Multiple sequence alignment - TraesCS6B01G107300

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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 TraesCS6B01G107300 chr6B 100.000 2288 0 0 1 2288 87583371 87581084 0.000000e+00 4226.0
1 TraesCS6B01G107300 chr6B 98.079 833 14 2 1458 2288 87574797 87573965 0.000000e+00 1448.0
2 TraesCS6B01G107300 chr6B 95.319 470 22 0 276 745 653318576 653319045 0.000000e+00 747.0
3 TraesCS6B01G107300 chr6B 92.635 353 25 1 810 1162 653330801 653331152 7.290000e-140 507.0
4 TraesCS6B01G107300 chr6B 95.597 159 6 1 1164 1322 653331508 653331665 1.050000e-63 254.0
5 TraesCS6B01G107300 chr6B 89.524 105 8 2 1359 1460 680158350 680158246 1.840000e-26 130.0
6 TraesCS6B01G107300 chr6B 96.000 75 3 0 740 814 653321793 653321867 3.090000e-24 122.0
7 TraesCS6B01G107300 chr3B 95.833 1320 46 1 4 1323 810100081 810101391 0.000000e+00 2124.0
8 TraesCS6B01G107300 chr3B 97.599 833 17 3 1458 2288 659955382 659954551 0.000000e+00 1424.0
9 TraesCS6B01G107300 chr3B 97.473 831 18 3 1460 2288 659962391 659961562 0.000000e+00 1415.0
10 TraesCS6B01G107300 chr2B 97.719 833 16 3 1458 2288 99098414 99099245 0.000000e+00 1430.0
11 TraesCS6B01G107300 chr2B 97.356 832 19 3 1459 2288 738140963 738140133 0.000000e+00 1411.0
12 TraesCS6B01G107300 chr2B 89.815 108 9 2 1355 1460 11355919 11356026 1.100000e-28 137.0
13 TraesCS6B01G107300 chr2B 88.785 107 10 2 1356 1460 45562542 45562648 1.840000e-26 130.0
14 TraesCS6B01G107300 chr7B 97.593 831 17 3 1460 2288 95008636 95009465 0.000000e+00 1421.0
15 TraesCS6B01G107300 chr7B 97.365 835 17 5 1458 2288 492878190 492877357 0.000000e+00 1415.0
16 TraesCS6B01G107300 chr7B 89.623 106 7 3 1358 1460 651073294 651073190 5.130000e-27 132.0
17 TraesCS6B01G107300 chr4B 97.479 833 19 2 1458 2288 441145064 441144232 0.000000e+00 1421.0
18 TraesCS6B01G107300 chr1B 97.476 832 18 3 1458 2287 14061143 14060313 0.000000e+00 1417.0
19 TraesCS6B01G107300 chr7D 90.633 395 36 1 930 1323 36510223 36509829 7.240000e-145 523.0
20 TraesCS6B01G107300 chr4D 85.813 289 41 0 1035 1323 58650133 58649845 7.940000e-80 307.0
21 TraesCS6B01G107300 chrUn 82.500 200 27 7 1358 1553 411344675 411344870 3.910000e-38 169.0
22 TraesCS6B01G107300 chr5A 89.524 105 9 2 1358 1460 678701645 678701541 5.130000e-27 132.0
23 TraesCS6B01G107300 chr5A 93.878 49 3 0 1271 1319 471726537 471726585 8.770000e-10 75.0
24 TraesCS6B01G107300 chr7A 88.571 105 10 2 1358 1460 635668392 635668288 2.390000e-25 126.0
25 TraesCS6B01G107300 chr4A 87.963 108 11 2 1355 1460 564730539 564730646 2.390000e-25 126.0
26 TraesCS6B01G107300 chr3A 85.981 107 12 1 1357 1460 711334383 711334489 6.680000e-21 111.0
27 TraesCS6B01G107300 chr5B 100.000 29 0 0 1271 1299 438020206 438020234 1.000000e-03 54.7


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G107300 chr6B 87581084 87583371 2287 True 4226.0 4226 100.0000 1 2288 1 chr6B.!!$R2 2287
1 TraesCS6B01G107300 chr6B 87573965 87574797 832 True 1448.0 1448 98.0790 1458 2288 1 chr6B.!!$R1 830
2 TraesCS6B01G107300 chr6B 653318576 653321867 3291 False 434.5 747 95.6595 276 814 2 chr6B.!!$F1 538
3 TraesCS6B01G107300 chr6B 653330801 653331665 864 False 380.5 507 94.1160 810 1322 2 chr6B.!!$F2 512
4 TraesCS6B01G107300 chr3B 810100081 810101391 1310 False 2124.0 2124 95.8330 4 1323 1 chr3B.!!$F1 1319
5 TraesCS6B01G107300 chr3B 659954551 659955382 831 True 1424.0 1424 97.5990 1458 2288 1 chr3B.!!$R1 830
6 TraesCS6B01G107300 chr3B 659961562 659962391 829 True 1415.0 1415 97.4730 1460 2288 1 chr3B.!!$R2 828
7 TraesCS6B01G107300 chr2B 99098414 99099245 831 False 1430.0 1430 97.7190 1458 2288 1 chr2B.!!$F3 830
8 TraesCS6B01G107300 chr2B 738140133 738140963 830 True 1411.0 1411 97.3560 1459 2288 1 chr2B.!!$R1 829
9 TraesCS6B01G107300 chr7B 95008636 95009465 829 False 1421.0 1421 97.5930 1460 2288 1 chr7B.!!$F1 828
10 TraesCS6B01G107300 chr7B 492877357 492878190 833 True 1415.0 1415 97.3650 1458 2288 1 chr7B.!!$R1 830
11 TraesCS6B01G107300 chr4B 441144232 441145064 832 True 1421.0 1421 97.4790 1458 2288 1 chr4B.!!$R1 830
12 TraesCS6B01G107300 chr1B 14060313 14061143 830 True 1417.0 1417 97.4760 1458 2287 1 chr1B.!!$R1 829

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
97 98 1.064685 TCTGTGAGCTGGTAGATCCGA 60.065 52.381 0.0 0.0 39.52 4.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1385 4493 0.036388 TGCTTGTTCCTCGGTGGATC 60.036 55.0 0.0 0.12 45.68 3.36 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
48 49 3.127533 GTGCGCATCCCACTGACC 61.128 66.667 15.91 0.00 0.00 4.02
51 52 3.402681 CGCATCCCACTGACCCCT 61.403 66.667 0.00 0.00 0.00 4.79
97 98 1.064685 TCTGTGAGCTGGTAGATCCGA 60.065 52.381 0.00 0.00 39.52 4.55
142 143 6.425504 CAACTTGTCAAAGACATCTTCTCAC 58.574 40.000 0.12 0.00 42.40 3.51
162 163 6.405278 TCACAGAATGAGGCGAAGATAATA 57.595 37.500 0.00 0.00 39.69 0.98
348 349 3.655777 AGATTTGGTCCTTACCCTGTCAA 59.344 43.478 0.00 0.00 46.16 3.18
361 362 3.071892 ACCCTGTCAACCGAAGATACAAA 59.928 43.478 0.00 0.00 0.00 2.83
473 474 2.039818 AAGCGACTAGACGAGGATGA 57.960 50.000 18.63 0.00 35.09 2.92
529 530 1.378762 GTTTGGCAGGCCCTACAGA 59.621 57.895 8.02 0.00 34.56 3.41
627 628 2.811317 GAGAAGCTCCGCGTGGTG 60.811 66.667 16.01 14.22 36.30 4.17
696 697 4.021925 AGAGCTGGGCCGTTGGAC 62.022 66.667 0.00 0.00 0.00 4.02
709 710 1.754621 TTGGACAGTTTGCCGGCAA 60.755 52.632 37.30 37.30 0.00 4.52
726 727 3.181477 CGGCAAAGATTAATCATTGGGCA 60.181 43.478 26.32 0.00 36.36 5.36
738 739 1.753073 CATTGGGCAATTGACTCCCTC 59.247 52.381 11.97 0.00 40.69 4.30
837 3591 1.178276 AAATAAATTGCGACGGGGCA 58.822 45.000 0.00 0.00 42.12 5.36
1026 3780 2.564947 AGAAGTTCAGGTTGAGCTCGAT 59.435 45.455 7.00 0.00 36.93 3.59
1073 3827 3.641434 AGGCAGTGATGCAGATTTAGT 57.359 42.857 2.29 0.00 36.33 2.24
1130 3884 2.789213 TGCCCGTCTGAATTTCAATCA 58.211 42.857 0.01 0.00 0.00 2.57
1142 3896 7.013274 TCTGAATTTCAATCACGTCTCCTTTTT 59.987 33.333 0.01 0.00 0.00 1.94
1175 4283 2.474816 GGCCTGTCATAACTTAGCTCG 58.525 52.381 0.00 0.00 0.00 5.03
1177 4285 3.117046 GCCTGTCATAACTTAGCTCGTC 58.883 50.000 0.00 0.00 0.00 4.20
1300 4408 3.587061 ACCTGTGTGAAGTATGGAATCCA 59.413 43.478 3.67 3.67 38.19 3.41
1338 4446 1.986882 AAAAGTGTTGAGAGGCCTGG 58.013 50.000 12.00 0.00 0.00 4.45
1339 4447 0.538287 AAAGTGTTGAGAGGCCTGGC 60.538 55.000 12.00 11.05 0.00 4.85
1354 4462 4.986708 GGCCCTTGTTCGCCCCAA 62.987 66.667 0.00 0.00 39.39 4.12
1355 4463 3.680786 GCCCTTGTTCGCCCCAAC 61.681 66.667 0.00 0.00 0.00 3.77
1356 4464 2.115266 CCCTTGTTCGCCCCAACT 59.885 61.111 0.00 0.00 0.00 3.16
1357 4465 1.530655 CCCTTGTTCGCCCCAACTT 60.531 57.895 0.00 0.00 0.00 2.66
1358 4466 1.659794 CCTTGTTCGCCCCAACTTG 59.340 57.895 0.00 0.00 0.00 3.16
1359 4467 1.106944 CCTTGTTCGCCCCAACTTGT 61.107 55.000 0.00 0.00 0.00 3.16
1360 4468 0.744281 CTTGTTCGCCCCAACTTGTT 59.256 50.000 0.00 0.00 0.00 2.83
1361 4469 1.950909 CTTGTTCGCCCCAACTTGTTA 59.049 47.619 0.00 0.00 0.00 2.41
1362 4470 1.600023 TGTTCGCCCCAACTTGTTAG 58.400 50.000 0.00 0.00 0.00 2.34
1363 4471 1.141254 TGTTCGCCCCAACTTGTTAGA 59.859 47.619 0.00 0.00 0.00 2.10
1364 4472 2.223745 GTTCGCCCCAACTTGTTAGAA 58.776 47.619 0.00 0.00 0.00 2.10
1365 4473 2.817844 GTTCGCCCCAACTTGTTAGAAT 59.182 45.455 0.00 0.00 0.00 2.40
1366 4474 3.149005 TCGCCCCAACTTGTTAGAATT 57.851 42.857 0.00 0.00 0.00 2.17
1367 4475 4.289238 TCGCCCCAACTTGTTAGAATTA 57.711 40.909 0.00 0.00 0.00 1.40
1368 4476 4.653868 TCGCCCCAACTTGTTAGAATTAA 58.346 39.130 0.00 0.00 0.00 1.40
1369 4477 5.258051 TCGCCCCAACTTGTTAGAATTAAT 58.742 37.500 0.00 0.00 0.00 1.40
1370 4478 5.355910 TCGCCCCAACTTGTTAGAATTAATC 59.644 40.000 0.00 0.00 0.00 1.75
1371 4479 5.449999 CGCCCCAACTTGTTAGAATTAATCC 60.450 44.000 0.00 0.00 0.00 3.01
1372 4480 5.449999 GCCCCAACTTGTTAGAATTAATCCG 60.450 44.000 0.00 0.00 0.00 4.18
1373 4481 5.883673 CCCCAACTTGTTAGAATTAATCCGA 59.116 40.000 0.00 0.00 0.00 4.55
1374 4482 6.038271 CCCCAACTTGTTAGAATTAATCCGAG 59.962 42.308 0.00 0.00 0.00 4.63
1375 4483 6.821665 CCCAACTTGTTAGAATTAATCCGAGA 59.178 38.462 0.00 0.00 0.00 4.04
1376 4484 7.499232 CCCAACTTGTTAGAATTAATCCGAGAT 59.501 37.037 0.00 0.00 0.00 2.75
1377 4485 9.542462 CCAACTTGTTAGAATTAATCCGAGATA 57.458 33.333 0.00 0.00 0.00 1.98
1380 4488 9.530633 ACTTGTTAGAATTAATCCGAGATACAC 57.469 33.333 0.00 0.00 0.00 2.90
1381 4489 8.570096 TTGTTAGAATTAATCCGAGATACACG 57.430 34.615 0.00 0.00 0.00 4.49
1388 4496 3.749936 CCGAGATACACGGTCGATC 57.250 57.895 0.00 0.00 44.57 3.69
1389 4497 0.237761 CCGAGATACACGGTCGATCC 59.762 60.000 0.00 0.00 44.57 3.36
1390 4498 0.942252 CGAGATACACGGTCGATCCA 59.058 55.000 0.00 0.00 35.70 3.41
1391 4499 1.333881 CGAGATACACGGTCGATCCAC 60.334 57.143 0.00 0.00 35.70 4.02
1392 4500 1.001597 GAGATACACGGTCGATCCACC 60.002 57.143 0.00 0.00 35.57 4.61
1404 4512 3.557220 TCCACCGAGGAACAAGCA 58.443 55.556 0.00 0.00 45.65 3.91
1405 4513 1.833606 TCCACCGAGGAACAAGCAA 59.166 52.632 0.00 0.00 45.65 3.91
1406 4514 0.534203 TCCACCGAGGAACAAGCAAC 60.534 55.000 0.00 0.00 45.65 4.17
1407 4515 0.817634 CCACCGAGGAACAAGCAACA 60.818 55.000 0.00 0.00 41.22 3.33
1408 4516 1.238439 CACCGAGGAACAAGCAACAT 58.762 50.000 0.00 0.00 0.00 2.71
1409 4517 1.197721 CACCGAGGAACAAGCAACATC 59.802 52.381 0.00 0.00 0.00 3.06
1410 4518 1.202758 ACCGAGGAACAAGCAACATCA 60.203 47.619 0.00 0.00 0.00 3.07
1411 4519 1.197721 CCGAGGAACAAGCAACATCAC 59.802 52.381 0.00 0.00 0.00 3.06
1412 4520 1.872952 CGAGGAACAAGCAACATCACA 59.127 47.619 0.00 0.00 0.00 3.58
1413 4521 2.290367 CGAGGAACAAGCAACATCACAA 59.710 45.455 0.00 0.00 0.00 3.33
1414 4522 3.058016 CGAGGAACAAGCAACATCACAAT 60.058 43.478 0.00 0.00 0.00 2.71
1415 4523 4.232221 GAGGAACAAGCAACATCACAATG 58.768 43.478 0.00 0.00 38.93 2.82
1416 4524 3.890756 AGGAACAAGCAACATCACAATGA 59.109 39.130 0.00 0.00 36.67 2.57
1417 4525 3.983344 GGAACAAGCAACATCACAATGAC 59.017 43.478 0.00 0.00 36.67 3.06
1418 4526 3.272439 ACAAGCAACATCACAATGACG 57.728 42.857 0.00 0.00 36.67 4.35
1419 4527 1.980844 CAAGCAACATCACAATGACGC 59.019 47.619 0.00 0.00 36.67 5.19
1420 4528 0.523072 AGCAACATCACAATGACGCC 59.477 50.000 0.00 0.00 35.53 5.68
1421 4529 0.240678 GCAACATCACAATGACGCCA 59.759 50.000 0.00 0.00 36.67 5.69
1422 4530 1.730121 GCAACATCACAATGACGCCAG 60.730 52.381 0.00 0.00 36.67 4.85
1423 4531 0.523072 AACATCACAATGACGCCAGC 59.477 50.000 0.00 0.00 36.67 4.85
1424 4532 0.606130 ACATCACAATGACGCCAGCA 60.606 50.000 0.00 0.00 36.67 4.41
1425 4533 0.522626 CATCACAATGACGCCAGCAA 59.477 50.000 0.00 0.00 34.61 3.91
1426 4534 0.806868 ATCACAATGACGCCAGCAAG 59.193 50.000 0.00 0.00 0.00 4.01
1427 4535 0.250252 TCACAATGACGCCAGCAAGA 60.250 50.000 0.00 0.00 0.00 3.02
1428 4536 0.806868 CACAATGACGCCAGCAAGAT 59.193 50.000 0.00 0.00 0.00 2.40
1429 4537 1.200716 CACAATGACGCCAGCAAGATT 59.799 47.619 0.00 0.00 0.00 2.40
1430 4538 1.888512 ACAATGACGCCAGCAAGATTT 59.111 42.857 0.00 0.00 0.00 2.17
1431 4539 2.256174 CAATGACGCCAGCAAGATTTG 58.744 47.619 0.00 0.00 0.00 2.32
1432 4540 1.538047 ATGACGCCAGCAAGATTTGT 58.462 45.000 0.00 0.00 0.00 2.83
1433 4541 1.317613 TGACGCCAGCAAGATTTGTT 58.682 45.000 0.00 0.00 0.00 2.83
1434 4542 2.499197 TGACGCCAGCAAGATTTGTTA 58.501 42.857 0.00 0.00 0.00 2.41
1435 4543 2.881513 TGACGCCAGCAAGATTTGTTAA 59.118 40.909 0.00 0.00 0.00 2.01
1436 4544 3.234386 GACGCCAGCAAGATTTGTTAAC 58.766 45.455 0.00 0.00 0.00 2.01
1437 4545 2.241722 CGCCAGCAAGATTTGTTAACG 58.758 47.619 0.26 0.00 0.00 3.18
1438 4546 2.095969 CGCCAGCAAGATTTGTTAACGA 60.096 45.455 0.26 0.00 0.00 3.85
1439 4547 3.492313 GCCAGCAAGATTTGTTAACGAG 58.508 45.455 0.26 0.00 0.00 4.18
1440 4548 3.670627 GCCAGCAAGATTTGTTAACGAGG 60.671 47.826 0.26 0.00 0.00 4.63
1441 4549 3.502211 CCAGCAAGATTTGTTAACGAGGT 59.498 43.478 0.26 0.00 0.00 3.85
1442 4550 4.023193 CCAGCAAGATTTGTTAACGAGGTT 60.023 41.667 0.26 0.00 0.00 3.50
1443 4551 5.147162 CAGCAAGATTTGTTAACGAGGTTC 58.853 41.667 0.26 0.00 0.00 3.62
1444 4552 4.084013 AGCAAGATTTGTTAACGAGGTTCG 60.084 41.667 0.26 0.00 46.93 3.95
1445 4553 4.708601 CAAGATTTGTTAACGAGGTTCGG 58.291 43.478 0.26 0.00 45.59 4.30
1446 4554 3.999046 AGATTTGTTAACGAGGTTCGGT 58.001 40.909 0.26 0.00 45.59 4.69
1447 4555 3.744426 AGATTTGTTAACGAGGTTCGGTG 59.256 43.478 0.26 0.00 41.50 4.94
1448 4556 2.886862 TTGTTAACGAGGTTCGGTGA 57.113 45.000 0.26 0.00 41.50 4.02
1449 4557 2.886862 TGTTAACGAGGTTCGGTGAA 57.113 45.000 0.26 0.00 41.50 3.18
1450 4558 2.472816 TGTTAACGAGGTTCGGTGAAC 58.527 47.619 0.26 1.09 41.50 3.18
1451 4559 2.101249 TGTTAACGAGGTTCGGTGAACT 59.899 45.455 9.32 0.00 41.50 3.01
1452 4560 2.712057 TAACGAGGTTCGGTGAACTC 57.288 50.000 9.32 4.88 41.50 3.01
1453 4561 0.318445 AACGAGGTTCGGTGAACTCG 60.318 55.000 19.84 19.84 45.59 4.18
1454 4562 2.087009 CGAGGTTCGGTGAACTCGC 61.087 63.158 9.32 1.96 41.70 5.03
1455 4563 1.737008 GAGGTTCGGTGAACTCGCC 60.737 63.158 9.32 0.00 41.70 5.54
1456 4564 2.156051 GAGGTTCGGTGAACTCGCCT 62.156 60.000 9.32 0.00 44.11 5.52
1810 4919 6.820335 TGTTCCTGTGACTATGAGATTATGG 58.180 40.000 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.711399 TGTTCAGCCATGGATCATTCTAG 58.289 43.478 18.40 0.00 0.00 2.43
1 2 4.445305 CCTGTTCAGCCATGGATCATTCTA 60.445 45.833 18.40 0.00 0.00 2.10
2 3 3.552875 CTGTTCAGCCATGGATCATTCT 58.447 45.455 18.40 0.00 0.00 2.40
51 52 1.831736 GTAAGCAGGCAACCTCCTCTA 59.168 52.381 0.00 0.00 33.25 2.43
142 143 6.402983 GCCAATATTATCTTCGCCTCATTCTG 60.403 42.308 0.00 0.00 0.00 3.02
153 154 6.128138 ACAGGGGTAGCCAATATTATCTTC 57.872 41.667 14.06 0.00 0.00 2.87
162 163 1.668826 TTCTGACAGGGGTAGCCAAT 58.331 50.000 14.06 0.00 0.00 3.16
348 349 6.093633 GCCATAAGAACTTTTGTATCTTCGGT 59.906 38.462 0.00 0.00 34.32 4.69
361 362 0.811281 GCAAGGCGCCATAAGAACTT 59.189 50.000 31.54 8.56 32.94 2.66
529 530 8.341173 GCATAATCTTTCACGAATCTCTTGAAT 58.659 33.333 0.00 0.00 35.12 2.57
627 628 0.905357 ACCATCTCCACAGTAGGCAC 59.095 55.000 0.00 0.00 0.00 5.01
696 697 3.296322 TTAATCTTTGCCGGCAAACTG 57.704 42.857 42.91 34.39 40.51 3.16
709 710 7.418254 GGAGTCAATTGCCCAATGATTAATCTT 60.418 37.037 16.24 7.48 0.00 2.40
726 727 4.156455 ACATAATGCGAGGGAGTCAATT 57.844 40.909 0.00 0.00 0.00 2.32
738 739 2.541588 GCTGGTTGGCTTACATAATGCG 60.542 50.000 0.00 0.00 0.00 4.73
775 3529 4.441495 CCTCGTCCATTCACACATTAGCTA 60.441 45.833 0.00 0.00 0.00 3.32
837 3591 4.946157 CCAGTACCATGCTCTTCAGAAAAT 59.054 41.667 0.00 0.00 0.00 1.82
928 3682 1.226491 GCAATGCTGACGCCACATC 60.226 57.895 0.00 0.00 34.43 3.06
950 3704 1.963338 GCACACGCCTCAGCTTCTT 60.963 57.895 0.00 0.00 36.60 2.52
975 3729 0.961358 AGTTCGACGCTGCCTCTAGT 60.961 55.000 0.00 0.00 0.00 2.57
1026 3780 1.872237 GCGTTCACTAGGCACTGACAA 60.872 52.381 0.00 0.00 41.52 3.18
1073 3827 4.994282 TCTGAATAAGATACCCTCGGCTA 58.006 43.478 0.00 0.00 0.00 3.93
1130 3884 1.407618 GGGCAAACAAAAAGGAGACGT 59.592 47.619 0.00 0.00 0.00 4.34
1162 3916 6.306837 GCTGCTATTAGACGAGCTAAGTTATG 59.693 42.308 0.00 0.00 42.08 1.90
1175 4283 3.181496 GGCACCAAAAGCTGCTATTAGAC 60.181 47.826 0.90 0.00 33.63 2.59
1177 4285 3.427161 GGCACCAAAAGCTGCTATTAG 57.573 47.619 0.90 0.00 33.63 1.73
1323 4431 2.360475 GGCCAGGCCTCTCAACAC 60.360 66.667 24.99 0.00 46.69 3.32
1338 4446 3.680786 GTTGGGGCGAACAAGGGC 61.681 66.667 0.00 0.00 0.00 5.19
1339 4447 1.530655 AAGTTGGGGCGAACAAGGG 60.531 57.895 0.00 0.00 0.00 3.95
1340 4448 1.106944 ACAAGTTGGGGCGAACAAGG 61.107 55.000 7.96 0.00 0.00 3.61
1341 4449 0.744281 AACAAGTTGGGGCGAACAAG 59.256 50.000 7.96 0.00 0.00 3.16
1342 4450 1.950909 CTAACAAGTTGGGGCGAACAA 59.049 47.619 7.96 0.00 0.00 2.83
1343 4451 1.141254 TCTAACAAGTTGGGGCGAACA 59.859 47.619 7.96 0.00 0.00 3.18
1344 4452 1.886886 TCTAACAAGTTGGGGCGAAC 58.113 50.000 7.96 0.00 0.00 3.95
1345 4453 2.642154 TTCTAACAAGTTGGGGCGAA 57.358 45.000 7.96 1.90 0.00 4.70
1346 4454 2.871096 ATTCTAACAAGTTGGGGCGA 57.129 45.000 7.96 0.00 0.00 5.54
1347 4455 5.449999 GGATTAATTCTAACAAGTTGGGGCG 60.450 44.000 7.96 0.00 0.00 6.13
1348 4456 5.449999 CGGATTAATTCTAACAAGTTGGGGC 60.450 44.000 7.96 0.00 0.00 5.80
1349 4457 5.883673 TCGGATTAATTCTAACAAGTTGGGG 59.116 40.000 7.96 0.00 0.00 4.96
1350 4458 6.821665 TCTCGGATTAATTCTAACAAGTTGGG 59.178 38.462 7.96 0.00 0.00 4.12
1351 4459 7.843490 TCTCGGATTAATTCTAACAAGTTGG 57.157 36.000 7.96 0.00 0.00 3.77
1354 4462 9.530633 GTGTATCTCGGATTAATTCTAACAAGT 57.469 33.333 0.00 0.00 0.00 3.16
1355 4463 8.691727 CGTGTATCTCGGATTAATTCTAACAAG 58.308 37.037 0.00 0.00 0.00 3.16
1356 4464 8.570096 CGTGTATCTCGGATTAATTCTAACAA 57.430 34.615 0.00 0.00 0.00 2.83
1371 4479 0.942252 TGGATCGACCGTGTATCTCG 59.058 55.000 0.00 0.00 42.61 4.04
1372 4480 1.001597 GGTGGATCGACCGTGTATCTC 60.002 57.143 11.46 0.00 42.61 2.75
1373 4481 1.030457 GGTGGATCGACCGTGTATCT 58.970 55.000 11.46 0.00 42.61 1.98
1374 4482 3.564455 GGTGGATCGACCGTGTATC 57.436 57.895 11.46 0.00 42.61 2.24
1381 4489 1.141234 GTTCCTCGGTGGATCGACC 59.859 63.158 16.48 16.48 45.68 4.79
1382 4490 0.245539 TTGTTCCTCGGTGGATCGAC 59.754 55.000 0.00 0.00 45.68 4.20
1383 4491 0.530744 CTTGTTCCTCGGTGGATCGA 59.469 55.000 0.00 0.00 45.68 3.59
1384 4492 1.084370 GCTTGTTCCTCGGTGGATCG 61.084 60.000 0.00 0.00 45.68 3.69
1385 4493 0.036388 TGCTTGTTCCTCGGTGGATC 60.036 55.000 0.00 0.12 45.68 3.36
1386 4494 0.400213 TTGCTTGTTCCTCGGTGGAT 59.600 50.000 0.00 0.00 45.68 3.41
1387 4495 0.534203 GTTGCTTGTTCCTCGGTGGA 60.534 55.000 0.00 0.00 44.51 4.02
1388 4496 0.817634 TGTTGCTTGTTCCTCGGTGG 60.818 55.000 0.00 0.00 37.10 4.61
1389 4497 1.197721 GATGTTGCTTGTTCCTCGGTG 59.802 52.381 0.00 0.00 0.00 4.94
1390 4498 1.202758 TGATGTTGCTTGTTCCTCGGT 60.203 47.619 0.00 0.00 0.00 4.69
1391 4499 1.197721 GTGATGTTGCTTGTTCCTCGG 59.802 52.381 0.00 0.00 0.00 4.63
1392 4500 1.872952 TGTGATGTTGCTTGTTCCTCG 59.127 47.619 0.00 0.00 0.00 4.63
1393 4501 3.988379 TTGTGATGTTGCTTGTTCCTC 57.012 42.857 0.00 0.00 0.00 3.71
1394 4502 3.890756 TCATTGTGATGTTGCTTGTTCCT 59.109 39.130 0.00 0.00 34.77 3.36
1395 4503 3.983344 GTCATTGTGATGTTGCTTGTTCC 59.017 43.478 0.00 0.00 34.77 3.62
1396 4504 3.665409 CGTCATTGTGATGTTGCTTGTTC 59.335 43.478 0.00 0.00 34.77 3.18
1397 4505 3.631144 CGTCATTGTGATGTTGCTTGTT 58.369 40.909 0.00 0.00 34.77 2.83
1398 4506 2.605338 GCGTCATTGTGATGTTGCTTGT 60.605 45.455 1.61 0.00 35.86 3.16
1399 4507 1.980844 GCGTCATTGTGATGTTGCTTG 59.019 47.619 1.61 0.00 35.86 4.01
1400 4508 1.068333 GGCGTCATTGTGATGTTGCTT 60.068 47.619 1.61 0.00 35.86 3.91
1401 4509 0.523072 GGCGTCATTGTGATGTTGCT 59.477 50.000 1.61 0.00 35.86 3.91
1402 4510 0.240678 TGGCGTCATTGTGATGTTGC 59.759 50.000 0.00 0.00 35.86 4.17
1403 4511 1.730121 GCTGGCGTCATTGTGATGTTG 60.730 52.381 0.00 0.00 35.86 3.33
1404 4512 0.523072 GCTGGCGTCATTGTGATGTT 59.477 50.000 0.00 0.00 35.86 2.71
1405 4513 0.606130 TGCTGGCGTCATTGTGATGT 60.606 50.000 0.00 0.00 35.86 3.06
1406 4514 0.522626 TTGCTGGCGTCATTGTGATG 59.477 50.000 0.00 0.00 36.50 3.07
1407 4515 0.806868 CTTGCTGGCGTCATTGTGAT 59.193 50.000 0.00 0.00 0.00 3.06
1408 4516 0.250252 TCTTGCTGGCGTCATTGTGA 60.250 50.000 0.00 0.00 0.00 3.58
1409 4517 0.806868 ATCTTGCTGGCGTCATTGTG 59.193 50.000 0.00 0.00 0.00 3.33
1410 4518 1.538047 AATCTTGCTGGCGTCATTGT 58.462 45.000 0.00 0.00 0.00 2.71
1411 4519 2.256174 CAAATCTTGCTGGCGTCATTG 58.744 47.619 0.00 0.00 0.00 2.82
1412 4520 1.888512 ACAAATCTTGCTGGCGTCATT 59.111 42.857 0.00 0.00 0.00 2.57
1413 4521 1.538047 ACAAATCTTGCTGGCGTCAT 58.462 45.000 0.00 0.00 0.00 3.06
1414 4522 1.317613 AACAAATCTTGCTGGCGTCA 58.682 45.000 0.00 0.00 0.00 4.35
1415 4523 3.234386 GTTAACAAATCTTGCTGGCGTC 58.766 45.455 0.00 0.00 0.00 5.19
1416 4524 2.350388 CGTTAACAAATCTTGCTGGCGT 60.350 45.455 6.39 0.00 0.00 5.68
1417 4525 2.095969 TCGTTAACAAATCTTGCTGGCG 60.096 45.455 6.39 0.00 0.00 5.69
1418 4526 3.492313 CTCGTTAACAAATCTTGCTGGC 58.508 45.455 6.39 0.00 0.00 4.85
1419 4527 3.502211 ACCTCGTTAACAAATCTTGCTGG 59.498 43.478 6.39 0.00 0.00 4.85
1420 4528 4.749245 ACCTCGTTAACAAATCTTGCTG 57.251 40.909 6.39 0.00 0.00 4.41
1421 4529 4.084013 CGAACCTCGTTAACAAATCTTGCT 60.084 41.667 6.39 0.00 34.72 3.91
1422 4530 4.148891 CGAACCTCGTTAACAAATCTTGC 58.851 43.478 6.39 0.00 34.72 4.01
1423 4531 4.212636 ACCGAACCTCGTTAACAAATCTTG 59.787 41.667 6.39 0.00 38.40 3.02
1424 4532 4.212636 CACCGAACCTCGTTAACAAATCTT 59.787 41.667 6.39 0.00 38.40 2.40
1425 4533 3.744426 CACCGAACCTCGTTAACAAATCT 59.256 43.478 6.39 0.00 38.40 2.40
1426 4534 3.742369 TCACCGAACCTCGTTAACAAATC 59.258 43.478 6.39 0.00 38.40 2.17
1427 4535 3.731089 TCACCGAACCTCGTTAACAAAT 58.269 40.909 6.39 0.00 38.40 2.32
1428 4536 3.176552 TCACCGAACCTCGTTAACAAA 57.823 42.857 6.39 0.00 38.40 2.83
1429 4537 2.865551 GTTCACCGAACCTCGTTAACAA 59.134 45.455 6.39 0.00 38.40 2.83
1430 4538 2.101249 AGTTCACCGAACCTCGTTAACA 59.899 45.455 6.39 0.00 42.85 2.41
1431 4539 2.728318 GAGTTCACCGAACCTCGTTAAC 59.272 50.000 3.31 0.00 42.85 2.01
1432 4540 2.605338 CGAGTTCACCGAACCTCGTTAA 60.605 50.000 14.78 0.00 42.85 2.01
1433 4541 1.069022 CGAGTTCACCGAACCTCGTTA 60.069 52.381 14.78 0.00 42.85 3.18
1434 4542 0.318445 CGAGTTCACCGAACCTCGTT 60.318 55.000 14.78 0.00 42.85 3.85
1435 4543 1.285023 CGAGTTCACCGAACCTCGT 59.715 57.895 14.78 0.00 42.85 4.18
1436 4544 2.087009 GCGAGTTCACCGAACCTCG 61.087 63.158 16.96 16.96 42.85 4.63
1437 4545 1.737008 GGCGAGTTCACCGAACCTC 60.737 63.158 3.31 1.08 42.85 3.85
1438 4546 0.896940 TAGGCGAGTTCACCGAACCT 60.897 55.000 3.31 0.00 42.85 3.50
1439 4547 0.735287 GTAGGCGAGTTCACCGAACC 60.735 60.000 3.31 0.00 42.85 3.62
1440 4548 0.243095 AGTAGGCGAGTTCACCGAAC 59.757 55.000 0.00 0.00 42.25 3.95
1441 4549 0.242825 CAGTAGGCGAGTTCACCGAA 59.757 55.000 0.00 0.00 0.00 4.30
1442 4550 0.607217 TCAGTAGGCGAGTTCACCGA 60.607 55.000 0.00 0.00 0.00 4.69
1443 4551 0.242825 TTCAGTAGGCGAGTTCACCG 59.757 55.000 0.00 0.00 0.00 4.94
1444 4552 1.404315 CCTTCAGTAGGCGAGTTCACC 60.404 57.143 0.00 0.00 37.17 4.02
1445 4553 1.544691 TCCTTCAGTAGGCGAGTTCAC 59.455 52.381 0.00 0.00 44.37 3.18
1446 4554 1.919240 TCCTTCAGTAGGCGAGTTCA 58.081 50.000 0.00 0.00 44.37 3.18
1447 4555 3.314541 TTTCCTTCAGTAGGCGAGTTC 57.685 47.619 0.00 0.00 44.37 3.01
1448 4556 3.983044 ATTTCCTTCAGTAGGCGAGTT 57.017 42.857 0.00 0.00 44.37 3.01
1449 4557 4.740934 GCATATTTCCTTCAGTAGGCGAGT 60.741 45.833 0.00 0.00 44.37 4.18
1450 4558 3.743396 GCATATTTCCTTCAGTAGGCGAG 59.257 47.826 0.00 0.00 44.37 5.03
1451 4559 3.494398 GGCATATTTCCTTCAGTAGGCGA 60.494 47.826 0.00 0.00 44.37 5.54
1452 4560 2.808543 GGCATATTTCCTTCAGTAGGCG 59.191 50.000 0.00 0.00 44.37 5.52
1453 4561 3.149981 GGGCATATTTCCTTCAGTAGGC 58.850 50.000 0.00 0.00 44.37 3.93
1454 4562 4.713792 AGGGCATATTTCCTTCAGTAGG 57.286 45.455 0.00 0.00 46.27 3.18
1455 4563 6.295575 CCTCTAGGGCATATTTCCTTCAGTAG 60.296 46.154 0.00 0.00 34.75 2.57
1456 4564 5.544176 CCTCTAGGGCATATTTCCTTCAGTA 59.456 44.000 0.00 0.00 34.75 2.74
2068 5179 8.210946 CCAATACCTAGTTCAATCTCATTACCA 58.789 37.037 0.00 0.00 0.00 3.25


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

AutoCloner maintained by Alex Coulton.