Multiple sequence alignment - TraesCS1D01G077600

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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 TraesCS1D01G077600 chr1D 100.000 7208 0 0 1 7208 59530018 59522811 0.000000e+00 13311.0
1 TraesCS1D01G077600 chr1D 100.000 654 0 0 7555 8208 59522464 59521811 0.000000e+00 1208.0
2 TraesCS1D01G077600 chr1B 94.349 5610 211 50 1664 7208 94982388 94976820 0.000000e+00 8506.0
3 TraesCS1D01G077600 chr1B 90.043 1637 97 24 1 1608 94984003 94982404 0.000000e+00 2060.0
4 TraesCS1D01G077600 chr1B 97.011 368 10 1 7842 8208 94975988 94975621 1.170000e-172 617.0
5 TraesCS1D01G077600 chr1B 93.678 174 8 2 7669 7839 94976607 94976434 2.940000e-64 257.0
6 TraesCS1D01G077600 chr1B 91.753 97 6 1 7555 7651 94976767 94976673 5.170000e-27 134.0
7 TraesCS1D01G077600 chr1A 98.696 1610 20 1 4884 6493 58173003 58171395 0.000000e+00 2856.0
8 TraesCS1D01G077600 chr1A 93.329 1589 74 15 2394 3967 58175932 58174361 0.000000e+00 2318.0
9 TraesCS1D01G077600 chr1A 98.820 932 9 1 3959 4888 58174319 58173388 0.000000e+00 1659.0
10 TraesCS1D01G077600 chr1A 87.566 1327 78 43 119 1414 58178565 58177295 0.000000e+00 1456.0
11 TraesCS1D01G077600 chr1A 94.499 709 18 4 6519 7208 58171406 58170700 0.000000e+00 1074.0
12 TraesCS1D01G077600 chr1A 90.014 721 44 18 1664 2372 58177146 58176442 0.000000e+00 907.0
13 TraesCS1D01G077600 chr1A 96.673 541 11 3 7669 8208 58170234 58169700 0.000000e+00 893.0
14 TraesCS1D01G077600 chr1A 93.382 136 2 2 1 136 58187626 58187498 2.340000e-45 195.0
15 TraesCS1D01G077600 chr1A 82.843 204 27 7 3619 3814 478621079 478621282 8.470000e-40 176.0
16 TraesCS1D01G077600 chr1A 92.857 112 5 1 1499 1607 58177273 58177162 8.530000e-35 159.0
17 TraesCS1D01G077600 chr1A 97.701 87 2 0 7581 7667 58170377 58170291 5.130000e-32 150.0
18 TraesCS1D01G077600 chr3D 77.938 902 122 40 4811 5677 266656023 266655164 7.400000e-135 492.0
19 TraesCS1D01G077600 chr3B 80.519 462 50 23 4811 5240 442084953 442084500 1.330000e-82 318.0
20 TraesCS1D01G077600 chr3B 80.000 110 18 4 3730 3835 75773599 75773708 2.460000e-10 78.7
21 TraesCS1D01G077600 chr4D 85.612 139 17 2 3638 3774 1642967 1643104 8.590000e-30 143.0
22 TraesCS1D01G077600 chr4B 85.612 139 17 2 3638 3774 2210772 2210909 8.590000e-30 143.0
23 TraesCS1D01G077600 chr4B 85.612 139 17 2 3638 3774 2240762 2240899 8.590000e-30 143.0
24 TraesCS1D01G077600 chrUn 84.028 144 20 2 3633 3774 303234293 303234151 1.440000e-27 135.0
25 TraesCS1D01G077600 chr6D 82.390 159 23 4 3620 3774 160397071 160397228 5.170000e-27 134.0
26 TraesCS1D01G077600 chr5A 80.571 175 29 4 3620 3790 634499897 634499724 6.690000e-26 130.0
27 TraesCS1D01G077600 chr3A 93.182 44 2 1 3733 3775 60307287 60307330 6.880000e-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 TraesCS1D01G077600 chr1D 59521811 59530018 8207 True 7259.500000 13311 100.000000 1 8208 2 chr1D.!!$R1 8207
1 TraesCS1D01G077600 chr1B 94975621 94984003 8382 True 2314.800000 8506 93.366800 1 8208 5 chr1B.!!$R1 8207
2 TraesCS1D01G077600 chr1A 58169700 58178565 8865 True 1274.666667 2856 94.461667 119 8208 9 chr1A.!!$R2 8089
3 TraesCS1D01G077600 chr3D 266655164 266656023 859 True 492.000000 492 77.938000 4811 5677 1 chr3D.!!$R1 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
623 639 0.257039 ATTCCTGGGCAGATGGTGAC 59.743 55.000 0.00 0.00 0.00 3.67 F
1061 1086 0.106335 CGATCCAAGCCATCTCTGCT 59.894 55.000 0.00 0.00 41.89 4.24 F
1623 1676 0.250510 TGTTTGGTCGGTGCTATGCA 60.251 50.000 0.00 0.00 35.60 3.96 F
1627 1680 0.251634 TGGTCGGTGCTATGCATTGA 59.748 50.000 12.54 0.00 41.91 2.57 F
2921 3486 0.618458 TGCAGGTACCCCATCTGAAC 59.382 55.000 8.74 0.00 0.00 3.18 F
3701 4272 0.615544 ACAAATCACCATGCAGGGGG 60.616 55.000 23.35 19.57 42.98 5.40 F
4271 4897 2.691011 TGTAAGCAAACTGGGTGGTTTC 59.309 45.455 3.23 0.28 37.32 2.78 F
4901 5918 6.849502 TCATAACTAAGAACCACTAGACACG 58.150 40.000 0.00 0.00 0.00 4.49 F
5861 6918 3.564225 GTGTTCCTTCTCGTGGTGAAATT 59.436 43.478 0.00 0.00 0.00 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1482 1527 0.110688 CGACTCGACGGTGTTTCGTA 60.111 55.000 0.00 0.00 43.96 3.43 R
2717 3271 0.250553 TTCTTACTGGTTGCACCCCG 60.251 55.000 0.00 0.00 37.50 5.73 R
3493 4061 3.560896 ACCAATGCTGCAAACATGTTTTC 59.439 39.130 21.10 16.94 0.00 2.29 R
3670 4239 3.253188 TGGTGATTTGTTGAGTTAGCAGC 59.747 43.478 0.00 0.00 0.00 5.25 R
4271 4897 0.930310 CGTTGACATCTGCATACCCG 59.070 55.000 0.00 0.00 0.00 5.28 R
4990 6010 0.036388 CGAGCCTTGCCTTGACCTAA 60.036 55.000 0.00 0.00 0.00 2.69 R
5409 6440 3.149196 CATGGACCCAACCTACATATGC 58.851 50.000 1.58 0.00 0.00 3.14 R
6682 7741 1.003118 GGCACAGGATCCAACACTACA 59.997 52.381 15.82 0.00 0.00 2.74 R
7667 8747 0.754217 TATTGGCCCTCGCGTAGTCT 60.754 55.000 5.77 0.00 35.02 3.24 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
29 30 7.381744 GACTTTTAGTCTGAAAATGTTGTGC 57.618 36.000 0.00 0.00 41.88 4.57
40 41 6.898041 TGAAAATGTTGTGCAGATACAGTAC 58.102 36.000 0.00 0.00 0.00 2.73
41 42 6.484977 TGAAAATGTTGTGCAGATACAGTACA 59.515 34.615 0.00 0.00 0.00 2.90
42 43 6.875948 AAATGTTGTGCAGATACAGTACAA 57.124 33.333 0.00 0.00 38.86 2.41
43 44 6.486253 AATGTTGTGCAGATACAGTACAAG 57.514 37.500 0.00 0.00 41.16 3.16
45 46 5.793817 TGTTGTGCAGATACAGTACAAGAT 58.206 37.500 0.00 0.00 41.16 2.40
46 47 6.230472 TGTTGTGCAGATACAGTACAAGATT 58.770 36.000 0.00 0.00 41.16 2.40
47 48 7.382898 TGTTGTGCAGATACAGTACAAGATTA 58.617 34.615 0.00 0.00 41.16 1.75
50 51 9.529325 TTGTGCAGATACAGTACAAGATTATAC 57.471 33.333 0.00 0.00 36.81 1.47
51 52 8.914011 TGTGCAGATACAGTACAAGATTATACT 58.086 33.333 0.00 0.00 31.65 2.12
99 105 7.039714 TCACTTACTTCAGAAGATCAGTGCTAA 60.040 37.037 23.07 12.38 35.38 3.09
105 111 7.446625 ACTTCAGAAGATCAGTGCTAAATTGTT 59.553 33.333 17.56 0.00 0.00 2.83
113 119 5.757886 TCAGTGCTAAATTGTTTGTGCTAC 58.242 37.500 0.00 0.00 0.00 3.58
146 152 3.471680 ACTCTTGGCAGTTTCTGACTTC 58.528 45.455 4.24 0.00 40.76 3.01
211 217 1.152383 GCGCGTGGAAGAGGGATTAC 61.152 60.000 8.43 0.00 0.00 1.89
251 257 4.186926 GTCCCGGATTTTACCTCTGTAAC 58.813 47.826 0.73 0.00 36.69 2.50
278 284 1.127567 ACCAGGGTCAGCTGCTGTAA 61.128 55.000 27.24 8.26 32.61 2.41
361 372 2.945668 GTTACTGCTTGGGATGGATCAC 59.054 50.000 0.00 0.00 0.00 3.06
375 387 2.495669 TGGATCACTGCAGTTGTATCGA 59.504 45.455 18.94 14.35 0.00 3.59
390 402 7.475565 CAGTTGTATCGAGAAAAGAACAATTCG 59.524 37.037 0.00 0.00 34.02 3.34
409 421 4.016113 TCGTTGACAGACGATATGACAG 57.984 45.455 8.23 0.00 46.09 3.51
609 625 4.022242 TCTCGAGAGAAACGAACAATTCCT 60.022 41.667 12.08 0.00 41.32 3.36
612 628 3.412386 AGAGAAACGAACAATTCCTGGG 58.588 45.455 0.00 0.00 0.00 4.45
623 639 0.257039 ATTCCTGGGCAGATGGTGAC 59.743 55.000 0.00 0.00 0.00 3.67
653 672 1.787155 CCGAATGACTATTTCTCCGCG 59.213 52.381 0.00 0.00 0.00 6.46
692 711 3.276281 GGGCCAAACGACCCTTAAT 57.724 52.632 4.39 0.00 43.36 1.40
697 716 2.161609 GCCAAACGACCCTTAATCACAG 59.838 50.000 0.00 0.00 0.00 3.66
806 825 2.041405 CCCAGACTCTCCCTCCCC 60.041 72.222 0.00 0.00 0.00 4.81
807 826 2.780693 CCAGACTCTCCCTCCCCA 59.219 66.667 0.00 0.00 0.00 4.96
808 827 1.081092 CCAGACTCTCCCTCCCCAA 59.919 63.158 0.00 0.00 0.00 4.12
809 828 1.268283 CCAGACTCTCCCTCCCCAAC 61.268 65.000 0.00 0.00 0.00 3.77
810 829 1.081277 AGACTCTCCCTCCCCAACC 59.919 63.158 0.00 0.00 0.00 3.77
866 891 3.556999 TCCCTCTCCATCTCTCTAAACG 58.443 50.000 0.00 0.00 0.00 3.60
1055 1080 0.465705 TCCACTCGATCCAAGCCATC 59.534 55.000 0.00 0.00 0.00 3.51
1057 1082 1.539929 CCACTCGATCCAAGCCATCTC 60.540 57.143 0.00 0.00 0.00 2.75
1061 1086 0.106335 CGATCCAAGCCATCTCTGCT 59.894 55.000 0.00 0.00 41.89 4.24
1083 1108 1.625818 TCTCCAAGCTCCACTTCTTCC 59.374 52.381 0.00 0.00 36.04 3.46
1113 1138 2.665165 TCCATGCCTTCTCTCTCTCTC 58.335 52.381 0.00 0.00 0.00 3.20
1114 1139 2.244510 TCCATGCCTTCTCTCTCTCTCT 59.755 50.000 0.00 0.00 0.00 3.10
1163 1190 4.487714 AGTTCTTCTGTGTTCACTCCAA 57.512 40.909 4.59 0.00 0.00 3.53
1166 1193 4.487714 TCTTCTGTGTTCACTCCAAGTT 57.512 40.909 4.59 0.00 0.00 2.66
1230 1267 4.145052 TCTCTCTCTACACACACACACAT 58.855 43.478 0.00 0.00 0.00 3.21
1238 1275 3.348119 ACACACACACACATACACCAAA 58.652 40.909 0.00 0.00 0.00 3.28
1281 1326 6.837992 TCGGTTAGCAGATAATGTTGTTTTC 58.162 36.000 0.00 0.00 0.00 2.29
1420 1465 6.702723 CAGCTCTCCTCATTTATTCTGAAGAG 59.297 42.308 0.00 0.00 34.08 2.85
1424 1469 8.236585 TCTCCTCATTTATTCTGAAGAGAGAG 57.763 38.462 5.47 9.08 36.02 3.20
1425 1470 7.287466 TCTCCTCATTTATTCTGAAGAGAGAGG 59.713 40.741 16.62 16.62 36.02 3.69
1426 1471 6.326064 TCCTCATTTATTCTGAAGAGAGAGGG 59.674 42.308 19.80 9.13 39.42 4.30
1427 1472 6.464180 CCTCATTTATTCTGAAGAGAGAGGGG 60.464 46.154 15.66 3.31 36.24 4.79
1447 1492 4.152647 GGGGAGAAAGAAACACAAGGATT 58.847 43.478 0.00 0.00 0.00 3.01
1481 1526 4.313522 CACGAGATGTGCAGAAAAGTAC 57.686 45.455 0.00 0.00 42.70 2.73
1482 1527 3.990469 CACGAGATGTGCAGAAAAGTACT 59.010 43.478 0.00 0.00 42.70 2.73
1483 1528 5.161358 CACGAGATGTGCAGAAAAGTACTA 58.839 41.667 0.00 0.00 42.70 1.82
1484 1529 5.061064 CACGAGATGTGCAGAAAAGTACTAC 59.939 44.000 0.00 0.00 42.70 2.73
1511 1556 3.371063 TCGAGTCGCACCCCTCAC 61.371 66.667 7.92 0.00 0.00 3.51
1591 1644 9.284968 CAGTTTTCCTTTCTTATTCTTGGACTA 57.715 33.333 0.00 0.00 0.00 2.59
1594 1647 8.617290 TTTCCTTTCTTATTCTTGGACTACAC 57.383 34.615 0.00 0.00 0.00 2.90
1598 1651 5.320549 TCTTATTCTTGGACTACACGGTC 57.679 43.478 0.00 0.00 35.66 4.79
1609 1662 3.399330 ACTACACGGTCCAGATTGTTTG 58.601 45.455 0.00 0.00 0.00 2.93
1610 1663 1.604604 ACACGGTCCAGATTGTTTGG 58.395 50.000 0.00 0.00 37.04 3.28
1612 1665 1.535462 CACGGTCCAGATTGTTTGGTC 59.465 52.381 0.00 0.00 37.02 4.02
1613 1666 0.796312 CGGTCCAGATTGTTTGGTCG 59.204 55.000 0.00 0.00 37.02 4.79
1614 1667 1.165270 GGTCCAGATTGTTTGGTCGG 58.835 55.000 0.00 0.00 37.02 4.79
1615 1668 1.544759 GGTCCAGATTGTTTGGTCGGT 60.545 52.381 0.00 0.00 37.02 4.69
1616 1669 1.535462 GTCCAGATTGTTTGGTCGGTG 59.465 52.381 0.00 0.00 37.02 4.94
1618 1671 1.238439 CAGATTGTTTGGTCGGTGCT 58.762 50.000 0.00 0.00 0.00 4.40
1619 1672 2.422597 CAGATTGTTTGGTCGGTGCTA 58.577 47.619 0.00 0.00 0.00 3.49
1620 1673 3.009723 CAGATTGTTTGGTCGGTGCTAT 58.990 45.455 0.00 0.00 0.00 2.97
1621 1674 3.009723 AGATTGTTTGGTCGGTGCTATG 58.990 45.455 0.00 0.00 0.00 2.23
1622 1675 0.878416 TTGTTTGGTCGGTGCTATGC 59.122 50.000 0.00 0.00 0.00 3.14
1623 1676 0.250510 TGTTTGGTCGGTGCTATGCA 60.251 50.000 0.00 0.00 35.60 3.96
1626 1679 1.093972 TTGGTCGGTGCTATGCATTG 58.906 50.000 3.54 3.55 41.91 2.82
1627 1680 0.251634 TGGTCGGTGCTATGCATTGA 59.748 50.000 12.54 0.00 41.91 2.57
1628 1681 1.134128 TGGTCGGTGCTATGCATTGAT 60.134 47.619 12.54 0.00 41.91 2.57
1629 1682 2.103941 TGGTCGGTGCTATGCATTGATA 59.896 45.455 12.54 0.00 41.91 2.15
1632 1685 4.216257 GGTCGGTGCTATGCATTGATAAAT 59.784 41.667 12.54 0.00 41.91 1.40
1633 1686 5.278463 GGTCGGTGCTATGCATTGATAAATT 60.278 40.000 12.54 0.00 41.91 1.82
1634 1687 5.853282 GTCGGTGCTATGCATTGATAAATTC 59.147 40.000 12.54 0.00 41.91 2.17
1635 1688 5.530543 TCGGTGCTATGCATTGATAAATTCA 59.469 36.000 12.54 0.00 41.91 2.57
1636 1689 5.854866 CGGTGCTATGCATTGATAAATTCAG 59.145 40.000 12.54 0.00 41.91 3.02
1637 1690 6.154445 GGTGCTATGCATTGATAAATTCAGG 58.846 40.000 12.54 0.00 41.91 3.86
1638 1691 6.154445 GTGCTATGCATTGATAAATTCAGGG 58.846 40.000 12.54 0.00 41.91 4.45
1639 1692 5.244402 TGCTATGCATTGATAAATTCAGGGG 59.756 40.000 12.54 0.00 31.95 4.79
1640 1693 5.477984 GCTATGCATTGATAAATTCAGGGGA 59.522 40.000 12.54 0.00 35.27 4.81
1641 1694 6.349944 GCTATGCATTGATAAATTCAGGGGAG 60.350 42.308 12.54 0.00 35.27 4.30
1642 1695 5.128033 TGCATTGATAAATTCAGGGGAGA 57.872 39.130 0.00 0.00 35.27 3.71
1643 1696 5.135383 TGCATTGATAAATTCAGGGGAGAG 58.865 41.667 0.00 0.00 35.27 3.20
1644 1697 5.103982 TGCATTGATAAATTCAGGGGAGAGA 60.104 40.000 0.00 0.00 35.27 3.10
1645 1698 5.472820 GCATTGATAAATTCAGGGGAGAGAG 59.527 44.000 0.00 0.00 35.27 3.20
1646 1699 6.599445 CATTGATAAATTCAGGGGAGAGAGT 58.401 40.000 0.00 0.00 35.27 3.24
1647 1700 5.620738 TGATAAATTCAGGGGAGAGAGTG 57.379 43.478 0.00 0.00 0.00 3.51
1648 1701 5.032846 TGATAAATTCAGGGGAGAGAGTGT 58.967 41.667 0.00 0.00 0.00 3.55
1649 1702 6.202331 TGATAAATTCAGGGGAGAGAGTGTA 58.798 40.000 0.00 0.00 0.00 2.90
1650 1703 6.672218 TGATAAATTCAGGGGAGAGAGTGTAA 59.328 38.462 0.00 0.00 0.00 2.41
1651 1704 5.843019 AAATTCAGGGGAGAGAGTGTAAA 57.157 39.130 0.00 0.00 0.00 2.01
1652 1705 5.843019 AATTCAGGGGAGAGAGTGTAAAA 57.157 39.130 0.00 0.00 0.00 1.52
1653 1706 5.843019 ATTCAGGGGAGAGAGTGTAAAAA 57.157 39.130 0.00 0.00 0.00 1.94
1688 1741 5.175388 TGGCAAGAGAGTGTAGTAGAGTA 57.825 43.478 0.00 0.00 0.00 2.59
1959 2015 9.613957 GTCTTGCTTTTCTCCTACTAAAATTTC 57.386 33.333 0.00 0.00 0.00 2.17
1986 2042 4.006319 AGATGGTAGCTTTCACTTTCAGC 58.994 43.478 0.00 0.00 0.00 4.26
2043 2101 7.542477 GCTATGTGCCTATGTTATACTGTACTG 59.458 40.741 0.00 0.00 35.15 2.74
2077 2135 9.833917 AAAGAGAACTAGCTGGTAATAATAACC 57.166 33.333 1.97 0.00 37.53 2.85
2096 2157 8.409358 AATAACCAGTGCTCAATAAAGAAAGT 57.591 30.769 0.00 0.00 0.00 2.66
2112 2173 3.515901 AGAAAGTAATCCGACCTCTGCTT 59.484 43.478 0.00 0.00 0.00 3.91
2124 2185 1.277273 CCTCTGCTTCCATGTCAGACA 59.723 52.381 5.50 5.50 33.72 3.41
2125 2186 2.619147 CTCTGCTTCCATGTCAGACAG 58.381 52.381 9.64 1.53 33.72 3.51
2126 2187 2.233186 CTCTGCTTCCATGTCAGACAGA 59.767 50.000 9.64 0.00 33.72 3.41
2329 2393 4.835284 TTCACATGTAAGGACAGGCATA 57.165 40.909 0.00 0.00 41.12 3.14
2330 2394 5.372343 TTCACATGTAAGGACAGGCATAT 57.628 39.130 0.00 0.00 41.12 1.78
2384 2449 4.640201 GTCATGTTCTGGCCTTTTAGCATA 59.360 41.667 3.32 0.00 0.00 3.14
2418 2970 3.420904 CGCTTAGTTTTGGTCTTTTTCGC 59.579 43.478 0.00 0.00 0.00 4.70
2421 2973 0.850217 GTTTTGGTCTTTTTCGCGGC 59.150 50.000 6.13 0.00 0.00 6.53
2543 3096 4.682401 TGGTATGCGCATATACAACTAACG 59.318 41.667 31.14 0.00 35.67 3.18
2571 3124 4.509600 GGACAGTGAAGCTTATGCATCTAC 59.490 45.833 0.19 0.00 42.74 2.59
2572 3125 5.350504 ACAGTGAAGCTTATGCATCTACT 57.649 39.130 0.19 0.00 42.74 2.57
2602 3155 6.012658 TGCCTACTTTTGCTTAGATTGTTG 57.987 37.500 0.00 0.00 0.00 3.33
2613 3166 7.692460 TGCTTAGATTGTTGTTGATGAGAAT 57.308 32.000 0.00 0.00 0.00 2.40
2744 3299 3.690139 TGCAACCAGTAAGAACGAAAACA 59.310 39.130 0.00 0.00 0.00 2.83
2746 3301 5.527951 TGCAACCAGTAAGAACGAAAACATA 59.472 36.000 0.00 0.00 0.00 2.29
2787 3342 7.609532 ACTCCAGCTATATAAATTGGCATCTTC 59.390 37.037 0.00 0.00 0.00 2.87
2788 3343 7.460910 TCCAGCTATATAAATTGGCATCTTCA 58.539 34.615 0.00 0.00 0.00 3.02
2921 3486 0.618458 TGCAGGTACCCCATCTGAAC 59.382 55.000 8.74 0.00 0.00 3.18
2942 3507 8.258850 TGAACGATAATACCCTTAATCTCCTT 57.741 34.615 0.00 0.00 0.00 3.36
2943 3508 8.711170 TGAACGATAATACCCTTAATCTCCTTT 58.289 33.333 0.00 0.00 0.00 3.11
2944 3509 8.904099 AACGATAATACCCTTAATCTCCTTTG 57.096 34.615 0.00 0.00 0.00 2.77
2945 3510 8.258850 ACGATAATACCCTTAATCTCCTTTGA 57.741 34.615 0.00 0.00 0.00 2.69
2978 3543 4.510038 AATCAATGCTAATCCCGCAATC 57.490 40.909 0.00 0.00 41.26 2.67
3033 3598 1.820519 TGTGTCCCACTGTACGATACC 59.179 52.381 0.00 0.00 35.11 2.73
3140 3705 4.033817 ACCAATGCAAACATTTGAAACACG 59.966 37.500 8.54 0.00 44.21 4.49
3142 3707 1.929836 TGCAAACATTTGAAACACGGC 59.070 42.857 8.54 0.00 40.55 5.68
3147 3712 5.277058 GCAAACATTTGAAACACGGCATTTA 60.277 36.000 8.54 0.00 40.55 1.40
3257 3825 9.440773 GATTACATTATTGACCATGCTGAGATA 57.559 33.333 0.00 0.00 0.00 1.98
3341 3909 4.607955 TGAGCACCTTTAATATCTCGTCG 58.392 43.478 0.00 0.00 0.00 5.12
3347 3915 6.643770 GCACCTTTAATATCTCGTCGGAATTA 59.356 38.462 0.00 0.00 0.00 1.40
3362 3930 7.648112 TCGTCGGAATTAAGATTTCATAGTGAG 59.352 37.037 0.00 0.00 0.00 3.51
3442 4010 8.999905 AGGTAAGAAAATGGTAAAGTGGTTAA 57.000 30.769 0.00 0.00 0.00 2.01
3670 4239 9.926158 ACTATCTCTAATTATCTCAACATGCAG 57.074 33.333 0.00 0.00 0.00 4.41
3701 4272 0.615544 ACAAATCACCATGCAGGGGG 60.616 55.000 23.35 19.57 42.98 5.40
4086 4712 2.799126 ACACAAGTGGAACAAGTGGA 57.201 45.000 5.08 0.00 44.65 4.02
4271 4897 2.691011 TGTAAGCAAACTGGGTGGTTTC 59.309 45.455 3.23 0.28 37.32 2.78
4630 5258 8.363390 CCTTCATATCAGCTAACTCAGATAACA 58.637 37.037 0.00 0.00 0.00 2.41
4901 5918 6.849502 TCATAACTAAGAACCACTAGACACG 58.150 40.000 0.00 0.00 0.00 4.49
5409 6440 6.092122 TCACAAGATAACGATAAAGCTGGTTG 59.908 38.462 0.00 0.00 0.00 3.77
5680 6737 5.813080 ATGAAAAGGAACCAGTATAACGC 57.187 39.130 0.00 0.00 0.00 4.84
5861 6918 3.564225 GTGTTCCTTCTCGTGGTGAAATT 59.436 43.478 0.00 0.00 0.00 1.82
5876 6933 5.488919 TGGTGAAATTCTCATTAGAGGGTCT 59.511 40.000 0.00 0.00 42.34 3.85
6445 7504 3.691609 CAGAAGAACAAGGTAAGGCCATC 59.308 47.826 5.01 0.00 40.61 3.51
6467 7526 7.935755 CCATCTATTCACTTCTACATTGGACAT 59.064 37.037 0.00 0.00 0.00 3.06
6605 7664 5.881777 AGCCTCCTTCGTTTTAAATCTTC 57.118 39.130 0.00 0.00 0.00 2.87
6677 7736 3.864003 GCTACGAGGTTTTGAGTACATCC 59.136 47.826 0.00 0.00 0.00 3.51
6682 7741 4.652822 GAGGTTTTGAGTACATCCAAGGT 58.347 43.478 0.00 0.00 0.00 3.50
6700 7759 2.303022 AGGTGTAGTGTTGGATCCTGTG 59.697 50.000 14.23 0.00 0.00 3.66
6709 7768 2.827921 GTTGGATCCTGTGCCTTTTGAT 59.172 45.455 14.23 0.00 0.00 2.57
6887 7947 7.180051 AGTGAGCCCAATAAAATTGGTAAATCA 59.820 33.333 15.62 11.10 37.88 2.57
7577 8657 5.170748 GCCCCACTCTTTGAAATTTACATG 58.829 41.667 0.00 0.00 0.00 3.21
7662 8742 7.760794 ACGGACAATTTCTATTAATGTCGTGTA 59.239 33.333 0.00 0.00 0.00 2.90
7667 8747 4.635833 TCTATTAATGTCGTGTACGCCA 57.364 40.909 0.00 0.00 39.60 5.69
7726 8861 4.643463 TCGACTCAGTCCCAGACTATATC 58.357 47.826 0.00 0.00 41.37 1.63
7740 8878 6.868864 CCAGACTATATCGTTATGTCCCAAAG 59.131 42.308 10.11 0.00 0.00 2.77
7989 9571 3.659786 TCAATCAAGTACGTTGGTCTGG 58.340 45.455 0.00 0.00 36.71 3.86
8040 9622 8.338072 TCTAGGGCTACTCTTATAAATCTTCG 57.662 38.462 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 71 5.578336 TCTTCTGAAGTAAGTGATGCGATTG 59.422 40.000 16.43 0.00 0.00 2.67
70 76 6.035866 CACTGATCTTCTGAAGTAAGTGATGC 59.964 42.308 26.88 9.09 36.91 3.91
83 89 7.325338 CACAAACAATTTAGCACTGATCTTCTG 59.675 37.037 0.00 0.00 0.00 3.02
99 105 2.556622 CGGAAGGGTAGCACAAACAATT 59.443 45.455 0.00 0.00 0.00 2.32
105 111 2.047655 CGCGGAAGGGTAGCACAA 60.048 61.111 0.00 0.00 39.50 3.33
146 152 6.013379 AGGTACTGAGATCATGGTGTATAGG 58.987 44.000 0.00 0.00 37.18 2.57
251 257 1.556911 AGCTGACCCTGGTTATGAGTG 59.443 52.381 0.00 0.00 0.00 3.51
361 372 5.177511 TGTTCTTTTCTCGATACAACTGCAG 59.822 40.000 13.48 13.48 0.00 4.41
375 387 6.487103 GTCTGTCAACGAATTGTTCTTTTCT 58.513 36.000 0.00 0.00 39.29 2.52
390 402 5.403246 AGTTCTGTCATATCGTCTGTCAAC 58.597 41.667 0.00 0.00 0.00 3.18
407 419 4.938080 AGTCACTCGGCATAATAGTTCTG 58.062 43.478 0.00 0.00 0.00 3.02
409 421 6.586844 GGAATAGTCACTCGGCATAATAGTTC 59.413 42.308 0.00 0.00 0.00 3.01
476 491 3.945434 GCGATGATGTGGCGCCAG 61.945 66.667 33.73 17.95 44.55 4.85
609 625 3.668141 AATTATGTCACCATCTGCCCA 57.332 42.857 0.00 0.00 32.29 5.36
612 628 4.378770 CGGCATAATTATGTCACCATCTGC 60.379 45.833 25.48 10.49 38.17 4.26
623 639 9.979270 GAGAAATAGTCATTCGGCATAATTATG 57.021 33.333 19.29 19.29 33.19 1.90
653 672 3.055591 CACATGATCAGCCAGTCGTATC 58.944 50.000 0.00 0.00 0.00 2.24
692 711 0.608856 ATGTGGCGCCAAATCTGTGA 60.609 50.000 34.66 0.58 0.00 3.58
754 773 3.729163 GCTCTTCCAAGAATTAAGCGTGC 60.729 47.826 0.00 0.00 34.03 5.34
810 829 1.074850 GAGAGGGGAAGAGAGGGGG 60.075 68.421 0.00 0.00 0.00 5.40
823 842 5.368989 GAGAGAGAGGTTTAGAGAGAGAGG 58.631 50.000 0.00 0.00 0.00 3.69
866 891 1.576421 CAAAACCGCTCAGCTCCAC 59.424 57.895 0.00 0.00 0.00 4.02
1061 1086 3.496870 GGAAGAAGTGGAGCTTGGAGAAA 60.497 47.826 0.00 0.00 37.59 2.52
1083 1108 3.600388 AGAAGGCATGGAAGAACTTACG 58.400 45.455 0.00 0.00 0.00 3.18
1113 1138 3.030873 AGGGAACATGGAGAGAGAGAG 57.969 52.381 0.00 0.00 0.00 3.20
1114 1139 3.481559 AAGGGAACATGGAGAGAGAGA 57.518 47.619 0.00 0.00 0.00 3.10
1163 1190 2.641815 AGAGATTGCAGGACAGGAAACT 59.358 45.455 0.00 0.00 46.44 2.66
1166 1193 2.499289 GAGAGAGATTGCAGGACAGGAA 59.501 50.000 0.00 0.00 0.00 3.36
1264 1309 6.580041 CAGTGACAGAAAACAACATTATCTGC 59.420 38.462 0.00 0.00 40.86 4.26
1281 1326 2.398498 CAAGACTCGTTCCAGTGACAG 58.602 52.381 0.00 0.00 0.00 3.51
1372 1417 7.221838 GCTGTCACTGACTCTGTATTTTCTATC 59.778 40.741 10.54 0.00 33.15 2.08
1373 1418 7.038659 GCTGTCACTGACTCTGTATTTTCTAT 58.961 38.462 10.54 0.00 33.15 1.98
1420 1465 2.372172 TGTGTTTCTTTCTCCCCCTCTC 59.628 50.000 0.00 0.00 0.00 3.20
1422 1467 2.951229 TGTGTTTCTTTCTCCCCCTC 57.049 50.000 0.00 0.00 0.00 4.30
1423 1468 2.158460 CCTTGTGTTTCTTTCTCCCCCT 60.158 50.000 0.00 0.00 0.00 4.79
1424 1469 2.158519 TCCTTGTGTTTCTTTCTCCCCC 60.159 50.000 0.00 0.00 0.00 5.40
1425 1470 3.223674 TCCTTGTGTTTCTTTCTCCCC 57.776 47.619 0.00 0.00 0.00 4.81
1426 1471 4.559502 GCAATCCTTGTGTTTCTTTCTCCC 60.560 45.833 0.00 0.00 0.00 4.30
1427 1472 4.037923 TGCAATCCTTGTGTTTCTTTCTCC 59.962 41.667 0.00 0.00 0.00 3.71
1447 1492 4.820897 ACATCTCGTGACTAGAAAATGCA 58.179 39.130 0.00 0.00 0.00 3.96
1473 1518 4.143742 CGACGGTGTTTCGTAGTACTTTTC 60.144 45.833 0.00 0.00 43.96 2.29
1480 1525 0.947244 ACTCGACGGTGTTTCGTAGT 59.053 50.000 0.00 0.00 43.96 2.73
1481 1526 1.599992 GACTCGACGGTGTTTCGTAG 58.400 55.000 0.00 0.00 43.96 3.51
1482 1527 0.110688 CGACTCGACGGTGTTTCGTA 60.111 55.000 0.00 0.00 43.96 3.43
1483 1528 1.369689 CGACTCGACGGTGTTTCGT 60.370 57.895 0.00 0.00 46.83 3.85
1484 1529 2.704193 GCGACTCGACGGTGTTTCG 61.704 63.158 1.63 0.00 37.85 3.46
1511 1556 5.474825 GGAGAAGAAGAACTAGTTGGACAG 58.525 45.833 14.14 0.00 0.00 3.51
1591 1644 1.133915 ACCAAACAATCTGGACCGTGT 60.134 47.619 0.00 0.00 37.40 4.49
1594 1647 0.796312 CGACCAAACAATCTGGACCG 59.204 55.000 0.00 0.00 37.40 4.79
1598 1651 0.240945 GCACCGACCAAACAATCTGG 59.759 55.000 0.00 0.00 40.05 3.86
1604 1657 0.250510 TGCATAGCACCGACCAAACA 60.251 50.000 0.00 0.00 31.71 2.83
1609 1662 1.597742 ATCAATGCATAGCACCGACC 58.402 50.000 0.00 0.00 43.04 4.79
1610 1663 4.811555 TTTATCAATGCATAGCACCGAC 57.188 40.909 0.00 0.00 43.04 4.79
1612 1665 5.761003 TGAATTTATCAATGCATAGCACCG 58.239 37.500 0.00 0.00 35.42 4.94
1613 1666 6.154445 CCTGAATTTATCAATGCATAGCACC 58.846 40.000 0.00 0.00 37.67 5.01
1614 1667 6.154445 CCCTGAATTTATCAATGCATAGCAC 58.846 40.000 0.00 0.00 37.67 4.40
1615 1668 5.244402 CCCCTGAATTTATCAATGCATAGCA 59.756 40.000 0.00 0.00 37.67 3.49
1616 1669 5.477984 TCCCCTGAATTTATCAATGCATAGC 59.522 40.000 0.00 0.00 37.67 2.97
1618 1671 6.851318 TCTCCCCTGAATTTATCAATGCATA 58.149 36.000 0.00 0.00 37.67 3.14
1619 1672 5.708544 TCTCCCCTGAATTTATCAATGCAT 58.291 37.500 0.00 0.00 37.67 3.96
1620 1673 5.103982 TCTCTCCCCTGAATTTATCAATGCA 60.104 40.000 0.00 0.00 37.67 3.96
1621 1674 5.380043 TCTCTCCCCTGAATTTATCAATGC 58.620 41.667 0.00 0.00 37.67 3.56
1622 1675 6.485984 CACTCTCTCCCCTGAATTTATCAATG 59.514 42.308 0.00 0.00 37.67 2.82
1623 1676 6.159398 ACACTCTCTCCCCTGAATTTATCAAT 59.841 38.462 0.00 0.00 37.67 2.57
1626 1679 5.622346 ACACTCTCTCCCCTGAATTTATC 57.378 43.478 0.00 0.00 0.00 1.75
1627 1680 7.510675 TTTACACTCTCTCCCCTGAATTTAT 57.489 36.000 0.00 0.00 0.00 1.40
1628 1681 6.945636 TTTACACTCTCTCCCCTGAATTTA 57.054 37.500 0.00 0.00 0.00 1.40
1629 1682 5.843019 TTTACACTCTCTCCCCTGAATTT 57.157 39.130 0.00 0.00 0.00 1.82
1652 1705 3.934579 CTCTTGCCAAACACAAGCTTTTT 59.065 39.130 0.00 0.00 43.40 1.94
1653 1706 3.195396 TCTCTTGCCAAACACAAGCTTTT 59.805 39.130 0.00 0.00 43.40 2.27
1654 1707 2.760092 TCTCTTGCCAAACACAAGCTTT 59.240 40.909 0.00 0.00 43.40 3.51
1655 1708 2.360165 CTCTCTTGCCAAACACAAGCTT 59.640 45.455 0.00 0.00 43.40 3.74
1656 1709 1.952296 CTCTCTTGCCAAACACAAGCT 59.048 47.619 0.00 0.00 43.40 3.74
1657 1710 1.678101 ACTCTCTTGCCAAACACAAGC 59.322 47.619 0.00 0.00 43.40 4.01
1658 1711 2.684881 ACACTCTCTTGCCAAACACAAG 59.315 45.455 0.00 0.00 44.76 3.16
1659 1712 2.722094 ACACTCTCTTGCCAAACACAA 58.278 42.857 0.00 0.00 0.00 3.33
1660 1713 2.418368 ACACTCTCTTGCCAAACACA 57.582 45.000 0.00 0.00 0.00 3.72
1661 1714 3.467803 ACTACACTCTCTTGCCAAACAC 58.532 45.455 0.00 0.00 0.00 3.32
1662 1715 3.838244 ACTACACTCTCTTGCCAAACA 57.162 42.857 0.00 0.00 0.00 2.83
1663 1716 5.135508 TCTACTACACTCTCTTGCCAAAC 57.864 43.478 0.00 0.00 0.00 2.93
1664 1717 4.833380 ACTCTACTACACTCTCTTGCCAAA 59.167 41.667 0.00 0.00 0.00 3.28
1665 1718 4.408276 ACTCTACTACACTCTCTTGCCAA 58.592 43.478 0.00 0.00 0.00 4.52
1666 1719 4.035612 ACTCTACTACACTCTCTTGCCA 57.964 45.455 0.00 0.00 0.00 4.92
1667 1720 5.065474 CAGTACTCTACTACACTCTCTTGCC 59.935 48.000 0.00 0.00 37.23 4.52
1668 1721 5.875910 TCAGTACTCTACTACACTCTCTTGC 59.124 44.000 0.00 0.00 37.23 4.01
1669 1722 6.874664 TGTCAGTACTCTACTACACTCTCTTG 59.125 42.308 0.00 0.00 37.23 3.02
1670 1723 7.006865 TGTCAGTACTCTACTACACTCTCTT 57.993 40.000 0.00 0.00 37.23 2.85
1688 1741 5.329035 AGTTTGCAACAAATTCTGTCAGT 57.671 34.783 0.00 0.00 37.23 3.41
1715 1768 3.429141 CAAGCTGCGCACCAGAGG 61.429 66.667 5.66 0.00 44.64 3.69
1723 1776 3.207669 CCATCCTCCAAGCTGCGC 61.208 66.667 0.00 0.00 0.00 6.09
1959 2015 6.650807 TGAAAGTGAAAGCTACCATCTAACTG 59.349 38.462 0.00 0.00 0.00 3.16
2021 2079 5.128008 TGCAGTACAGTATAACATAGGCACA 59.872 40.000 0.00 0.00 0.00 4.57
2043 2101 4.083590 CCAGCTAGTTCTCTTTGTCTTTGC 60.084 45.833 0.00 0.00 0.00 3.68
2077 2135 7.064609 TCGGATTACTTTCTTTATTGAGCACTG 59.935 37.037 0.00 0.00 0.00 3.66
2096 2157 1.860641 TGGAAGCAGAGGTCGGATTA 58.139 50.000 0.00 0.00 0.00 1.75
2112 2173 4.100653 GGAGATGAATCTGTCTGACATGGA 59.899 45.833 11.45 6.58 37.25 3.41
2124 2185 4.564406 GGTGACACACAAGGAGATGAATCT 60.564 45.833 8.08 0.00 36.54 2.40
2125 2186 3.686726 GGTGACACACAAGGAGATGAATC 59.313 47.826 8.08 0.00 35.86 2.52
2126 2187 3.328931 AGGTGACACACAAGGAGATGAAT 59.671 43.478 8.08 0.00 35.86 2.57
2329 2393 2.225117 CCTTCTCTGGGGGAAAACACAT 60.225 50.000 0.00 0.00 0.00 3.21
2330 2394 1.144913 CCTTCTCTGGGGGAAAACACA 59.855 52.381 0.00 0.00 0.00 3.72
2369 2434 3.620488 TGTCCTTATGCTAAAAGGCCAG 58.380 45.455 5.01 0.00 42.79 4.85
2384 2449 5.048991 CCAAAACTAAGCGTTACATGTCCTT 60.049 40.000 0.00 4.02 33.90 3.36
2418 2970 1.826385 AGAGATCAAAACCAAGGCCG 58.174 50.000 0.00 0.00 0.00 6.13
2421 2973 5.205759 AGCAAAAGAGATCAAAACCAAGG 57.794 39.130 0.00 0.00 0.00 3.61
2543 3096 3.462021 CATAAGCTTCACTGTCCTAGGC 58.538 50.000 0.00 0.00 0.00 3.93
2585 3138 8.077991 TCTCATCAACAACAATCTAAGCAAAAG 58.922 33.333 0.00 0.00 0.00 2.27
2602 3155 4.792068 TGGGGGATGTTATTCTCATCAAC 58.208 43.478 7.93 1.37 42.16 3.18
2613 3166 6.022315 AGAAACATGAAAATGGGGGATGTTA 58.978 36.000 0.00 0.00 36.47 2.41
2717 3271 0.250553 TTCTTACTGGTTGCACCCCG 60.251 55.000 0.00 0.00 37.50 5.73
2744 3299 6.547510 AGCTGGAGTGAAAAAGTTGACTTTAT 59.452 34.615 9.35 0.00 44.69 1.40
2800 3365 9.661187 CATCAACATCTCTGATTAATGTAAAGC 57.339 33.333 0.00 0.00 33.42 3.51
2921 3486 9.726438 AATCAAAGGAGATTAAGGGTATTATCG 57.274 33.333 0.00 0.00 36.51 2.92
3033 3598 8.738645 ATTTATCAGTTTCCTGCTTACCTAAG 57.261 34.615 0.00 0.00 38.66 2.18
3332 3900 9.841880 CTATGAAATCTTAATTCCGACGAGATA 57.158 33.333 0.00 0.00 0.00 1.98
3336 3904 7.485810 TCACTATGAAATCTTAATTCCGACGA 58.514 34.615 0.00 0.00 0.00 4.20
3362 3930 8.560374 GGGACAGTATCTGCAAATAAGAAATAC 58.440 37.037 0.00 0.00 34.37 1.89
3442 4010 4.338795 TCCTGGAATAACAGAGAGACCT 57.661 45.455 0.00 0.00 40.97 3.85
3484 4052 6.329838 TGCAAACATGTTTTCGAGAAAAAG 57.670 33.333 21.10 7.27 41.37 2.27
3487 4055 3.796178 GCTGCAAACATGTTTTCGAGAAA 59.204 39.130 21.10 0.00 0.00 2.52
3493 4061 3.560896 ACCAATGCTGCAAACATGTTTTC 59.439 39.130 21.10 16.94 0.00 2.29
3670 4239 3.253188 TGGTGATTTGTTGAGTTAGCAGC 59.747 43.478 0.00 0.00 0.00 5.25
3701 4272 3.057526 GTGCATGTTAAGGTGGGTCTTTC 60.058 47.826 0.00 0.00 0.00 2.62
3918 4493 3.827008 TGGCAGTCTGAATGGATCTAC 57.173 47.619 3.32 0.00 0.00 2.59
3997 4623 5.650283 TGGTTTATCCTTTCCCTGAAATGT 58.350 37.500 0.00 0.00 37.07 2.71
4086 4712 2.627699 CAGCATAACACCTTTGGGTTGT 59.372 45.455 0.00 0.00 44.73 3.32
4271 4897 0.930310 CGTTGACATCTGCATACCCG 59.070 55.000 0.00 0.00 0.00 5.28
4990 6010 0.036388 CGAGCCTTGCCTTGACCTAA 60.036 55.000 0.00 0.00 0.00 2.69
5244 6272 5.565509 TGCCAGTCTGGTGACATATTTTTA 58.434 37.500 20.24 0.00 45.20 1.52
5245 6273 4.406456 TGCCAGTCTGGTGACATATTTTT 58.594 39.130 20.24 0.00 45.20 1.94
5409 6440 3.149196 CATGGACCCAACCTACATATGC 58.851 50.000 1.58 0.00 0.00 3.14
5680 6737 3.178267 GAGCAGAGACAACAGAATCGAG 58.822 50.000 0.00 0.00 0.00 4.04
5861 6918 5.718801 AGACAGTAGACCCTCTAATGAGA 57.281 43.478 12.40 0.00 45.01 3.27
5876 6933 4.989277 TGTAGTACCCAGTGAAGACAGTA 58.011 43.478 0.00 0.00 0.00 2.74
6496 7555 6.944290 CCATAATGCTAGGAGAATTTGATGGA 59.056 38.462 4.01 0.00 33.76 3.41
6585 7644 6.603095 CAGTGAAGATTTAAAACGAAGGAGG 58.397 40.000 0.00 0.00 0.00 4.30
6605 7664 7.845066 ATATATGTGATGCTTAGATGCAGTG 57.155 36.000 0.00 0.00 46.71 3.66
6677 7736 3.244561 ACAGGATCCAACACTACACCTTG 60.245 47.826 15.82 0.60 0.00 3.61
6682 7741 1.003118 GGCACAGGATCCAACACTACA 59.997 52.381 15.82 0.00 0.00 2.74
6700 7759 6.539826 CCAAATCCCTTTCAATATCAAAAGGC 59.460 38.462 17.55 0.00 46.72 4.35
6709 7768 4.462483 GCAGTGACCAAATCCCTTTCAATA 59.538 41.667 0.00 0.00 0.00 1.90
7554 8634 4.864704 TGTAAATTTCAAAGAGTGGGGC 57.135 40.909 0.00 0.00 0.00 5.80
7555 8635 6.158598 CACATGTAAATTTCAAAGAGTGGGG 58.841 40.000 0.00 0.00 0.00 4.96
7556 8636 6.642131 CACACATGTAAATTTCAAAGAGTGGG 59.358 38.462 0.00 0.00 0.00 4.61
7559 8639 6.215845 GCCACACATGTAAATTTCAAAGAGT 58.784 36.000 0.00 0.00 0.00 3.24
7561 8641 5.218885 CGCCACACATGTAAATTTCAAAGA 58.781 37.500 0.00 0.00 0.00 2.52
7564 8644 3.243535 TGCGCCACACATGTAAATTTCAA 60.244 39.130 4.18 0.00 0.00 2.69
7667 8747 0.754217 TATTGGCCCTCGCGTAGTCT 60.754 55.000 5.77 0.00 35.02 3.24
7726 8861 8.601845 TGATGAATATACTTTGGGACATAACG 57.398 34.615 0.00 0.00 39.30 3.18
7768 8906 2.349886 GCTGCTATCTTCAGTTTGGTCG 59.650 50.000 0.00 0.00 34.21 4.79
7798 8936 2.704464 TCATCAGAGGCACCATTCAG 57.296 50.000 0.00 0.00 0.00 3.02
7989 9571 1.507141 CGACAAACCTCAGGCACCAC 61.507 60.000 0.00 0.00 0.00 4.16
8040 9622 7.168637 CCAATGCACTTGATTGAGCATATTTAC 59.831 37.037 9.56 0.00 46.10 2.01


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

AutoCloner maintained by Alex Coulton.