Multiple sequence alignment - TraesCS7B01G338300

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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 TraesCS7B01G338300 chr7B 100.000 2727 0 0 1 2727 592717532 592720258 0.000000e+00 5036.0
1 TraesCS7B01G338300 chr7B 92.566 1789 75 14 739 2491 592807716 592809482 0.000000e+00 2514.0
2 TraesCS7B01G338300 chr7B 92.407 1778 100 24 739 2491 592867507 592869274 0.000000e+00 2503.0
3 TraesCS7B01G338300 chr7B 95.685 533 13 7 2005 2533 592912308 592912834 0.000000e+00 848.0
4 TraesCS7B01G338300 chr7B 93.080 578 35 3 165 738 583368307 583368883 0.000000e+00 841.0
5 TraesCS7B01G338300 chr7B 83.616 885 104 25 882 1733 592534924 592534048 0.000000e+00 793.0
6 TraesCS7B01G338300 chr7B 94.118 85 2 2 2534 2615 677355820 677355736 2.850000e-25 126.0
7 TraesCS7B01G338300 chr7D 89.094 1843 105 42 739 2533 549134569 549136363 0.000000e+00 2202.0
8 TraesCS7B01G338300 chr7D 92.792 1207 61 9 772 1969 549274160 549275349 0.000000e+00 1724.0
9 TraesCS7B01G338300 chr7D 84.677 881 98 26 884 1733 548916160 548915286 0.000000e+00 845.0
10 TraesCS7B01G338300 chr7D 88.496 113 8 1 2426 2533 549276547 549276659 6.130000e-27 132.0
11 TraesCS7B01G338300 chr7D 91.765 85 4 2 2534 2615 371136443 371136527 6.170000e-22 115.0
12 TraesCS7B01G338300 chr7A 90.749 1643 81 30 739 2334 634476706 634478324 0.000000e+00 2126.0
13 TraesCS7B01G338300 chr7A 92.755 1256 55 14 739 1976 634463777 634465014 0.000000e+00 1783.0
14 TraesCS7B01G338300 chr7A 90.608 1267 70 20 739 1976 634605290 634606536 0.000000e+00 1635.0
15 TraesCS7B01G338300 chr7A 80.094 427 38 21 2114 2533 634610112 634610498 9.620000e-70 274.0
16 TraesCS7B01G338300 chr7A 86.207 203 18 8 2330 2528 634478914 634479110 7.650000e-51 211.0
17 TraesCS7B01G338300 chrUn 89.973 738 57 13 6 736 35731566 35732293 0.000000e+00 937.0
18 TraesCS7B01G338300 chrUn 89.973 738 57 13 6 736 242150745 242150018 0.000000e+00 937.0
19 TraesCS7B01G338300 chr2B 88.385 749 66 15 1 739 12883187 12883924 0.000000e+00 881.0
20 TraesCS7B01G338300 chr2B 87.263 738 75 15 6 738 742643615 742642892 0.000000e+00 824.0
21 TraesCS7B01G338300 chr2B 95.614 114 4 1 2615 2727 798383140 798383027 6.000000e-42 182.0
22 TraesCS7B01G338300 chr2B 93.805 113 7 0 2615 2727 693139857 693139745 1.300000e-38 171.0
23 TraesCS7B01G338300 chr2B 93.805 113 7 0 2615 2727 794006165 794006277 1.300000e-38 171.0
24 TraesCS7B01G338300 chr1B 92.562 605 31 7 137 738 668139377 668138784 0.000000e+00 856.0
25 TraesCS7B01G338300 chr1B 96.522 115 4 0 2613 2727 309953055 309953169 9.970000e-45 191.0
26 TraesCS7B01G338300 chr5B 93.448 580 31 6 165 742 662533174 662532600 0.000000e+00 854.0
27 TraesCS7B01G338300 chr5B 93.805 113 5 2 2615 2727 523205872 523205762 4.670000e-38 169.0
28 TraesCS7B01G338300 chr3B 89.774 665 51 11 80 739 229159097 229158445 0.000000e+00 835.0
29 TraesCS7B01G338300 chr3B 88.235 323 25 7 1 321 811982193 811982504 9.220000e-100 374.0
30 TraesCS7B01G338300 chr3B 86.420 162 18 4 1 161 154818758 154818600 1.000000e-39 174.0
31 TraesCS7B01G338300 chr3B 92.920 113 7 1 2615 2727 4383842 4383953 2.170000e-36 163.0
32 TraesCS7B01G338300 chr3B 91.150 113 10 0 2615 2727 220787111 220787223 1.310000e-33 154.0
33 TraesCS7B01G338300 chr3B 83.688 141 18 5 6 143 34114435 34114573 7.930000e-26 128.0
34 TraesCS7B01G338300 chr4D 85.239 752 77 25 1 738 22578695 22579426 0.000000e+00 743.0
35 TraesCS7B01G338300 chr4D 93.182 44 3 0 1063 1106 14914693 14914736 6.300000e-07 65.8
36 TraesCS7B01G338300 chr6B 93.966 116 7 0 2612 2727 2151292 2151407 2.790000e-40 176.0
37 TraesCS7B01G338300 chr5D 89.908 109 10 1 2618 2726 51854231 51854338 3.660000e-29 139.0
38 TraesCS7B01G338300 chr3D 89.899 99 5 4 2521 2615 17694420 17694517 3.690000e-24 122.0


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 TraesCS7B01G338300 chr7B 592717532 592720258 2726 False 5036.0 5036 100.000 1 2727 1 chr7B.!!$F2 2726
1 TraesCS7B01G338300 chr7B 592807716 592809482 1766 False 2514.0 2514 92.566 739 2491 1 chr7B.!!$F3 1752
2 TraesCS7B01G338300 chr7B 592867507 592869274 1767 False 2503.0 2503 92.407 739 2491 1 chr7B.!!$F4 1752
3 TraesCS7B01G338300 chr7B 592912308 592912834 526 False 848.0 848 95.685 2005 2533 1 chr7B.!!$F5 528
4 TraesCS7B01G338300 chr7B 583368307 583368883 576 False 841.0 841 93.080 165 738 1 chr7B.!!$F1 573
5 TraesCS7B01G338300 chr7B 592534048 592534924 876 True 793.0 793 83.616 882 1733 1 chr7B.!!$R1 851
6 TraesCS7B01G338300 chr7D 549134569 549136363 1794 False 2202.0 2202 89.094 739 2533 1 chr7D.!!$F2 1794
7 TraesCS7B01G338300 chr7D 549274160 549276659 2499 False 928.0 1724 90.644 772 2533 2 chr7D.!!$F3 1761
8 TraesCS7B01G338300 chr7D 548915286 548916160 874 True 845.0 845 84.677 884 1733 1 chr7D.!!$R1 849
9 TraesCS7B01G338300 chr7A 634463777 634465014 1237 False 1783.0 1783 92.755 739 1976 1 chr7A.!!$F1 1237
10 TraesCS7B01G338300 chr7A 634476706 634479110 2404 False 1168.5 2126 88.478 739 2528 2 chr7A.!!$F2 1789
11 TraesCS7B01G338300 chr7A 634605290 634610498 5208 False 954.5 1635 85.351 739 2533 2 chr7A.!!$F3 1794
12 TraesCS7B01G338300 chrUn 35731566 35732293 727 False 937.0 937 89.973 6 736 1 chrUn.!!$F1 730
13 TraesCS7B01G338300 chrUn 242150018 242150745 727 True 937.0 937 89.973 6 736 1 chrUn.!!$R1 730
14 TraesCS7B01G338300 chr2B 12883187 12883924 737 False 881.0 881 88.385 1 739 1 chr2B.!!$F1 738
15 TraesCS7B01G338300 chr2B 742642892 742643615 723 True 824.0 824 87.263 6 738 1 chr2B.!!$R2 732
16 TraesCS7B01G338300 chr1B 668138784 668139377 593 True 856.0 856 92.562 137 738 1 chr1B.!!$R1 601
17 TraesCS7B01G338300 chr5B 662532600 662533174 574 True 854.0 854 93.448 165 742 1 chr5B.!!$R2 577
18 TraesCS7B01G338300 chr3B 229158445 229159097 652 True 835.0 835 89.774 80 739 1 chr3B.!!$R2 659
19 TraesCS7B01G338300 chr4D 22578695 22579426 731 False 743.0 743 85.239 1 738 1 chr4D.!!$F2 737

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
83 87 0.110644 CACTTCTTTGCTTCCGCGAC 60.111 55.0 8.23 0.0 39.65 5.19 F
86 90 0.249699 TTCTTTGCTTCCGCGACAGA 60.250 50.0 8.23 0.0 39.65 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1699 1784 0.603065 GCCGGAAGTTTGCCTTGATT 59.397 50.0 5.05 0.0 32.03 2.57 R
1859 1954 2.503920 ACGCCTTGTATACGTGATCC 57.496 50.0 0.00 0.0 38.85 3.36 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 72 3.000815 TTTTTCGCGAGAGGCACTT 57.999 47.368 9.59 0.00 41.55 3.16
69 73 0.865769 TTTTTCGCGAGAGGCACTTC 59.134 50.000 9.59 0.00 41.55 3.01
83 87 0.110644 CACTTCTTTGCTTCCGCGAC 60.111 55.000 8.23 0.00 39.65 5.19
86 90 0.249699 TTCTTTGCTTCCGCGACAGA 60.250 50.000 8.23 0.00 39.65 3.41
117 121 2.050836 TTTCTTGAGAGGCACGGGCA 62.051 55.000 13.89 0.00 43.71 5.36
321 341 3.258372 GCCTCTTTCGGAAAGGGAAAAAT 59.742 43.478 27.71 0.00 41.66 1.82
688 718 2.555547 GCCACCTGTCACAACCTGC 61.556 63.158 0.00 0.00 0.00 4.85
731 761 6.817140 CCGCAAGAAGTACTCCTTAATTAGTT 59.183 38.462 0.00 0.00 43.02 2.24
840 870 3.071602 AGGCCATAAGTGTGCGAATATCT 59.928 43.478 5.01 0.00 0.00 1.98
848 880 3.873361 AGTGTGCGAATATCTCATTGGTG 59.127 43.478 0.00 0.00 0.00 4.17
857 889 8.383619 GCGAATATCTCATTGGTGTGATATAAC 58.616 37.037 11.25 8.89 44.56 1.89
1011 1065 2.437180 CTCGCCATGGCTTCTGCA 60.437 61.111 33.07 9.77 41.91 4.41
1013 1067 1.378911 TCGCCATGGCTTCTGCAAT 60.379 52.632 33.07 0.00 41.91 3.56
1060 1114 2.678580 TCGTCTCCGGCCATGTCA 60.679 61.111 2.24 0.00 33.95 3.58
1083 1137 1.278413 GCTTTCGACCCTAACCCTCTT 59.722 52.381 0.00 0.00 0.00 2.85
1177 1250 7.128234 TCAGTTTCTATGTGATCATCCATGA 57.872 36.000 0.00 0.00 41.70 3.07
1546 1631 2.656069 GGGGCTCGTGCACTTCCTA 61.656 63.158 16.19 0.00 43.40 2.94
1699 1784 1.227527 CAAGCACACCGTGGAGACA 60.228 57.895 3.03 0.00 33.64 3.41
1859 1954 4.084171 AGCAATATCAATTCGATCGTGCTG 60.084 41.667 19.22 12.95 45.69 4.41
2143 5825 9.775854 TCAACATGTAACAATCCATTTTCATTT 57.224 25.926 0.00 0.00 0.00 2.32
2542 7551 4.860802 TGGATACATCATGGGAAACACT 57.139 40.909 0.00 0.00 46.17 3.55
2543 7552 5.191727 TGGATACATCATGGGAAACACTT 57.808 39.130 0.00 0.00 46.17 3.16
2544 7553 6.320434 TGGATACATCATGGGAAACACTTA 57.680 37.500 0.00 0.00 46.17 2.24
2545 7554 6.119536 TGGATACATCATGGGAAACACTTAC 58.880 40.000 0.00 0.00 46.17 2.34
2546 7555 6.069673 TGGATACATCATGGGAAACACTTACT 60.070 38.462 0.00 0.00 46.17 2.24
2547 7556 7.126573 TGGATACATCATGGGAAACACTTACTA 59.873 37.037 0.00 0.00 46.17 1.82
2548 7557 8.157476 GGATACATCATGGGAAACACTTACTAT 58.843 37.037 0.00 0.00 0.00 2.12
2549 7558 9.209175 GATACATCATGGGAAACACTTACTATC 57.791 37.037 0.00 0.00 0.00 2.08
2550 7559 7.200434 ACATCATGGGAAACACTTACTATCT 57.800 36.000 0.00 0.00 0.00 1.98
2551 7560 8.319057 ACATCATGGGAAACACTTACTATCTA 57.681 34.615 0.00 0.00 0.00 1.98
2552 7561 8.424918 ACATCATGGGAAACACTTACTATCTAG 58.575 37.037 0.00 0.00 0.00 2.43
2553 7562 7.973048 TCATGGGAAACACTTACTATCTAGT 57.027 36.000 0.00 0.00 40.24 2.57
2554 7563 8.375493 TCATGGGAAACACTTACTATCTAGTT 57.625 34.615 0.00 0.00 37.73 2.24
2555 7564 8.258007 TCATGGGAAACACTTACTATCTAGTTG 58.742 37.037 0.00 0.00 37.73 3.16
2556 7565 7.786046 TGGGAAACACTTACTATCTAGTTGA 57.214 36.000 0.00 0.00 37.73 3.18
2557 7566 8.375493 TGGGAAACACTTACTATCTAGTTGAT 57.625 34.615 0.00 0.00 37.73 2.57
2558 7567 9.483489 TGGGAAACACTTACTATCTAGTTGATA 57.517 33.333 0.00 0.00 37.73 2.15
2570 7579 3.898123 TCTAGTTGATAGATGTCCAGCCC 59.102 47.826 0.00 0.00 35.50 5.19
2571 7580 1.771255 AGTTGATAGATGTCCAGCCCC 59.229 52.381 0.00 0.00 0.00 5.80
2572 7581 1.490490 GTTGATAGATGTCCAGCCCCA 59.510 52.381 0.00 0.00 0.00 4.96
2573 7582 1.427809 TGATAGATGTCCAGCCCCAG 58.572 55.000 0.00 0.00 0.00 4.45
2574 7583 1.062198 TGATAGATGTCCAGCCCCAGA 60.062 52.381 0.00 0.00 0.00 3.86
2575 7584 1.346068 GATAGATGTCCAGCCCCAGAC 59.654 57.143 0.00 0.00 0.00 3.51
2576 7585 0.691078 TAGATGTCCAGCCCCAGACC 60.691 60.000 0.00 0.00 31.76 3.85
2577 7586 2.204136 ATGTCCAGCCCCAGACCA 60.204 61.111 0.00 0.00 31.76 4.02
2578 7587 1.852157 ATGTCCAGCCCCAGACCAA 60.852 57.895 0.00 0.00 31.76 3.67
2579 7588 1.217057 ATGTCCAGCCCCAGACCAAT 61.217 55.000 0.00 0.00 31.76 3.16
2580 7589 1.077429 GTCCAGCCCCAGACCAATC 60.077 63.158 0.00 0.00 0.00 2.67
2581 7590 2.276740 CCAGCCCCAGACCAATCC 59.723 66.667 0.00 0.00 0.00 3.01
2582 7591 2.615465 CCAGCCCCAGACCAATCCA 61.615 63.158 0.00 0.00 0.00 3.41
2583 7592 1.616921 CAGCCCCAGACCAATCCAT 59.383 57.895 0.00 0.00 0.00 3.41
2584 7593 0.032813 CAGCCCCAGACCAATCCATT 60.033 55.000 0.00 0.00 0.00 3.16
2585 7594 0.032813 AGCCCCAGACCAATCCATTG 60.033 55.000 0.00 0.00 37.52 2.82
2586 7595 1.679559 GCCCCAGACCAATCCATTGC 61.680 60.000 0.00 0.00 36.48 3.56
2587 7596 1.044790 CCCCAGACCAATCCATTGCC 61.045 60.000 0.00 0.00 36.48 4.52
2588 7597 1.386525 CCCAGACCAATCCATTGCCG 61.387 60.000 0.00 0.00 36.48 5.69
2589 7598 0.680921 CCAGACCAATCCATTGCCGT 60.681 55.000 0.00 0.00 36.48 5.68
2590 7599 0.734889 CAGACCAATCCATTGCCGTC 59.265 55.000 0.00 0.00 36.48 4.79
2591 7600 0.744414 AGACCAATCCATTGCCGTCG 60.744 55.000 0.00 0.00 35.50 5.12
2592 7601 0.742990 GACCAATCCATTGCCGTCGA 60.743 55.000 0.00 0.00 36.48 4.20
2593 7602 0.107214 ACCAATCCATTGCCGTCGAT 60.107 50.000 0.00 0.00 36.48 3.59
2594 7603 1.024271 CCAATCCATTGCCGTCGATT 58.976 50.000 0.00 0.00 36.48 3.34
2595 7604 1.002468 CCAATCCATTGCCGTCGATTC 60.002 52.381 0.00 0.00 36.48 2.52
2596 7605 1.670295 CAATCCATTGCCGTCGATTCA 59.330 47.619 0.00 0.00 0.00 2.57
2597 7606 2.036958 ATCCATTGCCGTCGATTCAA 57.963 45.000 0.00 0.00 0.00 2.69
2598 7607 1.083489 TCCATTGCCGTCGATTCAAC 58.917 50.000 0.00 0.00 0.00 3.18
2599 7608 0.801872 CCATTGCCGTCGATTCAACA 59.198 50.000 0.00 0.00 0.00 3.33
2600 7609 1.198867 CCATTGCCGTCGATTCAACAA 59.801 47.619 0.00 0.00 0.00 2.83
2601 7610 2.351253 CCATTGCCGTCGATTCAACAAA 60.351 45.455 0.00 0.00 0.00 2.83
2602 7611 3.304257 CATTGCCGTCGATTCAACAAAA 58.696 40.909 0.00 0.00 0.00 2.44
2603 7612 3.634568 TTGCCGTCGATTCAACAAAAT 57.365 38.095 0.00 0.00 0.00 1.82
2604 7613 3.196007 TGCCGTCGATTCAACAAAATC 57.804 42.857 0.00 0.00 33.22 2.17
2605 7614 2.811431 TGCCGTCGATTCAACAAAATCT 59.189 40.909 0.00 0.00 34.19 2.40
2606 7615 3.163594 GCCGTCGATTCAACAAAATCTG 58.836 45.455 0.00 0.00 34.19 2.90
2607 7616 3.120338 GCCGTCGATTCAACAAAATCTGA 60.120 43.478 0.00 0.00 34.19 3.27
2608 7617 4.394795 CCGTCGATTCAACAAAATCTGAC 58.605 43.478 0.00 0.00 36.70 3.51
2609 7618 4.074949 CGTCGATTCAACAAAATCTGACG 58.925 43.478 19.06 19.06 44.94 4.35
2610 7619 3.840763 GTCGATTCAACAAAATCTGACGC 59.159 43.478 0.00 0.00 33.70 5.19
2611 7620 3.120338 TCGATTCAACAAAATCTGACGCC 60.120 43.478 0.00 0.00 34.19 5.68
2612 7621 3.120199 CGATTCAACAAAATCTGACGCCT 60.120 43.478 0.00 0.00 34.19 5.52
2613 7622 3.896648 TTCAACAAAATCTGACGCCTC 57.103 42.857 0.00 0.00 0.00 4.70
2614 7623 2.844946 TCAACAAAATCTGACGCCTCA 58.155 42.857 0.00 0.00 0.00 3.86
2615 7624 2.807967 TCAACAAAATCTGACGCCTCAG 59.192 45.455 6.39 6.39 44.94 3.35
2616 7625 1.813513 ACAAAATCTGACGCCTCAGG 58.186 50.000 12.06 0.00 43.87 3.86
2617 7626 1.089920 CAAAATCTGACGCCTCAGGG 58.910 55.000 12.06 0.00 43.87 4.45
2627 7636 4.555610 CCTCAGGGCATCTTCAGC 57.444 61.111 0.00 0.00 0.00 4.26
2633 7642 3.190878 GGCATCTTCAGCCGTTGG 58.809 61.111 0.00 0.00 43.15 3.77
2645 7654 4.410400 CGTTGGCCCTCCCAGGAC 62.410 72.222 0.00 0.00 46.39 3.85
2646 7655 4.410400 GTTGGCCCTCCCAGGACG 62.410 72.222 0.00 0.00 46.39 4.79
2651 7660 3.636231 CCCTCCCAGGACGCACAA 61.636 66.667 0.00 0.00 37.67 3.33
2652 7661 2.429930 CCTCCCAGGACGCACAAA 59.570 61.111 0.00 0.00 37.67 2.83
2653 7662 1.228124 CCTCCCAGGACGCACAAAA 60.228 57.895 0.00 0.00 37.67 2.44
2654 7663 0.821711 CCTCCCAGGACGCACAAAAA 60.822 55.000 0.00 0.00 37.67 1.94
2655 7664 1.247567 CTCCCAGGACGCACAAAAAT 58.752 50.000 0.00 0.00 0.00 1.82
2656 7665 1.200020 CTCCCAGGACGCACAAAAATC 59.800 52.381 0.00 0.00 0.00 2.17
2657 7666 0.109781 CCCAGGACGCACAAAAATCG 60.110 55.000 0.00 0.00 0.00 3.34
2658 7667 0.591170 CCAGGACGCACAAAAATCGT 59.409 50.000 0.00 0.00 39.33 3.73
2661 7670 3.378013 GACGCACAAAAATCGTCCC 57.622 52.632 2.96 0.00 44.62 4.46
2662 7671 0.109919 GACGCACAAAAATCGTCCCC 60.110 55.000 2.96 0.00 44.62 4.81
2663 7672 0.536460 ACGCACAAAAATCGTCCCCT 60.536 50.000 0.00 0.00 0.00 4.79
2664 7673 0.109781 CGCACAAAAATCGTCCCCTG 60.110 55.000 0.00 0.00 0.00 4.45
2665 7674 0.243636 GCACAAAAATCGTCCCCTGG 59.756 55.000 0.00 0.00 0.00 4.45
2666 7675 0.887933 CACAAAAATCGTCCCCTGGG 59.112 55.000 5.50 5.50 0.00 4.45
2667 7676 0.251608 ACAAAAATCGTCCCCTGGGG 60.252 55.000 26.87 26.87 46.11 4.96
2685 7694 4.427661 GCGAGCAGGCGAGACACT 62.428 66.667 0.00 0.00 0.00 3.55
2686 7695 2.202544 CGAGCAGGCGAGACACTC 60.203 66.667 0.00 0.00 0.00 3.51
2695 7704 4.803426 GAGACACTCGGCGCTGGG 62.803 72.222 16.41 16.41 0.00 4.45
2718 7727 3.350612 TTTTTCGCCCAGTCGCCG 61.351 61.111 0.00 0.00 0.00 6.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 55 0.033504 AGAAGTGCCTCTCGCGAAAA 59.966 50.000 11.33 0.00 42.08 2.29
83 87 1.299541 AGAAAGCACAACCGTGTCTG 58.700 50.000 0.00 0.00 45.50 3.51
86 90 1.670811 CTCAAGAAAGCACAACCGTGT 59.329 47.619 0.00 0.00 45.50 4.49
102 106 2.046023 CATGCCCGTGCCTCTCAA 60.046 61.111 0.00 0.00 36.33 3.02
103 107 4.783621 GCATGCCCGTGCCTCTCA 62.784 66.667 6.36 0.00 39.18 3.27
117 121 2.879103 TCCCTTTTCGAAAGAGGCAT 57.121 45.000 23.02 0.00 43.69 4.40
184 196 2.879103 TCCCTTTTCGAAAGAGGCAT 57.121 45.000 23.02 0.00 43.69 4.40
298 313 1.064825 TTCCCTTTCCGAAAGAGGCT 58.935 50.000 20.43 0.00 41.02 4.58
564 592 1.468520 CCGTGCGTCCAAATCTTGAAT 59.531 47.619 0.00 0.00 0.00 2.57
713 743 9.322773 GCCGAAATAACTAATTAAGGAGTACTT 57.677 33.333 0.00 0.00 43.28 2.24
840 870 8.929487 TGGTAGTATGTTATATCACACCAATGA 58.071 33.333 0.00 0.00 0.00 2.57
857 889 5.451908 CGCAGGCAATATTTTGGTAGTATG 58.548 41.667 0.00 0.00 33.22 2.39
1011 1065 0.877071 CGAGCACCAAGAGCAACATT 59.123 50.000 0.00 0.00 0.00 2.71
1013 1067 2.253758 GCGAGCACCAAGAGCAACA 61.254 57.895 0.00 0.00 0.00 3.33
1083 1137 2.258591 GCGACGCAGAAGTCCTGA 59.741 61.111 16.42 0.00 45.78 3.86
1177 1250 1.416030 TGCACTGTACGGGCATATCAT 59.584 47.619 10.00 0.00 31.58 2.45
1186 1259 1.334992 CGTTCTCGTGCACTGTACGG 61.335 60.000 21.59 9.97 41.58 4.02
1382 1467 1.905512 GGTAGTGCACCGGGAAGAT 59.094 57.895 14.63 0.00 37.63 2.40
1546 1631 2.098233 CGCGCTCCCGTTGTTGTAT 61.098 57.895 5.56 0.00 36.67 2.29
1699 1784 0.603065 GCCGGAAGTTTGCCTTGATT 59.397 50.000 5.05 0.00 32.03 2.57
1859 1954 2.503920 ACGCCTTGTATACGTGATCC 57.496 50.000 0.00 0.00 38.85 3.36
2546 7555 5.717178 GGGCTGGACATCTATCAACTAGATA 59.283 44.000 0.00 0.00 43.91 1.98
2547 7556 4.530161 GGGCTGGACATCTATCAACTAGAT 59.470 45.833 0.00 0.00 46.17 1.98
2548 7557 3.898123 GGGCTGGACATCTATCAACTAGA 59.102 47.826 0.00 0.00 40.73 2.43
2549 7558 3.007398 GGGGCTGGACATCTATCAACTAG 59.993 52.174 0.00 0.00 0.00 2.57
2550 7559 2.972713 GGGGCTGGACATCTATCAACTA 59.027 50.000 0.00 0.00 0.00 2.24
2551 7560 1.771255 GGGGCTGGACATCTATCAACT 59.229 52.381 0.00 0.00 0.00 3.16
2552 7561 1.490490 TGGGGCTGGACATCTATCAAC 59.510 52.381 0.00 0.00 0.00 3.18
2553 7562 1.770658 CTGGGGCTGGACATCTATCAA 59.229 52.381 0.00 0.00 0.00 2.57
2554 7563 1.062198 TCTGGGGCTGGACATCTATCA 60.062 52.381 0.00 0.00 0.00 2.15
2555 7564 1.346068 GTCTGGGGCTGGACATCTATC 59.654 57.143 0.00 0.00 33.19 2.08
2556 7565 1.428869 GTCTGGGGCTGGACATCTAT 58.571 55.000 0.00 0.00 33.19 1.98
2557 7566 0.691078 GGTCTGGGGCTGGACATCTA 60.691 60.000 0.00 0.00 34.49 1.98
2558 7567 1.997874 GGTCTGGGGCTGGACATCT 60.998 63.158 0.00 0.00 34.49 2.90
2559 7568 1.852157 TTGGTCTGGGGCTGGACATC 61.852 60.000 0.00 0.00 34.49 3.06
2560 7569 1.217057 ATTGGTCTGGGGCTGGACAT 61.217 55.000 0.00 0.00 34.49 3.06
2561 7570 1.852157 ATTGGTCTGGGGCTGGACA 60.852 57.895 0.00 0.00 34.49 4.02
2562 7571 1.077429 GATTGGTCTGGGGCTGGAC 60.077 63.158 0.00 0.00 0.00 4.02
2563 7572 2.308722 GGATTGGTCTGGGGCTGGA 61.309 63.158 0.00 0.00 0.00 3.86
2564 7573 1.941403 ATGGATTGGTCTGGGGCTGG 61.941 60.000 0.00 0.00 0.00 4.85
2565 7574 0.032813 AATGGATTGGTCTGGGGCTG 60.033 55.000 0.00 0.00 0.00 4.85
2566 7575 0.032813 CAATGGATTGGTCTGGGGCT 60.033 55.000 0.00 0.00 34.22 5.19
2567 7576 1.679559 GCAATGGATTGGTCTGGGGC 61.680 60.000 1.67 0.00 38.21 5.80
2568 7577 1.044790 GGCAATGGATTGGTCTGGGG 61.045 60.000 1.67 0.00 38.21 4.96
2569 7578 1.386525 CGGCAATGGATTGGTCTGGG 61.387 60.000 1.67 0.00 38.21 4.45
2570 7579 0.680921 ACGGCAATGGATTGGTCTGG 60.681 55.000 1.67 0.00 38.21 3.86
2571 7580 0.734889 GACGGCAATGGATTGGTCTG 59.265 55.000 1.67 0.00 38.21 3.51
2572 7581 0.744414 CGACGGCAATGGATTGGTCT 60.744 55.000 1.67 0.00 38.21 3.85
2573 7582 0.742990 TCGACGGCAATGGATTGGTC 60.743 55.000 0.00 1.25 38.21 4.02
2574 7583 0.107214 ATCGACGGCAATGGATTGGT 60.107 50.000 0.00 0.00 38.21 3.67
2575 7584 1.002468 GAATCGACGGCAATGGATTGG 60.002 52.381 0.00 0.00 38.21 3.16
2576 7585 1.670295 TGAATCGACGGCAATGGATTG 59.330 47.619 0.00 0.00 40.66 2.67
2577 7586 2.036958 TGAATCGACGGCAATGGATT 57.963 45.000 0.00 0.00 30.56 3.01
2578 7587 1.670811 GTTGAATCGACGGCAATGGAT 59.329 47.619 0.00 0.00 0.00 3.41
2579 7588 1.083489 GTTGAATCGACGGCAATGGA 58.917 50.000 0.00 0.00 0.00 3.41
2580 7589 0.801872 TGTTGAATCGACGGCAATGG 59.198 50.000 0.00 0.00 0.00 3.16
2581 7590 2.610219 TTGTTGAATCGACGGCAATG 57.390 45.000 0.00 0.00 0.00 2.82
2582 7591 3.634568 TTTTGTTGAATCGACGGCAAT 57.365 38.095 0.00 0.00 0.00 3.56
2583 7592 3.252215 AGATTTTGTTGAATCGACGGCAA 59.748 39.130 0.00 0.00 40.22 4.52
2584 7593 2.811431 AGATTTTGTTGAATCGACGGCA 59.189 40.909 0.00 0.00 40.22 5.69
2585 7594 3.120338 TCAGATTTTGTTGAATCGACGGC 60.120 43.478 0.00 0.00 40.22 5.68
2586 7595 4.394795 GTCAGATTTTGTTGAATCGACGG 58.605 43.478 0.00 0.00 40.22 4.79
2587 7596 4.074949 CGTCAGATTTTGTTGAATCGACG 58.925 43.478 19.43 19.43 44.98 5.12
2588 7597 3.840763 GCGTCAGATTTTGTTGAATCGAC 59.159 43.478 0.00 0.00 40.22 4.20
2589 7598 3.120338 GGCGTCAGATTTTGTTGAATCGA 60.120 43.478 0.00 0.00 40.22 3.59
2590 7599 3.120199 AGGCGTCAGATTTTGTTGAATCG 60.120 43.478 0.00 0.00 40.22 3.34
2591 7600 4.083324 TGAGGCGTCAGATTTTGTTGAATC 60.083 41.667 4.68 0.00 36.50 2.52
2592 7601 3.820467 TGAGGCGTCAGATTTTGTTGAAT 59.180 39.130 4.68 0.00 0.00 2.57
2593 7602 3.210227 TGAGGCGTCAGATTTTGTTGAA 58.790 40.909 4.68 0.00 0.00 2.69
2594 7603 2.844946 TGAGGCGTCAGATTTTGTTGA 58.155 42.857 4.68 0.00 0.00 3.18
2610 7619 1.153005 GGCTGAAGATGCCCTGAGG 60.153 63.158 0.00 0.00 44.32 3.86
2611 7620 4.555610 GGCTGAAGATGCCCTGAG 57.444 61.111 0.00 0.00 44.32 3.35
2616 7625 3.056313 GCCAACGGCTGAAGATGCC 62.056 63.158 0.00 0.00 46.69 4.40
2617 7626 2.486966 GCCAACGGCTGAAGATGC 59.513 61.111 0.00 0.00 46.69 3.91
2628 7637 4.410400 GTCCTGGGAGGGCCAACG 62.410 72.222 6.18 0.00 32.63 4.10
2629 7638 4.410400 CGTCCTGGGAGGGCCAAC 62.410 72.222 6.18 0.00 36.37 3.77
2634 7643 2.690653 TTTTGTGCGTCCTGGGAGGG 62.691 60.000 10.70 0.00 35.59 4.30
2635 7644 0.821711 TTTTTGTGCGTCCTGGGAGG 60.822 55.000 5.10 5.10 36.46 4.30
2636 7645 1.200020 GATTTTTGTGCGTCCTGGGAG 59.800 52.381 0.00 0.00 0.00 4.30
2637 7646 1.243902 GATTTTTGTGCGTCCTGGGA 58.756 50.000 0.00 0.00 0.00 4.37
2638 7647 0.109781 CGATTTTTGTGCGTCCTGGG 60.110 55.000 0.00 0.00 0.00 4.45
2639 7648 0.591170 ACGATTTTTGTGCGTCCTGG 59.409 50.000 0.00 0.00 31.98 4.45
2640 7649 1.950472 GACGATTTTTGTGCGTCCTG 58.050 50.000 0.00 0.00 46.15 3.86
2644 7653 0.536460 AGGGGACGATTTTTGTGCGT 60.536 50.000 0.00 0.00 41.45 5.24
2645 7654 0.109781 CAGGGGACGATTTTTGTGCG 60.110 55.000 0.00 0.00 0.00 5.34
2646 7655 0.243636 CCAGGGGACGATTTTTGTGC 59.756 55.000 0.00 0.00 0.00 4.57
2647 7656 0.887933 CCCAGGGGACGATTTTTGTG 59.112 55.000 0.00 0.00 37.50 3.33
2648 7657 3.356814 CCCAGGGGACGATTTTTGT 57.643 52.632 0.00 0.00 37.50 2.83
2668 7677 4.427661 AGTGTCTCGCCTGCTCGC 62.428 66.667 0.00 0.00 0.00 5.03
2669 7678 2.202544 GAGTGTCTCGCCTGCTCG 60.203 66.667 0.00 0.00 0.00 5.03
2670 7679 2.202544 CGAGTGTCTCGCCTGCTC 60.203 66.667 6.24 0.00 46.75 4.26
2678 7687 4.803426 CCCAGCGCCGAGTGTCTC 62.803 72.222 2.29 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.