Multiple sequence alignment - TraesCS2A01G080100

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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 TraesCS2A01G080100 chr2A 100.000 3674 0 0 1 3674 36191551 36187878 0.000000e+00 6785.0
1 TraesCS2A01G080100 chr2A 81.994 1244 98 63 2147 3354 36234103 36232950 0.000000e+00 941.0
2 TraesCS2A01G080100 chr2A 86.065 775 56 15 807 1530 36235720 36234947 0.000000e+00 785.0
3 TraesCS2A01G080100 chr2A 85.479 730 65 18 2288 2986 36200613 36199894 0.000000e+00 723.0
4 TraesCS2A01G080100 chr2A 82.759 696 75 15 858 1519 36411856 36411172 2.460000e-161 579.0
5 TraesCS2A01G080100 chr2A 90.962 343 26 4 821 1159 36203236 36202895 1.200000e-124 457.0
6 TraesCS2A01G080100 chr2A 85.185 378 33 5 1157 1511 36202756 36202379 2.080000e-97 366.0
7 TraesCS2A01G080100 chr2A 84.043 376 28 17 2981 3354 36198635 36198290 2.110000e-87 333.0
8 TraesCS2A01G080100 chr2A 97.452 157 4 0 3518 3674 36146346 36146190 6.050000e-68 268.0
9 TraesCS2A01G080100 chr2A 78.427 445 60 18 2301 2710 36398703 36398260 1.310000e-64 257.0
10 TraesCS2A01G080100 chr2A 85.950 242 32 2 1655 1895 36411001 36410761 1.310000e-64 257.0
11 TraesCS2A01G080100 chr2A 81.163 361 26 14 2152 2472 36201124 36200766 6.090000e-63 252.0
12 TraesCS2A01G080100 chr2A 85.000 240 30 3 1666 1900 36391843 36391605 4.740000e-59 239.0
13 TraesCS2A01G080100 chr2A 91.429 105 8 1 2147 2250 1212280 1212384 3.820000e-30 143.0
14 TraesCS2A01G080100 chr2A 78.922 204 23 10 508 694 33561674 33561874 1.790000e-23 121.0
15 TraesCS2A01G080100 chr2A 97.143 35 1 0 1583 1617 36202353 36202319 3.960000e-05 60.2
16 TraesCS2A01G080100 chr2A 97.143 35 0 1 2061 2095 373454441 373454408 1.430000e-04 58.4
17 TraesCS2A01G080100 chr2D 95.106 940 29 6 2147 3072 32991579 32990643 0.000000e+00 1465.0
18 TraesCS2A01G080100 chr2D 88.021 935 28 22 746 1639 32993023 32992132 0.000000e+00 1029.0
19 TraesCS2A01G080100 chr2D 83.837 1058 77 41 2049 3032 33163865 33162828 0.000000e+00 920.0
20 TraesCS2A01G080100 chr2D 81.909 901 76 25 2288 3138 33047234 33046371 0.000000e+00 680.0
21 TraesCS2A01G080100 chr2D 92.593 459 25 6 3067 3518 32990581 32990125 0.000000e+00 651.0
22 TraesCS2A01G080100 chr2D 82.667 675 73 22 854 1502 33581161 33580505 3.200000e-155 558.0
23 TraesCS2A01G080100 chr2D 84.742 485 54 9 858 1332 33242149 33241675 5.560000e-128 468.0
24 TraesCS2A01G080100 chr2D 95.000 300 9 1 1651 1944 32992080 32991781 2.000000e-127 466.0
25 TraesCS2A01G080100 chr2D 82.510 486 62 14 1 466 44472119 44472601 4.420000e-109 405.0
26 TraesCS2A01G080100 chr2D 82.655 467 62 10 1 450 158100660 158101124 2.660000e-106 396.0
27 TraesCS2A01G080100 chr2D 89.264 326 20 8 840 1151 33165417 33165093 9.560000e-106 394.0
28 TraesCS2A01G080100 chr2D 85.468 406 26 4 1157 1530 33165039 33164635 3.440000e-105 392.0
29 TraesCS2A01G080100 chr2D 86.376 367 27 1 1157 1500 33049261 33048895 2.680000e-101 379.0
30 TraesCS2A01G080100 chr2D 82.126 414 39 11 1146 1527 79085275 79085685 4.580000e-84 322.0
31 TraesCS2A01G080100 chr2D 83.832 334 39 7 1 333 537711668 537711987 1.660000e-78 303.0
32 TraesCS2A01G080100 chr2D 82.645 363 33 4 1167 1502 33315134 33314775 9.980000e-76 294.0
33 TraesCS2A01G080100 chr2D 87.603 242 28 2 1655 1895 33580332 33580092 2.790000e-71 279.0
34 TraesCS2A01G080100 chr2D 82.320 362 21 12 2152 2472 33047745 33047386 1.300000e-69 274.0
35 TraesCS2A01G080100 chr2D 82.334 317 43 9 1 305 531182494 531182809 2.810000e-66 263.0
36 TraesCS2A01G080100 chr2D 87.281 228 27 2 1664 1890 33373372 33373146 3.640000e-65 259.0
37 TraesCS2A01G080100 chr2D 80.548 365 34 8 1167 1502 33373918 33373562 2.830000e-61 246.0
38 TraesCS2A01G080100 chr2D 79.241 395 45 16 2418 2782 33313703 33313316 1.320000e-59 241.0
39 TraesCS2A01G080100 chr2D 93.919 148 5 2 1999 2143 32991786 32991640 1.720000e-53 220.0
40 TraesCS2A01G080100 chr2D 82.787 244 26 12 1651 1887 33048537 33048303 1.730000e-48 204.0
41 TraesCS2A01G080100 chr2D 92.308 65 5 0 1958 2022 33371817 33371753 3.910000e-15 93.5
42 TraesCS2A01G080100 chr2D 97.143 35 1 0 1583 1617 33048821 33048787 3.960000e-05 60.2
43 TraesCS2A01G080100 chr2B 89.635 1013 49 18 2147 3138 54785909 54784932 0.000000e+00 1238.0
44 TraesCS2A01G080100 chr2B 89.005 955 32 17 754 1639 54787525 54786575 0.000000e+00 1114.0
45 TraesCS2A01G080100 chr2B 85.258 814 67 30 2255 3026 55031031 55030229 0.000000e+00 789.0
46 TraesCS2A01G080100 chr2B 85.021 701 57 18 858 1519 55210336 55209645 0.000000e+00 669.0
47 TraesCS2A01G080100 chr2B 91.213 478 20 9 1651 2124 54786523 54786064 6.700000e-177 630.0
48 TraesCS2A01G080100 chr2B 82.768 766 69 24 2290 3012 54885800 54885055 3.120000e-175 625.0
49 TraesCS2A01G080100 chr2B 83.138 682 68 14 858 1502 55855924 55855253 2.460000e-161 579.0
50 TraesCS2A01G080100 chr2B 82.905 661 70 10 858 1492 55227583 55226940 4.150000e-154 555.0
51 TraesCS2A01G080100 chr2B 86.724 467 55 7 876 1340 55536968 55536507 2.530000e-141 512.0
52 TraesCS2A01G080100 chr2B 81.955 665 65 18 858 1492 55699365 55698726 2.530000e-141 512.0
53 TraesCS2A01G080100 chr2B 80.186 646 83 25 1 610 74008264 74008900 3.370000e-120 442.0
54 TraesCS2A01G080100 chr2B 84.951 412 37 3 1143 1530 55032449 55032039 9.560000e-106 394.0
55 TraesCS2A01G080100 chr2B 85.559 367 30 7 1157 1500 54887889 54887523 2.700000e-96 363.0
56 TraesCS2A01G080100 chr2B 80.626 511 54 20 2302 2782 55202008 55201513 1.620000e-93 353.0
57 TraesCS2A01G080100 chr2B 87.267 322 21 10 831 1151 54888320 54888018 2.100000e-92 350.0
58 TraesCS2A01G080100 chr2B 80.579 484 43 23 3046 3522 54885053 54884614 3.540000e-85 326.0
59 TraesCS2A01G080100 chr2B 84.984 313 32 8 840 1151 55032799 55032501 1.660000e-78 303.0
60 TraesCS2A01G080100 chr2B 77.029 579 79 26 159 695 775765562 775766128 2.160000e-72 283.0
61 TraesCS2A01G080100 chr2B 88.186 237 25 3 1655 1890 55698539 55698305 2.790000e-71 279.0
62 TraesCS2A01G080100 chr2B 85.425 247 34 2 1655 1900 55209497 55209252 4.710000e-64 255.0
63 TraesCS2A01G080100 chr2B 86.878 221 27 2 1664 1883 55855040 55854821 2.830000e-61 246.0
64 TraesCS2A01G080100 chr2B 89.899 99 10 0 2152 2250 54886318 54886220 1.070000e-25 128.0
65 TraesCS2A01G080100 chr2B 89.231 65 7 0 1958 2022 55225348 55225284 8.460000e-12 82.4
66 TraesCS2A01G080100 chr2B 89.655 58 6 0 1958 2015 55853621 55853564 1.420000e-09 75.0
67 TraesCS2A01G080100 chr2B 97.143 35 1 0 1583 1617 54887469 54887435 3.960000e-05 60.2
68 TraesCS2A01G080100 chr3B 85.947 797 52 28 2443 3221 229463691 229464445 0.000000e+00 797.0
69 TraesCS2A01G080100 chr3B 93.671 158 10 0 3516 3673 811145518 811145675 1.710000e-58 237.0
70 TraesCS2A01G080100 chr3B 75.532 470 65 23 263 695 146297579 146298035 6.270000e-43 185.0
71 TraesCS2A01G080100 chr3B 86.408 103 8 2 2154 2250 64777155 64777053 1.400000e-19 108.0
72 TraesCS2A01G080100 chr3B 93.103 58 4 0 2164 2221 378452739 378452682 6.540000e-13 86.1
73 TraesCS2A01G080100 chr3B 94.340 53 2 1 2295 2347 64776743 64776692 3.040000e-11 80.5
74 TraesCS2A01G080100 chr7B 80.100 598 73 29 945 1507 15935374 15935960 1.590000e-108 403.0
75 TraesCS2A01G080100 chr7B 76.982 656 99 32 855 1494 16524267 16524886 9.840000e-86 327.0
76 TraesCS2A01G080100 chr7B 82.337 368 54 8 969 1327 16826351 16826716 3.560000e-80 309.0
77 TraesCS2A01G080100 chr7B 77.504 569 80 26 163 694 224067691 224067134 7.710000e-77 298.0
78 TraesCS2A01G080100 chr7B 78.873 355 40 16 1167 1492 481845007 481845355 1.340000e-49 207.0
79 TraesCS2A01G080100 chr7B 77.869 244 33 12 1660 1891 674188586 674188820 8.280000e-27 132.0
80 TraesCS2A01G080100 chr7B 82.734 139 22 2 1756 1893 30765153 30765016 4.980000e-24 122.0
81 TraesCS2A01G080100 chr7B 81.132 159 24 4 1756 1913 31447100 31446947 4.980000e-24 122.0
82 TraesCS2A01G080100 chr7B 79.641 167 23 7 1766 1922 16827185 16827350 3.880000e-20 110.0
83 TraesCS2A01G080100 chr7B 95.349 43 1 1 2299 2341 603876294 603876335 2.370000e-07 67.6
84 TraesCS2A01G080100 chr7B 93.023 43 2 1 2299 2341 533632106 533632147 1.100000e-05 62.1
85 TraesCS2A01G080100 chr7D 82.377 488 59 12 1 466 83383024 83383506 2.060000e-107 399.0
86 TraesCS2A01G080100 chr7D 80.037 541 72 12 998 1512 73743507 73744037 5.800000e-98 368.0
87 TraesCS2A01G080100 chr7D 80.994 463 70 12 870 1327 73367856 73368305 5.840000e-93 351.0
88 TraesCS2A01G080100 chr7D 79.787 376 56 10 2351 2710 73219870 73220241 4.710000e-64 255.0
89 TraesCS2A01G080100 chr7D 95.597 159 5 2 3518 3674 208642980 208642822 1.690000e-63 254.0
90 TraesCS2A01G080100 chr7D 94.937 158 6 2 3519 3674 208647932 208647775 2.830000e-61 246.0
91 TraesCS2A01G080100 chr7D 78.670 361 39 23 2147 2473 239730463 239730107 4.810000e-49 206.0
92 TraesCS2A01G080100 chr7D 79.422 277 39 9 2375 2636 73214824 73215097 2.910000e-41 180.0
93 TraesCS2A01G080100 chr7D 78.417 278 40 9 2375 2636 73181147 73181420 2.940000e-36 163.0
94 TraesCS2A01G080100 chr7D 81.046 153 7 8 2238 2370 190391661 190391511 6.490000e-18 102.0
95 TraesCS2A01G080100 chr7D 90.323 62 4 1 2290 2351 73219786 73219845 3.040000e-11 80.5
96 TraesCS2A01G080100 chr7D 97.143 35 0 1 2061 2095 481607481 481607514 1.430000e-04 58.4
97 TraesCS2A01G080100 chr7A 79.139 604 81 26 933 1500 78080735 78080141 3.460000e-100 375.0
98 TraesCS2A01G080100 chr7A 78.527 638 87 23 913 1512 78217576 78218201 1.250000e-99 374.0
99 TraesCS2A01G080100 chr7A 82.730 359 49 7 2 347 77469552 77469194 1.280000e-79 307.0
100 TraesCS2A01G080100 chr7A 76.296 540 74 24 206 696 163778406 163778940 4.740000e-59 239.0
101 TraesCS2A01G080100 chr7A 85.821 134 12 2 2883 3010 649475316 649475448 6.400000e-28 135.0
102 TraesCS2A01G080100 chr7A 94.366 71 4 0 2309 2379 649475048 649475118 3.880000e-20 110.0
103 TraesCS2A01G080100 chr6A 81.159 483 66 14 1 466 598512797 598513271 7.500000e-97 364.0
104 TraesCS2A01G080100 chr6A 83.058 242 34 6 181 415 602895873 602896114 2.870000e-51 213.0
105 TraesCS2A01G080100 chr6A 82.960 223 21 9 2502 2709 31741126 31741346 6.270000e-43 185.0
106 TraesCS2A01G080100 chr6A 77.562 361 44 21 2147 2473 108079540 108079183 2.250000e-42 183.0
107 TraesCS2A01G080100 chr6A 86.826 167 15 5 2536 2697 31881595 31881759 2.910000e-41 180.0
108 TraesCS2A01G080100 chr5D 80.753 478 65 13 10 466 247352437 247351966 7.550000e-92 348.0
109 TraesCS2A01G080100 chr5D 78.087 575 70 18 159 696 354716423 354715868 2.750000e-81 313.0
110 TraesCS2A01G080100 chr5D 75.723 346 55 21 375 695 510160764 510161105 2.960000e-31 147.0
111 TraesCS2A01G080100 chr5D 90.789 76 7 0 2149 2224 197752436 197752511 6.490000e-18 102.0
112 TraesCS2A01G080100 chr6B 78.623 552 76 22 182 698 635133519 635132975 9.840000e-86 327.0
113 TraesCS2A01G080100 chr6B 78.185 573 72 23 164 695 234677173 234676613 2.130000e-82 316.0
114 TraesCS2A01G080100 chr6B 97.436 156 4 0 3519 3674 641891404 641891559 2.180000e-67 267.0
115 TraesCS2A01G080100 chr6B 95.541 157 7 0 3518 3674 712607538 712607382 6.090000e-63 252.0
116 TraesCS2A01G080100 chr6B 95.000 160 7 1 3516 3674 712612479 712612320 2.190000e-62 250.0
117 TraesCS2A01G080100 chr6B 93.617 47 2 1 2295 2341 90458450 90458405 6.580000e-08 69.4
118 TraesCS2A01G080100 chr1B 78.261 575 75 28 163 695 367889727 367889161 1.270000e-84 324.0
119 TraesCS2A01G080100 chr1B 77.875 574 74 27 164 695 512182861 512183423 1.280000e-79 307.0
120 TraesCS2A01G080100 chr1B 76.770 551 69 28 192 696 625991180 625990643 1.690000e-63 254.0
121 TraesCS2A01G080100 chr1B 95.541 157 7 0 3518 3674 660951370 660951214 6.090000e-63 252.0
122 TraesCS2A01G080100 chr1B 94.872 156 8 0 3519 3674 660961251 660961096 1.020000e-60 244.0
123 TraesCS2A01G080100 chr1B 75.853 381 40 26 353 695 657193769 657193403 2.960000e-31 147.0
124 TraesCS2A01G080100 chr1B 91.860 86 7 0 615 700 183251309 183251224 1.790000e-23 121.0
125 TraesCS2A01G080100 chr1B 73.566 401 67 18 314 695 614784342 614783962 2.320000e-22 117.0
126 TraesCS2A01G080100 chr5B 77.963 540 88 17 182 697 649453139 649453671 3.560000e-80 309.0
127 TraesCS2A01G080100 chr5B 74.205 566 77 24 164 696 532661892 532661363 4.880000e-39 172.0
128 TraesCS2A01G080100 chr5B 91.358 81 7 0 615 695 692912525 692912445 1.080000e-20 111.0
129 TraesCS2A01G080100 chr6D 83.333 306 41 6 1 297 448179489 448179793 1.300000e-69 274.0
130 TraesCS2A01G080100 chr6D 83.446 296 37 9 163 450 457326790 457327081 7.820000e-67 265.0
131 TraesCS2A01G080100 chr6D 78.613 346 55 12 264 596 422943576 422943237 1.030000e-50 211.0
132 TraesCS2A01G080100 chr6D 88.024 167 13 4 2536 2697 31483809 31483645 1.350000e-44 191.0
133 TraesCS2A01G080100 chr6D 92.453 53 3 1 2295 2347 30575234 30575183 1.420000e-09 75.0
134 TraesCS2A01G080100 chr6D 97.143 35 0 1 2061 2095 448378058 448378025 1.430000e-04 58.4
135 TraesCS2A01G080100 chr4D 82.965 317 41 9 161 466 44834889 44835203 1.300000e-69 274.0
136 TraesCS2A01G080100 chr4D 76.923 520 66 27 204 695 417930654 417930161 2.830000e-61 246.0
137 TraesCS2A01G080100 chr3A 83.618 293 39 4 182 466 720238663 720238372 2.180000e-67 267.0
138 TraesCS2A01G080100 chr3A 90.411 73 7 0 2152 2224 496376857 496376785 3.020000e-16 97.1
139 TraesCS2A01G080100 chr1D 80.980 347 55 11 973 1310 486926403 486926059 7.820000e-67 265.0
140 TraesCS2A01G080100 chr1D 90.385 156 14 1 3519 3674 7031360 7031514 1.730000e-48 204.0
141 TraesCS2A01G080100 chr1A 82.692 312 40 9 164 466 521267725 521267419 7.820000e-67 265.0
142 TraesCS2A01G080100 chr4B 76.592 581 73 31 164 695 463579438 463580004 1.010000e-65 261.0
143 TraesCS2A01G080100 chr4B 94.904 157 8 0 3518 3674 483086266 483086110 2.830000e-61 246.0
144 TraesCS2A01G080100 chr4B 75.972 566 77 24 165 695 222602577 222602036 1.710000e-58 237.0
145 TraesCS2A01G080100 chr4B 93.590 156 10 0 3519 3674 483091209 483091054 2.210000e-57 233.0
146 TraesCS2A01G080100 chr4B 91.358 162 11 2 3516 3674 620089762 620089601 6.180000e-53 219.0
147 TraesCS2A01G080100 chr4B 91.250 160 11 2 3518 3674 620074459 620074300 7.990000e-52 215.0
148 TraesCS2A01G080100 chr4B 73.975 561 78 31 163 695 624140955 624141475 8.160000e-37 165.0
149 TraesCS2A01G080100 chr4B 85.625 160 18 4 3518 3674 646646996 646646839 2.940000e-36 163.0
150 TraesCS2A01G080100 chr4B 92.727 55 3 1 2295 2349 196527406 196527459 1.090000e-10 78.7
151 TraesCS2A01G080100 chr4B 92.453 53 3 1 2295 2347 230752506 230752455 1.420000e-09 75.0
152 TraesCS2A01G080100 chr4B 93.617 47 2 1 2295 2341 20494539 20494494 6.580000e-08 69.4
153 TraesCS2A01G080100 chr4B 95.238 42 2 0 2306 2347 604932988 604933029 2.370000e-07 67.6
154 TraesCS2A01G080100 chrUn 76.496 468 63 24 265 695 214325065 214325522 1.030000e-50 211.0
155 TraesCS2A01G080100 chr5A 78.453 362 39 23 2147 2473 565537129 565536772 2.240000e-47 200.0
156 TraesCS2A01G080100 chr3D 79.677 310 18 15 2152 2417 551677419 551677111 8.100000e-42 182.0
157 TraesCS2A01G080100 chr3D 93.103 58 4 0 2164 2221 284823852 284823909 6.540000e-13 86.1
158 TraesCS2A01G080100 chr4A 88.182 110 9 1 2899 3004 570660995 570661104 1.070000e-25 128.0
159 TraesCS2A01G080100 chr4A 91.139 79 7 0 2162 2240 723509861 723509783 1.400000e-19 108.0
160 TraesCS2A01G080100 chr4A 91.781 73 6 0 2152 2224 444118522 444118450 6.490000e-18 102.0
161 TraesCS2A01G080100 chr4A 89.706 68 7 0 3039 3106 648765410 648765477 1.820000e-13 87.9


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 TraesCS2A01G080100 chr2A 36187878 36191551 3673 True 6785.000000 6785 100.000000 1 3674 1 chr2A.!!$R2 3673
1 TraesCS2A01G080100 chr2A 36232950 36235720 2770 True 863.000000 941 84.029500 807 3354 2 chr2A.!!$R7 2547
2 TraesCS2A01G080100 chr2A 36410761 36411856 1095 True 418.000000 579 84.354500 858 1895 2 chr2A.!!$R8 1037
3 TraesCS2A01G080100 chr2A 36198290 36203236 4946 True 365.200000 723 87.329167 821 3354 6 chr2A.!!$R6 2533
4 TraesCS2A01G080100 chr2D 32990125 32993023 2898 True 766.200000 1465 92.927800 746 3518 5 chr2D.!!$R2 2772
5 TraesCS2A01G080100 chr2D 33162828 33165417 2589 True 568.666667 920 86.189667 840 3032 3 chr2D.!!$R4 2192
6 TraesCS2A01G080100 chr2D 33580092 33581161 1069 True 418.500000 558 85.135000 854 1895 2 chr2D.!!$R7 1041
7 TraesCS2A01G080100 chr2D 33046371 33049261 2890 True 319.440000 680 86.107000 1157 3138 5 chr2D.!!$R3 1981
8 TraesCS2A01G080100 chr2D 33313316 33315134 1818 True 267.500000 294 80.943000 1167 2782 2 chr2D.!!$R5 1615
9 TraesCS2A01G080100 chr2B 54784932 54787525 2593 True 994.000000 1238 89.951000 754 3138 3 chr2B.!!$R3 2384
10 TraesCS2A01G080100 chr2B 55030229 55032799 2570 True 495.333333 789 85.064333 840 3026 3 chr2B.!!$R5 2186
11 TraesCS2A01G080100 chr2B 55209252 55210336 1084 True 462.000000 669 85.223000 858 1900 2 chr2B.!!$R6 1042
12 TraesCS2A01G080100 chr2B 74008264 74008900 636 False 442.000000 442 80.186000 1 610 1 chr2B.!!$F1 609
13 TraesCS2A01G080100 chr2B 55698305 55699365 1060 True 395.500000 512 85.070500 858 1890 2 chr2B.!!$R8 1032
14 TraesCS2A01G080100 chr2B 55225284 55227583 2299 True 318.700000 555 86.068000 858 2022 2 chr2B.!!$R7 1164
15 TraesCS2A01G080100 chr2B 54884614 54888320 3706 True 308.700000 625 87.202500 831 3522 6 chr2B.!!$R4 2691
16 TraesCS2A01G080100 chr2B 55853564 55855924 2360 True 300.000000 579 86.557000 858 2015 3 chr2B.!!$R9 1157
17 TraesCS2A01G080100 chr2B 775765562 775766128 566 False 283.000000 283 77.029000 159 695 1 chr2B.!!$F2 536
18 TraesCS2A01G080100 chr3B 229463691 229464445 754 False 797.000000 797 85.947000 2443 3221 1 chr3B.!!$F2 778
19 TraesCS2A01G080100 chr7B 15935374 15935960 586 False 403.000000 403 80.100000 945 1507 1 chr7B.!!$F1 562
20 TraesCS2A01G080100 chr7B 16524267 16524886 619 False 327.000000 327 76.982000 855 1494 1 chr7B.!!$F2 639
21 TraesCS2A01G080100 chr7B 224067134 224067691 557 True 298.000000 298 77.504000 163 694 1 chr7B.!!$R3 531
22 TraesCS2A01G080100 chr7B 16826351 16827350 999 False 209.500000 309 80.989000 969 1922 2 chr7B.!!$F7 953
23 TraesCS2A01G080100 chr7D 73743507 73744037 530 False 368.000000 368 80.037000 998 1512 1 chr7D.!!$F4 514
24 TraesCS2A01G080100 chr7A 78080141 78080735 594 True 375.000000 375 79.139000 933 1500 1 chr7A.!!$R2 567
25 TraesCS2A01G080100 chr7A 78217576 78218201 625 False 374.000000 374 78.527000 913 1512 1 chr7A.!!$F1 599
26 TraesCS2A01G080100 chr7A 163778406 163778940 534 False 239.000000 239 76.296000 206 696 1 chr7A.!!$F2 490
27 TraesCS2A01G080100 chr5D 354715868 354716423 555 True 313.000000 313 78.087000 159 696 1 chr5D.!!$R2 537
28 TraesCS2A01G080100 chr6B 635132975 635133519 544 True 327.000000 327 78.623000 182 698 1 chr6B.!!$R3 516
29 TraesCS2A01G080100 chr6B 234676613 234677173 560 True 316.000000 316 78.185000 164 695 1 chr6B.!!$R2 531
30 TraesCS2A01G080100 chr1B 367889161 367889727 566 True 324.000000 324 78.261000 163 695 1 chr1B.!!$R2 532
31 TraesCS2A01G080100 chr1B 512182861 512183423 562 False 307.000000 307 77.875000 164 695 1 chr1B.!!$F1 531
32 TraesCS2A01G080100 chr1B 625990643 625991180 537 True 254.000000 254 76.770000 192 696 1 chr1B.!!$R4 504
33 TraesCS2A01G080100 chr5B 649453139 649453671 532 False 309.000000 309 77.963000 182 697 1 chr5B.!!$F1 515
34 TraesCS2A01G080100 chr4B 463579438 463580004 566 False 261.000000 261 76.592000 164 695 1 chr4B.!!$F2 531
35 TraesCS2A01G080100 chr4B 222602036 222602577 541 True 237.000000 237 75.972000 165 695 1 chr4B.!!$R2 530

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
347 375 0.028505 CAAAATCATGCCTCTCGCGG 59.971 55.0 6.13 0.0 42.08 6.46 F
726 845 0.247460 TTGTCCAGTCCTCGCATGAG 59.753 55.0 0.00 0.0 42.18 2.90 F
911 1041 0.385390 CGCCTCAACCAACAGCTTTT 59.615 50.0 0.00 0.0 0.00 2.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1561 2033 1.617850 CTCACTCACTCAGGAAGCACT 59.382 52.381 0.00 0.0 0.00 4.40 R
2396 5219 1.408702 GCGCCAAACATATGGAATGGT 59.591 47.619 18.95 0.0 43.54 3.55 R
2890 6124 2.472695 ACGCTTTGTCTATGAAGCCA 57.527 45.000 2.85 0.0 44.06 4.75 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
45 48 8.238631 ACAATTTATATTTTAAACCGTGCGTCT 58.761 29.630 0.00 0.00 0.00 4.18
52 55 7.933728 ATTTTAAACCGTGCGTCTAAATTTT 57.066 28.000 0.00 0.00 0.00 1.82
57 60 3.231160 CCGTGCGTCTAAATTTTGAACC 58.769 45.455 3.84 0.00 0.00 3.62
58 61 2.900046 CGTGCGTCTAAATTTTGAACCG 59.100 45.455 3.84 6.17 0.00 4.44
67 70 7.407871 CGTCTAAATTTTGAACCGTTTTCATCG 60.408 37.037 3.84 0.00 0.00 3.84
100 103 3.606777 CGCGTCGAGATCTTCAAAACTAA 59.393 43.478 0.00 0.00 0.00 2.24
117 120 7.893302 TCAAAACTAAATCCCATGTTGATAGGT 59.107 33.333 0.00 0.00 0.00 3.08
121 124 8.293699 ACTAAATCCCATGTTGATAGGTTTTC 57.706 34.615 0.00 0.00 0.00 2.29
231 236 4.421479 CGTGCCTCTCGCGGAAGT 62.421 66.667 6.13 0.00 44.36 3.01
347 375 0.028505 CAAAATCATGCCTCTCGCGG 59.971 55.000 6.13 0.00 42.08 6.46
349 377 0.531532 AAATCATGCCTCTCGCGGAG 60.532 55.000 6.13 11.96 42.08 4.63
450 492 1.264288 CAGAAGCAAAACCGTGACTCC 59.736 52.381 0.00 0.00 0.00 3.85
530 616 6.403878 TCTAAGGAAGACCAATAGAAAACCG 58.596 40.000 0.00 0.00 35.47 4.44
597 692 3.310246 ACGCGTGCGGAAAAATAAAAAT 58.690 36.364 12.93 0.00 44.69 1.82
634 753 2.042831 GGCAAATGGCTGAGAGCGT 61.043 57.895 0.00 0.00 43.62 5.07
648 767 3.649986 GCGTGTCAAGTGGCGCTT 61.650 61.111 7.64 7.64 45.48 4.68
652 771 1.438651 GTGTCAAGTGGCGCTTATCA 58.561 50.000 13.76 12.24 35.27 2.15
698 817 3.516300 TCGTTAATTAGTTGCTCCCAGGA 59.484 43.478 0.00 0.00 0.00 3.86
699 818 4.020039 TCGTTAATTAGTTGCTCCCAGGAA 60.020 41.667 0.00 0.00 0.00 3.36
700 819 4.094442 CGTTAATTAGTTGCTCCCAGGAAC 59.906 45.833 0.00 0.00 45.40 3.62
701 820 2.808906 ATTAGTTGCTCCCAGGAACC 57.191 50.000 4.46 0.00 46.08 3.62
702 821 0.696501 TTAGTTGCTCCCAGGAACCC 59.303 55.000 4.46 0.00 46.08 4.11
703 822 1.550130 TAGTTGCTCCCAGGAACCCG 61.550 60.000 4.46 0.00 46.08 5.28
704 823 4.344865 TTGCTCCCAGGAACCCGC 62.345 66.667 0.00 0.00 0.00 6.13
706 825 4.115199 GCTCCCAGGAACCCGCAT 62.115 66.667 0.00 0.00 0.00 4.73
707 826 2.677228 CTCCCAGGAACCCGCATT 59.323 61.111 0.00 0.00 0.00 3.56
708 827 1.000896 CTCCCAGGAACCCGCATTT 60.001 57.895 0.00 0.00 0.00 2.32
709 828 1.304052 TCCCAGGAACCCGCATTTG 60.304 57.895 0.00 0.00 0.00 2.32
710 829 1.606313 CCCAGGAACCCGCATTTGT 60.606 57.895 0.00 0.00 0.00 2.83
711 830 1.595093 CCCAGGAACCCGCATTTGTC 61.595 60.000 0.00 0.00 0.00 3.18
712 831 1.595093 CCAGGAACCCGCATTTGTCC 61.595 60.000 0.00 0.00 0.00 4.02
713 832 0.893270 CAGGAACCCGCATTTGTCCA 60.893 55.000 0.00 0.00 0.00 4.02
714 833 0.609131 AGGAACCCGCATTTGTCCAG 60.609 55.000 0.00 0.00 0.00 3.86
715 834 0.893727 GGAACCCGCATTTGTCCAGT 60.894 55.000 0.00 0.00 0.00 4.00
716 835 0.521735 GAACCCGCATTTGTCCAGTC 59.478 55.000 0.00 0.00 0.00 3.51
717 836 0.893727 AACCCGCATTTGTCCAGTCC 60.894 55.000 0.00 0.00 0.00 3.85
718 837 1.002134 CCCGCATTTGTCCAGTCCT 60.002 57.895 0.00 0.00 0.00 3.85
719 838 1.026718 CCCGCATTTGTCCAGTCCTC 61.027 60.000 0.00 0.00 0.00 3.71
720 839 1.361668 CCGCATTTGTCCAGTCCTCG 61.362 60.000 0.00 0.00 0.00 4.63
721 840 1.796796 GCATTTGTCCAGTCCTCGC 59.203 57.895 0.00 0.00 0.00 5.03
722 841 0.955428 GCATTTGTCCAGTCCTCGCA 60.955 55.000 0.00 0.00 0.00 5.10
723 842 1.742761 CATTTGTCCAGTCCTCGCAT 58.257 50.000 0.00 0.00 0.00 4.73
724 843 1.399440 CATTTGTCCAGTCCTCGCATG 59.601 52.381 0.00 0.00 0.00 4.06
725 844 0.684535 TTTGTCCAGTCCTCGCATGA 59.315 50.000 0.00 0.00 0.00 3.07
726 845 0.247460 TTGTCCAGTCCTCGCATGAG 59.753 55.000 0.00 0.00 42.18 2.90
727 846 0.611896 TGTCCAGTCCTCGCATGAGA 60.612 55.000 0.00 0.00 45.57 3.27
728 847 0.532573 GTCCAGTCCTCGCATGAGAA 59.467 55.000 0.00 0.00 45.57 2.87
729 848 1.137872 GTCCAGTCCTCGCATGAGAAT 59.862 52.381 0.00 0.00 45.57 2.40
730 849 2.362397 GTCCAGTCCTCGCATGAGAATA 59.638 50.000 0.00 0.00 45.57 1.75
731 850 3.031013 TCCAGTCCTCGCATGAGAATAA 58.969 45.455 0.00 0.00 45.57 1.40
732 851 3.126831 CCAGTCCTCGCATGAGAATAAC 58.873 50.000 0.00 0.00 45.57 1.89
733 852 2.791560 CAGTCCTCGCATGAGAATAACG 59.208 50.000 0.00 0.00 45.57 3.18
734 853 1.523095 GTCCTCGCATGAGAATAACGC 59.477 52.381 0.00 0.00 45.57 4.84
735 854 1.136110 TCCTCGCATGAGAATAACGCA 59.864 47.619 0.00 0.00 45.57 5.24
736 855 1.524355 CCTCGCATGAGAATAACGCAG 59.476 52.381 0.00 0.00 45.57 5.18
737 856 2.463876 CTCGCATGAGAATAACGCAGA 58.536 47.619 0.00 0.00 45.57 4.26
738 857 2.463876 TCGCATGAGAATAACGCAGAG 58.536 47.619 0.00 0.00 0.00 3.35
739 858 1.070975 CGCATGAGAATAACGCAGAGC 60.071 52.381 0.00 0.00 32.99 4.09
805 924 3.272334 GATACGGCCCGCAAGCTG 61.272 66.667 1.23 2.31 45.09 4.24
911 1041 0.385390 CGCCTCAACCAACAGCTTTT 59.615 50.000 0.00 0.00 0.00 2.27
1165 1535 4.125695 GCGACGAAGGCCCGTACT 62.126 66.667 7.05 0.00 43.49 2.73
1345 1750 2.762459 TCCTACCTCCGCGCCAAT 60.762 61.111 0.00 0.00 0.00 3.16
1561 2033 6.403866 TTCTTTCAGCTTCTTGCCAAATTA 57.596 33.333 0.00 0.00 44.23 1.40
1634 2477 1.277557 GATGCCTCTCCGCCATATTCT 59.722 52.381 0.00 0.00 0.00 2.40
1640 2483 1.754803 TCTCCGCCATATTCTGTTCGT 59.245 47.619 0.00 0.00 0.00 3.85
1904 2830 3.843027 CTCTCTCCATGCCCCTACATATT 59.157 47.826 0.00 0.00 0.00 1.28
2010 3010 5.129815 AGGTTACTGAAACTGTTGTGGTCTA 59.870 40.000 0.00 0.00 38.23 2.59
2396 5219 6.569780 TCTTGATTCAGATAATTCCGTTCGA 58.430 36.000 0.00 0.00 0.00 3.71
2413 5236 4.495679 CGTTCGACCATTCCATATGTTTGG 60.496 45.833 12.05 12.05 38.18 3.28
2476 5638 4.651778 TCGGTCATCTCATTTCACCTTTT 58.348 39.130 0.00 0.00 0.00 2.27
2567 5762 5.288015 TGCACATTACATTGTTTCAGGTTG 58.712 37.500 0.00 0.00 0.00 3.77
2762 5986 7.441157 CGTCAACTTTTGCCTATAGATGGATAA 59.559 37.037 0.00 0.00 0.00 1.75
2860 6088 5.902681 TGTAGTGATGCTGGAATGTAGTAC 58.097 41.667 0.00 0.00 0.00 2.73
2890 6124 8.873186 TCTAACATTCATGATATGATTGCCAT 57.127 30.769 18.66 0.00 41.78 4.40
3168 7803 8.097662 AGGCCTTATGATAGAATAGTACAAAGC 58.902 37.037 0.00 0.00 0.00 3.51
3279 7918 5.394224 CCCGTAAACAAATGGGTAAACAT 57.606 39.130 0.00 0.00 40.39 2.71
3286 7925 3.257127 ACAAATGGGTAAACATTGTCGGG 59.743 43.478 0.00 0.00 40.71 5.14
3288 7927 2.660670 TGGGTAAACATTGTCGGGTT 57.339 45.000 0.00 0.00 0.00 4.11
3315 7954 8.184304 TCTGAACCTAGATAATTAGGAGAAGC 57.816 38.462 6.11 0.00 42.39 3.86
3331 7970 4.509891 GAGAAGCGAATTTTGTATCGAGC 58.490 43.478 0.00 0.00 41.43 5.03
3365 8004 0.521735 GCACAGTTCGGGGATTTCAC 59.478 55.000 0.00 0.00 0.00 3.18
3366 8005 1.882352 GCACAGTTCGGGGATTTCACT 60.882 52.381 0.00 0.00 0.00 3.41
3522 8174 7.255569 CAGGTTTATCGTACTCATGAGTGTTA 58.744 38.462 33.76 20.15 42.52 2.41
3523 8175 7.758076 CAGGTTTATCGTACTCATGAGTGTTAA 59.242 37.037 33.76 21.81 42.52 2.01
3524 8176 8.308931 AGGTTTATCGTACTCATGAGTGTTAAA 58.691 33.333 33.76 25.06 42.52 1.52
3525 8177 8.378421 GGTTTATCGTACTCATGAGTGTTAAAC 58.622 37.037 33.76 30.88 42.52 2.01
3526 8178 8.918658 GTTTATCGTACTCATGAGTGTTAAACA 58.081 33.333 33.76 12.92 42.52 2.83
3542 8194 7.428282 TGTTAAACACATATTCATGTCACGT 57.572 32.000 0.00 0.00 43.73 4.49
3543 8195 7.866729 TGTTAAACACATATTCATGTCACGTT 58.133 30.769 0.00 0.00 43.73 3.99
3544 8196 7.800847 TGTTAAACACATATTCATGTCACGTTG 59.199 33.333 0.00 0.00 43.73 4.10
3545 8197 4.944962 ACACATATTCATGTCACGTTGG 57.055 40.909 0.00 0.00 43.73 3.77
3546 8198 4.574892 ACACATATTCATGTCACGTTGGA 58.425 39.130 0.00 0.00 43.73 3.53
3547 8199 4.631377 ACACATATTCATGTCACGTTGGAG 59.369 41.667 0.00 0.00 43.73 3.86
3548 8200 4.631377 CACATATTCATGTCACGTTGGAGT 59.369 41.667 0.00 0.00 43.73 3.85
3549 8201 4.870426 ACATATTCATGTCACGTTGGAGTC 59.130 41.667 0.00 0.00 41.75 3.36
3550 8202 2.163818 TTCATGTCACGTTGGAGTCC 57.836 50.000 0.73 0.73 0.00 3.85
3551 8203 1.044611 TCATGTCACGTTGGAGTCCA 58.955 50.000 8.12 8.12 0.00 4.02
3552 8204 1.000843 TCATGTCACGTTGGAGTCCAG 59.999 52.381 12.67 4.28 33.81 3.86
3553 8205 1.000843 CATGTCACGTTGGAGTCCAGA 59.999 52.381 12.67 3.15 33.81 3.86
3554 8206 0.387929 TGTCACGTTGGAGTCCAGAC 59.612 55.000 18.11 18.11 33.81 3.51
3555 8207 0.674534 GTCACGTTGGAGTCCAGACT 59.325 55.000 17.81 0.00 45.84 3.24
3556 8208 1.068741 GTCACGTTGGAGTCCAGACTT 59.931 52.381 17.81 9.01 42.66 3.01
3557 8209 1.068588 TCACGTTGGAGTCCAGACTTG 59.931 52.381 12.67 15.76 42.66 3.16
3558 8210 0.393077 ACGTTGGAGTCCAGACTTGG 59.607 55.000 12.67 4.59 46.49 3.61
3559 8211 0.951040 CGTTGGAGTCCAGACTTGGC 60.951 60.000 12.67 0.00 44.63 4.52
3560 8212 0.951040 GTTGGAGTCCAGACTTGGCG 60.951 60.000 12.67 0.00 44.63 5.69
3561 8213 2.435059 GGAGTCCAGACTTGGCGC 60.435 66.667 3.60 0.00 44.63 6.53
3562 8214 2.811317 GAGTCCAGACTTGGCGCG 60.811 66.667 0.00 0.00 44.63 6.86
3565 8217 4.617520 TCCAGACTTGGCGCGCAA 62.618 61.111 34.42 21.78 44.63 4.85
3566 8218 4.093952 CCAGACTTGGCGCGCAAG 62.094 66.667 34.42 31.13 37.73 4.01
3567 8219 4.093952 CAGACTTGGCGCGCAAGG 62.094 66.667 34.42 26.00 34.20 3.61
3568 8220 4.314440 AGACTTGGCGCGCAAGGA 62.314 61.111 34.42 13.90 34.20 3.36
3569 8221 3.793144 GACTTGGCGCGCAAGGAG 61.793 66.667 34.42 24.16 34.20 3.69
3570 8222 4.314440 ACTTGGCGCGCAAGGAGA 62.314 61.111 34.42 5.20 34.20 3.71
3571 8223 2.821366 CTTGGCGCGCAAGGAGAT 60.821 61.111 34.42 0.00 38.28 2.75
3572 8224 3.104602 CTTGGCGCGCAAGGAGATG 62.105 63.158 34.42 9.40 38.28 2.90
3573 8225 3.899981 TTGGCGCGCAAGGAGATGT 62.900 57.895 34.42 0.00 38.28 3.06
3574 8226 3.567797 GGCGCGCAAGGAGATGTC 61.568 66.667 34.42 7.22 38.28 3.06
3575 8227 3.567797 GCGCGCAAGGAGATGTCC 61.568 66.667 29.10 0.00 44.33 4.02
3576 8228 2.125552 CGCGCAAGGAGATGTCCA 60.126 61.111 12.14 0.00 46.80 4.02
3577 8229 2.169789 CGCGCAAGGAGATGTCCAG 61.170 63.158 12.14 4.34 46.80 3.86
3578 8230 1.817099 GCGCAAGGAGATGTCCAGG 60.817 63.158 12.14 3.56 46.80 4.45
3579 8231 1.900351 CGCAAGGAGATGTCCAGGA 59.100 57.895 12.14 0.00 46.80 3.86
3580 8232 0.179089 CGCAAGGAGATGTCCAGGAG 60.179 60.000 12.14 0.44 46.80 3.69
3581 8233 1.198713 GCAAGGAGATGTCCAGGAGA 58.801 55.000 12.14 0.00 46.80 3.71
3582 8234 1.767681 GCAAGGAGATGTCCAGGAGAT 59.232 52.381 12.14 0.00 46.80 2.75
3583 8235 2.968574 GCAAGGAGATGTCCAGGAGATA 59.031 50.000 12.14 0.00 46.80 1.98
3584 8236 3.006752 GCAAGGAGATGTCCAGGAGATAG 59.993 52.174 12.14 0.00 46.80 2.08
3585 8237 4.478203 CAAGGAGATGTCCAGGAGATAGA 58.522 47.826 12.14 0.00 46.80 1.98
3586 8238 4.112634 AGGAGATGTCCAGGAGATAGAC 57.887 50.000 12.14 0.00 46.80 2.59
3587 8239 3.726859 AGGAGATGTCCAGGAGATAGACT 59.273 47.826 12.14 0.00 46.80 3.24
3588 8240 4.917040 AGGAGATGTCCAGGAGATAGACTA 59.083 45.833 12.14 0.00 46.80 2.59
3589 8241 5.014123 AGGAGATGTCCAGGAGATAGACTAG 59.986 48.000 12.14 0.00 46.80 2.57
3590 8242 5.253330 GAGATGTCCAGGAGATAGACTAGG 58.747 50.000 0.00 0.00 0.00 3.02
3591 8243 4.667858 AGATGTCCAGGAGATAGACTAGGT 59.332 45.833 0.00 0.00 0.00 3.08
3592 8244 4.883021 TGTCCAGGAGATAGACTAGGTT 57.117 45.455 0.00 0.00 0.00 3.50
3593 8245 4.537751 TGTCCAGGAGATAGACTAGGTTG 58.462 47.826 0.00 0.00 0.00 3.77
3594 8246 4.017407 TGTCCAGGAGATAGACTAGGTTGT 60.017 45.833 0.00 0.00 0.00 3.32
3595 8247 4.957327 GTCCAGGAGATAGACTAGGTTGTT 59.043 45.833 0.00 0.00 0.00 2.83
3596 8248 6.127793 GTCCAGGAGATAGACTAGGTTGTTA 58.872 44.000 0.00 0.00 0.00 2.41
3597 8249 6.263617 GTCCAGGAGATAGACTAGGTTGTTAG 59.736 46.154 0.00 0.00 0.00 2.34
3598 8250 6.159928 TCCAGGAGATAGACTAGGTTGTTAGA 59.840 42.308 0.00 0.00 0.00 2.10
3599 8251 6.263617 CCAGGAGATAGACTAGGTTGTTAGAC 59.736 46.154 0.00 0.00 0.00 2.59
3600 8252 6.829298 CAGGAGATAGACTAGGTTGTTAGACA 59.171 42.308 0.00 0.00 0.00 3.41
3601 8253 7.339721 CAGGAGATAGACTAGGTTGTTAGACAA 59.660 40.741 0.00 0.00 35.42 3.18
3602 8254 7.558444 AGGAGATAGACTAGGTTGTTAGACAAG 59.442 40.741 0.00 0.00 39.00 3.16
3603 8255 7.339976 GGAGATAGACTAGGTTGTTAGACAAGT 59.660 40.741 0.00 0.00 39.00 3.16
3604 8256 9.393512 GAGATAGACTAGGTTGTTAGACAAGTA 57.606 37.037 0.00 0.00 39.00 2.24
3605 8257 9.398538 AGATAGACTAGGTTGTTAGACAAGTAG 57.601 37.037 0.00 2.13 39.00 2.57
3606 8258 9.176460 GATAGACTAGGTTGTTAGACAAGTAGT 57.824 37.037 12.27 12.27 39.00 2.73
3607 8259 7.836479 AGACTAGGTTGTTAGACAAGTAGTT 57.164 36.000 13.10 5.51 39.00 2.24
3608 8260 7.884257 AGACTAGGTTGTTAGACAAGTAGTTC 58.116 38.462 13.10 8.98 39.00 3.01
3609 8261 7.504911 AGACTAGGTTGTTAGACAAGTAGTTCA 59.495 37.037 13.10 0.00 39.00 3.18
3610 8262 8.015185 ACTAGGTTGTTAGACAAGTAGTTCAA 57.985 34.615 0.00 0.00 39.00 2.69
3611 8263 8.648693 ACTAGGTTGTTAGACAAGTAGTTCAAT 58.351 33.333 0.00 0.00 39.00 2.57
3614 8266 9.654663 AGGTTGTTAGACAAGTAGTTCAATATC 57.345 33.333 0.00 0.00 39.00 1.63
3615 8267 9.654663 GGTTGTTAGACAAGTAGTTCAATATCT 57.345 33.333 0.00 0.00 39.00 1.98
3645 8297 9.500701 AAACCTCTTATCTCTTTATCTCTTCCT 57.499 33.333 0.00 0.00 0.00 3.36
3646 8298 8.706322 ACCTCTTATCTCTTTATCTCTTCCTC 57.294 38.462 0.00 0.00 0.00 3.71
3647 8299 8.511126 ACCTCTTATCTCTTTATCTCTTCCTCT 58.489 37.037 0.00 0.00 0.00 3.69
3648 8300 9.014297 CCTCTTATCTCTTTATCTCTTCCTCTC 57.986 40.741 0.00 0.00 0.00 3.20
3649 8301 8.934023 TCTTATCTCTTTATCTCTTCCTCTCC 57.066 38.462 0.00 0.00 0.00 3.71
3650 8302 8.506921 TCTTATCTCTTTATCTCTTCCTCTCCA 58.493 37.037 0.00 0.00 0.00 3.86
3651 8303 9.142014 CTTATCTCTTTATCTCTTCCTCTCCAA 57.858 37.037 0.00 0.00 0.00 3.53
3652 8304 7.601705 ATCTCTTTATCTCTTCCTCTCCAAG 57.398 40.000 0.00 0.00 0.00 3.61
3653 8305 6.498538 TCTCTTTATCTCTTCCTCTCCAAGT 58.501 40.000 0.00 0.00 0.00 3.16
3654 8306 6.957020 TCTCTTTATCTCTTCCTCTCCAAGTT 59.043 38.462 0.00 0.00 0.00 2.66
3655 8307 6.940739 TCTTTATCTCTTCCTCTCCAAGTTG 58.059 40.000 0.00 0.00 0.00 3.16
3656 8308 6.498651 TCTTTATCTCTTCCTCTCCAAGTTGT 59.501 38.462 1.45 0.00 0.00 3.32
3657 8309 7.674348 TCTTTATCTCTTCCTCTCCAAGTTGTA 59.326 37.037 1.45 0.00 0.00 2.41
3658 8310 7.792364 TTATCTCTTCCTCTCCAAGTTGTAA 57.208 36.000 1.45 0.00 0.00 2.41
3659 8311 6.882768 ATCTCTTCCTCTCCAAGTTGTAAT 57.117 37.500 1.45 0.00 0.00 1.89
3660 8312 6.287589 TCTCTTCCTCTCCAAGTTGTAATC 57.712 41.667 1.45 0.00 0.00 1.75
3661 8313 6.019748 TCTCTTCCTCTCCAAGTTGTAATCT 58.980 40.000 1.45 0.00 0.00 2.40
3662 8314 6.498651 TCTCTTCCTCTCCAAGTTGTAATCTT 59.501 38.462 1.45 0.00 0.00 2.40
3663 8315 6.702329 TCTTCCTCTCCAAGTTGTAATCTTC 58.298 40.000 1.45 0.00 0.00 2.87
3664 8316 6.498651 TCTTCCTCTCCAAGTTGTAATCTTCT 59.501 38.462 1.45 0.00 0.00 2.85
3665 8317 6.287589 TCCTCTCCAAGTTGTAATCTTCTC 57.712 41.667 1.45 0.00 0.00 2.87
3666 8318 5.187967 TCCTCTCCAAGTTGTAATCTTCTCC 59.812 44.000 1.45 0.00 0.00 3.71
3667 8319 5.046304 CCTCTCCAAGTTGTAATCTTCTCCA 60.046 44.000 1.45 0.00 0.00 3.86
3668 8320 6.433847 TCTCCAAGTTGTAATCTTCTCCAA 57.566 37.500 1.45 0.00 0.00 3.53
3669 8321 6.231211 TCTCCAAGTTGTAATCTTCTCCAAC 58.769 40.000 1.45 0.00 37.93 3.77
3670 8322 5.935945 TCCAAGTTGTAATCTTCTCCAACA 58.064 37.500 1.45 0.00 39.63 3.33
3671 8323 6.361433 TCCAAGTTGTAATCTTCTCCAACAA 58.639 36.000 1.45 0.00 39.63 2.83
3672 8324 6.831353 TCCAAGTTGTAATCTTCTCCAACAAA 59.169 34.615 1.45 0.00 39.63 2.83
3673 8325 6.918022 CCAAGTTGTAATCTTCTCCAACAAAC 59.082 38.462 1.45 0.00 39.63 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 7.648510 TCAAAATTTAGACGCACGGTTTAAAAT 59.351 29.630 0.00 0.00 38.31 1.82
45 48 7.043325 CCAACGATGAAAACGGTTCAAAATTTA 60.043 33.333 7.74 0.00 35.94 1.40
50 53 3.377485 TCCAACGATGAAAACGGTTCAAA 59.623 39.130 7.74 0.00 35.94 2.69
52 55 2.562635 TCCAACGATGAAAACGGTTCA 58.437 42.857 6.30 6.30 35.94 3.18
57 60 3.483574 CGAGGAATCCAACGATGAAAACG 60.484 47.826 12.05 0.00 38.45 3.60
58 61 3.727970 GCGAGGAATCCAACGATGAAAAC 60.728 47.826 19.24 0.58 0.00 2.43
67 70 1.153901 TCGACGCGAGGAATCCAAC 60.154 57.895 15.93 0.00 0.00 3.77
100 103 6.896860 TCATGAAAACCTATCAACATGGGATT 59.103 34.615 7.35 0.00 34.16 3.01
177 182 3.022287 CACGTGCGTGCCTCTTTT 58.978 55.556 11.81 0.00 39.39 2.27
231 236 4.272100 GCGAGAGGCACGGTTTTA 57.728 55.556 0.00 0.00 42.87 1.52
298 324 0.823356 AGGCATGGTTGTGCTTTCGT 60.823 50.000 0.00 0.00 44.45 3.85
320 348 0.174162 GGCATGATTTTGCTTCCGCT 59.826 50.000 0.00 0.00 42.38 5.52
401 443 2.254546 TGGTTGTGCTTTCGTGAGAT 57.745 45.000 0.00 0.00 41.60 2.75
428 470 3.128349 GAGTCACGGTTTTGCTTCTGTA 58.872 45.455 0.00 0.00 0.00 2.74
429 471 1.940613 GAGTCACGGTTTTGCTTCTGT 59.059 47.619 0.00 0.00 0.00 3.41
505 587 6.535508 CGGTTTTCTATTGGTCTTCCTTAGAG 59.464 42.308 0.00 0.00 33.83 2.43
506 588 6.211986 TCGGTTTTCTATTGGTCTTCCTTAGA 59.788 38.462 0.00 0.00 31.95 2.10
519 605 5.655893 TTTCGACGTTTCGGTTTTCTATT 57.344 34.783 0.00 0.00 45.90 1.73
562 656 1.784283 CACGCGTTTTTGGCCTTTTAG 59.216 47.619 10.22 0.00 0.00 1.85
597 692 9.859427 CATTTGCCACTTCTTTCAGATTTTATA 57.141 29.630 0.00 0.00 0.00 0.98
610 711 1.074405 TCTCAGCCATTTGCCACTTCT 59.926 47.619 0.00 0.00 42.71 2.85
613 732 0.964358 GCTCTCAGCCATTTGCCACT 60.964 55.000 0.00 0.00 42.71 4.00
634 753 2.401583 ATGATAAGCGCCACTTGACA 57.598 45.000 2.29 0.00 39.58 3.58
648 767 3.461061 CTTCAGAAGCCTCGCAATGATA 58.539 45.455 0.00 0.00 0.00 2.15
652 771 0.615331 TCCTTCAGAAGCCTCGCAAT 59.385 50.000 4.41 0.00 0.00 3.56
698 817 0.893727 GGACTGGACAAATGCGGGTT 60.894 55.000 0.00 0.00 0.00 4.11
699 818 1.303317 GGACTGGACAAATGCGGGT 60.303 57.895 0.00 0.00 0.00 5.28
700 819 1.002134 AGGACTGGACAAATGCGGG 60.002 57.895 0.00 0.00 0.00 6.13
701 820 1.361668 CGAGGACTGGACAAATGCGG 61.362 60.000 0.00 0.00 0.00 5.69
702 821 1.970917 GCGAGGACTGGACAAATGCG 61.971 60.000 0.00 0.00 0.00 4.73
703 822 0.955428 TGCGAGGACTGGACAAATGC 60.955 55.000 0.00 0.00 0.00 3.56
704 823 1.399440 CATGCGAGGACTGGACAAATG 59.601 52.381 0.00 0.00 0.00 2.32
705 824 1.278985 TCATGCGAGGACTGGACAAAT 59.721 47.619 0.00 0.00 0.00 2.32
706 825 0.684535 TCATGCGAGGACTGGACAAA 59.315 50.000 0.00 0.00 0.00 2.83
707 826 0.247460 CTCATGCGAGGACTGGACAA 59.753 55.000 0.00 0.00 35.44 3.18
708 827 0.611896 TCTCATGCGAGGACTGGACA 60.612 55.000 0.00 0.00 39.95 4.02
709 828 0.532573 TTCTCATGCGAGGACTGGAC 59.467 55.000 0.00 0.00 39.95 4.02
710 829 1.489481 ATTCTCATGCGAGGACTGGA 58.511 50.000 0.00 0.00 39.95 3.86
711 830 3.126831 GTTATTCTCATGCGAGGACTGG 58.873 50.000 0.00 0.00 39.95 4.00
712 831 2.791560 CGTTATTCTCATGCGAGGACTG 59.208 50.000 0.00 0.00 39.95 3.51
713 832 2.799917 GCGTTATTCTCATGCGAGGACT 60.800 50.000 0.00 0.00 39.95 3.85
714 833 1.523095 GCGTTATTCTCATGCGAGGAC 59.477 52.381 0.00 0.00 39.95 3.85
715 834 1.136110 TGCGTTATTCTCATGCGAGGA 59.864 47.619 0.00 0.00 39.95 3.71
716 835 1.524355 CTGCGTTATTCTCATGCGAGG 59.476 52.381 0.00 0.00 39.95 4.63
717 836 2.463876 TCTGCGTTATTCTCATGCGAG 58.536 47.619 0.00 0.00 40.98 5.03
718 837 2.463876 CTCTGCGTTATTCTCATGCGA 58.536 47.619 0.00 0.00 0.00 5.10
719 838 1.070975 GCTCTGCGTTATTCTCATGCG 60.071 52.381 0.00 0.00 0.00 4.73
720 839 2.659731 GCTCTGCGTTATTCTCATGC 57.340 50.000 0.00 0.00 0.00 4.06
733 852 1.608717 TTCCTTCTCTCCCGCTCTGC 61.609 60.000 0.00 0.00 0.00 4.26
734 853 0.459489 CTTCCTTCTCTCCCGCTCTG 59.541 60.000 0.00 0.00 0.00 3.35
735 854 0.686112 CCTTCCTTCTCTCCCGCTCT 60.686 60.000 0.00 0.00 0.00 4.09
736 855 0.684805 TCCTTCCTTCTCTCCCGCTC 60.685 60.000 0.00 0.00 0.00 5.03
737 856 0.252284 TTCCTTCCTTCTCTCCCGCT 60.252 55.000 0.00 0.00 0.00 5.52
738 857 0.176910 CTTCCTTCCTTCTCTCCCGC 59.823 60.000 0.00 0.00 0.00 6.13
739 858 0.176910 GCTTCCTTCCTTCTCTCCCG 59.823 60.000 0.00 0.00 0.00 5.14
740 859 0.176910 CGCTTCCTTCCTTCTCTCCC 59.823 60.000 0.00 0.00 0.00 4.30
741 860 0.176910 CCGCTTCCTTCCTTCTCTCC 59.823 60.000 0.00 0.00 0.00 3.71
742 861 0.461163 GCCGCTTCCTTCCTTCTCTC 60.461 60.000 0.00 0.00 0.00 3.20
743 862 0.907230 AGCCGCTTCCTTCCTTCTCT 60.907 55.000 0.00 0.00 0.00 3.10
744 863 0.461163 GAGCCGCTTCCTTCCTTCTC 60.461 60.000 0.00 0.00 0.00 2.87
805 924 4.426313 GCCCAGCCCACACTACCC 62.426 72.222 0.00 0.00 0.00 3.69
911 1041 2.038975 CTTGGGACTCCGGGGAGA 59.961 66.667 21.16 0.00 44.53 3.71
1007 1210 4.612412 GGTGCCCGTCGTGGAACA 62.612 66.667 11.59 0.00 42.00 3.18
1155 1507 2.284699 AGGAGCAAGTACGGGCCT 60.285 61.111 0.84 0.02 0.00 5.19
1165 1535 4.704833 GGCGCTGTGGAGGAGCAA 62.705 66.667 7.64 0.00 36.12 3.91
1345 1750 1.923395 CCAGGGGAGGTACTTGCCA 60.923 63.158 17.36 0.00 41.55 4.92
1561 2033 1.617850 CTCACTCACTCAGGAAGCACT 59.382 52.381 0.00 0.00 0.00 4.40
1821 2722 3.858632 GATCTCGCCGTCGCCGTAG 62.859 68.421 0.00 0.00 35.26 3.51
1822 2723 3.945434 GATCTCGCCGTCGCCGTA 61.945 66.667 0.00 0.00 35.26 4.02
1838 2745 1.743958 GGAAGACGACAATCTCGAGGA 59.256 52.381 13.56 0.00 46.14 3.71
1904 2830 2.890311 CACTTGTTGCCACCATTAGGAA 59.110 45.455 0.00 0.00 38.69 3.36
2396 5219 1.408702 GCGCCAAACATATGGAATGGT 59.591 47.619 18.95 0.00 43.54 3.55
2413 5236 4.991687 AGCTTCCATAATTTCTACTAGCGC 59.008 41.667 0.00 0.00 0.00 5.92
2532 5713 5.957842 TGTAATGTGCAAGGAACTAAAGG 57.042 39.130 0.00 0.00 38.49 3.11
2762 5986 6.373774 CCTGCTGAGTTTTCTGAATCTGTATT 59.626 38.462 0.00 0.00 0.00 1.89
2860 6088 9.163899 CAATCATATCATGAATGTTAGAGGAGG 57.836 37.037 0.00 0.00 43.50 4.30
2890 6124 2.472695 ACGCTTTGTCTATGAAGCCA 57.527 45.000 2.85 0.00 44.06 4.75
2932 6194 6.610075 AAAATATTGCAGGACCATCAACTT 57.390 33.333 0.00 0.00 0.00 2.66
3198 7833 4.278419 GGCACTAGGTGTTTGACAGATTTT 59.722 41.667 0.00 0.00 35.75 1.82
3232 7870 6.032460 GTCCAAAATTGTCTTTCGAAATAGCG 59.968 38.462 11.70 0.00 0.00 4.26
3279 7918 4.346730 TCTAGGTTCAGATAACCCGACAA 58.653 43.478 3.33 0.00 41.18 3.18
3315 7954 3.060230 TGTGTCGCTCGATACAAAATTCG 59.940 43.478 17.19 0.00 41.91 3.34
3331 7970 0.943673 TGTGCTTTGGTGATGTGTCG 59.056 50.000 0.00 0.00 0.00 4.35
3365 8004 5.587844 ACTGAAGTTATGAGCCTGCAAATAG 59.412 40.000 0.00 0.00 0.00 1.73
3366 8005 5.500234 ACTGAAGTTATGAGCCTGCAAATA 58.500 37.500 0.00 0.00 0.00 1.40
3406 8047 5.620738 TTTGCCTAGCAGAGAAGATGTAT 57.379 39.130 0.00 0.00 40.61 2.29
3451 8094 9.710900 TCAGTTATGACCATATATAAGCAGTTG 57.289 33.333 0.00 0.00 0.00 3.16
3527 8179 4.271049 GGACTCCAACGTGACATGAATATG 59.729 45.833 0.00 0.00 40.24 1.78
3528 8180 4.081142 TGGACTCCAACGTGACATGAATAT 60.081 41.667 0.00 0.00 0.00 1.28
3529 8181 3.259625 TGGACTCCAACGTGACATGAATA 59.740 43.478 0.00 0.00 0.00 1.75
3530 8182 2.038426 TGGACTCCAACGTGACATGAAT 59.962 45.455 0.00 0.00 0.00 2.57
3531 8183 1.414550 TGGACTCCAACGTGACATGAA 59.585 47.619 0.00 0.00 0.00 2.57
3532 8184 1.000843 CTGGACTCCAACGTGACATGA 59.999 52.381 0.00 0.00 30.80 3.07
3533 8185 1.000843 TCTGGACTCCAACGTGACATG 59.999 52.381 0.00 0.00 30.80 3.21
3534 8186 1.000955 GTCTGGACTCCAACGTGACAT 59.999 52.381 9.36 0.00 30.80 3.06
3535 8187 0.387929 GTCTGGACTCCAACGTGACA 59.612 55.000 9.36 0.00 30.80 3.58
3536 8188 0.674534 AGTCTGGACTCCAACGTGAC 59.325 55.000 0.00 3.38 36.92 3.67
3537 8189 1.068588 CAAGTCTGGACTCCAACGTGA 59.931 52.381 15.02 1.97 41.58 4.35
3538 8190 1.502231 CAAGTCTGGACTCCAACGTG 58.498 55.000 3.60 5.77 41.58 4.49
3539 8191 0.393077 CCAAGTCTGGACTCCAACGT 59.607 55.000 3.60 0.00 46.92 3.99
3540 8192 0.951040 GCCAAGTCTGGACTCCAACG 60.951 60.000 3.60 0.00 46.92 4.10
3541 8193 0.951040 CGCCAAGTCTGGACTCCAAC 60.951 60.000 3.60 1.32 46.92 3.77
3542 8194 1.371183 CGCCAAGTCTGGACTCCAA 59.629 57.895 3.60 0.00 46.92 3.53
3543 8195 3.059982 CGCCAAGTCTGGACTCCA 58.940 61.111 3.60 0.00 46.92 3.86
3544 8196 2.435059 GCGCCAAGTCTGGACTCC 60.435 66.667 0.00 0.00 46.92 3.85
3545 8197 2.811317 CGCGCCAAGTCTGGACTC 60.811 66.667 0.00 0.00 46.92 3.36
3548 8200 4.617520 TTGCGCGCCAAGTCTGGA 62.618 61.111 30.77 2.53 46.92 3.86
3549 8201 4.093952 CTTGCGCGCCAAGTCTGG 62.094 66.667 30.77 6.83 44.74 3.86
3555 8207 3.126879 CATCTCCTTGCGCGCCAA 61.127 61.111 30.77 20.82 0.00 4.52
3556 8208 4.393155 ACATCTCCTTGCGCGCCA 62.393 61.111 30.77 18.21 0.00 5.69
3557 8209 3.567797 GACATCTCCTTGCGCGCC 61.568 66.667 30.77 11.42 0.00 6.53
3558 8210 3.567797 GGACATCTCCTTGCGCGC 61.568 66.667 27.26 27.26 33.07 6.86
3559 8211 2.125552 TGGACATCTCCTTGCGCG 60.126 61.111 0.00 0.00 37.48 6.86
3560 8212 1.817099 CCTGGACATCTCCTTGCGC 60.817 63.158 0.00 0.00 37.48 6.09
3561 8213 0.179089 CTCCTGGACATCTCCTTGCG 60.179 60.000 0.00 0.00 37.48 4.85
3562 8214 1.198713 TCTCCTGGACATCTCCTTGC 58.801 55.000 0.00 0.00 37.48 4.01
3563 8215 4.280677 GTCTATCTCCTGGACATCTCCTTG 59.719 50.000 0.00 0.00 37.48 3.61
3564 8216 4.169856 AGTCTATCTCCTGGACATCTCCTT 59.830 45.833 0.00 0.00 37.80 3.36
3565 8217 3.726859 AGTCTATCTCCTGGACATCTCCT 59.273 47.826 0.00 0.00 37.80 3.69
3566 8218 4.112634 AGTCTATCTCCTGGACATCTCC 57.887 50.000 0.00 0.00 37.80 3.71
3567 8219 5.222048 ACCTAGTCTATCTCCTGGACATCTC 60.222 48.000 0.00 0.00 37.80 2.75
3568 8220 4.667858 ACCTAGTCTATCTCCTGGACATCT 59.332 45.833 0.00 0.00 37.80 2.90
3569 8221 4.993028 ACCTAGTCTATCTCCTGGACATC 58.007 47.826 0.00 0.00 37.80 3.06
3570 8222 5.144100 CAACCTAGTCTATCTCCTGGACAT 58.856 45.833 0.00 0.00 37.80 3.06
3571 8223 4.017407 ACAACCTAGTCTATCTCCTGGACA 60.017 45.833 0.00 0.00 37.80 4.02
3572 8224 4.538738 ACAACCTAGTCTATCTCCTGGAC 58.461 47.826 0.00 0.00 35.67 4.02
3573 8225 4.883021 ACAACCTAGTCTATCTCCTGGA 57.117 45.455 0.00 0.00 0.00 3.86
3574 8226 6.263617 GTCTAACAACCTAGTCTATCTCCTGG 59.736 46.154 0.00 0.00 0.00 4.45
3575 8227 6.829298 TGTCTAACAACCTAGTCTATCTCCTG 59.171 42.308 0.00 0.00 0.00 3.86
3576 8228 6.971340 TGTCTAACAACCTAGTCTATCTCCT 58.029 40.000 0.00 0.00 0.00 3.69
3577 8229 7.339976 ACTTGTCTAACAACCTAGTCTATCTCC 59.660 40.741 0.00 0.00 33.96 3.71
3578 8230 8.283699 ACTTGTCTAACAACCTAGTCTATCTC 57.716 38.462 0.00 0.00 33.96 2.75
3579 8231 9.398538 CTACTTGTCTAACAACCTAGTCTATCT 57.601 37.037 0.00 0.00 33.96 1.98
3580 8232 9.176460 ACTACTTGTCTAACAACCTAGTCTATC 57.824 37.037 0.00 0.00 33.96 2.08
3581 8233 9.531158 AACTACTTGTCTAACAACCTAGTCTAT 57.469 33.333 6.15 0.00 33.96 1.98
3582 8234 8.930846 AACTACTTGTCTAACAACCTAGTCTA 57.069 34.615 6.15 0.00 33.96 2.59
3583 8235 7.504911 TGAACTACTTGTCTAACAACCTAGTCT 59.495 37.037 6.15 0.00 33.96 3.24
3584 8236 7.655490 TGAACTACTTGTCTAACAACCTAGTC 58.345 38.462 6.15 0.00 33.96 2.59
3585 8237 7.592885 TGAACTACTTGTCTAACAACCTAGT 57.407 36.000 0.00 0.00 33.96 2.57
3588 8240 9.654663 GATATTGAACTACTTGTCTAACAACCT 57.345 33.333 0.00 0.00 33.96 3.50
3589 8241 9.654663 AGATATTGAACTACTTGTCTAACAACC 57.345 33.333 0.00 0.00 33.96 3.77
3619 8271 9.500701 AGGAAGAGATAAAGAGATAAGAGGTTT 57.499 33.333 0.00 0.00 0.00 3.27
3620 8272 9.143155 GAGGAAGAGATAAAGAGATAAGAGGTT 57.857 37.037 0.00 0.00 0.00 3.50
3621 8273 8.511126 AGAGGAAGAGATAAAGAGATAAGAGGT 58.489 37.037 0.00 0.00 0.00 3.85
3622 8274 8.940397 AGAGGAAGAGATAAAGAGATAAGAGG 57.060 38.462 0.00 0.00 0.00 3.69
3623 8275 9.014297 GGAGAGGAAGAGATAAAGAGATAAGAG 57.986 40.741 0.00 0.00 0.00 2.85
3624 8276 8.506921 TGGAGAGGAAGAGATAAAGAGATAAGA 58.493 37.037 0.00 0.00 0.00 2.10
3625 8277 8.704849 TGGAGAGGAAGAGATAAAGAGATAAG 57.295 38.462 0.00 0.00 0.00 1.73
3626 8278 9.142014 CTTGGAGAGGAAGAGATAAAGAGATAA 57.858 37.037 0.00 0.00 0.00 1.75
3627 8279 8.285891 ACTTGGAGAGGAAGAGATAAAGAGATA 58.714 37.037 0.00 0.00 0.00 1.98
3628 8280 7.132128 ACTTGGAGAGGAAGAGATAAAGAGAT 58.868 38.462 0.00 0.00 0.00 2.75
3629 8281 6.498538 ACTTGGAGAGGAAGAGATAAAGAGA 58.501 40.000 0.00 0.00 0.00 3.10
3630 8282 6.790232 ACTTGGAGAGGAAGAGATAAAGAG 57.210 41.667 0.00 0.00 0.00 2.85
3631 8283 6.498651 ACAACTTGGAGAGGAAGAGATAAAGA 59.501 38.462 0.00 0.00 0.00 2.52
3632 8284 6.706295 ACAACTTGGAGAGGAAGAGATAAAG 58.294 40.000 0.00 0.00 0.00 1.85
3633 8285 6.688073 ACAACTTGGAGAGGAAGAGATAAA 57.312 37.500 0.00 0.00 0.00 1.40
3634 8286 7.792364 TTACAACTTGGAGAGGAAGAGATAA 57.208 36.000 0.00 0.00 0.00 1.75
3635 8287 7.841729 AGATTACAACTTGGAGAGGAAGAGATA 59.158 37.037 0.00 0.00 0.00 1.98
3636 8288 6.671779 AGATTACAACTTGGAGAGGAAGAGAT 59.328 38.462 0.00 0.00 0.00 2.75
3637 8289 6.019748 AGATTACAACTTGGAGAGGAAGAGA 58.980 40.000 0.00 0.00 0.00 3.10
3638 8290 6.293004 AGATTACAACTTGGAGAGGAAGAG 57.707 41.667 0.00 0.00 0.00 2.85
3639 8291 6.498651 AGAAGATTACAACTTGGAGAGGAAGA 59.501 38.462 0.00 0.00 0.00 2.87
3640 8292 6.706295 AGAAGATTACAACTTGGAGAGGAAG 58.294 40.000 0.00 0.00 0.00 3.46
3641 8293 6.295916 GGAGAAGATTACAACTTGGAGAGGAA 60.296 42.308 0.00 0.00 0.00 3.36
3642 8294 5.187967 GGAGAAGATTACAACTTGGAGAGGA 59.812 44.000 0.00 0.00 0.00 3.71
3643 8295 5.046304 TGGAGAAGATTACAACTTGGAGAGG 60.046 44.000 0.00 0.00 0.00 3.69
3644 8296 6.042638 TGGAGAAGATTACAACTTGGAGAG 57.957 41.667 0.00 0.00 0.00 3.20
3645 8297 6.183361 TGTTGGAGAAGATTACAACTTGGAGA 60.183 38.462 0.00 0.00 42.61 3.71
3646 8298 5.997746 TGTTGGAGAAGATTACAACTTGGAG 59.002 40.000 0.00 0.00 42.61 3.86
3647 8299 5.935945 TGTTGGAGAAGATTACAACTTGGA 58.064 37.500 0.00 0.00 42.61 3.53
3648 8300 6.633500 TTGTTGGAGAAGATTACAACTTGG 57.367 37.500 0.00 0.00 42.61 3.61
3649 8301 7.914537 GTTTGTTGGAGAAGATTACAACTTG 57.085 36.000 0.00 0.00 42.61 3.16


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

AutoCloner maintained by Alex Coulton.