Multiple sequence alignment - TraesCS3B01G508700

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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 TraesCS3B01G508700 chr3B 100.000 2270 0 0 1 2270 752805387 752803118 0.000000e+00 4193
1 TraesCS3B01G508700 chr2D 95.026 1146 55 1 218 1361 647884043 647885188 0.000000e+00 1799
2 TraesCS3B01G508700 chr2D 94.313 211 12 0 11 221 647883793 647884003 7.820000e-85 324
3 TraesCS3B01G508700 chr4B 94.576 1143 60 2 218 1360 392051260 392050120 0.000000e+00 1766
4 TraesCS3B01G508700 chr4B 95.261 211 10 0 1 211 392060811 392060601 3.610000e-88 335
5 TraesCS3B01G508700 chr4B 92.308 221 17 0 1 221 133858638 133858418 4.710000e-82 315
6 TraesCS3B01G508700 chr3A 94.371 1137 63 1 218 1354 601614518 601613383 0.000000e+00 1744
7 TraesCS3B01G508700 chr3A 93.958 1142 67 2 218 1359 60239695 60240834 0.000000e+00 1725
8 TraesCS3B01G508700 chr3A 94.907 216 11 0 2 217 601614777 601614562 2.790000e-89 339
9 TraesCS3B01G508700 chr6B 94.243 1129 63 2 218 1345 527579029 527580156 0.000000e+00 1724
10 TraesCS3B01G508700 chr6B 93.548 217 14 0 1 217 527578769 527578985 7.820000e-85 324
11 TraesCS3B01G508700 chr6B 98.204 167 2 1 1676 1842 146147401 146147566 7.930000e-75 291
12 TraesCS3B01G508700 chr1A 93.548 1147 72 2 218 1364 276580753 276579609 0.000000e+00 1707
13 TraesCS3B01G508700 chr1A 93.438 1143 74 1 218 1360 45499193 45498052 0.000000e+00 1694
14 TraesCS3B01G508700 chr1A 93.362 1145 70 4 218 1361 258870200 258869061 0.000000e+00 1688
15 TraesCS3B01G508700 chr1A 93.665 221 14 0 1 221 276581013 276580793 4.670000e-87 331
16 TraesCS3B01G508700 chr1A 93.088 217 15 0 1 217 45499453 45499237 3.640000e-83 318
17 TraesCS3B01G508700 chr2A 93.520 1142 72 2 218 1359 371722507 371723646 0.000000e+00 1698
18 TraesCS3B01G508700 chr2A 92.627 217 15 1 1 217 371722248 371722463 6.090000e-81 311
19 TraesCS3B01G508700 chr2B 97.101 414 7 2 1857 2270 468673156 468673564 0.000000e+00 693
20 TraesCS3B01G508700 chr2B 96.386 166 5 1 1678 1842 468672358 468672523 2.870000e-69 272
21 TraesCS3B01G508700 chr3D 95.894 414 17 0 1857 2270 169787460 169787047 0.000000e+00 671
22 TraesCS3B01G508700 chr3D 95.513 156 6 1 1687 1842 169788216 169788062 4.840000e-62 248
23 TraesCS3B01G508700 chr7B 94.570 221 12 0 1 221 650113310 650113530 2.160000e-90 342
24 TraesCS3B01G508700 chr4A 97.861 187 4 0 2083 2269 743442241 743442055 7.820000e-85 324
25 TraesCS3B01G508700 chr4A 98.204 167 3 0 1676 1842 743442665 743442499 2.210000e-75 292
26 TraesCS3B01G508700 chr5B 98.182 165 3 0 1678 1842 690950569 690950405 2.850000e-74 289
27 TraesCS3B01G508700 chrUn 96.951 164 5 0 1679 1842 263831820 263831657 2.220000e-70 276
28 TraesCS3B01G508700 chr7A 96.951 164 5 0 1679 1842 718356673 718356510 2.220000e-70 276
29 TraesCS3B01G508700 chr7A 95.062 162 8 0 1681 1842 16661787 16661948 2.890000e-64 255
30 TraesCS3B01G508700 chr7A 89.205 176 15 3 1670 1842 42269180 42269354 1.370000e-52 217


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 TraesCS3B01G508700 chr3B 752803118 752805387 2269 True 4193.0 4193 100.0000 1 2270 1 chr3B.!!$R1 2269
1 TraesCS3B01G508700 chr2D 647883793 647885188 1395 False 1061.5 1799 94.6695 11 1361 2 chr2D.!!$F1 1350
2 TraesCS3B01G508700 chr4B 392050120 392051260 1140 True 1766.0 1766 94.5760 218 1360 1 chr4B.!!$R2 1142
3 TraesCS3B01G508700 chr3A 60239695 60240834 1139 False 1725.0 1725 93.9580 218 1359 1 chr3A.!!$F1 1141
4 TraesCS3B01G508700 chr3A 601613383 601614777 1394 True 1041.5 1744 94.6390 2 1354 2 chr3A.!!$R1 1352
5 TraesCS3B01G508700 chr6B 527578769 527580156 1387 False 1024.0 1724 93.8955 1 1345 2 chr6B.!!$F2 1344
6 TraesCS3B01G508700 chr1A 258869061 258870200 1139 True 1688.0 1688 93.3620 218 1361 1 chr1A.!!$R1 1143
7 TraesCS3B01G508700 chr1A 276579609 276581013 1404 True 1019.0 1707 93.6065 1 1364 2 chr1A.!!$R3 1363
8 TraesCS3B01G508700 chr1A 45498052 45499453 1401 True 1006.0 1694 93.2630 1 1360 2 chr1A.!!$R2 1359
9 TraesCS3B01G508700 chr2A 371722248 371723646 1398 False 1004.5 1698 93.0735 1 1359 2 chr2A.!!$F1 1358
10 TraesCS3B01G508700 chr2B 468672358 468673564 1206 False 482.5 693 96.7435 1678 2270 2 chr2B.!!$F1 592
11 TraesCS3B01G508700 chr3D 169787047 169788216 1169 True 459.5 671 95.7035 1687 2270 2 chr3D.!!$R1 583
12 TraesCS3B01G508700 chr4A 743442055 743442665 610 True 308.0 324 98.0325 1676 2269 2 chr4A.!!$R1 593

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
637 682 0.393808 ACACGTCCAACAGTTTGCCT 60.394 50.0 0.0 0.0 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1847 1894 0.032815 TCGATTCAGGCGTGTTGTGA 59.967 50.0 6.26 0.0 0.0 3.58 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
70 71 5.214417 TCAAGAGCATTCATTTTCAACACG 58.786 37.500 0.00 0.00 0.00 4.49
88 89 1.831389 CGTTGTGGACAAGGTCGCAG 61.831 60.000 4.41 0.00 37.07 5.18
121 122 1.480212 ATGGCAGGGAAGACACGTCA 61.480 55.000 0.00 0.00 0.00 4.35
199 200 1.767759 TCTCATGCCTCTCGACATCA 58.232 50.000 0.00 0.00 0.00 3.07
246 290 0.842635 GGGAGGGTCATGCAAGATCT 59.157 55.000 1.71 0.03 0.00 2.75
247 291 1.213926 GGGAGGGTCATGCAAGATCTT 59.786 52.381 0.88 0.88 0.00 2.40
326 370 1.623542 AATTCGCTAAGGCCCTCCGT 61.624 55.000 0.00 0.00 37.47 4.69
405 450 2.651361 CTTGCACCGAGGACGACT 59.349 61.111 0.00 0.00 42.66 4.18
523 568 5.333492 CGTGACTTAGCACCGAACATTTTTA 60.333 40.000 0.00 0.00 35.37 1.52
524 569 6.432107 GTGACTTAGCACCGAACATTTTTAA 58.568 36.000 0.00 0.00 32.68 1.52
613 658 1.212935 ACACCTCCAATGGCCTATCAC 59.787 52.381 3.32 0.00 0.00 3.06
637 682 0.393808 ACACGTCCAACAGTTTGCCT 60.394 50.000 0.00 0.00 0.00 4.75
734 781 1.202879 TGGGGTGTACTTTGCTTCCTG 60.203 52.381 0.00 0.00 0.00 3.86
921 968 1.617850 TGCCCACTTTGTAAGCAATGG 59.382 47.619 0.00 0.00 35.02 3.16
954 1001 1.213926 GCCCATCTCCTCTTCCAATGT 59.786 52.381 0.00 0.00 0.00 2.71
1075 1122 1.886542 GGAACGGCAACCTTCAGATTT 59.113 47.619 0.00 0.00 0.00 2.17
1092 1139 0.485099 TTTGCCTTGGCTCCCCTAAA 59.515 50.000 13.18 1.20 0.00 1.85
1288 1335 1.548719 AGACCTTTTATTTTGCCGCCC 59.451 47.619 0.00 0.00 0.00 6.13
1310 1357 1.734163 CGGCCCTTGTTCGATAACTT 58.266 50.000 0.00 0.00 36.51 2.66
1378 1425 4.717233 AAAAGATGAACACTGCACAACA 57.283 36.364 0.00 0.00 0.00 3.33
1391 1438 4.926860 TGCACAACAGATGAAAGTATCG 57.073 40.909 0.00 0.00 32.33 2.92
1392 1439 3.684305 TGCACAACAGATGAAAGTATCGG 59.316 43.478 0.00 0.00 32.33 4.18
1393 1440 3.063997 GCACAACAGATGAAAGTATCGGG 59.936 47.826 0.00 0.00 32.33 5.14
1394 1441 4.503910 CACAACAGATGAAAGTATCGGGA 58.496 43.478 0.00 0.00 32.33 5.14
1395 1442 5.118990 CACAACAGATGAAAGTATCGGGAT 58.881 41.667 0.00 0.00 32.33 3.85
1396 1443 5.586243 CACAACAGATGAAAGTATCGGGATT 59.414 40.000 0.00 0.00 32.33 3.01
1397 1444 6.094048 CACAACAGATGAAAGTATCGGGATTT 59.906 38.462 0.00 0.00 32.33 2.17
1398 1445 6.659242 ACAACAGATGAAAGTATCGGGATTTT 59.341 34.615 0.00 0.00 32.33 1.82
1399 1446 6.683974 ACAGATGAAAGTATCGGGATTTTG 57.316 37.500 0.00 0.00 32.33 2.44
1400 1447 5.066505 ACAGATGAAAGTATCGGGATTTTGC 59.933 40.000 0.00 0.00 32.33 3.68
1401 1448 5.066375 CAGATGAAAGTATCGGGATTTTGCA 59.934 40.000 0.00 0.00 32.33 4.08
1402 1449 5.652014 AGATGAAAGTATCGGGATTTTGCAA 59.348 36.000 0.00 0.00 32.33 4.08
1403 1450 5.913137 TGAAAGTATCGGGATTTTGCAAT 57.087 34.783 0.00 0.00 0.00 3.56
1404 1451 6.279513 TGAAAGTATCGGGATTTTGCAATT 57.720 33.333 0.00 0.00 0.00 2.32
1405 1452 6.329496 TGAAAGTATCGGGATTTTGCAATTC 58.671 36.000 0.00 0.16 0.00 2.17
1406 1453 5.913137 AAGTATCGGGATTTTGCAATTCA 57.087 34.783 0.00 0.00 0.00 2.57
1407 1454 5.913137 AGTATCGGGATTTTGCAATTCAA 57.087 34.783 0.00 0.00 0.00 2.69
1408 1455 6.469782 AGTATCGGGATTTTGCAATTCAAT 57.530 33.333 0.00 0.00 34.12 2.57
1409 1456 6.877236 AGTATCGGGATTTTGCAATTCAATT 58.123 32.000 0.00 0.00 34.12 2.32
1410 1457 6.757947 AGTATCGGGATTTTGCAATTCAATTG 59.242 34.615 5.68 5.68 43.06 2.32
1411 1458 4.892433 TCGGGATTTTGCAATTCAATTGT 58.108 34.783 11.80 0.00 42.20 2.71
1412 1459 6.030548 TCGGGATTTTGCAATTCAATTGTA 57.969 33.333 11.80 4.28 42.20 2.41
1413 1460 6.638610 TCGGGATTTTGCAATTCAATTGTAT 58.361 32.000 11.80 0.00 42.20 2.29
1414 1461 7.776107 TCGGGATTTTGCAATTCAATTGTATA 58.224 30.769 11.80 0.00 42.20 1.47
1415 1462 8.420222 TCGGGATTTTGCAATTCAATTGTATAT 58.580 29.630 11.80 4.38 42.20 0.86
1416 1463 9.044150 CGGGATTTTGCAATTCAATTGTATATT 57.956 29.630 11.80 0.00 42.20 1.28
1445 1492 6.341316 TGACTGAAATACCTGAGATGTTAGC 58.659 40.000 0.00 0.00 0.00 3.09
1446 1493 6.070824 TGACTGAAATACCTGAGATGTTAGCA 60.071 38.462 0.00 0.00 0.00 3.49
1447 1494 6.109359 ACTGAAATACCTGAGATGTTAGCAC 58.891 40.000 0.00 0.00 0.00 4.40
1448 1495 5.109210 TGAAATACCTGAGATGTTAGCACG 58.891 41.667 0.00 0.00 0.00 5.34
1449 1496 2.579207 TACCTGAGATGTTAGCACGC 57.421 50.000 0.00 0.00 0.00 5.34
1450 1497 0.898320 ACCTGAGATGTTAGCACGCT 59.102 50.000 0.00 0.00 0.00 5.07
1451 1498 1.276421 ACCTGAGATGTTAGCACGCTT 59.724 47.619 0.00 0.00 0.00 4.68
1452 1499 1.662629 CCTGAGATGTTAGCACGCTTG 59.337 52.381 0.00 0.00 0.00 4.01
1453 1500 2.610433 CTGAGATGTTAGCACGCTTGA 58.390 47.619 0.00 0.00 0.00 3.02
1454 1501 3.193263 CTGAGATGTTAGCACGCTTGAT 58.807 45.455 0.00 0.00 0.00 2.57
1455 1502 3.190079 TGAGATGTTAGCACGCTTGATC 58.810 45.455 0.00 0.00 0.00 2.92
1456 1503 3.190079 GAGATGTTAGCACGCTTGATCA 58.810 45.455 0.00 0.00 0.00 2.92
1457 1504 2.932614 AGATGTTAGCACGCTTGATCAC 59.067 45.455 0.00 0.00 0.00 3.06
1458 1505 1.438651 TGTTAGCACGCTTGATCACC 58.561 50.000 0.00 0.00 0.00 4.02
1459 1506 1.270571 TGTTAGCACGCTTGATCACCA 60.271 47.619 0.00 0.00 0.00 4.17
1460 1507 1.804151 GTTAGCACGCTTGATCACCAA 59.196 47.619 0.00 0.00 0.00 3.67
1461 1508 2.401583 TAGCACGCTTGATCACCAAT 57.598 45.000 0.00 0.00 33.68 3.16
1462 1509 2.401583 AGCACGCTTGATCACCAATA 57.598 45.000 0.00 0.00 33.68 1.90
1463 1510 2.710377 AGCACGCTTGATCACCAATAA 58.290 42.857 0.00 0.00 33.68 1.40
1464 1511 3.282021 AGCACGCTTGATCACCAATAAT 58.718 40.909 0.00 0.00 33.68 1.28
1465 1512 3.696051 AGCACGCTTGATCACCAATAATT 59.304 39.130 0.00 0.00 33.68 1.40
1466 1513 4.158394 AGCACGCTTGATCACCAATAATTT 59.842 37.500 0.00 0.00 33.68 1.82
1467 1514 4.500477 GCACGCTTGATCACCAATAATTTC 59.500 41.667 0.00 0.00 33.68 2.17
1468 1515 5.036737 CACGCTTGATCACCAATAATTTCC 58.963 41.667 0.00 0.00 33.68 3.13
1469 1516 4.097892 ACGCTTGATCACCAATAATTTCCC 59.902 41.667 0.00 0.00 33.68 3.97
1470 1517 4.339247 CGCTTGATCACCAATAATTTCCCT 59.661 41.667 0.00 0.00 33.68 4.20
1471 1518 5.594926 GCTTGATCACCAATAATTTCCCTG 58.405 41.667 0.00 0.00 33.68 4.45
1472 1519 5.452356 GCTTGATCACCAATAATTTCCCTGG 60.452 44.000 0.00 0.00 33.68 4.45
1473 1520 4.545678 TGATCACCAATAATTTCCCTGGG 58.454 43.478 6.33 6.33 32.94 4.45
1474 1521 3.396685 TCACCAATAATTTCCCTGGGG 57.603 47.619 14.00 2.42 33.33 4.96
1475 1522 2.929724 TCACCAATAATTTCCCTGGGGA 59.070 45.455 14.00 0.00 39.08 4.81
1476 1523 3.031013 CACCAATAATTTCCCTGGGGAC 58.969 50.000 14.00 0.00 45.11 4.46
1477 1524 2.306847 CCAATAATTTCCCTGGGGACG 58.693 52.381 14.00 0.00 45.11 4.79
1478 1525 2.357777 CCAATAATTTCCCTGGGGACGT 60.358 50.000 14.00 0.00 45.11 4.34
1479 1526 2.687935 CAATAATTTCCCTGGGGACGTG 59.312 50.000 14.00 0.00 45.11 4.49
1480 1527 0.621609 TAATTTCCCTGGGGACGTGG 59.378 55.000 14.00 0.00 45.11 4.94
1481 1528 1.137594 AATTTCCCTGGGGACGTGGA 61.138 55.000 14.00 0.00 45.11 4.02
1482 1529 1.137594 ATTTCCCTGGGGACGTGGAA 61.138 55.000 14.00 0.00 45.11 3.53
1483 1530 1.354168 TTTCCCTGGGGACGTGGAAA 61.354 55.000 14.00 10.52 45.11 3.13
1484 1531 1.354168 TTCCCTGGGGACGTGGAAAA 61.354 55.000 14.00 0.00 45.11 2.29
1485 1532 1.303317 CCCTGGGGACGTGGAAAAG 60.303 63.158 4.27 0.00 37.50 2.27
1486 1533 1.303317 CCTGGGGACGTGGAAAAGG 60.303 63.158 0.00 0.00 0.00 3.11
1487 1534 1.303317 CTGGGGACGTGGAAAAGGG 60.303 63.158 0.00 0.00 0.00 3.95
1488 1535 2.675423 GGGGACGTGGAAAAGGGC 60.675 66.667 0.00 0.00 0.00 5.19
1489 1536 2.434774 GGGACGTGGAAAAGGGCT 59.565 61.111 0.00 0.00 0.00 5.19
1490 1537 1.681076 GGGACGTGGAAAAGGGCTA 59.319 57.895 0.00 0.00 0.00 3.93
1491 1538 0.037160 GGGACGTGGAAAAGGGCTAA 59.963 55.000 0.00 0.00 0.00 3.09
1492 1539 1.162698 GGACGTGGAAAAGGGCTAAC 58.837 55.000 0.00 0.00 0.00 2.34
1493 1540 1.162698 GACGTGGAAAAGGGCTAACC 58.837 55.000 0.00 0.00 40.67 2.85
1494 1541 0.475044 ACGTGGAAAAGGGCTAACCA 59.525 50.000 0.00 0.00 43.89 3.67
1495 1542 1.133730 ACGTGGAAAAGGGCTAACCAA 60.134 47.619 0.00 0.00 43.89 3.67
1496 1543 1.957877 CGTGGAAAAGGGCTAACCAAA 59.042 47.619 0.00 0.00 43.89 3.28
1497 1544 2.287970 CGTGGAAAAGGGCTAACCAAAC 60.288 50.000 0.00 0.00 43.89 2.93
1498 1545 2.963101 GTGGAAAAGGGCTAACCAAACT 59.037 45.455 0.00 0.00 43.89 2.66
1499 1546 2.962421 TGGAAAAGGGCTAACCAAACTG 59.038 45.455 0.00 0.00 43.89 3.16
1500 1547 2.963101 GGAAAAGGGCTAACCAAACTGT 59.037 45.455 0.00 0.00 43.89 3.55
1501 1548 4.146564 GGAAAAGGGCTAACCAAACTGTA 58.853 43.478 0.00 0.00 43.89 2.74
1502 1549 4.217767 GGAAAAGGGCTAACCAAACTGTAG 59.782 45.833 0.00 0.00 43.89 2.74
1503 1550 2.491675 AGGGCTAACCAAACTGTAGC 57.508 50.000 0.00 0.00 43.89 3.58
1504 1551 1.084289 GGGCTAACCAAACTGTAGCG 58.916 55.000 0.00 0.00 39.85 4.26
1505 1552 1.338389 GGGCTAACCAAACTGTAGCGA 60.338 52.381 0.00 0.00 39.85 4.93
1506 1553 2.629051 GGCTAACCAAACTGTAGCGAT 58.371 47.619 0.00 0.00 34.82 4.58
1507 1554 3.007635 GGCTAACCAAACTGTAGCGATT 58.992 45.455 0.00 0.00 34.82 3.34
1508 1555 3.439129 GGCTAACCAAACTGTAGCGATTT 59.561 43.478 0.00 0.00 34.82 2.17
1509 1556 4.436986 GGCTAACCAAACTGTAGCGATTTC 60.437 45.833 0.00 0.00 34.82 2.17
1510 1557 4.153475 GCTAACCAAACTGTAGCGATTTCA 59.847 41.667 0.00 0.00 0.00 2.69
1511 1558 5.163754 GCTAACCAAACTGTAGCGATTTCAT 60.164 40.000 0.00 0.00 0.00 2.57
1512 1559 5.705609 AACCAAACTGTAGCGATTTCATT 57.294 34.783 0.00 0.00 0.00 2.57
1513 1560 5.296813 ACCAAACTGTAGCGATTTCATTC 57.703 39.130 0.00 0.00 0.00 2.67
1514 1561 4.759693 ACCAAACTGTAGCGATTTCATTCA 59.240 37.500 0.00 0.00 0.00 2.57
1515 1562 5.415701 ACCAAACTGTAGCGATTTCATTCAT 59.584 36.000 0.00 0.00 0.00 2.57
1516 1563 5.967674 CCAAACTGTAGCGATTTCATTCATC 59.032 40.000 0.00 0.00 0.00 2.92
1517 1564 6.403527 CCAAACTGTAGCGATTTCATTCATCA 60.404 38.462 0.00 0.00 0.00 3.07
1518 1565 6.932356 AACTGTAGCGATTTCATTCATCAT 57.068 33.333 0.00 0.00 0.00 2.45
1519 1566 6.932356 ACTGTAGCGATTTCATTCATCATT 57.068 33.333 0.00 0.00 0.00 2.57
1520 1567 6.722301 ACTGTAGCGATTTCATTCATCATTG 58.278 36.000 0.00 0.00 0.00 2.82
1521 1568 6.063640 TGTAGCGATTTCATTCATCATTGG 57.936 37.500 0.00 0.00 0.00 3.16
1522 1569 3.973657 AGCGATTTCATTCATCATTGGC 58.026 40.909 0.00 0.00 0.00 4.52
1523 1570 3.054878 GCGATTTCATTCATCATTGGCC 58.945 45.455 0.00 0.00 0.00 5.36
1524 1571 3.243636 GCGATTTCATTCATCATTGGCCT 60.244 43.478 3.32 0.00 0.00 5.19
1525 1572 4.022935 GCGATTTCATTCATCATTGGCCTA 60.023 41.667 3.32 0.00 0.00 3.93
1526 1573 5.455392 CGATTTCATTCATCATTGGCCTAC 58.545 41.667 3.32 0.00 0.00 3.18
1527 1574 5.008911 CGATTTCATTCATCATTGGCCTACA 59.991 40.000 3.32 0.00 0.00 2.74
1528 1575 5.840243 TTTCATTCATCATTGGCCTACAG 57.160 39.130 3.32 0.00 0.00 2.74
1529 1576 3.824133 TCATTCATCATTGGCCTACAGG 58.176 45.455 3.32 0.00 38.53 4.00
1530 1577 3.459227 TCATTCATCATTGGCCTACAGGA 59.541 43.478 3.32 0.00 37.39 3.86
1531 1578 4.079844 TCATTCATCATTGGCCTACAGGAA 60.080 41.667 3.32 0.60 37.39 3.36
1532 1579 4.314522 TTCATCATTGGCCTACAGGAAA 57.685 40.909 3.32 0.00 37.39 3.13
1533 1580 4.314522 TCATCATTGGCCTACAGGAAAA 57.685 40.909 3.32 0.00 37.39 2.29
1534 1581 4.870636 TCATCATTGGCCTACAGGAAAAT 58.129 39.130 3.32 0.00 37.39 1.82
1535 1582 4.889409 TCATCATTGGCCTACAGGAAAATC 59.111 41.667 3.32 0.00 37.39 2.17
1536 1583 4.591321 TCATTGGCCTACAGGAAAATCT 57.409 40.909 3.32 0.00 37.39 2.40
1537 1584 4.934356 TCATTGGCCTACAGGAAAATCTT 58.066 39.130 3.32 0.00 37.39 2.40
1538 1585 4.706476 TCATTGGCCTACAGGAAAATCTTG 59.294 41.667 3.32 0.00 37.39 3.02
1539 1586 3.085952 TGGCCTACAGGAAAATCTTGG 57.914 47.619 3.32 0.00 37.39 3.61
1540 1587 2.647299 TGGCCTACAGGAAAATCTTGGA 59.353 45.455 3.32 0.00 37.39 3.53
1541 1588 3.282885 GGCCTACAGGAAAATCTTGGAG 58.717 50.000 0.00 0.00 34.48 3.86
1542 1589 3.054361 GGCCTACAGGAAAATCTTGGAGA 60.054 47.826 3.47 0.00 36.61 3.71
1543 1590 4.195416 GCCTACAGGAAAATCTTGGAGAG 58.805 47.826 3.47 0.00 36.61 3.20
1544 1591 4.195416 CCTACAGGAAAATCTTGGAGAGC 58.805 47.826 3.47 0.00 36.61 4.09
1545 1592 4.080638 CCTACAGGAAAATCTTGGAGAGCT 60.081 45.833 3.47 0.00 36.61 4.09
1546 1593 3.949132 ACAGGAAAATCTTGGAGAGCTC 58.051 45.455 5.27 5.27 0.00 4.09
1547 1594 3.328931 ACAGGAAAATCTTGGAGAGCTCA 59.671 43.478 17.77 0.00 0.00 4.26
1548 1595 3.688673 CAGGAAAATCTTGGAGAGCTCAC 59.311 47.826 17.77 9.95 0.00 3.51
1549 1596 2.675348 GGAAAATCTTGGAGAGCTCACG 59.325 50.000 17.77 0.00 0.00 4.35
1550 1597 2.393271 AAATCTTGGAGAGCTCACGG 57.607 50.000 17.77 3.94 0.00 4.94
1551 1598 1.561643 AATCTTGGAGAGCTCACGGA 58.438 50.000 17.77 9.23 0.00 4.69
1552 1599 1.110442 ATCTTGGAGAGCTCACGGAG 58.890 55.000 17.77 10.83 0.00 4.63
1553 1600 0.967887 TCTTGGAGAGCTCACGGAGG 60.968 60.000 17.77 0.64 0.00 4.30
1554 1601 0.967887 CTTGGAGAGCTCACGGAGGA 60.968 60.000 17.77 0.00 0.00 3.71
1555 1602 0.324738 TTGGAGAGCTCACGGAGGAT 60.325 55.000 17.77 0.00 0.00 3.24
1556 1603 0.551396 TGGAGAGCTCACGGAGGATA 59.449 55.000 17.77 0.00 0.00 2.59
1557 1604 1.243902 GGAGAGCTCACGGAGGATAG 58.756 60.000 17.77 0.00 0.00 2.08
1558 1605 1.243902 GAGAGCTCACGGAGGATAGG 58.756 60.000 17.77 0.00 0.00 2.57
1559 1606 0.825840 AGAGCTCACGGAGGATAGGC 60.826 60.000 17.77 0.00 0.00 3.93
1560 1607 1.811645 GAGCTCACGGAGGATAGGCC 61.812 65.000 9.40 0.00 0.00 5.19
1561 1608 2.873525 GCTCACGGAGGATAGGCCC 61.874 68.421 0.00 0.00 37.37 5.80
1562 1609 1.457643 CTCACGGAGGATAGGCCCA 60.458 63.158 0.00 0.00 37.37 5.36
1563 1610 0.833834 CTCACGGAGGATAGGCCCAT 60.834 60.000 0.00 0.00 37.37 4.00
1564 1611 1.121407 TCACGGAGGATAGGCCCATG 61.121 60.000 0.00 0.00 37.37 3.66
1565 1612 1.843376 ACGGAGGATAGGCCCATGG 60.843 63.158 4.14 4.14 37.37 3.66
1566 1613 2.596851 CGGAGGATAGGCCCATGGG 61.597 68.421 27.87 27.87 37.37 4.00
1590 1637 3.739401 AAAATCTTGGAGGTACCTGGG 57.261 47.619 22.10 6.42 39.86 4.45
1591 1638 2.361085 AATCTTGGAGGTACCTGGGT 57.639 50.000 22.10 0.00 39.86 4.51
1592 1639 1.584724 ATCTTGGAGGTACCTGGGTG 58.415 55.000 22.10 7.18 39.86 4.61
1593 1640 0.546747 TCTTGGAGGTACCTGGGTGG 60.547 60.000 22.10 5.68 42.93 4.61
1594 1641 0.546747 CTTGGAGGTACCTGGGTGGA 60.547 60.000 22.10 0.00 39.71 4.02
1595 1642 0.546747 TTGGAGGTACCTGGGTGGAG 60.547 60.000 22.10 0.00 39.71 3.86
1596 1643 1.689582 GGAGGTACCTGGGTGGAGG 60.690 68.421 22.10 0.00 39.71 4.30
1597 1644 2.285442 AGGTACCTGGGTGGAGGC 60.285 66.667 15.42 0.00 36.46 4.70
1598 1645 2.609610 GGTACCTGGGTGGAGGCA 60.610 66.667 4.06 0.00 36.46 4.75
1599 1646 2.228480 GGTACCTGGGTGGAGGCAA 61.228 63.158 4.06 0.00 36.46 4.52
1600 1647 1.571773 GGTACCTGGGTGGAGGCAAT 61.572 60.000 4.06 0.00 36.46 3.56
1601 1648 0.331616 GTACCTGGGTGGAGGCAATT 59.668 55.000 2.07 0.00 36.46 2.32
1602 1649 1.080638 TACCTGGGTGGAGGCAATTT 58.919 50.000 2.07 0.00 36.46 1.82
1603 1650 0.542702 ACCTGGGTGGAGGCAATTTG 60.543 55.000 0.00 0.00 36.46 2.32
1604 1651 1.259840 CCTGGGTGGAGGCAATTTGG 61.260 60.000 0.00 0.00 38.35 3.28
1605 1652 1.891722 CTGGGTGGAGGCAATTTGGC 61.892 60.000 14.67 14.67 44.10 4.52
1613 1660 1.818555 GGCAATTTGGCTAGGCAGG 59.181 57.895 19.32 11.28 40.14 4.85
1614 1661 0.684153 GGCAATTTGGCTAGGCAGGA 60.684 55.000 19.32 12.49 40.14 3.86
1615 1662 0.743097 GCAATTTGGCTAGGCAGGAG 59.257 55.000 19.32 11.59 0.00 3.69
1616 1663 1.683011 GCAATTTGGCTAGGCAGGAGA 60.683 52.381 19.32 7.55 0.00 3.71
1617 1664 2.726821 CAATTTGGCTAGGCAGGAGAA 58.273 47.619 19.32 11.15 0.00 2.87
1618 1665 2.686915 CAATTTGGCTAGGCAGGAGAAG 59.313 50.000 19.32 5.27 0.00 2.85
1619 1666 0.620556 TTTGGCTAGGCAGGAGAAGG 59.379 55.000 19.32 0.00 0.00 3.46
1620 1667 1.915078 TTGGCTAGGCAGGAGAAGGC 61.915 60.000 19.32 0.00 35.26 4.35
1636 1683 3.211963 GCCCTGGCCGTAGCATTG 61.212 66.667 0.00 0.00 42.56 2.82
1637 1684 2.589540 CCCTGGCCGTAGCATTGA 59.410 61.111 0.00 0.00 42.56 2.57
1638 1685 1.524621 CCCTGGCCGTAGCATTGAG 60.525 63.158 0.00 0.00 42.56 3.02
1639 1686 2.182842 CCTGGCCGTAGCATTGAGC 61.183 63.158 0.00 0.00 42.56 4.26
1648 1695 3.256936 GCATTGAGCTGTGCGACA 58.743 55.556 0.00 0.00 41.15 4.35
1662 1709 4.077188 GACAGTCGCCGCTTGCAC 62.077 66.667 0.00 0.00 41.33 4.57
1671 1718 4.749310 CGCTTGCACCGAGGAGCT 62.749 66.667 12.43 0.00 33.09 4.09
1672 1719 2.579201 GCTTGCACCGAGGAGCTA 59.421 61.111 12.43 4.51 33.00 3.32
1673 1720 1.520342 GCTTGCACCGAGGAGCTAG 60.520 63.158 15.68 15.68 37.53 3.42
1674 1721 1.893786 CTTGCACCGAGGAGCTAGT 59.106 57.895 12.43 0.00 32.44 2.57
1675 1722 0.179124 CTTGCACCGAGGAGCTAGTC 60.179 60.000 12.43 0.00 32.44 2.59
1676 1723 0.612174 TTGCACCGAGGAGCTAGTCT 60.612 55.000 12.43 0.00 33.00 3.24
1677 1724 0.612174 TGCACCGAGGAGCTAGTCTT 60.612 55.000 12.43 0.00 33.00 3.01
1678 1725 0.101579 GCACCGAGGAGCTAGTCTTC 59.898 60.000 4.30 0.00 0.00 2.87
1679 1726 1.757682 CACCGAGGAGCTAGTCTTCT 58.242 55.000 0.00 0.00 31.73 2.85
1797 1844 1.237533 TACCGCAGTACAACACTCGA 58.762 50.000 0.00 0.00 34.26 4.04
1842 1889 3.942829 TGAGCTACCCTGTTTTGATCTG 58.057 45.455 0.00 0.00 0.00 2.90
1843 1890 3.582647 TGAGCTACCCTGTTTTGATCTGA 59.417 43.478 0.00 0.00 0.00 3.27
1844 1891 4.225942 TGAGCTACCCTGTTTTGATCTGAT 59.774 41.667 0.00 0.00 0.00 2.90
1846 1893 3.879892 GCTACCCTGTTTTGATCTGATCC 59.120 47.826 14.71 0.40 0.00 3.36
1847 1894 4.384647 GCTACCCTGTTTTGATCTGATCCT 60.385 45.833 14.71 0.00 0.00 3.24
1848 1895 4.227864 ACCCTGTTTTGATCTGATCCTC 57.772 45.455 14.71 3.95 0.00 3.71
1849 1896 3.588842 ACCCTGTTTTGATCTGATCCTCA 59.411 43.478 14.71 7.76 0.00 3.86
1850 1897 3.944015 CCCTGTTTTGATCTGATCCTCAC 59.056 47.826 14.71 8.74 0.00 3.51
1851 1898 4.566278 CCCTGTTTTGATCTGATCCTCACA 60.566 45.833 14.71 12.28 0.00 3.58
1852 1899 5.005740 CCTGTTTTGATCTGATCCTCACAA 58.994 41.667 14.71 0.28 0.00 3.33
1855 1902 5.239306 TGTTTTGATCTGATCCTCACAACAC 59.761 40.000 14.71 6.74 37.23 3.32
2127 2792 0.530650 CCAGATTGGTCGATCACCCG 60.531 60.000 0.00 0.00 46.18 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 1.507141 CCTGCGACCTTGTCCACAAC 61.507 60.000 0.00 0.00 0.00 3.32
88 89 2.757099 CCATGGTGGGAGCTTGCC 60.757 66.667 2.57 0.00 32.67 4.52
121 122 3.991051 CACACGCCCGACAGAGGT 61.991 66.667 0.00 0.00 0.00 3.85
199 200 2.253610 TGTGTTAAGGATCTCCACGGT 58.746 47.619 0.00 0.00 38.89 4.83
246 290 0.181587 TTGCAGACGAGGTCCCAAAA 59.818 50.000 0.00 0.00 32.18 2.44
247 291 0.250295 CTTGCAGACGAGGTCCCAAA 60.250 55.000 0.00 0.00 32.18 3.28
326 370 4.021981 CACTCGAACCATAGCCATCATAGA 60.022 45.833 0.00 0.00 0.00 1.98
422 467 3.265737 TCCCACTGTAACCATTGTAGCAT 59.734 43.478 0.00 0.00 0.00 3.79
523 568 2.859165 TTCTTCTTGCGGGAGATGTT 57.141 45.000 0.00 0.00 0.00 2.71
524 569 3.274288 GAATTCTTCTTGCGGGAGATGT 58.726 45.455 0.00 0.00 0.00 3.06
613 658 0.732571 AACTGTTGGACGTGTGCAAG 59.267 50.000 7.21 0.00 41.50 4.01
637 682 5.076458 TCATGGATATCTTCTCCCAGAGGTA 59.924 44.000 2.05 0.00 31.48 3.08
734 781 4.142600 CCTCAAACTATGCCTTGTAAGCAC 60.143 45.833 0.00 0.00 44.40 4.40
954 1001 0.676466 AAATGCGGATGGTGAAGCGA 60.676 50.000 0.00 0.00 0.00 4.93
1075 1122 1.691219 CTTTAGGGGAGCCAAGGCA 59.309 57.895 14.40 0.00 44.88 4.75
1092 1139 1.045350 TCATCAAGGAGGCTAGCGCT 61.045 55.000 17.26 17.26 36.09 5.92
1204 1251 0.402121 GCCCAAAGAGACACCTCCTT 59.598 55.000 0.00 0.00 40.30 3.36
1259 1306 5.121768 GCAAAATAAAAGGTCTACTCTCGCA 59.878 40.000 0.00 0.00 0.00 5.10
1288 1335 0.742990 TTATCGAACAAGGGCCGCAG 60.743 55.000 0.00 0.00 0.00 5.18
1361 1408 3.499537 TCATCTGTTGTGCAGTGTTCATC 59.500 43.478 0.00 0.00 45.23 2.92
1364 1411 3.969117 TTCATCTGTTGTGCAGTGTTC 57.031 42.857 0.00 0.00 45.23 3.18
1365 1412 3.696051 ACTTTCATCTGTTGTGCAGTGTT 59.304 39.130 0.00 0.00 45.23 3.32
1366 1413 3.282021 ACTTTCATCTGTTGTGCAGTGT 58.718 40.909 0.00 0.00 45.23 3.55
1367 1414 3.976793 ACTTTCATCTGTTGTGCAGTG 57.023 42.857 0.00 0.00 45.23 3.66
1368 1415 4.389992 CGATACTTTCATCTGTTGTGCAGT 59.610 41.667 0.00 0.00 45.23 4.40
1369 1416 4.201753 CCGATACTTTCATCTGTTGTGCAG 60.202 45.833 0.00 0.00 46.34 4.41
1370 1417 3.684305 CCGATACTTTCATCTGTTGTGCA 59.316 43.478 0.00 0.00 0.00 4.57
1371 1418 3.063997 CCCGATACTTTCATCTGTTGTGC 59.936 47.826 0.00 0.00 0.00 4.57
1372 1419 4.503910 TCCCGATACTTTCATCTGTTGTG 58.496 43.478 0.00 0.00 0.00 3.33
1373 1420 4.819105 TCCCGATACTTTCATCTGTTGT 57.181 40.909 0.00 0.00 0.00 3.32
1374 1421 6.683974 AAATCCCGATACTTTCATCTGTTG 57.316 37.500 0.00 0.00 0.00 3.33
1375 1422 6.404734 GCAAAATCCCGATACTTTCATCTGTT 60.405 38.462 0.00 0.00 0.00 3.16
1376 1423 5.066505 GCAAAATCCCGATACTTTCATCTGT 59.933 40.000 0.00 0.00 0.00 3.41
1377 1424 5.066375 TGCAAAATCCCGATACTTTCATCTG 59.934 40.000 0.00 0.00 0.00 2.90
1378 1425 5.192927 TGCAAAATCCCGATACTTTCATCT 58.807 37.500 0.00 0.00 0.00 2.90
1379 1426 5.499139 TGCAAAATCCCGATACTTTCATC 57.501 39.130 0.00 0.00 0.00 2.92
1380 1427 5.913137 TTGCAAAATCCCGATACTTTCAT 57.087 34.783 0.00 0.00 0.00 2.57
1381 1428 5.913137 ATTGCAAAATCCCGATACTTTCA 57.087 34.783 1.71 0.00 0.00 2.69
1382 1429 6.329496 TGAATTGCAAAATCCCGATACTTTC 58.671 36.000 1.71 0.00 0.00 2.62
1383 1430 6.279513 TGAATTGCAAAATCCCGATACTTT 57.720 33.333 1.71 0.00 0.00 2.66
1384 1431 5.913137 TGAATTGCAAAATCCCGATACTT 57.087 34.783 1.71 0.00 0.00 2.24
1385 1432 5.913137 TTGAATTGCAAAATCCCGATACT 57.087 34.783 1.71 0.00 32.46 2.12
1386 1433 6.534793 ACAATTGAATTGCAAAATCCCGATAC 59.465 34.615 17.19 0.00 43.98 2.24
1387 1434 6.638610 ACAATTGAATTGCAAAATCCCGATA 58.361 32.000 17.19 0.00 43.98 2.92
1388 1435 5.490159 ACAATTGAATTGCAAAATCCCGAT 58.510 33.333 17.19 0.00 43.98 4.18
1389 1436 4.892433 ACAATTGAATTGCAAAATCCCGA 58.108 34.783 17.19 0.00 43.98 5.14
1390 1437 6.907206 ATACAATTGAATTGCAAAATCCCG 57.093 33.333 17.19 0.00 43.98 5.14
1419 1466 8.144478 GCTAACATCTCAGGTATTTCAGTCATA 58.856 37.037 0.00 0.00 0.00 2.15
1420 1467 6.989169 GCTAACATCTCAGGTATTTCAGTCAT 59.011 38.462 0.00 0.00 0.00 3.06
1421 1468 6.070824 TGCTAACATCTCAGGTATTTCAGTCA 60.071 38.462 0.00 0.00 0.00 3.41
1422 1469 6.256757 GTGCTAACATCTCAGGTATTTCAGTC 59.743 42.308 0.00 0.00 0.00 3.51
1423 1470 6.109359 GTGCTAACATCTCAGGTATTTCAGT 58.891 40.000 0.00 0.00 0.00 3.41
1424 1471 5.233050 CGTGCTAACATCTCAGGTATTTCAG 59.767 44.000 0.00 0.00 0.00 3.02
1425 1472 5.109210 CGTGCTAACATCTCAGGTATTTCA 58.891 41.667 0.00 0.00 0.00 2.69
1426 1473 4.025647 GCGTGCTAACATCTCAGGTATTTC 60.026 45.833 0.00 0.00 0.00 2.17
1427 1474 3.871594 GCGTGCTAACATCTCAGGTATTT 59.128 43.478 0.00 0.00 0.00 1.40
1428 1475 3.133003 AGCGTGCTAACATCTCAGGTATT 59.867 43.478 0.00 0.00 0.00 1.89
1429 1476 2.695666 AGCGTGCTAACATCTCAGGTAT 59.304 45.455 0.00 0.00 0.00 2.73
1430 1477 2.100197 AGCGTGCTAACATCTCAGGTA 58.900 47.619 0.00 0.00 0.00 3.08
1431 1478 0.898320 AGCGTGCTAACATCTCAGGT 59.102 50.000 0.00 0.00 0.00 4.00
1432 1479 1.662629 CAAGCGTGCTAACATCTCAGG 59.337 52.381 0.00 0.00 0.00 3.86
1433 1480 2.610433 TCAAGCGTGCTAACATCTCAG 58.390 47.619 0.00 0.00 0.00 3.35
1434 1481 2.741759 TCAAGCGTGCTAACATCTCA 57.258 45.000 0.00 0.00 0.00 3.27
1435 1482 3.000724 GTGATCAAGCGTGCTAACATCTC 59.999 47.826 0.00 0.00 0.00 2.75
1436 1483 2.932614 GTGATCAAGCGTGCTAACATCT 59.067 45.455 0.00 0.00 0.00 2.90
1437 1484 2.030946 GGTGATCAAGCGTGCTAACATC 59.969 50.000 0.00 0.00 0.00 3.06
1438 1485 2.009774 GGTGATCAAGCGTGCTAACAT 58.990 47.619 0.00 0.00 0.00 2.71
1439 1486 1.270571 TGGTGATCAAGCGTGCTAACA 60.271 47.619 0.00 0.00 0.00 2.41
1440 1487 1.438651 TGGTGATCAAGCGTGCTAAC 58.561 50.000 0.00 0.00 0.00 2.34
1441 1488 2.177394 TTGGTGATCAAGCGTGCTAA 57.823 45.000 0.00 0.00 0.00 3.09
1442 1489 2.401583 ATTGGTGATCAAGCGTGCTA 57.598 45.000 0.00 0.00 38.95 3.49
1443 1490 2.401583 TATTGGTGATCAAGCGTGCT 57.598 45.000 0.00 0.00 38.95 4.40
1444 1491 3.698029 ATTATTGGTGATCAAGCGTGC 57.302 42.857 0.00 0.00 38.95 5.34
1445 1492 5.036737 GGAAATTATTGGTGATCAAGCGTG 58.963 41.667 0.00 0.00 38.95 5.34
1446 1493 4.097892 GGGAAATTATTGGTGATCAAGCGT 59.902 41.667 0.00 0.00 38.95 5.07
1447 1494 4.339247 AGGGAAATTATTGGTGATCAAGCG 59.661 41.667 0.00 0.00 38.95 4.68
1448 1495 5.452356 CCAGGGAAATTATTGGTGATCAAGC 60.452 44.000 0.00 0.00 38.95 4.01
1449 1496 5.069516 CCCAGGGAAATTATTGGTGATCAAG 59.930 44.000 0.00 0.00 38.95 3.02
1450 1497 4.961730 CCCAGGGAAATTATTGGTGATCAA 59.038 41.667 0.00 0.00 40.01 2.57
1451 1498 4.545678 CCCAGGGAAATTATTGGTGATCA 58.454 43.478 0.00 0.00 0.00 2.92
1452 1499 3.897505 CCCCAGGGAAATTATTGGTGATC 59.102 47.826 7.25 0.00 37.50 2.92
1453 1500 3.535590 TCCCCAGGGAAATTATTGGTGAT 59.464 43.478 7.25 0.00 42.05 3.06
1454 1501 2.929724 TCCCCAGGGAAATTATTGGTGA 59.070 45.455 7.25 0.00 42.05 4.02
1455 1502 3.396685 TCCCCAGGGAAATTATTGGTG 57.603 47.619 7.25 0.00 42.05 4.17
1466 1513 1.770927 TTTTCCACGTCCCCAGGGA 60.771 57.895 7.25 3.80 42.90 4.20
1467 1514 1.303317 CTTTTCCACGTCCCCAGGG 60.303 63.158 0.00 0.00 0.00 4.45
1468 1515 1.303317 CCTTTTCCACGTCCCCAGG 60.303 63.158 0.00 0.00 0.00 4.45
1469 1516 1.303317 CCCTTTTCCACGTCCCCAG 60.303 63.158 0.00 0.00 0.00 4.45
1470 1517 2.840576 CCCTTTTCCACGTCCCCA 59.159 61.111 0.00 0.00 0.00 4.96
1471 1518 1.844544 TAGCCCTTTTCCACGTCCCC 61.845 60.000 0.00 0.00 0.00 4.81
1472 1519 0.037160 TTAGCCCTTTTCCACGTCCC 59.963 55.000 0.00 0.00 0.00 4.46
1473 1520 1.162698 GTTAGCCCTTTTCCACGTCC 58.837 55.000 0.00 0.00 0.00 4.79
1474 1521 1.162698 GGTTAGCCCTTTTCCACGTC 58.837 55.000 0.00 0.00 0.00 4.34
1475 1522 0.475044 TGGTTAGCCCTTTTCCACGT 59.525 50.000 0.00 0.00 0.00 4.49
1476 1523 1.611519 TTGGTTAGCCCTTTTCCACG 58.388 50.000 0.00 0.00 0.00 4.94
1477 1524 2.963101 AGTTTGGTTAGCCCTTTTCCAC 59.037 45.455 0.00 0.00 0.00 4.02
1478 1525 2.962421 CAGTTTGGTTAGCCCTTTTCCA 59.038 45.455 0.00 0.00 0.00 3.53
1479 1526 2.963101 ACAGTTTGGTTAGCCCTTTTCC 59.037 45.455 0.00 0.00 0.00 3.13
1480 1527 4.321008 GCTACAGTTTGGTTAGCCCTTTTC 60.321 45.833 0.00 0.00 0.00 2.29
1481 1528 3.572682 GCTACAGTTTGGTTAGCCCTTTT 59.427 43.478 0.00 0.00 0.00 2.27
1482 1529 3.154710 GCTACAGTTTGGTTAGCCCTTT 58.845 45.455 0.00 0.00 0.00 3.11
1483 1530 2.791655 GCTACAGTTTGGTTAGCCCTT 58.208 47.619 0.00 0.00 0.00 3.95
1484 1531 1.338769 CGCTACAGTTTGGTTAGCCCT 60.339 52.381 0.00 0.00 0.00 5.19
1485 1532 1.084289 CGCTACAGTTTGGTTAGCCC 58.916 55.000 0.00 0.00 0.00 5.19
1486 1533 2.088950 TCGCTACAGTTTGGTTAGCC 57.911 50.000 0.00 0.00 0.00 3.93
1487 1534 4.153475 TGAAATCGCTACAGTTTGGTTAGC 59.847 41.667 0.00 0.00 0.00 3.09
1488 1535 5.856126 TGAAATCGCTACAGTTTGGTTAG 57.144 39.130 0.00 0.00 0.00 2.34
1489 1536 6.428465 TGAATGAAATCGCTACAGTTTGGTTA 59.572 34.615 0.00 0.00 0.00 2.85
1490 1537 5.240623 TGAATGAAATCGCTACAGTTTGGTT 59.759 36.000 0.00 0.00 0.00 3.67
1491 1538 4.759693 TGAATGAAATCGCTACAGTTTGGT 59.240 37.500 0.00 0.00 0.00 3.67
1492 1539 5.295431 TGAATGAAATCGCTACAGTTTGG 57.705 39.130 0.00 0.00 0.00 3.28
1493 1540 6.545508 TGATGAATGAAATCGCTACAGTTTG 58.454 36.000 0.00 0.00 0.00 2.93
1494 1541 6.741992 TGATGAATGAAATCGCTACAGTTT 57.258 33.333 0.00 0.00 0.00 2.66
1495 1542 6.932356 ATGATGAATGAAATCGCTACAGTT 57.068 33.333 0.00 0.00 0.00 3.16
1496 1543 6.238566 CCAATGATGAATGAAATCGCTACAGT 60.239 38.462 0.00 0.00 0.00 3.55
1497 1544 6.140786 CCAATGATGAATGAAATCGCTACAG 58.859 40.000 0.00 0.00 0.00 2.74
1498 1545 5.506151 GCCAATGATGAATGAAATCGCTACA 60.506 40.000 0.00 0.00 0.00 2.74
1499 1546 4.913924 GCCAATGATGAATGAAATCGCTAC 59.086 41.667 0.00 0.00 0.00 3.58
1500 1547 4.022935 GGCCAATGATGAATGAAATCGCTA 60.023 41.667 0.00 0.00 0.00 4.26
1501 1548 3.243636 GGCCAATGATGAATGAAATCGCT 60.244 43.478 0.00 0.00 0.00 4.93
1502 1549 3.054878 GGCCAATGATGAATGAAATCGC 58.945 45.455 0.00 0.00 0.00 4.58
1503 1550 4.579454 AGGCCAATGATGAATGAAATCG 57.421 40.909 5.01 0.00 0.00 3.34
1504 1551 6.395426 TGTAGGCCAATGATGAATGAAATC 57.605 37.500 5.01 0.00 0.00 2.17
1505 1552 5.303589 CCTGTAGGCCAATGATGAATGAAAT 59.696 40.000 5.01 0.00 0.00 2.17
1506 1553 4.646040 CCTGTAGGCCAATGATGAATGAAA 59.354 41.667 5.01 0.00 0.00 2.69
1507 1554 4.079844 TCCTGTAGGCCAATGATGAATGAA 60.080 41.667 5.01 0.00 34.44 2.57
1508 1555 3.459227 TCCTGTAGGCCAATGATGAATGA 59.541 43.478 5.01 0.00 34.44 2.57
1509 1556 3.824133 TCCTGTAGGCCAATGATGAATG 58.176 45.455 5.01 0.00 34.44 2.67
1510 1557 4.524802 TTCCTGTAGGCCAATGATGAAT 57.475 40.909 5.01 0.00 34.44 2.57
1511 1558 4.314522 TTTCCTGTAGGCCAATGATGAA 57.685 40.909 5.01 0.00 34.44 2.57
1512 1559 4.314522 TTTTCCTGTAGGCCAATGATGA 57.685 40.909 5.01 0.00 34.44 2.92
1513 1560 4.891756 AGATTTTCCTGTAGGCCAATGATG 59.108 41.667 5.01 0.00 34.44 3.07
1514 1561 5.134725 AGATTTTCCTGTAGGCCAATGAT 57.865 39.130 5.01 0.00 34.44 2.45
1515 1562 4.591321 AGATTTTCCTGTAGGCCAATGA 57.409 40.909 5.01 0.00 34.44 2.57
1516 1563 4.142093 CCAAGATTTTCCTGTAGGCCAATG 60.142 45.833 5.01 0.00 34.44 2.82
1517 1564 4.026052 CCAAGATTTTCCTGTAGGCCAAT 58.974 43.478 5.01 0.00 34.44 3.16
1518 1565 3.075283 TCCAAGATTTTCCTGTAGGCCAA 59.925 43.478 5.01 0.00 34.44 4.52
1519 1566 2.647299 TCCAAGATTTTCCTGTAGGCCA 59.353 45.455 5.01 0.00 34.44 5.36
1520 1567 3.054361 TCTCCAAGATTTTCCTGTAGGCC 60.054 47.826 0.00 0.00 34.44 5.19
1521 1568 4.195416 CTCTCCAAGATTTTCCTGTAGGC 58.805 47.826 0.00 0.00 34.44 3.93
1522 1569 4.080638 AGCTCTCCAAGATTTTCCTGTAGG 60.081 45.833 0.00 0.00 0.00 3.18
1523 1570 5.096443 AGCTCTCCAAGATTTTCCTGTAG 57.904 43.478 0.00 0.00 0.00 2.74
1524 1571 4.532126 TGAGCTCTCCAAGATTTTCCTGTA 59.468 41.667 16.19 0.00 0.00 2.74
1525 1572 3.328931 TGAGCTCTCCAAGATTTTCCTGT 59.671 43.478 16.19 0.00 0.00 4.00
1526 1573 3.688673 GTGAGCTCTCCAAGATTTTCCTG 59.311 47.826 16.19 0.00 0.00 3.86
1527 1574 3.618507 CGTGAGCTCTCCAAGATTTTCCT 60.619 47.826 16.19 0.00 0.00 3.36
1528 1575 2.675348 CGTGAGCTCTCCAAGATTTTCC 59.325 50.000 16.19 0.00 0.00 3.13
1529 1576 2.675348 CCGTGAGCTCTCCAAGATTTTC 59.325 50.000 16.19 0.00 0.00 2.29
1530 1577 2.303022 TCCGTGAGCTCTCCAAGATTTT 59.697 45.455 16.19 0.00 0.00 1.82
1531 1578 1.902508 TCCGTGAGCTCTCCAAGATTT 59.097 47.619 16.19 0.00 0.00 2.17
1532 1579 1.480137 CTCCGTGAGCTCTCCAAGATT 59.520 52.381 16.19 0.00 0.00 2.40
1533 1580 1.110442 CTCCGTGAGCTCTCCAAGAT 58.890 55.000 16.19 0.00 0.00 2.40
1534 1581 0.967887 CCTCCGTGAGCTCTCCAAGA 60.968 60.000 16.19 6.48 0.00 3.02
1535 1582 0.967887 TCCTCCGTGAGCTCTCCAAG 60.968 60.000 16.19 9.76 0.00 3.61
1536 1583 0.324738 ATCCTCCGTGAGCTCTCCAA 60.325 55.000 16.19 0.04 0.00 3.53
1537 1584 0.551396 TATCCTCCGTGAGCTCTCCA 59.449 55.000 16.19 0.00 0.00 3.86
1538 1585 1.243902 CTATCCTCCGTGAGCTCTCC 58.756 60.000 16.19 4.56 0.00 3.71
1539 1586 1.243902 CCTATCCTCCGTGAGCTCTC 58.756 60.000 16.19 10.75 0.00 3.20
1540 1587 0.825840 GCCTATCCTCCGTGAGCTCT 60.826 60.000 16.19 0.00 0.00 4.09
1541 1588 1.663173 GCCTATCCTCCGTGAGCTC 59.337 63.158 6.82 6.82 0.00 4.09
1542 1589 1.834822 GGCCTATCCTCCGTGAGCT 60.835 63.158 0.00 0.00 0.00 4.09
1543 1590 2.737830 GGCCTATCCTCCGTGAGC 59.262 66.667 0.00 0.00 0.00 4.26
1544 1591 0.833834 ATGGGCCTATCCTCCGTGAG 60.834 60.000 4.53 0.00 34.39 3.51
1545 1592 1.121407 CATGGGCCTATCCTCCGTGA 61.121 60.000 4.53 0.00 39.30 4.35
1546 1593 1.372683 CATGGGCCTATCCTCCGTG 59.627 63.158 4.53 0.00 34.39 4.94
1547 1594 1.843376 CCATGGGCCTATCCTCCGT 60.843 63.158 2.85 0.00 34.39 4.69
1548 1595 2.596851 CCCATGGGCCTATCCTCCG 61.597 68.421 20.41 0.00 34.39 4.63
1549 1596 2.234296 CCCCATGGGCCTATCCTCC 61.234 68.421 26.87 0.00 35.35 4.30
1550 1597 0.772124 TTCCCCATGGGCCTATCCTC 60.772 60.000 26.87 0.00 43.94 3.71
1551 1598 0.329434 TTTCCCCATGGGCCTATCCT 60.329 55.000 26.87 0.00 43.94 3.24
1552 1599 0.560688 TTTTCCCCATGGGCCTATCC 59.439 55.000 26.87 0.00 43.94 2.59
1553 1600 2.470057 TTTTTCCCCATGGGCCTATC 57.530 50.000 26.87 0.00 43.94 2.08
1569 1616 3.401342 ACCCAGGTACCTCCAAGATTTTT 59.599 43.478 12.84 0.00 39.02 1.94
1570 1617 2.993863 ACCCAGGTACCTCCAAGATTTT 59.006 45.455 12.84 0.00 39.02 1.82
1571 1618 2.308866 CACCCAGGTACCTCCAAGATTT 59.691 50.000 12.84 0.00 39.02 2.17
1572 1619 1.916181 CACCCAGGTACCTCCAAGATT 59.084 52.381 12.84 0.00 39.02 2.40
1573 1620 1.584724 CACCCAGGTACCTCCAAGAT 58.415 55.000 12.84 0.00 39.02 2.40
1574 1621 0.546747 CCACCCAGGTACCTCCAAGA 60.547 60.000 12.84 0.00 39.02 3.02
1575 1622 0.546747 TCCACCCAGGTACCTCCAAG 60.547 60.000 12.84 0.00 39.02 3.61
1576 1623 0.546747 CTCCACCCAGGTACCTCCAA 60.547 60.000 12.84 0.00 39.02 3.53
1577 1624 1.080354 CTCCACCCAGGTACCTCCA 59.920 63.158 12.84 0.00 39.02 3.86
1578 1625 1.689582 CCTCCACCCAGGTACCTCC 60.690 68.421 12.84 0.00 39.02 4.30
1579 1626 2.368011 GCCTCCACCCAGGTACCTC 61.368 68.421 12.84 0.00 39.02 3.85
1580 1627 2.285442 GCCTCCACCCAGGTACCT 60.285 66.667 9.21 9.21 39.02 3.08
1581 1628 1.571773 ATTGCCTCCACCCAGGTACC 61.572 60.000 2.73 2.73 39.02 3.34
1582 1629 0.331616 AATTGCCTCCACCCAGGTAC 59.668 55.000 0.00 0.00 39.02 3.34
1583 1630 1.080638 AAATTGCCTCCACCCAGGTA 58.919 50.000 0.00 0.00 39.02 3.08
1584 1631 0.542702 CAAATTGCCTCCACCCAGGT 60.543 55.000 0.00 0.00 39.02 4.00
1585 1632 1.259840 CCAAATTGCCTCCACCCAGG 61.260 60.000 0.00 0.00 36.50 4.45
1586 1633 1.891722 GCCAAATTGCCTCCACCCAG 61.892 60.000 0.00 0.00 0.00 4.45
1587 1634 1.912763 GCCAAATTGCCTCCACCCA 60.913 57.895 0.00 0.00 0.00 4.51
1588 1635 0.324275 TAGCCAAATTGCCTCCACCC 60.324 55.000 0.00 0.00 0.00 4.61
1589 1636 1.106285 CTAGCCAAATTGCCTCCACC 58.894 55.000 0.00 0.00 0.00 4.61
1590 1637 1.106285 CCTAGCCAAATTGCCTCCAC 58.894 55.000 0.00 0.00 0.00 4.02
1591 1638 0.684153 GCCTAGCCAAATTGCCTCCA 60.684 55.000 0.00 0.00 0.00 3.86
1592 1639 0.684153 TGCCTAGCCAAATTGCCTCC 60.684 55.000 0.00 0.00 0.00 4.30
1593 1640 0.743097 CTGCCTAGCCAAATTGCCTC 59.257 55.000 0.00 0.00 0.00 4.70
1594 1641 0.685458 CCTGCCTAGCCAAATTGCCT 60.685 55.000 0.00 0.00 0.00 4.75
1595 1642 0.684153 TCCTGCCTAGCCAAATTGCC 60.684 55.000 0.00 0.00 0.00 4.52
1596 1643 0.743097 CTCCTGCCTAGCCAAATTGC 59.257 55.000 0.00 0.00 0.00 3.56
1597 1644 2.425143 TCTCCTGCCTAGCCAAATTG 57.575 50.000 0.00 0.00 0.00 2.32
1598 1645 2.357569 CCTTCTCCTGCCTAGCCAAATT 60.358 50.000 0.00 0.00 0.00 1.82
1599 1646 1.213926 CCTTCTCCTGCCTAGCCAAAT 59.786 52.381 0.00 0.00 0.00 2.32
1600 1647 0.620556 CCTTCTCCTGCCTAGCCAAA 59.379 55.000 0.00 0.00 0.00 3.28
1601 1648 1.915078 GCCTTCTCCTGCCTAGCCAA 61.915 60.000 0.00 0.00 0.00 4.52
1602 1649 2.370445 GCCTTCTCCTGCCTAGCCA 61.370 63.158 0.00 0.00 0.00 4.75
1603 1650 2.508436 GCCTTCTCCTGCCTAGCC 59.492 66.667 0.00 0.00 0.00 3.93
1604 1651 2.508436 GGCCTTCTCCTGCCTAGC 59.492 66.667 0.00 0.00 44.46 3.42
1619 1666 3.211963 CAATGCTACGGCCAGGGC 61.212 66.667 2.24 1.81 41.06 5.19
1620 1667 1.524621 CTCAATGCTACGGCCAGGG 60.525 63.158 2.24 0.00 37.74 4.45
1621 1668 2.182842 GCTCAATGCTACGGCCAGG 61.183 63.158 2.24 0.00 38.95 4.45
1622 1669 3.414272 GCTCAATGCTACGGCCAG 58.586 61.111 2.24 0.00 38.95 4.85
1631 1678 1.134075 CTGTCGCACAGCTCAATGC 59.866 57.895 4.38 4.38 39.62 3.56
1655 1702 1.520342 CTAGCTCCTCGGTGCAAGC 60.520 63.158 12.01 0.00 37.12 4.01
1656 1703 0.179124 GACTAGCTCCTCGGTGCAAG 60.179 60.000 12.01 0.00 37.12 4.01
1657 1704 0.612174 AGACTAGCTCCTCGGTGCAA 60.612 55.000 12.01 0.00 37.12 4.08
1658 1705 0.612174 AAGACTAGCTCCTCGGTGCA 60.612 55.000 12.01 0.00 37.12 4.57
1659 1706 0.101579 GAAGACTAGCTCCTCGGTGC 59.898 60.000 0.00 1.90 35.16 5.01
1660 1707 1.757682 AGAAGACTAGCTCCTCGGTG 58.242 55.000 0.00 0.00 0.00 4.94
1661 1708 2.517998 AAGAAGACTAGCTCCTCGGT 57.482 50.000 0.00 0.00 0.00 4.69
1662 1709 3.878160 AAAAGAAGACTAGCTCCTCGG 57.122 47.619 0.00 0.00 0.00 4.63
1842 1889 0.037326 TCAGGCGTGTTGTGAGGATC 60.037 55.000 6.26 0.00 0.00 3.36
1843 1890 0.396435 TTCAGGCGTGTTGTGAGGAT 59.604 50.000 6.26 0.00 0.00 3.24
1844 1891 0.396435 ATTCAGGCGTGTTGTGAGGA 59.604 50.000 6.26 0.00 0.00 3.71
1846 1893 0.439985 CGATTCAGGCGTGTTGTGAG 59.560 55.000 6.26 0.00 0.00 3.51
1847 1894 0.032815 TCGATTCAGGCGTGTTGTGA 59.967 50.000 6.26 0.00 0.00 3.58
1848 1895 0.163788 GTCGATTCAGGCGTGTTGTG 59.836 55.000 6.26 0.00 0.00 3.33
1849 1896 0.033504 AGTCGATTCAGGCGTGTTGT 59.966 50.000 6.26 0.00 0.00 3.32
1850 1897 1.920574 CTAGTCGATTCAGGCGTGTTG 59.079 52.381 6.26 0.00 0.00 3.33
1851 1898 1.544691 ACTAGTCGATTCAGGCGTGTT 59.455 47.619 6.26 0.00 0.00 3.32
1852 1899 1.174783 ACTAGTCGATTCAGGCGTGT 58.825 50.000 6.26 0.00 0.00 4.49
1855 1902 2.612672 TCTGTACTAGTCGATTCAGGCG 59.387 50.000 0.00 0.00 0.00 5.52


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

AutoCloner maintained by Alex Coulton.