Multiple sequence alignment - TraesCS7B01G251200

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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 TraesCS7B01G251200 chr7B 100.000 3031 0 0 553 3583 463621690 463624720 0.000000e+00 5598.0
1 TraesCS7B01G251200 chr7B 100.000 174 0 0 1 174 463621138 463621311 4.460000e-84 322.0
2 TraesCS7B01G251200 chr7B 84.762 105 16 0 2483 2587 440810673 440810569 4.890000e-19 106.0
3 TraesCS7B01G251200 chr7D 93.271 1278 47 9 1633 2873 446934302 446935577 0.000000e+00 1847.0
4 TraesCS7B01G251200 chr7D 94.839 620 23 6 871 1486 446927417 446928031 0.000000e+00 959.0
5 TraesCS7B01G251200 chr7D 86.364 220 25 3 1079 1297 423708390 423708175 5.980000e-58 235.0
6 TraesCS7B01G251200 chr7D 88.304 171 7 6 8 167 53610164 53609996 3.650000e-45 193.0
7 TraesCS7B01G251200 chr7D 85.795 176 21 3 3412 3583 595092394 595092219 2.200000e-42 183.0
8 TraesCS7B01G251200 chr7D 92.157 102 7 1 3309 3410 446935801 446935901 3.730000e-30 143.0
9 TraesCS7B01G251200 chr7A 89.774 753 51 8 2154 2882 497818170 497818920 0.000000e+00 941.0
10 TraesCS7B01G251200 chr7A 95.303 511 22 2 1636 2144 497817609 497818119 0.000000e+00 809.0
11 TraesCS7B01G251200 chr7A 97.528 445 7 4 2874 3315 722375947 722376390 0.000000e+00 758.0
12 TraesCS7B01G251200 chr7A 89.773 440 27 9 867 1294 497817080 497817513 6.760000e-152 547.0
13 TraesCS7B01G251200 chr7A 79.679 374 46 18 879 1249 509469864 509470210 3.570000e-60 243.0
14 TraesCS7B01G251200 chr7A 88.757 169 19 0 2279 2447 509471551 509471719 1.300000e-49 207.0
15 TraesCS7B01G251200 chr7A 89.820 167 10 7 9 174 710812712 710812872 1.300000e-49 207.0
16 TraesCS7B01G251200 chr7A 85.714 105 15 0 2483 2587 509471716 509471820 1.050000e-20 111.0
17 TraesCS7B01G251200 chr7A 83.654 104 4 8 3305 3406 497818912 497819004 6.370000e-13 86.1
18 TraesCS7B01G251200 chr5B 97.528 445 10 1 2871 3314 418324168 418324612 0.000000e+00 760.0
19 TraesCS7B01G251200 chr5B 97.945 438 8 1 2878 3314 55274430 55273993 0.000000e+00 758.0
20 TraesCS7B01G251200 chr5B 97.309 446 10 2 2871 3314 418322036 418322481 0.000000e+00 756.0
21 TraesCS7B01G251200 chr5B 97.079 445 12 1 2871 3314 418318846 418319290 0.000000e+00 749.0
22 TraesCS7B01G251200 chr5B 89.881 168 4 6 8 163 596436106 596436272 1.690000e-48 204.0
23 TraesCS7B01G251200 chr5B 85.106 188 9 10 3409 3583 32126779 32126960 1.320000e-39 174.0
24 TraesCS7B01G251200 chr2A 97.303 445 7 5 2872 3313 37947039 37947481 0.000000e+00 750.0
25 TraesCS7B01G251200 chrUn 97.079 445 12 1 2871 3314 357739132 357738688 0.000000e+00 749.0
26 TraesCS7B01G251200 chr2B 97.500 440 7 3 2873 3311 459840666 459841102 0.000000e+00 749.0
27 TraesCS7B01G251200 chr2B 96.429 308 10 1 568 874 63704928 63705235 1.150000e-139 507.0
28 TraesCS7B01G251200 chr2B 93.417 319 19 2 554 871 162014192 162014509 4.190000e-129 472.0
29 TraesCS7B01G251200 chr2B 92.628 312 19 4 567 876 147587133 147586824 2.540000e-121 446.0
30 TraesCS7B01G251200 chr2B 95.541 157 4 2 8 162 63704264 63704419 7.680000e-62 248.0
31 TraesCS7B01G251200 chr2B 89.773 176 8 4 3413 3583 212179507 212179677 2.170000e-52 217.0
32 TraesCS7B01G251200 chr1A 96.659 449 13 2 2877 3324 1511022 1511469 0.000000e+00 745.0
33 TraesCS7B01G251200 chr1A 93.617 282 16 2 594 874 385375233 385375513 1.540000e-113 420.0
34 TraesCS7B01G251200 chr5A 91.693 313 19 7 567 874 478852948 478853258 9.190000e-116 427.0
35 TraesCS7B01G251200 chr3B 90.769 325 23 5 554 875 763639128 763639448 9.190000e-116 427.0
36 TraesCS7B01G251200 chr3B 90.462 325 22 7 554 874 153954292 153953973 1.540000e-113 420.0
37 TraesCS7B01G251200 chr3B 90.385 312 26 4 563 871 341958654 341958964 1.200000e-109 407.0
38 TraesCS7B01G251200 chr4B 89.908 327 23 8 554 874 672951323 672951645 2.570000e-111 412.0
39 TraesCS7B01G251200 chr4B 80.628 191 32 3 1662 1851 641408040 641408226 3.730000e-30 143.0
40 TraesCS7B01G251200 chr4B 79.130 115 21 3 1662 1776 641412977 641413088 3.840000e-10 76.8
41 TraesCS7B01G251200 chr4D 90.000 180 4 7 8 174 459352307 459352485 1.670000e-53 220.0
42 TraesCS7B01G251200 chr4D 88.950 181 5 7 8 174 60874979 60874800 3.620000e-50 209.0
43 TraesCS7B01G251200 chr6D 89.503 181 4 8 8 174 265998537 265998358 7.790000e-52 215.0
44 TraesCS7B01G251200 chr1D 88.827 179 6 11 8 174 486681612 486681436 1.300000e-49 207.0
45 TraesCS7B01G251200 chr3D 94.118 119 5 2 8 124 462843668 462843786 2.840000e-41 180.0


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 TraesCS7B01G251200 chr7B 463621138 463624720 3582 False 2960.000 5598 100.000000 1 3583 2 chr7B.!!$F1 3582
1 TraesCS7B01G251200 chr7D 446934302 446935901 1599 False 995.000 1847 92.714000 1633 3410 2 chr7D.!!$F2 1777
2 TraesCS7B01G251200 chr7D 446927417 446928031 614 False 959.000 959 94.839000 871 1486 1 chr7D.!!$F1 615
3 TraesCS7B01G251200 chr7A 497817080 497819004 1924 False 595.775 941 89.626000 867 3406 4 chr7A.!!$F3 2539
4 TraesCS7B01G251200 chr5B 418318846 418324612 5766 False 755.000 760 97.305333 2871 3314 3 chr5B.!!$F3 443
5 TraesCS7B01G251200 chr2B 63704264 63705235 971 False 377.500 507 95.985000 8 874 2 chr2B.!!$F4 866

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
676 783 2.386249 GCGCGAACGAGAAGAGATAAT 58.614 47.619 12.10 0.0 43.93 1.28 F
1052 1168 0.962489 AGTCACCAAGGAGAGACACG 59.038 55.000 11.42 0.0 33.56 4.49 F
1061 1180 1.813786 AGGAGAGACACGAGCAACTAC 59.186 52.381 0.00 0.0 0.00 2.73 F
2261 2448 1.111116 TCTTCCCAACCACGACGACT 61.111 55.000 0.00 0.0 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1789 1912 0.609131 AGACCGTCTTGGGGCATTTG 60.609 55.000 0.00 0.0 44.64 2.32 R
2177 2364 1.112315 AGGCAGAGCTCATCGTAGGG 61.112 60.000 17.77 0.0 0.00 3.53 R
2456 2643 1.367471 CGTTCCTGTCAGCACCTCA 59.633 57.895 0.00 0.0 0.00 3.86 R
3413 7173 0.165944 CAGTTCACCAAATCCGCGTC 59.834 55.000 4.92 0.0 0.00 5.19 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
39 40 5.032327 TCCTCATTGTTCATCTCCATCTG 57.968 43.478 0.00 0.00 0.00 2.90
676 783 2.386249 GCGCGAACGAGAAGAGATAAT 58.614 47.619 12.10 0.00 43.93 1.28
677 784 2.402378 GCGCGAACGAGAAGAGATAATC 59.598 50.000 12.10 0.00 43.93 1.75
992 1106 2.583441 GGCTTGCCCTTCCAAACCC 61.583 63.158 0.00 0.00 0.00 4.11
1052 1168 0.962489 AGTCACCAAGGAGAGACACG 59.038 55.000 11.42 0.00 33.56 4.49
1060 1179 2.201921 AGGAGAGACACGAGCAACTA 57.798 50.000 0.00 0.00 0.00 2.24
1061 1180 1.813786 AGGAGAGACACGAGCAACTAC 59.186 52.381 0.00 0.00 0.00 2.73
1122 1241 2.665185 GTCGCCGTTGTCCTTGCT 60.665 61.111 0.00 0.00 0.00 3.91
1170 1289 2.224066 CGGCCTGAAAGTCGGATTCTAT 60.224 50.000 0.00 0.00 0.00 1.98
1306 1429 8.730680 GTTTTGTCAAGGTATGTTCATGAGTAT 58.269 33.333 0.00 0.00 0.00 2.12
1321 1444 5.189736 TCATGAGTATTAGTTTGCTGGTCCT 59.810 40.000 0.00 0.00 0.00 3.85
1322 1445 6.382859 TCATGAGTATTAGTTTGCTGGTCCTA 59.617 38.462 0.00 0.00 0.00 2.94
1337 1460 3.838317 TGGTCCTAGATATATGGGTGTGC 59.162 47.826 0.00 0.00 0.00 4.57
1343 1466 7.288852 GTCCTAGATATATGGGTGTGCATAGAT 59.711 40.741 0.00 0.00 0.00 1.98
1439 1562 2.502947 TGCAGACAAGAGTCCAGCATAT 59.497 45.455 8.61 0.00 45.49 1.78
1442 1565 4.202202 GCAGACAAGAGTCCAGCATATAGT 60.202 45.833 0.00 0.00 46.15 2.12
1486 1609 6.282930 TCTCTGACGATGATTCATTTGCATA 58.717 36.000 0.00 0.00 0.00 3.14
1487 1610 6.762661 TCTCTGACGATGATTCATTTGCATAA 59.237 34.615 0.00 0.00 0.00 1.90
1489 1612 7.933396 TCTGACGATGATTCATTTGCATAAAT 58.067 30.769 0.00 0.00 36.97 1.40
1506 1629 9.449550 TTGCATAAATGAAATAATGATGACGAC 57.550 29.630 0.00 0.00 0.00 4.34
1507 1630 8.839343 TGCATAAATGAAATAATGATGACGACT 58.161 29.630 0.00 0.00 0.00 4.18
1508 1631 9.322776 GCATAAATGAAATAATGATGACGACTC 57.677 33.333 0.00 0.00 0.00 3.36
1521 1644 6.515832 TGATGACGACTCATATATTTGCTGT 58.484 36.000 0.00 0.00 37.24 4.40
1522 1645 6.642540 TGATGACGACTCATATATTTGCTGTC 59.357 38.462 0.00 8.14 37.24 3.51
1523 1646 5.901552 TGACGACTCATATATTTGCTGTCA 58.098 37.500 14.25 10.24 0.00 3.58
1524 1647 6.337356 TGACGACTCATATATTTGCTGTCAA 58.663 36.000 14.25 0.00 30.50 3.18
1526 1649 7.005062 ACGACTCATATATTTGCTGTCAAAC 57.995 36.000 14.25 0.00 44.11 2.93
1527 1650 6.818644 ACGACTCATATATTTGCTGTCAAACT 59.181 34.615 14.25 0.00 44.11 2.66
1529 1652 7.517417 CGACTCATATATTTGCTGTCAAACTCC 60.517 40.741 14.25 0.00 44.11 3.85
1530 1653 6.543831 ACTCATATATTTGCTGTCAAACTCCC 59.456 38.462 0.58 0.00 44.11 4.30
1531 1654 6.422333 TCATATATTTGCTGTCAAACTCCCA 58.578 36.000 0.58 0.00 44.11 4.37
1532 1655 6.889177 TCATATATTTGCTGTCAAACTCCCAA 59.111 34.615 0.58 0.00 44.11 4.12
1533 1656 7.560991 TCATATATTTGCTGTCAAACTCCCAAT 59.439 33.333 0.58 0.00 44.11 3.16
1535 1658 5.649782 ATTTGCTGTCAAACTCCCAATAG 57.350 39.130 0.58 0.00 44.11 1.73
1536 1659 4.365514 TTGCTGTCAAACTCCCAATAGA 57.634 40.909 0.00 0.00 0.00 1.98
1537 1660 3.674997 TGCTGTCAAACTCCCAATAGAC 58.325 45.455 0.00 0.00 0.00 2.59
1538 1661 3.072330 TGCTGTCAAACTCCCAATAGACA 59.928 43.478 0.00 0.00 35.07 3.41
1540 1663 3.674997 TGTCAAACTCCCAATAGACAGC 58.325 45.455 0.00 0.00 32.76 4.40
1541 1664 3.010420 GTCAAACTCCCAATAGACAGCC 58.990 50.000 0.00 0.00 0.00 4.85
1543 1666 3.073798 TCAAACTCCCAATAGACAGCCAA 59.926 43.478 0.00 0.00 0.00 4.52
1544 1667 3.806949 AACTCCCAATAGACAGCCAAA 57.193 42.857 0.00 0.00 0.00 3.28
1548 1671 4.018050 ACTCCCAATAGACAGCCAAAGATT 60.018 41.667 0.00 0.00 0.00 2.40
1549 1672 4.272489 TCCCAATAGACAGCCAAAGATTG 58.728 43.478 0.00 0.00 0.00 2.67
1564 1687 6.638610 CCAAAGATTGGTTAATAATGGCACA 58.361 36.000 0.87 0.00 45.93 4.57
1565 1688 6.534793 CCAAAGATTGGTTAATAATGGCACAC 59.465 38.462 0.87 0.00 44.36 3.82
1566 1689 7.793353 CCAAAGATTGGTTAATAATGGCACACA 60.793 37.037 0.87 0.00 44.36 3.72
1570 1693 6.849085 TTGGTTAATAATGGCACACATTCT 57.151 33.333 0.00 0.00 46.67 2.40
1571 1694 6.449635 TGGTTAATAATGGCACACATTCTC 57.550 37.500 0.00 0.00 46.67 2.87
1572 1695 5.065859 TGGTTAATAATGGCACACATTCTCG 59.934 40.000 0.00 0.00 46.67 4.04
1576 1699 6.751514 AATAATGGCACACATTCTCGTTAA 57.248 33.333 0.00 0.00 46.67 2.01
1577 1700 4.685169 AATGGCACACATTCTCGTTAAG 57.315 40.909 0.00 0.00 46.67 1.85
1578 1701 2.422597 TGGCACACATTCTCGTTAAGG 58.577 47.619 0.00 0.00 0.00 2.69
1579 1702 2.224426 TGGCACACATTCTCGTTAAGGT 60.224 45.455 0.00 0.00 0.00 3.50
1580 1703 2.415512 GGCACACATTCTCGTTAAGGTC 59.584 50.000 0.00 0.00 0.00 3.85
1581 1704 3.326747 GCACACATTCTCGTTAAGGTCT 58.673 45.455 0.00 0.00 0.00 3.85
1582 1705 3.368236 GCACACATTCTCGTTAAGGTCTC 59.632 47.826 0.00 0.00 0.00 3.36
1583 1706 4.556233 CACACATTCTCGTTAAGGTCTCA 58.444 43.478 0.00 0.00 0.00 3.27
1584 1707 4.988540 CACACATTCTCGTTAAGGTCTCAA 59.011 41.667 0.00 0.00 0.00 3.02
1585 1708 5.639506 CACACATTCTCGTTAAGGTCTCAAT 59.360 40.000 0.00 0.00 0.00 2.57
1586 1709 6.147821 CACACATTCTCGTTAAGGTCTCAATT 59.852 38.462 0.00 0.00 0.00 2.32
1587 1710 6.710744 ACACATTCTCGTTAAGGTCTCAATTT 59.289 34.615 0.00 0.00 0.00 1.82
1588 1711 7.017645 CACATTCTCGTTAAGGTCTCAATTTG 58.982 38.462 0.00 0.00 0.00 2.32
1589 1712 6.710744 ACATTCTCGTTAAGGTCTCAATTTGT 59.289 34.615 0.00 0.00 0.00 2.83
1590 1713 7.876068 ACATTCTCGTTAAGGTCTCAATTTGTA 59.124 33.333 0.00 0.00 0.00 2.41
1593 1716 5.771469 TCGTTAAGGTCTCAATTTGTACGA 58.229 37.500 0.00 0.00 32.67 3.43
1596 1719 3.928727 AGGTCTCAATTTGTACGACGA 57.071 42.857 0.00 0.00 0.00 4.20
1597 1720 4.247267 AGGTCTCAATTTGTACGACGAA 57.753 40.909 0.00 0.00 0.00 3.85
1598 1721 3.985925 AGGTCTCAATTTGTACGACGAAC 59.014 43.478 0.00 0.00 0.00 3.95
1599 1722 3.985925 GGTCTCAATTTGTACGACGAACT 59.014 43.478 0.00 0.00 0.00 3.01
1600 1723 4.446719 GGTCTCAATTTGTACGACGAACTT 59.553 41.667 0.00 0.00 0.00 2.66
1601 1724 5.630680 GGTCTCAATTTGTACGACGAACTTA 59.369 40.000 0.00 0.00 0.00 2.24
1606 1729 6.864685 TCAATTTGTACGACGAACTTACATCT 59.135 34.615 0.00 0.00 34.18 2.90
1607 1730 7.383029 TCAATTTGTACGACGAACTTACATCTT 59.617 33.333 0.00 0.00 34.18 2.40
1609 1732 3.916172 TGTACGACGAACTTACATCTTGC 59.084 43.478 0.00 0.00 30.20 4.01
1610 1733 2.334838 ACGACGAACTTACATCTTGCC 58.665 47.619 0.00 0.00 0.00 4.52
1611 1734 2.288579 ACGACGAACTTACATCTTGCCA 60.289 45.455 0.00 0.00 0.00 4.92
1612 1735 2.930040 CGACGAACTTACATCTTGCCAT 59.070 45.455 0.00 0.00 0.00 4.40
1613 1736 3.370978 CGACGAACTTACATCTTGCCATT 59.629 43.478 0.00 0.00 0.00 3.16
1614 1737 4.142902 CGACGAACTTACATCTTGCCATTT 60.143 41.667 0.00 0.00 0.00 2.32
1615 1738 5.062934 CGACGAACTTACATCTTGCCATTTA 59.937 40.000 0.00 0.00 0.00 1.40
1616 1739 6.422776 ACGAACTTACATCTTGCCATTTAG 57.577 37.500 0.00 0.00 0.00 1.85
1617 1740 5.163754 ACGAACTTACATCTTGCCATTTAGC 60.164 40.000 0.00 0.00 0.00 3.09
1618 1741 5.582550 GAACTTACATCTTGCCATTTAGCC 58.417 41.667 0.00 0.00 0.00 3.93
1619 1742 4.599041 ACTTACATCTTGCCATTTAGCCA 58.401 39.130 0.00 0.00 0.00 4.75
1620 1743 4.641989 ACTTACATCTTGCCATTTAGCCAG 59.358 41.667 0.00 0.00 0.00 4.85
1621 1744 3.091633 ACATCTTGCCATTTAGCCAGT 57.908 42.857 0.00 0.00 0.00 4.00
1622 1745 4.235079 ACATCTTGCCATTTAGCCAGTA 57.765 40.909 0.00 0.00 0.00 2.74
1624 1747 4.202441 CATCTTGCCATTTAGCCAGTAGT 58.798 43.478 0.00 0.00 0.00 2.73
1626 1749 5.630415 TCTTGCCATTTAGCCAGTAGTAT 57.370 39.130 0.00 0.00 0.00 2.12
1627 1750 6.740944 TCTTGCCATTTAGCCAGTAGTATA 57.259 37.500 0.00 0.00 0.00 1.47
1628 1751 7.316393 TCTTGCCATTTAGCCAGTAGTATAT 57.684 36.000 0.00 0.00 0.00 0.86
1629 1752 7.745717 TCTTGCCATTTAGCCAGTAGTATATT 58.254 34.615 0.00 0.00 0.00 1.28
1630 1753 8.217799 TCTTGCCATTTAGCCAGTAGTATATTT 58.782 33.333 0.00 0.00 0.00 1.40
1631 1754 8.760980 TTGCCATTTAGCCAGTAGTATATTTT 57.239 30.769 0.00 0.00 0.00 1.82
1653 1776 6.472686 TTTGTTACTAAACCCAGTTGCAAT 57.527 33.333 0.59 0.00 34.49 3.56
1675 1798 2.280524 CAACAGGGTTGCGACGGA 60.281 61.111 0.00 0.00 0.00 4.69
1864 1987 2.789203 CGTCGCGCTAGCAGGAAAC 61.789 63.158 16.45 4.25 45.49 2.78
1951 2074 3.955101 CTACCCTCGCCGCTCTCG 61.955 72.222 0.00 0.00 0.00 4.04
2120 2246 7.286775 AGGTACATAAATGGTGTTCAAAACTGT 59.713 33.333 0.00 0.00 0.00 3.55
2177 2364 4.037446 TGATTGTTTTACTGCCAGGTTGAC 59.963 41.667 0.00 0.00 0.00 3.18
2261 2448 1.111116 TCTTCCCAACCACGACGACT 61.111 55.000 0.00 0.00 0.00 4.18
2375 2562 2.845486 CTCACGAACTCGACTCTGAAG 58.155 52.381 6.05 0.00 43.02 3.02
2411 2598 3.319405 AGTTTGTCAAGAGCGAGAAGAGA 59.681 43.478 0.00 0.00 0.00 3.10
2456 2643 1.381867 TGGTGAAGATGGGGGACATT 58.618 50.000 0.00 0.00 40.72 2.71
2570 2757 5.557136 CGACTATGGTGAATTCGCTGAAATC 60.557 44.000 18.02 10.03 0.00 2.17
2625 2812 3.456280 TGACAAAGAAAACAAGCATGCC 58.544 40.909 15.66 0.00 0.00 4.40
2687 2887 7.846644 TGTTCCGTCTGTTTCTTAGTTTTTA 57.153 32.000 0.00 0.00 0.00 1.52
2763 2977 6.813152 GTGAATTTTACCAAGATGACAATGGG 59.187 38.462 9.35 0.00 38.58 4.00
2873 3087 9.599866 CAACATTATACTCCATACTTGAGTGAA 57.400 33.333 3.30 0.00 42.80 3.18
2944 4571 8.581578 TGTGACACATATTATCCTATTTAGCGA 58.418 33.333 3.56 0.00 0.00 4.93
3208 6968 2.034558 CACGCATCAAAAACAAGGGTCT 59.965 45.455 0.00 0.00 0.00 3.85
3256 7016 2.159627 CGAATTTTCACTCGAAGGGGTG 59.840 50.000 0.00 0.00 37.23 4.61
3363 7123 2.958818 TGGACTGACACTACTGGACTT 58.041 47.619 0.00 0.00 0.00 3.01
3369 7129 5.273208 ACTGACACTACTGGACTTCCATAT 58.727 41.667 0.00 0.00 46.46 1.78
3378 7138 5.598769 ACTGGACTTCCATATAACTAACGC 58.401 41.667 0.00 0.00 46.46 4.84
3397 7157 6.604735 AACGCGATTCTAATCTAGCAAAAT 57.395 33.333 15.93 0.00 33.24 1.82
3411 7171 8.635765 ATCTAGCAAAATAGAAGTTTGGTTGA 57.364 30.769 14.65 14.65 45.30 3.18
3412 7172 8.099364 TCTAGCAAAATAGAAGTTTGGTTGAG 57.901 34.615 9.38 3.52 42.41 3.02
3413 7173 6.089249 AGCAAAATAGAAGTTTGGTTGAGG 57.911 37.500 0.00 0.00 42.41 3.86
3414 7174 5.833131 AGCAAAATAGAAGTTTGGTTGAGGA 59.167 36.000 0.00 0.00 42.41 3.71
3415 7175 5.920840 GCAAAATAGAAGTTTGGTTGAGGAC 59.079 40.000 2.52 0.00 36.64 3.85
3416 7176 5.941948 AAATAGAAGTTTGGTTGAGGACG 57.058 39.130 0.00 0.00 0.00 4.79
3417 7177 1.594331 AGAAGTTTGGTTGAGGACGC 58.406 50.000 0.00 0.00 0.00 5.19
3418 7178 0.234884 GAAGTTTGGTTGAGGACGCG 59.765 55.000 3.53 3.53 0.00 6.01
3419 7179 1.164041 AAGTTTGGTTGAGGACGCGG 61.164 55.000 12.47 0.00 0.00 6.46
3420 7180 1.595929 GTTTGGTTGAGGACGCGGA 60.596 57.895 12.47 0.00 0.00 5.54
3421 7181 0.953960 GTTTGGTTGAGGACGCGGAT 60.954 55.000 12.47 0.00 0.00 4.18
3422 7182 0.250553 TTTGGTTGAGGACGCGGATT 60.251 50.000 12.47 0.00 0.00 3.01
3423 7183 0.250553 TTGGTTGAGGACGCGGATTT 60.251 50.000 12.47 0.00 0.00 2.17
3424 7184 0.953471 TGGTTGAGGACGCGGATTTG 60.953 55.000 12.47 0.00 0.00 2.32
3425 7185 1.644786 GGTTGAGGACGCGGATTTGG 61.645 60.000 12.47 0.00 0.00 3.28
3426 7186 0.953960 GTTGAGGACGCGGATTTGGT 60.954 55.000 12.47 0.00 0.00 3.67
3427 7187 0.953471 TTGAGGACGCGGATTTGGTG 60.953 55.000 12.47 0.00 0.00 4.17
3428 7188 1.079405 GAGGACGCGGATTTGGTGA 60.079 57.895 12.47 0.00 0.00 4.02
3429 7189 0.672401 GAGGACGCGGATTTGGTGAA 60.672 55.000 12.47 0.00 0.00 3.18
3430 7190 0.953960 AGGACGCGGATTTGGTGAAC 60.954 55.000 12.47 0.00 0.00 3.18
3431 7191 0.953960 GGACGCGGATTTGGTGAACT 60.954 55.000 12.47 0.00 0.00 3.01
3432 7192 0.165944 GACGCGGATTTGGTGAACTG 59.834 55.000 12.47 0.00 0.00 3.16
3433 7193 0.250124 ACGCGGATTTGGTGAACTGA 60.250 50.000 12.47 0.00 0.00 3.41
3434 7194 0.871722 CGCGGATTTGGTGAACTGAA 59.128 50.000 0.00 0.00 0.00 3.02
3435 7195 1.399727 CGCGGATTTGGTGAACTGAAC 60.400 52.381 0.00 0.00 0.00 3.18
3436 7196 1.606668 GCGGATTTGGTGAACTGAACA 59.393 47.619 0.00 0.00 0.00 3.18
3437 7197 2.228822 GCGGATTTGGTGAACTGAACAT 59.771 45.455 0.00 0.00 0.00 2.71
3438 7198 3.825308 CGGATTTGGTGAACTGAACATG 58.175 45.455 0.00 0.00 0.00 3.21
3439 7199 3.366273 CGGATTTGGTGAACTGAACATGG 60.366 47.826 0.00 0.00 0.00 3.66
3440 7200 3.056607 GGATTTGGTGAACTGAACATGGG 60.057 47.826 0.00 0.00 0.00 4.00
3441 7201 2.746279 TTGGTGAACTGAACATGGGT 57.254 45.000 0.00 0.00 0.00 4.51
3442 7202 1.979855 TGGTGAACTGAACATGGGTG 58.020 50.000 0.00 0.00 0.00 4.61
3443 7203 1.214175 TGGTGAACTGAACATGGGTGT 59.786 47.619 0.00 0.00 41.28 4.16
3444 7204 1.608590 GGTGAACTGAACATGGGTGTG 59.391 52.381 0.00 0.00 38.92 3.82
3445 7205 1.001378 GTGAACTGAACATGGGTGTGC 60.001 52.381 0.00 0.00 38.92 4.57
3446 7206 0.238289 GAACTGAACATGGGTGTGCG 59.762 55.000 0.00 0.00 36.61 5.34
3447 7207 1.795170 AACTGAACATGGGTGTGCGC 61.795 55.000 0.00 0.00 36.61 6.09
3448 7208 3.313007 CTGAACATGGGTGTGCGCG 62.313 63.158 0.00 0.00 36.61 6.86
3449 7209 3.353836 GAACATGGGTGTGCGCGT 61.354 61.111 8.43 0.00 38.92 6.01
3450 7210 3.308878 GAACATGGGTGTGCGCGTC 62.309 63.158 8.43 0.00 38.92 5.19
3453 7213 4.329545 ATGGGTGTGCGCGTCCTT 62.330 61.111 8.43 0.00 0.00 3.36
3454 7214 3.842925 ATGGGTGTGCGCGTCCTTT 62.843 57.895 8.43 0.00 0.00 3.11
3455 7215 2.357760 GGGTGTGCGCGTCCTTTA 60.358 61.111 8.43 0.00 0.00 1.85
3456 7216 1.743995 GGGTGTGCGCGTCCTTTAT 60.744 57.895 8.43 0.00 0.00 1.40
3457 7217 1.423845 GGTGTGCGCGTCCTTTATG 59.576 57.895 8.43 0.00 0.00 1.90
3458 7218 1.017177 GGTGTGCGCGTCCTTTATGA 61.017 55.000 8.43 0.00 0.00 2.15
3459 7219 0.793861 GTGTGCGCGTCCTTTATGAA 59.206 50.000 8.43 0.00 0.00 2.57
3460 7220 1.396996 GTGTGCGCGTCCTTTATGAAT 59.603 47.619 8.43 0.00 0.00 2.57
3461 7221 2.605818 GTGTGCGCGTCCTTTATGAATA 59.394 45.455 8.43 0.00 0.00 1.75
3462 7222 2.863740 TGTGCGCGTCCTTTATGAATAG 59.136 45.455 8.43 0.00 0.00 1.73
3463 7223 2.864343 GTGCGCGTCCTTTATGAATAGT 59.136 45.455 8.43 0.00 0.00 2.12
3464 7224 4.046462 GTGCGCGTCCTTTATGAATAGTA 58.954 43.478 8.43 0.00 0.00 1.82
3465 7225 4.505191 GTGCGCGTCCTTTATGAATAGTAA 59.495 41.667 8.43 0.00 0.00 2.24
3466 7226 5.005971 GTGCGCGTCCTTTATGAATAGTAAA 59.994 40.000 8.43 0.00 0.00 2.01
3467 7227 5.756347 TGCGCGTCCTTTATGAATAGTAAAT 59.244 36.000 8.43 0.00 0.00 1.40
3468 7228 6.259167 TGCGCGTCCTTTATGAATAGTAAATT 59.741 34.615 8.43 0.00 0.00 1.82
3469 7229 6.790825 GCGCGTCCTTTATGAATAGTAAATTC 59.209 38.462 8.43 0.00 0.00 2.17
3470 7230 7.517734 GCGCGTCCTTTATGAATAGTAAATTCA 60.518 37.037 8.43 3.13 41.59 2.57
3471 7231 8.332464 CGCGTCCTTTATGAATAGTAAATTCAA 58.668 33.333 0.00 0.00 40.84 2.69
3472 7232 9.997482 GCGTCCTTTATGAATAGTAAATTCAAA 57.003 29.630 4.67 0.00 40.84 2.69
3532 7292 9.669887 TTGTTTTAATATACATAGTCAACCGGT 57.330 29.630 0.00 0.00 0.00 5.28
3541 7301 6.474140 ACATAGTCAACCGGTATAATCACA 57.526 37.500 8.00 0.00 0.00 3.58
3542 7302 7.062749 ACATAGTCAACCGGTATAATCACAT 57.937 36.000 8.00 0.00 0.00 3.21
3543 7303 8.185506 ACATAGTCAACCGGTATAATCACATA 57.814 34.615 8.00 0.00 0.00 2.29
3544 7304 8.812972 ACATAGTCAACCGGTATAATCACATAT 58.187 33.333 8.00 0.00 0.00 1.78
3545 7305 9.087424 CATAGTCAACCGGTATAATCACATATG 57.913 37.037 8.00 0.00 0.00 1.78
3546 7306 7.297936 AGTCAACCGGTATAATCACATATGA 57.702 36.000 8.00 0.00 39.83 2.15
3547 7307 7.732025 AGTCAACCGGTATAATCACATATGAA 58.268 34.615 8.00 0.00 38.69 2.57
3548 7308 7.872993 AGTCAACCGGTATAATCACATATGAAG 59.127 37.037 8.00 1.52 38.69 3.02
3549 7309 7.656137 GTCAACCGGTATAATCACATATGAAGT 59.344 37.037 8.00 0.00 38.69 3.01
3550 7310 8.208224 TCAACCGGTATAATCACATATGAAGTT 58.792 33.333 8.00 3.37 38.69 2.66
3551 7311 8.836413 CAACCGGTATAATCACATATGAAGTTT 58.164 33.333 8.00 5.74 38.69 2.66
3552 7312 8.603242 ACCGGTATAATCACATATGAAGTTTC 57.397 34.615 4.49 0.00 38.69 2.78
3553 7313 8.208224 ACCGGTATAATCACATATGAAGTTTCA 58.792 33.333 4.49 0.00 38.69 2.69
3554 7314 8.495949 CCGGTATAATCACATATGAAGTTTCAC 58.504 37.037 10.38 0.00 40.49 3.18
3555 7315 9.040939 CGGTATAATCACATATGAAGTTTCACA 57.959 33.333 10.38 0.00 40.49 3.58
3580 7340 5.818136 AAAATCACATCCGTGGTAATCTG 57.182 39.130 0.00 0.00 43.79 2.90
3581 7341 2.979814 TCACATCCGTGGTAATCTGG 57.020 50.000 0.00 0.00 43.79 3.86
3582 7342 1.484653 TCACATCCGTGGTAATCTGGG 59.515 52.381 0.00 0.00 43.79 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.177921 ACAATGAGGAGATTGTCATGAAATGTT 59.822 33.333 0.00 0.00 41.75 2.71
1 2 6.662234 ACAATGAGGAGATTGTCATGAAATGT 59.338 34.615 0.00 0.00 41.75 2.71
2 3 7.096884 ACAATGAGGAGATTGTCATGAAATG 57.903 36.000 0.00 0.00 41.75 2.32
5 6 6.240145 TGAACAATGAGGAGATTGTCATGAA 58.760 36.000 0.00 0.00 44.15 2.57
6 7 5.807909 TGAACAATGAGGAGATTGTCATGA 58.192 37.500 0.00 0.00 44.15 3.07
676 783 3.936566 AACCCCTCCCTGACCCGA 61.937 66.667 0.00 0.00 0.00 5.14
677 784 3.717294 CAACCCCTCCCTGACCCG 61.717 72.222 0.00 0.00 0.00 5.28
832 939 0.191314 CCCTAAACCCCCAAACCCAA 59.809 55.000 0.00 0.00 0.00 4.12
833 940 1.741692 CCCCTAAACCCCCAAACCCA 61.742 60.000 0.00 0.00 0.00 4.51
841 948 4.271807 ACTAGTAGTACCCCTAAACCCC 57.728 50.000 0.00 0.00 0.00 4.95
881 988 1.001746 CATACTCATCGGCATGCTCCT 59.998 52.381 18.92 0.00 0.00 3.69
948 1062 4.464597 TCAAAACAGGTGTAAAAGCTTGGT 59.535 37.500 0.00 0.00 33.14 3.67
992 1106 8.274322 TCATGGGTTTATATAGCATATTGGAGG 58.726 37.037 0.00 0.00 0.00 4.30
1052 1168 1.383523 GGAGCCCATTGTAGTTGCTC 58.616 55.000 0.00 0.00 45.89 4.26
1060 1179 0.712380 ATGGAAAGGGAGCCCATTGT 59.288 50.000 8.53 0.00 37.39 2.71
1061 1180 1.117150 CATGGAAAGGGAGCCCATTG 58.883 55.000 8.53 0.00 38.53 2.82
1306 1429 7.038302 CCCATATATCTAGGACCAGCAAACTAA 60.038 40.741 0.00 0.00 0.00 2.24
1321 1444 7.132128 TCCATCTATGCACACCCATATATCTA 58.868 38.462 0.00 0.00 0.00 1.98
1322 1445 5.966319 TCCATCTATGCACACCCATATATCT 59.034 40.000 0.00 0.00 0.00 1.98
1337 1460 1.339438 CCGGCCAAGGATCCATCTATG 60.339 57.143 15.82 4.64 0.00 2.23
1343 1466 1.302949 CTTTCCGGCCAAGGATCCA 59.697 57.895 15.82 0.00 40.48 3.41
1397 1520 6.567959 TGCATCTATCCGTCTATGATGATTC 58.432 40.000 0.00 0.00 37.33 2.52
1439 1562 7.742767 AGAAAGAAAACTGGGCTAACTAACTA 58.257 34.615 0.00 0.00 0.00 2.24
1442 1565 6.710744 CAGAGAAAGAAAACTGGGCTAACTAA 59.289 38.462 0.00 0.00 0.00 2.24
1493 1616 9.881649 AGCAAATATATGAGTCGTCATCATTAT 57.118 29.630 5.38 2.70 42.80 1.28
1494 1617 9.143631 CAGCAAATATATGAGTCGTCATCATTA 57.856 33.333 5.38 1.02 42.80 1.90
1495 1618 7.658982 ACAGCAAATATATGAGTCGTCATCATT 59.341 33.333 5.38 0.00 42.80 2.57
1497 1620 6.515832 ACAGCAAATATATGAGTCGTCATCA 58.484 36.000 0.00 0.00 42.80 3.07
1498 1621 6.642540 TGACAGCAAATATATGAGTCGTCATC 59.357 38.462 0.00 0.00 42.80 2.92
1500 1623 5.901552 TGACAGCAAATATATGAGTCGTCA 58.098 37.500 0.00 0.00 37.02 4.35
1501 1624 6.828502 TTGACAGCAAATATATGAGTCGTC 57.171 37.500 0.00 0.00 32.73 4.20
1502 1625 6.818644 AGTTTGACAGCAAATATATGAGTCGT 59.181 34.615 0.00 0.00 45.01 4.34
1503 1626 7.239166 AGTTTGACAGCAAATATATGAGTCG 57.761 36.000 0.00 0.00 45.01 4.18
1504 1627 7.254932 GGGAGTTTGACAGCAAATATATGAGTC 60.255 40.741 0.00 0.00 45.01 3.36
1505 1628 6.543831 GGGAGTTTGACAGCAAATATATGAGT 59.456 38.462 0.00 0.00 45.01 3.41
1506 1629 6.543465 TGGGAGTTTGACAGCAAATATATGAG 59.457 38.462 0.00 0.00 45.01 2.90
1507 1630 6.422333 TGGGAGTTTGACAGCAAATATATGA 58.578 36.000 0.00 0.00 45.01 2.15
1508 1631 6.698008 TGGGAGTTTGACAGCAAATATATG 57.302 37.500 0.00 0.00 45.01 1.78
1509 1632 7.902920 ATTGGGAGTTTGACAGCAAATATAT 57.097 32.000 0.00 0.00 45.01 0.86
1510 1633 8.271458 TCTATTGGGAGTTTGACAGCAAATATA 58.729 33.333 0.00 0.00 45.01 0.86
1511 1634 7.067494 GTCTATTGGGAGTTTGACAGCAAATAT 59.933 37.037 0.00 0.00 45.01 1.28
1512 1635 6.374333 GTCTATTGGGAGTTTGACAGCAAATA 59.626 38.462 0.00 0.00 45.01 1.40
1514 1637 4.518970 GTCTATTGGGAGTTTGACAGCAAA 59.481 41.667 0.00 0.00 41.47 3.68
1515 1638 4.072131 GTCTATTGGGAGTTTGACAGCAA 58.928 43.478 0.00 0.00 0.00 3.91
1516 1639 3.072330 TGTCTATTGGGAGTTTGACAGCA 59.928 43.478 0.00 0.00 31.87 4.41
1521 1644 2.642311 TGGCTGTCTATTGGGAGTTTGA 59.358 45.455 0.00 0.00 0.00 2.69
1522 1645 3.071874 TGGCTGTCTATTGGGAGTTTG 57.928 47.619 0.00 0.00 0.00 2.93
1523 1646 3.806949 TTGGCTGTCTATTGGGAGTTT 57.193 42.857 0.00 0.00 0.00 2.66
1524 1647 3.330701 TCTTTGGCTGTCTATTGGGAGTT 59.669 43.478 0.00 0.00 0.00 3.01
1526 1649 3.634397 TCTTTGGCTGTCTATTGGGAG 57.366 47.619 0.00 0.00 0.00 4.30
1527 1650 4.272489 CAATCTTTGGCTGTCTATTGGGA 58.728 43.478 0.00 0.00 0.00 4.37
1529 1652 4.644103 CCAATCTTTGGCTGTCTATTGG 57.356 45.455 0.00 0.00 45.17 3.16
1541 1664 7.095910 TGTGTGCCATTATTAACCAATCTTTG 58.904 34.615 0.00 0.00 0.00 2.77
1543 1666 6.849085 TGTGTGCCATTATTAACCAATCTT 57.151 33.333 0.00 0.00 0.00 2.40
1544 1667 7.342799 AGAATGTGTGCCATTATTAACCAATCT 59.657 33.333 0.00 0.00 43.87 2.40
1548 1671 5.065859 CGAGAATGTGTGCCATTATTAACCA 59.934 40.000 0.00 0.00 43.87 3.67
1549 1672 5.065988 ACGAGAATGTGTGCCATTATTAACC 59.934 40.000 0.00 0.00 43.87 2.85
1552 1675 7.011950 CCTTAACGAGAATGTGTGCCATTATTA 59.988 37.037 0.00 0.00 43.87 0.98
1553 1676 6.183360 CCTTAACGAGAATGTGTGCCATTATT 60.183 38.462 0.00 0.00 43.87 1.40
1555 1678 4.634004 CCTTAACGAGAATGTGTGCCATTA 59.366 41.667 0.00 0.00 43.87 1.90
1556 1679 3.440173 CCTTAACGAGAATGTGTGCCATT 59.560 43.478 0.00 0.00 46.51 3.16
1557 1680 3.009723 CCTTAACGAGAATGTGTGCCAT 58.990 45.455 0.00 0.00 34.36 4.40
1558 1681 2.224426 ACCTTAACGAGAATGTGTGCCA 60.224 45.455 0.00 0.00 0.00 4.92
1561 1684 4.556233 TGAGACCTTAACGAGAATGTGTG 58.444 43.478 0.00 0.00 0.00 3.82
1562 1685 4.866508 TGAGACCTTAACGAGAATGTGT 57.133 40.909 0.00 0.00 0.00 3.72
1563 1686 6.727824 AATTGAGACCTTAACGAGAATGTG 57.272 37.500 0.00 0.00 0.00 3.21
1564 1687 6.710744 ACAAATTGAGACCTTAACGAGAATGT 59.289 34.615 0.00 0.00 0.00 2.71
1565 1688 7.133891 ACAAATTGAGACCTTAACGAGAATG 57.866 36.000 0.00 0.00 0.00 2.67
1566 1689 7.063074 CGTACAAATTGAGACCTTAACGAGAAT 59.937 37.037 0.00 0.00 0.00 2.40
1567 1690 6.364165 CGTACAAATTGAGACCTTAACGAGAA 59.636 38.462 0.00 0.00 0.00 2.87
1568 1691 5.860182 CGTACAAATTGAGACCTTAACGAGA 59.140 40.000 0.00 0.00 0.00 4.04
1570 1693 5.630680 GTCGTACAAATTGAGACCTTAACGA 59.369 40.000 0.00 0.00 33.73 3.85
1571 1694 5.442390 CGTCGTACAAATTGAGACCTTAACG 60.442 44.000 0.00 1.41 0.00 3.18
1572 1695 5.630680 TCGTCGTACAAATTGAGACCTTAAC 59.369 40.000 0.00 0.00 0.00 2.01
1576 1699 3.928727 TCGTCGTACAAATTGAGACCT 57.071 42.857 0.00 0.00 0.00 3.85
1577 1700 3.985925 AGTTCGTCGTACAAATTGAGACC 59.014 43.478 0.00 0.00 0.00 3.85
1578 1701 5.571778 AAGTTCGTCGTACAAATTGAGAC 57.428 39.130 0.00 5.58 0.00 3.36
1579 1702 6.207928 TGTAAGTTCGTCGTACAAATTGAGA 58.792 36.000 0.00 0.00 37.87 3.27
1580 1703 6.442487 TGTAAGTTCGTCGTACAAATTGAG 57.558 37.500 0.00 0.00 37.87 3.02
1581 1704 6.864685 AGATGTAAGTTCGTCGTACAAATTGA 59.135 34.615 0.00 0.00 42.27 2.57
1582 1705 7.045725 AGATGTAAGTTCGTCGTACAAATTG 57.954 36.000 4.77 0.00 42.27 2.32
1583 1706 7.507304 CAAGATGTAAGTTCGTCGTACAAATT 58.493 34.615 4.77 0.00 42.27 1.82
1584 1707 6.400727 GCAAGATGTAAGTTCGTCGTACAAAT 60.401 38.462 4.77 0.00 42.27 2.32
1585 1708 5.107760 GCAAGATGTAAGTTCGTCGTACAAA 60.108 40.000 4.77 0.00 42.27 2.83
1586 1709 4.383649 GCAAGATGTAAGTTCGTCGTACAA 59.616 41.667 4.77 0.00 42.27 2.41
1587 1710 3.916172 GCAAGATGTAAGTTCGTCGTACA 59.084 43.478 4.77 9.99 42.90 2.90
1588 1711 3.302699 GGCAAGATGTAAGTTCGTCGTAC 59.697 47.826 0.00 0.00 0.00 3.67
1589 1712 3.057386 TGGCAAGATGTAAGTTCGTCGTA 60.057 43.478 0.00 0.00 0.00 3.43
1590 1713 2.288579 TGGCAAGATGTAAGTTCGTCGT 60.289 45.455 0.00 0.00 0.00 4.34
1593 1716 5.163754 GCTAAATGGCAAGATGTAAGTTCGT 60.164 40.000 0.00 0.00 0.00 3.85
1596 1719 5.582689 GGCTAAATGGCAAGATGTAAGTT 57.417 39.130 0.00 0.00 41.37 2.66
1626 1749 8.008513 TGCAACTGGGTTTAGTAACAAAAATA 57.991 30.769 0.00 0.00 35.92 1.40
1627 1750 6.879400 TGCAACTGGGTTTAGTAACAAAAAT 58.121 32.000 0.00 0.00 35.92 1.82
1628 1751 6.282199 TGCAACTGGGTTTAGTAACAAAAA 57.718 33.333 0.00 0.00 35.92 1.94
1629 1752 5.916661 TGCAACTGGGTTTAGTAACAAAA 57.083 34.783 0.00 0.00 35.92 2.44
1630 1753 5.916661 TTGCAACTGGGTTTAGTAACAAA 57.083 34.783 0.00 0.00 35.92 2.83
1631 1754 7.309499 CCATATTGCAACTGGGTTTAGTAACAA 60.309 37.037 18.18 0.00 35.92 2.83
1653 1776 0.958382 GTCGCAACCCTGTTGCCATA 60.958 55.000 22.15 8.72 42.10 2.74
1789 1912 0.609131 AGACCGTCTTGGGGCATTTG 60.609 55.000 0.00 0.00 44.64 2.32
2099 2222 5.116983 GCGACAGTTTTGAACACCATTTATG 59.883 40.000 0.00 0.00 0.00 1.90
2101 2224 4.498345 GGCGACAGTTTTGAACACCATTTA 60.498 41.667 0.00 0.00 0.00 1.40
2120 2246 2.768253 AAATGTCTGACATCTGGCGA 57.232 45.000 22.47 0.00 37.97 5.54
2177 2364 1.112315 AGGCAGAGCTCATCGTAGGG 61.112 60.000 17.77 0.00 0.00 3.53
2261 2448 2.302733 CGGGGTGATGATGTCCATATCA 59.697 50.000 0.00 0.00 41.00 2.15
2291 2478 3.319755 ACCCACGTAATACTTGTTGTCG 58.680 45.455 0.00 0.00 0.00 4.35
2375 2562 1.445582 AAACTCGTCGACCGATGCC 60.446 57.895 10.58 0.00 46.23 4.40
2411 2598 4.210331 ACTTGACAAACTTGCTCTTCCAT 58.790 39.130 0.00 0.00 0.00 3.41
2456 2643 1.367471 CGTTCCTGTCAGCACCTCA 59.633 57.895 0.00 0.00 0.00 3.86
2588 2775 5.600484 TCTTTGTCAAATCAAGGGCCTAAAA 59.400 36.000 6.41 0.00 0.00 1.52
2625 2812 3.172050 ACGATCGATCTTCAGTTGTTCG 58.828 45.455 24.34 9.25 0.00 3.95
2661 2861 5.729974 AACTAAGAAACAGACGGAACAAC 57.270 39.130 0.00 0.00 0.00 3.32
2763 2977 8.276060 TGCGTAAATACAAGAACAAAAACATC 57.724 30.769 0.00 0.00 0.00 3.06
2932 4559 8.706492 TTCGATAAAAGTTTCGCTAAATAGGA 57.294 30.769 0.00 0.00 35.39 2.94
3363 7123 8.737175 AGATTAGAATCGCGTTAGTTATATGGA 58.263 33.333 5.77 0.00 40.35 3.41
3369 7129 6.962686 TGCTAGATTAGAATCGCGTTAGTTA 58.037 36.000 5.77 0.00 40.35 2.24
3397 7157 2.762745 GCGTCCTCAACCAAACTTCTA 58.237 47.619 0.00 0.00 0.00 2.10
3410 7170 0.672401 TTCACCAAATCCGCGTCCTC 60.672 55.000 4.92 0.00 0.00 3.71
3411 7171 0.953960 GTTCACCAAATCCGCGTCCT 60.954 55.000 4.92 0.00 0.00 3.85
3412 7172 0.953960 AGTTCACCAAATCCGCGTCC 60.954 55.000 4.92 0.00 0.00 4.79
3413 7173 0.165944 CAGTTCACCAAATCCGCGTC 59.834 55.000 4.92 0.00 0.00 5.19
3414 7174 0.250124 TCAGTTCACCAAATCCGCGT 60.250 50.000 4.92 0.00 0.00 6.01
3415 7175 0.871722 TTCAGTTCACCAAATCCGCG 59.128 50.000 0.00 0.00 0.00 6.46
3416 7176 1.606668 TGTTCAGTTCACCAAATCCGC 59.393 47.619 0.00 0.00 0.00 5.54
3417 7177 3.366273 CCATGTTCAGTTCACCAAATCCG 60.366 47.826 0.00 0.00 0.00 4.18
3418 7178 3.056607 CCCATGTTCAGTTCACCAAATCC 60.057 47.826 0.00 0.00 0.00 3.01
3419 7179 3.573967 ACCCATGTTCAGTTCACCAAATC 59.426 43.478 0.00 0.00 0.00 2.17
3420 7180 3.321682 CACCCATGTTCAGTTCACCAAAT 59.678 43.478 0.00 0.00 0.00 2.32
3421 7181 2.692557 CACCCATGTTCAGTTCACCAAA 59.307 45.455 0.00 0.00 0.00 3.28
3422 7182 2.305928 CACCCATGTTCAGTTCACCAA 58.694 47.619 0.00 0.00 0.00 3.67
3423 7183 1.214175 ACACCCATGTTCAGTTCACCA 59.786 47.619 0.00 0.00 34.46 4.17
3424 7184 1.608590 CACACCCATGTTCAGTTCACC 59.391 52.381 0.00 0.00 36.72 4.02
3425 7185 1.001378 GCACACCCATGTTCAGTTCAC 60.001 52.381 0.00 0.00 36.72 3.18
3426 7186 1.317613 GCACACCCATGTTCAGTTCA 58.682 50.000 0.00 0.00 36.72 3.18
3427 7187 0.238289 CGCACACCCATGTTCAGTTC 59.762 55.000 0.00 0.00 36.72 3.01
3428 7188 1.795170 GCGCACACCCATGTTCAGTT 61.795 55.000 0.30 0.00 36.72 3.16
3429 7189 2.260869 GCGCACACCCATGTTCAGT 61.261 57.895 0.30 0.00 36.72 3.41
3430 7190 2.562912 GCGCACACCCATGTTCAG 59.437 61.111 0.30 0.00 36.72 3.02
3431 7191 3.353029 CGCGCACACCCATGTTCA 61.353 61.111 8.75 0.00 36.72 3.18
3432 7192 3.308878 GACGCGCACACCCATGTTC 62.309 63.158 5.73 0.00 36.72 3.18
3433 7193 3.353836 GACGCGCACACCCATGTT 61.354 61.111 5.73 0.00 36.72 2.71
3436 7196 2.457743 TAAAGGACGCGCACACCCAT 62.458 55.000 5.73 1.85 0.00 4.00
3437 7197 2.457743 ATAAAGGACGCGCACACCCA 62.458 55.000 5.73 0.00 0.00 4.51
3438 7198 1.743995 ATAAAGGACGCGCACACCC 60.744 57.895 5.73 1.81 0.00 4.61
3439 7199 1.017177 TCATAAAGGACGCGCACACC 61.017 55.000 5.73 7.35 0.00 4.16
3440 7200 0.793861 TTCATAAAGGACGCGCACAC 59.206 50.000 5.73 0.00 0.00 3.82
3441 7201 1.732941 ATTCATAAAGGACGCGCACA 58.267 45.000 5.73 0.00 0.00 4.57
3442 7202 2.864343 ACTATTCATAAAGGACGCGCAC 59.136 45.455 5.73 0.00 0.00 5.34
3443 7203 3.173668 ACTATTCATAAAGGACGCGCA 57.826 42.857 5.73 0.00 0.00 6.09
3444 7204 5.646467 TTTACTATTCATAAAGGACGCGC 57.354 39.130 5.73 0.00 0.00 6.86
3445 7205 7.847487 TGAATTTACTATTCATAAAGGACGCG 58.153 34.615 3.53 3.53 33.55 6.01
3446 7206 9.997482 TTTGAATTTACTATTCATAAAGGACGC 57.003 29.630 1.45 0.00 37.79 5.19
3506 7266 9.669887 ACCGGTTGACTATGTATATTAAAACAA 57.330 29.630 0.00 0.00 0.00 2.83
3515 7275 9.299465 TGTGATTATACCGGTTGACTATGTATA 57.701 33.333 15.04 0.00 0.00 1.47
3516 7276 8.185506 TGTGATTATACCGGTTGACTATGTAT 57.814 34.615 15.04 0.00 0.00 2.29
3517 7277 7.585579 TGTGATTATACCGGTTGACTATGTA 57.414 36.000 15.04 0.00 0.00 2.29
3518 7278 6.474140 TGTGATTATACCGGTTGACTATGT 57.526 37.500 15.04 0.00 0.00 2.29
3519 7279 9.087424 CATATGTGATTATACCGGTTGACTATG 57.913 37.037 15.04 5.69 0.00 2.23
3520 7280 9.031537 TCATATGTGATTATACCGGTTGACTAT 57.968 33.333 15.04 1.20 0.00 2.12
3521 7281 8.411991 TCATATGTGATTATACCGGTTGACTA 57.588 34.615 15.04 0.00 0.00 2.59
3522 7282 7.297936 TCATATGTGATTATACCGGTTGACT 57.702 36.000 15.04 0.00 0.00 3.41
3523 7283 7.656137 ACTTCATATGTGATTATACCGGTTGAC 59.344 37.037 15.04 0.00 33.56 3.18
3524 7284 7.732025 ACTTCATATGTGATTATACCGGTTGA 58.268 34.615 15.04 2.06 33.56 3.18
3525 7285 7.962964 ACTTCATATGTGATTATACCGGTTG 57.037 36.000 15.04 0.00 33.56 3.77
3526 7286 8.974060 AAACTTCATATGTGATTATACCGGTT 57.026 30.769 15.04 3.05 33.56 4.44
3527 7287 8.208224 TGAAACTTCATATGTGATTATACCGGT 58.792 33.333 13.98 13.98 33.56 5.28
3528 7288 8.495949 GTGAAACTTCATATGTGATTATACCGG 58.504 37.037 0.00 0.00 39.73 5.28
3529 7289 9.040939 TGTGAAACTTCATATGTGATTATACCG 57.959 33.333 1.90 0.00 39.73 4.02
3563 7323 1.953559 CCCAGATTACCACGGATGTG 58.046 55.000 0.00 0.00 46.00 3.21


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

AutoCloner maintained by Alex Coulton.