Multiple sequence alignment - TraesCS1A01G210000

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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 TraesCS1A01G210000 chr1A 100.000 2335 0 0 538 2872 372468462 372466128 0.000000e+00 4313
1 TraesCS1A01G210000 chr1A 100.000 281 0 0 1 281 372468999 372468719 1.180000e-143 520
2 TraesCS1A01G210000 chr1A 78.035 173 32 5 1260 1428 372241372 372241202 1.410000e-18 104
3 TraesCS1A01G210000 chr6A 90.969 1207 101 6 1672 2872 224609803 224608599 0.000000e+00 1618
4 TraesCS1A01G210000 chr1D 94.823 1043 32 12 618 1648 298620581 298619549 0.000000e+00 1607
5 TraesCS1A01G210000 chr1D 88.968 281 30 1 1 281 298621714 298621435 2.120000e-91 346
6 TraesCS1A01G210000 chr1D 80.357 168 28 4 1260 1423 298574058 298573892 3.890000e-24 122
7 TraesCS1A01G210000 chr2D 89.254 1247 124 6 1632 2872 373748693 373747451 0.000000e+00 1552
8 TraesCS1A01G210000 chr6B 89.967 1206 113 6 1672 2870 127393665 127392461 0.000000e+00 1550
9 TraesCS1A01G210000 chr5D 89.744 1209 114 10 1670 2872 417609085 417610289 0.000000e+00 1537
10 TraesCS1A01G210000 chr5D 88.613 1247 127 14 1633 2872 542720559 542721797 0.000000e+00 1502
11 TraesCS1A01G210000 chr4B 89.005 1246 127 7 1632 2872 75535330 75536570 0.000000e+00 1533
12 TraesCS1A01G210000 chr7B 88.613 1247 131 8 1633 2872 581380043 581381285 0.000000e+00 1506
13 TraesCS1A01G210000 chr1B 93.682 1013 44 10 629 1636 402051540 402050543 0.000000e+00 1498
14 TraesCS1A01G210000 chr1B 89.035 1213 122 8 1665 2872 515051520 515052726 0.000000e+00 1493
15 TraesCS1A01G210000 chr7D 88.530 1238 127 9 1641 2872 212213047 212211819 0.000000e+00 1485


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 TraesCS1A01G210000 chr1A 372466128 372468999 2871 True 2416.5 4313 100.0000 1 2872 2 chr1A.!!$R2 2871
1 TraesCS1A01G210000 chr6A 224608599 224609803 1204 True 1618.0 1618 90.9690 1672 2872 1 chr6A.!!$R1 1200
2 TraesCS1A01G210000 chr1D 298619549 298621714 2165 True 976.5 1607 91.8955 1 1648 2 chr1D.!!$R2 1647
3 TraesCS1A01G210000 chr2D 373747451 373748693 1242 True 1552.0 1552 89.2540 1632 2872 1 chr2D.!!$R1 1240
4 TraesCS1A01G210000 chr6B 127392461 127393665 1204 True 1550.0 1550 89.9670 1672 2870 1 chr6B.!!$R1 1198
5 TraesCS1A01G210000 chr5D 417609085 417610289 1204 False 1537.0 1537 89.7440 1670 2872 1 chr5D.!!$F1 1202
6 TraesCS1A01G210000 chr5D 542720559 542721797 1238 False 1502.0 1502 88.6130 1633 2872 1 chr5D.!!$F2 1239
7 TraesCS1A01G210000 chr4B 75535330 75536570 1240 False 1533.0 1533 89.0050 1632 2872 1 chr4B.!!$F1 1240
8 TraesCS1A01G210000 chr7B 581380043 581381285 1242 False 1506.0 1506 88.6130 1633 2872 1 chr7B.!!$F1 1239
9 TraesCS1A01G210000 chr1B 402050543 402051540 997 True 1498.0 1498 93.6820 629 1636 1 chr1B.!!$R1 1007
10 TraesCS1A01G210000 chr1B 515051520 515052726 1206 False 1493.0 1493 89.0350 1665 2872 1 chr1B.!!$F1 1207
11 TraesCS1A01G210000 chr7D 212211819 212213047 1228 True 1485.0 1485 88.5300 1641 2872 1 chr7D.!!$R1 1231

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
610 611 0.035881 CAAAGGTGAGGAGAGCAGCA 59.964 55.0 0.0 0.0 36.28 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2598 3302 0.893727 GGCAAGGACAATTCCACGGT 60.894 55.0 0.0 0.0 45.72 4.83 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
18 19 3.976701 CTCCAGCCGCCCGTTCATT 62.977 63.158 0.00 0.00 0.00 2.57
30 31 0.320421 CGTTCATTGACCCTCCACGT 60.320 55.000 0.00 0.00 0.00 4.49
78 79 5.163437 ACCACAACGGATCTTAACTAGGATC 60.163 44.000 0.00 1.23 37.89 3.36
79 80 5.163447 CCACAACGGATCTTAACTAGGATCA 60.163 44.000 10.09 0.00 39.68 2.92
92 93 4.451150 GATCAGACACGGCCGCCA 62.451 66.667 28.58 2.44 0.00 5.69
105 106 2.282110 CGCCACCACCAACCATCA 60.282 61.111 0.00 0.00 0.00 3.07
134 135 1.686325 ATGTTGGAGACCGATCCCCG 61.686 60.000 0.00 0.00 38.72 5.73
135 136 2.038329 TTGGAGACCGATCCCCGT 59.962 61.111 0.00 0.00 38.72 5.28
191 192 0.825010 CTGGCCACAAAACTCTGCCT 60.825 55.000 0.00 0.00 42.62 4.75
564 565 3.525199 AGCTTGATCTTGGTATTCACCCT 59.475 43.478 0.00 0.00 45.11 4.34
565 566 3.879892 GCTTGATCTTGGTATTCACCCTC 59.120 47.826 0.00 0.00 45.11 4.30
567 568 2.434336 TGATCTTGGTATTCACCCTCGG 59.566 50.000 0.00 0.00 45.11 4.63
568 569 0.539986 TCTTGGTATTCACCCTCGGC 59.460 55.000 0.00 0.00 45.11 5.54
569 570 0.251916 CTTGGTATTCACCCTCGGCA 59.748 55.000 0.00 0.00 45.11 5.69
574 575 2.572095 TATTCACCCTCGGCAGCACG 62.572 60.000 0.00 0.00 0.00 5.34
589 590 4.684134 ACGCAGCCCTTGGGCATT 62.684 61.111 29.79 9.93 43.14 3.56
590 591 3.830192 CGCAGCCCTTGGGCATTC 61.830 66.667 29.79 17.32 37.35 2.67
591 592 3.464494 GCAGCCCTTGGGCATTCC 61.464 66.667 29.79 12.56 37.35 3.01
592 593 2.037687 CAGCCCTTGGGCATTCCA 59.962 61.111 29.79 0.00 45.43 3.53
600 601 3.362040 TGGGCATTCCAAAGGTGAG 57.638 52.632 0.00 0.00 43.84 3.51
601 602 0.251742 TGGGCATTCCAAAGGTGAGG 60.252 55.000 0.00 0.00 43.84 3.86
602 603 0.039618 GGGCATTCCAAAGGTGAGGA 59.960 55.000 0.00 0.00 35.00 3.71
603 604 1.467920 GGCATTCCAAAGGTGAGGAG 58.532 55.000 0.00 0.00 34.91 3.69
604 605 1.004745 GGCATTCCAAAGGTGAGGAGA 59.995 52.381 0.00 0.00 34.91 3.71
605 606 2.363683 GCATTCCAAAGGTGAGGAGAG 58.636 52.381 0.00 0.00 34.91 3.20
606 607 2.363683 CATTCCAAAGGTGAGGAGAGC 58.636 52.381 0.00 0.00 34.91 4.09
607 608 1.434188 TTCCAAAGGTGAGGAGAGCA 58.566 50.000 0.00 0.00 34.91 4.26
608 609 0.979665 TCCAAAGGTGAGGAGAGCAG 59.020 55.000 0.00 0.00 0.00 4.24
610 611 0.035881 CAAAGGTGAGGAGAGCAGCA 59.964 55.000 0.00 0.00 36.28 4.41
611 612 0.767375 AAAGGTGAGGAGAGCAGCAA 59.233 50.000 0.00 0.00 36.28 3.91
612 613 0.767375 AAGGTGAGGAGAGCAGCAAA 59.233 50.000 0.00 0.00 36.28 3.68
613 614 0.767375 AGGTGAGGAGAGCAGCAAAA 59.233 50.000 0.00 0.00 36.28 2.44
614 615 1.353694 AGGTGAGGAGAGCAGCAAAAT 59.646 47.619 0.00 0.00 36.28 1.82
615 616 2.573462 AGGTGAGGAGAGCAGCAAAATA 59.427 45.455 0.00 0.00 36.28 1.40
616 617 2.941720 GGTGAGGAGAGCAGCAAAATAG 59.058 50.000 0.00 0.00 34.13 1.73
617 618 3.604582 GTGAGGAGAGCAGCAAAATAGT 58.395 45.455 0.00 0.00 0.00 2.12
618 619 4.006319 GTGAGGAGAGCAGCAAAATAGTT 58.994 43.478 0.00 0.00 0.00 2.24
619 620 4.005650 TGAGGAGAGCAGCAAAATAGTTG 58.994 43.478 0.00 0.00 0.00 3.16
620 621 4.006319 GAGGAGAGCAGCAAAATAGTTGT 58.994 43.478 0.00 0.00 0.00 3.32
621 622 5.165961 AGGAGAGCAGCAAAATAGTTGTA 57.834 39.130 0.00 0.00 0.00 2.41
622 623 5.181748 AGGAGAGCAGCAAAATAGTTGTAG 58.818 41.667 0.00 0.00 0.00 2.74
623 624 4.333926 GGAGAGCAGCAAAATAGTTGTAGG 59.666 45.833 0.00 0.00 0.00 3.18
624 625 3.691609 AGAGCAGCAAAATAGTTGTAGGC 59.308 43.478 0.00 0.00 0.00 3.93
626 627 4.843728 AGCAGCAAAATAGTTGTAGGCTA 58.156 39.130 0.00 0.00 0.00 3.93
627 628 4.636206 AGCAGCAAAATAGTTGTAGGCTAC 59.364 41.667 17.76 17.76 0.00 3.58
655 1331 4.888239 TGGAAGGTTTTTGTTGGTATTCGA 59.112 37.500 0.00 0.00 0.00 3.71
676 1352 4.319190 CGACTCTTCCAACGCATTAAACAA 60.319 41.667 0.00 0.00 0.00 2.83
825 1501 2.503331 TCAACGAGACAAACCATGCAT 58.497 42.857 0.00 0.00 0.00 3.96
960 1643 1.078426 ATTTGCCGAGGTCGAAGGG 60.078 57.895 0.00 0.00 43.02 3.95
1003 1687 2.382746 CGGTCACACTGGTGCATCG 61.383 63.158 0.00 0.00 44.87 3.84
1006 1690 1.016130 GTCACACTGGTGCATCGGAG 61.016 60.000 14.16 7.34 44.87 4.63
1015 1699 2.390599 TGCATCGGAGTTCAAGCGC 61.391 57.895 0.00 0.00 0.00 5.92
1052 1736 1.937108 GCAGTCGCTAACACTTGCTCT 60.937 52.381 0.00 0.00 34.30 4.09
1053 1737 1.989165 CAGTCGCTAACACTTGCTCTC 59.011 52.381 0.00 0.00 0.00 3.20
1055 1739 3.082548 AGTCGCTAACACTTGCTCTCTA 58.917 45.455 0.00 0.00 0.00 2.43
1056 1740 3.119779 AGTCGCTAACACTTGCTCTCTAC 60.120 47.826 0.00 0.00 0.00 2.59
1206 1890 4.436448 GCGCTCAAGCTGCACGTC 62.436 66.667 0.00 0.00 39.24 4.34
1341 2025 1.210931 CATCAAGGCCAACGTGCTG 59.789 57.895 5.01 0.00 0.00 4.41
1344 2028 3.884774 AAGGCCAACGTGCTGGGA 61.885 61.111 5.01 0.00 36.92 4.37
1458 2146 4.339814 AGCTAGAAGTGCACAGTACTATCC 59.660 45.833 21.04 9.83 0.00 2.59
1474 2162 3.068881 CCATCGAGTGGGGTGTGT 58.931 61.111 6.11 0.00 44.79 3.72
1475 2163 1.375908 CCATCGAGTGGGGTGTGTG 60.376 63.158 6.11 0.00 44.79 3.82
1485 2173 0.179086 GGGGTGTGTGGTTTGCTTTG 60.179 55.000 0.00 0.00 0.00 2.77
1495 2183 2.235898 TGGTTTGCTTTGGTTTCAAGCT 59.764 40.909 6.24 0.00 33.98 3.74
1496 2184 3.270027 GGTTTGCTTTGGTTTCAAGCTT 58.730 40.909 0.00 0.00 33.98 3.74
1574 2262 1.351153 GCTTTCACACGAGAGGTAGC 58.649 55.000 0.00 0.00 0.00 3.58
1591 2279 6.101734 AGAGGTAGCATTATGATCCTTTGGAA 59.898 38.462 0.00 0.00 34.34 3.53
1592 2280 6.672593 AGGTAGCATTATGATCCTTTGGAAA 58.327 36.000 0.00 0.00 34.34 3.13
1639 2327 2.472695 TTGGAGCGCATTCTTACAGT 57.527 45.000 11.47 0.00 0.00 3.55
1651 2339 6.109359 GCATTCTTACAGTATCTCCAACAGT 58.891 40.000 0.00 0.00 0.00 3.55
1660 2348 0.176910 TCTCCAACAGTCGTGCAACA 59.823 50.000 0.00 0.00 35.74 3.33
1709 2398 3.213249 ACATCGTAGTCGTGAGTTTCC 57.787 47.619 0.00 0.00 38.33 3.13
1742 2433 3.188786 CTTGCTACAGCGACCGCC 61.189 66.667 11.03 0.00 45.83 6.13
1817 2517 6.145534 GCACGCTCTAGCACAAATAACATATA 59.854 38.462 2.44 0.00 42.21 0.86
1993 2693 2.495866 GGCCATTTCATGCCCACG 59.504 61.111 0.00 0.00 41.97 4.94
1994 2694 2.495866 GCCATTTCATGCCCACGG 59.504 61.111 0.00 0.00 0.00 4.94
2018 2718 5.879223 GCTCCTTGATGAGATTCTTCTGAAA 59.121 40.000 0.00 0.00 34.11 2.69
2051 2751 3.187058 GGCACGTCGAATGGCATT 58.813 55.556 13.54 13.54 42.03 3.56
2059 2759 3.244215 ACGTCGAATGGCATTGATAGGAT 60.244 43.478 19.07 0.00 0.00 3.24
2122 2822 4.844420 GGATGTCCCAAGAGCTCG 57.156 61.111 8.37 0.00 34.14 5.03
2293 2994 5.248640 CCAAAAGCTCTCTCCACATCTTTA 58.751 41.667 0.00 0.00 0.00 1.85
2304 3005 2.093658 CCACATCTTTACTAGCCACCGT 60.094 50.000 0.00 0.00 0.00 4.83
2464 3167 2.485426 CGATGACAGTTCACCATTTGCT 59.515 45.455 0.00 0.00 33.38 3.91
2515 3218 5.510671 ACAACGTTGATGTCATTCAAAGAC 58.489 37.500 33.66 0.00 37.30 3.01
2552 3256 4.686191 AAAACATGCCAAATCCAAGTCA 57.314 36.364 0.00 0.00 0.00 3.41
2571 3275 0.957395 ACTTGATCGGCCACTGCTTG 60.957 55.000 2.24 0.00 37.74 4.01
2587 3291 5.757320 CACTGCTTGAAGGATTATAGTGGAG 59.243 44.000 0.00 0.00 32.77 3.86
2613 3318 2.649531 TTTGACCGTGGAATTGTCCT 57.350 45.000 0.00 0.00 45.22 3.85
2641 3346 3.330701 TGCCTTAGGACAGTTCTTCCAAT 59.669 43.478 0.69 0.00 35.33 3.16
2644 3349 5.560724 CCTTAGGACAGTTCTTCCAATTCA 58.439 41.667 0.00 0.00 35.33 2.57
2702 3407 2.693074 ACCCGCAAGTTTTGTTCATCTT 59.307 40.909 0.00 0.00 0.00 2.40
2720 3425 3.211045 TCTTCAAAAGCCTTGTAGCGTT 58.789 40.909 0.00 0.00 35.93 4.84
2738 3443 3.243201 GCGTTTTCATCATTGGGAGATCC 60.243 47.826 0.00 0.00 0.00 3.36
2777 3482 1.603802 CACTTGCACAATTCCGACTGT 59.396 47.619 0.00 0.00 0.00 3.55
2786 3491 0.530744 ATTCCGACTGTGAAGCGCTA 59.469 50.000 12.05 0.00 0.00 4.26
2800 3505 0.302890 GCGCTAGACACACATGATGC 59.697 55.000 0.00 0.00 0.00 3.91
2802 3507 1.303309 GCTAGACACACATGATGCCC 58.697 55.000 0.00 0.00 0.00 5.36
2837 3542 2.084546 GGCCAAGTGGTCATCAACTAC 58.915 52.381 0.00 0.00 40.23 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.746277 GTCAATGAACGGGCGGCT 60.746 61.111 9.56 0.00 0.00 5.52
12 13 1.156736 CACGTGGAGGGTCAATGAAC 58.843 55.000 7.95 0.00 0.00 3.18
13 14 0.605319 GCACGTGGAGGGTCAATGAA 60.605 55.000 18.88 0.00 0.00 2.57
14 15 1.003839 GCACGTGGAGGGTCAATGA 60.004 57.895 18.88 0.00 0.00 2.57
50 51 2.465860 TAAGATCCGTTGTGGTGTGG 57.534 50.000 0.00 0.00 39.52 4.17
57 58 5.892119 TCTGATCCTAGTTAAGATCCGTTGT 59.108 40.000 4.79 0.00 38.50 3.32
92 93 1.704628 TCTCATGTGATGGTTGGTGGT 59.295 47.619 0.00 0.00 0.00 4.16
134 135 2.438434 CATGGCGGGAGGGTCAAC 60.438 66.667 0.00 0.00 0.00 3.18
135 136 3.727258 CCATGGCGGGAGGGTCAA 61.727 66.667 0.00 0.00 0.00 3.18
157 158 4.988598 CAGACGGTGGCGGCAGTT 62.989 66.667 13.91 0.00 0.00 3.16
167 168 0.818040 GAGTTTTGTGGCCAGACGGT 60.818 55.000 5.11 0.00 33.28 4.83
175 176 0.032540 CCAAGGCAGAGTTTTGTGGC 59.967 55.000 0.00 0.00 42.66 5.01
179 180 1.286880 CGGCCAAGGCAGAGTTTTG 59.713 57.895 13.87 0.00 44.11 2.44
237 238 1.228613 ATCGACGGGGGATCCTCTC 60.229 63.158 12.53 0.53 0.00 3.20
250 251 1.478510 ACTGTCTCATGGACCATCGAC 59.521 52.381 19.67 19.67 43.89 4.20
554 555 1.090052 GTGCTGCCGAGGGTGAATAC 61.090 60.000 0.00 0.00 0.00 1.89
583 584 0.039618 TCCTCACCTTTGGAATGCCC 59.960 55.000 0.00 0.00 0.00 5.36
584 585 1.004745 TCTCCTCACCTTTGGAATGCC 59.995 52.381 0.00 0.00 31.23 4.40
586 587 2.290514 TGCTCTCCTCACCTTTGGAATG 60.291 50.000 0.00 0.00 31.23 2.67
587 588 1.988107 TGCTCTCCTCACCTTTGGAAT 59.012 47.619 0.00 0.00 31.23 3.01
589 590 0.979665 CTGCTCTCCTCACCTTTGGA 59.020 55.000 0.00 0.00 0.00 3.53
590 591 0.676151 GCTGCTCTCCTCACCTTTGG 60.676 60.000 0.00 0.00 0.00 3.28
591 592 0.035881 TGCTGCTCTCCTCACCTTTG 59.964 55.000 0.00 0.00 0.00 2.77
592 593 0.767375 TTGCTGCTCTCCTCACCTTT 59.233 50.000 0.00 0.00 0.00 3.11
593 594 0.767375 TTTGCTGCTCTCCTCACCTT 59.233 50.000 0.00 0.00 0.00 3.50
594 595 0.767375 TTTTGCTGCTCTCCTCACCT 59.233 50.000 0.00 0.00 0.00 4.00
597 598 3.988976 ACTATTTTGCTGCTCTCCTCA 57.011 42.857 0.00 0.00 0.00 3.86
599 600 4.026356 ACAACTATTTTGCTGCTCTCCT 57.974 40.909 0.00 0.00 0.00 3.69
600 601 4.333926 CCTACAACTATTTTGCTGCTCTCC 59.666 45.833 0.00 0.00 0.00 3.71
601 602 4.201861 GCCTACAACTATTTTGCTGCTCTC 60.202 45.833 0.00 0.00 0.00 3.20
602 603 3.691609 GCCTACAACTATTTTGCTGCTCT 59.308 43.478 0.00 0.00 0.00 4.09
603 604 3.691609 AGCCTACAACTATTTTGCTGCTC 59.308 43.478 0.00 0.00 0.00 4.26
604 605 3.690460 AGCCTACAACTATTTTGCTGCT 58.310 40.909 0.00 0.00 0.00 4.24
605 606 4.394920 TGTAGCCTACAACTATTTTGCTGC 59.605 41.667 1.10 0.00 35.38 5.25
606 607 5.447818 GCTGTAGCCTACAACTATTTTGCTG 60.448 44.000 5.98 0.00 38.38 4.41
607 608 4.636206 GCTGTAGCCTACAACTATTTTGCT 59.364 41.667 5.98 0.00 38.38 3.91
608 609 4.636206 AGCTGTAGCCTACAACTATTTTGC 59.364 41.667 6.00 3.52 43.38 3.68
610 611 5.648092 CCAAGCTGTAGCCTACAACTATTTT 59.352 40.000 8.15 0.00 43.38 1.82
611 612 5.045869 TCCAAGCTGTAGCCTACAACTATTT 60.046 40.000 8.15 0.00 43.38 1.40
612 613 4.469945 TCCAAGCTGTAGCCTACAACTATT 59.530 41.667 8.15 0.00 43.38 1.73
613 614 4.030913 TCCAAGCTGTAGCCTACAACTAT 58.969 43.478 8.15 0.00 43.38 2.12
614 615 3.437213 TCCAAGCTGTAGCCTACAACTA 58.563 45.455 8.15 0.00 43.38 2.24
615 616 2.257207 TCCAAGCTGTAGCCTACAACT 58.743 47.619 5.98 3.89 43.38 3.16
616 617 2.762535 TCCAAGCTGTAGCCTACAAC 57.237 50.000 5.98 1.27 43.38 3.32
617 618 2.027192 CCTTCCAAGCTGTAGCCTACAA 60.027 50.000 5.98 0.00 43.38 2.41
618 619 1.555075 CCTTCCAAGCTGTAGCCTACA 59.445 52.381 4.20 4.20 43.38 2.74
619 620 1.555533 ACCTTCCAAGCTGTAGCCTAC 59.444 52.381 0.00 0.00 43.38 3.18
620 621 1.952621 ACCTTCCAAGCTGTAGCCTA 58.047 50.000 0.00 0.00 43.38 3.93
621 622 1.068121 AACCTTCCAAGCTGTAGCCT 58.932 50.000 0.00 0.00 43.38 4.58
622 623 1.911057 AAACCTTCCAAGCTGTAGCC 58.089 50.000 0.00 0.00 43.38 3.93
623 624 3.068165 ACAAAAACCTTCCAAGCTGTAGC 59.932 43.478 0.00 0.00 42.49 3.58
624 625 4.918810 ACAAAAACCTTCCAAGCTGTAG 57.081 40.909 0.00 0.00 0.00 2.74
626 627 3.369366 CCAACAAAAACCTTCCAAGCTGT 60.369 43.478 0.00 0.00 0.00 4.40
627 628 3.197265 CCAACAAAAACCTTCCAAGCTG 58.803 45.455 0.00 0.00 0.00 4.24
655 1331 5.705609 ATTGTTTAATGCGTTGGAAGAGT 57.294 34.783 0.08 0.00 0.00 3.24
676 1352 6.824305 ATTGATTCCAAGTTCTCGTTGAAT 57.176 33.333 0.00 0.00 35.48 2.57
751 1427 7.568128 TGTTGCATATGGGGTATATTCTACT 57.432 36.000 4.56 0.00 29.37 2.57
752 1428 8.100791 TCTTGTTGCATATGGGGTATATTCTAC 58.899 37.037 4.56 0.00 29.37 2.59
753 1429 8.213489 TCTTGTTGCATATGGGGTATATTCTA 57.787 34.615 4.56 0.00 29.37 2.10
763 1439 6.753279 CACTTTGTATTCTTGTTGCATATGGG 59.247 38.462 4.56 0.00 0.00 4.00
825 1501 1.002257 ATGAGCATGCACCCGTGAA 60.002 52.632 21.98 0.00 0.00 3.18
960 1643 3.067742 TGGAGAGGCGTATTTGTAGCTAC 59.932 47.826 17.30 17.30 0.00 3.58
1003 1687 2.738521 TGCTCGCGCTTGAACTCC 60.739 61.111 5.56 0.00 36.97 3.85
1006 1690 2.424576 TTTCGTGCTCGCGCTTGAAC 62.425 55.000 5.56 1.23 36.97 3.18
1015 1699 2.168621 CGTGTGCTTTCGTGCTCG 59.831 61.111 0.81 0.81 38.55 5.03
1052 1736 3.628032 GGCCATCGATCGATATCAGTAGA 59.372 47.826 28.94 0.00 32.93 2.59
1053 1737 3.378427 TGGCCATCGATCGATATCAGTAG 59.622 47.826 28.94 15.12 32.93 2.57
1055 1739 2.171003 TGGCCATCGATCGATATCAGT 58.829 47.619 28.94 5.49 32.93 3.41
1056 1740 2.947448 TGGCCATCGATCGATATCAG 57.053 50.000 28.94 16.85 32.93 2.90
1206 1890 1.009675 GTTCAGCACGTTGGCACAG 60.010 57.895 0.36 0.00 42.39 3.66
1287 1971 4.980805 GCGGCGTCCAGGTTGACA 62.981 66.667 9.37 0.00 34.88 3.58
1341 2025 0.392595 GGACGTTGAGGTGGATTCCC 60.393 60.000 0.00 0.00 0.00 3.97
1344 2028 1.131303 TGGGGACGTTGAGGTGGATT 61.131 55.000 0.00 0.00 0.00 3.01
1435 2119 4.339814 GGATAGTACTGTGCACTTCTAGCT 59.660 45.833 19.41 10.75 0.00 3.32
1458 2146 1.375908 CCACACACCCCACTCGATG 60.376 63.158 0.00 0.00 0.00 3.84
1473 2161 2.351418 GCTTGAAACCAAAGCAAACCAC 59.649 45.455 3.38 0.00 0.00 4.16
1474 2162 2.235898 AGCTTGAAACCAAAGCAAACCA 59.764 40.909 10.47 0.00 0.00 3.67
1475 2163 2.905075 AGCTTGAAACCAAAGCAAACC 58.095 42.857 10.47 0.00 0.00 3.27
1518 2206 1.906990 GCCAGATTGCCAGCATAGAT 58.093 50.000 0.00 0.00 0.00 1.98
1548 2236 3.652292 TCGTGTGAAAGCGAGAACA 57.348 47.368 0.00 0.00 32.98 3.18
1605 2293 3.875727 CGCTCCAATCTCATGAAATCACT 59.124 43.478 0.00 0.00 0.00 3.41
1639 2327 2.036604 TGTTGCACGACTGTTGGAGATA 59.963 45.455 0.00 0.00 0.00 1.98
1680 2368 5.463286 TCACGACTACGATGTTGTAAATGT 58.537 37.500 0.00 0.00 42.66 2.71
1817 2517 3.305398 TTTTGGTTGTGTTTGAAGCGT 57.695 38.095 0.00 0.00 0.00 5.07
1944 2644 8.158169 GAGCATCTTGATTTGTATGGTTGATA 57.842 34.615 0.00 0.00 30.70 2.15
1993 2693 4.128643 CAGAAGAATCTCATCAAGGAGCC 58.871 47.826 0.00 0.00 34.84 4.70
1994 2694 5.021033 TCAGAAGAATCTCATCAAGGAGC 57.979 43.478 0.00 0.00 34.84 4.70
2018 2718 2.159531 CGTGCCGAAACACATGATGATT 60.160 45.455 0.00 0.00 40.73 2.57
2051 2751 3.213506 CCCGATTTGTTGCATCCTATCA 58.786 45.455 0.00 0.00 0.00 2.15
2059 2759 2.569354 GGTGGCCCGATTTGTTGCA 61.569 57.895 0.00 0.00 0.00 4.08
2122 2822 7.197703 GCCAAGATTTAGACTACTCTCAGTAC 58.802 42.308 0.00 0.00 0.00 2.73
2228 2929 1.414181 CATTGTGAGAGGACCGGCTAT 59.586 52.381 0.00 0.00 0.00 2.97
2293 2994 0.972983 ATGCTCAGACGGTGGCTAGT 60.973 55.000 0.00 0.00 0.00 2.57
2304 3005 4.654915 TCTTGATTTCCACAATGCTCAGA 58.345 39.130 0.00 0.00 0.00 3.27
2464 3167 5.596772 TCGGTCACCACTCATGAATAAGATA 59.403 40.000 0.00 0.00 0.00 1.98
2552 3256 0.957395 CAAGCAGTGGCCGATCAAGT 60.957 55.000 0.00 0.00 42.56 3.16
2571 3275 4.984146 AAGGGCTCCACTATAATCCTTC 57.016 45.455 0.00 0.00 0.00 3.46
2598 3302 0.893727 GGCAAGGACAATTCCACGGT 60.894 55.000 0.00 0.00 45.72 4.83
2610 3315 0.255890 GTCCTAAGGCATGGCAAGGA 59.744 55.000 28.74 28.74 33.36 3.36
2613 3318 0.698238 ACTGTCCTAAGGCATGGCAA 59.302 50.000 22.64 8.10 0.00 4.52
2641 3346 5.751509 GCTCAATAGATTGCATGCATTTGAA 59.248 36.000 23.37 6.30 37.68 2.69
2644 3349 4.100344 TGGCTCAATAGATTGCATGCATTT 59.900 37.500 23.37 12.55 37.68 2.32
2702 3407 3.378742 TGAAAACGCTACAAGGCTTTTGA 59.621 39.130 0.00 0.00 34.68 2.69
2738 3443 2.231235 GTGTTTGGCCAGGAGTATTTGG 59.769 50.000 5.11 0.00 37.53 3.28
2777 3482 1.272212 TCATGTGTGTCTAGCGCTTCA 59.728 47.619 18.68 10.54 0.00 3.02
2786 3491 0.034767 CCAGGGCATCATGTGTGTCT 60.035 55.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.