Multiple sequence alignment - TraesCS6B01G239200

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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 TraesCS6B01G239200 chr6B 100.000 2505 0 0 1 2505 415896410 415893906 0.000000e+00 4626.0
1 TraesCS6B01G239200 chr6B 98.323 656 11 0 1850 2505 702373021 702373676 0.000000e+00 1151.0
2 TraesCS6B01G239200 chr7B 97.532 1540 35 3 1 1539 223710190 223711727 0.000000e+00 2630.0
3 TraesCS6B01G239200 chr7B 84.884 86 8 5 2422 2505 329930187 329930269 5.740000e-12 82.4
4 TraesCS6B01G239200 chr5B 93.303 1538 88 7 1 1536 315935896 315934372 0.000000e+00 2255.0
5 TraesCS6B01G239200 chr5A 98.321 655 11 0 1851 2505 389153046 389152392 0.000000e+00 1149.0
6 TraesCS6B01G239200 chr5A 85.784 204 28 1 1850 2053 520624655 520624857 5.430000e-52 215.0
7 TraesCS6B01G239200 chr4A 94.474 742 36 3 683 1420 545096798 545096058 0.000000e+00 1138.0
8 TraesCS6B01G239200 chr4A 79.545 264 30 9 2252 2504 665075034 665074784 1.540000e-37 167.0
9 TraesCS6B01G239200 chr3A 96.789 654 11 1 1851 2504 746147281 746147924 0.000000e+00 1083.0
10 TraesCS6B01G239200 chr3A 84.946 279 40 2 1853 2131 58551591 58551867 5.280000e-72 281.0
11 TraesCS6B01G239200 chr3A 83.817 241 29 1 2130 2370 58551800 58552030 1.170000e-53 220.0
12 TraesCS6B01G239200 chr3B 90.462 671 43 9 1843 2505 13768950 13769607 0.000000e+00 865.0
13 TraesCS6B01G239200 chr3B 95.588 68 3 0 2130 2197 13769173 13769240 2.630000e-20 110.0
14 TraesCS6B01G239200 chr2D 91.482 587 39 7 951 1536 538282804 538282228 0.000000e+00 797.0
15 TraesCS6B01G239200 chr1D 88.643 361 39 1 1176 1536 341843155 341842797 2.960000e-119 438.0
16 TraesCS6B01G239200 chr2B 90.426 282 26 1 1850 2131 50569252 50569532 1.090000e-98 370.0
17 TraesCS6B01G239200 chr2B 92.891 211 13 2 2295 2505 50569594 50569802 3.130000e-79 305.0
18 TraesCS6B01G239200 chr6A 87.633 283 18 8 1583 1854 381112523 381112247 1.870000e-81 313.0
19 TraesCS6B01G239200 chr6A 100.000 37 0 0 1804 1840 381112340 381112304 4.470000e-08 69.4
20 TraesCS6B01G239200 chr7D 82.807 285 43 6 1850 2131 173591715 173591434 1.490000e-62 250.0
21 TraesCS6B01G239200 chr7D 92.222 90 6 1 2416 2505 173591167 173591079 2.620000e-25 126.0
22 TraesCS6B01G239200 chr4B 86.842 190 24 1 1864 2053 40226027 40226215 7.020000e-51 211.0
23 TraesCS6B01G239200 chr6D 88.889 162 5 5 1683 1840 267538151 267537999 1.180000e-43 187.0
24 TraesCS6B01G239200 chr6D 93.407 91 6 0 1764 1854 267538032 267537942 4.350000e-28 135.0
25 TraesCS6B01G239200 chr6D 97.297 37 1 0 1804 1840 267538078 267538042 2.080000e-06 63.9
26 TraesCS6B01G239200 chr2A 78.846 260 21 14 2260 2505 22550666 22550905 7.220000e-31 145.0
27 TraesCS6B01G239200 chr7A 93.182 44 1 2 2252 2295 46716576 46716617 2.080000e-06 63.9
28 TraesCS6B01G239200 chr7A 93.182 44 1 2 2252 2295 685508387 685508428 2.080000e-06 63.9
29 TraesCS6B01G239200 chr7A 93.182 44 1 2 2252 2295 685545963 685546004 2.080000e-06 63.9


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 TraesCS6B01G239200 chr6B 415893906 415896410 2504 True 4626.0 4626 100.0000 1 2505 1 chr6B.!!$R1 2504
1 TraesCS6B01G239200 chr6B 702373021 702373676 655 False 1151.0 1151 98.3230 1850 2505 1 chr6B.!!$F1 655
2 TraesCS6B01G239200 chr7B 223710190 223711727 1537 False 2630.0 2630 97.5320 1 1539 1 chr7B.!!$F1 1538
3 TraesCS6B01G239200 chr5B 315934372 315935896 1524 True 2255.0 2255 93.3030 1 1536 1 chr5B.!!$R1 1535
4 TraesCS6B01G239200 chr5A 389152392 389153046 654 True 1149.0 1149 98.3210 1851 2505 1 chr5A.!!$R1 654
5 TraesCS6B01G239200 chr4A 545096058 545096798 740 True 1138.0 1138 94.4740 683 1420 1 chr4A.!!$R1 737
6 TraesCS6B01G239200 chr3A 746147281 746147924 643 False 1083.0 1083 96.7890 1851 2504 1 chr3A.!!$F1 653
7 TraesCS6B01G239200 chr3B 13768950 13769607 657 False 487.5 865 93.0250 1843 2505 2 chr3B.!!$F1 662
8 TraesCS6B01G239200 chr2D 538282228 538282804 576 True 797.0 797 91.4820 951 1536 1 chr2D.!!$R1 585
9 TraesCS6B01G239200 chr2B 50569252 50569802 550 False 337.5 370 91.6585 1850 2505 2 chr2B.!!$F1 655

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
105 106 1.546548 GCTATGCCAAGGAAGGGGATC 60.547 57.143 0.0 0.0 37.64 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1834 1844 0.10212 GAGATCAGGTCAGGTCAGCG 59.898 60.0 0.0 0.0 0.0 5.18 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
105 106 1.546548 GCTATGCCAAGGAAGGGGATC 60.547 57.143 0.00 0.00 37.64 3.36
195 197 5.011533 TGGGAATGGACGAAACATCAAAATT 59.988 36.000 0.00 0.00 0.00 1.82
535 539 5.093849 AGAGGCAATTGATTTTGAATGGG 57.906 39.130 10.34 0.00 0.00 4.00
537 541 5.248934 AGAGGCAATTGATTTTGAATGGGAA 59.751 36.000 10.34 0.00 0.00 3.97
538 542 5.878627 AGGCAATTGATTTTGAATGGGAAA 58.121 33.333 10.34 0.00 0.00 3.13
688 692 3.677424 GCCTTAGATATGACGAGGATGGC 60.677 52.174 0.00 0.00 0.00 4.40
780 784 4.094887 AGACAAGCTAATGTTATGCAACGG 59.905 41.667 0.00 0.00 37.48 4.44
1153 1162 5.301835 AGCTGGAATATGTATCAAGTGCT 57.698 39.130 0.00 0.00 0.00 4.40
1242 1252 6.302313 CGTGTAATTTTTGAAATGGACTCGAC 59.698 38.462 12.71 0.00 0.00 4.20
1256 1266 4.655527 CGACGGAGTTGAAGCAGT 57.344 55.556 0.00 0.00 47.00 4.40
1316 1326 7.941919 AGGTTCTTTGTTTCAGGAGATTAAAC 58.058 34.615 0.00 0.00 34.45 2.01
1455 1465 0.770557 TGGTTAGGCCACTTCCCTGT 60.771 55.000 5.01 0.00 43.61 4.00
1481 1491 0.181114 ACTGAACTCTGTTGCTGGCA 59.819 50.000 0.00 0.00 0.00 4.92
1576 1586 2.570442 TTTTGAGGGAACAACAACGC 57.430 45.000 0.00 0.00 0.00 4.84
1577 1587 0.741915 TTTGAGGGAACAACAACGCC 59.258 50.000 0.00 0.00 0.00 5.68
1578 1588 0.106918 TTGAGGGAACAACAACGCCT 60.107 50.000 0.00 0.00 0.00 5.52
1579 1589 0.106918 TGAGGGAACAACAACGCCTT 60.107 50.000 0.00 0.00 0.00 4.35
1580 1590 0.591659 GAGGGAACAACAACGCCTTC 59.408 55.000 0.00 0.00 0.00 3.46
1581 1591 0.182775 AGGGAACAACAACGCCTTCT 59.817 50.000 0.00 0.00 0.00 2.85
1582 1592 1.029681 GGGAACAACAACGCCTTCTT 58.970 50.000 0.00 0.00 0.00 2.52
1583 1593 1.407618 GGGAACAACAACGCCTTCTTT 59.592 47.619 0.00 0.00 0.00 2.52
1584 1594 2.159156 GGGAACAACAACGCCTTCTTTT 60.159 45.455 0.00 0.00 0.00 2.27
1585 1595 2.857748 GGAACAACAACGCCTTCTTTTG 59.142 45.455 0.00 0.00 0.00 2.44
1586 1596 1.921243 ACAACAACGCCTTCTTTTGC 58.079 45.000 0.00 0.00 0.00 3.68
1587 1597 1.203523 ACAACAACGCCTTCTTTTGCA 59.796 42.857 0.00 0.00 0.00 4.08
1588 1598 2.159114 ACAACAACGCCTTCTTTTGCAT 60.159 40.909 0.00 0.00 0.00 3.96
1589 1599 3.067461 ACAACAACGCCTTCTTTTGCATA 59.933 39.130 0.00 0.00 0.00 3.14
1590 1600 3.282831 ACAACGCCTTCTTTTGCATAC 57.717 42.857 0.00 0.00 0.00 2.39
1591 1601 2.621055 ACAACGCCTTCTTTTGCATACA 59.379 40.909 0.00 0.00 0.00 2.29
1592 1602 3.236816 CAACGCCTTCTTTTGCATACAG 58.763 45.455 0.00 0.00 0.00 2.74
1593 1603 2.504367 ACGCCTTCTTTTGCATACAGT 58.496 42.857 0.00 0.00 0.00 3.55
1594 1604 3.670625 ACGCCTTCTTTTGCATACAGTA 58.329 40.909 0.00 0.00 0.00 2.74
1595 1605 3.435671 ACGCCTTCTTTTGCATACAGTAC 59.564 43.478 0.00 0.00 0.00 2.73
1596 1606 3.435327 CGCCTTCTTTTGCATACAGTACA 59.565 43.478 0.00 0.00 0.00 2.90
1597 1607 4.094887 CGCCTTCTTTTGCATACAGTACAT 59.905 41.667 0.00 0.00 0.00 2.29
1598 1608 5.573146 GCCTTCTTTTGCATACAGTACATC 58.427 41.667 0.00 0.00 0.00 3.06
1599 1609 5.355350 GCCTTCTTTTGCATACAGTACATCT 59.645 40.000 0.00 0.00 0.00 2.90
1614 1624 7.197071 CAGTACATCTGGTATCTGTCTCTAC 57.803 44.000 0.00 0.00 40.23 2.59
1615 1625 6.768381 CAGTACATCTGGTATCTGTCTCTACA 59.232 42.308 0.00 0.00 40.23 2.74
1616 1626 6.768861 AGTACATCTGGTATCTGTCTCTACAC 59.231 42.308 0.00 0.00 33.76 2.90
1617 1627 5.510430 ACATCTGGTATCTGTCTCTACACA 58.490 41.667 0.00 0.00 0.00 3.72
1618 1628 6.132658 ACATCTGGTATCTGTCTCTACACAT 58.867 40.000 0.00 0.00 0.00 3.21
1619 1629 6.609212 ACATCTGGTATCTGTCTCTACACATT 59.391 38.462 0.00 0.00 0.00 2.71
1620 1630 7.124901 ACATCTGGTATCTGTCTCTACACATTT 59.875 37.037 0.00 0.00 0.00 2.32
1621 1631 7.101652 TCTGGTATCTGTCTCTACACATTTC 57.898 40.000 0.00 0.00 0.00 2.17
1622 1632 6.096987 TCTGGTATCTGTCTCTACACATTTCC 59.903 42.308 0.00 0.00 0.00 3.13
1623 1633 5.958380 TGGTATCTGTCTCTACACATTTCCT 59.042 40.000 0.00 0.00 0.00 3.36
1624 1634 6.096987 TGGTATCTGTCTCTACACATTTCCTC 59.903 42.308 0.00 0.00 0.00 3.71
1625 1635 6.322712 GGTATCTGTCTCTACACATTTCCTCT 59.677 42.308 0.00 0.00 0.00 3.69
1626 1636 5.906113 TCTGTCTCTACACATTTCCTCTC 57.094 43.478 0.00 0.00 0.00 3.20
1627 1637 5.575157 TCTGTCTCTACACATTTCCTCTCT 58.425 41.667 0.00 0.00 0.00 3.10
1628 1638 6.013379 TCTGTCTCTACACATTTCCTCTCTT 58.987 40.000 0.00 0.00 0.00 2.85
1629 1639 6.495181 TCTGTCTCTACACATTTCCTCTCTTT 59.505 38.462 0.00 0.00 0.00 2.52
1630 1640 7.015682 TCTGTCTCTACACATTTCCTCTCTTTT 59.984 37.037 0.00 0.00 0.00 2.27
1631 1641 7.155328 TGTCTCTACACATTTCCTCTCTTTTC 58.845 38.462 0.00 0.00 0.00 2.29
1632 1642 7.015682 TGTCTCTACACATTTCCTCTCTTTTCT 59.984 37.037 0.00 0.00 0.00 2.52
1633 1643 7.330700 GTCTCTACACATTTCCTCTCTTTTCTG 59.669 40.741 0.00 0.00 0.00 3.02
1634 1644 7.015682 TCTCTACACATTTCCTCTCTTTTCTGT 59.984 37.037 0.00 0.00 0.00 3.41
1635 1645 7.509546 TCTACACATTTCCTCTCTTTTCTGTT 58.490 34.615 0.00 0.00 0.00 3.16
1636 1646 6.382869 ACACATTTCCTCTCTTTTCTGTTG 57.617 37.500 0.00 0.00 0.00 3.33
1637 1647 5.888161 ACACATTTCCTCTCTTTTCTGTTGT 59.112 36.000 0.00 0.00 0.00 3.32
1638 1648 6.183360 ACACATTTCCTCTCTTTTCTGTTGTG 60.183 38.462 0.00 0.00 36.54 3.33
1639 1649 4.900635 TTTCCTCTCTTTTCTGTTGTGC 57.099 40.909 0.00 0.00 0.00 4.57
1640 1650 3.845781 TCCTCTCTTTTCTGTTGTGCT 57.154 42.857 0.00 0.00 0.00 4.40
1641 1651 3.733337 TCCTCTCTTTTCTGTTGTGCTC 58.267 45.455 0.00 0.00 0.00 4.26
1642 1652 2.478134 CCTCTCTTTTCTGTTGTGCTCG 59.522 50.000 0.00 0.00 0.00 5.03
1643 1653 3.126831 CTCTCTTTTCTGTTGTGCTCGT 58.873 45.455 0.00 0.00 0.00 4.18
1644 1654 3.531538 TCTCTTTTCTGTTGTGCTCGTT 58.468 40.909 0.00 0.00 0.00 3.85
1645 1655 3.309682 TCTCTTTTCTGTTGTGCTCGTTG 59.690 43.478 0.00 0.00 0.00 4.10
1646 1656 2.354510 TCTTTTCTGTTGTGCTCGTTGG 59.645 45.455 0.00 0.00 0.00 3.77
1647 1657 2.031258 TTTCTGTTGTGCTCGTTGGA 57.969 45.000 0.00 0.00 0.00 3.53
1648 1658 1.581934 TTCTGTTGTGCTCGTTGGAG 58.418 50.000 0.00 0.00 43.46 3.86
1649 1659 0.464036 TCTGTTGTGCTCGTTGGAGT 59.536 50.000 0.00 0.00 42.53 3.85
1650 1660 1.134521 TCTGTTGTGCTCGTTGGAGTT 60.135 47.619 0.00 0.00 42.53 3.01
1651 1661 1.003545 CTGTTGTGCTCGTTGGAGTTG 60.004 52.381 0.00 0.00 42.53 3.16
1652 1662 0.317020 GTTGTGCTCGTTGGAGTTGC 60.317 55.000 0.00 0.00 42.53 4.17
1653 1663 1.444119 TTGTGCTCGTTGGAGTTGCC 61.444 55.000 0.00 0.00 42.53 4.52
1654 1664 1.598130 GTGCTCGTTGGAGTTGCCT 60.598 57.895 0.00 0.00 42.53 4.75
1655 1665 1.148273 TGCTCGTTGGAGTTGCCTT 59.852 52.632 0.00 0.00 42.53 4.35
1656 1666 1.165907 TGCTCGTTGGAGTTGCCTTG 61.166 55.000 0.00 0.00 42.53 3.61
1657 1667 0.884704 GCTCGTTGGAGTTGCCTTGA 60.885 55.000 0.00 0.00 42.53 3.02
1658 1668 1.151668 CTCGTTGGAGTTGCCTTGAG 58.848 55.000 0.00 0.00 37.63 3.02
1659 1669 0.250295 TCGTTGGAGTTGCCTTGAGG 60.250 55.000 0.00 0.00 37.63 3.86
1660 1670 1.237285 CGTTGGAGTTGCCTTGAGGG 61.237 60.000 0.00 0.00 37.63 4.30
1661 1671 0.178990 GTTGGAGTTGCCTTGAGGGT 60.179 55.000 0.00 0.00 37.63 4.34
1662 1672 0.555769 TTGGAGTTGCCTTGAGGGTT 59.444 50.000 0.00 0.00 37.63 4.11
1663 1673 0.110486 TGGAGTTGCCTTGAGGGTTC 59.890 55.000 0.00 0.00 37.63 3.62
1664 1674 0.110486 GGAGTTGCCTTGAGGGTTCA 59.890 55.000 0.00 0.00 37.43 3.18
1665 1675 1.528129 GAGTTGCCTTGAGGGTTCAG 58.472 55.000 0.00 0.00 37.43 3.02
1666 1676 0.111253 AGTTGCCTTGAGGGTTCAGG 59.889 55.000 0.00 0.00 37.43 3.86
1667 1677 0.178990 GTTGCCTTGAGGGTTCAGGT 60.179 55.000 0.00 0.00 37.43 4.00
1668 1678 0.110486 TTGCCTTGAGGGTTCAGGTC 59.890 55.000 0.00 0.00 37.43 3.85
1669 1679 1.002011 GCCTTGAGGGTTCAGGTCC 60.002 63.158 0.00 0.00 37.43 4.46
1670 1680 1.492993 GCCTTGAGGGTTCAGGTCCT 61.493 60.000 0.00 0.00 37.43 3.85
1671 1681 0.326264 CCTTGAGGGTTCAGGTCCTG 59.674 60.000 13.21 13.21 34.15 3.86
1672 1682 0.326264 CTTGAGGGTTCAGGTCCTGG 59.674 60.000 19.11 0.53 34.15 4.45
1673 1683 1.779061 TTGAGGGTTCAGGTCCTGGC 61.779 60.000 19.11 11.75 34.15 4.85
1674 1684 2.121963 AGGGTTCAGGTCCTGGCA 60.122 61.111 19.11 3.30 31.51 4.92
1675 1685 2.190488 GAGGGTTCAGGTCCTGGCAG 62.190 65.000 19.11 7.75 32.74 4.85
1676 1686 2.529744 GGGTTCAGGTCCTGGCAGT 61.530 63.158 19.11 0.00 31.51 4.40
1677 1687 1.302832 GGTTCAGGTCCTGGCAGTG 60.303 63.158 19.11 5.08 31.51 3.66
1678 1688 1.968540 GTTCAGGTCCTGGCAGTGC 60.969 63.158 19.11 6.55 31.51 4.40
1679 1689 2.451191 TTCAGGTCCTGGCAGTGCA 61.451 57.895 19.11 2.11 31.51 4.57
1680 1690 1.782201 TTCAGGTCCTGGCAGTGCAT 61.782 55.000 19.11 0.00 31.51 3.96
1681 1691 1.748122 CAGGTCCTGGCAGTGCATC 60.748 63.158 18.61 0.22 0.00 3.91
1682 1692 2.226315 AGGTCCTGGCAGTGCATCA 61.226 57.895 18.61 5.62 0.00 3.07
1683 1693 1.748122 GGTCCTGGCAGTGCATCAG 60.748 63.158 18.61 15.28 0.00 2.90
1684 1694 2.045634 TCCTGGCAGTGCATCAGC 60.046 61.111 18.61 0.00 42.57 4.26
1685 1695 3.506096 CCTGGCAGTGCATCAGCG 61.506 66.667 18.61 6.48 46.23 5.18
1686 1696 2.435410 CTGGCAGTGCATCAGCGA 60.435 61.111 18.61 0.00 46.23 4.93
1687 1697 2.743538 TGGCAGTGCATCAGCGAC 60.744 61.111 18.61 0.00 46.23 5.19
1688 1698 3.857854 GGCAGTGCATCAGCGACG 61.858 66.667 18.61 0.00 46.23 5.12
1689 1699 3.114616 GCAGTGCATCAGCGACGT 61.115 61.111 11.09 0.00 46.23 4.34
1690 1700 3.075998 CAGTGCATCAGCGACGTC 58.924 61.111 5.18 5.18 46.23 4.34
1691 1701 2.125912 AGTGCATCAGCGACGTCC 60.126 61.111 10.58 2.76 46.23 4.79
1692 1702 2.125912 GTGCATCAGCGACGTCCT 60.126 61.111 10.58 5.32 46.23 3.85
1693 1703 1.738099 GTGCATCAGCGACGTCCTT 60.738 57.895 10.58 0.00 46.23 3.36
1694 1704 1.737735 TGCATCAGCGACGTCCTTG 60.738 57.895 10.58 8.75 46.23 3.61
1695 1705 2.456119 GCATCAGCGACGTCCTTGG 61.456 63.158 10.58 0.00 0.00 3.61
1696 1706 2.125512 ATCAGCGACGTCCTTGGC 60.126 61.111 10.58 7.55 0.00 4.52
1697 1707 2.650116 ATCAGCGACGTCCTTGGCT 61.650 57.895 10.58 9.98 35.84 4.75
1698 1708 3.114616 CAGCGACGTCCTTGGCTG 61.115 66.667 22.77 22.77 45.74 4.85
1701 1711 2.357517 CGACGTCCTTGGCTGCTT 60.358 61.111 10.58 0.00 0.00 3.91
1702 1712 1.961277 CGACGTCCTTGGCTGCTTT 60.961 57.895 10.58 0.00 0.00 3.51
1703 1713 1.869690 GACGTCCTTGGCTGCTTTC 59.130 57.895 3.51 0.00 0.00 2.62
1704 1714 0.603975 GACGTCCTTGGCTGCTTTCT 60.604 55.000 3.51 0.00 0.00 2.52
1705 1715 0.179018 ACGTCCTTGGCTGCTTTCTT 60.179 50.000 0.00 0.00 0.00 2.52
1706 1716 0.519077 CGTCCTTGGCTGCTTTCTTC 59.481 55.000 0.00 0.00 0.00 2.87
1707 1717 0.519077 GTCCTTGGCTGCTTTCTTCG 59.481 55.000 0.00 0.00 0.00 3.79
1708 1718 1.211190 CCTTGGCTGCTTTCTTCGC 59.789 57.895 0.00 0.00 0.00 4.70
1709 1719 1.211190 CTTGGCTGCTTTCTTCGCC 59.789 57.895 0.00 0.00 42.78 5.54
1710 1720 2.518836 CTTGGCTGCTTTCTTCGCCG 62.519 60.000 0.00 0.00 45.36 6.46
1711 1721 3.804193 GGCTGCTTTCTTCGCCGG 61.804 66.667 0.00 0.00 32.22 6.13
1712 1722 3.050275 GCTGCTTTCTTCGCCGGT 61.050 61.111 1.90 0.00 0.00 5.28
1713 1723 3.028366 GCTGCTTTCTTCGCCGGTC 62.028 63.158 1.90 0.00 0.00 4.79
1714 1724 2.730672 CTGCTTTCTTCGCCGGTCG 61.731 63.158 1.90 7.73 40.15 4.79
1715 1725 4.148645 GCTTTCTTCGCCGGTCGC 62.149 66.667 12.56 0.00 38.27 5.19
1716 1726 3.488090 CTTTCTTCGCCGGTCGCC 61.488 66.667 12.56 0.00 38.27 5.54
1717 1727 4.302509 TTTCTTCGCCGGTCGCCA 62.303 61.111 12.56 2.53 38.27 5.69
1718 1728 4.735132 TTCTTCGCCGGTCGCCAG 62.735 66.667 12.56 10.79 38.27 4.85
1731 1741 3.880846 GCCAGGCGCTCGATTTGG 61.881 66.667 7.64 7.25 0.00 3.28
1732 1742 3.204827 CCAGGCGCTCGATTTGGG 61.205 66.667 7.64 0.00 0.00 4.12
1733 1743 3.880846 CAGGCGCTCGATTTGGGC 61.881 66.667 7.64 3.90 41.70 5.36
1736 1746 4.179579 GCGCTCGATTTGGGCCAC 62.180 66.667 5.23 0.00 37.40 5.01
1737 1747 3.864686 CGCTCGATTTGGGCCACG 61.865 66.667 5.23 7.32 0.00 4.94
1738 1748 4.179579 GCTCGATTTGGGCCACGC 62.180 66.667 5.23 0.00 0.00 5.34
1739 1749 2.745884 CTCGATTTGGGCCACGCA 60.746 61.111 5.23 0.00 0.00 5.24
1740 1750 3.039202 CTCGATTTGGGCCACGCAC 62.039 63.158 5.23 0.00 0.00 5.34
1741 1751 4.114997 CGATTTGGGCCACGCACC 62.115 66.667 5.23 0.00 0.00 5.01
1742 1752 2.988684 GATTTGGGCCACGCACCA 60.989 61.111 5.23 0.00 34.29 4.17
1743 1753 3.281359 GATTTGGGCCACGCACCAC 62.281 63.158 5.23 0.00 36.27 4.16
1744 1754 3.808218 ATTTGGGCCACGCACCACT 62.808 57.895 5.23 0.00 36.27 4.00
1745 1755 4.947147 TTGGGCCACGCACCACTC 62.947 66.667 5.23 0.00 36.27 3.51
1751 1761 4.320456 CACGCACCACTCCTGGCT 62.320 66.667 0.00 0.00 42.08 4.75
1752 1762 2.603473 ACGCACCACTCCTGGCTA 60.603 61.111 0.00 0.00 42.08 3.93
1753 1763 2.125512 CGCACCACTCCTGGCTAC 60.126 66.667 0.00 0.00 42.08 3.58
1754 1764 2.125512 GCACCACTCCTGGCTACG 60.126 66.667 0.00 0.00 42.08 3.51
1755 1765 2.579201 CACCACTCCTGGCTACGG 59.421 66.667 0.00 0.00 42.08 4.02
1756 1766 2.683933 ACCACTCCTGGCTACGGG 60.684 66.667 0.00 0.00 42.08 5.28
1757 1767 4.162690 CCACTCCTGGCTACGGGC 62.163 72.222 0.00 0.00 43.28 6.13
1758 1768 3.077556 CACTCCTGGCTACGGGCT 61.078 66.667 2.91 0.00 43.28 5.19
1759 1769 1.756950 CACTCCTGGCTACGGGCTA 60.757 63.158 2.91 0.00 43.28 3.93
1760 1770 1.757340 ACTCCTGGCTACGGGCTAC 60.757 63.158 2.91 0.00 43.28 3.58
1761 1771 2.443390 TCCTGGCTACGGGCTACC 60.443 66.667 2.91 0.00 43.28 3.18
1762 1772 3.547513 CCTGGCTACGGGCTACCC 61.548 72.222 0.00 0.00 41.09 3.69
1774 1784 3.338250 CTACCCCAGGCCAGGCAA 61.338 66.667 15.19 0.00 0.00 4.52
1775 1785 3.338250 TACCCCAGGCCAGGCAAG 61.338 66.667 15.19 4.37 0.00 4.01
1778 1788 4.290622 CCCAGGCCAGGCAAGTGT 62.291 66.667 15.19 0.00 0.00 3.55
1779 1789 2.987547 CCAGGCCAGGCAAGTGTG 60.988 66.667 15.19 1.88 0.00 3.82
1788 1798 4.847255 GCAAGTGTGCGTTGATCC 57.153 55.556 0.00 0.00 41.93 3.36
1789 1799 1.154413 GCAAGTGTGCGTTGATCCG 60.154 57.895 0.00 0.00 41.93 4.18
1790 1800 1.565156 GCAAGTGTGCGTTGATCCGA 61.565 55.000 0.00 0.00 41.93 4.55
1791 1801 0.163788 CAAGTGTGCGTTGATCCGAC 59.836 55.000 0.00 0.00 0.00 4.79
1792 1802 1.282248 AAGTGTGCGTTGATCCGACG 61.282 55.000 12.75 12.75 43.34 5.12
1797 1807 3.680525 CGTTGATCCGACGCTGAG 58.319 61.111 5.89 0.00 34.44 3.35
1798 1808 1.874019 CGTTGATCCGACGCTGAGG 60.874 63.158 5.89 0.00 34.44 3.86
1799 1809 1.519455 GTTGATCCGACGCTGAGGG 60.519 63.158 0.00 0.00 0.00 4.30
1800 1810 1.680989 TTGATCCGACGCTGAGGGA 60.681 57.895 2.65 0.00 0.00 4.20
1801 1811 1.945354 TTGATCCGACGCTGAGGGAC 61.945 60.000 2.65 0.00 31.52 4.46
1802 1812 3.471244 GATCCGACGCTGAGGGACG 62.471 68.421 13.59 13.59 34.28 4.79
1820 1830 4.748144 CCCCAGGCCAGGCAAGTC 62.748 72.222 15.19 0.00 0.00 3.01
1821 1831 3.655211 CCCAGGCCAGGCAAGTCT 61.655 66.667 15.19 0.00 0.00 3.24
1822 1832 2.360852 CCAGGCCAGGCAAGTCTG 60.361 66.667 15.19 11.07 34.70 3.51
1832 1842 1.421485 GCAAGTCTGCGTTGATCCG 59.579 57.895 0.00 0.00 39.20 4.18
1833 1843 1.014044 GCAAGTCTGCGTTGATCCGA 61.014 55.000 0.00 0.00 39.20 4.55
1834 1844 0.716108 CAAGTCTGCGTTGATCCGAC 59.284 55.000 0.00 0.00 0.00 4.79
1835 1845 0.732880 AAGTCTGCGTTGATCCGACG 60.733 55.000 12.75 12.75 43.34 5.12
1840 1850 3.374330 CGTTGATCCGACGCTGAC 58.626 61.111 5.89 0.00 34.44 3.51
1841 1851 2.158959 CGTTGATCCGACGCTGACC 61.159 63.158 5.89 0.00 34.44 4.02
1842 1852 1.215647 GTTGATCCGACGCTGACCT 59.784 57.895 0.00 0.00 0.00 3.85
1843 1853 1.078759 GTTGATCCGACGCTGACCTG 61.079 60.000 0.00 0.00 0.00 4.00
1844 1854 1.248101 TTGATCCGACGCTGACCTGA 61.248 55.000 0.00 0.00 0.00 3.86
1845 1855 1.226717 GATCCGACGCTGACCTGAC 60.227 63.158 0.00 0.00 0.00 3.51
1846 1856 2.615262 GATCCGACGCTGACCTGACC 62.615 65.000 0.00 0.00 0.00 4.02
1847 1857 3.374402 CCGACGCTGACCTGACCT 61.374 66.667 0.00 0.00 0.00 3.85
1848 1858 2.126307 CGACGCTGACCTGACCTG 60.126 66.667 0.00 0.00 0.00 4.00
1966 1976 5.965334 CGATTAGTCCCACAAATTTCAATCG 59.035 40.000 0.00 0.00 37.13 3.34
2298 2315 3.988385 CCATCGCCGATTGTCGCG 61.988 66.667 0.00 0.00 38.82 5.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
153 154 3.269381 TCCCAACTCTCCAAATTATGCCT 59.731 43.478 0.00 0.00 0.00 4.75
195 197 2.847234 AGCCACGGGTCTGTCCAA 60.847 61.111 0.00 0.00 38.11 3.53
426 430 1.334160 TGTAGGCTGACTTCACCGAA 58.666 50.000 0.00 0.00 0.00 4.30
537 541 2.238898 AGAGGTAGCGCCCATAGTTTTT 59.761 45.455 2.29 0.00 38.26 1.94
538 542 1.838077 AGAGGTAGCGCCCATAGTTTT 59.162 47.619 2.29 0.00 38.26 2.43
551 555 5.163290 GGAGGACTTTATTTGGGAGAGGTAG 60.163 48.000 0.00 0.00 0.00 3.18
688 692 4.854399 TGCATTTAAGAAAACAGTGACCG 58.146 39.130 0.00 0.00 0.00 4.79
758 762 4.142687 ACCGTTGCATAACATTAGCTTGTC 60.143 41.667 0.00 0.00 36.58 3.18
780 784 7.550906 ACAACTCATTGAATAAGCTAAGAGGAC 59.449 37.037 0.00 0.00 39.30 3.85
949 955 5.069781 GCTCCTCTGCTTCTTAAGATTCCTA 59.930 44.000 5.89 0.00 0.00 2.94
1242 1252 4.744570 TGTTATAGACTGCTTCAACTCCG 58.255 43.478 0.00 0.00 0.00 4.63
1316 1326 8.044060 TCATCAAAAGCTACATTAAGTTGGAG 57.956 34.615 0.00 0.00 0.00 3.86
1455 1465 4.332543 CAGCAACAGAGTTCAGTACAAACA 59.667 41.667 12.10 0.00 0.00 2.83
1481 1491 6.128007 CCTTACGATGACAAACTGGCTAAATT 60.128 38.462 0.00 0.00 0.00 1.82
1556 1566 2.417515 GGCGTTGTTGTTCCCTCAAAAA 60.418 45.455 0.00 0.00 0.00 1.94
1557 1567 1.135333 GGCGTTGTTGTTCCCTCAAAA 59.865 47.619 0.00 0.00 0.00 2.44
1558 1568 0.741915 GGCGTTGTTGTTCCCTCAAA 59.258 50.000 0.00 0.00 0.00 2.69
1559 1569 0.106918 AGGCGTTGTTGTTCCCTCAA 60.107 50.000 0.00 0.00 0.00 3.02
1560 1570 0.106918 AAGGCGTTGTTGTTCCCTCA 60.107 50.000 0.00 0.00 0.00 3.86
1561 1571 0.591659 GAAGGCGTTGTTGTTCCCTC 59.408 55.000 0.00 0.00 0.00 4.30
1562 1572 0.182775 AGAAGGCGTTGTTGTTCCCT 59.817 50.000 0.00 0.00 0.00 4.20
1563 1573 1.029681 AAGAAGGCGTTGTTGTTCCC 58.970 50.000 0.18 0.00 0.00 3.97
1564 1574 2.857748 CAAAAGAAGGCGTTGTTGTTCC 59.142 45.455 1.99 0.00 0.00 3.62
1565 1575 2.281498 GCAAAAGAAGGCGTTGTTGTTC 59.719 45.455 1.99 0.00 0.00 3.18
1566 1576 2.267426 GCAAAAGAAGGCGTTGTTGTT 58.733 42.857 1.99 0.00 0.00 2.83
1567 1577 1.203523 TGCAAAAGAAGGCGTTGTTGT 59.796 42.857 1.99 0.00 0.00 3.32
1568 1578 1.919918 TGCAAAAGAAGGCGTTGTTG 58.080 45.000 1.99 2.95 0.00 3.33
1569 1579 2.888834 ATGCAAAAGAAGGCGTTGTT 57.111 40.000 0.00 0.00 0.00 2.83
1570 1580 2.621055 TGTATGCAAAAGAAGGCGTTGT 59.379 40.909 0.00 0.00 0.00 3.32
1571 1581 3.236816 CTGTATGCAAAAGAAGGCGTTG 58.763 45.455 0.00 0.00 0.00 4.10
1572 1582 2.884639 ACTGTATGCAAAAGAAGGCGTT 59.115 40.909 0.00 0.00 0.00 4.84
1573 1583 2.504367 ACTGTATGCAAAAGAAGGCGT 58.496 42.857 0.00 0.00 0.00 5.68
1574 1584 3.435327 TGTACTGTATGCAAAAGAAGGCG 59.565 43.478 0.00 0.00 0.00 5.52
1575 1585 5.355350 AGATGTACTGTATGCAAAAGAAGGC 59.645 40.000 0.00 0.00 0.00 4.35
1576 1586 6.183360 CCAGATGTACTGTATGCAAAAGAAGG 60.183 42.308 0.00 0.00 44.40 3.46
1577 1587 6.372659 ACCAGATGTACTGTATGCAAAAGAAG 59.627 38.462 0.00 0.00 44.40 2.85
1578 1588 6.237901 ACCAGATGTACTGTATGCAAAAGAA 58.762 36.000 0.00 0.00 44.40 2.52
1579 1589 5.804639 ACCAGATGTACTGTATGCAAAAGA 58.195 37.500 0.00 0.00 44.40 2.52
1580 1590 7.712639 AGATACCAGATGTACTGTATGCAAAAG 59.287 37.037 0.00 0.00 44.40 2.27
1581 1591 7.495606 CAGATACCAGATGTACTGTATGCAAAA 59.504 37.037 0.00 0.00 44.40 2.44
1582 1592 6.986231 CAGATACCAGATGTACTGTATGCAAA 59.014 38.462 0.00 0.00 44.40 3.68
1583 1593 6.098266 ACAGATACCAGATGTACTGTATGCAA 59.902 38.462 0.00 0.00 44.40 4.08
1584 1594 5.598417 ACAGATACCAGATGTACTGTATGCA 59.402 40.000 0.00 0.00 44.40 3.96
1585 1595 6.015856 AGACAGATACCAGATGTACTGTATGC 60.016 42.308 0.00 0.00 44.40 3.14
1586 1596 7.446931 AGAGACAGATACCAGATGTACTGTATG 59.553 40.741 0.00 0.00 44.40 2.39
1587 1597 7.522542 AGAGACAGATACCAGATGTACTGTAT 58.477 38.462 0.00 0.00 44.40 2.29
1588 1598 6.901300 AGAGACAGATACCAGATGTACTGTA 58.099 40.000 0.00 0.00 44.40 2.74
1589 1599 5.761205 AGAGACAGATACCAGATGTACTGT 58.239 41.667 0.00 0.00 44.40 3.55
1590 1600 6.768381 TGTAGAGACAGATACCAGATGTACTG 59.232 42.308 0.00 0.00 45.36 2.74
1591 1601 6.768861 GTGTAGAGACAGATACCAGATGTACT 59.231 42.308 0.00 0.00 35.82 2.73
1592 1602 6.542735 TGTGTAGAGACAGATACCAGATGTAC 59.457 42.308 0.00 0.00 35.82 2.90
1593 1603 6.659824 TGTGTAGAGACAGATACCAGATGTA 58.340 40.000 0.00 0.00 35.82 2.29
1594 1604 5.510430 TGTGTAGAGACAGATACCAGATGT 58.490 41.667 0.00 0.00 35.82 3.06
1595 1605 6.647334 ATGTGTAGAGACAGATACCAGATG 57.353 41.667 0.00 0.00 37.78 2.90
1596 1606 7.201956 GGAAATGTGTAGAGACAGATACCAGAT 60.202 40.741 0.00 0.00 38.57 2.90
1597 1607 6.096987 GGAAATGTGTAGAGACAGATACCAGA 59.903 42.308 0.00 0.00 38.57 3.86
1598 1608 6.097554 AGGAAATGTGTAGAGACAGATACCAG 59.902 42.308 11.15 0.00 38.57 4.00
1599 1609 5.958380 AGGAAATGTGTAGAGACAGATACCA 59.042 40.000 11.15 0.00 38.57 3.25
1600 1610 6.322712 AGAGGAAATGTGTAGAGACAGATACC 59.677 42.308 0.00 0.00 38.57 2.73
1601 1611 7.284489 AGAGAGGAAATGTGTAGAGACAGATAC 59.716 40.741 0.00 0.00 38.57 2.24
1602 1612 7.350382 AGAGAGGAAATGTGTAGAGACAGATA 58.650 38.462 0.00 0.00 38.57 1.98
1603 1613 6.194235 AGAGAGGAAATGTGTAGAGACAGAT 58.806 40.000 0.00 0.00 41.15 2.90
1604 1614 5.575157 AGAGAGGAAATGTGTAGAGACAGA 58.425 41.667 0.00 0.00 35.82 3.41
1605 1615 5.913137 AGAGAGGAAATGTGTAGAGACAG 57.087 43.478 0.00 0.00 35.82 3.51
1606 1616 6.672266 AAAGAGAGGAAATGTGTAGAGACA 57.328 37.500 0.00 0.00 0.00 3.41
1607 1617 7.330700 CAGAAAAGAGAGGAAATGTGTAGAGAC 59.669 40.741 0.00 0.00 0.00 3.36
1608 1618 7.015682 ACAGAAAAGAGAGGAAATGTGTAGAGA 59.984 37.037 0.00 0.00 0.00 3.10
1609 1619 7.158021 ACAGAAAAGAGAGGAAATGTGTAGAG 58.842 38.462 0.00 0.00 0.00 2.43
1610 1620 7.067496 ACAGAAAAGAGAGGAAATGTGTAGA 57.933 36.000 0.00 0.00 0.00 2.59
1611 1621 7.227512 ACAACAGAAAAGAGAGGAAATGTGTAG 59.772 37.037 0.00 0.00 0.00 2.74
1612 1622 7.012327 CACAACAGAAAAGAGAGGAAATGTGTA 59.988 37.037 0.00 0.00 0.00 2.90
1613 1623 5.888161 ACAACAGAAAAGAGAGGAAATGTGT 59.112 36.000 0.00 0.00 0.00 3.72
1614 1624 6.204359 CACAACAGAAAAGAGAGGAAATGTG 58.796 40.000 0.00 0.00 0.00 3.21
1615 1625 5.221126 GCACAACAGAAAAGAGAGGAAATGT 60.221 40.000 0.00 0.00 0.00 2.71
1616 1626 5.009410 AGCACAACAGAAAAGAGAGGAAATG 59.991 40.000 0.00 0.00 0.00 2.32
1617 1627 5.136105 AGCACAACAGAAAAGAGAGGAAAT 58.864 37.500 0.00 0.00 0.00 2.17
1618 1628 4.526970 AGCACAACAGAAAAGAGAGGAAA 58.473 39.130 0.00 0.00 0.00 3.13
1619 1629 4.130118 GAGCACAACAGAAAAGAGAGGAA 58.870 43.478 0.00 0.00 0.00 3.36
1620 1630 3.733337 GAGCACAACAGAAAAGAGAGGA 58.267 45.455 0.00 0.00 0.00 3.71
1621 1631 2.478134 CGAGCACAACAGAAAAGAGAGG 59.522 50.000 0.00 0.00 0.00 3.69
1622 1632 3.126831 ACGAGCACAACAGAAAAGAGAG 58.873 45.455 0.00 0.00 0.00 3.20
1623 1633 3.179443 ACGAGCACAACAGAAAAGAGA 57.821 42.857 0.00 0.00 0.00 3.10
1624 1634 3.546815 CCAACGAGCACAACAGAAAAGAG 60.547 47.826 0.00 0.00 0.00 2.85
1625 1635 2.354510 CCAACGAGCACAACAGAAAAGA 59.645 45.455 0.00 0.00 0.00 2.52
1626 1636 2.354510 TCCAACGAGCACAACAGAAAAG 59.645 45.455 0.00 0.00 0.00 2.27
1627 1637 2.354510 CTCCAACGAGCACAACAGAAAA 59.645 45.455 0.00 0.00 0.00 2.29
1628 1638 1.939934 CTCCAACGAGCACAACAGAAA 59.060 47.619 0.00 0.00 0.00 2.52
1629 1639 1.134521 ACTCCAACGAGCACAACAGAA 60.135 47.619 0.00 0.00 40.03 3.02
1630 1640 0.464036 ACTCCAACGAGCACAACAGA 59.536 50.000 0.00 0.00 40.03 3.41
1631 1641 1.003545 CAACTCCAACGAGCACAACAG 60.004 52.381 0.00 0.00 40.03 3.16
1632 1642 1.013596 CAACTCCAACGAGCACAACA 58.986 50.000 0.00 0.00 40.03 3.33
1633 1643 0.317020 GCAACTCCAACGAGCACAAC 60.317 55.000 0.00 0.00 40.03 3.32
1634 1644 1.444119 GGCAACTCCAACGAGCACAA 61.444 55.000 0.00 0.00 40.03 3.33
1635 1645 1.891919 GGCAACTCCAACGAGCACA 60.892 57.895 0.00 0.00 40.03 4.57
1636 1646 2.946762 GGCAACTCCAACGAGCAC 59.053 61.111 0.00 0.00 40.03 4.40
1648 1658 0.178990 ACCTGAACCCTCAAGGCAAC 60.179 55.000 0.00 0.00 40.58 4.17
1649 1659 0.110486 GACCTGAACCCTCAAGGCAA 59.890 55.000 0.00 0.00 40.58 4.52
1650 1660 1.761174 GACCTGAACCCTCAAGGCA 59.239 57.895 0.00 0.00 40.58 4.75
1651 1661 1.002011 GGACCTGAACCCTCAAGGC 60.002 63.158 0.00 0.00 40.58 4.35
1652 1662 0.326264 CAGGACCTGAACCCTCAAGG 59.674 60.000 17.22 0.00 35.97 3.61
1653 1663 0.326264 CCAGGACCTGAACCCTCAAG 59.674 60.000 23.77 0.00 32.44 3.02
1654 1664 1.779061 GCCAGGACCTGAACCCTCAA 61.779 60.000 23.77 0.00 32.44 3.02
1655 1665 2.224159 GCCAGGACCTGAACCCTCA 61.224 63.158 23.77 0.00 32.44 3.86
1656 1666 2.190488 CTGCCAGGACCTGAACCCTC 62.190 65.000 23.77 5.19 32.44 4.30
1657 1667 2.121963 TGCCAGGACCTGAACCCT 60.122 61.111 23.77 0.00 32.44 4.34
1658 1668 2.352805 CTGCCAGGACCTGAACCC 59.647 66.667 23.77 8.54 32.44 4.11
1659 1669 1.302832 CACTGCCAGGACCTGAACC 60.303 63.158 23.77 10.96 32.44 3.62
1660 1670 1.968540 GCACTGCCAGGACCTGAAC 60.969 63.158 23.77 14.61 32.44 3.18
1661 1671 1.782201 ATGCACTGCCAGGACCTGAA 61.782 55.000 23.77 9.72 32.44 3.02
1662 1672 2.189191 GATGCACTGCCAGGACCTGA 62.189 60.000 23.77 2.60 32.44 3.86
1663 1673 1.748122 GATGCACTGCCAGGACCTG 60.748 63.158 15.15 15.15 0.00 4.00
1664 1674 2.194388 CTGATGCACTGCCAGGACCT 62.194 60.000 0.00 0.00 0.00 3.85
1665 1675 1.748122 CTGATGCACTGCCAGGACC 60.748 63.158 0.00 0.00 0.00 4.46
1666 1676 2.404995 GCTGATGCACTGCCAGGAC 61.405 63.158 8.76 0.00 39.41 3.85
1667 1677 2.045634 GCTGATGCACTGCCAGGA 60.046 61.111 8.76 0.00 39.41 3.86
1668 1678 3.506096 CGCTGATGCACTGCCAGG 61.506 66.667 8.76 0.00 39.71 4.45
1669 1679 2.435410 TCGCTGATGCACTGCCAG 60.435 61.111 0.00 0.80 39.71 4.85
1670 1680 2.743538 GTCGCTGATGCACTGCCA 60.744 61.111 0.00 0.00 39.71 4.92
1671 1681 3.857854 CGTCGCTGATGCACTGCC 61.858 66.667 0.00 0.00 39.71 4.85
1672 1682 3.076296 GACGTCGCTGATGCACTGC 62.076 63.158 0.00 0.00 39.64 4.40
1673 1683 2.447887 GGACGTCGCTGATGCACTG 61.448 63.158 9.92 0.00 39.64 3.66
1674 1684 2.125912 GGACGTCGCTGATGCACT 60.126 61.111 9.92 0.00 39.64 4.40
1675 1685 1.738099 AAGGACGTCGCTGATGCAC 60.738 57.895 9.92 0.00 39.64 4.57
1676 1686 1.737735 CAAGGACGTCGCTGATGCA 60.738 57.895 9.92 0.00 39.64 3.96
1677 1687 2.456119 CCAAGGACGTCGCTGATGC 61.456 63.158 9.92 0.00 0.00 3.91
1678 1688 2.456119 GCCAAGGACGTCGCTGATG 61.456 63.158 9.92 4.43 0.00 3.07
1679 1689 2.125512 GCCAAGGACGTCGCTGAT 60.126 61.111 9.92 0.00 0.00 2.90
1680 1690 3.303135 AGCCAAGGACGTCGCTGA 61.303 61.111 13.83 0.00 0.00 4.26
1681 1691 3.114616 CAGCCAAGGACGTCGCTG 61.115 66.667 22.77 22.77 42.42 5.18
1684 1694 1.901650 GAAAGCAGCCAAGGACGTCG 61.902 60.000 9.92 0.00 0.00 5.12
1685 1695 0.603975 AGAAAGCAGCCAAGGACGTC 60.604 55.000 7.13 7.13 0.00 4.34
1686 1696 0.179018 AAGAAAGCAGCCAAGGACGT 60.179 50.000 0.00 0.00 0.00 4.34
1687 1697 0.519077 GAAGAAAGCAGCCAAGGACG 59.481 55.000 0.00 0.00 0.00 4.79
1688 1698 0.519077 CGAAGAAAGCAGCCAAGGAC 59.481 55.000 0.00 0.00 0.00 3.85
1689 1699 1.237285 GCGAAGAAAGCAGCCAAGGA 61.237 55.000 0.00 0.00 34.19 3.36
1690 1700 1.211190 GCGAAGAAAGCAGCCAAGG 59.789 57.895 0.00 0.00 34.19 3.61
1691 1701 4.855596 GCGAAGAAAGCAGCCAAG 57.144 55.556 0.00 0.00 34.19 3.61
1694 1704 3.804193 CCGGCGAAGAAAGCAGCC 61.804 66.667 9.30 0.00 45.67 4.85
1695 1705 3.028366 GACCGGCGAAGAAAGCAGC 62.028 63.158 9.30 0.00 36.08 5.25
1696 1706 2.730672 CGACCGGCGAAGAAAGCAG 61.731 63.158 9.30 0.00 44.57 4.24
1697 1707 2.736995 CGACCGGCGAAGAAAGCA 60.737 61.111 9.30 0.00 44.57 3.91
1698 1708 4.148645 GCGACCGGCGAAGAAAGC 62.149 66.667 20.06 0.84 44.57 3.51
1699 1709 3.488090 GGCGACCGGCGAAGAAAG 61.488 66.667 20.06 0.00 44.92 2.62
1700 1710 4.302509 TGGCGACCGGCGAAGAAA 62.303 61.111 20.06 0.05 44.92 2.52
1701 1711 4.735132 CTGGCGACCGGCGAAGAA 62.735 66.667 20.06 3.35 44.92 2.52
1714 1724 3.880846 CCAAATCGAGCGCCTGGC 61.881 66.667 9.11 9.11 44.05 4.85
1715 1725 3.204827 CCCAAATCGAGCGCCTGG 61.205 66.667 2.29 1.25 0.00 4.45
1716 1726 3.880846 GCCCAAATCGAGCGCCTG 61.881 66.667 2.29 0.00 0.00 4.85
1719 1729 4.179579 GTGGCCCAAATCGAGCGC 62.180 66.667 0.00 0.00 0.00 5.92
1720 1730 3.864686 CGTGGCCCAAATCGAGCG 61.865 66.667 0.00 0.00 0.00 5.03
1721 1731 4.179579 GCGTGGCCCAAATCGAGC 62.180 66.667 0.00 0.00 0.00 5.03
1722 1732 2.745884 TGCGTGGCCCAAATCGAG 60.746 61.111 0.00 0.00 0.00 4.04
1723 1733 3.053291 GTGCGTGGCCCAAATCGA 61.053 61.111 0.00 0.00 0.00 3.59
1724 1734 4.114997 GGTGCGTGGCCCAAATCG 62.115 66.667 0.00 0.00 0.00 3.34
1725 1735 2.988684 TGGTGCGTGGCCCAAATC 60.989 61.111 0.00 0.00 0.00 2.17
1726 1736 3.302344 GTGGTGCGTGGCCCAAAT 61.302 61.111 0.00 0.00 32.52 2.32
1727 1737 4.514585 AGTGGTGCGTGGCCCAAA 62.515 61.111 0.00 0.00 32.52 3.28
1728 1738 4.947147 GAGTGGTGCGTGGCCCAA 62.947 66.667 0.00 0.00 32.52 4.12
1734 1744 2.942796 TAGCCAGGAGTGGTGCGTG 61.943 63.158 0.00 0.00 46.96 5.34
1735 1745 2.603473 TAGCCAGGAGTGGTGCGT 60.603 61.111 0.00 0.00 46.96 5.24
1736 1746 2.125512 GTAGCCAGGAGTGGTGCG 60.126 66.667 0.00 0.00 46.96 5.34
1737 1747 2.125512 CGTAGCCAGGAGTGGTGC 60.126 66.667 0.00 0.00 46.96 5.01
1738 1748 2.579201 CCGTAGCCAGGAGTGGTG 59.421 66.667 0.00 0.00 46.96 4.17
1739 1749 2.683933 CCCGTAGCCAGGAGTGGT 60.684 66.667 0.00 0.00 46.96 4.16
1741 1751 1.756950 TAGCCCGTAGCCAGGAGTG 60.757 63.158 0.00 0.00 45.47 3.51
1742 1752 1.757340 GTAGCCCGTAGCCAGGAGT 60.757 63.158 0.00 0.00 45.47 3.85
1743 1753 2.499827 GGTAGCCCGTAGCCAGGAG 61.500 68.421 0.00 0.00 45.47 3.69
1744 1754 2.443390 GGTAGCCCGTAGCCAGGA 60.443 66.667 0.00 0.00 45.47 3.86
1748 1758 3.547513 CTGGGGTAGCCCGTAGCC 61.548 72.222 24.71 0.37 46.66 3.93
1749 1759 3.547513 CCTGGGGTAGCCCGTAGC 61.548 72.222 24.71 1.15 46.66 3.58
1750 1760 3.547513 GCCTGGGGTAGCCCGTAG 61.548 72.222 24.71 16.91 46.66 3.51
1757 1767 3.338250 TTGCCTGGCCTGGGGTAG 61.338 66.667 28.23 4.58 0.00 3.18
1758 1768 3.338250 CTTGCCTGGCCTGGGGTA 61.338 66.667 28.23 12.97 0.00 3.69
1761 1771 4.290622 ACACTTGCCTGGCCTGGG 62.291 66.667 28.23 19.17 0.00 4.45
1762 1772 2.987547 CACACTTGCCTGGCCTGG 60.988 66.667 23.89 23.89 0.00 4.45
1763 1773 3.677648 GCACACTTGCCTGGCCTG 61.678 66.667 17.53 11.25 43.66 4.85
1771 1781 1.154413 CGGATCAACGCACACTTGC 60.154 57.895 0.00 0.00 46.21 4.01
1772 1782 0.163788 GTCGGATCAACGCACACTTG 59.836 55.000 0.00 0.00 0.00 3.16
1773 1783 1.282248 CGTCGGATCAACGCACACTT 61.282 55.000 6.90 0.00 32.84 3.16
1774 1784 1.733041 CGTCGGATCAACGCACACT 60.733 57.895 6.90 0.00 32.84 3.55
1775 1785 2.769617 CGTCGGATCAACGCACAC 59.230 61.111 6.90 0.00 32.84 3.82
1780 1790 1.874019 CCTCAGCGTCGGATCAACG 60.874 63.158 13.72 13.72 42.87 4.10
1781 1791 1.519455 CCCTCAGCGTCGGATCAAC 60.519 63.158 0.00 0.00 0.00 3.18
1782 1792 1.680989 TCCCTCAGCGTCGGATCAA 60.681 57.895 0.00 0.00 0.00 2.57
1783 1793 2.044352 TCCCTCAGCGTCGGATCA 60.044 61.111 0.00 0.00 0.00 2.92
1784 1794 2.413765 GTCCCTCAGCGTCGGATC 59.586 66.667 0.00 0.00 0.00 3.36
1785 1795 3.518998 CGTCCCTCAGCGTCGGAT 61.519 66.667 0.00 0.00 0.00 4.18
1803 1813 4.748144 GACTTGCCTGGCCTGGGG 62.748 72.222 28.23 16.73 0.00 4.96
1804 1814 3.655211 AGACTTGCCTGGCCTGGG 61.655 66.667 28.23 19.17 0.00 4.45
1805 1815 2.360852 CAGACTTGCCTGGCCTGG 60.361 66.667 23.89 23.89 0.00 4.45
1806 1816 3.060615 GCAGACTTGCCTGGCCTG 61.061 66.667 17.53 16.41 44.74 4.85
1815 1825 0.716108 GTCGGATCAACGCAGACTTG 59.284 55.000 0.00 0.00 0.00 3.16
1816 1826 0.732880 CGTCGGATCAACGCAGACTT 60.733 55.000 6.90 0.00 32.84 3.01
1817 1827 1.154016 CGTCGGATCAACGCAGACT 60.154 57.895 6.90 0.00 32.84 3.24
1818 1828 3.374330 CGTCGGATCAACGCAGAC 58.626 61.111 6.90 0.00 32.84 3.51
1823 1833 2.158959 GGTCAGCGTCGGATCAACG 61.159 63.158 13.72 13.72 42.87 4.10
1824 1834 1.078759 CAGGTCAGCGTCGGATCAAC 61.079 60.000 0.00 0.00 0.00 3.18
1825 1835 1.215382 CAGGTCAGCGTCGGATCAA 59.785 57.895 0.00 0.00 0.00 2.57
1826 1836 1.677633 TCAGGTCAGCGTCGGATCA 60.678 57.895 0.00 0.00 0.00 2.92
1827 1837 1.226717 GTCAGGTCAGCGTCGGATC 60.227 63.158 0.00 0.00 0.00 3.36
1828 1838 2.711922 GGTCAGGTCAGCGTCGGAT 61.712 63.158 0.00 0.00 0.00 4.18
1829 1839 3.371063 GGTCAGGTCAGCGTCGGA 61.371 66.667 0.00 0.00 0.00 4.55
1830 1840 3.374402 AGGTCAGGTCAGCGTCGG 61.374 66.667 0.00 0.00 0.00 4.79
1831 1841 1.938657 ATCAGGTCAGGTCAGCGTCG 61.939 60.000 0.00 0.00 0.00 5.12
1832 1842 0.179124 GATCAGGTCAGGTCAGCGTC 60.179 60.000 0.00 0.00 0.00 5.19
1833 1843 0.613292 AGATCAGGTCAGGTCAGCGT 60.613 55.000 0.00 0.00 0.00 5.07
1834 1844 0.102120 GAGATCAGGTCAGGTCAGCG 59.898 60.000 0.00 0.00 0.00 5.18
1835 1845 0.463620 GGAGATCAGGTCAGGTCAGC 59.536 60.000 0.00 0.00 0.00 4.26
1836 1846 1.480137 GTGGAGATCAGGTCAGGTCAG 59.520 57.143 0.00 0.00 0.00 3.51
1837 1847 1.077828 AGTGGAGATCAGGTCAGGTCA 59.922 52.381 0.00 0.00 0.00 4.02
1838 1848 1.859302 AGTGGAGATCAGGTCAGGTC 58.141 55.000 0.00 0.00 0.00 3.85
1839 1849 2.313342 AGTAGTGGAGATCAGGTCAGGT 59.687 50.000 0.00 0.00 0.00 4.00
1840 1850 3.025322 AGTAGTGGAGATCAGGTCAGG 57.975 52.381 0.00 0.00 0.00 3.86
1841 1851 7.825331 TTAATAGTAGTGGAGATCAGGTCAG 57.175 40.000 0.00 0.00 0.00 3.51
1842 1852 7.618117 TGTTTAATAGTAGTGGAGATCAGGTCA 59.382 37.037 0.00 0.00 0.00 4.02
1843 1853 8.008513 TGTTTAATAGTAGTGGAGATCAGGTC 57.991 38.462 0.00 0.00 0.00 3.85
1844 1854 7.973048 TGTTTAATAGTAGTGGAGATCAGGT 57.027 36.000 0.00 0.00 0.00 4.00
1845 1855 9.482627 GATTGTTTAATAGTAGTGGAGATCAGG 57.517 37.037 0.00 0.00 0.00 3.86
1846 1856 9.186323 CGATTGTTTAATAGTAGTGGAGATCAG 57.814 37.037 0.00 0.00 0.00 2.90
1847 1857 8.909923 TCGATTGTTTAATAGTAGTGGAGATCA 58.090 33.333 0.00 0.00 0.00 2.92
1848 1858 9.745880 TTCGATTGTTTAATAGTAGTGGAGATC 57.254 33.333 0.00 0.00 0.00 2.75
1885 1895 5.510179 GGGCTAATAGTGAGGTGCGTATAAA 60.510 44.000 0.00 0.00 0.00 1.40
1889 1899 1.684983 GGGCTAATAGTGAGGTGCGTA 59.315 52.381 0.00 0.00 0.00 4.42
1897 1907 2.026636 GTGTTGTGGGGGCTAATAGTGA 60.027 50.000 0.00 0.00 0.00 3.41
1966 1976 6.455646 CGCTATTAGATAAATGATGGCCGTTC 60.456 42.308 0.00 0.00 0.00 3.95
2298 2315 2.357760 TACGAGCGGCAACAACCC 60.358 61.111 1.45 0.00 0.00 4.11
2300 2317 2.474712 GCTACGAGCGGCAACAAC 59.525 61.111 1.45 0.00 0.00 3.32
2314 2331 1.107945 TGATGACGGATTCCACGCTA 58.892 50.000 3.09 0.00 34.00 4.26
2353 2370 2.590007 CATGCTGCGAGGGTAGGC 60.590 66.667 0.00 0.00 0.00 3.93


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

AutoCloner maintained by Alex Coulton.