91.824 318 13 5 1635 1939 714672849 714672532 8.830000e-117 431.0
31 TraesCS7A01G011800 chr4A 83.603 433 71 0 2908 3340 718968563 718968995 1.490000e-109 407.0
32 TraesCS7A01G011800 chr4A 83.603 433 71 0 2908 3340 718980810 718981242 1.490000e-109 407.0
33 TraesCS7A01G011800 chr4A 97.674 43 1 0 379 421 719140197 719140239 1.710000e-09 75.0
34 TraesCS7A01G011800 chr3D 86.667 840 87 15 779 1610 584931577 584932399 0.000000e+00 907.0
35 TraesCS7A01G011800 chr3D 87.275 668 78 5 2903 3566 584932397 584933061 0.000000e+00 756.0
36 TraesCS7A01G011800 chr3D 88.563 341 12 9 1935 2254 246000493 246000827 5.390000e-104 388.0
37 TraesCS7A01G011800 chr3D 80.000 245 21 13 1602 1836 571830693 571830919 5.950000e-34 156.0
38 TraesCS7A01G011800 chr3D 100.000 32 0 0 1606 1637 70994732 70994763 4.800000e-05 60.2
39 TraesCS7A01G011800 chr3D 94.737 38 2 0 1600 1637 73125140 73125103 4.800000e-05 60.2
40 TraesCS7A01G011800 chr3D 76.923 130 13 7 1604 1731 570644563 570644677 1.730000e-04 58.4
41 TraesCS7A01G011800 chr7B 87.585 733 76 8 880 1610 711385357 711384638 0.000000e+00 835.0
42 TraesCS7A01G011800 chr7B 91.824 318 13 4 1635 1939 637425963 637425646 8.830000e-117 431.0
43 TraesCS7A01G011800 chr7B 90.764 314 16 8 1635 1937 159739701 159739390 1.490000e-109 407.0
44 TraesCS7A01G011800 chr7B 83.413 416 63 4 3151 3562 711364133 711363720 9.020000e-102 381.0
45 TraesCS7A01G011800 chr7B 80.292 137 26 1 4259 4395 125501344 125501479 7.860000e-18 102.0
46 TraesCS7A01G011800 chr7B 77.099 131 13 6 1604 1732 431465923 431466038 4.800000e-05 60.2
47 TraesCS7A01G011800 chr1A 94.243 469 23 4 2439 2905 584555450 584554984 0.000000e+00 713.0
48 TraesCS7A01G011800 chr1A 88.525 427 21 11 1935 2338 574852161 574851740 3.990000e-135 492.0
49 TraesCS7A01G011800 chr1A 94.855 311 10 4 1635 1939 559365452 559365762 8.650000e-132 481.0
50 TraesCS7A01G011800 chr1A 94.000 300 15 3 2153 2451 379988609 379988312 6.780000e-123 451.0
51 TraesCS7A01G011800 chr1A 93.464 306 14 5 2150 2451 359843078 359843381 2.440000e-122 449.0
52 TraesCS7A01G011800 chr1A 92.722 316 14 7 2150 2459 170252343 170252655 8.770000e-122 448.0
53 TraesCS7A01G011800 chr1A 92.508 307 16 4 1635 1939 590118899 590119200 2.460000e-117 433.0
54 TraesCS7A01G011800 chr1A 93.562 233 10 2 1637 1864 411212446 411212214 4.260000e-90 342.0
55 TraesCS7A01G011800 chr1A 87.302 315 14 8 1650 1939 393969551 393969238 1.980000e-88 337.0
56 TraesCS7A01G011800 chr1A 94.064 219 8 2 1637 1850 411181592 411181374 1.190000e-85 327.0
57 TraesCS7A01G011800 chr1A 93.237 207 9 2 1635 1836 129639650 129639856 2.600000e-77 300.0
58 TraesCS7A01G011800 chr1A 85.113 309 24 14 1650 1937 166330468 166330161 3.360000e-76 296.0
59 TraesCS7A01G011800 chr1A 79.528 127 9 7 1607 1731 17535036 17535147 1.710000e-09 75.0
60 TraesCS7A01G011800 chr1D 90.441 544 26 12 1935 2455 16427355 16426815 0.000000e+00 693.0
61 TraesCS7A01G011800 chr1D 88.993 427 23 9 1935 2338 45542062 45541637 1.430000e-139 507.0
62 TraesCS7A01G011800 chr1D 88.056 427 20 8 1935 2339 367946944 367946527 1.120000e-130 477.0
63 TraesCS7A01G011800 chr1D 93.528 309 13 6 2150 2455 37289326 37289630 1.880000e-123 453.0
64 TraesCS7A01G011800 chr1D 96.335 191 6 1 1750 1939 35381782 35381972 3.340000e-81 313.0
65 TraesCS7A01G011800 chr1D 93.720 207 7 3 1635 1836 231839504 231839709 5.580000e-79 305.0
66 TraesCS7A01G011800 chr1D 93.171 205 10 3 1635 1836 367947549 367947346 9.340000e-77 298.0
67 TraesCS7A01G011800 chr1D 93.500 200 4 4 1749 1939 4257373 4257572 5.620000e-74 289.0
68 TraesCS7A01G011800 chr1D 92.195 205 12 2 1635 1836 16428028 16427825 2.020000e-73 287.0
69 TraesCS7A01G011800 chr1D 91.905 210 8 4 1635 1836 157977638 157977846 7.280000e-73 285.0
70 TraesCS7A01G011800 chr1D 100.000 31 0 0 1607 1637 475036916 475036886 1.730000e-04 58.4
71 TraesCS7A01G011800 chr1D 76.224 143 13 10 1593 1731 486531984 486532109 6.210000e-04 56.5
72 TraesCS7A01G011800 chr4B 92.672 464 32 2 2440 2902 419123474 419123936 0.000000e+00 667.0
73 TraesCS7A01G011800 chr4B 92.857 308 16 6 2150 2457 275575528 275575829 4.080000e-120 442.0
74 TraesCS7A01G011800 chr4B 90.446 314 18 7 1635 1937 109342297 109342609 1.930000e-108 403.0
75 TraesCS7A01G011800 chr4B 90.506 316 12 8 1635 1937 304640283 304639973 6.920000e-108 401.0
76 TraesCS7A01G011800 chr4B 89.623 318 17 10 1635 1937 251782763 251783079 1.500000e-104 390.0
77 TraesCS7A01G011800 chr4B 89.375 320 19 8 1635 1939 123579836 123579517 5.390000e-104 388.0
78 TraesCS7A01G011800 chr4B 95.775 213 8 1 1935 2147 559618152 559618363 4.260000e-90 342.0
79 TraesCS7A01G011800 chr6D 88.766 543 24 14 1935 2455 444787954 444788481 8.110000e-177 630.0
80 TraesCS7A01G011800 chr6D 88.967 426 22 10 1931 2338 381987514 381987096 1.850000e-138 503.0
81 TraesCS7A01G011800 chr6D 88.081 344 11 9 1935 2254 445017154 445016817 9.020000e-102 381.0
82 TraesCS7A01G011800 chr6D 87.870 338 16 10 1935 2254 19916580 19916910 1.510000e-99 374.0
83 TraesCS7A01G011800 chr6D 95.735 211 9 0 1935 2145 255283908 255283698 1.530000e-89 340.0
84 TraesCS7A01G011800 chr6D 95.305 213 9 1 1935 2147 313425720 313425931 1.980000e-88 337.0
85 TraesCS7A01G011800 chr6D 95.283 212 9 1 1935 2146 260618291 260618081 7.120000e-88 335.0
86 TraesCS7A01G011800 chr6D 93.694 222 11 3 1938 2157 271134649 271134429 3.310000e-86 329.0
87 TraesCS7A01G011800 chr6D 85.714 301 31 8 1650 1939 244695005 244695304 1.550000e-79 307.0
88 TraesCS7A01G011800 chr6D 93.204 206 9 3 1635 1836 4184691 4184895 9.340000e-77 298.0
89 TraesCS7A01G011800 chr6D 92.718 206 10 3 1635 1836 42062069 42062273 4.350000e-75 292.0
90 TraesCS7A01G011800 chr6D 91.388 209 10 4 1635 1836 334907375 334907168 3.380000e-71 279.0
91 TraesCS7A01G011800 chr6D 76.984 126 12 7 1608 1731 51613645 51613535 6.210000e-04 56.5
92 TraesCS7A01G011800 chr6D 76.984 126 12 7 1608 1731 359836787 359836677 6.210000e-04 56.5
93 TraesCS7A01G011800 chr5A 91.814 452 31 3 2451 2902 678440261 678439816 3.770000e-175 625.0
94 TraesCS7A01G011800 chr5A 90.736 421 21 7 2440 2860 89952225 89951823 3.020000e-151 545.0
95 TraesCS7A01G011800 chr5A 94.408 304 14 3 2150 2451 121960009 121960311 8.710000e-127 464.0
96 TraesCS7A01G011800 chr5A 91.250 320 9 10 1635 1937 678441336 678441019 6.870000e-113 418.0
97 TraesCS7A01G011800 chr5A 76.471 136 14 8 1599 1731 527210136 527210016 1.730000e-04 58.4
98 TraesCS7A01G011800 chr4D 91.026 468 30 6 2439 2902 508492013 508492472 4.880000e-174 621.0
99 TraesCS7A01G011800 chr4D 88.084 428 21 11 1935 2342 431961678 431962095 8.650000e-132 481.0
100 TraesCS7A01G011800 chr4D 87.059 340 15 12 1935 2254 146455336 146455006 1.520000e-94 357.0
101 TraesCS7A01G011800 chr4D 95.735 211 5 4 1935 2142 507918739 507918948 1.980000e-88 337.0
102 TraesCS7A01G011800 chr4D 95.673 208 9 0 1935 2142 168258801 168259008 7.120000e-88 335.0
103 TraesCS7A01G011800 chr4D 93.237 207 8 3 1635 1836 501580968 501580763 2.600000e-77 300.0
104 TraesCS7A01G011800 chr4D 91.748 206 12 2 1635 1836 146456342 146456138 9.410000e-72 281.0
105 TraesCS7A01G011800 chr4D 91.748 206 12 3 1635 1836 428470463 428470259 9.410000e-72 281.0
106 TraesCS7A01G011800 chr4D 91.133 203 11 3 1635 1836 60772108 60772304 7.330000e-68 268.0
107 TraesCS7A01G011800 chr4D 90.686 204 15 4 1635 1836 89957421 89957220 7.330000e-68 268.0
108 TraesCS7A01G011800 chr4D 77.863 131 12 8 1603 1731 48552504 48552619 1.030000e-06 65.8
109 TraesCS7A01G011800 chr4D 77.778 126 11 8 1608 1731 286022021 286021911 1.330000e-05 62.1
110 TraesCS7A01G011800 chr4D 76.923 130 12 8 1605 1731 163826009 163825895 1.730000e-04 58.4
111 TraesCS7A01G011800 chr2D 92.288 389 21 6 2439 2824 511155002 511154620 1.090000e-150 544.0
112 TraesCS7A01G011800 chr2D 88.056 427 20 8 1935 2339 17007188 17007605 1.120000e-130 477.0
113 TraesCS7A01G011800 chr2D 88.146 329 14 7 1935 2242 532575447 532575771 7.020000e-98 368.0
114 TraesCS7A01G011800 chr5D 88.759 427 37 8 2477 2902 564499531 564499115 3.070000e-141 512.0
115 TraesCS7A01G011800 chr5D 92.949 312 12 5 2149 2455 478412302 478412608 3.150000e-121 446.0
116 TraesCS7A01G011800 chr5D 85.714 420 38 12 1935 2338 280123089 280123502 1.480000e-114 424.0
117 TraesCS7A01G011800 chr5D 96.313 217 6 2 1935 2150 443790340 443790555 5.470000e-94 355.0
118 TraesCS7A01G011800 chr5D 77.692 130 11 8 1604 1731 529679843 529679730 3.710000e-06 63.9
119 TraesCS7A01G011800 chr5D 76.923 130 13 7 1604 1731 439091681 439091795 1.730000e-04 58.4
120 TraesCS7A01G011800 chrUn 88.652 423 27 7 1935 2338 468309562 468309982 3.090000e-136 496.0
121 TraesCS7A01G011800 chrUn 88.679 424 23 13 1935 2338 1552254 1551836 1.110000e-135 494.0
122 TraesCS7A01G011800 chrUn 88.679 424 20 14 1935 2338 464000167 464000582 3.990000e-135 492.0
123 TraesCS7A01G011800 chrUn 87.707 423 30 8 1935 2338 210405357 210404938 1.450000e-129 473.0
124 TraesCS7A01G011800 chrUn 87.793 426 25 15 1935 2338 463029683 463029263 1.450000e-129 473.0
125 TraesCS7A01G011800 chrUn 91.167 317 14 7 1635 1939 290808272 290808586 6.870000e-113 418.0
126 TraesCS7A01G011800 chrUn 90.881 318 15 6 1635 1939 287106850 287107166 8.890000e-112 414.0
127 TraesCS7A01G011800 chrUn 91.026 312 17 8 1635 1936 34495555 34495865 1.150000e-110 411.0
128 TraesCS7A01G011800 chrUn 88.955 335 20 7 1935 2254 287107322 287107654 8.960000e-107 398.0
129 TraesCS7A01G011800 chrUn 87.870 338 16 10 1935 2254 411714158 411714488 1.510000e-99 374.0
130 TraesCS7A01G011800 chrUn 87.812 320 23 6 1635 1939 233519290 233519608 1.180000e-95 361.0
131 TraesCS7A01G011800 chrUn 86.804 341 18 9 1935 2254 314723729 314723395 5.470000e-94 355.0
132 TraesCS7A01G011800 chrUn 90.323 279 14 9 1935 2202 29959523 29959799 1.970000e-93 353.0
133 TraesCS7A01G011800 chrUn 95.694 209 8 1 1935 2142 399890117 399889909 7.120000e-88 335.0
134 TraesCS7A01G011800 chrUn 85.337 341 23 8 1935 2254 443322021 443321687 1.190000e-85 327.0
135 TraesCS7A01G011800 chrUn 86.164 318 15 11 1650 1939 4865457 4865773 2.580000e-82 316.0
136 TraesCS7A01G011800 chrUn 93.627 204 10 2 1635 1836 104914898 104914696 7.220000e-78 302.0
137 TraesCS7A01G011800 chrUn 94.030 201 5 6 1746 1939 49864090 49863890 9.340000e-77 298.0
138 TraesCS7A01G011800 chrUn 84.242 330 26 13 1635 1939 464795238 464795566 9.340000e-77 298.0
139 TraesCS7A01G011800 chrUn 92.965 199 8 5 1747 1939 461850187 461850385 7.280000e-73 285.0
140 TraesCS7A01G011800 chrUn 91.549 213 6 4 1635 1836 89466908 89466697 2.620000e-72 283.0
141 TraesCS7A01G011800 chrUn 92.462 199 10 5 1746 1939 324408954 324408756 3.380000e-71 279.0
142 TraesCS7A01G011800 chrUn 91.121 214 6 4 1635 1836 89461214 89461002 1.220000e-70 278.0
143 TraesCS7A01G011800 chrUn 81.361 338 63 0 1245 1582 91407520 91407183 4.380000e-70 276.0
144 TraesCS7A01G011800 chrUn 90.821 207 13 4 1635 1835 271885071 271884865 5.660000e-69 272.0
145 TraesCS7A01G011800 chrUn 90.821 207 13 4 1635 1835 411334145 411334351 5.660000e-69 272.0
146 TraesCS7A01G011800 chrUn 90.385 208 13 3 1635 1835 15407964 15408171 2.640000e-67 267.0
147 TraesCS7A01G011800 chrUn 90.187 214 8 4 1635 1836 89458634 89458422 2.640000e-67 267.0
148 TraesCS7A01G011800 chrUn 89.904 208 13 4 1635 1835 323184232 323184026 1.230000e-65 261.0
149 TraesCS7A01G011800 chrUn 88.318 214 12 8 1635 1836 309526783 309526995 1.230000e-60 244.0
150 TraesCS7A01G011800 chrUn 86.782 174 11 5 1635 1797 337245976 337245804 2.730000e-42 183.0
151 TraesCS7A01G011800 chrUn 80.952 126 12 4 1610 1733 79743858 79743743 6.120000e-14 89.8
152 TraesCS7A01G011800 chrUn 77.953 127 9 8 1608 1731 3330845 3330955 1.330000e-05 62.1
153 TraesCS7A01G011800 chrUn 100.000 31 0 0 1607 1637 371339240 371339270 1.730000e-04 58.4
154 TraesCS7A01G011800 chrUn 76.923 130 13 7 1604 1731 476169260 476169374 1.730000e-04 58.4
155 TraesCS7A01G011800 chrUn 97.059 34 0 1 1604 1637 388043207 388043175 6.210000e-04 56.5
156 TraesCS7A01G011800 chrUn 100.000 29 0 0 1609 1637 10377871 10377899 2.000000e-03 54.7
157 TraesCS7A01G011800 chrUn 100.000 29 0 0 1609 1637 32235748 32235720 2.000000e-03 54.7
158 TraesCS7A01G011800 chrUn 76.515 132 12 8 1603 1731 99422482 99422367 2.000000e-03 54.7
159 TraesCS7A01G011800 chrUn 100.000 29 0 0 1609 1637 265959593 265959565 2.000000e-03 54.7
160 TraesCS7A01G011800 chrUn 100.000 29 0 0 1609 1637 265968571 265968543 2.000000e-03 54.7
161 TraesCS7A01G011800 chr2A 94.788 307 12 2 1635 1939 96289713 96289409 4.020000e-130 475.0
162 TraesCS7A01G011800 chr2A 92.628 312 16 5 1635 1939 250348605 250348916 4.080000e-120 442.0
163 TraesCS7A01G011800 chr2A 92.308 312 14 5 1635 1939 243008674 243008366 6.830000e-118 435.0
164 TraesCS7A01G011800 chr2A 87.861 346 17 6 1931 2254 243036391 243036049 2.510000e-102 383.0
165 TraesCS7A01G011800 chr2A 77.778 135 12 9 1600 1731 315784282 315784401 2.870000e-07 67.6
166 TraesCS7A01G011800 chr2A 100.000 33 0 0 1605 1637 776085940 776085972 1.330000e-05 62.1
167 TraesCS7A01G011800 chr2A 100.000 28 0 0 1610 1637 111084232 111084205 8.000000e-03 52.8
168 TraesCS7A01G011800 chr3A 94.212 311 12 5 1635 1939 143951667 143951357 1.870000e-128 470.0
169 TraesCS7A01G011800 chr3A 93.311 299 10 7 1650 1939 31249718 31249421 2.460000e-117 433.0
170 TraesCS7A01G011800 chr3A 91.456 316 13 8 1635 1937 464101166 464101480 5.310000e-114 422.0
171 TraesCS7A01G011800 chr3A 88.824 340 15 6 1935 2254 45224591 45224255 3.220000e-106 396.0
172 TraesCS7A01G011800 chr3A 77.206 136 8 11 1601 1731 167338803 167338920 1.730000e-04 58.4
173 TraesCS7A01G011800 chr2B 93.688 301 15 4 2153 2451 38960863 38960565 8.770000e-122 448.0
174 TraesCS7A01G011800 chr2B 90.462 325 18 9 1635 1947 755797319 755796996 2.470000e-112 416.0
175 TraesCS7A01G011800 chr2B 79.130 115 6 8 1601 1712 263092182 263092281 3.710000e-06 63.9
176 TraesCS7A01G011800 chr6B 91.961 311 16 7 1635 1937 352191915 352191606 1.140000e-115 427.0
177 TraesCS7A01G011800 chr6B 88.379 327 16 8 1635 1939 13043351 13043025 1.510000e-99 374.0
178 TraesCS7A01G011800 chr6B 89.355 310 16 9 1635 1937 306603463 306603762 1.510000e-99 374.0
179 TraesCS7A01G011800 chr6B 94.468 235 9 3 1635 1865 261811582 261811348 4.230000e-95 359.0
180 TraesCS7A01G011800 chr6B 78.030 132 10 10 1603 1731 643599763 643599648 1.030000e-06 65.8
181 TraesCS7A01G011800 chr3B 90.415 313 18 8 1634 1937 772699491 772699182 6.920000e-108 401.0
182 TraesCS7A01G011800 chr3B 91.273 275 15 5 1935 2202 150511725 150511997 2.530000e-97 366.0
183 TraesCS7A01G011800 chr3B 97.143 35 0 1 1603 1637 320569513 320569480 1.730000e-04 58.4
184 TraesCS7A01G011800 chr5B 90.354 311 18 8 1635 1937 600718652 600718346 8.960000e-107 398.0
185 TraesCS7A01G011800 chr6A 89.597 298 20 9 1650 1937 438424350 438424646 7.020000e-98 368.0
186 TraesCS7A01G011800 chr6A 88.372 301 21 10 1650 1937 62573415 62573714 2.540000e-92 350.0
187 TraesCS7A01G011800 chr6A 86.589 343 14 9 1935 2254 510347759 510347426 2.540000e-92 350.0
188 TraesCS7A01G011800 chr6A 100.000 150 0 0 2753 2902 377533526 377533377 1.220000e-70 278.0
189 TraesCS7A01G011800 chr6A 76.224 143 18 7 1591 1731 95933545 95933417 1.330000e-05 62.1
190 TraesCS7A01G011800 chr6A 77.344 128 12 7 1606 1731 241520775 241520663 4.800000e-05 60.2
191 TraesCS7A01G011800 chr6A 92.500 40 3 0 1597 1636 554980680 554980719 1.730000e-04 58.4


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 TraesCS7A01G011800 chr7A 5150100 5154543 4443 False 8207.000000 8207 100.000000 1 4444 1 chr7A.!!$F1 4443
1 TraesCS7A01G011800 chr7A 14745615 14747159 1544 False 1801.000000 1801 88.129000 2935 4444 1 chr7A.!!$F3 1509
2 TraesCS7A01G011800 chr7A 14771973 14774790 2817 True 1012.666667 1871 89.187000 599 4444 3 chr7A.!!$R1 3845
3 TraesCS7A01G011800 chr7A 14820159 14821684 1525 True 851.000000 972 86.826500 737 3566 2 chr7A.!!$R2 2829
4 TraesCS7A01G011800 chr7A 5171071 5171700 629 False 710.000000 710 87.304000 599 1222 1 chr7A.!!$F2 623
5 TraesCS7A01G011800 chr7A 91294880 91295433 553 False 455.000000 455 81.528000 2903 3464 1 chr7A.!!$F6 561
6 TraesCS7A01G011800 chr7D 15852604 15854245 1641 True 2039.000000 2039 89.575000 1 1610 1 chr7D.!!$R2 1609
7 TraesCS7A01G011800 chr7D 15839678 15840987 1309 True 1443.000000 1443 87.119000 3179 4444 1 chr7D.!!$R1 1265
8 TraesCS7A01G011800 chr7D 15912021 15913424 1403 True 824.500000 926 87.721000 853 3566 2 chr7D.!!$R6 2713
9 TraesCS7A01G011800 chr7D 16003851 16004439 588 True 259.000000 259 75.083000 1019 1610 1 chr7D.!!$R3 591
10 TraesCS7A01G011800 chr4A 719052329 719053809 1480 False 813.000000 898 86.518500 786 3566 2 chr4A.!!$F4 2780
11 TraesCS7A01G011800 chr4A 719137741 719143007 5266 False 626.500000 1181 91.382833 1 4444 6 chr4A.!!$F5 4443
12 TraesCS7A01G011800 chr3D 584931577 584933061 1484 False 831.500000 907 86.971000 779 3566 2 chr3D.!!$F5 2787
13 TraesCS7A01G011800 chr7B 711384638 711385357 719 True 835.000000 835 87.585000 880 1610 1 chr7B.!!$R4 730
14 TraesCS7A01G011800 chr1D 16426815 16428028 1213 True 490.000000 693 91.318000 1635 2455 2 chr1D.!!$R3 820
15 TraesCS7A01G011800 chr1D 367946527 367947549 1022 True 387.500000 477 90.613500 1635 2339 2 chr1D.!!$R4 704
16 TraesCS7A01G011800 chr6D 444787954 444788481 527 False 630.000000 630 88.766000 1935 2455 1 chr6D.!!$F6 520
17 TraesCS7A01G011800 chr5A 678439816 678441336 1520 True 521.500000 625 91.532000 1635 2902 2 chr5A.!!$R3 1267
18 TraesCS7A01G011800 chr4D 146455006 146456342 1336 True 319.000000 357 89.403500 1635 2254 2 chr4D.!!$R6 619
19 TraesCS7A01G011800 chrUn 287106850 287107654 804 False 406.000000 414 89.918000 1635 2254 2 chrUn.!!$F18 619
20 TraesCS7A01G011800 chrUn 89458422 89461214 2792 True 272.500000 278 90.654000 1635 1836 2 chrUn.!!$R21 201

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
304 311 0.469331 AATCATCGCCGTCCCCTCTA 60.469 55.0 0.0 0.0 0.00 2.43 F
1588 4007 0.178926 TTGGGTGGGACGTTCTCCTA 60.179 55.0 0.0 0.0 39.39 2.94 F
2759 8409 0.319641 GGCCTATACTACTGGTGCGC 60.320 60.0 0.0 0.0 0.00 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1624 4043 0.679505 TGACGCACCATCTATAGCCC 59.320 55.0 0.00 0.0 0.00 5.19 R
2775 8425 0.107897 CCACTGGTGCGCCATTAGTA 60.108 55.0 21.54 0.0 45.05 1.82 R
3591 9368 0.254589 ATTGGGTAATGGGGAGGGGT 60.255 55.0 0.00 0.0 0.00 4.95 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
162 163 2.514458 CAGCCCACCTGGATAACTTT 57.486 50.000 0.00 0.00 37.93 2.66
163 164 2.094675 CAGCCCACCTGGATAACTTTG 58.905 52.381 0.00 0.00 37.93 2.77
169 170 5.538118 CCCACCTGGATAACTTTGTTTTTC 58.462 41.667 0.00 0.00 37.39 2.29
170 171 5.069781 CCCACCTGGATAACTTTGTTTTTCA 59.930 40.000 0.00 0.00 37.39 2.69
304 311 0.469331 AATCATCGCCGTCCCCTCTA 60.469 55.000 0.00 0.00 0.00 2.43
467 2600 3.914426 ATTATTCAGGGCGTCTTGTCT 57.086 42.857 0.00 0.00 0.00 3.41
481 2614 5.615708 CGTCTTGTCTTTGATGTTGATCAG 58.384 41.667 0.00 0.00 39.81 2.90
485 2618 7.802251 GTCTTGTCTTTGATGTTGATCAGAAAG 59.198 37.037 0.00 1.89 39.81 2.62
509 2642 6.099845 AGGAAATAGATTAGATCACCAACGGT 59.900 38.462 0.00 0.00 35.62 4.83
510 2643 7.289317 AGGAAATAGATTAGATCACCAACGGTA 59.711 37.037 0.00 0.00 32.11 4.02
511 2644 7.599245 GGAAATAGATTAGATCACCAACGGTAG 59.401 40.741 0.00 0.00 32.11 3.18
576 2717 2.076100 ACCATCACGTTACACATGCTG 58.924 47.619 0.00 0.00 0.00 4.41
643 2784 5.680594 AAAATGGCTGCATTCCTTAATCA 57.319 34.783 0.50 0.00 0.00 2.57
681 2822 3.484953 TTAAGGTTAGGCTGGAGGAGA 57.515 47.619 0.00 0.00 0.00 3.71
728 2880 3.008594 TGATTGTTATCCAGGTCACGGTT 59.991 43.478 0.00 0.00 0.00 4.44
774 2926 0.928229 GTCGATATCTTGCCGCGTTT 59.072 50.000 4.92 0.00 0.00 3.60
775 2927 1.326548 GTCGATATCTTGCCGCGTTTT 59.673 47.619 4.92 0.00 0.00 2.43
776 2928 2.536803 GTCGATATCTTGCCGCGTTTTA 59.463 45.455 4.92 0.00 0.00 1.52
777 2929 3.000523 GTCGATATCTTGCCGCGTTTTAA 59.999 43.478 4.92 0.00 0.00 1.52
848 3003 6.093219 CCATGCTTATTACAGCTAGCCTATTG 59.907 42.308 12.13 5.55 40.79 1.90
859 3014 4.646492 AGCTAGCCTATTGGGAATTTTGTG 59.354 41.667 12.13 0.00 37.23 3.33
910 3076 7.792374 TCCAGTTCATTCTTCTAATACATGC 57.208 36.000 0.00 0.00 0.00 4.06
911 3077 7.337938 TCCAGTTCATTCTTCTAATACATGCA 58.662 34.615 0.00 0.00 0.00 3.96
912 3078 7.994911 TCCAGTTCATTCTTCTAATACATGCAT 59.005 33.333 0.00 0.00 0.00 3.96
1082 3256 0.970937 CTGGGCCTGGTCTCGTTCTA 60.971 60.000 4.53 0.00 0.00 2.10
1193 3367 3.493350 CCTGATGTCCCTATGTCCTTTCG 60.493 52.174 0.00 0.00 0.00 3.46
1281 3458 2.357009 CCAAGACACCTATCATTGCTGC 59.643 50.000 0.00 0.00 0.00 5.25
1360 3779 2.298729 GGGTTTTGCTTCAATGGTGCTA 59.701 45.455 0.00 0.00 0.00 3.49
1455 3874 1.080298 CCCACAACTACCGGTCGTC 60.080 63.158 12.40 0.00 0.00 4.20
1504 3923 4.406456 CCTCACTACTCCTCTAGCATCAT 58.594 47.826 0.00 0.00 0.00 2.45
1550 3969 3.560503 TCGGATCACGCAATTTGTTTTC 58.439 40.909 0.00 0.00 43.86 2.29
1588 4007 0.178926 TTGGGTGGGACGTTCTCCTA 60.179 55.000 0.00 0.00 39.39 2.94
1596 4015 2.224305 GGGACGTTCTCCTAATGATGGG 60.224 54.545 0.00 0.00 39.39 4.00
1607 4026 1.868713 AATGATGGGCCAATCAAGCA 58.131 45.000 26.79 4.10 39.90 3.91
1608 4027 1.868713 ATGATGGGCCAATCAAGCAA 58.131 45.000 26.79 2.93 39.90 3.91
1609 4028 1.642112 TGATGGGCCAATCAAGCAAA 58.358 45.000 21.20 0.00 33.63 3.68
1610 4029 1.275856 TGATGGGCCAATCAAGCAAAC 59.724 47.619 21.20 0.00 33.63 2.93
1611 4030 1.275856 GATGGGCCAATCAAGCAAACA 59.724 47.619 15.87 0.00 0.00 2.83
1612 4031 0.392336 TGGGCCAATCAAGCAAACAC 59.608 50.000 2.13 0.00 0.00 3.32
1613 4032 0.681175 GGGCCAATCAAGCAAACACT 59.319 50.000 4.39 0.00 0.00 3.55
1614 4033 1.892474 GGGCCAATCAAGCAAACACTA 59.108 47.619 4.39 0.00 0.00 2.74
1615 4034 2.352715 GGGCCAATCAAGCAAACACTAC 60.353 50.000 4.39 0.00 0.00 2.73
1616 4035 2.558359 GGCCAATCAAGCAAACACTACT 59.442 45.455 0.00 0.00 0.00 2.57
1617 4036 3.756434 GGCCAATCAAGCAAACACTACTA 59.244 43.478 0.00 0.00 0.00 1.82
1618 4037 4.142600 GGCCAATCAAGCAAACACTACTAG 60.143 45.833 0.00 0.00 0.00 2.57
1619 4038 4.695455 GCCAATCAAGCAAACACTACTAGA 59.305 41.667 0.00 0.00 0.00 2.43
1620 4039 5.181245 GCCAATCAAGCAAACACTACTAGAA 59.819 40.000 0.00 0.00 0.00 2.10
1621 4040 6.293955 GCCAATCAAGCAAACACTACTAGAAA 60.294 38.462 0.00 0.00 0.00 2.52
1622 4041 7.648142 CCAATCAAGCAAACACTACTAGAAAA 58.352 34.615 0.00 0.00 0.00 2.29
1623 4042 8.134895 CCAATCAAGCAAACACTACTAGAAAAA 58.865 33.333 0.00 0.00 0.00 1.94
1624 4043 9.173939 CAATCAAGCAAACACTACTAGAAAAAG 57.826 33.333 0.00 0.00 0.00 2.27
1625 4044 7.259290 TCAAGCAAACACTACTAGAAAAAGG 57.741 36.000 0.00 0.00 0.00 3.11
1626 4045 6.262273 TCAAGCAAACACTACTAGAAAAAGGG 59.738 38.462 0.00 0.00 0.00 3.95
1627 4046 4.519350 AGCAAACACTACTAGAAAAAGGGC 59.481 41.667 0.00 0.00 0.00 5.19
1628 4047 4.519350 GCAAACACTACTAGAAAAAGGGCT 59.481 41.667 0.00 0.00 0.00 5.19
1629 4048 5.704053 GCAAACACTACTAGAAAAAGGGCTA 59.296 40.000 0.00 0.00 0.00 3.93
1630 4049 6.374613 GCAAACACTACTAGAAAAAGGGCTAT 59.625 38.462 0.00 0.00 0.00 2.97
1631 4050 7.551617 GCAAACACTACTAGAAAAAGGGCTATA 59.448 37.037 0.00 0.00 0.00 1.31
1632 4051 9.099454 CAAACACTACTAGAAAAAGGGCTATAG 57.901 37.037 0.00 0.00 0.00 1.31
1633 4052 8.605325 AACACTACTAGAAAAAGGGCTATAGA 57.395 34.615 3.21 0.00 0.00 1.98
1641 4060 1.424638 AAGGGCTATAGATGGTGCGT 58.575 50.000 3.21 0.00 0.00 5.24
1959 6069 6.011481 AGTTACATTTGAATTTAACCGGGGA 58.989 36.000 6.32 0.00 33.94 4.81
2157 7324 9.605955 AAAAATAAAAATAAAAAGTGATGCGCC 57.394 25.926 4.18 0.00 0.00 6.53
2158 7325 7.897575 AATAAAAATAAAAAGTGATGCGCCA 57.102 28.000 4.18 0.00 0.00 5.69
2159 7326 8.491331 AATAAAAATAAAAAGTGATGCGCCAT 57.509 26.923 4.18 0.00 0.00 4.40
2160 7327 6.799926 AAAAATAAAAAGTGATGCGCCATT 57.200 29.167 4.18 0.00 0.00 3.16
2161 7328 7.897575 AAAAATAAAAAGTGATGCGCCATTA 57.102 28.000 4.18 0.00 0.00 1.90
2162 7329 7.524294 AAAATAAAAAGTGATGCGCCATTAG 57.476 32.000 4.18 0.00 0.00 1.73
2163 7330 5.835113 ATAAAAAGTGATGCGCCATTAGT 57.165 34.783 4.18 0.00 0.00 2.24
2164 7331 6.935741 ATAAAAAGTGATGCGCCATTAGTA 57.064 33.333 4.18 0.00 0.00 1.82
2165 7332 5.835113 AAAAAGTGATGCGCCATTAGTAT 57.165 34.783 4.18 0.00 0.00 2.12
2166 7333 5.424121 AAAAGTGATGCGCCATTAGTATC 57.576 39.130 4.18 0.00 0.00 2.24
2167 7334 4.342862 AAGTGATGCGCCATTAGTATCT 57.657 40.909 4.18 0.00 32.96 1.98
2168 7335 4.342862 AGTGATGCGCCATTAGTATCTT 57.657 40.909 4.18 0.00 32.96 2.40
2169 7336 4.310769 AGTGATGCGCCATTAGTATCTTC 58.689 43.478 4.18 0.00 32.96 2.87
2170 7337 3.433615 GTGATGCGCCATTAGTATCTTCC 59.566 47.826 4.18 0.00 32.96 3.46
2171 7338 2.543777 TGCGCCATTAGTATCTTCCC 57.456 50.000 4.18 0.00 0.00 3.97
2172 7339 1.270094 TGCGCCATTAGTATCTTCCCG 60.270 52.381 4.18 0.00 0.00 5.14
2173 7340 1.429463 CGCCATTAGTATCTTCCCGC 58.571 55.000 0.00 0.00 0.00 6.13
2174 7341 1.809684 GCCATTAGTATCTTCCCGCC 58.190 55.000 0.00 0.00 0.00 6.13
2175 7342 1.348036 GCCATTAGTATCTTCCCGCCT 59.652 52.381 0.00 0.00 0.00 5.52
2176 7343 2.224548 GCCATTAGTATCTTCCCGCCTT 60.225 50.000 0.00 0.00 0.00 4.35
2177 7344 3.665190 CCATTAGTATCTTCCCGCCTTC 58.335 50.000 0.00 0.00 0.00 3.46
2178 7345 3.071023 CCATTAGTATCTTCCCGCCTTCA 59.929 47.826 0.00 0.00 0.00 3.02
2179 7346 4.444306 CCATTAGTATCTTCCCGCCTTCAA 60.444 45.833 0.00 0.00 0.00 2.69
2180 7347 4.829872 TTAGTATCTTCCCGCCTTCAAA 57.170 40.909 0.00 0.00 0.00 2.69
2181 7348 3.713826 AGTATCTTCCCGCCTTCAAAA 57.286 42.857 0.00 0.00 0.00 2.44
2182 7349 4.236527 AGTATCTTCCCGCCTTCAAAAT 57.763 40.909 0.00 0.00 0.00 1.82
2183 7350 4.600062 AGTATCTTCCCGCCTTCAAAATT 58.400 39.130 0.00 0.00 0.00 1.82
2184 7351 4.640647 AGTATCTTCCCGCCTTCAAAATTC 59.359 41.667 0.00 0.00 0.00 2.17
2185 7352 2.870175 TCTTCCCGCCTTCAAAATTCA 58.130 42.857 0.00 0.00 0.00 2.57
2186 7353 3.226777 TCTTCCCGCCTTCAAAATTCAA 58.773 40.909 0.00 0.00 0.00 2.69
2187 7354 3.639094 TCTTCCCGCCTTCAAAATTCAAA 59.361 39.130 0.00 0.00 0.00 2.69
2188 7355 4.100189 TCTTCCCGCCTTCAAAATTCAAAA 59.900 37.500 0.00 0.00 0.00 2.44
2189 7356 4.615588 TCCCGCCTTCAAAATTCAAAAT 57.384 36.364 0.00 0.00 0.00 1.82
2190 7357 5.730296 TCCCGCCTTCAAAATTCAAAATA 57.270 34.783 0.00 0.00 0.00 1.40
2191 7358 6.102897 TCCCGCCTTCAAAATTCAAAATAA 57.897 33.333 0.00 0.00 0.00 1.40
2192 7359 6.525629 TCCCGCCTTCAAAATTCAAAATAAA 58.474 32.000 0.00 0.00 0.00 1.40
2193 7360 7.164803 TCCCGCCTTCAAAATTCAAAATAAAT 58.835 30.769 0.00 0.00 0.00 1.40
2194 7361 7.333174 TCCCGCCTTCAAAATTCAAAATAAATC 59.667 33.333 0.00 0.00 0.00 2.17
2195 7362 7.118971 CCCGCCTTCAAAATTCAAAATAAATCA 59.881 33.333 0.00 0.00 0.00 2.57
2196 7363 8.502387 CCGCCTTCAAAATTCAAAATAAATCAA 58.498 29.630 0.00 0.00 0.00 2.57
2197 7364 9.875675 CGCCTTCAAAATTCAAAATAAATCAAA 57.124 25.926 0.00 0.00 0.00 2.69
2233 7400 9.734984 ATAAAAAGTTAGTAATAGTGCACCTGT 57.265 29.630 14.63 0.59 0.00 4.00
2269 7436 3.268023 AGTATCTTCCCGCCTTCAAAG 57.732 47.619 0.00 0.00 0.00 2.77
2442 7771 0.821517 CCGTATATATGGCTGGGCGA 59.178 55.000 8.08 0.00 0.00 5.54
2443 7772 1.470979 CCGTATATATGGCTGGGCGAC 60.471 57.143 8.08 0.00 0.00 5.19
2506 8133 1.293683 ACCTCCTCCTCCTCCTCTCC 61.294 65.000 0.00 0.00 0.00 3.71
2518 8145 2.352032 CCTCTCCGGCGAACTCCTT 61.352 63.158 9.30 0.00 0.00 3.36
2523 8150 3.488090 CGGCGAACTCCTTTCCGC 61.488 66.667 0.00 0.00 34.77 5.54
2534 8161 2.360801 CTCCTTTCCGCCAAAAGAACAA 59.639 45.455 6.97 0.00 38.30 2.83
2562 8189 7.169140 GCAAAAGAACGTACAAGATCCAAAAAT 59.831 33.333 0.00 0.00 0.00 1.82
2563 8190 9.672086 CAAAAGAACGTACAAGATCCAAAAATA 57.328 29.630 0.00 0.00 0.00 1.40
2572 8199 9.974980 GTACAAGATCCAAAAATAGGAACAAAA 57.025 29.630 0.00 0.00 38.93 2.44
2664 8291 5.755375 TCAAAATTCAAAAATAGCAACGGCA 59.245 32.000 0.00 0.00 44.61 5.69
2751 8401 1.269621 CGCACCAGTGGCCTATACTAC 60.270 57.143 9.78 0.00 0.00 2.73
2752 8402 2.040178 GCACCAGTGGCCTATACTACT 58.960 52.381 9.78 0.00 0.00 2.57
2753 8403 2.224066 GCACCAGTGGCCTATACTACTG 60.224 54.545 9.78 8.07 40.06 2.74
2756 8406 3.735237 CAGTGGCCTATACTACTGGTG 57.265 52.381 3.32 0.00 37.48 4.17
2757 8407 2.040178 AGTGGCCTATACTACTGGTGC 58.960 52.381 3.32 0.00 0.00 5.01
2758 8408 1.037493 TGGCCTATACTACTGGTGCG 58.963 55.000 3.32 0.00 0.00 5.34
2759 8409 0.319641 GGCCTATACTACTGGTGCGC 60.320 60.000 0.00 0.00 0.00 6.09
2760 8410 0.319641 GCCTATACTACTGGTGCGCC 60.320 60.000 10.11 10.11 0.00 6.53
2761 8411 1.037493 CCTATACTACTGGTGCGCCA 58.963 55.000 19.93 19.93 43.73 5.69
2762 8412 1.618837 CCTATACTACTGGTGCGCCAT 59.381 52.381 21.54 12.59 45.05 4.40
2763 8413 2.037251 CCTATACTACTGGTGCGCCATT 59.963 50.000 21.54 17.51 45.05 3.16
2764 8414 3.257375 CCTATACTACTGGTGCGCCATTA 59.743 47.826 21.54 17.72 45.05 1.90
2766 8416 3.760693 CTACTGGTGCGCCATTAGT 57.239 52.632 27.23 20.89 45.05 2.24
2767 8417 2.882927 CTACTGGTGCGCCATTAGTA 57.117 50.000 27.23 20.89 45.05 1.82
2768 8418 3.386768 CTACTGGTGCGCCATTAGTAT 57.613 47.619 27.23 10.73 45.05 2.12
2769 8419 4.514781 CTACTGGTGCGCCATTAGTATA 57.485 45.455 27.23 11.19 45.05 1.47
2770 8420 3.107642 ACTGGTGCGCCATTAGTATAC 57.892 47.619 21.54 0.00 45.05 1.47
2771 8421 2.224209 ACTGGTGCGCCATTAGTATACC 60.224 50.000 21.54 2.32 45.05 2.73
2772 8422 1.763545 TGGTGCGCCATTAGTATACCA 59.236 47.619 16.89 5.52 40.46 3.25
2773 8423 2.224185 TGGTGCGCCATTAGTATACCAG 60.224 50.000 16.89 0.00 40.46 4.00
2774 8424 2.036733 GGTGCGCCATTAGTATACCAGA 59.963 50.000 12.58 0.00 34.09 3.86
2775 8425 3.306780 GGTGCGCCATTAGTATACCAGAT 60.307 47.826 12.58 0.00 34.09 2.90
2776 8426 4.081862 GGTGCGCCATTAGTATACCAGATA 60.082 45.833 12.58 0.00 34.09 1.98
2777 8427 4.863131 GTGCGCCATTAGTATACCAGATAC 59.137 45.833 4.18 0.00 0.00 2.24
2778 8428 4.770531 TGCGCCATTAGTATACCAGATACT 59.229 41.667 4.18 2.98 38.32 2.12
2779 8429 5.947566 TGCGCCATTAGTATACCAGATACTA 59.052 40.000 4.18 1.20 36.38 1.82
2878 8528 2.339712 GCAAAACTGGTGCGCCAT 59.660 55.556 21.54 2.21 45.05 4.40
2885 8535 0.462047 ACTGGTGCGCCATTAGTAGC 60.462 55.000 21.54 0.00 45.05 3.58
2887 8537 1.153249 GGTGCGCCATTAGTAGCCA 60.153 57.895 12.58 0.00 34.09 4.75
3168 8818 0.622136 ACCTGCATCATGGCTGAAGA 59.378 50.000 5.91 0.00 34.37 2.87
3177 8827 2.842496 TCATGGCTGAAGATGGAGAAGT 59.158 45.455 0.00 0.00 0.00 3.01
3188 8838 7.911651 TGAAGATGGAGAAGTTAGAGAATTGT 58.088 34.615 0.00 0.00 0.00 2.71
3276 8926 5.128008 GGAGGGAGGAGCAACTACATATATC 59.872 48.000 0.00 0.00 0.00 1.63
3283 8933 8.160521 AGGAGCAACTACATATATCGCTATAG 57.839 38.462 0.00 0.00 0.00 1.31
3484 9250 5.913514 GCATAGCTGCTAGATTTCATTTGTG 59.086 40.000 15.41 5.01 45.32 3.33
3492 9269 3.499338 AGATTTCATTTGTGGCAGGTCA 58.501 40.909 0.00 0.00 0.00 4.02
3502 9279 4.142609 TGTGGCAGGTCATCTAAAGATC 57.857 45.455 0.00 0.00 31.21 2.75
3533 9310 4.806330 TCTCTCTAACTTTGGTAGTTGCG 58.194 43.478 0.00 0.00 46.46 4.85
3580 9357 5.278957 GCTCAAGAGACAGAGAGAAGAACTT 60.279 44.000 0.32 0.00 33.74 2.66
3585 9362 3.576550 AGACAGAGAGAAGAACTTGGGTC 59.423 47.826 0.00 0.00 0.00 4.46
3588 9365 1.279558 GAGAGAAGAACTTGGGTCCCC 59.720 57.143 5.13 0.00 0.00 4.81
3637 9425 6.438741 TCTCTCAAATTCAGCTCTAAGAAGGA 59.561 38.462 0.00 0.00 0.00 3.36
3638 9426 6.638610 TCTCAAATTCAGCTCTAAGAAGGAG 58.361 40.000 0.00 0.00 0.00 3.69
3655 9444 3.239449 AGGAGGTTTTTGGTGGGATTTC 58.761 45.455 0.00 0.00 0.00 2.17
3699 9488 4.252073 CACACTCCTCTCAAATCCTCTTG 58.748 47.826 0.00 0.00 0.00 3.02
3731 9520 5.163652 CCTCTTATTTGTCCGATTTTGGTCC 60.164 44.000 0.00 0.00 0.00 4.46
3739 9528 2.888414 TCCGATTTTGGTCCTTGGTTTC 59.112 45.455 0.00 0.00 0.00 2.78
3743 9532 5.296748 CGATTTTGGTCCTTGGTTTCAAAT 58.703 37.500 0.00 0.00 31.77 2.32
3752 9541 5.001232 TCCTTGGTTTCAAATCCTAGTTCG 58.999 41.667 0.00 0.00 31.77 3.95
3778 9567 8.691797 GTCTCCTATAGATCTTAATCCATGGAC 58.308 40.741 18.99 1.83 36.36 4.02
3865 9666 7.639113 TTGTACTTTGGTGACAGAAATTTCT 57.361 32.000 15.11 15.11 44.54 2.52
3867 9668 8.740123 TGTACTTTGGTGACAGAAATTTCTAA 57.260 30.769 20.07 7.48 44.54 2.10
3896 9699 9.762933 ATGTTTGTAAGTATGAATGCACTTTTT 57.237 25.926 0.00 0.00 36.44 1.94
3937 9741 7.744087 AGTGAAGTAATGCAATAGTTGAACA 57.256 32.000 6.59 0.00 0.00 3.18
4049 9859 5.418310 AGTAATCGACTTGTTGGTTTGTG 57.582 39.130 0.00 0.00 33.13 3.33
4057 9867 3.056891 ACTTGTTGGTTTGTGTGTTGGAG 60.057 43.478 0.00 0.00 0.00 3.86
4103 9913 6.591935 TGATGTCTTTGGGTGATAGGTATTC 58.408 40.000 0.00 0.00 0.00 1.75
4105 9915 6.381498 TGTCTTTGGGTGATAGGTATTCAA 57.619 37.500 0.00 0.00 0.00 2.69
4130 9940 6.604735 ATTTGTTATATCGGCTCAGTGTTC 57.395 37.500 0.00 0.00 0.00 3.18
4136 9946 0.874390 TCGGCTCAGTGTTCAAATGC 59.126 50.000 0.00 0.00 0.00 3.56
4139 9949 1.068055 GGCTCAGTGTTCAAATGCCAG 60.068 52.381 0.00 0.00 38.79 4.85
4141 9951 1.884579 CTCAGTGTTCAAATGCCAGCT 59.115 47.619 0.00 0.00 0.00 4.24
4186 9997 7.199766 TGTCTTGGTACACATTTTGAAATCAC 58.800 34.615 0.00 0.00 39.29 3.06
4194 10005 3.980775 ACATTTTGAAATCACTTTCGCCG 59.019 39.130 0.00 0.00 43.10 6.46
4205 10016 4.232221 TCACTTTCGCCGTTTAGTCTAAG 58.768 43.478 0.00 0.00 0.00 2.18
4206 10017 3.985925 CACTTTCGCCGTTTAGTCTAAGT 59.014 43.478 0.00 0.00 0.00 2.24
4209 10020 6.144402 CACTTTCGCCGTTTAGTCTAAGTTTA 59.856 38.462 0.00 0.00 0.00 2.01
4211 10022 6.695292 TTCGCCGTTTAGTCTAAGTTTAAG 57.305 37.500 0.00 0.00 0.00 1.85
4212 10023 5.772521 TCGCCGTTTAGTCTAAGTTTAAGT 58.227 37.500 0.00 0.00 0.00 2.24
4215 10026 6.399354 CGCCGTTTAGTCTAAGTTTAAGTGTC 60.399 42.308 0.00 0.00 0.00 3.67
4230 10042 8.460428 AGTTTAAGTGTCCGAACTCTAGAATAG 58.540 37.037 0.00 0.00 41.04 1.73
4265 10082 3.490078 GGTTTTGTGAGAACATTCGCCAA 60.490 43.478 0.00 0.00 0.00 4.52
4271 10088 6.266168 TGTGAGAACATTCGCCAAATAAAT 57.734 33.333 0.00 0.00 0.00 1.40
4299 10116 6.126911 TGTGTGGCTAGGATAACATCACATAA 60.127 38.462 0.00 0.00 36.31 1.90
4346 10163 8.426881 TTTATGATGAAATGATGTGCAAATGG 57.573 30.769 0.00 0.00 0.00 3.16
4358 10175 3.133542 TGTGCAAATGGAATGAAACACCA 59.866 39.130 0.00 0.00 38.09 4.17
4371 10188 7.877612 GGAATGAAACACCAAACATAAAAGGAT 59.122 33.333 0.00 0.00 0.00 3.24
4434 10259 5.127693 AGATCAACCTACGCTCATACATC 57.872 43.478 0.00 0.00 0.00 3.06
4435 10260 4.584743 AGATCAACCTACGCTCATACATCA 59.415 41.667 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
304 311 2.125673 CGGACGGCGAGTGGAAAT 60.126 61.111 16.62 0.00 0.00 2.17
467 2600 9.519191 TCTATTTCCTTTCTGATCAACATCAAA 57.481 29.630 0.00 0.00 38.63 2.69
481 2614 8.552034 CGTTGGTGATCTAATCTATTTCCTTTC 58.448 37.037 0.00 0.00 0.00 2.62
485 2618 6.289064 ACCGTTGGTGATCTAATCTATTTCC 58.711 40.000 0.00 0.00 32.98 3.13
576 2717 1.467920 AGCCAGGCATTTAGCTGAAC 58.532 50.000 15.80 0.00 44.79 3.18
626 2767 3.382546 ACACATGATTAAGGAATGCAGCC 59.617 43.478 0.00 0.00 0.00 4.85
642 2783 7.370383 ACCTTAAAGCATAGTGAAAACACATG 58.630 34.615 0.00 0.00 0.00 3.21
643 2784 7.524717 ACCTTAAAGCATAGTGAAAACACAT 57.475 32.000 0.00 0.00 0.00 3.21
659 2800 3.775316 TCTCCTCCAGCCTAACCTTAAAG 59.225 47.826 0.00 0.00 0.00 1.85
681 2822 4.460263 TCCAATAGTGCTTGTGAAACTGT 58.540 39.130 0.00 0.00 38.04 3.55
728 2880 5.869649 TTGGAGTTGCATCTAGTATGCTA 57.130 39.130 20.51 14.10 44.79 3.49
821 2976 4.103153 AGGCTAGCTGTAATAAGCATGGAA 59.897 41.667 15.72 0.00 46.08 3.53
848 3003 2.438868 GTGACCAGCACAAAATTCCC 57.561 50.000 0.00 0.00 46.91 3.97
859 3014 4.319177 AGAAATGTAACAGAGTGACCAGC 58.681 43.478 0.00 0.00 0.00 4.85
909 3075 7.411157 GCAACAGATCACAAATTAAAGACATGC 60.411 37.037 0.00 0.00 0.00 4.06
910 3076 7.595875 TGCAACAGATCACAAATTAAAGACATG 59.404 33.333 0.00 0.00 0.00 3.21
911 3077 7.660112 TGCAACAGATCACAAATTAAAGACAT 58.340 30.769 0.00 0.00 0.00 3.06
912 3078 7.036996 TGCAACAGATCACAAATTAAAGACA 57.963 32.000 0.00 0.00 0.00 3.41
1082 3256 3.366679 CGCAGAAAAGGCAACAAGATCAT 60.367 43.478 0.00 0.00 41.41 2.45
1193 3367 1.726533 GATCACGGGAGGACGAGGAC 61.727 65.000 0.00 0.00 37.61 3.85
1281 3458 7.387948 CCAAAAATACTATGTAGGGGAATCTCG 59.612 40.741 0.00 0.00 0.00 4.04
1360 3779 6.566079 TGAGAAAATGAGATGACCATAGGT 57.434 37.500 0.00 0.00 39.44 3.08
1455 3874 2.957491 AGAAGAGCTCGATGTCCTTG 57.043 50.000 8.37 0.00 0.00 3.61
1504 3923 5.897377 TCGACAATGAGATGTGAGTTAGA 57.103 39.130 0.00 0.00 32.57 2.10
1550 3969 3.242284 CCAATATTGACTACCAACACGCG 60.242 47.826 17.23 3.53 37.63 6.01
1588 4007 1.868713 TGCTTGATTGGCCCATCATT 58.131 45.000 19.53 0.00 0.00 2.57
1596 4015 3.923017 AGTAGTGTTTGCTTGATTGGC 57.077 42.857 0.00 0.00 0.00 4.52
1607 4026 9.043548 TCTATAGCCCTTTTTCTAGTAGTGTTT 57.956 33.333 0.00 0.00 0.00 2.83
1608 4027 8.605325 TCTATAGCCCTTTTTCTAGTAGTGTT 57.395 34.615 0.00 0.00 0.00 3.32
1609 4028 8.643324 CATCTATAGCCCTTTTTCTAGTAGTGT 58.357 37.037 0.00 0.00 0.00 3.55
1610 4029 8.091449 CCATCTATAGCCCTTTTTCTAGTAGTG 58.909 40.741 0.00 0.00 0.00 2.74
1611 4030 7.790314 ACCATCTATAGCCCTTTTTCTAGTAGT 59.210 37.037 0.00 0.00 0.00 2.73
1612 4031 8.091449 CACCATCTATAGCCCTTTTTCTAGTAG 58.909 40.741 0.00 0.00 0.00 2.57
1613 4032 7.472945 GCACCATCTATAGCCCTTTTTCTAGTA 60.473 40.741 0.00 0.00 0.00 1.82
1614 4033 6.689177 GCACCATCTATAGCCCTTTTTCTAGT 60.689 42.308 0.00 0.00 0.00 2.57
1615 4034 5.703130 GCACCATCTATAGCCCTTTTTCTAG 59.297 44.000 0.00 0.00 0.00 2.43
1616 4035 5.621193 GCACCATCTATAGCCCTTTTTCTA 58.379 41.667 0.00 0.00 0.00 2.10
1617 4036 4.464947 GCACCATCTATAGCCCTTTTTCT 58.535 43.478 0.00 0.00 0.00 2.52
1618 4037 3.251004 CGCACCATCTATAGCCCTTTTTC 59.749 47.826 0.00 0.00 0.00 2.29
1619 4038 3.214328 CGCACCATCTATAGCCCTTTTT 58.786 45.455 0.00 0.00 0.00 1.94
1620 4039 2.172717 ACGCACCATCTATAGCCCTTTT 59.827 45.455 0.00 0.00 0.00 2.27
1621 4040 1.768870 ACGCACCATCTATAGCCCTTT 59.231 47.619 0.00 0.00 0.00 3.11
1622 4041 1.344763 GACGCACCATCTATAGCCCTT 59.655 52.381 0.00 0.00 0.00 3.95
1623 4042 0.969894 GACGCACCATCTATAGCCCT 59.030 55.000 0.00 0.00 0.00 5.19
1624 4043 0.679505 TGACGCACCATCTATAGCCC 59.320 55.000 0.00 0.00 0.00 5.19
1625 4044 2.751166 ATGACGCACCATCTATAGCC 57.249 50.000 0.00 0.00 0.00 3.93
1626 4045 4.810790 AGTAATGACGCACCATCTATAGC 58.189 43.478 0.00 0.00 0.00 2.97
1627 4046 8.988064 ATTTAGTAATGACGCACCATCTATAG 57.012 34.615 0.00 0.00 0.00 1.31
1628 4047 9.850628 GTATTTAGTAATGACGCACCATCTATA 57.149 33.333 0.00 0.00 0.00 1.31
1629 4048 8.585881 AGTATTTAGTAATGACGCACCATCTAT 58.414 33.333 0.00 0.00 0.00 1.98
1630 4049 7.948357 AGTATTTAGTAATGACGCACCATCTA 58.052 34.615 0.00 0.00 0.00 1.98
1631 4050 6.817184 AGTATTTAGTAATGACGCACCATCT 58.183 36.000 0.00 0.00 0.00 2.90
1632 4051 8.583810 TTAGTATTTAGTAATGACGCACCATC 57.416 34.615 0.00 0.00 0.00 3.51
1633 4052 8.988934 CATTAGTATTTAGTAATGACGCACCAT 58.011 33.333 15.52 0.00 45.70 3.55
1641 4060 6.425721 GGTGCGCCATTAGTATTTAGTAATGA 59.574 38.462 19.74 4.44 45.70 2.57
1741 4162 6.364976 GTGCGCCATTAGTAGTTTTGAATTTT 59.635 34.615 4.18 0.00 0.00 1.82
1943 5466 2.172679 GGCTTCCCCGGTTAAATTCAA 58.827 47.619 0.00 0.00 0.00 2.69
1959 6069 5.538849 TTTGAAAATCTTTAACGGGGCTT 57.461 34.783 0.00 0.00 0.00 4.35
2084 7247 2.224305 GGGAAGATAGTAATGGCGCACT 60.224 50.000 10.83 6.53 0.00 4.40
2141 7308 5.835113 ACTAATGGCGCATCACTTTTTAT 57.165 34.783 10.83 0.00 0.00 1.40
2142 7309 6.765989 AGATACTAATGGCGCATCACTTTTTA 59.234 34.615 10.83 0.00 0.00 1.52
2143 7310 5.590259 AGATACTAATGGCGCATCACTTTTT 59.410 36.000 10.83 0.00 0.00 1.94
2144 7311 5.126067 AGATACTAATGGCGCATCACTTTT 58.874 37.500 10.83 0.00 0.00 2.27
2145 7312 4.708177 AGATACTAATGGCGCATCACTTT 58.292 39.130 10.83 0.00 0.00 2.66
2146 7313 4.342862 AGATACTAATGGCGCATCACTT 57.657 40.909 10.83 0.00 0.00 3.16
2147 7314 4.310769 GAAGATACTAATGGCGCATCACT 58.689 43.478 10.83 0.00 0.00 3.41
2148 7315 3.433615 GGAAGATACTAATGGCGCATCAC 59.566 47.826 10.83 0.46 0.00 3.06
2149 7316 3.557054 GGGAAGATACTAATGGCGCATCA 60.557 47.826 10.83 0.00 0.00 3.07
2150 7317 3.003480 GGGAAGATACTAATGGCGCATC 58.997 50.000 10.83 0.93 0.00 3.91
2151 7318 2.612972 CGGGAAGATACTAATGGCGCAT 60.613 50.000 10.83 0.00 0.00 4.73
2152 7319 1.270094 CGGGAAGATACTAATGGCGCA 60.270 52.381 10.83 0.00 0.00 6.09
2153 7320 1.429463 CGGGAAGATACTAATGGCGC 58.571 55.000 0.00 0.00 0.00 6.53
2154 7321 1.429463 GCGGGAAGATACTAATGGCG 58.571 55.000 0.00 0.00 0.00 5.69
2155 7322 1.348036 AGGCGGGAAGATACTAATGGC 59.652 52.381 0.00 0.00 0.00 4.40
2156 7323 3.071023 TGAAGGCGGGAAGATACTAATGG 59.929 47.826 0.00 0.00 0.00 3.16
2157 7324 4.336889 TGAAGGCGGGAAGATACTAATG 57.663 45.455 0.00 0.00 0.00 1.90
2158 7325 5.367945 TTTGAAGGCGGGAAGATACTAAT 57.632 39.130 0.00 0.00 0.00 1.73
2159 7326 4.829872 TTTGAAGGCGGGAAGATACTAA 57.170 40.909 0.00 0.00 0.00 2.24
2160 7327 4.829872 TTTTGAAGGCGGGAAGATACTA 57.170 40.909 0.00 0.00 0.00 1.82
2161 7328 3.713826 TTTTGAAGGCGGGAAGATACT 57.286 42.857 0.00 0.00 0.00 2.12
2162 7329 4.398044 TGAATTTTGAAGGCGGGAAGATAC 59.602 41.667 0.00 0.00 0.00 2.24
2163 7330 4.594970 TGAATTTTGAAGGCGGGAAGATA 58.405 39.130 0.00 0.00 0.00 1.98
2164 7331 3.430453 TGAATTTTGAAGGCGGGAAGAT 58.570 40.909 0.00 0.00 0.00 2.40
2165 7332 2.870175 TGAATTTTGAAGGCGGGAAGA 58.130 42.857 0.00 0.00 0.00 2.87
2166 7333 3.658757 TTGAATTTTGAAGGCGGGAAG 57.341 42.857 0.00 0.00 0.00 3.46
2167 7334 4.408182 TTTTGAATTTTGAAGGCGGGAA 57.592 36.364 0.00 0.00 0.00 3.97
2168 7335 4.615588 ATTTTGAATTTTGAAGGCGGGA 57.384 36.364 0.00 0.00 0.00 5.14
2169 7336 6.793492 TTTATTTTGAATTTTGAAGGCGGG 57.207 33.333 0.00 0.00 0.00 6.13
2170 7337 8.027440 TGATTTATTTTGAATTTTGAAGGCGG 57.973 30.769 0.00 0.00 0.00 6.13
2171 7338 9.875675 TTTGATTTATTTTGAATTTTGAAGGCG 57.124 25.926 0.00 0.00 0.00 5.52
2207 7374 9.734984 ACAGGTGCACTATTACTAACTTTTTAT 57.265 29.630 17.98 0.00 0.00 1.40
2208 7375 9.211485 GACAGGTGCACTATTACTAACTTTTTA 57.789 33.333 17.98 0.00 0.00 1.52
2209 7376 7.174426 GGACAGGTGCACTATTACTAACTTTTT 59.826 37.037 17.98 0.00 0.00 1.94
2210 7377 6.653740 GGACAGGTGCACTATTACTAACTTTT 59.346 38.462 17.98 0.00 0.00 2.27
2211 7378 6.171213 GGACAGGTGCACTATTACTAACTTT 58.829 40.000 17.98 0.00 0.00 2.66
2218 7385 3.206150 CCATGGACAGGTGCACTATTAC 58.794 50.000 17.98 5.66 32.58 1.89
2223 7390 3.580084 ACCATGGACAGGTGCACT 58.420 55.556 21.47 0.00 38.13 4.40
2242 7409 1.071699 GGCGGGAAGATACTAATGGCA 59.928 52.381 0.00 0.00 0.00 4.92
2442 7771 2.695970 CCGGAGAGGAGGAGGAGGT 61.696 68.421 0.00 0.00 45.00 3.85
2443 7772 2.197324 CCGGAGAGGAGGAGGAGG 59.803 72.222 0.00 0.00 45.00 4.30
2444 7773 2.520741 GCCGGAGAGGAGGAGGAG 60.521 72.222 5.05 0.00 45.00 3.69
2445 7774 4.507916 CGCCGGAGAGGAGGAGGA 62.508 72.222 5.05 0.00 45.00 3.71
2447 7776 2.203422 ATCGCCGGAGAGGAGGAG 60.203 66.667 14.81 0.00 45.00 3.69
2448 7777 1.991339 TACATCGCCGGAGAGGAGGA 61.991 60.000 26.62 6.37 45.00 3.71
2449 7778 1.519751 CTACATCGCCGGAGAGGAGG 61.520 65.000 26.62 13.60 45.00 4.30
2484 8111 0.396556 GAGGAGGAGGAGGAGGTCAC 60.397 65.000 0.00 0.00 0.00 3.67
2486 8113 0.185175 GAGAGGAGGAGGAGGAGGTC 59.815 65.000 0.00 0.00 0.00 3.85
2506 8133 3.488090 GCGGAAAGGAGTTCGCCG 61.488 66.667 0.00 0.00 44.47 6.46
2518 8145 0.387565 GCCTTGTTCTTTTGGCGGAA 59.612 50.000 0.00 0.00 35.79 4.30
2523 8150 4.032786 CGTTCTTTTGCCTTGTTCTTTTGG 59.967 41.667 0.00 0.00 0.00 3.28
2534 8161 3.751698 GGATCTTGTACGTTCTTTTGCCT 59.248 43.478 0.00 0.00 0.00 4.75
2623 8250 6.780457 ATTTTGAATTTGGATCTGGATCGT 57.220 33.333 4.75 0.00 38.69 3.73
2636 8263 9.662545 CCGTTGCTATTTTTGAATTTTGAATTT 57.337 25.926 0.00 0.00 0.00 1.82
2664 8291 2.576832 CGTCTAACCCCCACCGTGT 61.577 63.158 0.00 0.00 0.00 4.49
2753 8403 2.036733 TCTGGTATACTAATGGCGCACC 59.963 50.000 10.83 5.12 0.00 5.01
2754 8404 3.380479 TCTGGTATACTAATGGCGCAC 57.620 47.619 10.83 0.00 0.00 5.34
2755 8405 4.770531 AGTATCTGGTATACTAATGGCGCA 59.229 41.667 10.83 0.00 33.45 6.09
2756 8406 5.326200 AGTATCTGGTATACTAATGGCGC 57.674 43.478 0.00 0.00 33.45 6.53
2762 8412 6.434965 TGCGCCATTAGTATCTGGTATACTAA 59.565 38.462 16.03 16.03 45.52 2.24
2763 8413 5.947566 TGCGCCATTAGTATCTGGTATACTA 59.052 40.000 4.18 0.00 36.38 1.82
2764 8414 4.770531 TGCGCCATTAGTATCTGGTATACT 59.229 41.667 4.18 3.40 38.32 2.12
2765 8415 4.863131 GTGCGCCATTAGTATCTGGTATAC 59.137 45.833 4.18 0.00 34.86 1.47
2766 8416 4.081862 GGTGCGCCATTAGTATCTGGTATA 60.082 45.833 12.58 0.00 34.86 1.47
2767 8417 3.306780 GGTGCGCCATTAGTATCTGGTAT 60.307 47.826 12.58 0.00 34.86 2.73
2768 8418 2.036733 GGTGCGCCATTAGTATCTGGTA 59.963 50.000 12.58 0.00 34.86 3.25
2769 8419 1.202651 GGTGCGCCATTAGTATCTGGT 60.203 52.381 12.58 0.00 34.86 4.00
2770 8420 1.202639 TGGTGCGCCATTAGTATCTGG 60.203 52.381 16.89 0.00 40.46 3.86
2771 8421 2.138320 CTGGTGCGCCATTAGTATCTG 58.862 52.381 21.54 0.01 45.05 2.90
2772 8422 1.762957 ACTGGTGCGCCATTAGTATCT 59.237 47.619 21.54 0.00 45.05 1.98
2773 8423 1.867233 CACTGGTGCGCCATTAGTATC 59.133 52.381 21.54 0.00 45.05 2.24
2774 8424 1.475034 CCACTGGTGCGCCATTAGTAT 60.475 52.381 21.54 0.00 45.05 2.12
2775 8425 0.107897 CCACTGGTGCGCCATTAGTA 60.108 55.000 21.54 0.00 45.05 1.82
2776 8426 1.377202 CCACTGGTGCGCCATTAGT 60.377 57.895 21.54 11.93 45.05 2.24
2777 8427 1.377202 ACCACTGGTGCGCCATTAG 60.377 57.895 21.54 10.23 45.05 1.73
2778 8428 2.753701 ACCACTGGTGCGCCATTA 59.246 55.556 21.54 0.00 45.05 1.90
2826 8476 1.484653 TCACTGGTGCGCCATTAGTAT 59.515 47.619 21.54 0.00 45.05 2.12
2832 8482 3.136123 GCATCACTGGTGCGCCAT 61.136 61.111 21.54 7.45 45.05 4.40
2878 8528 7.966339 TCACTACTAGGAAAATGGCTACTAA 57.034 36.000 0.00 0.00 0.00 2.24
2885 8535 7.176690 ACCACAATTTCACTACTAGGAAAATGG 59.823 37.037 10.24 11.88 37.92 3.16
2887 8537 8.164070 AGACCACAATTTCACTACTAGGAAAAT 58.836 33.333 0.00 0.00 36.67 1.82
3111 8761 2.548067 GGCAGAAGACTTCGAAGGTTGA 60.548 50.000 27.86 0.00 34.02 3.18
3168 8818 4.872691 CGCACAATTCTCTAACTTCTCCAT 59.127 41.667 0.00 0.00 0.00 3.41
3177 8827 8.712363 GCTAATGAATATCGCACAATTCTCTAA 58.288 33.333 0.00 0.00 34.00 2.10
3188 8838 3.378911 TCGGTGCTAATGAATATCGCA 57.621 42.857 0.00 0.00 0.00 5.10
3276 8926 4.871513 TGTTTAGAGTCATGGCTATAGCG 58.128 43.478 18.30 5.25 43.26 4.26
3283 8933 3.356290 ACCCAATGTTTAGAGTCATGGC 58.644 45.455 0.00 0.00 0.00 4.40
3411 9177 1.210478 GGAGAGCATGCTAGGGACAAA 59.790 52.381 22.74 0.00 0.00 2.83
3477 9243 4.701651 TCTTTAGATGACCTGCCACAAATG 59.298 41.667 0.00 0.00 0.00 2.32
3484 9250 4.343526 TGAGAGATCTTTAGATGACCTGCC 59.656 45.833 0.00 0.00 34.37 4.85
3502 9279 7.169158 ACCAAAGTTAGAGAGATTCTGAGAG 57.831 40.000 0.00 0.00 36.61 3.20
3533 9310 3.377172 CCAGGTTACCAATTCGTTGATCC 59.623 47.826 3.51 0.00 0.00 3.36
3588 9365 2.391972 GGTAATGGGGAGGGGTGGG 61.392 68.421 0.00 0.00 0.00 4.61
3591 9368 0.254589 ATTGGGTAATGGGGAGGGGT 60.255 55.000 0.00 0.00 0.00 4.95
3593 9370 1.425448 GAGATTGGGTAATGGGGAGGG 59.575 57.143 0.00 0.00 0.00 4.30
3637 9425 2.626266 GTCGAAATCCCACCAAAAACCT 59.374 45.455 0.00 0.00 0.00 3.50
3638 9426 2.626266 AGTCGAAATCCCACCAAAAACC 59.374 45.455 0.00 0.00 0.00 3.27
3655 9444 3.719173 GAGATTTACCTCCAGGAGTCG 57.281 52.381 15.86 3.42 38.94 4.18
3682 9471 4.689062 AGTACCAAGAGGATTTGAGAGGA 58.311 43.478 0.00 0.00 38.69 3.71
3699 9488 5.727434 TCGGACAAATAAGAGGAAAGTACC 58.273 41.667 0.00 0.00 0.00 3.34
3731 9520 5.701290 AGACGAACTAGGATTTGAAACCAAG 59.299 40.000 0.00 0.00 0.00 3.61
3739 9528 7.747155 TCTATAGGAGACGAACTAGGATTTG 57.253 40.000 0.00 0.00 0.00 2.32
3743 9532 6.938698 AGATCTATAGGAGACGAACTAGGA 57.061 41.667 0.00 0.00 36.87 2.94
3752 9541 8.691797 GTCCATGGATTAAGATCTATAGGAGAC 58.308 40.741 19.62 0.00 36.87 3.36
3778 9567 9.077885 ACCAAATACCAACTATATTGCCATAAG 57.922 33.333 0.00 0.00 0.00 1.73
4040 9844 3.157881 TGTTCTCCAACACACAAACCAA 58.842 40.909 0.00 0.00 37.61 3.67
4103 9913 7.250569 ACACTGAGCCGATATAACAAATTTTG 58.749 34.615 7.59 7.59 0.00 2.44
4105 9915 7.120579 TGAACACTGAGCCGATATAACAAATTT 59.879 33.333 0.00 0.00 0.00 1.82
4130 9940 4.523173 AGGATATGAATGAGCTGGCATTTG 59.477 41.667 0.00 0.00 38.53 2.32
4136 9946 4.222366 TGCTCTAGGATATGAATGAGCTGG 59.778 45.833 12.84 0.00 44.80 4.85
4139 9949 6.171921 ACATTGCTCTAGGATATGAATGAGC 58.828 40.000 0.00 0.00 44.77 4.26
4141 9951 7.550597 AGACATTGCTCTAGGATATGAATGA 57.449 36.000 0.00 0.00 0.00 2.57
4186 9997 5.587033 AAACTTAGACTAAACGGCGAAAG 57.413 39.130 16.62 10.18 0.00 2.62
4194 10005 8.483218 GTTCGGACACTTAAACTTAGACTAAAC 58.517 37.037 0.00 0.00 0.00 2.01
4205 10016 8.457261 TCTATTCTAGAGTTCGGACACTTAAAC 58.543 37.037 0.00 0.00 0.00 2.01
4206 10017 8.571461 TCTATTCTAGAGTTCGGACACTTAAA 57.429 34.615 0.00 0.00 0.00 1.52
4209 10020 8.212312 TCTATCTATTCTAGAGTTCGGACACTT 58.788 37.037 0.00 0.00 38.38 3.16
4211 10022 7.966246 TCTATCTATTCTAGAGTTCGGACAC 57.034 40.000 0.00 0.00 38.38 3.67
4212 10023 8.376270 TCATCTATCTATTCTAGAGTTCGGACA 58.624 37.037 0.00 0.00 38.38 4.02
4215 10026 9.226606 ACTTCATCTATCTATTCTAGAGTTCGG 57.773 37.037 0.00 0.00 38.38 4.30
4230 10042 6.173339 TCTCACAAAACCCACTTCATCTATC 58.827 40.000 0.00 0.00 0.00 2.08
4238 10050 4.202010 CGAATGTTCTCACAAAACCCACTT 60.202 41.667 0.00 0.00 36.16 3.16
4265 10082 9.860650 TGTTATCCTAGCCACACAATATTTATT 57.139 29.630 0.00 0.00 0.00 1.40
4271 10088 6.126911 TGTGATGTTATCCTAGCCACACAATA 60.127 38.462 0.00 0.00 33.82 1.90
4328 10145 6.038997 TCATTCCATTTGCACATCATTTCA 57.961 33.333 0.00 0.00 0.00 2.69
4329 10146 6.971527 TTCATTCCATTTGCACATCATTTC 57.028 33.333 0.00 0.00 0.00 2.17
4346 10163 8.831715 ATCCTTTTATGTTTGGTGTTTCATTC 57.168 30.769 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.