Multiple sequence alignment - TraesCS7D01G063100

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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 TraesCS7D01G063100 chr7D 100.000 2447 0 0 1 2447 34336259 34338705 0.000000e+00 4519
1 TraesCS7D01G063100 chr7D 82.844 851 72 19 1666 2447 24148464 24147619 0.000000e+00 695
2 TraesCS7D01G063100 chr7D 96.491 228 8 0 1 228 436840863 436841090 6.390000e-101 377
3 TraesCS7D01G063100 chr7D 95.299 234 11 0 1 234 629256565 629256798 2.970000e-99 372
4 TraesCS7D01G063100 chr7D 76.011 371 67 17 1034 1398 204087310 204086956 3.230000e-39 172
5 TraesCS7D01G063100 chr2D 93.578 654 33 5 229 873 376698298 376698951 0.000000e+00 966
6 TraesCS7D01G063100 chr2D 91.818 660 39 9 229 873 86068836 86069495 0.000000e+00 905
7 TraesCS7D01G063100 chr2D 90.923 661 43 9 229 873 79278284 79278943 0.000000e+00 872
8 TraesCS7D01G063100 chr2D 86.220 820 67 12 1668 2445 602250258 602251073 0.000000e+00 846
9 TraesCS7D01G063100 chr2D 82.436 854 71 34 1668 2447 488314061 488314909 0.000000e+00 673
10 TraesCS7D01G063100 chr2D 96.930 228 7 0 1 228 376697979 376698206 1.370000e-102 383
11 TraesCS7D01G063100 chr5D 91.528 661 38 10 229 873 8404262 8404920 0.000000e+00 894
12 TraesCS7D01G063100 chr5D 90.909 660 44 8 229 873 69415784 69416442 0.000000e+00 872
13 TraesCS7D01G063100 chr5D 83.658 771 70 27 1720 2447 287813055 287813812 0.000000e+00 675
14 TraesCS7D01G063100 chr5D 83.046 696 65 18 1786 2447 398812467 398813143 1.260000e-162 582
15 TraesCS7D01G063100 chr6D 91.239 662 41 6 229 873 450665751 450666412 0.000000e+00 885
16 TraesCS7D01G063100 chr6D 90.744 659 47 8 229 873 290326923 290327581 0.000000e+00 867
17 TraesCS7D01G063100 chr6D 83.236 686 80 13 1794 2447 223930443 223929761 4.500000e-167 597
18 TraesCS7D01G063100 chr6D 78.894 687 92 24 1808 2447 291972648 291973328 1.350000e-112 416
19 TraesCS7D01G063100 chr6D 96.053 228 9 0 1 228 59193527 59193754 2.970000e-99 372
20 TraesCS7D01G063100 chr6D 96.053 228 9 0 1 228 355881658 355881885 2.970000e-99 372
21 TraesCS7D01G063100 chr1D 90.909 660 44 9 229 873 398095964 398096622 0.000000e+00 872
22 TraesCS7D01G063100 chr1D 86.369 807 79 10 1668 2447 229039305 229040107 0.000000e+00 852
23 TraesCS7D01G063100 chr1D 96.491 228 8 0 1 228 36398744 36398517 6.390000e-101 377
24 TraesCS7D01G063100 chr1D 96.053 228 9 0 1 228 415429648 415429421 2.970000e-99 372
25 TraesCS7D01G063100 chr1D 96.053 228 9 0 1 228 417585838 417586065 2.970000e-99 372
26 TraesCS7D01G063100 chrUn 90.785 662 43 7 229 873 96049064 96049724 0.000000e+00 869
27 TraesCS7D01G063100 chr2B 85.472 826 74 15 1667 2447 497857244 497858068 0.000000e+00 819
28 TraesCS7D01G063100 chr7B 83.832 835 80 21 1666 2447 387834301 387835133 0.000000e+00 743
29 TraesCS7D01G063100 chr7B 88.530 279 27 5 1665 1941 627599260 627598985 1.400000e-87 333
30 TraesCS7D01G063100 chr7B 76.139 373 63 22 1034 1398 167687164 167686810 3.230000e-39 172
31 TraesCS7D01G063100 chr1B 83.883 819 73 29 1672 2447 52023702 52024504 0.000000e+00 726
32 TraesCS7D01G063100 chr7A 85.547 685 40 29 872 1508 34721944 34722617 0.000000e+00 662
33 TraesCS7D01G063100 chr7A 79.371 509 74 10 1969 2447 607527200 607526693 1.810000e-86 329
34 TraesCS7D01G063100 chr7A 77.551 441 62 15 1862 2291 663382690 663383104 5.260000e-57 231
35 TraesCS7D01G063100 chr7A 75.946 370 69 14 1034 1398 215879874 215879520 3.230000e-39 172
36 TraesCS7D01G063100 chr5B 85.437 618 57 18 1705 2292 535076664 535077278 1.610000e-171 612
37 TraesCS7D01G063100 chr5B 88.693 283 27 5 1668 1946 426023042 426022761 8.380000e-90 340
38 TraesCS7D01G063100 chr4A 80.819 855 85 37 1665 2446 504190862 504190014 4.500000e-167 597
39 TraesCS7D01G063100 chr4A 79.339 847 94 28 1668 2447 719103874 719103042 1.000000e-143 520
40 TraesCS7D01G063100 chr1A 80.920 739 79 25 1668 2359 564623712 564622989 5.990000e-146 527
41 TraesCS7D01G063100 chr3A 79.236 838 108 37 1666 2447 93048894 93049721 7.750000e-145 523
42 TraesCS7D01G063100 chr4D 91.247 377 31 2 1030 1404 508807551 508807175 1.680000e-141 512
43 TraesCS7D01G063100 chr4D 83.877 521 46 11 1965 2447 283769064 283768544 1.710000e-126 462
44 TraesCS7D01G063100 chr4D 96.053 228 9 0 1 228 277432102 277431875 2.970000e-99 372
45 TraesCS7D01G063100 chr4D 82.320 362 42 4 2108 2447 427917613 427917252 6.620000e-76 294


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 TraesCS7D01G063100 chr7D 34336259 34338705 2446 False 4519.0 4519 100.000 1 2447 1 chr7D.!!$F1 2446
1 TraesCS7D01G063100 chr7D 24147619 24148464 845 True 695.0 695 82.844 1666 2447 1 chr7D.!!$R1 781
2 TraesCS7D01G063100 chr2D 86068836 86069495 659 False 905.0 905 91.818 229 873 1 chr2D.!!$F2 644
3 TraesCS7D01G063100 chr2D 79278284 79278943 659 False 872.0 872 90.923 229 873 1 chr2D.!!$F1 644
4 TraesCS7D01G063100 chr2D 602250258 602251073 815 False 846.0 846 86.220 1668 2445 1 chr2D.!!$F4 777
5 TraesCS7D01G063100 chr2D 376697979 376698951 972 False 674.5 966 95.254 1 873 2 chr2D.!!$F5 872
6 TraesCS7D01G063100 chr2D 488314061 488314909 848 False 673.0 673 82.436 1668 2447 1 chr2D.!!$F3 779
7 TraesCS7D01G063100 chr5D 8404262 8404920 658 False 894.0 894 91.528 229 873 1 chr5D.!!$F1 644
8 TraesCS7D01G063100 chr5D 69415784 69416442 658 False 872.0 872 90.909 229 873 1 chr5D.!!$F2 644
9 TraesCS7D01G063100 chr5D 287813055 287813812 757 False 675.0 675 83.658 1720 2447 1 chr5D.!!$F3 727
10 TraesCS7D01G063100 chr5D 398812467 398813143 676 False 582.0 582 83.046 1786 2447 1 chr5D.!!$F4 661
11 TraesCS7D01G063100 chr6D 450665751 450666412 661 False 885.0 885 91.239 229 873 1 chr6D.!!$F5 644
12 TraesCS7D01G063100 chr6D 290326923 290327581 658 False 867.0 867 90.744 229 873 1 chr6D.!!$F2 644
13 TraesCS7D01G063100 chr6D 223929761 223930443 682 True 597.0 597 83.236 1794 2447 1 chr6D.!!$R1 653
14 TraesCS7D01G063100 chr6D 291972648 291973328 680 False 416.0 416 78.894 1808 2447 1 chr6D.!!$F3 639
15 TraesCS7D01G063100 chr1D 398095964 398096622 658 False 872.0 872 90.909 229 873 1 chr1D.!!$F2 644
16 TraesCS7D01G063100 chr1D 229039305 229040107 802 False 852.0 852 86.369 1668 2447 1 chr1D.!!$F1 779
17 TraesCS7D01G063100 chrUn 96049064 96049724 660 False 869.0 869 90.785 229 873 1 chrUn.!!$F1 644
18 TraesCS7D01G063100 chr2B 497857244 497858068 824 False 819.0 819 85.472 1667 2447 1 chr2B.!!$F1 780
19 TraesCS7D01G063100 chr7B 387834301 387835133 832 False 743.0 743 83.832 1666 2447 1 chr7B.!!$F1 781
20 TraesCS7D01G063100 chr1B 52023702 52024504 802 False 726.0 726 83.883 1672 2447 1 chr1B.!!$F1 775
21 TraesCS7D01G063100 chr7A 34721944 34722617 673 False 662.0 662 85.547 872 1508 1 chr7A.!!$F1 636
22 TraesCS7D01G063100 chr7A 607526693 607527200 507 True 329.0 329 79.371 1969 2447 1 chr7A.!!$R2 478
23 TraesCS7D01G063100 chr5B 535076664 535077278 614 False 612.0 612 85.437 1705 2292 1 chr5B.!!$F1 587
24 TraesCS7D01G063100 chr4A 504190014 504190862 848 True 597.0 597 80.819 1665 2446 1 chr4A.!!$R1 781
25 TraesCS7D01G063100 chr4A 719103042 719103874 832 True 520.0 520 79.339 1668 2447 1 chr4A.!!$R2 779
26 TraesCS7D01G063100 chr1A 564622989 564623712 723 True 527.0 527 80.920 1668 2359 1 chr1A.!!$R1 691
27 TraesCS7D01G063100 chr3A 93048894 93049721 827 False 523.0 523 79.236 1666 2447 1 chr3A.!!$F1 781
28 TraesCS7D01G063100 chr4D 283768544 283769064 520 True 462.0 462 83.877 1965 2447 1 chr4D.!!$R2 482

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
887 1000 0.106708 GTTCTCACTGCTCACCACCA 59.893 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1780 1947 0.757188 TGTTTGTGCCGATTTGGGGT 60.757 50.0 0.0 0.0 38.63 4.95 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
23 24 4.275508 CACTGCCACCACTGCCCT 62.276 66.667 0.00 0.00 0.00 5.19
24 25 4.275508 ACTGCCACCACTGCCCTG 62.276 66.667 0.00 0.00 0.00 4.45
51 52 8.029522 CAGAACTTGTAGAAACACTCTATGCTA 58.970 37.037 0.00 0.00 38.91 3.49
189 190 6.446781 CAATCCATCTTGCAGTTGAAGTAT 57.553 37.500 0.00 0.00 0.00 2.12
191 192 4.517285 TCCATCTTGCAGTTGAAGTATCC 58.483 43.478 0.00 0.00 0.00 2.59
201 202 3.119566 AGTTGAAGTATCCGTCGAACTCC 60.120 47.826 0.00 0.00 0.00 3.85
427 519 1.608717 GAGTCCATCACCGAGGCAGT 61.609 60.000 0.00 0.00 0.00 4.40
670 774 8.201464 GGGAAGAAAATTTTGACTTTTCACCTA 58.799 33.333 8.47 0.00 42.42 3.08
675 779 7.728847 AAATTTTGACTTTTCACCTAATGGC 57.271 32.000 0.00 0.00 36.63 4.40
698 802 4.050934 CCAACCGCGCTTTTCCCC 62.051 66.667 5.56 0.00 0.00 4.81
780 889 2.112297 AGGGCCGAACGCTTTTCA 59.888 55.556 0.00 0.00 38.70 2.69
887 1000 0.106708 GTTCTCACTGCTCACCACCA 59.893 55.000 0.00 0.00 0.00 4.17
928 1041 2.282040 AAGGTCCGTCTCCGTCGT 60.282 61.111 0.00 0.00 0.00 4.34
933 1046 1.004080 TCCGTCTCCGTCGTCTCTT 60.004 57.895 0.00 0.00 0.00 2.85
966 1079 9.998106 ATTTCATACATATACCACTAGTTCACC 57.002 33.333 0.00 0.00 0.00 4.02
975 1104 1.258445 ACTAGTTCACCCAGCCGGAG 61.258 60.000 5.05 0.00 34.64 4.63
994 1123 1.959085 CGTACGTACAGGTGGTGGT 59.041 57.895 24.50 0.00 0.00 4.16
1006 1135 0.739462 GTGGTGGTGATCGATGCGAA 60.739 55.000 0.54 0.00 39.99 4.70
1008 1137 0.460284 GGTGGTGATCGATGCGAACT 60.460 55.000 0.54 0.00 39.99 3.01
1028 1157 1.734748 GGAGTACTACGAGCTGGGC 59.265 63.158 0.00 0.00 0.00 5.36
1032 1161 3.650298 TACTACGAGCTGGGCCGGT 62.650 63.158 15.16 7.02 0.00 5.28
1291 1437 3.507009 GCTCCGAGTACGACCGCT 61.507 66.667 0.00 0.00 42.66 5.52
1405 1552 4.717629 CCGCCGCGTCAAGTGAGA 62.718 66.667 12.58 0.00 0.00 3.27
1417 1564 4.920340 CGTCAAGTGAGATGCATATCTACC 59.080 45.833 21.18 9.84 43.63 3.18
1419 1566 5.925397 GTCAAGTGAGATGCATATCTACCAG 59.075 44.000 21.18 12.44 43.63 4.00
1421 1568 3.260380 AGTGAGATGCATATCTACCAGCC 59.740 47.826 21.18 2.33 43.63 4.85
1422 1569 2.232208 TGAGATGCATATCTACCAGCCG 59.768 50.000 21.18 0.00 43.63 5.52
1423 1570 2.232452 GAGATGCATATCTACCAGCCGT 59.768 50.000 14.07 0.00 43.63 5.68
1433 1593 1.540435 TACCAGCCGTGTCAGATGCA 61.540 55.000 0.00 0.00 0.00 3.96
1434 1594 1.450848 CCAGCCGTGTCAGATGCAT 60.451 57.895 0.00 0.00 0.00 3.96
1458 1618 2.668457 CTGCCAGTAGTGTCATTTCGTC 59.332 50.000 0.00 0.00 0.00 4.20
1464 1624 5.179368 CCAGTAGTGTCATTTCGTCACAATT 59.821 40.000 0.00 0.00 36.27 2.32
1465 1625 6.293407 CCAGTAGTGTCATTTCGTCACAATTT 60.293 38.462 0.00 0.00 36.27 1.82
1466 1626 7.095397 CCAGTAGTGTCATTTCGTCACAATTTA 60.095 37.037 0.00 0.00 36.27 1.40
1467 1627 8.443160 CAGTAGTGTCATTTCGTCACAATTTAT 58.557 33.333 0.00 0.00 36.27 1.40
1468 1628 8.443160 AGTAGTGTCATTTCGTCACAATTTATG 58.557 33.333 0.00 0.00 36.27 1.90
1469 1629 7.202016 AGTGTCATTTCGTCACAATTTATGT 57.798 32.000 0.00 0.00 45.34 2.29
1471 1631 6.523201 GTGTCATTTCGTCACAATTTATGTCC 59.477 38.462 0.00 0.00 41.46 4.02
1472 1632 6.429692 TGTCATTTCGTCACAATTTATGTCCT 59.570 34.615 0.00 0.00 41.46 3.85
1473 1633 7.040755 TGTCATTTCGTCACAATTTATGTCCTT 60.041 33.333 0.00 0.00 41.46 3.36
1474 1634 8.447833 GTCATTTCGTCACAATTTATGTCCTTA 58.552 33.333 0.00 0.00 41.46 2.69
1475 1635 9.004717 TCATTTCGTCACAATTTATGTCCTTAA 57.995 29.630 0.00 0.00 41.46 1.85
1476 1636 9.787532 CATTTCGTCACAATTTATGTCCTTAAT 57.212 29.630 0.00 0.00 41.46 1.40
1480 1640 8.885722 TCGTCACAATTTATGTCCTTAATTACC 58.114 33.333 0.00 0.00 41.46 2.85
1481 1641 8.889717 CGTCACAATTTATGTCCTTAATTACCT 58.110 33.333 0.00 0.00 41.46 3.08
1490 1650 7.703058 ATGTCCTTAATTACCTTGGTTTCTG 57.297 36.000 0.00 0.00 0.00 3.02
1516 1676 5.591643 GTTGTGACGATCTTTGCTTTAGA 57.408 39.130 0.00 0.00 0.00 2.10
1517 1677 5.612865 GTTGTGACGATCTTTGCTTTAGAG 58.387 41.667 0.00 0.00 0.00 2.43
1518 1678 4.883083 TGTGACGATCTTTGCTTTAGAGT 58.117 39.130 0.00 0.00 0.00 3.24
1519 1679 4.686091 TGTGACGATCTTTGCTTTAGAGTG 59.314 41.667 0.00 0.00 0.00 3.51
1520 1680 4.092091 GTGACGATCTTTGCTTTAGAGTGG 59.908 45.833 0.00 0.00 0.00 4.00
1521 1681 4.021456 TGACGATCTTTGCTTTAGAGTGGA 60.021 41.667 0.00 0.00 0.00 4.02
1522 1682 4.246458 ACGATCTTTGCTTTAGAGTGGAC 58.754 43.478 0.00 0.00 0.00 4.02
1523 1683 3.619038 CGATCTTTGCTTTAGAGTGGACC 59.381 47.826 0.00 0.00 0.00 4.46
1524 1684 3.418684 TCTTTGCTTTAGAGTGGACCC 57.581 47.619 0.00 0.00 0.00 4.46
1525 1685 2.039879 TCTTTGCTTTAGAGTGGACCCC 59.960 50.000 0.00 0.00 0.00 4.95
1526 1686 0.323629 TTGCTTTAGAGTGGACCCCG 59.676 55.000 0.00 0.00 0.00 5.73
1527 1687 0.834687 TGCTTTAGAGTGGACCCCGT 60.835 55.000 0.00 0.00 0.00 5.28
1528 1688 0.108281 GCTTTAGAGTGGACCCCGTC 60.108 60.000 0.00 0.00 0.00 4.79
1529 1689 1.263356 CTTTAGAGTGGACCCCGTCA 58.737 55.000 0.00 0.00 33.68 4.35
1530 1690 1.831736 CTTTAGAGTGGACCCCGTCAT 59.168 52.381 0.00 0.00 33.68 3.06
1531 1691 2.832643 TTAGAGTGGACCCCGTCATA 57.167 50.000 0.00 0.00 33.68 2.15
1532 1692 3.323774 TTAGAGTGGACCCCGTCATAT 57.676 47.619 0.00 0.00 33.68 1.78
1533 1693 1.705873 AGAGTGGACCCCGTCATATC 58.294 55.000 0.00 0.00 33.68 1.63
1534 1694 0.314302 GAGTGGACCCCGTCATATCG 59.686 60.000 0.00 0.00 33.68 2.92
1535 1695 0.106369 AGTGGACCCCGTCATATCGA 60.106 55.000 0.00 0.00 33.68 3.59
1536 1696 0.748450 GTGGACCCCGTCATATCGAA 59.252 55.000 0.00 0.00 33.68 3.71
1537 1697 1.343465 GTGGACCCCGTCATATCGAAT 59.657 52.381 0.00 0.00 33.68 3.34
1538 1698 1.616865 TGGACCCCGTCATATCGAATC 59.383 52.381 0.00 0.00 33.68 2.52
1539 1699 1.616865 GGACCCCGTCATATCGAATCA 59.383 52.381 0.00 0.00 33.68 2.57
1540 1700 2.609737 GGACCCCGTCATATCGAATCAC 60.610 54.545 0.00 0.00 33.68 3.06
1541 1701 1.000607 ACCCCGTCATATCGAATCACG 60.001 52.381 0.00 0.00 44.09 4.35
1542 1702 1.000607 CCCCGTCATATCGAATCACGT 60.001 52.381 0.00 0.00 43.13 4.49
1543 1703 2.316792 CCCGTCATATCGAATCACGTC 58.683 52.381 0.00 0.00 43.13 4.34
1544 1704 2.287368 CCCGTCATATCGAATCACGTCA 60.287 50.000 0.00 0.00 43.13 4.35
1545 1705 3.368495 CCGTCATATCGAATCACGTCAA 58.632 45.455 0.00 0.00 43.13 3.18
1546 1706 3.981416 CCGTCATATCGAATCACGTCAAT 59.019 43.478 0.00 0.00 43.13 2.57
1547 1707 4.143535 CCGTCATATCGAATCACGTCAATG 60.144 45.833 0.00 0.00 43.13 2.82
1548 1708 4.661649 CGTCATATCGAATCACGTCAATGC 60.662 45.833 0.00 0.00 43.13 3.56
1549 1709 4.445718 GTCATATCGAATCACGTCAATGCT 59.554 41.667 0.00 0.00 43.13 3.79
1550 1710 5.049828 TCATATCGAATCACGTCAATGCTT 58.950 37.500 0.00 0.00 43.13 3.91
1551 1711 3.933155 ATCGAATCACGTCAATGCTTC 57.067 42.857 0.00 0.00 43.13 3.86
1552 1712 2.959516 TCGAATCACGTCAATGCTTCT 58.040 42.857 0.00 0.00 43.13 2.85
1553 1713 3.325870 TCGAATCACGTCAATGCTTCTT 58.674 40.909 0.00 0.00 43.13 2.52
1554 1714 3.745975 TCGAATCACGTCAATGCTTCTTT 59.254 39.130 0.00 0.00 43.13 2.52
1555 1715 4.213270 TCGAATCACGTCAATGCTTCTTTT 59.787 37.500 0.00 0.00 43.13 2.27
1556 1716 4.911610 CGAATCACGTCAATGCTTCTTTTT 59.088 37.500 0.00 0.00 37.22 1.94
1557 1717 5.058492 CGAATCACGTCAATGCTTCTTTTTC 59.942 40.000 0.00 0.00 37.22 2.29
1558 1718 5.695851 ATCACGTCAATGCTTCTTTTTCT 57.304 34.783 0.00 0.00 0.00 2.52
1559 1719 5.499139 TCACGTCAATGCTTCTTTTTCTT 57.501 34.783 0.00 0.00 0.00 2.52
1560 1720 5.890334 TCACGTCAATGCTTCTTTTTCTTT 58.110 33.333 0.00 0.00 0.00 2.52
1561 1721 6.329496 TCACGTCAATGCTTCTTTTTCTTTT 58.671 32.000 0.00 0.00 0.00 2.27
1562 1722 6.811170 TCACGTCAATGCTTCTTTTTCTTTTT 59.189 30.769 0.00 0.00 0.00 1.94
1563 1723 6.896088 CACGTCAATGCTTCTTTTTCTTTTTG 59.104 34.615 0.00 0.00 0.00 2.44
1564 1724 5.898061 CGTCAATGCTTCTTTTTCTTTTTGC 59.102 36.000 0.00 0.00 0.00 3.68
1565 1725 6.455380 CGTCAATGCTTCTTTTTCTTTTTGCA 60.455 34.615 0.00 0.00 0.00 4.08
1566 1726 7.412063 GTCAATGCTTCTTTTTCTTTTTGCAT 58.588 30.769 0.00 0.00 40.93 3.96
1567 1727 7.585210 GTCAATGCTTCTTTTTCTTTTTGCATC 59.415 33.333 0.00 0.00 38.69 3.91
1568 1728 5.989551 TGCTTCTTTTTCTTTTTGCATCC 57.010 34.783 0.00 0.00 0.00 3.51
1569 1729 4.815846 TGCTTCTTTTTCTTTTTGCATCCC 59.184 37.500 0.00 0.00 0.00 3.85
1570 1730 5.059161 GCTTCTTTTTCTTTTTGCATCCCT 58.941 37.500 0.00 0.00 0.00 4.20
1571 1731 5.178252 GCTTCTTTTTCTTTTTGCATCCCTC 59.822 40.000 0.00 0.00 0.00 4.30
1572 1732 4.870363 TCTTTTTCTTTTTGCATCCCTCG 58.130 39.130 0.00 0.00 0.00 4.63
1573 1733 2.723124 TTTCTTTTTGCATCCCTCGC 57.277 45.000 0.00 0.00 0.00 5.03
1574 1734 0.521291 TTCTTTTTGCATCCCTCGCG 59.479 50.000 0.00 0.00 0.00 5.87
1575 1735 0.605319 TCTTTTTGCATCCCTCGCGT 60.605 50.000 5.77 0.00 0.00 6.01
1576 1736 0.454957 CTTTTTGCATCCCTCGCGTG 60.455 55.000 5.77 2.75 0.00 5.34
1577 1737 0.886938 TTTTTGCATCCCTCGCGTGA 60.887 50.000 10.21 0.00 0.00 4.35
1578 1738 0.886938 TTTTGCATCCCTCGCGTGAA 60.887 50.000 10.21 0.00 0.00 3.18
1579 1739 0.886938 TTTGCATCCCTCGCGTGAAA 60.887 50.000 10.21 0.00 0.00 2.69
1580 1740 1.298157 TTGCATCCCTCGCGTGAAAG 61.298 55.000 10.21 0.00 0.00 2.62
1581 1741 2.464459 GCATCCCTCGCGTGAAAGG 61.464 63.158 10.21 7.20 0.00 3.11
1582 1742 1.079127 CATCCCTCGCGTGAAAGGT 60.079 57.895 10.21 0.00 0.00 3.50
1583 1743 0.174845 CATCCCTCGCGTGAAAGGTA 59.825 55.000 10.21 0.00 0.00 3.08
1584 1744 1.120530 ATCCCTCGCGTGAAAGGTAT 58.879 50.000 10.21 0.00 0.00 2.73
1585 1745 0.458669 TCCCTCGCGTGAAAGGTATC 59.541 55.000 10.21 0.00 0.00 2.24
1586 1746 0.460311 CCCTCGCGTGAAAGGTATCT 59.540 55.000 10.21 0.00 0.00 1.98
1587 1747 1.134788 CCCTCGCGTGAAAGGTATCTT 60.135 52.381 10.21 0.00 34.07 2.40
1588 1748 1.927174 CCTCGCGTGAAAGGTATCTTG 59.073 52.381 10.21 0.00 32.75 3.02
1589 1749 2.607187 CTCGCGTGAAAGGTATCTTGT 58.393 47.619 5.77 0.00 32.75 3.16
1590 1750 2.993899 CTCGCGTGAAAGGTATCTTGTT 59.006 45.455 5.77 0.00 32.75 2.83
1591 1751 3.395639 TCGCGTGAAAGGTATCTTGTTT 58.604 40.909 5.77 0.00 32.75 2.83
1592 1752 3.810941 TCGCGTGAAAGGTATCTTGTTTT 59.189 39.130 5.77 0.00 32.75 2.43
1593 1753 4.084223 TCGCGTGAAAGGTATCTTGTTTTC 60.084 41.667 5.77 0.00 32.75 2.29
1594 1754 4.084013 CGCGTGAAAGGTATCTTGTTTTCT 60.084 41.667 0.00 0.00 32.75 2.52
1595 1755 5.119588 CGCGTGAAAGGTATCTTGTTTTCTA 59.880 40.000 0.00 0.00 32.75 2.10
1596 1756 6.347079 CGCGTGAAAGGTATCTTGTTTTCTAA 60.347 38.462 0.00 0.00 32.75 2.10
1597 1757 7.015877 GCGTGAAAGGTATCTTGTTTTCTAAG 58.984 38.462 0.00 0.00 32.75 2.18
1598 1758 7.519002 CGTGAAAGGTATCTTGTTTTCTAAGG 58.481 38.462 0.00 0.00 32.75 2.69
1599 1759 7.360946 CGTGAAAGGTATCTTGTTTTCTAAGGG 60.361 40.741 0.00 0.00 32.75 3.95
1600 1760 6.433093 TGAAAGGTATCTTGTTTTCTAAGGGC 59.567 38.462 0.00 0.00 32.75 5.19
1601 1761 5.514500 AGGTATCTTGTTTTCTAAGGGCA 57.486 39.130 0.00 0.00 0.00 5.36
1602 1762 5.887754 AGGTATCTTGTTTTCTAAGGGCAA 58.112 37.500 0.00 0.00 0.00 4.52
1603 1763 5.710567 AGGTATCTTGTTTTCTAAGGGCAAC 59.289 40.000 0.00 0.00 0.00 4.17
1604 1764 5.710567 GGTATCTTGTTTTCTAAGGGCAACT 59.289 40.000 0.00 0.00 0.00 3.16
1605 1765 6.208797 GGTATCTTGTTTTCTAAGGGCAACTT 59.791 38.462 0.00 0.00 43.28 2.66
1606 1766 6.731292 ATCTTGTTTTCTAAGGGCAACTTT 57.269 33.333 0.00 0.00 40.64 2.66
1607 1767 6.144078 TCTTGTTTTCTAAGGGCAACTTTC 57.856 37.500 0.00 0.00 40.64 2.62
1608 1768 5.654650 TCTTGTTTTCTAAGGGCAACTTTCA 59.345 36.000 0.00 0.00 40.64 2.69
1609 1769 5.923733 TGTTTTCTAAGGGCAACTTTCAA 57.076 34.783 0.00 0.00 40.64 2.69
1610 1770 6.287589 TGTTTTCTAAGGGCAACTTTCAAA 57.712 33.333 0.00 0.00 40.64 2.69
1611 1771 6.103330 TGTTTTCTAAGGGCAACTTTCAAAC 58.897 36.000 0.00 6.54 40.64 2.93
1612 1772 4.561735 TTCTAAGGGCAACTTTCAAACG 57.438 40.909 0.00 0.00 40.64 3.60
1613 1773 2.292292 TCTAAGGGCAACTTTCAAACGC 59.708 45.455 0.00 0.00 40.64 4.84
1614 1774 0.248866 AAGGGCAACTTTCAAACGCG 60.249 50.000 3.53 3.53 35.35 6.01
1615 1775 1.660264 GGGCAACTTTCAAACGCGG 60.660 57.895 12.47 0.00 0.00 6.46
1616 1776 1.065109 GGCAACTTTCAAACGCGGT 59.935 52.632 12.47 0.00 0.00 5.68
1617 1777 1.206115 GGCAACTTTCAAACGCGGTG 61.206 55.000 12.47 8.58 0.00 4.94
1618 1778 1.807242 GCAACTTTCAAACGCGGTGC 61.807 55.000 12.47 0.00 0.00 5.01
1619 1779 0.524392 CAACTTTCAAACGCGGTGCA 60.524 50.000 12.47 0.00 0.00 4.57
1620 1780 0.524604 AACTTTCAAACGCGGTGCAC 60.525 50.000 12.47 8.80 0.00 4.57
1621 1781 1.657181 CTTTCAAACGCGGTGCACC 60.657 57.895 26.78 26.78 0.00 5.01
1622 1782 2.329678 CTTTCAAACGCGGTGCACCA 62.330 55.000 34.16 11.37 35.14 4.17
1623 1783 1.934220 TTTCAAACGCGGTGCACCAA 61.934 50.000 34.16 16.92 35.14 3.67
1624 1784 1.934220 TTCAAACGCGGTGCACCAAA 61.934 50.000 34.16 13.51 35.14 3.28
1625 1785 1.517257 CAAACGCGGTGCACCAAAA 60.517 52.632 34.16 0.00 35.14 2.44
1626 1786 1.517475 AAACGCGGTGCACCAAAAC 60.517 52.632 34.16 19.08 35.14 2.43
1627 1787 2.214181 AAACGCGGTGCACCAAAACA 62.214 50.000 34.16 0.00 35.14 2.83
1628 1788 2.103143 CGCGGTGCACCAAAACAA 59.897 55.556 34.16 0.00 35.14 2.83
1629 1789 1.517257 CGCGGTGCACCAAAACAAA 60.517 52.632 34.16 0.00 35.14 2.83
1630 1790 1.747686 CGCGGTGCACCAAAACAAAC 61.748 55.000 34.16 11.95 35.14 2.93
1631 1791 0.737715 GCGGTGCACCAAAACAAACA 60.738 50.000 34.16 0.00 35.14 2.83
1632 1792 0.995728 CGGTGCACCAAAACAAACAC 59.004 50.000 34.16 3.97 35.14 3.32
1633 1793 1.670087 CGGTGCACCAAAACAAACACA 60.670 47.619 34.16 0.00 35.14 3.72
1634 1794 1.729517 GGTGCACCAAAACAAACACAC 59.270 47.619 31.23 0.00 35.64 3.82
1635 1795 2.611722 GGTGCACCAAAACAAACACACT 60.612 45.455 31.23 0.00 35.64 3.55
1636 1796 2.666022 GTGCACCAAAACAAACACACTC 59.334 45.455 5.22 0.00 0.00 3.51
1637 1797 2.297315 TGCACCAAAACAAACACACTCA 59.703 40.909 0.00 0.00 0.00 3.41
1638 1798 3.243873 TGCACCAAAACAAACACACTCAA 60.244 39.130 0.00 0.00 0.00 3.02
1639 1799 3.367630 GCACCAAAACAAACACACTCAAG 59.632 43.478 0.00 0.00 0.00 3.02
1640 1800 3.925913 CACCAAAACAAACACACTCAAGG 59.074 43.478 0.00 0.00 0.00 3.61
1641 1801 3.829601 ACCAAAACAAACACACTCAAGGA 59.170 39.130 0.00 0.00 0.00 3.36
1642 1802 4.466015 ACCAAAACAAACACACTCAAGGAT 59.534 37.500 0.00 0.00 0.00 3.24
1643 1803 4.805192 CCAAAACAAACACACTCAAGGATG 59.195 41.667 0.00 0.00 0.00 3.51
1644 1804 3.715628 AACAAACACACTCAAGGATGC 57.284 42.857 0.00 0.00 0.00 3.91
1645 1805 1.603802 ACAAACACACTCAAGGATGCG 59.396 47.619 0.00 0.00 0.00 4.73
1646 1806 1.603802 CAAACACACTCAAGGATGCGT 59.396 47.619 0.00 0.00 0.00 5.24
1647 1807 1.967319 AACACACTCAAGGATGCGTT 58.033 45.000 0.00 0.00 0.00 4.84
1648 1808 1.967319 ACACACTCAAGGATGCGTTT 58.033 45.000 0.00 0.00 0.00 3.60
1649 1809 1.603802 ACACACTCAAGGATGCGTTTG 59.396 47.619 0.00 0.00 30.30 2.93
1650 1810 1.872952 CACACTCAAGGATGCGTTTGA 59.127 47.619 0.00 0.00 26.08 2.69
1651 1811 2.485426 CACACTCAAGGATGCGTTTGAT 59.515 45.455 0.00 0.00 33.25 2.57
1652 1812 3.684305 CACACTCAAGGATGCGTTTGATA 59.316 43.478 0.00 0.00 33.25 2.15
1653 1813 4.333649 CACACTCAAGGATGCGTTTGATAT 59.666 41.667 0.00 0.00 33.25 1.63
1654 1814 4.333649 ACACTCAAGGATGCGTTTGATATG 59.666 41.667 0.00 0.13 33.25 1.78
1655 1815 4.333649 CACTCAAGGATGCGTTTGATATGT 59.666 41.667 0.00 0.00 33.25 2.29
1656 1816 4.943705 ACTCAAGGATGCGTTTGATATGTT 59.056 37.500 0.00 0.00 33.25 2.71
1657 1817 5.163723 ACTCAAGGATGCGTTTGATATGTTG 60.164 40.000 0.00 0.00 33.25 3.33
1658 1818 3.698029 AGGATGCGTTTGATATGTTGC 57.302 42.857 0.00 0.00 0.00 4.17
1659 1819 3.016031 AGGATGCGTTTGATATGTTGCA 58.984 40.909 0.00 0.00 36.69 4.08
1660 1820 3.633525 AGGATGCGTTTGATATGTTGCAT 59.366 39.130 0.00 0.00 44.95 3.96
1662 1822 3.419264 TGCGTTTGATATGTTGCATCC 57.581 42.857 0.00 0.00 0.00 3.51
1663 1823 2.098934 TGCGTTTGATATGTTGCATCCC 59.901 45.455 0.00 0.00 0.00 3.85
1688 1848 2.579201 CATCTCCAGCCGTTCGGT 59.421 61.111 12.81 0.00 0.00 4.69
1692 1852 2.036098 TCCAGCCGTTCGGTCCTA 59.964 61.111 12.81 0.00 0.00 2.94
1693 1853 1.380785 TCCAGCCGTTCGGTCCTAT 60.381 57.895 12.81 0.00 0.00 2.57
2051 2386 0.388520 CATCGTCGCTGTCAAGGACA 60.389 55.000 0.00 0.00 40.50 4.02
2396 2834 2.358737 CTGTGGCGTCCAGGAACC 60.359 66.667 3.08 3.08 32.34 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 5.023533 AGAGTGTTTCTACAAGTTCTGCA 57.976 39.130 0.00 0.00 35.69 4.41
24 25 6.401581 GCATAGAGTGTTTCTACAAGTTCTGC 60.402 42.308 0.00 0.00 41.10 4.26
51 52 4.457496 CGCATGGCCGAGTCCACT 62.457 66.667 0.00 0.00 39.25 4.00
180 181 3.177487 GGAGTTCGACGGATACTTCAAC 58.823 50.000 0.00 0.00 33.69 3.18
191 192 2.104331 CCATCCGGGAGTTCGACG 59.896 66.667 0.00 0.00 40.01 5.12
201 202 2.620115 CAGGATTGTGAATTCCATCCGG 59.380 50.000 16.89 14.24 33.67 5.14
284 376 0.516877 CGAGCAATGAAAAGCCGTGA 59.483 50.000 0.00 0.00 0.00 4.35
387 479 3.417275 ATGACGAGGAAGCGCTCGG 62.417 63.158 12.06 0.44 46.10 4.63
427 519 0.871722 CAAGGTGTTCGGCGATTTGA 59.128 50.000 11.76 0.00 0.00 2.69
491 583 3.153270 TTTTTGGCCGCCGTTTCCC 62.153 57.895 4.58 0.00 0.00 3.97
858 971 3.364549 AGCAGTGAGAACATCTCTAGCT 58.635 45.455 8.68 10.94 43.73 3.32
862 975 2.233431 GGTGAGCAGTGAGAACATCTCT 59.767 50.000 8.68 0.00 43.73 3.10
869 982 0.106708 GTGGTGGTGAGCAGTGAGAA 59.893 55.000 0.00 0.00 0.00 2.87
921 1034 2.875087 TGAAACAAAGAGACGACGGA 57.125 45.000 0.00 0.00 0.00 4.69
953 1066 1.827399 CGGCTGGGTGAACTAGTGGT 61.827 60.000 0.00 0.00 0.00 4.16
954 1067 1.079127 CGGCTGGGTGAACTAGTGG 60.079 63.158 0.00 0.00 0.00 4.00
959 1072 4.021925 GCTCCGGCTGGGTGAACT 62.022 66.667 12.87 0.00 37.00 3.01
966 1079 3.511595 TACGTACGCTCCGGCTGG 61.512 66.667 16.72 4.71 36.09 4.85
975 1104 1.444895 CCACCACCTGTACGTACGC 60.445 63.158 20.18 0.00 0.00 4.42
978 1107 1.820519 GATCACCACCACCTGTACGTA 59.179 52.381 0.00 0.00 0.00 3.57
981 1110 0.892755 TCGATCACCACCACCTGTAC 59.107 55.000 0.00 0.00 0.00 2.90
982 1111 1.480545 CATCGATCACCACCACCTGTA 59.519 52.381 0.00 0.00 0.00 2.74
994 1123 0.103026 CTCCCAGTTCGCATCGATCA 59.897 55.000 0.00 0.00 35.23 2.92
1006 1135 1.682394 CCAGCTCGTAGTACTCCCAGT 60.682 57.143 0.00 0.00 0.00 4.00
1008 1137 0.395311 CCCAGCTCGTAGTACTCCCA 60.395 60.000 0.00 0.00 0.00 4.37
1073 1218 2.329678 ATCTTGTCGAGCTCCGCGAG 62.330 60.000 8.23 10.26 36.24 5.03
1078 1223 0.820871 ACAGGATCTTGTCGAGCTCC 59.179 55.000 8.47 2.09 40.33 4.70
1251 1397 3.134127 GGCTTGTCACGGGGCATC 61.134 66.667 0.00 0.00 0.00 3.91
1260 1406 4.704833 GAGCTGCCCGGCTTGTCA 62.705 66.667 11.61 0.00 43.20 3.58
1400 1547 3.594134 GGCTGGTAGATATGCATCTCAC 58.406 50.000 13.90 9.55 40.81 3.51
1404 1551 2.289072 ACACGGCTGGTAGATATGCATC 60.289 50.000 0.19 0.00 0.00 3.91
1405 1552 1.694150 ACACGGCTGGTAGATATGCAT 59.306 47.619 3.79 3.79 0.00 3.96
1409 1556 2.945456 TCTGACACGGCTGGTAGATAT 58.055 47.619 0.00 0.00 0.00 1.63
1410 1557 2.430248 TCTGACACGGCTGGTAGATA 57.570 50.000 0.00 0.00 0.00 1.98
1411 1558 1.410517 CATCTGACACGGCTGGTAGAT 59.589 52.381 0.00 0.00 0.00 1.98
1412 1559 0.817654 CATCTGACACGGCTGGTAGA 59.182 55.000 0.00 0.00 0.00 2.59
1415 1562 2.046892 GCATCTGACACGGCTGGT 60.047 61.111 0.00 0.00 0.00 4.00
1416 1563 0.179076 TATGCATCTGACACGGCTGG 60.179 55.000 0.19 0.00 0.00 4.85
1417 1564 1.797046 GATATGCATCTGACACGGCTG 59.203 52.381 0.19 0.00 0.00 4.85
1419 1566 2.160822 AGATATGCATCTGACACGGC 57.839 50.000 0.19 0.00 40.15 5.68
1433 1593 5.163405 ACGAAATGACACTACTGGCAGATAT 60.163 40.000 23.66 0.55 39.48 1.63
1434 1594 4.159693 ACGAAATGACACTACTGGCAGATA 59.840 41.667 23.66 8.94 39.48 1.98
1441 1601 5.845985 ATTGTGACGAAATGACACTACTG 57.154 39.130 0.00 0.00 42.63 2.74
1445 1605 7.202016 ACATAAATTGTGACGAAATGACACT 57.798 32.000 0.00 0.00 42.63 3.55
1458 1618 9.801873 CCAAGGTAATTAAGGACATAAATTGTG 57.198 33.333 0.00 0.00 39.18 3.33
1464 1624 9.238368 CAGAAACCAAGGTAATTAAGGACATAA 57.762 33.333 0.00 0.00 0.00 1.90
1465 1625 8.607713 TCAGAAACCAAGGTAATTAAGGACATA 58.392 33.333 0.00 0.00 0.00 2.29
1466 1626 7.393515 GTCAGAAACCAAGGTAATTAAGGACAT 59.606 37.037 0.00 0.00 0.00 3.06
1467 1627 6.713450 GTCAGAAACCAAGGTAATTAAGGACA 59.287 38.462 0.00 0.00 0.00 4.02
1468 1628 7.142306 GTCAGAAACCAAGGTAATTAAGGAC 57.858 40.000 0.00 0.00 0.00 3.85
1500 1660 4.246458 GTCCACTCTAAAGCAAAGATCGT 58.754 43.478 0.00 0.00 0.00 3.73
1504 1664 2.039879 GGGGTCCACTCTAAAGCAAAGA 59.960 50.000 0.00 0.00 0.00 2.52
1505 1665 2.437413 GGGGTCCACTCTAAAGCAAAG 58.563 52.381 0.00 0.00 0.00 2.77
1507 1667 0.323629 CGGGGTCCACTCTAAAGCAA 59.676 55.000 0.00 0.00 0.00 3.91
1508 1668 0.834687 ACGGGGTCCACTCTAAAGCA 60.835 55.000 0.00 0.00 0.00 3.91
1509 1669 0.108281 GACGGGGTCCACTCTAAAGC 60.108 60.000 0.00 0.00 0.00 3.51
1510 1670 1.263356 TGACGGGGTCCACTCTAAAG 58.737 55.000 0.00 0.00 0.00 1.85
1511 1671 1.946984 ATGACGGGGTCCACTCTAAA 58.053 50.000 0.00 0.00 0.00 1.85
1512 1672 2.832643 TATGACGGGGTCCACTCTAA 57.167 50.000 0.00 0.00 0.00 2.10
1513 1673 2.812983 CGATATGACGGGGTCCACTCTA 60.813 54.545 0.00 0.00 0.00 2.43
1514 1674 1.705873 GATATGACGGGGTCCACTCT 58.294 55.000 0.00 0.00 0.00 3.24
1515 1675 0.314302 CGATATGACGGGGTCCACTC 59.686 60.000 0.00 0.00 0.00 3.51
1516 1676 0.106369 TCGATATGACGGGGTCCACT 60.106 55.000 0.00 0.00 0.00 4.00
1517 1677 0.748450 TTCGATATGACGGGGTCCAC 59.252 55.000 0.00 0.00 0.00 4.02
1518 1678 1.616865 GATTCGATATGACGGGGTCCA 59.383 52.381 0.00 0.00 0.00 4.02
1519 1679 1.616865 TGATTCGATATGACGGGGTCC 59.383 52.381 0.00 0.00 0.00 4.46
1520 1680 2.673833 GTGATTCGATATGACGGGGTC 58.326 52.381 0.00 0.00 0.00 4.46
1521 1681 1.000607 CGTGATTCGATATGACGGGGT 60.001 52.381 10.13 0.00 42.86 4.95
1522 1682 1.000607 ACGTGATTCGATATGACGGGG 60.001 52.381 17.91 0.00 42.86 5.73
1523 1683 2.287368 TGACGTGATTCGATATGACGGG 60.287 50.000 17.91 0.41 42.86 5.28
1524 1684 2.994849 TGACGTGATTCGATATGACGG 58.005 47.619 17.91 6.23 42.86 4.79
1525 1685 4.661649 GCATTGACGTGATTCGATATGACG 60.662 45.833 14.27 14.27 42.86 4.35
1526 1686 4.445718 AGCATTGACGTGATTCGATATGAC 59.554 41.667 0.00 0.00 42.86 3.06
1527 1687 4.620982 AGCATTGACGTGATTCGATATGA 58.379 39.130 0.00 0.00 42.86 2.15
1528 1688 4.979564 AGCATTGACGTGATTCGATATG 57.020 40.909 0.00 0.00 42.86 1.78
1529 1689 5.292765 AGAAGCATTGACGTGATTCGATAT 58.707 37.500 0.00 0.00 46.19 1.63
1530 1690 4.682787 AGAAGCATTGACGTGATTCGATA 58.317 39.130 0.00 0.00 46.19 2.92
1531 1691 3.525537 AGAAGCATTGACGTGATTCGAT 58.474 40.909 0.00 0.00 46.19 3.59
1532 1692 2.959516 AGAAGCATTGACGTGATTCGA 58.040 42.857 0.00 0.00 46.19 3.71
1533 1693 3.729526 AAGAAGCATTGACGTGATTCG 57.270 42.857 0.00 0.00 46.19 3.34
1534 1694 6.145535 AGAAAAAGAAGCATTGACGTGATTC 58.854 36.000 0.00 0.00 43.03 2.52
1535 1695 6.076981 AGAAAAAGAAGCATTGACGTGATT 57.923 33.333 0.00 0.00 0.00 2.57
1536 1696 5.695851 AGAAAAAGAAGCATTGACGTGAT 57.304 34.783 0.00 0.00 0.00 3.06
1537 1697 5.499139 AAGAAAAAGAAGCATTGACGTGA 57.501 34.783 0.00 0.00 0.00 4.35
1538 1698 6.573617 AAAAGAAAAAGAAGCATTGACGTG 57.426 33.333 0.00 0.00 0.00 4.49
1539 1699 6.455513 GCAAAAAGAAAAAGAAGCATTGACGT 60.456 34.615 0.00 0.00 0.00 4.34
1540 1700 5.898061 GCAAAAAGAAAAAGAAGCATTGACG 59.102 36.000 0.00 0.00 0.00 4.35
1541 1701 6.774084 TGCAAAAAGAAAAAGAAGCATTGAC 58.226 32.000 0.00 0.00 0.00 3.18
1542 1702 6.981762 TGCAAAAAGAAAAAGAAGCATTGA 57.018 29.167 0.00 0.00 0.00 2.57
1543 1703 6.854381 GGATGCAAAAAGAAAAAGAAGCATTG 59.146 34.615 0.00 0.00 41.07 2.82
1544 1704 6.016860 GGGATGCAAAAAGAAAAAGAAGCATT 60.017 34.615 0.00 0.00 41.07 3.56
1545 1705 5.471116 GGGATGCAAAAAGAAAAAGAAGCAT 59.529 36.000 0.00 0.00 43.38 3.79
1546 1706 4.815846 GGGATGCAAAAAGAAAAAGAAGCA 59.184 37.500 0.00 0.00 35.03 3.91
1547 1707 5.059161 AGGGATGCAAAAAGAAAAAGAAGC 58.941 37.500 0.00 0.00 0.00 3.86
1548 1708 5.403466 CGAGGGATGCAAAAAGAAAAAGAAG 59.597 40.000 0.00 0.00 0.00 2.85
1549 1709 5.288804 CGAGGGATGCAAAAAGAAAAAGAA 58.711 37.500 0.00 0.00 0.00 2.52
1550 1710 4.795962 GCGAGGGATGCAAAAAGAAAAAGA 60.796 41.667 0.00 0.00 0.00 2.52
1551 1711 3.429881 GCGAGGGATGCAAAAAGAAAAAG 59.570 43.478 0.00 0.00 0.00 2.27
1552 1712 3.389221 GCGAGGGATGCAAAAAGAAAAA 58.611 40.909 0.00 0.00 0.00 1.94
1553 1713 2.606795 CGCGAGGGATGCAAAAAGAAAA 60.607 45.455 0.00 0.00 0.00 2.29
1554 1714 1.068610 CGCGAGGGATGCAAAAAGAAA 60.069 47.619 0.00 0.00 0.00 2.52
1555 1715 0.521291 CGCGAGGGATGCAAAAAGAA 59.479 50.000 0.00 0.00 0.00 2.52
1556 1716 0.605319 ACGCGAGGGATGCAAAAAGA 60.605 50.000 15.93 0.00 0.00 2.52
1557 1717 0.454957 CACGCGAGGGATGCAAAAAG 60.455 55.000 15.93 0.00 35.60 2.27
1558 1718 0.886938 TCACGCGAGGGATGCAAAAA 60.887 50.000 15.93 0.00 39.71 1.94
1559 1719 1.302112 TCACGCGAGGGATGCAAAA 60.302 52.632 15.93 0.00 39.71 2.44
1560 1720 2.345617 TCACGCGAGGGATGCAAA 59.654 55.556 15.93 0.00 39.71 3.68
1566 1726 0.458669 GATACCTTTCACGCGAGGGA 59.541 55.000 15.93 5.88 45.65 4.20
1567 1727 0.460311 AGATACCTTTCACGCGAGGG 59.540 55.000 15.93 2.20 37.36 4.30
1568 1728 1.927174 CAAGATACCTTTCACGCGAGG 59.073 52.381 15.93 12.27 39.02 4.63
1569 1729 2.607187 ACAAGATACCTTTCACGCGAG 58.393 47.619 15.93 4.59 0.00 5.03
1570 1730 2.736144 ACAAGATACCTTTCACGCGA 57.264 45.000 15.93 0.00 0.00 5.87
1571 1731 3.806316 AAACAAGATACCTTTCACGCG 57.194 42.857 3.53 3.53 0.00 6.01
1572 1732 5.358298 AGAAAACAAGATACCTTTCACGC 57.642 39.130 0.00 0.00 31.56 5.34
1573 1733 7.360946 CCCTTAGAAAACAAGATACCTTTCACG 60.361 40.741 0.00 0.00 31.56 4.35
1574 1734 7.575155 GCCCTTAGAAAACAAGATACCTTTCAC 60.575 40.741 0.00 0.00 31.56 3.18
1575 1735 6.433093 GCCCTTAGAAAACAAGATACCTTTCA 59.567 38.462 0.00 0.00 31.56 2.69
1576 1736 6.433093 TGCCCTTAGAAAACAAGATACCTTTC 59.567 38.462 0.00 0.00 0.00 2.62
1577 1737 6.311735 TGCCCTTAGAAAACAAGATACCTTT 58.688 36.000 0.00 0.00 0.00 3.11
1578 1738 5.887754 TGCCCTTAGAAAACAAGATACCTT 58.112 37.500 0.00 0.00 0.00 3.50
1579 1739 5.514500 TGCCCTTAGAAAACAAGATACCT 57.486 39.130 0.00 0.00 0.00 3.08
1580 1740 5.710567 AGTTGCCCTTAGAAAACAAGATACC 59.289 40.000 0.00 0.00 0.00 2.73
1581 1741 6.819397 AGTTGCCCTTAGAAAACAAGATAC 57.181 37.500 0.00 0.00 0.00 2.24
1582 1742 7.504238 TGAAAGTTGCCCTTAGAAAACAAGATA 59.496 33.333 0.00 0.00 31.48 1.98
1583 1743 6.323739 TGAAAGTTGCCCTTAGAAAACAAGAT 59.676 34.615 0.00 0.00 31.48 2.40
1584 1744 5.654650 TGAAAGTTGCCCTTAGAAAACAAGA 59.345 36.000 0.00 0.00 31.48 3.02
1585 1745 5.901552 TGAAAGTTGCCCTTAGAAAACAAG 58.098 37.500 0.00 0.00 31.48 3.16
1586 1746 5.923733 TGAAAGTTGCCCTTAGAAAACAA 57.076 34.783 0.00 0.00 31.48 2.83
1587 1747 5.923733 TTGAAAGTTGCCCTTAGAAAACA 57.076 34.783 0.00 0.00 31.48 2.83
1588 1748 5.231357 CGTTTGAAAGTTGCCCTTAGAAAAC 59.769 40.000 0.00 0.00 32.23 2.43
1589 1749 5.344884 CGTTTGAAAGTTGCCCTTAGAAAA 58.655 37.500 0.00 0.00 31.48 2.29
1590 1750 4.735283 GCGTTTGAAAGTTGCCCTTAGAAA 60.735 41.667 0.00 0.00 31.48 2.52
1591 1751 3.243267 GCGTTTGAAAGTTGCCCTTAGAA 60.243 43.478 0.00 0.00 31.48 2.10
1592 1752 2.292292 GCGTTTGAAAGTTGCCCTTAGA 59.708 45.455 0.00 0.00 31.48 2.10
1593 1753 2.661594 GCGTTTGAAAGTTGCCCTTAG 58.338 47.619 0.00 0.00 31.48 2.18
1594 1754 1.002251 CGCGTTTGAAAGTTGCCCTTA 60.002 47.619 0.00 0.00 31.48 2.69
1595 1755 0.248866 CGCGTTTGAAAGTTGCCCTT 60.249 50.000 0.00 0.00 33.79 3.95
1596 1756 1.358759 CGCGTTTGAAAGTTGCCCT 59.641 52.632 0.00 0.00 0.00 5.19
1597 1757 1.660264 CCGCGTTTGAAAGTTGCCC 60.660 57.895 4.92 0.00 0.00 5.36
1598 1758 1.065109 ACCGCGTTTGAAAGTTGCC 59.935 52.632 4.92 0.00 0.00 4.52
1599 1759 1.807242 GCACCGCGTTTGAAAGTTGC 61.807 55.000 4.92 0.00 0.00 4.17
1600 1760 0.524392 TGCACCGCGTTTGAAAGTTG 60.524 50.000 4.92 0.00 0.00 3.16
1601 1761 0.524604 GTGCACCGCGTTTGAAAGTT 60.525 50.000 5.22 0.00 0.00 2.66
1602 1762 1.063488 GTGCACCGCGTTTGAAAGT 59.937 52.632 5.22 0.00 0.00 2.66
1603 1763 1.657181 GGTGCACCGCGTTTGAAAG 60.657 57.895 22.49 0.00 0.00 2.62
1604 1764 1.934220 TTGGTGCACCGCGTTTGAAA 61.934 50.000 30.07 13.81 39.43 2.69
1605 1765 1.934220 TTTGGTGCACCGCGTTTGAA 61.934 50.000 30.07 14.56 39.43 2.69
1606 1766 1.934220 TTTTGGTGCACCGCGTTTGA 61.934 50.000 30.07 8.66 39.43 2.69
1607 1767 1.517257 TTTTGGTGCACCGCGTTTG 60.517 52.632 30.07 2.47 39.43 2.93
1608 1768 1.517475 GTTTTGGTGCACCGCGTTT 60.517 52.632 30.07 0.00 39.43 3.60
1609 1769 2.103340 GTTTTGGTGCACCGCGTT 59.897 55.556 30.07 0.00 39.43 4.84
1610 1770 2.214181 TTTGTTTTGGTGCACCGCGT 62.214 50.000 30.07 0.00 39.43 6.01
1611 1771 1.517257 TTTGTTTTGGTGCACCGCG 60.517 52.632 30.07 0.00 39.43 6.46
1612 1772 0.737715 TGTTTGTTTTGGTGCACCGC 60.738 50.000 30.07 19.56 39.43 5.68
1613 1773 0.995728 GTGTTTGTTTTGGTGCACCG 59.004 50.000 30.07 0.00 39.43 4.94
1614 1774 1.729517 GTGTGTTTGTTTTGGTGCACC 59.270 47.619 29.67 29.67 0.00 5.01
1615 1775 2.666022 GAGTGTGTTTGTTTTGGTGCAC 59.334 45.455 8.80 8.80 0.00 4.57
1616 1776 2.297315 TGAGTGTGTTTGTTTTGGTGCA 59.703 40.909 0.00 0.00 0.00 4.57
1617 1777 2.953020 TGAGTGTGTTTGTTTTGGTGC 58.047 42.857 0.00 0.00 0.00 5.01
1618 1778 3.925913 CCTTGAGTGTGTTTGTTTTGGTG 59.074 43.478 0.00 0.00 0.00 4.17
1619 1779 3.829601 TCCTTGAGTGTGTTTGTTTTGGT 59.170 39.130 0.00 0.00 0.00 3.67
1620 1780 4.448537 TCCTTGAGTGTGTTTGTTTTGG 57.551 40.909 0.00 0.00 0.00 3.28
1621 1781 4.268405 GCATCCTTGAGTGTGTTTGTTTTG 59.732 41.667 0.00 0.00 0.00 2.44
1622 1782 4.432712 GCATCCTTGAGTGTGTTTGTTTT 58.567 39.130 0.00 0.00 0.00 2.43
1623 1783 3.489059 CGCATCCTTGAGTGTGTTTGTTT 60.489 43.478 0.00 0.00 0.00 2.83
1624 1784 2.033299 CGCATCCTTGAGTGTGTTTGTT 59.967 45.455 0.00 0.00 0.00 2.83
1625 1785 1.603802 CGCATCCTTGAGTGTGTTTGT 59.396 47.619 0.00 0.00 0.00 2.83
1626 1786 1.603802 ACGCATCCTTGAGTGTGTTTG 59.396 47.619 0.00 0.00 35.71 2.93
1627 1787 1.967319 ACGCATCCTTGAGTGTGTTT 58.033 45.000 0.00 0.00 35.71 2.83
1628 1788 1.967319 AACGCATCCTTGAGTGTGTT 58.033 45.000 0.00 0.00 42.38 3.32
1629 1789 1.603802 CAAACGCATCCTTGAGTGTGT 59.396 47.619 0.00 0.00 36.46 3.72
1630 1790 1.872952 TCAAACGCATCCTTGAGTGTG 59.127 47.619 0.00 0.00 40.96 3.82
1631 1791 2.254546 TCAAACGCATCCTTGAGTGT 57.745 45.000 0.00 0.00 35.92 3.55
1632 1792 4.333649 ACATATCAAACGCATCCTTGAGTG 59.666 41.667 0.00 0.00 35.92 3.51
1633 1793 4.517285 ACATATCAAACGCATCCTTGAGT 58.483 39.130 0.00 0.00 37.49 3.41
1634 1794 5.268544 CAACATATCAAACGCATCCTTGAG 58.731 41.667 0.00 0.00 35.14 3.02
1635 1795 4.438608 GCAACATATCAAACGCATCCTTGA 60.439 41.667 0.00 0.00 36.08 3.02
1636 1796 3.792956 GCAACATATCAAACGCATCCTTG 59.207 43.478 0.00 0.00 0.00 3.61
1637 1797 3.443329 TGCAACATATCAAACGCATCCTT 59.557 39.130 0.00 0.00 0.00 3.36
1638 1798 3.016031 TGCAACATATCAAACGCATCCT 58.984 40.909 0.00 0.00 0.00 3.24
1639 1799 3.419264 TGCAACATATCAAACGCATCC 57.581 42.857 0.00 0.00 0.00 3.51
1641 1801 3.243501 GGGATGCAACATATCAAACGCAT 60.244 43.478 0.00 0.00 42.45 4.73
1642 1802 2.098934 GGGATGCAACATATCAAACGCA 59.901 45.455 0.00 0.00 0.00 5.24
1643 1803 2.543653 GGGGATGCAACATATCAAACGC 60.544 50.000 0.00 0.00 0.00 4.84
1644 1804 2.951642 AGGGGATGCAACATATCAAACG 59.048 45.455 0.00 0.00 0.00 3.60
1645 1805 5.827797 TCTTAGGGGATGCAACATATCAAAC 59.172 40.000 0.00 0.00 0.00 2.93
1646 1806 6.012337 TCTTAGGGGATGCAACATATCAAA 57.988 37.500 0.00 0.00 0.00 2.69
1647 1807 5.624159 CTCTTAGGGGATGCAACATATCAA 58.376 41.667 0.00 0.00 0.00 2.57
1648 1808 4.505566 GCTCTTAGGGGATGCAACATATCA 60.506 45.833 0.00 0.00 0.00 2.15
1649 1809 4.006319 GCTCTTAGGGGATGCAACATATC 58.994 47.826 0.00 0.00 0.00 1.63
1650 1810 3.395607 TGCTCTTAGGGGATGCAACATAT 59.604 43.478 0.00 0.00 0.00 1.78
1651 1811 2.777114 TGCTCTTAGGGGATGCAACATA 59.223 45.455 0.00 0.00 0.00 2.29
1652 1812 1.565759 TGCTCTTAGGGGATGCAACAT 59.434 47.619 0.00 0.00 0.00 2.71
1653 1813 0.991146 TGCTCTTAGGGGATGCAACA 59.009 50.000 0.00 0.00 0.00 3.33
1654 1814 2.158696 AGATGCTCTTAGGGGATGCAAC 60.159 50.000 0.00 0.00 37.20 4.17
1655 1815 2.105477 GAGATGCTCTTAGGGGATGCAA 59.895 50.000 0.00 0.00 37.20 4.08
1656 1816 1.696336 GAGATGCTCTTAGGGGATGCA 59.304 52.381 0.00 0.00 38.05 3.96
1657 1817 1.003003 GGAGATGCTCTTAGGGGATGC 59.997 57.143 0.00 0.00 0.00 3.91
1658 1818 2.302445 CTGGAGATGCTCTTAGGGGATG 59.698 54.545 0.00 0.00 0.00 3.51
1659 1819 2.618794 CTGGAGATGCTCTTAGGGGAT 58.381 52.381 0.00 0.00 0.00 3.85
1660 1820 2.036929 GCTGGAGATGCTCTTAGGGGA 61.037 57.143 0.00 0.00 0.00 4.81
1661 1821 0.396060 GCTGGAGATGCTCTTAGGGG 59.604 60.000 0.00 0.00 0.00 4.79
1662 1822 0.396060 GGCTGGAGATGCTCTTAGGG 59.604 60.000 0.00 0.00 0.00 3.53
1663 1823 0.033228 CGGCTGGAGATGCTCTTAGG 59.967 60.000 0.00 0.00 0.00 2.69
1780 1947 0.757188 TGTTTGTGCCGATTTGGGGT 60.757 50.000 0.00 0.00 38.63 4.95
1921 2172 2.494870 GTGACTACACCCGGTTCTACAT 59.505 50.000 0.00 0.00 40.74 2.29
2051 2386 4.736896 GAAGAGGGCGGCGTCGTT 62.737 66.667 23.48 17.84 38.89 3.85
2363 2768 3.449227 AGCGAATGGAGACGGCGA 61.449 61.111 16.62 0.00 0.00 5.54
2368 2806 3.490890 GCCACAGCGAATGGAGAC 58.509 61.111 7.99 0.00 39.87 3.36
2396 2834 2.182030 GTCCTTCTCTCGCCGGTG 59.818 66.667 9.28 9.28 0.00 4.94


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

AutoCloner maintained by Alex Coulton.