Multiple sequence alignment - TraesCS1A01G205900

Loading Multiple Alignment...

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 TraesCS1A01G205900 chr1A 100.000 2495 0 0 1 2495 368363319 368365813 0 4608
1 TraesCS1A01G205900 chr1D 94.484 1541 54 11 1 1538 295185847 295187359 0 2346
2 TraesCS1A01G205900 chr1B 92.427 1611 61 20 1 1601 396595974 396597533 0 2242
3 TraesCS1A01G205900 chr1B 92.488 852 59 5 1649 2495 188402529 188403380 0 1214
4 TraesCS1A01G205900 chr1B 92.654 844 57 5 1657 2495 641195657 641194814 0 1210
5 TraesCS1A01G205900 chr3B 94.118 850 46 4 1650 2495 323374103 323374952 0 1290
6 TraesCS1A01G205900 chr3B 92.467 823 56 6 1677 2494 857131 857952 0 1171
7 TraesCS1A01G205900 chrUn 93.904 853 46 6 1648 2495 67246245 67245394 0 1282
8 TraesCS1A01G205900 chr7D 94.632 801 38 3 1700 2495 102951219 102950419 0 1236
9 TraesCS1A01G205900 chr2A 93.513 817 47 4 1684 2495 187320185 187321000 0 1210
10 TraesCS1A01G205900 chr5B 93.015 816 46 6 1685 2495 40462009 40462818 0 1181
11 TraesCS1A01G205900 chr7B 93.190 793 44 5 1706 2495 664111415 664112200 0 1157


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 TraesCS1A01G205900 chr1A 368363319 368365813 2494 False 4608 4608 100.000 1 2495 1 chr1A.!!$F1 2494
1 TraesCS1A01G205900 chr1D 295185847 295187359 1512 False 2346 2346 94.484 1 1538 1 chr1D.!!$F1 1537
2 TraesCS1A01G205900 chr1B 396595974 396597533 1559 False 2242 2242 92.427 1 1601 1 chr1B.!!$F2 1600
3 TraesCS1A01G205900 chr1B 188402529 188403380 851 False 1214 1214 92.488 1649 2495 1 chr1B.!!$F1 846
4 TraesCS1A01G205900 chr1B 641194814 641195657 843 True 1210 1210 92.654 1657 2495 1 chr1B.!!$R1 838
5 TraesCS1A01G205900 chr3B 323374103 323374952 849 False 1290 1290 94.118 1650 2495 1 chr3B.!!$F2 845
6 TraesCS1A01G205900 chr3B 857131 857952 821 False 1171 1171 92.467 1677 2494 1 chr3B.!!$F1 817
7 TraesCS1A01G205900 chrUn 67245394 67246245 851 True 1282 1282 93.904 1648 2495 1 chrUn.!!$R1 847
8 TraesCS1A01G205900 chr7D 102950419 102951219 800 True 1236 1236 94.632 1700 2495 1 chr7D.!!$R1 795
9 TraesCS1A01G205900 chr2A 187320185 187321000 815 False 1210 1210 93.513 1684 2495 1 chr2A.!!$F1 811
10 TraesCS1A01G205900 chr5B 40462009 40462818 809 False 1181 1181 93.015 1685 2495 1 chr5B.!!$F1 810
11 TraesCS1A01G205900 chr7B 664111415 664112200 785 False 1157 1157 93.190 1706 2495 1 chr7B.!!$F1 789

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
277 282 0.106918 TTCCCAGACAACACCACCAC 60.107 55.0 0.0 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2168 2190 0.036388 TCCGACAGGATCCAACTTGC 60.036 55.0 15.82 0.0 42.75 4.01 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
211 212 1.745087 GCCATGACCATTCACGACATT 59.255 47.619 0.00 0.00 33.38 2.71
276 281 0.182537 CTTCCCAGACAACACCACCA 59.817 55.000 0.00 0.00 0.00 4.17
277 282 0.106918 TTCCCAGACAACACCACCAC 60.107 55.000 0.00 0.00 0.00 4.16
278 283 1.225983 CCCAGACAACACCACCACA 59.774 57.895 0.00 0.00 0.00 4.17
321 326 4.948341 ATTTTGTTTTACCACCTGACCC 57.052 40.909 0.00 0.00 0.00 4.46
322 327 3.673543 TTTGTTTTACCACCTGACCCT 57.326 42.857 0.00 0.00 0.00 4.34
323 328 4.792513 TTTGTTTTACCACCTGACCCTA 57.207 40.909 0.00 0.00 0.00 3.53
324 329 3.775261 TGTTTTACCACCTGACCCTAC 57.225 47.619 0.00 0.00 0.00 3.18
325 330 3.047115 TGTTTTACCACCTGACCCTACA 58.953 45.455 0.00 0.00 0.00 2.74
326 331 3.071892 TGTTTTACCACCTGACCCTACAG 59.928 47.826 0.00 0.00 37.61 2.74
365 371 0.317160 CTACAACCACCTCAGCACGA 59.683 55.000 0.00 0.00 0.00 4.35
385 391 6.183360 GCACGATGGATTATCAACATATGAGG 60.183 42.308 10.38 0.70 42.53 3.86
439 445 3.262405 AGTCCTATCGTACAAAGCCCAAA 59.738 43.478 0.00 0.00 0.00 3.28
527 533 1.850640 GGCAACATACGCCGATACG 59.149 57.895 0.00 0.00 40.35 3.06
528 534 1.200839 GCAACATACGCCGATACGC 59.799 57.895 0.00 0.00 36.19 4.42
610 617 3.005791 GCAAATTAGGTGCAGGTGAAGTT 59.994 43.478 0.00 0.00 41.80 2.66
776 783 3.686978 CGATGTTGGATTGGGATTGGGTA 60.687 47.826 0.00 0.00 0.00 3.69
849 856 4.163427 CAGATCCAGGCTATAAGAGGGAA 58.837 47.826 0.00 0.00 0.00 3.97
858 865 4.299978 GCTATAAGAGGGAACACGTGATC 58.700 47.826 25.01 20.50 0.00 2.92
859 866 4.202121 GCTATAAGAGGGAACACGTGATCA 60.202 45.833 25.01 2.91 0.00 2.92
860 867 2.457366 AAGAGGGAACACGTGATCAC 57.543 50.000 25.01 21.98 0.00 3.06
1111 1125 2.439701 CGTACCTCTCCTGCCCGA 60.440 66.667 0.00 0.00 0.00 5.14
1362 1376 2.980541 CCTGCATGGGGAAATGTGT 58.019 52.632 0.00 0.00 0.00 3.72
1395 1409 3.637273 GAGCCCACCAAGGACGGT 61.637 66.667 0.00 0.00 41.22 4.83
1507 1521 3.903783 GCTGACCGCCATGCTTAA 58.096 55.556 0.00 0.00 0.00 1.85
1508 1522 1.723870 GCTGACCGCCATGCTTAAG 59.276 57.895 0.00 0.00 0.00 1.85
1509 1523 0.744414 GCTGACCGCCATGCTTAAGA 60.744 55.000 6.67 0.00 0.00 2.10
1510 1524 1.959042 CTGACCGCCATGCTTAAGAT 58.041 50.000 6.67 0.00 0.00 2.40
1512 1526 0.947244 GACCGCCATGCTTAAGATGG 59.053 55.000 20.79 20.79 43.01 3.51
1513 1527 0.546122 ACCGCCATGCTTAAGATGGA 59.454 50.000 25.67 3.21 42.81 3.41
1514 1528 1.233019 CCGCCATGCTTAAGATGGAG 58.767 55.000 25.67 23.03 42.81 3.86
1515 1529 1.475751 CCGCCATGCTTAAGATGGAGT 60.476 52.381 25.67 0.00 42.81 3.85
1538 1552 2.661504 TGTGTTCGATGAAACGCTTG 57.338 45.000 0.75 0.00 39.74 4.01
1560 1574 1.179174 TGCGTCCTGCTCTGTAGTGT 61.179 55.000 0.00 0.00 46.63 3.55
1571 1585 2.726760 CTCTGTAGTGTTGCGAACTGTC 59.273 50.000 0.00 0.00 0.00 3.51
1575 1589 2.309528 AGTGTTGCGAACTGTCTCAA 57.690 45.000 0.00 0.00 0.00 3.02
1601 1615 8.171164 TCGATGATCTCTAACTGTGATGTTAT 57.829 34.615 0.00 0.00 32.76 1.89
1602 1616 8.633561 TCGATGATCTCTAACTGTGATGTTATT 58.366 33.333 0.00 0.00 32.76 1.40
1603 1617 9.899226 CGATGATCTCTAACTGTGATGTTATTA 57.101 33.333 0.00 0.00 32.76 0.98
1621 1635 9.609346 ATGTTATTACAGTGTAGTAATTGACCC 57.391 33.333 18.00 7.68 40.75 4.46
1622 1636 8.595421 TGTTATTACAGTGTAGTAATTGACCCA 58.405 33.333 18.00 9.67 40.75 4.51
1623 1637 9.439500 GTTATTACAGTGTAGTAATTGACCCAA 57.561 33.333 18.00 0.00 40.75 4.12
1625 1639 7.972832 TTACAGTGTAGTAATTGACCCAAAG 57.027 36.000 2.68 0.00 0.00 2.77
1626 1640 6.182507 ACAGTGTAGTAATTGACCCAAAGA 57.817 37.500 0.00 0.00 0.00 2.52
1627 1641 5.995897 ACAGTGTAGTAATTGACCCAAAGAC 59.004 40.000 0.00 0.00 0.00 3.01
1628 1642 6.183361 ACAGTGTAGTAATTGACCCAAAGACT 60.183 38.462 0.00 0.00 0.00 3.24
1629 1643 6.710744 CAGTGTAGTAATTGACCCAAAGACTT 59.289 38.462 0.00 0.00 0.00 3.01
1630 1644 6.935208 AGTGTAGTAATTGACCCAAAGACTTC 59.065 38.462 0.00 0.00 0.00 3.01
1631 1645 6.148976 GTGTAGTAATTGACCCAAAGACTTCC 59.851 42.308 0.00 0.00 0.00 3.46
1632 1646 4.324267 AGTAATTGACCCAAAGACTTCCG 58.676 43.478 0.00 0.00 0.00 4.30
1633 1647 2.200373 ATTGACCCAAAGACTTCCGG 57.800 50.000 0.00 0.00 0.00 5.14
1634 1648 1.133363 TTGACCCAAAGACTTCCGGA 58.867 50.000 0.00 0.00 0.00 5.14
1635 1649 0.685097 TGACCCAAAGACTTCCGGAG 59.315 55.000 3.34 1.34 0.00 4.63
1636 1650 0.974383 GACCCAAAGACTTCCGGAGA 59.026 55.000 3.34 0.00 0.00 3.71
1637 1651 0.977395 ACCCAAAGACTTCCGGAGAG 59.023 55.000 3.34 8.16 0.00 3.20
1638 1652 0.250513 CCCAAAGACTTCCGGAGAGG 59.749 60.000 3.34 1.64 42.97 3.69
1639 1653 0.391793 CCAAAGACTTCCGGAGAGGC 60.392 60.000 3.34 7.86 40.77 4.70
1640 1654 0.610687 CAAAGACTTCCGGAGAGGCT 59.389 55.000 14.20 14.20 40.77 4.58
1641 1655 1.002544 CAAAGACTTCCGGAGAGGCTT 59.997 52.381 21.94 21.94 44.24 4.35
1642 1656 0.610687 AAGACTTCCGGAGAGGCTTG 59.389 55.000 25.00 7.36 40.89 4.01
1643 1657 0.543174 AGACTTCCGGAGAGGCTTGT 60.543 55.000 14.20 3.04 40.77 3.16
1644 1658 0.321996 GACTTCCGGAGAGGCTTGTT 59.678 55.000 3.34 0.00 40.77 2.83
1645 1659 0.765510 ACTTCCGGAGAGGCTTGTTT 59.234 50.000 3.34 0.00 40.77 2.83
1646 1660 1.143073 ACTTCCGGAGAGGCTTGTTTT 59.857 47.619 3.34 0.00 40.77 2.43
1736 1753 2.204151 CACCCCCTTCCTCCCACT 60.204 66.667 0.00 0.00 0.00 4.00
1746 1763 2.361610 CTCCCACTGCCGCCAAAT 60.362 61.111 0.00 0.00 0.00 2.32
1756 1773 2.638354 CCGCCAAATGCTTCTGCCA 61.638 57.895 0.00 0.00 38.71 4.92
1958 1975 2.586792 GAATCAGCGGCTCCCTGT 59.413 61.111 0.00 0.00 0.00 4.00
2011 2032 1.338200 GGTTTCGGCTCAGATGTGTCT 60.338 52.381 0.00 0.00 34.14 3.41
2183 2205 1.384191 GGGGCAAGTTGGATCCTGT 59.616 57.895 14.23 0.00 0.00 4.00
2261 2283 0.179020 CCTTCTCTGTGGTGGTGCAA 60.179 55.000 0.00 0.00 0.00 4.08
2262 2284 1.546323 CCTTCTCTGTGGTGGTGCAAT 60.546 52.381 0.00 0.00 0.00 3.56
2305 2327 3.035363 TCGATGCTTATTGGAGGTGGTA 58.965 45.455 0.00 0.00 0.00 3.25
2364 2387 3.598715 TCGACGACGCTTGTGGGT 61.599 61.111 1.48 0.00 42.25 4.51
2445 2469 0.476771 ACCCATGTTCCAAGTCCGTT 59.523 50.000 0.00 0.00 0.00 4.44
2462 2487 1.071642 TTTGGAACGGACGATGGCA 59.928 52.632 0.00 0.00 0.00 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
172 173 1.002773 GCGGAAAGTAGGGGAAGTTCA 59.997 52.381 5.01 0.00 0.00 3.18
276 281 0.604243 TGTTAGGGCGCGAATTGTGT 60.604 50.000 12.10 0.00 0.00 3.72
277 282 0.519519 TTGTTAGGGCGCGAATTGTG 59.480 50.000 12.10 0.00 0.00 3.33
278 283 1.459450 ATTGTTAGGGCGCGAATTGT 58.541 45.000 12.10 0.00 0.00 2.71
327 332 1.090052 GGACGGTTCATGGCTGTAGC 61.090 60.000 0.00 0.00 41.14 3.58
365 371 5.254737 AGGCCCTCATATGTTGATAATCCAT 59.745 40.000 0.00 0.00 32.72 3.41
385 391 1.966451 CGGTGGAACTGTTGAGGCC 60.966 63.158 0.00 0.00 38.78 5.19
439 445 1.202818 AGGGTTTCTTTCGCTGAAGCT 60.203 47.619 0.10 0.00 39.32 3.74
447 453 0.743345 CGCCCCTAGGGTTTCTTTCG 60.743 60.000 26.66 12.99 46.51 3.46
521 527 5.675877 CCTTTAGCTGTATATACGCGTATCG 59.324 44.000 33.31 18.26 45.38 2.92
522 528 5.454877 GCCTTTAGCTGTATATACGCGTATC 59.545 44.000 33.31 20.26 38.99 2.24
523 529 5.106038 TGCCTTTAGCTGTATATACGCGTAT 60.106 40.000 32.13 32.13 44.23 3.06
524 530 4.216042 TGCCTTTAGCTGTATATACGCGTA 59.784 41.667 22.94 22.94 44.23 4.42
525 531 3.005050 TGCCTTTAGCTGTATATACGCGT 59.995 43.478 19.17 19.17 44.23 6.01
526 532 3.364023 GTGCCTTTAGCTGTATATACGCG 59.636 47.826 3.53 3.53 44.23 6.01
527 533 3.364023 CGTGCCTTTAGCTGTATATACGC 59.636 47.826 16.78 16.78 44.23 4.42
528 534 4.790878 TCGTGCCTTTAGCTGTATATACG 58.209 43.478 8.33 1.04 44.23 3.06
529 535 7.599245 AGATTTCGTGCCTTTAGCTGTATATAC 59.401 37.037 5.89 5.89 44.23 1.47
530 536 7.667557 AGATTTCGTGCCTTTAGCTGTATATA 58.332 34.615 0.00 0.00 44.23 0.86
531 537 6.525629 AGATTTCGTGCCTTTAGCTGTATAT 58.474 36.000 0.00 0.00 44.23 0.86
565 571 1.202371 CGTGTAGGCAGAAATCGGCTA 60.202 52.381 5.56 5.29 40.25 3.93
610 617 0.037975 GGTAAGCCTCGGTTTCGTCA 60.038 55.000 0.00 0.00 37.69 4.35
822 829 0.979665 TATAGCCTGGATCTGCCTGC 59.020 55.000 0.00 0.00 37.63 4.85
823 830 2.902486 TCTTATAGCCTGGATCTGCCTG 59.098 50.000 0.00 0.00 37.63 4.85
824 831 3.172339 CTCTTATAGCCTGGATCTGCCT 58.828 50.000 0.00 0.00 37.63 4.75
825 832 2.235898 CCTCTTATAGCCTGGATCTGCC 59.764 54.545 0.00 0.00 37.10 4.85
849 856 1.898154 GGCTAGGGTGATCACGTGT 59.102 57.895 19.33 8.86 0.00 4.49
858 865 1.797211 GAGATCGGACGGCTAGGGTG 61.797 65.000 0.00 0.00 0.00 4.61
859 866 1.528776 GAGATCGGACGGCTAGGGT 60.529 63.158 0.00 0.00 0.00 4.34
860 867 2.269529 GGAGATCGGACGGCTAGGG 61.270 68.421 0.00 0.00 0.00 3.53
955 963 2.813226 TTCGATTCCGGCCCACAAGG 62.813 60.000 0.00 0.00 36.24 3.61
1095 1109 2.424733 GGTCGGGCAGGAGAGGTAC 61.425 68.421 0.00 0.00 0.00 3.34
1350 1364 1.303236 CAGGCGACACATTTCCCCA 60.303 57.895 0.00 0.00 0.00 4.96
1507 1521 4.402474 TCATCGAACACATACACTCCATCT 59.598 41.667 0.00 0.00 0.00 2.90
1508 1522 4.682787 TCATCGAACACATACACTCCATC 58.317 43.478 0.00 0.00 0.00 3.51
1509 1523 4.736126 TCATCGAACACATACACTCCAT 57.264 40.909 0.00 0.00 0.00 3.41
1510 1524 4.529109 TTCATCGAACACATACACTCCA 57.471 40.909 0.00 0.00 0.00 3.86
1512 1526 4.721226 GCGTTTCATCGAACACATACACTC 60.721 45.833 0.00 0.00 0.00 3.51
1513 1527 3.122948 GCGTTTCATCGAACACATACACT 59.877 43.478 0.00 0.00 0.00 3.55
1514 1528 3.122948 AGCGTTTCATCGAACACATACAC 59.877 43.478 0.00 0.00 0.00 2.90
1515 1529 3.322369 AGCGTTTCATCGAACACATACA 58.678 40.909 0.00 0.00 0.00 2.29
1538 1552 1.405821 ACTACAGAGCAGGACGCATAC 59.594 52.381 0.00 0.00 46.13 2.39
1560 1574 2.432206 TCGATTGAGACAGTTCGCAA 57.568 45.000 0.00 0.00 44.45 4.85
1571 1585 6.733145 TCACAGTTAGAGATCATCGATTGAG 58.267 40.000 0.00 0.00 37.89 3.02
1575 1589 6.647334 ACATCACAGTTAGAGATCATCGAT 57.353 37.500 0.00 0.00 0.00 3.59
1601 1615 7.658575 GTCTTTGGGTCAATTACTACACTGTAA 59.341 37.037 0.00 0.00 36.92 2.41
1602 1616 7.015877 AGTCTTTGGGTCAATTACTACACTGTA 59.984 37.037 0.00 0.00 0.00 2.74
1603 1617 5.995897 GTCTTTGGGTCAATTACTACACTGT 59.004 40.000 0.00 0.00 0.00 3.55
1604 1618 6.231211 AGTCTTTGGGTCAATTACTACACTG 58.769 40.000 0.00 0.00 0.00 3.66
1605 1619 6.435292 AGTCTTTGGGTCAATTACTACACT 57.565 37.500 0.00 0.00 0.00 3.55
1606 1620 6.148976 GGAAGTCTTTGGGTCAATTACTACAC 59.851 42.308 0.00 0.00 0.00 2.90
1607 1621 6.235664 GGAAGTCTTTGGGTCAATTACTACA 58.764 40.000 0.00 0.00 0.00 2.74
1608 1622 5.350640 CGGAAGTCTTTGGGTCAATTACTAC 59.649 44.000 0.00 0.00 0.00 2.73
1609 1623 5.484715 CGGAAGTCTTTGGGTCAATTACTA 58.515 41.667 0.00 0.00 0.00 1.82
1610 1624 4.324267 CGGAAGTCTTTGGGTCAATTACT 58.676 43.478 0.00 0.00 0.00 2.24
1611 1625 3.439129 CCGGAAGTCTTTGGGTCAATTAC 59.561 47.826 0.00 0.00 0.00 1.89
1612 1626 3.328343 TCCGGAAGTCTTTGGGTCAATTA 59.672 43.478 0.00 0.00 0.00 1.40
1613 1627 2.107552 TCCGGAAGTCTTTGGGTCAATT 59.892 45.455 0.00 0.00 0.00 2.32
1614 1628 1.702957 TCCGGAAGTCTTTGGGTCAAT 59.297 47.619 0.00 0.00 0.00 2.57
1615 1629 1.071699 CTCCGGAAGTCTTTGGGTCAA 59.928 52.381 5.23 0.00 0.00 3.18
1616 1630 0.685097 CTCCGGAAGTCTTTGGGTCA 59.315 55.000 5.23 0.00 0.00 4.02
1617 1631 0.974383 TCTCCGGAAGTCTTTGGGTC 59.026 55.000 5.23 0.00 0.00 4.46
1618 1632 0.977395 CTCTCCGGAAGTCTTTGGGT 59.023 55.000 5.23 0.00 0.00 4.51
1619 1633 0.250513 CCTCTCCGGAAGTCTTTGGG 59.749 60.000 5.23 0.00 33.16 4.12
1620 1634 0.391793 GCCTCTCCGGAAGTCTTTGG 60.392 60.000 5.23 1.22 33.16 3.28
1621 1635 0.610687 AGCCTCTCCGGAAGTCTTTG 59.389 55.000 5.23 0.00 33.16 2.77
1622 1636 1.002544 CAAGCCTCTCCGGAAGTCTTT 59.997 52.381 5.23 0.00 33.16 2.52
1623 1637 0.610687 CAAGCCTCTCCGGAAGTCTT 59.389 55.000 5.23 4.89 33.16 3.01
1624 1638 0.543174 ACAAGCCTCTCCGGAAGTCT 60.543 55.000 5.23 0.00 33.16 3.24
1625 1639 0.321996 AACAAGCCTCTCCGGAAGTC 59.678 55.000 5.23 0.00 33.16 3.01
1626 1640 0.765510 AAACAAGCCTCTCCGGAAGT 59.234 50.000 5.23 0.00 33.16 3.01
1627 1641 1.537202 CAAAACAAGCCTCTCCGGAAG 59.463 52.381 5.23 6.13 33.16 3.46
1628 1642 1.604604 CAAAACAAGCCTCTCCGGAA 58.395 50.000 5.23 0.00 33.16 4.30
1629 1643 0.889186 GCAAAACAAGCCTCTCCGGA 60.889 55.000 2.93 2.93 33.16 5.14
1630 1644 1.581447 GCAAAACAAGCCTCTCCGG 59.419 57.895 0.00 0.00 0.00 5.14
1714 1728 3.732849 GAGGAAGGGGGTGGCTGG 61.733 72.222 0.00 0.00 0.00 4.85
1715 1729 3.732849 GGAGGAAGGGGGTGGCTG 61.733 72.222 0.00 0.00 0.00 4.85
1746 1763 2.359107 CTTCGCCTGGCAGAAGCA 60.359 61.111 27.46 10.20 44.61 3.91
1950 1967 3.056328 GGTCGCCAAACAGGGAGC 61.056 66.667 0.00 0.00 38.09 4.70
2168 2190 0.036388 TCCGACAGGATCCAACTTGC 60.036 55.000 15.82 0.00 42.75 4.01
2261 2283 0.312416 GATCTCGTAGCACCGCTCAT 59.688 55.000 0.00 0.00 40.44 2.90
2262 2284 1.029947 TGATCTCGTAGCACCGCTCA 61.030 55.000 0.00 0.00 40.44 4.26
2305 2327 0.174162 GCTTTCGCCCAAATGAGCAT 59.826 50.000 0.00 0.00 0.00 3.79
2347 2370 3.598715 ACCCACAAGCGTCGTCGA 61.599 61.111 6.17 0.00 39.71 4.20
2357 2380 2.281900 GGTTAGCGGCACCCACAA 60.282 61.111 1.45 0.00 0.00 3.33
2364 2387 1.899437 CTCCAAGGAGGTTAGCGGCA 61.899 60.000 8.28 0.00 38.51 5.69
2445 2469 1.375396 CTGCCATCGTCCGTTCCAA 60.375 57.895 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.