Multiple sequence alignment - TraesCS2D01G064300

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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 TraesCS2D01G064300 chr2D 100.000 2306 0 0 1 2306 27616922 27614617 0.000000e+00 4259
1 TraesCS2D01G064300 chr5A 96.018 1331 50 3 1 1331 262233653 262232326 0.000000e+00 2161
2 TraesCS2D01G064300 chr5A 89.428 804 68 12 1513 2306 548844204 548843408 0.000000e+00 998
3 TraesCS2D01G064300 chr5A 91.198 409 34 2 921 1328 494576176 494575769 2.590000e-154 555
4 TraesCS2D01G064300 chr5B 94.966 1331 63 3 1 1331 604489529 604490855 0.000000e+00 2084
5 TraesCS2D01G064300 chr5B 90.154 325 30 2 428 752 471408200 471407878 2.740000e-114 422
6 TraesCS2D01G064300 chr5B 86.842 380 39 6 4 381 471408571 471408201 4.580000e-112 414
7 TraesCS2D01G064300 chr5B 90.461 304 25 2 745 1048 471407610 471407311 4.620000e-107 398
8 TraesCS2D01G064300 chr7D 94.286 1330 63 7 1 1330 23194153 23195469 0.000000e+00 2023
9 TraesCS2D01G064300 chr7D 89.000 400 38 4 386 785 4628560 4628167 7.400000e-135 490
10 TraesCS2D01G064300 chr4A 96.308 948 32 2 382 1329 358854422 358853478 0.000000e+00 1554
11 TraesCS2D01G064300 chr4A 88.917 803 73 12 1513 2306 334946371 334947166 0.000000e+00 976
12 TraesCS2D01G064300 chr4A 93.838 568 34 1 765 1331 493828886 493829453 0.000000e+00 854
13 TraesCS2D01G064300 chr5D 87.980 1173 134 5 1 1168 391380450 391379280 0.000000e+00 1378
14 TraesCS2D01G064300 chr1A 89.664 803 70 9 1513 2306 11222439 11221641 0.000000e+00 1011
15 TraesCS2D01G064300 chr4D 89.651 802 69 11 1513 2306 30305775 30304980 0.000000e+00 1009
16 TraesCS2D01G064300 chr1D 89.664 803 68 12 1513 2306 62345597 62346393 0.000000e+00 1009
17 TraesCS2D01G064300 chr6D 89.467 807 70 10 1513 2306 4108947 4108143 0.000000e+00 1005
18 TraesCS2D01G064300 chr6D 82.743 226 33 5 1434 1657 443531409 443531630 1.810000e-46 196
19 TraesCS2D01G064300 chr3A 89.401 802 71 11 1513 2306 408196157 408195362 0.000000e+00 998
20 TraesCS2D01G064300 chr3A 91.281 562 48 1 769 1330 646138503 646137943 0.000000e+00 765
21 TraesCS2D01G064300 chr3A 86.335 322 38 5 1332 1651 57430175 57430492 1.700000e-91 346
22 TraesCS2D01G064300 chr3A 79.476 229 30 9 1434 1657 713099837 713099621 1.850000e-31 147
23 TraesCS2D01G064300 chr6A 89.415 803 68 14 1513 2306 73093942 73093148 0.000000e+00 996
24 TraesCS2D01G064300 chr6A 85.106 282 36 5 1361 1639 422165323 422165045 1.350000e-72 283
25 TraesCS2D01G064300 chrUn 89.179 804 71 13 1513 2306 65804865 65805662 0.000000e+00 989
26 TraesCS2D01G064300 chr3B 90.090 444 40 3 890 1333 81819215 81818776 7.150000e-160 573
27 TraesCS2D01G064300 chr4B 90.537 391 34 2 405 792 666620981 666621371 4.390000e-142 514


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 TraesCS2D01G064300 chr2D 27614617 27616922 2305 True 4259.000000 4259 100.000000 1 2306 1 chr2D.!!$R1 2305
1 TraesCS2D01G064300 chr5A 262232326 262233653 1327 True 2161.000000 2161 96.018000 1 1331 1 chr5A.!!$R1 1330
2 TraesCS2D01G064300 chr5A 548843408 548844204 796 True 998.000000 998 89.428000 1513 2306 1 chr5A.!!$R3 793
3 TraesCS2D01G064300 chr5B 604489529 604490855 1326 False 2084.000000 2084 94.966000 1 1331 1 chr5B.!!$F1 1330
4 TraesCS2D01G064300 chr5B 471407311 471408571 1260 True 411.333333 422 89.152333 4 1048 3 chr5B.!!$R1 1044
5 TraesCS2D01G064300 chr7D 23194153 23195469 1316 False 2023.000000 2023 94.286000 1 1330 1 chr7D.!!$F1 1329
6 TraesCS2D01G064300 chr4A 358853478 358854422 944 True 1554.000000 1554 96.308000 382 1329 1 chr4A.!!$R1 947
7 TraesCS2D01G064300 chr4A 334946371 334947166 795 False 976.000000 976 88.917000 1513 2306 1 chr4A.!!$F1 793
8 TraesCS2D01G064300 chr4A 493828886 493829453 567 False 854.000000 854 93.838000 765 1331 1 chr4A.!!$F2 566
9 TraesCS2D01G064300 chr5D 391379280 391380450 1170 True 1378.000000 1378 87.980000 1 1168 1 chr5D.!!$R1 1167
10 TraesCS2D01G064300 chr1A 11221641 11222439 798 True 1011.000000 1011 89.664000 1513 2306 1 chr1A.!!$R1 793
11 TraesCS2D01G064300 chr4D 30304980 30305775 795 True 1009.000000 1009 89.651000 1513 2306 1 chr4D.!!$R1 793
12 TraesCS2D01G064300 chr1D 62345597 62346393 796 False 1009.000000 1009 89.664000 1513 2306 1 chr1D.!!$F1 793
13 TraesCS2D01G064300 chr6D 4108143 4108947 804 True 1005.000000 1005 89.467000 1513 2306 1 chr6D.!!$R1 793
14 TraesCS2D01G064300 chr3A 408195362 408196157 795 True 998.000000 998 89.401000 1513 2306 1 chr3A.!!$R1 793
15 TraesCS2D01G064300 chr3A 646137943 646138503 560 True 765.000000 765 91.281000 769 1330 1 chr3A.!!$R2 561
16 TraesCS2D01G064300 chr6A 73093148 73093942 794 True 996.000000 996 89.415000 1513 2306 1 chr6A.!!$R1 793
17 TraesCS2D01G064300 chrUn 65804865 65805662 797 False 989.000000 989 89.179000 1513 2306 1 chrUn.!!$F1 793

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
683 689 1.65124 CTGCAGCATGGTACCTGTGC 61.651 60.0 25.89 25.89 39.1 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2239 2545 0.320771 ATGTTCTCTCACGCCGCTTT 60.321 50.0 0.0 0.0 0.0 3.51 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
55 56 3.522553 GAAGGTGATAACTGTTCGAGGG 58.477 50.000 0.00 0.00 0.00 4.30
150 153 2.743718 CTTCTGGCAGGTGGACGT 59.256 61.111 15.73 0.00 0.00 4.34
178 181 8.512138 CAACGTATTCTTTCAATTCCTTTACCT 58.488 33.333 0.00 0.00 0.00 3.08
292 296 2.995466 TTCGGCAGCAGAATTCAAAG 57.005 45.000 8.44 0.00 0.00 2.77
303 307 4.072131 CAGAATTCAAAGTTCGGAAGGGA 58.928 43.478 8.44 0.00 0.00 4.20
683 689 1.651240 CTGCAGCATGGTACCTGTGC 61.651 60.000 25.89 25.89 39.10 4.57
976 1262 5.664294 ATGCCTTGATTCATTTACAGCAA 57.336 34.783 0.00 0.00 0.00 3.91
1314 1600 8.884124 TTTTGATCAATGAATAAAGGAGGAGT 57.116 30.769 9.40 0.00 0.00 3.85
1353 1639 5.526010 AACTACACGTGCTTTAGTTATGC 57.474 39.130 21.78 0.00 34.89 3.14
1354 1640 4.562082 ACTACACGTGCTTTAGTTATGCA 58.438 39.130 17.22 0.00 34.82 3.96
1355 1641 5.175859 ACTACACGTGCTTTAGTTATGCAT 58.824 37.500 17.22 3.79 38.91 3.96
1356 1642 4.600012 ACACGTGCTTTAGTTATGCATC 57.400 40.909 17.22 0.00 38.91 3.91
1357 1643 4.000325 ACACGTGCTTTAGTTATGCATCA 59.000 39.130 17.22 0.00 38.91 3.07
1358 1644 4.093408 ACACGTGCTTTAGTTATGCATCAG 59.907 41.667 17.22 0.00 38.91 2.90
1359 1645 4.093408 CACGTGCTTTAGTTATGCATCAGT 59.907 41.667 0.19 0.00 38.91 3.41
1360 1646 4.093408 ACGTGCTTTAGTTATGCATCAGTG 59.907 41.667 0.19 0.00 38.91 3.66
1361 1647 4.093408 CGTGCTTTAGTTATGCATCAGTGT 59.907 41.667 0.19 0.00 38.91 3.55
1362 1648 5.290885 CGTGCTTTAGTTATGCATCAGTGTA 59.709 40.000 0.19 0.00 38.91 2.90
1363 1649 6.508563 CGTGCTTTAGTTATGCATCAGTGTAG 60.509 42.308 0.19 0.00 38.91 2.74
1364 1650 6.313905 GTGCTTTAGTTATGCATCAGTGTAGT 59.686 38.462 0.19 0.00 38.91 2.73
1365 1651 6.878923 TGCTTTAGTTATGCATCAGTGTAGTT 59.121 34.615 0.19 0.00 32.50 2.24
1366 1652 7.390440 TGCTTTAGTTATGCATCAGTGTAGTTT 59.610 33.333 0.19 0.00 32.50 2.66
1367 1653 8.237267 GCTTTAGTTATGCATCAGTGTAGTTTT 58.763 33.333 0.19 0.00 0.00 2.43
1368 1654 9.760660 CTTTAGTTATGCATCAGTGTAGTTTTC 57.239 33.333 0.19 0.00 0.00 2.29
1369 1655 9.502091 TTTAGTTATGCATCAGTGTAGTTTTCT 57.498 29.630 0.19 0.00 0.00 2.52
1370 1656 7.602517 AGTTATGCATCAGTGTAGTTTTCTC 57.397 36.000 0.19 0.00 0.00 2.87
1371 1657 6.595716 AGTTATGCATCAGTGTAGTTTTCTCC 59.404 38.462 0.19 0.00 0.00 3.71
1372 1658 4.623932 TGCATCAGTGTAGTTTTCTCCT 57.376 40.909 0.00 0.00 0.00 3.69
1373 1659 4.318332 TGCATCAGTGTAGTTTTCTCCTG 58.682 43.478 0.00 0.00 0.00 3.86
1374 1660 3.686726 GCATCAGTGTAGTTTTCTCCTGG 59.313 47.826 0.00 0.00 0.00 4.45
1375 1661 4.256920 CATCAGTGTAGTTTTCTCCTGGG 58.743 47.826 0.00 0.00 0.00 4.45
1376 1662 2.038557 TCAGTGTAGTTTTCTCCTGGGC 59.961 50.000 0.00 0.00 0.00 5.36
1377 1663 2.039084 CAGTGTAGTTTTCTCCTGGGCT 59.961 50.000 0.00 0.00 0.00 5.19
1378 1664 2.039084 AGTGTAGTTTTCTCCTGGGCTG 59.961 50.000 0.00 0.00 0.00 4.85
1379 1665 1.271379 TGTAGTTTTCTCCTGGGCTGC 60.271 52.381 0.00 0.00 0.00 5.25
1380 1666 1.064003 TAGTTTTCTCCTGGGCTGCA 58.936 50.000 0.50 0.00 0.00 4.41
1381 1667 0.407139 AGTTTTCTCCTGGGCTGCAT 59.593 50.000 0.50 0.00 0.00 3.96
1382 1668 0.529378 GTTTTCTCCTGGGCTGCATG 59.471 55.000 0.50 0.00 0.00 4.06
1383 1669 0.405198 TTTTCTCCTGGGCTGCATGA 59.595 50.000 0.50 0.00 0.00 3.07
1384 1670 0.034767 TTTCTCCTGGGCTGCATGAG 60.035 55.000 0.50 1.42 0.00 2.90
1385 1671 1.203441 TTCTCCTGGGCTGCATGAGT 61.203 55.000 0.50 0.00 0.00 3.41
1386 1672 1.203441 TCTCCTGGGCTGCATGAGTT 61.203 55.000 0.50 0.00 0.00 3.01
1387 1673 0.543277 CTCCTGGGCTGCATGAGTTA 59.457 55.000 0.50 0.00 0.00 2.24
1388 1674 0.991146 TCCTGGGCTGCATGAGTTAA 59.009 50.000 0.50 0.00 0.00 2.01
1389 1675 1.065199 TCCTGGGCTGCATGAGTTAAG 60.065 52.381 0.50 0.00 0.00 1.85
1390 1676 0.737219 CTGGGCTGCATGAGTTAAGC 59.263 55.000 0.50 0.00 34.86 3.09
1391 1677 1.026182 TGGGCTGCATGAGTTAAGCG 61.026 55.000 0.50 0.00 36.50 4.68
1392 1678 1.718757 GGGCTGCATGAGTTAAGCGG 61.719 60.000 0.50 0.00 36.50 5.52
1393 1679 1.026718 GGCTGCATGAGTTAAGCGGT 61.027 55.000 0.50 0.00 36.50 5.68
1394 1680 0.097674 GCTGCATGAGTTAAGCGGTG 59.902 55.000 0.00 0.00 37.00 4.94
1395 1681 1.725641 CTGCATGAGTTAAGCGGTGA 58.274 50.000 0.00 0.00 0.00 4.02
1396 1682 2.283298 CTGCATGAGTTAAGCGGTGAT 58.717 47.619 0.00 0.00 0.00 3.06
1397 1683 2.009051 TGCATGAGTTAAGCGGTGATG 58.991 47.619 0.00 0.00 0.00 3.07
1398 1684 1.268234 GCATGAGTTAAGCGGTGATGC 60.268 52.381 0.00 0.00 0.00 3.91
1399 1685 2.009051 CATGAGTTAAGCGGTGATGCA 58.991 47.619 0.00 0.00 37.31 3.96
1400 1686 1.438651 TGAGTTAAGCGGTGATGCAC 58.561 50.000 0.00 0.00 37.31 4.57
1401 1687 0.370273 GAGTTAAGCGGTGATGCACG 59.630 55.000 0.00 0.00 34.83 5.34
1402 1688 0.320421 AGTTAAGCGGTGATGCACGT 60.320 50.000 0.00 0.00 34.83 4.49
1403 1689 0.094730 GTTAAGCGGTGATGCACGTC 59.905 55.000 0.00 0.00 34.83 4.34
1404 1690 1.017177 TTAAGCGGTGATGCACGTCC 61.017 55.000 0.00 0.00 34.83 4.79
1405 1691 2.161078 TAAGCGGTGATGCACGTCCA 62.161 55.000 0.00 0.00 34.83 4.02
1406 1692 2.803155 AAGCGGTGATGCACGTCCAT 62.803 55.000 0.00 0.00 34.83 3.41
1407 1693 1.520564 GCGGTGATGCACGTCCATA 60.521 57.895 0.00 0.00 34.83 2.74
1408 1694 0.880278 GCGGTGATGCACGTCCATAT 60.880 55.000 0.00 0.00 34.83 1.78
1409 1695 1.604438 GCGGTGATGCACGTCCATATA 60.604 52.381 0.00 0.00 34.83 0.86
1410 1696 2.749776 CGGTGATGCACGTCCATATAA 58.250 47.619 0.00 0.00 34.83 0.98
1411 1697 3.325870 CGGTGATGCACGTCCATATAAT 58.674 45.455 0.00 0.00 34.83 1.28
1412 1698 3.745975 CGGTGATGCACGTCCATATAATT 59.254 43.478 0.00 0.00 34.83 1.40
1413 1699 4.926832 CGGTGATGCACGTCCATATAATTA 59.073 41.667 0.00 0.00 34.83 1.40
1414 1700 5.062183 CGGTGATGCACGTCCATATAATTAG 59.938 44.000 0.00 0.00 34.83 1.73
1415 1701 6.163476 GGTGATGCACGTCCATATAATTAGA 58.837 40.000 0.00 0.00 34.83 2.10
1416 1702 6.090898 GGTGATGCACGTCCATATAATTAGAC 59.909 42.308 0.00 0.00 34.83 2.59
1417 1703 6.645003 GTGATGCACGTCCATATAATTAGACA 59.355 38.462 0.00 0.00 0.00 3.41
1418 1704 7.170828 GTGATGCACGTCCATATAATTAGACAA 59.829 37.037 0.00 0.00 0.00 3.18
1419 1705 7.877612 TGATGCACGTCCATATAATTAGACAAT 59.122 33.333 0.00 0.00 0.00 2.71
1420 1706 7.420184 TGCACGTCCATATAATTAGACAATG 57.580 36.000 0.00 3.02 0.00 2.82
1421 1707 6.426633 TGCACGTCCATATAATTAGACAATGG 59.573 38.462 10.51 10.51 38.76 3.16
1422 1708 6.426937 GCACGTCCATATAATTAGACAATGGT 59.573 38.462 14.04 0.00 38.58 3.55
1423 1709 7.041372 GCACGTCCATATAATTAGACAATGGTT 60.041 37.037 14.04 3.68 38.58 3.67
1424 1710 8.282592 CACGTCCATATAATTAGACAATGGTTG 58.717 37.037 14.04 11.41 38.58 3.77
1425 1711 7.041372 ACGTCCATATAATTAGACAATGGTTGC 60.041 37.037 14.04 8.39 38.58 4.17
1426 1712 7.173218 CGTCCATATAATTAGACAATGGTTGCT 59.827 37.037 14.04 0.00 38.58 3.91
1427 1713 8.507249 GTCCATATAATTAGACAATGGTTGCTC 58.493 37.037 14.04 0.00 38.58 4.26
1428 1714 7.665559 TCCATATAATTAGACAATGGTTGCTCC 59.334 37.037 14.04 0.00 38.58 4.70
1429 1715 7.094205 CCATATAATTAGACAATGGTTGCTCCC 60.094 40.741 9.29 0.00 33.81 4.30
1430 1716 2.507407 TTAGACAATGGTTGCTCCCC 57.493 50.000 0.00 0.00 34.77 4.81
1431 1717 0.251916 TAGACAATGGTTGCTCCCCG 59.748 55.000 0.00 0.00 34.77 5.73
1432 1718 2.676471 ACAATGGTTGCTCCCCGC 60.676 61.111 0.00 0.00 39.77 6.13
1433 1719 2.361610 CAATGGTTGCTCCCCGCT 60.362 61.111 0.00 0.00 40.11 5.52
1434 1720 1.978617 CAATGGTTGCTCCCCGCTT 60.979 57.895 0.00 0.00 40.11 4.68
1435 1721 0.679640 CAATGGTTGCTCCCCGCTTA 60.680 55.000 0.00 0.00 40.11 3.09
1436 1722 0.258774 AATGGTTGCTCCCCGCTTAT 59.741 50.000 0.00 0.00 40.11 1.73
1437 1723 0.258774 ATGGTTGCTCCCCGCTTATT 59.741 50.000 0.00 0.00 40.11 1.40
1438 1724 0.039035 TGGTTGCTCCCCGCTTATTT 59.961 50.000 0.00 0.00 40.11 1.40
1439 1725 1.282447 TGGTTGCTCCCCGCTTATTTA 59.718 47.619 0.00 0.00 40.11 1.40
1440 1726 2.291024 TGGTTGCTCCCCGCTTATTTAA 60.291 45.455 0.00 0.00 40.11 1.52
1441 1727 2.956333 GGTTGCTCCCCGCTTATTTAAT 59.044 45.455 0.00 0.00 40.11 1.40
1442 1728 3.383505 GGTTGCTCCCCGCTTATTTAATT 59.616 43.478 0.00 0.00 40.11 1.40
1443 1729 4.499188 GGTTGCTCCCCGCTTATTTAATTC 60.499 45.833 0.00 0.00 40.11 2.17
1444 1730 3.219281 TGCTCCCCGCTTATTTAATTCC 58.781 45.455 0.00 0.00 40.11 3.01
1445 1731 2.225727 GCTCCCCGCTTATTTAATTCCG 59.774 50.000 0.00 0.00 35.14 4.30
1446 1732 2.223745 TCCCCGCTTATTTAATTCCGC 58.776 47.619 0.00 0.00 0.00 5.54
1447 1733 2.158726 TCCCCGCTTATTTAATTCCGCT 60.159 45.455 0.00 0.00 0.00 5.52
1448 1734 2.031157 CCCCGCTTATTTAATTCCGCTG 60.031 50.000 0.00 0.00 0.00 5.18
1449 1735 2.875933 CCCGCTTATTTAATTCCGCTGA 59.124 45.455 0.00 0.00 0.00 4.26
1450 1736 3.502211 CCCGCTTATTTAATTCCGCTGAT 59.498 43.478 0.00 0.00 0.00 2.90
1451 1737 4.023193 CCCGCTTATTTAATTCCGCTGATT 60.023 41.667 0.00 0.00 0.00 2.57
1452 1738 5.180492 CCCGCTTATTTAATTCCGCTGATTA 59.820 40.000 0.00 0.00 0.00 1.75
1453 1739 6.293735 CCCGCTTATTTAATTCCGCTGATTAA 60.294 38.462 0.00 0.00 0.00 1.40
1454 1740 7.136119 CCGCTTATTTAATTCCGCTGATTAAA 58.864 34.615 9.62 9.62 35.20 1.52
1455 1741 7.807907 CCGCTTATTTAATTCCGCTGATTAAAT 59.192 33.333 17.73 17.73 40.99 1.40
1456 1742 9.180678 CGCTTATTTAATTCCGCTGATTAAATT 57.819 29.630 18.34 3.58 39.62 1.82
1459 1745 9.809096 TTATTTAATTCCGCTGATTAAATTGCA 57.191 25.926 18.34 0.00 39.62 4.08
1460 1746 7.518731 TTTAATTCCGCTGATTAAATTGCAC 57.481 32.000 0.00 0.00 0.00 4.57
1461 1747 4.989279 ATTCCGCTGATTAAATTGCACT 57.011 36.364 0.00 0.00 0.00 4.40
1462 1748 4.355543 TTCCGCTGATTAAATTGCACTC 57.644 40.909 0.00 0.00 0.00 3.51
1463 1749 3.609853 TCCGCTGATTAAATTGCACTCT 58.390 40.909 0.00 0.00 0.00 3.24
1464 1750 4.009675 TCCGCTGATTAAATTGCACTCTT 58.990 39.130 0.00 0.00 0.00 2.85
1465 1751 4.100529 CCGCTGATTAAATTGCACTCTTG 58.899 43.478 0.00 0.00 0.00 3.02
1466 1752 4.142622 CCGCTGATTAAATTGCACTCTTGA 60.143 41.667 0.00 0.00 0.00 3.02
1467 1753 5.449588 CCGCTGATTAAATTGCACTCTTGAT 60.450 40.000 0.00 0.00 0.00 2.57
1468 1754 6.032094 CGCTGATTAAATTGCACTCTTGATT 58.968 36.000 0.00 0.00 0.00 2.57
1469 1755 7.188834 CGCTGATTAAATTGCACTCTTGATTA 58.811 34.615 0.00 0.00 0.00 1.75
1470 1756 7.859377 CGCTGATTAAATTGCACTCTTGATTAT 59.141 33.333 0.00 0.00 0.00 1.28
1471 1757 9.525409 GCTGATTAAATTGCACTCTTGATTATT 57.475 29.630 0.00 0.00 0.00 1.40
1495 1781 5.351233 TTTTACTACGTGCATTTCAGTGG 57.649 39.130 0.00 0.00 0.00 4.00
1496 1782 2.543777 ACTACGTGCATTTCAGTGGT 57.456 45.000 0.00 0.00 0.00 4.16
1497 1783 2.413837 ACTACGTGCATTTCAGTGGTC 58.586 47.619 0.00 0.00 0.00 4.02
1498 1784 2.224185 ACTACGTGCATTTCAGTGGTCA 60.224 45.455 0.00 0.00 0.00 4.02
1499 1785 1.896220 ACGTGCATTTCAGTGGTCAT 58.104 45.000 0.00 0.00 0.00 3.06
1500 1786 2.229792 ACGTGCATTTCAGTGGTCATT 58.770 42.857 0.00 0.00 0.00 2.57
1501 1787 3.407698 ACGTGCATTTCAGTGGTCATTA 58.592 40.909 0.00 0.00 0.00 1.90
1502 1788 4.009675 ACGTGCATTTCAGTGGTCATTAT 58.990 39.130 0.00 0.00 0.00 1.28
1503 1789 4.142622 ACGTGCATTTCAGTGGTCATTATG 60.143 41.667 0.00 0.00 0.00 1.90
1504 1790 4.094739 CGTGCATTTCAGTGGTCATTATGA 59.905 41.667 0.00 0.00 0.00 2.15
1505 1791 5.575957 GTGCATTTCAGTGGTCATTATGAG 58.424 41.667 0.00 0.00 0.00 2.90
1506 1792 4.096833 TGCATTTCAGTGGTCATTATGAGC 59.903 41.667 16.47 16.47 44.54 4.26
1537 1823 5.765677 TGTTGAATTAGAATGGAACCAACGA 59.234 36.000 0.00 0.00 36.42 3.85
1559 1845 9.705290 AACGAGAAATTTTGGTTTAATATTGCT 57.295 25.926 0.00 0.00 30.81 3.91
1583 1875 8.197439 GCTATATATTTTGGGGATAATTGCCAC 58.803 37.037 0.00 0.00 34.36 5.01
1586 1878 1.757682 TTGGGGATAATTGCCACGAC 58.242 50.000 0.00 0.00 34.36 4.34
1633 1925 1.130749 CCGACCAACGTTGTTTGTGAA 59.869 47.619 25.63 0.00 40.78 3.18
1639 1931 4.142271 ACCAACGTTGTTTGTGAACATGAT 60.142 37.500 25.63 0.00 44.71 2.45
1647 1939 7.378194 CGTTGTTTGTGAACATGATTATTGTGA 59.622 33.333 0.00 0.00 44.71 3.58
1682 1978 8.783093 TCAATGATGTTAATATCGTTTGATCCC 58.217 33.333 14.88 0.00 34.84 3.85
1684 1980 7.728847 TGATGTTAATATCGTTTGATCCCTG 57.271 36.000 7.59 0.00 35.99 4.45
1696 1992 3.627395 TGATCCCTGTTCGTTATTGCT 57.373 42.857 0.00 0.00 0.00 3.91
1712 2008 1.075542 TGCTCAACGGTATTGCGAAG 58.924 50.000 0.00 0.00 0.00 3.79
1719 2015 3.366440 ACGGTATTGCGAAGTAGGATC 57.634 47.619 0.00 0.00 0.00 3.36
1732 2028 8.342634 TGCGAAGTAGGATCTTATTAAAATTGC 58.657 33.333 0.00 0.00 0.00 3.56
1762 2058 9.754382 GTTATTAATCAGACCAACGTAGGATTA 57.246 33.333 0.00 0.00 31.15 1.75
1851 2155 5.371115 TCTTTTATTCAGCTTTGAACCCG 57.629 39.130 0.00 0.00 0.00 5.28
1855 2159 1.593196 TTCAGCTTTGAACCCGTCAG 58.407 50.000 0.00 0.00 37.61 3.51
1872 2176 3.619979 CGTCAGTTATTTCTGGGCTCCTT 60.620 47.826 0.00 0.00 36.25 3.36
1885 2189 3.282885 GGGCTCCTTAACTCAATTGAGG 58.717 50.000 33.11 19.58 46.13 3.86
1886 2190 2.685388 GGCTCCTTAACTCAATTGAGGC 59.315 50.000 33.11 24.70 46.13 4.70
1996 2300 2.821437 CTCCAGTTCCCTTGTCCTCTA 58.179 52.381 0.00 0.00 0.00 2.43
2018 2322 6.942005 TCTAATGATGAAAACCTTGCTGAGAA 59.058 34.615 0.00 0.00 0.00 2.87
2073 2377 1.148157 AGCGCTCCAATCGATTGTCG 61.148 55.000 30.71 28.16 42.10 4.35
2076 2380 0.302890 GCTCCAATCGATTGTCGCTG 59.697 55.000 30.71 18.17 40.21 5.18
2092 2396 3.311871 GTCGCTGATGATCATGAAAAGCT 59.688 43.478 14.30 0.00 0.00 3.74
2118 2422 0.394565 CTCTTGGGATTAGGGGAGCG 59.605 60.000 0.00 0.00 0.00 5.03
2137 2441 1.540363 CGATCCCCGATTCCGAATGTT 60.540 52.381 0.00 0.00 41.76 2.71
2161 2465 2.111384 AGACTTATCTGGCATCGGTGT 58.889 47.619 0.00 0.00 32.29 4.16
2198 2503 1.474077 CCCACAAAAGTCTATGCCAGC 59.526 52.381 0.00 0.00 0.00 4.85
2203 2508 1.826385 AAAGTCTATGCCAGCACACC 58.174 50.000 0.00 0.00 0.00 4.16
2238 2544 4.959839 TGCTCACCACTAAGTATGATGGTA 59.040 41.667 0.00 0.00 43.71 3.25
2239 2545 5.423931 TGCTCACCACTAAGTATGATGGTAA 59.576 40.000 0.00 0.00 43.71 2.85
2246 2552 4.814771 ACTAAGTATGATGGTAAAAGCGGC 59.185 41.667 0.00 0.00 0.00 6.53
2268 2574 4.443725 GCGTGAGAGAACATATCATGACTG 59.556 45.833 0.00 1.06 32.78 3.51
2282 2588 5.300411 TCATGACTGTGAATGATATGGCT 57.700 39.130 0.00 0.00 0.00 4.75
2285 2591 4.620982 TGACTGTGAATGATATGGCTACG 58.379 43.478 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 3.119459 TCACACGAGATAGAAGCTGGTTC 60.119 47.826 11.46 11.46 35.08 3.62
116 119 2.952310 AGAAGGTTTGCCTGACAAGTTC 59.048 45.455 0.00 0.00 46.33 3.01
150 153 7.519032 AAAGGAATTGAAAGAATACGTTGGA 57.481 32.000 0.00 0.00 0.00 3.53
292 296 1.206610 GGTTAGAGGTCCCTTCCGAAC 59.793 57.143 0.00 0.00 0.00 3.95
303 307 5.716703 CCCATGAATCTTTTTGGTTAGAGGT 59.283 40.000 0.00 0.00 0.00 3.85
366 370 3.119173 TGAAGCGCCCTCCAAATAAAATG 60.119 43.478 2.29 0.00 0.00 2.32
396 401 0.842635 AGGATTGATCTGCAGGGGAC 59.157 55.000 15.13 3.79 0.00 4.46
437 442 1.244019 ACGCAGGGCAACTTGGATTC 61.244 55.000 0.00 0.00 45.38 2.52
683 689 4.569162 TGAGTTAATTTCCGCCGTTCATAG 59.431 41.667 0.00 0.00 0.00 2.23
886 1167 1.566298 ATGAAGGACTGCTCCCACCC 61.566 60.000 0.00 0.00 37.25 4.61
1331 1617 4.992319 TGCATAACTAAAGCACGTGTAGTT 59.008 37.500 24.64 24.64 40.34 2.24
1332 1618 4.562082 TGCATAACTAAAGCACGTGTAGT 58.438 39.130 18.38 13.93 32.55 2.73
1333 1619 5.290885 TGATGCATAACTAAAGCACGTGTAG 59.709 40.000 18.38 13.26 41.60 2.74
1334 1620 5.172205 TGATGCATAACTAAAGCACGTGTA 58.828 37.500 18.38 0.42 41.60 2.90
1335 1621 4.000325 TGATGCATAACTAAAGCACGTGT 59.000 39.130 18.38 0.00 41.60 4.49
1336 1622 4.093408 ACTGATGCATAACTAAAGCACGTG 59.907 41.667 12.28 12.28 41.60 4.49
1337 1623 4.093408 CACTGATGCATAACTAAAGCACGT 59.907 41.667 0.00 0.00 41.60 4.49
1338 1624 4.093408 ACACTGATGCATAACTAAAGCACG 59.907 41.667 0.00 0.00 41.60 5.34
1339 1625 5.551760 ACACTGATGCATAACTAAAGCAC 57.448 39.130 0.00 0.00 41.60 4.40
1340 1626 6.406370 ACTACACTGATGCATAACTAAAGCA 58.594 36.000 0.00 0.00 43.14 3.91
1341 1627 6.910536 ACTACACTGATGCATAACTAAAGC 57.089 37.500 0.00 0.00 0.00 3.51
1342 1628 9.760660 GAAAACTACACTGATGCATAACTAAAG 57.239 33.333 0.00 0.00 0.00 1.85
1343 1629 9.502091 AGAAAACTACACTGATGCATAACTAAA 57.498 29.630 0.00 0.00 0.00 1.85
1344 1630 9.151471 GAGAAAACTACACTGATGCATAACTAA 57.849 33.333 0.00 0.00 0.00 2.24
1345 1631 7.764443 GGAGAAAACTACACTGATGCATAACTA 59.236 37.037 0.00 0.00 0.00 2.24
1346 1632 6.595716 GGAGAAAACTACACTGATGCATAACT 59.404 38.462 0.00 0.00 0.00 2.24
1347 1633 6.595716 AGGAGAAAACTACACTGATGCATAAC 59.404 38.462 0.00 0.00 0.00 1.89
1348 1634 6.595326 CAGGAGAAAACTACACTGATGCATAA 59.405 38.462 0.00 0.00 0.00 1.90
1349 1635 6.108687 CAGGAGAAAACTACACTGATGCATA 58.891 40.000 0.00 0.00 0.00 3.14
1350 1636 4.940046 CAGGAGAAAACTACACTGATGCAT 59.060 41.667 0.00 0.00 0.00 3.96
1351 1637 4.318332 CAGGAGAAAACTACACTGATGCA 58.682 43.478 0.00 0.00 0.00 3.96
1352 1638 3.686726 CCAGGAGAAAACTACACTGATGC 59.313 47.826 0.00 0.00 0.00 3.91
1353 1639 4.256920 CCCAGGAGAAAACTACACTGATG 58.743 47.826 0.00 0.00 0.00 3.07
1354 1640 3.307762 GCCCAGGAGAAAACTACACTGAT 60.308 47.826 0.00 0.00 0.00 2.90
1355 1641 2.038557 GCCCAGGAGAAAACTACACTGA 59.961 50.000 0.00 0.00 0.00 3.41
1356 1642 2.039084 AGCCCAGGAGAAAACTACACTG 59.961 50.000 0.00 0.00 0.00 3.66
1357 1643 2.039084 CAGCCCAGGAGAAAACTACACT 59.961 50.000 0.00 0.00 0.00 3.55
1358 1644 2.427506 CAGCCCAGGAGAAAACTACAC 58.572 52.381 0.00 0.00 0.00 2.90
1359 1645 1.271379 GCAGCCCAGGAGAAAACTACA 60.271 52.381 0.00 0.00 0.00 2.74
1360 1646 1.271379 TGCAGCCCAGGAGAAAACTAC 60.271 52.381 0.00 0.00 0.00 2.73
1361 1647 1.064003 TGCAGCCCAGGAGAAAACTA 58.936 50.000 0.00 0.00 0.00 2.24
1362 1648 0.407139 ATGCAGCCCAGGAGAAAACT 59.593 50.000 0.00 0.00 0.00 2.66
1363 1649 0.529378 CATGCAGCCCAGGAGAAAAC 59.471 55.000 0.00 0.00 0.00 2.43
1364 1650 0.405198 TCATGCAGCCCAGGAGAAAA 59.595 50.000 0.00 0.00 29.62 2.29
1365 1651 2.077579 TCATGCAGCCCAGGAGAAA 58.922 52.632 0.00 0.00 29.62 2.52
1366 1652 3.824815 TCATGCAGCCCAGGAGAA 58.175 55.556 0.00 0.00 29.62 2.87
1369 1655 0.991146 TTAACTCATGCAGCCCAGGA 59.009 50.000 0.00 0.00 32.59 3.86
1370 1656 1.386533 CTTAACTCATGCAGCCCAGG 58.613 55.000 0.00 0.00 0.00 4.45
1371 1657 0.737219 GCTTAACTCATGCAGCCCAG 59.263 55.000 0.00 0.00 0.00 4.45
1372 1658 1.026182 CGCTTAACTCATGCAGCCCA 61.026 55.000 0.00 0.00 0.00 5.36
1373 1659 1.718757 CCGCTTAACTCATGCAGCCC 61.719 60.000 0.00 0.00 0.00 5.19
1374 1660 1.026718 ACCGCTTAACTCATGCAGCC 61.027 55.000 0.00 0.00 0.00 4.85
1375 1661 0.097674 CACCGCTTAACTCATGCAGC 59.902 55.000 0.00 0.00 0.00 5.25
1376 1662 1.725641 TCACCGCTTAACTCATGCAG 58.274 50.000 0.00 0.00 0.00 4.41
1377 1663 2.009051 CATCACCGCTTAACTCATGCA 58.991 47.619 0.00 0.00 0.00 3.96
1378 1664 1.268234 GCATCACCGCTTAACTCATGC 60.268 52.381 0.00 0.00 0.00 4.06
1379 1665 2.009051 TGCATCACCGCTTAACTCATG 58.991 47.619 0.00 0.00 0.00 3.07
1380 1666 2.009774 GTGCATCACCGCTTAACTCAT 58.990 47.619 0.00 0.00 0.00 2.90
1381 1667 1.438651 GTGCATCACCGCTTAACTCA 58.561 50.000 0.00 0.00 0.00 3.41
1382 1668 0.370273 CGTGCATCACCGCTTAACTC 59.630 55.000 0.00 0.00 0.00 3.01
1383 1669 0.320421 ACGTGCATCACCGCTTAACT 60.320 50.000 0.00 0.00 0.00 2.24
1384 1670 0.094730 GACGTGCATCACCGCTTAAC 59.905 55.000 0.00 0.00 0.00 2.01
1385 1671 1.017177 GGACGTGCATCACCGCTTAA 61.017 55.000 0.63 0.00 0.00 1.85
1386 1672 1.447140 GGACGTGCATCACCGCTTA 60.447 57.895 0.63 0.00 0.00 3.09
1387 1673 2.742372 GGACGTGCATCACCGCTT 60.742 61.111 0.63 0.00 0.00 4.68
1388 1674 1.955495 TATGGACGTGCATCACCGCT 61.955 55.000 26.60 3.88 0.00 5.52
1389 1675 0.880278 ATATGGACGTGCATCACCGC 60.880 55.000 26.60 0.00 0.00 5.68
1390 1676 2.432206 TATATGGACGTGCATCACCG 57.568 50.000 26.60 0.00 0.00 4.94
1391 1677 6.090898 GTCTAATTATATGGACGTGCATCACC 59.909 42.308 26.60 3.46 0.00 4.02
1392 1678 6.645003 TGTCTAATTATATGGACGTGCATCAC 59.355 38.462 26.60 10.98 0.00 3.06
1393 1679 6.754193 TGTCTAATTATATGGACGTGCATCA 58.246 36.000 26.60 12.74 0.00 3.07
1394 1680 7.652300 TTGTCTAATTATATGGACGTGCATC 57.348 36.000 26.60 9.09 0.00 3.91
1395 1681 7.119699 CCATTGTCTAATTATATGGACGTGCAT 59.880 37.037 26.09 26.09 38.39 3.96
1396 1682 6.426633 CCATTGTCTAATTATATGGACGTGCA 59.573 38.462 13.59 13.59 38.39 4.57
1397 1683 6.426937 ACCATTGTCTAATTATATGGACGTGC 59.573 38.462 16.62 0.00 38.39 5.34
1398 1684 7.962964 ACCATTGTCTAATTATATGGACGTG 57.037 36.000 16.62 9.86 38.39 4.49
1399 1685 7.041372 GCAACCATTGTCTAATTATATGGACGT 60.041 37.037 16.62 0.00 38.39 4.34
1400 1686 7.173218 AGCAACCATTGTCTAATTATATGGACG 59.827 37.037 16.62 10.79 38.39 4.79
1401 1687 8.396272 AGCAACCATTGTCTAATTATATGGAC 57.604 34.615 16.62 8.54 38.39 4.02
1402 1688 7.665559 GGAGCAACCATTGTCTAATTATATGGA 59.334 37.037 16.62 0.00 38.39 3.41
1403 1689 7.094205 GGGAGCAACCATTGTCTAATTATATGG 60.094 40.741 11.51 11.51 41.18 2.74
1404 1690 7.094205 GGGGAGCAACCATTGTCTAATTATATG 60.094 40.741 2.58 0.00 41.20 1.78
1405 1691 6.948309 GGGGAGCAACCATTGTCTAATTATAT 59.052 38.462 2.58 0.00 41.20 0.86
1406 1692 6.303839 GGGGAGCAACCATTGTCTAATTATA 58.696 40.000 2.58 0.00 41.20 0.98
1407 1693 5.140454 GGGGAGCAACCATTGTCTAATTAT 58.860 41.667 2.58 0.00 41.20 1.28
1408 1694 4.532834 GGGGAGCAACCATTGTCTAATTA 58.467 43.478 2.58 0.00 41.20 1.40
1409 1695 3.365472 GGGGAGCAACCATTGTCTAATT 58.635 45.455 2.58 0.00 41.20 1.40
1410 1696 2.683742 CGGGGAGCAACCATTGTCTAAT 60.684 50.000 2.58 0.00 41.20 1.73
1411 1697 1.339631 CGGGGAGCAACCATTGTCTAA 60.340 52.381 2.58 0.00 41.20 2.10
1412 1698 0.251916 CGGGGAGCAACCATTGTCTA 59.748 55.000 2.58 0.00 41.20 2.59
1413 1699 1.002134 CGGGGAGCAACCATTGTCT 60.002 57.895 2.58 0.00 41.20 3.41
1414 1700 3.590824 CGGGGAGCAACCATTGTC 58.409 61.111 2.58 0.00 41.20 3.18
1425 1711 2.225727 GCGGAATTAAATAAGCGGGGAG 59.774 50.000 0.00 0.00 0.00 4.30
1426 1712 2.158726 AGCGGAATTAAATAAGCGGGGA 60.159 45.455 0.00 0.00 0.00 4.81
1427 1713 2.031157 CAGCGGAATTAAATAAGCGGGG 60.031 50.000 0.00 0.00 0.00 5.73
1428 1714 2.875933 TCAGCGGAATTAAATAAGCGGG 59.124 45.455 0.00 0.00 0.00 6.13
1429 1715 4.749245 ATCAGCGGAATTAAATAAGCGG 57.251 40.909 0.00 0.00 0.00 5.52
1430 1716 8.728088 ATTTAATCAGCGGAATTAAATAAGCG 57.272 30.769 17.59 0.00 38.16 4.68
1433 1719 9.809096 TGCAATTTAATCAGCGGAATTAAATAA 57.191 25.926 18.59 10.51 38.66 1.40
1434 1720 9.243637 GTGCAATTTAATCAGCGGAATTAAATA 57.756 29.630 18.59 8.11 38.66 1.40
1435 1721 7.981225 AGTGCAATTTAATCAGCGGAATTAAAT 59.019 29.630 15.21 15.21 40.26 1.40
1436 1722 7.319646 AGTGCAATTTAATCAGCGGAATTAAA 58.680 30.769 12.93 12.93 35.20 1.52
1437 1723 6.862209 AGTGCAATTTAATCAGCGGAATTAA 58.138 32.000 0.00 0.00 0.00 1.40
1438 1724 6.318648 AGAGTGCAATTTAATCAGCGGAATTA 59.681 34.615 0.00 0.00 0.00 1.40
1439 1725 5.126061 AGAGTGCAATTTAATCAGCGGAATT 59.874 36.000 0.00 0.00 0.00 2.17
1440 1726 4.641989 AGAGTGCAATTTAATCAGCGGAAT 59.358 37.500 0.00 0.00 0.00 3.01
1441 1727 4.009675 AGAGTGCAATTTAATCAGCGGAA 58.990 39.130 0.00 0.00 0.00 4.30
1442 1728 3.609853 AGAGTGCAATTTAATCAGCGGA 58.390 40.909 0.00 0.00 0.00 5.54
1443 1729 4.100529 CAAGAGTGCAATTTAATCAGCGG 58.899 43.478 0.00 0.00 0.00 5.52
1444 1730 4.973396 TCAAGAGTGCAATTTAATCAGCG 58.027 39.130 0.00 0.00 0.00 5.18
1445 1731 9.525409 AATAATCAAGAGTGCAATTTAATCAGC 57.475 29.630 0.00 0.00 0.00 4.26
1469 1755 8.181573 CCACTGAAATGCACGTAGTAAAATAAT 58.818 33.333 0.00 0.00 41.61 1.28
1470 1756 7.173562 ACCACTGAAATGCACGTAGTAAAATAA 59.826 33.333 0.00 0.00 41.61 1.40
1471 1757 6.651643 ACCACTGAAATGCACGTAGTAAAATA 59.348 34.615 0.00 0.00 41.61 1.40
1472 1758 5.472137 ACCACTGAAATGCACGTAGTAAAAT 59.528 36.000 0.00 0.00 41.61 1.82
1473 1759 4.817464 ACCACTGAAATGCACGTAGTAAAA 59.183 37.500 0.00 0.00 41.61 1.52
1474 1760 4.382291 ACCACTGAAATGCACGTAGTAAA 58.618 39.130 0.00 0.00 41.61 2.01
1475 1761 3.991773 GACCACTGAAATGCACGTAGTAA 59.008 43.478 0.00 0.00 41.61 2.24
1476 1762 3.006003 TGACCACTGAAATGCACGTAGTA 59.994 43.478 0.00 0.00 41.61 1.82
1478 1764 2.412870 TGACCACTGAAATGCACGTAG 58.587 47.619 0.00 0.00 0.00 3.51
1479 1765 2.535012 TGACCACTGAAATGCACGTA 57.465 45.000 0.00 0.00 0.00 3.57
1480 1766 1.896220 ATGACCACTGAAATGCACGT 58.104 45.000 0.00 0.00 0.00 4.49
1481 1767 2.995466 AATGACCACTGAAATGCACG 57.005 45.000 0.00 0.00 0.00 5.34
1482 1768 5.565592 TCATAATGACCACTGAAATGCAC 57.434 39.130 0.00 0.00 0.00 4.57
1483 1769 4.096833 GCTCATAATGACCACTGAAATGCA 59.903 41.667 0.00 0.00 0.00 3.96
1484 1770 4.096833 TGCTCATAATGACCACTGAAATGC 59.903 41.667 0.00 0.00 0.00 3.56
1485 1771 5.823209 TGCTCATAATGACCACTGAAATG 57.177 39.130 0.00 0.00 0.00 2.32
1486 1772 8.523915 TTAATGCTCATAATGACCACTGAAAT 57.476 30.769 0.00 0.00 0.00 2.17
1487 1773 7.611467 ACTTAATGCTCATAATGACCACTGAAA 59.389 33.333 0.00 0.00 0.00 2.69
1488 1774 7.066163 CACTTAATGCTCATAATGACCACTGAA 59.934 37.037 0.00 0.00 0.00 3.02
1489 1775 6.539826 CACTTAATGCTCATAATGACCACTGA 59.460 38.462 0.00 0.00 0.00 3.41
1490 1776 6.317140 ACACTTAATGCTCATAATGACCACTG 59.683 38.462 0.00 0.00 0.00 3.66
1491 1777 6.418101 ACACTTAATGCTCATAATGACCACT 58.582 36.000 0.00 0.00 0.00 4.00
1492 1778 6.683974 ACACTTAATGCTCATAATGACCAC 57.316 37.500 0.00 0.00 0.00 4.16
1493 1779 6.883756 TCAACACTTAATGCTCATAATGACCA 59.116 34.615 0.00 0.00 0.00 4.02
1494 1780 7.320443 TCAACACTTAATGCTCATAATGACC 57.680 36.000 0.00 0.00 0.00 4.02
1495 1781 9.793252 AATTCAACACTTAATGCTCATAATGAC 57.207 29.630 0.00 0.00 0.00 3.06
1502 1788 8.461222 CCATTCTAATTCAACACTTAATGCTCA 58.539 33.333 0.00 0.00 0.00 4.26
1503 1789 8.677300 TCCATTCTAATTCAACACTTAATGCTC 58.323 33.333 0.00 0.00 0.00 4.26
1504 1790 8.579850 TCCATTCTAATTCAACACTTAATGCT 57.420 30.769 0.00 0.00 0.00 3.79
1505 1791 9.076596 GTTCCATTCTAATTCAACACTTAATGC 57.923 33.333 0.00 0.00 0.00 3.56
1506 1792 9.573133 GGTTCCATTCTAATTCAACACTTAATG 57.427 33.333 0.00 0.00 0.00 1.90
1507 1793 9.308000 TGGTTCCATTCTAATTCAACACTTAAT 57.692 29.630 0.00 0.00 0.00 1.40
1508 1794 8.698973 TGGTTCCATTCTAATTCAACACTTAA 57.301 30.769 0.00 0.00 0.00 1.85
1509 1795 8.573035 GTTGGTTCCATTCTAATTCAACACTTA 58.427 33.333 0.00 0.00 34.97 2.24
1510 1796 7.433680 GTTGGTTCCATTCTAATTCAACACTT 58.566 34.615 0.00 0.00 34.97 3.16
1511 1797 6.293955 CGTTGGTTCCATTCTAATTCAACACT 60.294 38.462 0.00 0.00 34.65 3.55
1517 1803 6.737254 TTCTCGTTGGTTCCATTCTAATTC 57.263 37.500 0.00 0.00 0.00 2.17
1523 1809 5.405269 CCAAAATTTCTCGTTGGTTCCATTC 59.595 40.000 0.00 0.00 37.59 2.67
1555 1841 8.757877 GGCAATTATCCCCAAAATATATAGCAA 58.242 33.333 0.00 0.00 0.00 3.91
1559 1845 8.110271 TCGTGGCAATTATCCCCAAAATATATA 58.890 33.333 0.00 0.00 0.00 0.86
1564 1850 3.132111 GTCGTGGCAATTATCCCCAAAAT 59.868 43.478 0.00 0.00 0.00 1.82
1566 1852 2.096248 GTCGTGGCAATTATCCCCAAA 58.904 47.619 0.00 0.00 0.00 3.28
1569 1861 2.922740 TAGTCGTGGCAATTATCCCC 57.077 50.000 0.00 0.00 0.00 4.81
1600 1892 2.682856 GTTGGTCGGTATGCAATCATGT 59.317 45.455 0.00 0.00 34.22 3.21
1608 1900 0.869730 AACAACGTTGGTCGGTATGC 59.130 50.000 30.34 0.00 44.69 3.14
1614 1906 2.170770 GTTCACAAACAACGTTGGTCG 58.829 47.619 30.34 18.27 39.20 4.79
1656 1948 8.783093 GGGATCAAACGATATTAACATCATTGA 58.217 33.333 11.96 11.96 36.07 2.57
1658 1950 8.786898 CAGGGATCAAACGATATTAACATCATT 58.213 33.333 0.00 0.00 0.00 2.57
1668 1960 4.402056 ACGAACAGGGATCAAACGATAT 57.598 40.909 0.00 0.00 0.00 1.63
1672 1964 4.647964 CAATAACGAACAGGGATCAAACG 58.352 43.478 0.00 0.00 0.00 3.60
1673 1965 4.156008 AGCAATAACGAACAGGGATCAAAC 59.844 41.667 0.00 0.00 0.00 2.93
1676 1970 3.055458 TGAGCAATAACGAACAGGGATCA 60.055 43.478 0.00 0.00 0.00 2.92
1678 1972 3.627395 TGAGCAATAACGAACAGGGAT 57.373 42.857 0.00 0.00 0.00 3.85
1696 1992 2.492881 TCCTACTTCGCAATACCGTTGA 59.507 45.455 0.00 0.00 0.00 3.18
1728 2024 7.491682 GTTGGTCTGATTAATAACATGGCAAT 58.508 34.615 0.00 0.00 0.00 3.56
1732 2028 6.677781 ACGTTGGTCTGATTAATAACATGG 57.322 37.500 0.00 0.00 0.00 3.66
1830 2134 5.121221 ACGGGTTCAAAGCTGAATAAAAG 57.879 39.130 7.71 0.00 43.39 2.27
1851 2155 3.636153 AGGAGCCCAGAAATAACTGAC 57.364 47.619 0.00 0.00 39.94 3.51
1855 2159 5.497474 TGAGTTAAGGAGCCCAGAAATAAC 58.503 41.667 0.00 0.00 0.00 1.89
1996 2300 6.409524 TTTCTCAGCAAGGTTTTCATCATT 57.590 33.333 0.00 0.00 0.00 2.57
2073 2377 4.895224 TGAGCTTTTCATGATCATCAGC 57.105 40.909 4.86 10.84 0.00 4.26
2076 2380 8.838365 AGAGTAATTGAGCTTTTCATGATCATC 58.162 33.333 4.86 0.00 35.27 2.92
2092 2396 5.293643 TCCCCTAATCCCAAGAGTAATTGA 58.706 41.667 0.00 0.00 31.55 2.57
2118 2422 2.143925 GAACATTCGGAATCGGGGATC 58.856 52.381 0.00 0.00 36.95 3.36
2137 2441 4.038042 CACCGATGCCAGATAAGTCTTAGA 59.962 45.833 0.00 0.00 30.42 2.10
2161 2465 4.742012 TGTGGGCCTTTAAATTGTTCCTA 58.258 39.130 4.53 0.00 0.00 2.94
2198 2503 3.688272 GAGCATTTTCATGATCGGTGTG 58.312 45.455 0.00 0.00 36.13 3.82
2238 2544 0.531974 TGTTCTCTCACGCCGCTTTT 60.532 50.000 0.00 0.00 0.00 2.27
2239 2545 0.320771 ATGTTCTCTCACGCCGCTTT 60.321 50.000 0.00 0.00 0.00 3.51
2246 2552 5.458126 CACAGTCATGATATGTTCTCTCACG 59.542 44.000 12.43 0.00 0.00 4.35
2268 2574 9.599322 CTTTAATTTCGTAGCCATATCATTCAC 57.401 33.333 0.00 0.00 0.00 3.18
2282 2588 4.590918 TGTCCATGCCCTTTAATTTCGTA 58.409 39.130 0.00 0.00 0.00 3.43


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

AutoCloner maintained by Alex Coulton.