Multiple sequence alignment - TraesCS6B01G434700

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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 TraesCS6B01G434700 chr6B 100.000 4735 0 0 1 4735 703156841 703152107 0.000000e+00 8745
1 TraesCS6B01G434700 chr6B 98.817 169 1 1 1666 1834 696480083 696480250 2.770000e-77 300
2 TraesCS6B01G434700 chr6A 92.511 2951 139 46 1826 4730 608080123 608077209 0.000000e+00 4150
3 TraesCS6B01G434700 chr6A 92.167 1149 61 12 541 1667 608081261 608080120 0.000000e+00 1596
4 TraesCS6B01G434700 chr6A 83.877 521 34 20 1 500 608081760 608081269 7.230000e-123 451
5 TraesCS6B01G434700 chr6D 92.755 2443 102 34 1826 4221 461395845 461393431 0.000000e+00 3461
6 TraesCS6B01G434700 chr6D 90.596 1712 84 32 1 1667 461397521 461395842 0.000000e+00 2198
7 TraesCS6B01G434700 chr6D 93.041 776 41 9 3519 4291 461391679 461390914 0.000000e+00 1122
8 TraesCS6B01G434700 chr6D 92.812 320 18 4 4411 4730 461393244 461392930 4.320000e-125 459
9 TraesCS6B01G434700 chr6D 85.714 350 22 11 4382 4730 461390855 461390533 1.260000e-90 344
10 TraesCS6B01G434700 chr6D 93.478 92 5 1 4337 4427 461393349 461393258 8.270000e-28 135
11 TraesCS6B01G434700 chr7A 99.401 167 1 0 1665 1831 448252492 448252326 2.140000e-78 303
12 TraesCS6B01G434700 chr2A 97.714 175 3 1 1656 1829 113822469 113822295 2.770000e-77 300
13 TraesCS6B01G434700 chr3B 96.154 182 5 2 1662 1843 783212876 783212697 3.580000e-76 296
14 TraesCS6B01G434700 chr3B 77.429 319 42 16 629 941 22139873 22140167 3.790000e-36 163
15 TraesCS6B01G434700 chr2B 98.235 170 2 1 1660 1829 161144174 161144006 3.580000e-76 296
16 TraesCS6B01G434700 chr3A 98.225 169 2 1 1661 1829 694520772 694520939 1.290000e-75 294
17 TraesCS6B01G434700 chr7B 97.126 174 3 2 1658 1829 215365504 215365677 4.630000e-75 292
18 TraesCS6B01G434700 chr7B 95.531 179 8 0 1664 1842 70071906 70071728 2.160000e-73 287
19 TraesCS6B01G434700 chr5A 98.171 164 3 0 1666 1829 675526888 675527051 2.160000e-73 287


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 TraesCS6B01G434700 chr6B 703152107 703156841 4734 True 8745.000000 8745 100.000000 1 4735 1 chr6B.!!$R1 4734
1 TraesCS6B01G434700 chr6A 608077209 608081760 4551 True 2065.666667 4150 89.518333 1 4730 3 chr6A.!!$R1 4729
2 TraesCS6B01G434700 chr6D 461390533 461397521 6988 True 1286.500000 3461 91.399333 1 4730 6 chr6D.!!$R1 4729

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
722 771 0.118346 ATGTGGTAGTGGTCCCAGGA 59.882 55.0 0.0 0.0 0.0 3.86 F
1004 1053 0.107017 ATTTGAGCCCCACGGATGAG 60.107 55.0 0.0 0.0 0.0 2.90 F
1681 1737 0.115745 AAGTACTCCCTCCGTTCCCA 59.884 55.0 0.0 0.0 0.0 4.37 F
3093 3203 0.037303 ACATGTGAGTGCTTCCCCAG 59.963 55.0 0.0 0.0 0.0 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1764 1820 0.528924 AGTGACTACATACGGCGCAA 59.471 50.0 10.83 0.0 0.00 4.85 R
1812 1868 0.924823 AGCTACTCCCTCCGTTCCTA 59.075 55.0 0.00 0.0 0.00 2.94 R
3564 3676 0.039978 TTGGTTGCATACGTTTGCGG 60.040 50.0 22.96 0.0 45.77 5.69 R
4311 4431 0.468226 TTGGAGGTTGTGAAGCGTCT 59.532 50.0 0.31 0.0 0.00 4.18 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
48 61 1.251251 CTTGCCTGCTAAGGTTGCTT 58.749 50.000 0.00 0.00 46.43 3.91
52 65 1.403323 GCCTGCTAAGGTTGCTTCATC 59.597 52.381 0.00 0.00 46.43 2.92
67 80 3.736483 ATCATCGTTGATGCCGCC 58.264 55.556 8.17 0.00 41.12 6.13
72 85 1.705337 ATCGTTGATGCCGCCTTTCG 61.705 55.000 0.00 0.00 38.08 3.46
106 119 1.454653 CGTTCGTTCCCTCGTTTTCTC 59.545 52.381 0.00 0.00 0.00 2.87
113 126 1.343465 TCCCTCGTTTTCTCACTGGAC 59.657 52.381 0.00 0.00 0.00 4.02
114 127 1.419374 CCTCGTTTTCTCACTGGACG 58.581 55.000 0.00 0.00 35.24 4.79
115 128 1.000607 CCTCGTTTTCTCACTGGACGA 60.001 52.381 0.00 0.00 40.03 4.20
116 129 2.417339 TCGTTTTCTCACTGGACGAG 57.583 50.000 0.00 0.00 37.76 4.18
117 130 1.000607 TCGTTTTCTCACTGGACGAGG 60.001 52.381 0.00 0.00 37.76 4.63
118 131 1.149148 GTTTTCTCACTGGACGAGGC 58.851 55.000 0.00 0.00 0.00 4.70
119 132 1.048601 TTTTCTCACTGGACGAGGCT 58.951 50.000 0.00 0.00 0.00 4.58
120 133 1.048601 TTTCTCACTGGACGAGGCTT 58.951 50.000 0.00 0.00 0.00 4.35
121 134 1.048601 TTCTCACTGGACGAGGCTTT 58.951 50.000 0.00 0.00 0.00 3.51
122 135 0.603569 TCTCACTGGACGAGGCTTTC 59.396 55.000 0.00 0.00 0.00 2.62
123 136 0.605589 CTCACTGGACGAGGCTTTCT 59.394 55.000 0.00 0.00 0.00 2.52
124 137 1.001406 CTCACTGGACGAGGCTTTCTT 59.999 52.381 0.00 0.00 0.00 2.52
125 138 1.151668 CACTGGACGAGGCTTTCTTG 58.848 55.000 0.00 0.00 0.00 3.02
126 139 0.759346 ACTGGACGAGGCTTTCTTGT 59.241 50.000 0.00 0.00 42.62 3.16
127 140 1.141053 ACTGGACGAGGCTTTCTTGTT 59.859 47.619 0.00 0.00 40.11 2.83
128 141 1.532868 CTGGACGAGGCTTTCTTGTTG 59.467 52.381 0.00 0.00 40.11 3.33
129 142 0.875059 GGACGAGGCTTTCTTGTTGG 59.125 55.000 0.00 0.00 40.11 3.77
130 143 1.542547 GGACGAGGCTTTCTTGTTGGA 60.543 52.381 0.00 0.00 40.11 3.53
131 144 2.427506 GACGAGGCTTTCTTGTTGGAT 58.572 47.619 0.00 0.00 40.11 3.41
132 145 2.814336 GACGAGGCTTTCTTGTTGGATT 59.186 45.455 0.00 0.00 40.11 3.01
133 146 4.000988 GACGAGGCTTTCTTGTTGGATTA 58.999 43.478 0.00 0.00 40.11 1.75
134 147 4.589908 ACGAGGCTTTCTTGTTGGATTAT 58.410 39.130 0.00 0.00 36.75 1.28
135 148 5.010282 ACGAGGCTTTCTTGTTGGATTATT 58.990 37.500 0.00 0.00 36.75 1.40
136 149 6.177610 ACGAGGCTTTCTTGTTGGATTATTA 58.822 36.000 0.00 0.00 36.75 0.98
137 150 6.316390 ACGAGGCTTTCTTGTTGGATTATTAG 59.684 38.462 0.00 0.00 36.75 1.73
170 183 4.914312 TTATAGTCGTGCAACTTTTCCG 57.086 40.909 0.00 0.00 31.75 4.30
218 235 9.429359 CCACTAACTCTGCAGGAATAATAATAG 57.571 37.037 15.13 1.82 0.00 1.73
240 257 4.892934 AGTCTTGCAACTTTTCCACCATTA 59.107 37.500 0.00 0.00 0.00 1.90
243 260 6.705825 GTCTTGCAACTTTTCCACCATTATTT 59.294 34.615 0.00 0.00 0.00 1.40
261 279 2.031012 CTCCTGTTGACGCAGCCA 59.969 61.111 0.00 0.00 35.28 4.75
292 310 1.147817 AGGAAAACAGGGTTGCCAGAT 59.852 47.619 0.00 0.00 0.00 2.90
300 318 3.270877 CAGGGTTGCCAGATACAGTTAC 58.729 50.000 0.00 0.00 0.00 2.50
302 320 2.640184 GGTTGCCAGATACAGTTACCC 58.360 52.381 0.00 0.00 0.00 3.69
323 341 9.938280 TTACCCATATCTCTTGTTAATAATCCG 57.062 33.333 0.00 0.00 0.00 4.18
325 343 7.878127 ACCCATATCTCTTGTTAATAATCCGTG 59.122 37.037 0.00 0.00 0.00 4.94
326 344 7.878127 CCCATATCTCTTGTTAATAATCCGTGT 59.122 37.037 0.00 0.00 0.00 4.49
390 419 1.840635 AGTAGGTGAGGCCCTCATTTC 59.159 52.381 18.16 9.91 42.73 2.17
426 455 2.566997 CGTCAGCCGTTCGTATCAG 58.433 57.895 0.00 0.00 0.00 2.90
467 497 1.634702 CTGCAGTTAGTTCGCTCTCC 58.365 55.000 5.25 0.00 0.00 3.71
468 498 0.246635 TGCAGTTAGTTCGCTCTCCC 59.753 55.000 0.00 0.00 0.00 4.30
500 530 1.139256 TCGGGCATAATCGGCAGTTAA 59.861 47.619 0.00 0.00 0.00 2.01
502 532 2.805295 CGGGCATAATCGGCAGTTAAGA 60.805 50.000 0.00 0.00 0.00 2.10
529 559 6.729187 CAATCCACTATTTTAAGGCTGCTAC 58.271 40.000 0.00 0.00 0.00 3.58
539 569 0.390472 AGGCTGCTACAGAAAGCGTC 60.390 55.000 0.00 0.00 45.85 5.19
570 600 1.981256 TGGGACTGTTCCAGCTTTTC 58.019 50.000 2.93 0.00 44.98 2.29
572 602 2.091885 TGGGACTGTTCCAGCTTTTCTT 60.092 45.455 2.93 0.00 44.98 2.52
573 603 2.294512 GGGACTGTTCCAGCTTTTCTTG 59.705 50.000 0.00 0.00 44.98 3.02
577 607 5.405935 ACTGTTCCAGCTTTTCTTGTTTT 57.594 34.783 0.00 0.00 34.37 2.43
579 609 5.047377 ACTGTTCCAGCTTTTCTTGTTTTCA 60.047 36.000 0.00 0.00 34.37 2.69
621 651 5.581126 TCATATTGGGTTGTTCAATCAGC 57.419 39.130 0.00 0.00 36.40 4.26
622 652 4.402155 TCATATTGGGTTGTTCAATCAGCC 59.598 41.667 0.00 0.00 36.40 4.85
624 654 2.380064 TGGGTTGTTCAATCAGCCTT 57.620 45.000 0.00 0.00 38.47 4.35
625 655 2.676748 TGGGTTGTTCAATCAGCCTTT 58.323 42.857 0.00 0.00 38.47 3.11
678 727 8.462016 GTTGATTTGGTTGCTTAGACTGATAAT 58.538 33.333 0.00 0.00 0.00 1.28
719 768 5.282129 TCTTATAATGTGGTAGTGGTCCCA 58.718 41.667 0.00 0.00 0.00 4.37
720 769 5.365605 TCTTATAATGTGGTAGTGGTCCCAG 59.634 44.000 0.00 0.00 0.00 4.45
721 770 0.991920 AATGTGGTAGTGGTCCCAGG 59.008 55.000 0.00 0.00 0.00 4.45
722 771 0.118346 ATGTGGTAGTGGTCCCAGGA 59.882 55.000 0.00 0.00 0.00 3.86
749 798 4.508124 GGAGGATTGCGTACTAATCTGTTG 59.492 45.833 15.14 0.00 35.42 3.33
787 836 5.129151 GTCGTAATCGTGACTAGTGTATCG 58.871 45.833 0.00 0.00 38.33 2.92
819 868 1.972978 AGGGTGCTCCTAACGTGAC 59.027 57.895 4.53 0.00 45.98 3.67
821 870 1.445582 GGTGCTCCTAACGTGACGG 60.446 63.158 10.66 0.00 0.00 4.79
825 874 1.226323 CTCCTAACGTGACGGCTCG 60.226 63.158 11.84 11.84 37.08 5.03
843 892 4.143030 GGCTCGGATCATTCATTTATGTCG 60.143 45.833 0.00 0.00 0.00 4.35
849 898 6.088749 CGGATCATTCATTTATGTCGAGTCTC 59.911 42.308 0.00 0.00 0.00 3.36
893 942 1.867373 CCGCGCAAAATTAGCCGTG 60.867 57.895 8.75 5.87 0.00 4.94
898 947 2.624766 CGCAAAATTAGCCGTGTATCG 58.375 47.619 0.00 0.00 39.52 2.92
906 955 1.367665 GCCGTGTATCGCGCATTTC 60.368 57.895 8.75 0.00 35.94 2.17
925 974 5.576447 TTTCCTGTTCTTCTTTTGGTGTC 57.424 39.130 0.00 0.00 0.00 3.67
995 1044 2.496899 TGACAGAGAATTTGAGCCCC 57.503 50.000 0.00 0.00 0.00 5.80
1004 1053 0.107017 ATTTGAGCCCCACGGATGAG 60.107 55.000 0.00 0.00 0.00 2.90
1083 1132 0.179108 CCGCTCCCAACAGCTACTAC 60.179 60.000 0.00 0.00 37.25 2.73
1109 1158 5.734720 ACATCCTAATGGTTACAGTGACAG 58.265 41.667 0.00 0.00 37.19 3.51
1267 1321 4.083110 CCCGATGAGACATATTTGCATTCC 60.083 45.833 0.00 0.00 0.00 3.01
1337 1391 6.432162 CCATCCTGGTAGTGAAAATATCCATG 59.568 42.308 0.00 0.00 31.35 3.66
1351 1405 0.548031 TCCATGGTCTGATTCAGCCC 59.452 55.000 12.58 13.89 29.18 5.19
1354 1408 2.295885 CATGGTCTGATTCAGCCCTTC 58.704 52.381 14.43 1.24 29.99 3.46
1364 1418 2.358737 AGCCCTTCACCTTTCGCG 60.359 61.111 0.00 0.00 0.00 5.87
1365 1419 3.431725 GCCCTTCACCTTTCGCGG 61.432 66.667 6.13 0.00 0.00 6.46
1387 1442 5.454187 CGGTTTTGCTATCCCTCCTAATGTA 60.454 44.000 0.00 0.00 0.00 2.29
1469 1525 5.202004 GTCTAGTTCCTCTTCATACCCTGA 58.798 45.833 0.00 0.00 0.00 3.86
1470 1526 5.300792 GTCTAGTTCCTCTTCATACCCTGAG 59.699 48.000 0.00 0.00 34.68 3.35
1558 1614 5.278561 CCCGTGAGTCTATTGATCCTTAGTC 60.279 48.000 0.00 0.00 0.00 2.59
1657 1713 2.191128 AGTCCCATGTTTGCTCACTC 57.809 50.000 0.00 0.00 0.00 3.51
1667 1723 6.347725 CCATGTTTGCTCACTCACTAAAGTAC 60.348 42.308 0.00 0.00 0.00 2.73
1668 1724 5.914033 TGTTTGCTCACTCACTAAAGTACT 58.086 37.500 0.00 0.00 0.00 2.73
1669 1725 5.983720 TGTTTGCTCACTCACTAAAGTACTC 59.016 40.000 0.00 0.00 0.00 2.59
1670 1726 4.785511 TGCTCACTCACTAAAGTACTCC 57.214 45.455 0.00 0.00 0.00 3.85
1671 1727 3.510360 TGCTCACTCACTAAAGTACTCCC 59.490 47.826 0.00 0.00 0.00 4.30
1672 1728 3.764972 GCTCACTCACTAAAGTACTCCCT 59.235 47.826 0.00 0.00 0.00 4.20
1673 1729 4.142337 GCTCACTCACTAAAGTACTCCCTC 60.142 50.000 0.00 0.00 0.00 4.30
1674 1730 4.342359 TCACTCACTAAAGTACTCCCTCC 58.658 47.826 0.00 0.00 0.00 4.30
1675 1731 3.128938 CACTCACTAAAGTACTCCCTCCG 59.871 52.174 0.00 0.00 0.00 4.63
1676 1732 3.245193 ACTCACTAAAGTACTCCCTCCGT 60.245 47.826 0.00 0.00 0.00 4.69
1677 1733 3.762823 CTCACTAAAGTACTCCCTCCGTT 59.237 47.826 0.00 0.00 0.00 4.44
1678 1734 3.760684 TCACTAAAGTACTCCCTCCGTTC 59.239 47.826 0.00 0.00 0.00 3.95
1679 1735 3.095332 ACTAAAGTACTCCCTCCGTTCC 58.905 50.000 0.00 0.00 0.00 3.62
1680 1736 1.273759 AAAGTACTCCCTCCGTTCCC 58.726 55.000 0.00 0.00 0.00 3.97
1681 1737 0.115745 AAGTACTCCCTCCGTTCCCA 59.884 55.000 0.00 0.00 0.00 4.37
1682 1738 0.115745 AGTACTCCCTCCGTTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
1683 1739 0.978907 GTACTCCCTCCGTTCCCAAA 59.021 55.000 0.00 0.00 0.00 3.28
1684 1740 1.558294 GTACTCCCTCCGTTCCCAAAT 59.442 52.381 0.00 0.00 0.00 2.32
1685 1741 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
1686 1742 1.558294 ACTCCCTCCGTTCCCAAATAC 59.442 52.381 0.00 0.00 0.00 1.89
1687 1743 1.838077 CTCCCTCCGTTCCCAAATACT 59.162 52.381 0.00 0.00 0.00 2.12
1688 1744 2.238898 CTCCCTCCGTTCCCAAATACTT 59.761 50.000 0.00 0.00 0.00 2.24
1689 1745 2.026636 TCCCTCCGTTCCCAAATACTTG 60.027 50.000 0.00 0.00 0.00 3.16
1690 1746 2.290705 CCCTCCGTTCCCAAATACTTGT 60.291 50.000 0.00 0.00 0.00 3.16
1691 1747 3.007635 CCTCCGTTCCCAAATACTTGTC 58.992 50.000 0.00 0.00 0.00 3.18
1692 1748 3.307480 CCTCCGTTCCCAAATACTTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
1693 1749 4.324267 CTCCGTTCCCAAATACTTGTCTT 58.676 43.478 0.00 0.00 0.00 3.01
1694 1750 4.721132 TCCGTTCCCAAATACTTGTCTTT 58.279 39.130 0.00 0.00 0.00 2.52
1695 1751 4.758165 TCCGTTCCCAAATACTTGTCTTTC 59.242 41.667 0.00 0.00 0.00 2.62
1696 1752 4.760204 CCGTTCCCAAATACTTGTCTTTCT 59.240 41.667 0.00 0.00 0.00 2.52
1697 1753 5.935789 CCGTTCCCAAATACTTGTCTTTCTA 59.064 40.000 0.00 0.00 0.00 2.10
1698 1754 6.092259 CCGTTCCCAAATACTTGTCTTTCTAG 59.908 42.308 0.00 0.00 0.00 2.43
1699 1755 6.092259 CGTTCCCAAATACTTGTCTTTCTAGG 59.908 42.308 0.00 0.00 0.00 3.02
1700 1756 5.497474 TCCCAAATACTTGTCTTTCTAGGC 58.503 41.667 0.00 0.00 0.00 3.93
1701 1757 5.013704 TCCCAAATACTTGTCTTTCTAGGCA 59.986 40.000 0.00 0.00 33.22 4.75
1702 1758 5.888161 CCCAAATACTTGTCTTTCTAGGCAT 59.112 40.000 0.00 0.00 35.56 4.40
1703 1759 6.378280 CCCAAATACTTGTCTTTCTAGGCATT 59.622 38.462 0.00 0.00 35.56 3.56
1704 1760 7.093771 CCCAAATACTTGTCTTTCTAGGCATTT 60.094 37.037 0.00 0.00 35.56 2.32
1705 1761 7.970614 CCAAATACTTGTCTTTCTAGGCATTTC 59.029 37.037 0.00 0.00 35.56 2.17
1706 1762 8.514594 CAAATACTTGTCTTTCTAGGCATTTCA 58.485 33.333 0.00 0.00 35.56 2.69
1707 1763 8.635765 AATACTTGTCTTTCTAGGCATTTCAA 57.364 30.769 0.00 0.00 35.56 2.69
1708 1764 6.959639 ACTTGTCTTTCTAGGCATTTCAAA 57.040 33.333 0.00 0.00 35.56 2.69
1709 1765 7.530426 ACTTGTCTTTCTAGGCATTTCAAAT 57.470 32.000 0.00 0.00 35.56 2.32
1710 1766 7.373493 ACTTGTCTTTCTAGGCATTTCAAATG 58.627 34.615 5.68 5.68 35.56 2.32
1711 1767 6.271488 TGTCTTTCTAGGCATTTCAAATGG 57.729 37.500 12.14 0.00 29.10 3.16
1712 1768 6.009589 TGTCTTTCTAGGCATTTCAAATGGA 58.990 36.000 12.14 0.00 29.10 3.41
1713 1769 6.071952 TGTCTTTCTAGGCATTTCAAATGGAC 60.072 38.462 12.14 8.23 29.10 4.02
1714 1770 6.151817 GTCTTTCTAGGCATTTCAAATGGACT 59.848 38.462 12.14 3.08 0.00 3.85
1715 1771 6.375455 TCTTTCTAGGCATTTCAAATGGACTC 59.625 38.462 12.14 0.00 0.00 3.36
1716 1772 5.178096 TCTAGGCATTTCAAATGGACTCA 57.822 39.130 12.14 0.00 0.00 3.41
1717 1773 5.569355 TCTAGGCATTTCAAATGGACTCAA 58.431 37.500 12.14 0.00 0.00 3.02
1718 1774 6.189859 TCTAGGCATTTCAAATGGACTCAAT 58.810 36.000 12.14 0.00 0.00 2.57
1719 1775 7.345691 TCTAGGCATTTCAAATGGACTCAATA 58.654 34.615 12.14 0.00 0.00 1.90
1720 1776 8.000709 TCTAGGCATTTCAAATGGACTCAATAT 58.999 33.333 12.14 0.00 0.00 1.28
1721 1777 9.288576 CTAGGCATTTCAAATGGACTCAATATA 57.711 33.333 12.14 0.00 0.00 0.86
1722 1778 8.716674 AGGCATTTCAAATGGACTCAATATAT 57.283 30.769 12.14 0.00 0.00 0.86
1723 1779 8.582437 AGGCATTTCAAATGGACTCAATATATG 58.418 33.333 12.14 0.00 0.00 1.78
1724 1780 7.816031 GGCATTTCAAATGGACTCAATATATGG 59.184 37.037 12.14 0.00 0.00 2.74
1725 1781 8.579006 GCATTTCAAATGGACTCAATATATGGA 58.421 33.333 12.14 0.00 0.00 3.41
1728 1784 9.645128 TTTCAAATGGACTCAATATATGGATGT 57.355 29.630 0.00 0.00 0.00 3.06
1735 1791 9.768215 TGGACTCAATATATGGATGTATGTAGA 57.232 33.333 0.00 0.00 0.00 2.59
1767 1823 9.677567 TTTAAAGTGTAGATTCACTCATTTTGC 57.322 29.630 0.00 0.00 46.25 3.68
1768 1824 5.536554 AGTGTAGATTCACTCATTTTGCG 57.463 39.130 0.00 0.00 44.07 4.85
1769 1825 4.091424 GTGTAGATTCACTCATTTTGCGC 58.909 43.478 0.00 0.00 35.68 6.09
1770 1826 2.927553 AGATTCACTCATTTTGCGCC 57.072 45.000 4.18 0.00 0.00 6.53
1771 1827 1.131126 AGATTCACTCATTTTGCGCCG 59.869 47.619 4.18 0.00 0.00 6.46
1772 1828 0.881118 ATTCACTCATTTTGCGCCGT 59.119 45.000 4.18 0.00 0.00 5.68
1773 1829 1.514003 TTCACTCATTTTGCGCCGTA 58.486 45.000 4.18 0.00 0.00 4.02
1774 1830 1.732941 TCACTCATTTTGCGCCGTAT 58.267 45.000 4.18 0.00 0.00 3.06
1775 1831 1.396648 TCACTCATTTTGCGCCGTATG 59.603 47.619 4.18 5.63 0.00 2.39
1776 1832 1.130373 CACTCATTTTGCGCCGTATGT 59.870 47.619 4.18 0.00 0.00 2.29
1777 1833 2.350192 CACTCATTTTGCGCCGTATGTA 59.650 45.455 4.18 0.00 0.00 2.29
1778 1834 2.607635 ACTCATTTTGCGCCGTATGTAG 59.392 45.455 4.18 7.56 0.00 2.74
1779 1835 2.607635 CTCATTTTGCGCCGTATGTAGT 59.392 45.455 4.18 0.00 0.00 2.73
1780 1836 2.605818 TCATTTTGCGCCGTATGTAGTC 59.394 45.455 4.18 0.00 0.00 2.59
1781 1837 2.081725 TTTTGCGCCGTATGTAGTCA 57.918 45.000 4.18 0.00 0.00 3.41
1782 1838 1.352114 TTTGCGCCGTATGTAGTCAC 58.648 50.000 4.18 0.00 0.00 3.67
1783 1839 0.528924 TTGCGCCGTATGTAGTCACT 59.471 50.000 4.18 0.00 0.00 3.41
1784 1840 0.528924 TGCGCCGTATGTAGTCACTT 59.471 50.000 4.18 0.00 0.00 3.16
1785 1841 0.921347 GCGCCGTATGTAGTCACTTG 59.079 55.000 0.00 0.00 0.00 3.16
1786 1842 1.734707 GCGCCGTATGTAGTCACTTGT 60.735 52.381 0.00 0.00 0.00 3.16
1787 1843 2.602878 CGCCGTATGTAGTCACTTGTT 58.397 47.619 0.00 0.00 0.00 2.83
1788 1844 2.344441 CGCCGTATGTAGTCACTTGTTG 59.656 50.000 0.00 0.00 0.00 3.33
1789 1845 3.581755 GCCGTATGTAGTCACTTGTTGA 58.418 45.455 0.00 0.00 0.00 3.18
1790 1846 3.991773 GCCGTATGTAGTCACTTGTTGAA 59.008 43.478 0.00 0.00 35.39 2.69
1791 1847 4.449743 GCCGTATGTAGTCACTTGTTGAAA 59.550 41.667 0.00 0.00 35.39 2.69
1792 1848 5.121768 GCCGTATGTAGTCACTTGTTGAAAT 59.878 40.000 0.00 0.00 35.39 2.17
1793 1849 6.672357 GCCGTATGTAGTCACTTGTTGAAATC 60.672 42.308 0.00 0.00 35.39 2.17
1794 1850 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
1795 1851 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
1796 1852 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
1797 1853 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
1798 1854 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
1799 1855 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
1800 1856 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
1801 1857 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
1802 1858 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
1803 1859 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
1804 1860 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
1805 1861 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
1806 1862 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
1807 1863 9.050601 ACTTGTTGAAATCTCTAGAAAGACAAG 57.949 33.333 17.75 17.75 33.18 3.16
1808 1864 8.964476 TTGTTGAAATCTCTAGAAAGACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
1819 1875 9.291664 CTCTAGAAAGACAAGTATTTAGGAACG 57.708 37.037 0.00 0.00 0.00 3.95
1820 1876 8.248945 TCTAGAAAGACAAGTATTTAGGAACGG 58.751 37.037 0.00 0.00 0.00 4.44
1821 1877 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
1822 1878 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
1823 1879 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
1824 1880 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
1825 1881 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
1826 1882 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
1827 1883 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
1828 1884 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
1909 1966 9.023962 TGTAGCTAAAATCTCAATGGACAATTT 57.976 29.630 0.00 0.00 0.00 1.82
1970 2027 7.713734 ATACTACTTACTTTAGTGGACAGCA 57.286 36.000 0.00 0.00 31.99 4.41
1984 2041 5.295292 AGTGGACAGCATGATAAGAAATTCG 59.705 40.000 0.00 0.00 39.69 3.34
2209 2281 3.253432 AGGCTGCAAGTTAAAACTGCTAC 59.747 43.478 0.50 8.73 39.66 3.58
2246 2318 4.676924 CAGCATTCTTTTCTTTTCCGACAC 59.323 41.667 0.00 0.00 0.00 3.67
2247 2319 4.338118 AGCATTCTTTTCTTTTCCGACACA 59.662 37.500 0.00 0.00 0.00 3.72
2431 2503 3.008375 TCTCACTTCTCATGGGTTCCTTG 59.992 47.826 0.00 0.00 0.00 3.61
2447 2519 5.648092 GGTTCCTTGTGATAGTAAATGCTGT 59.352 40.000 0.00 0.00 0.00 4.40
2459 2531 5.772521 AGTAAATGCTGTGGAAACATTGAC 58.227 37.500 0.00 0.00 46.14 3.18
2473 2545 6.603201 GGAAACATTGACTTTATGAGGGATCA 59.397 38.462 0.00 0.00 0.00 2.92
2578 2652 6.346096 TGTATATTGTTGTAGGTTGAGGCTC 58.654 40.000 7.79 7.79 0.00 4.70
2706 2784 1.301677 GCAGCAGTAGTTGGGTCAGC 61.302 60.000 0.00 0.00 0.00 4.26
2710 2788 1.002544 GCAGTAGTTGGGTCAGCTCTT 59.997 52.381 0.00 0.00 0.00 2.85
2715 2793 3.297134 AGTTGGGTCAGCTCTTTTGAA 57.703 42.857 0.00 0.00 0.00 2.69
2722 2800 6.009589 TGGGTCAGCTCTTTTGAATTATTCA 58.990 36.000 3.20 3.20 38.04 2.57
2740 2818 5.643339 ATTCAATCATTCGCGACTTACTC 57.357 39.130 9.15 0.00 0.00 2.59
2869 2972 7.716998 AGATAATTAGCCAGGTAATCAACAGTG 59.283 37.037 2.79 0.00 0.00 3.66
2895 3005 7.764901 GGTAATCTTTCTTTCGTGATCCTTAGT 59.235 37.037 0.00 0.00 0.00 2.24
2943 3053 8.520835 TCATCTTTCGTCTGATAAATAATCGG 57.479 34.615 0.00 0.00 41.70 4.18
3082 3192 8.988064 AGTAGTACAAATTAGTCACATGTGAG 57.012 34.615 28.54 16.82 40.75 3.51
3093 3203 0.037303 ACATGTGAGTGCTTCCCCAG 59.963 55.000 0.00 0.00 0.00 4.45
3187 3297 7.144722 TGACAAGGTGCTTATATTTGTCTTG 57.855 36.000 14.40 0.00 44.77 3.02
3206 3316 5.242393 GTCTTGCTCATGGGCATAACATATT 59.758 40.000 23.51 0.00 42.09 1.28
3237 3347 4.259356 GGCAGGGGTTGTACTTTACTAAG 58.741 47.826 0.00 0.00 37.40 2.18
3240 3350 4.019591 CAGGGGTTGTACTTTACTAAGGCT 60.020 45.833 0.00 0.00 35.61 4.58
3241 3351 4.019591 AGGGGTTGTACTTTACTAAGGCTG 60.020 45.833 0.00 0.00 35.61 4.85
3256 3366 5.648092 ACTAAGGCTGATTCTAACGCAATTT 59.352 36.000 0.00 0.00 0.00 1.82
3355 3465 3.316308 CCAAGGTTCAGAAGTCCAACAAG 59.684 47.826 0.00 0.00 0.00 3.16
3371 3481 4.037208 CCAACAAGGGTATGCAGATGATTC 59.963 45.833 0.00 0.00 0.00 2.52
3396 3506 3.502123 TCTTTACAGTTCCAAGTGGGG 57.498 47.619 0.00 0.00 37.22 4.96
3406 3516 0.467804 CCAAGTGGGGTTGGTTTTGG 59.532 55.000 0.00 0.00 41.96 3.28
3412 3522 0.179059 GGGGTTGGTTTTGGCACTTG 60.179 55.000 0.00 0.00 0.00 3.16
3415 3525 1.205893 GGTTGGTTTTGGCACTTGACA 59.794 47.619 0.00 0.00 0.00 3.58
3419 3529 2.499289 TGGTTTTGGCACTTGACAATGT 59.501 40.909 0.00 0.00 43.55 2.71
3522 3634 0.108138 GAACGGTGAGTAGCATGCCT 60.108 55.000 15.66 4.88 0.00 4.75
3564 3676 3.704231 ATGCATGTCCAGTCCCCGC 62.704 63.158 0.00 0.00 0.00 6.13
3590 3702 1.466950 ACGTATGCAACCAACATTCCG 59.533 47.619 0.00 0.00 0.00 4.30
3613 3725 4.148825 ACACCGCGATCTCTGCCC 62.149 66.667 8.23 0.00 0.00 5.36
3627 3739 3.958147 TCTCTGCCCGATAACAGTAATCA 59.042 43.478 0.00 0.00 35.37 2.57
3644 3756 6.842676 AGTAATCACTGAAACCCTCTCTTTT 58.157 36.000 0.00 0.00 32.25 2.27
3645 3757 6.712547 AGTAATCACTGAAACCCTCTCTTTTG 59.287 38.462 0.00 0.00 32.25 2.44
3713 3825 0.985490 AGAAGAGGAGATGGTGGCCC 60.985 60.000 0.00 0.00 0.00 5.80
3752 3864 0.399806 GATGAGGCTCTCTTCCCCCT 60.400 60.000 16.72 0.00 31.24 4.79
3927 4046 3.055094 AGGCGTTATGGTTGTCTGAGATT 60.055 43.478 0.00 0.00 0.00 2.40
3994 4113 5.397109 CCTGTCCCGTATATAGTTTTGGGTT 60.397 44.000 0.00 0.00 37.88 4.11
4180 4300 8.340618 TCTTTTTAGAATGGATCTGTTTGAGG 57.659 34.615 0.00 0.00 39.30 3.86
4260 4380 5.049680 GTGAGAAATGTTGCTCGGTTAGAAA 60.050 40.000 0.00 0.00 33.89 2.52
4265 4385 7.595130 AGAAATGTTGCTCGGTTAGAAATTTTC 59.405 33.333 0.66 0.66 32.71 2.29
4291 4411 1.940613 GAGGTTGTGAAGCGTCTGTTT 59.059 47.619 0.31 0.00 0.00 2.83
4293 4413 2.752903 AGGTTGTGAAGCGTCTGTTTTT 59.247 40.909 0.31 0.00 0.00 1.94
4325 4445 2.844122 AAAACAGACGCTTCACAACC 57.156 45.000 0.00 0.00 0.00 3.77
4327 4447 1.583054 AACAGACGCTTCACAACCTC 58.417 50.000 0.00 0.00 0.00 3.85
4328 4448 0.249911 ACAGACGCTTCACAACCTCC 60.250 55.000 0.00 0.00 0.00 4.30
4329 4449 0.249868 CAGACGCTTCACAACCTCCA 60.250 55.000 0.00 0.00 0.00 3.86
4330 4450 0.468226 AGACGCTTCACAACCTCCAA 59.532 50.000 0.00 0.00 0.00 3.53
4332 4452 1.673920 GACGCTTCACAACCTCCAAAA 59.326 47.619 0.00 0.00 0.00 2.44
4333 4453 2.096248 ACGCTTCACAACCTCCAAAAA 58.904 42.857 0.00 0.00 0.00 1.94
4441 4596 5.544948 TCAAGAGGTTAGGGCTAGTTAAACA 59.455 40.000 0.00 0.00 0.00 2.83
4484 4639 2.694628 GGCCATCCAAGCATGTCAATTA 59.305 45.455 0.00 0.00 0.00 1.40
4731 7282 9.959749 AAAACATCATAGTTTTGTGAAATACGT 57.040 25.926 4.23 0.00 46.63 3.57
4734 7285 9.210329 ACATCATAGTTTTGTGAAATACGTACA 57.790 29.630 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 65 0.248215 GAAAGGCGGCATCAACGATG 60.248 55.000 13.08 0.00 42.37 3.84
72 85 4.941309 AACGGGCGGTGTTGTCCC 62.941 66.667 0.00 0.00 36.68 4.46
106 119 1.151668 CAAGAAAGCCTCGTCCAGTG 58.848 55.000 0.00 0.00 0.00 3.66
113 126 5.567138 AATAATCCAACAAGAAAGCCTCG 57.433 39.130 0.00 0.00 0.00 4.63
114 127 7.631717 ACTAATAATCCAACAAGAAAGCCTC 57.368 36.000 0.00 0.00 0.00 4.70
115 128 9.700831 AATACTAATAATCCAACAAGAAAGCCT 57.299 29.630 0.00 0.00 0.00 4.58
143 156 9.090692 GGAAAAGTTGCACGACTATAATAGTAA 57.909 33.333 0.00 0.00 39.59 2.24
146 159 6.637365 CGGAAAAGTTGCACGACTATAATAG 58.363 40.000 0.00 0.00 0.00 1.73
157 170 1.864565 AAATGGCGGAAAAGTTGCAC 58.135 45.000 0.00 0.00 0.00 4.57
218 235 3.733443 ATGGTGGAAAAGTTGCAAGAC 57.267 42.857 0.00 0.00 30.97 3.01
240 257 1.160137 GCTGCGTCAACAGGAGAAAT 58.840 50.000 0.00 0.00 38.16 2.17
243 260 2.343758 GGCTGCGTCAACAGGAGA 59.656 61.111 0.00 0.00 38.16 3.71
261 279 2.489073 CCTGTTTTCCTGCAGGGTTAGT 60.489 50.000 32.23 0.00 46.27 2.24
285 303 5.155161 AGATATGGGTAACTGTATCTGGCA 58.845 41.667 5.15 0.00 39.80 4.92
300 318 7.878127 ACACGGATTATTAACAAGAGATATGGG 59.122 37.037 0.00 0.00 0.00 4.00
318 336 6.887626 ACTGGTAATAACAAAACACGGATT 57.112 33.333 0.00 0.00 0.00 3.01
319 337 6.887626 AACTGGTAATAACAAAACACGGAT 57.112 33.333 0.00 0.00 0.00 4.18
320 338 6.696441 AAACTGGTAATAACAAAACACGGA 57.304 33.333 0.00 0.00 0.00 4.69
321 339 7.863666 TCTAAACTGGTAATAACAAAACACGG 58.136 34.615 0.00 0.00 0.00 4.94
355 383 2.038033 ACCTACTGCTGTCCGCTAAAAA 59.962 45.455 0.00 0.00 40.11 1.94
390 419 2.741985 TGCTCGGTGTGGATTGCG 60.742 61.111 0.00 0.00 0.00 4.85
426 455 5.409826 CAGGCGATATCCACCTTAATTTCTC 59.590 44.000 8.86 0.00 0.00 2.87
500 530 4.335594 GCCTTAAAATAGTGGATTGCGTCT 59.664 41.667 0.00 0.00 0.00 4.18
502 532 4.096382 CAGCCTTAAAATAGTGGATTGCGT 59.904 41.667 0.00 0.00 0.00 5.24
539 569 4.823989 GGAACAGTCCCATAATCCAATCAG 59.176 45.833 0.00 0.00 38.08 2.90
570 600 5.049060 TCCCATCACACGTTATGAAAACAAG 60.049 40.000 3.49 0.00 0.00 3.16
572 602 4.390264 TCCCATCACACGTTATGAAAACA 58.610 39.130 3.49 0.00 0.00 2.83
573 603 4.454504 ACTCCCATCACACGTTATGAAAAC 59.545 41.667 3.49 0.00 0.00 2.43
577 607 5.128008 TGATTACTCCCATCACACGTTATGA 59.872 40.000 1.88 1.88 0.00 2.15
579 609 5.607939 TGATTACTCCCATCACACGTTAT 57.392 39.130 0.00 0.00 0.00 1.89
621 651 8.712285 AATAACATGCAAGATCAAATCAAAGG 57.288 30.769 0.00 0.00 0.00 3.11
624 654 8.970020 ACCTAATAACATGCAAGATCAAATCAA 58.030 29.630 0.00 0.00 0.00 2.57
625 655 8.523915 ACCTAATAACATGCAAGATCAAATCA 57.476 30.769 0.00 0.00 0.00 2.57
719 768 2.252012 TACGCAATCCTCCCCCTCCT 62.252 60.000 0.00 0.00 0.00 3.69
720 769 1.764854 TACGCAATCCTCCCCCTCC 60.765 63.158 0.00 0.00 0.00 4.30
721 770 1.049289 AGTACGCAATCCTCCCCCTC 61.049 60.000 0.00 0.00 0.00 4.30
722 771 0.263765 TAGTACGCAATCCTCCCCCT 59.736 55.000 0.00 0.00 0.00 4.79
725 774 3.069729 ACAGATTAGTACGCAATCCTCCC 59.930 47.826 15.51 0.00 33.67 4.30
787 836 3.412386 AGCACCCTCACTAAATGTGTTC 58.588 45.455 0.00 0.00 46.27 3.18
803 852 1.445582 CCGTCACGTTAGGAGCACC 60.446 63.158 0.00 0.00 0.00 5.01
819 868 3.748048 ACATAAATGAATGATCCGAGCCG 59.252 43.478 0.00 0.00 0.00 5.52
821 870 4.686091 TCGACATAAATGAATGATCCGAGC 59.314 41.667 0.00 0.00 0.00 5.03
825 874 7.151308 AGAGACTCGACATAAATGAATGATCC 58.849 38.462 0.00 0.00 0.00 3.36
843 892 2.230266 GTCAAGGACTGGTGAGAGACTC 59.770 54.545 0.00 0.00 0.00 3.36
849 898 3.199880 ACAAAGTCAAGGACTGGTGAG 57.800 47.619 13.96 1.72 42.59 3.51
893 942 1.933853 AGAACAGGAAATGCGCGATAC 59.066 47.619 12.10 0.00 0.00 2.24
898 947 2.997485 AAGAAGAACAGGAAATGCGC 57.003 45.000 0.00 0.00 0.00 6.09
906 955 3.287222 TGGACACCAAAAGAAGAACAGG 58.713 45.455 0.00 0.00 0.00 4.00
925 974 6.547141 TCAGTGATTTTAGCATAAGGGAATGG 59.453 38.462 0.00 0.00 0.00 3.16
995 1044 1.004595 CTCACACATGCTCATCCGTG 58.995 55.000 0.00 0.00 35.48 4.94
1004 1053 7.148689 GGAAATTTTGATCTTTCTCACACATGC 60.149 37.037 0.00 0.00 33.02 4.06
1083 1132 4.119862 CACTGTAACCATTAGGATGTCCG 58.880 47.826 0.00 0.00 42.08 4.79
1240 1294 3.120060 GCAAATATGTCTCATCGGGATGC 60.120 47.826 3.77 0.00 38.65 3.91
1351 1405 1.753956 CAAAACCGCGAAAGGTGAAG 58.246 50.000 8.23 0.00 45.21 3.02
1354 1408 0.589223 TAGCAAAACCGCGAAAGGTG 59.411 50.000 8.23 0.00 45.21 4.00
1364 1418 4.793201 ACATTAGGAGGGATAGCAAAACC 58.207 43.478 0.00 0.00 0.00 3.27
1365 1419 8.465273 AAATACATTAGGAGGGATAGCAAAAC 57.535 34.615 0.00 0.00 0.00 2.43
1387 1442 5.612725 ACATTTCCTGGAACACACAAAAT 57.387 34.783 9.04 0.00 0.00 1.82
1437 1493 3.731089 AGAGGAACTAGACGGATCTACG 58.269 50.000 0.00 0.00 41.55 3.51
1469 1525 5.530915 TCCATTTCAAAACAATCGTCACTCT 59.469 36.000 0.00 0.00 0.00 3.24
1470 1526 5.757886 TCCATTTCAAAACAATCGTCACTC 58.242 37.500 0.00 0.00 0.00 3.51
1558 1614 2.479837 TCTTAGCGGAACAACACTGTG 58.520 47.619 6.19 6.19 35.37 3.66
1657 1713 3.119209 GGAACGGAGGGAGTACTTTAGTG 60.119 52.174 0.00 0.00 0.00 2.74
1667 1723 1.838077 AGTATTTGGGAACGGAGGGAG 59.162 52.381 0.00 0.00 0.00 4.30
1668 1724 1.961133 AGTATTTGGGAACGGAGGGA 58.039 50.000 0.00 0.00 0.00 4.20
1669 1725 2.290705 ACAAGTATTTGGGAACGGAGGG 60.291 50.000 2.81 0.00 38.66 4.30
1670 1726 3.007635 GACAAGTATTTGGGAACGGAGG 58.992 50.000 2.81 0.00 38.66 4.30
1671 1727 3.939066 AGACAAGTATTTGGGAACGGAG 58.061 45.455 2.81 0.00 38.66 4.63
1672 1728 4.360951 AAGACAAGTATTTGGGAACGGA 57.639 40.909 2.81 0.00 38.66 4.69
1673 1729 4.760204 AGAAAGACAAGTATTTGGGAACGG 59.240 41.667 2.81 0.00 38.66 4.44
1674 1730 5.941948 AGAAAGACAAGTATTTGGGAACG 57.058 39.130 2.81 0.00 38.66 3.95
1675 1731 6.127980 GCCTAGAAAGACAAGTATTTGGGAAC 60.128 42.308 2.81 0.00 38.66 3.62
1676 1732 5.944007 GCCTAGAAAGACAAGTATTTGGGAA 59.056 40.000 2.81 0.00 38.66 3.97
1677 1733 5.013704 TGCCTAGAAAGACAAGTATTTGGGA 59.986 40.000 2.81 0.00 38.66 4.37
1678 1734 5.253330 TGCCTAGAAAGACAAGTATTTGGG 58.747 41.667 2.81 0.00 38.66 4.12
1679 1735 7.396540 AATGCCTAGAAAGACAAGTATTTGG 57.603 36.000 2.81 0.00 38.66 3.28
1680 1736 8.514594 TGAAATGCCTAGAAAGACAAGTATTTG 58.485 33.333 0.00 0.00 40.24 2.32
1681 1737 8.635765 TGAAATGCCTAGAAAGACAAGTATTT 57.364 30.769 0.00 0.00 0.00 1.40
1682 1738 8.635765 TTGAAATGCCTAGAAAGACAAGTATT 57.364 30.769 0.00 0.00 0.00 1.89
1683 1739 8.635765 TTTGAAATGCCTAGAAAGACAAGTAT 57.364 30.769 0.00 0.00 0.00 2.12
1684 1740 8.514594 CATTTGAAATGCCTAGAAAGACAAGTA 58.485 33.333 4.82 0.00 0.00 2.24
1685 1741 6.959639 TTTGAAATGCCTAGAAAGACAAGT 57.040 33.333 0.00 0.00 0.00 3.16
1686 1742 6.810182 CCATTTGAAATGCCTAGAAAGACAAG 59.190 38.462 12.26 0.00 0.00 3.16
1687 1743 6.493115 TCCATTTGAAATGCCTAGAAAGACAA 59.507 34.615 12.26 0.00 0.00 3.18
1688 1744 6.009589 TCCATTTGAAATGCCTAGAAAGACA 58.990 36.000 12.26 0.00 0.00 3.41
1689 1745 6.151817 AGTCCATTTGAAATGCCTAGAAAGAC 59.848 38.462 12.26 10.86 0.00 3.01
1690 1746 6.248433 AGTCCATTTGAAATGCCTAGAAAGA 58.752 36.000 12.26 0.00 0.00 2.52
1691 1747 6.151648 TGAGTCCATTTGAAATGCCTAGAAAG 59.848 38.462 12.26 0.00 0.00 2.62
1692 1748 6.009589 TGAGTCCATTTGAAATGCCTAGAAA 58.990 36.000 12.26 0.00 0.00 2.52
1693 1749 5.569355 TGAGTCCATTTGAAATGCCTAGAA 58.431 37.500 12.26 0.00 0.00 2.10
1694 1750 5.178096 TGAGTCCATTTGAAATGCCTAGA 57.822 39.130 12.26 1.83 0.00 2.43
1695 1751 5.902613 TTGAGTCCATTTGAAATGCCTAG 57.097 39.130 12.26 0.00 0.00 3.02
1696 1752 9.812347 ATATATTGAGTCCATTTGAAATGCCTA 57.188 29.630 12.26 0.00 0.00 3.93
1697 1753 8.582437 CATATATTGAGTCCATTTGAAATGCCT 58.418 33.333 12.26 9.70 0.00 4.75
1698 1754 7.816031 CCATATATTGAGTCCATTTGAAATGCC 59.184 37.037 12.26 5.23 0.00 4.40
1699 1755 8.579006 TCCATATATTGAGTCCATTTGAAATGC 58.421 33.333 12.26 0.23 0.00 3.56
1702 1758 9.645128 ACATCCATATATTGAGTCCATTTGAAA 57.355 29.630 0.00 0.00 0.00 2.69
1709 1765 9.768215 TCTACATACATCCATATATTGAGTCCA 57.232 33.333 0.00 0.00 0.00 4.02
1747 1803 4.091424 GCGCAAAATGAGTGAATCTACAC 58.909 43.478 0.30 0.00 40.60 2.90
1748 1804 3.126858 GGCGCAAAATGAGTGAATCTACA 59.873 43.478 10.83 0.00 0.00 2.74
1749 1805 3.685058 GGCGCAAAATGAGTGAATCTAC 58.315 45.455 10.83 0.00 0.00 2.59
1750 1806 2.351418 CGGCGCAAAATGAGTGAATCTA 59.649 45.455 10.83 0.00 0.00 1.98
1751 1807 1.131126 CGGCGCAAAATGAGTGAATCT 59.869 47.619 10.83 0.00 0.00 2.40
1752 1808 1.135689 ACGGCGCAAAATGAGTGAATC 60.136 47.619 10.83 0.00 0.00 2.52
1753 1809 0.881118 ACGGCGCAAAATGAGTGAAT 59.119 45.000 10.83 0.00 0.00 2.57
1754 1810 1.514003 TACGGCGCAAAATGAGTGAA 58.486 45.000 10.83 0.00 0.00 3.18
1755 1811 1.396648 CATACGGCGCAAAATGAGTGA 59.603 47.619 10.83 0.00 0.00 3.41
1756 1812 1.130373 ACATACGGCGCAAAATGAGTG 59.870 47.619 10.83 0.00 0.00 3.51
1757 1813 1.448985 ACATACGGCGCAAAATGAGT 58.551 45.000 10.83 0.00 0.00 3.41
1758 1814 2.607635 ACTACATACGGCGCAAAATGAG 59.392 45.455 10.83 10.39 0.00 2.90
1759 1815 2.605818 GACTACATACGGCGCAAAATGA 59.394 45.455 10.83 0.00 0.00 2.57
1760 1816 2.350192 TGACTACATACGGCGCAAAATG 59.650 45.455 10.83 11.57 0.00 2.32
1761 1817 2.350498 GTGACTACATACGGCGCAAAAT 59.650 45.455 10.83 0.00 0.00 1.82
1762 1818 1.727880 GTGACTACATACGGCGCAAAA 59.272 47.619 10.83 0.00 0.00 2.44
1763 1819 1.067425 AGTGACTACATACGGCGCAAA 60.067 47.619 10.83 0.00 0.00 3.68
1764 1820 0.528924 AGTGACTACATACGGCGCAA 59.471 50.000 10.83 0.00 0.00 4.85
1765 1821 0.528924 AAGTGACTACATACGGCGCA 59.471 50.000 10.83 0.00 0.00 6.09
1766 1822 0.921347 CAAGTGACTACATACGGCGC 59.079 55.000 6.90 0.00 0.00 6.53
1767 1823 2.273370 ACAAGTGACTACATACGGCG 57.727 50.000 4.80 4.80 0.00 6.46
1768 1824 3.581755 TCAACAAGTGACTACATACGGC 58.418 45.455 0.00 0.00 0.00 5.68
1769 1825 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
1770 1826 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
1771 1827 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
1773 1829 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
1774 1830 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
1775 1831 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
1776 1832 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
1777 1833 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
1778 1834 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
1779 1835 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
1780 1836 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
1781 1837 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
1782 1838 9.050601 ACTTGTCTTTCTAGAGATTTCAACAAG 57.949 33.333 18.42 18.42 32.73 3.16
1783 1839 8.964476 ACTTGTCTTTCTAGAGATTTCAACAA 57.036 30.769 0.00 0.00 0.00 2.83
1793 1849 9.291664 CGTTCCTAAATACTTGTCTTTCTAGAG 57.708 37.037 0.00 0.00 0.00 2.43
1794 1850 8.248945 CCGTTCCTAAATACTTGTCTTTCTAGA 58.751 37.037 0.00 0.00 0.00 2.43
1795 1851 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
1796 1852 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
1797 1853 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
1798 1854 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
1799 1855 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
1800 1856 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
1801 1857 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
1802 1858 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
1803 1859 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
1804 1860 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
1805 1861 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
1806 1862 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
1807 1863 4.261952 GCTACTCCCTCCGTTCCTAAATAC 60.262 50.000 0.00 0.00 0.00 1.89
1808 1864 3.893813 GCTACTCCCTCCGTTCCTAAATA 59.106 47.826 0.00 0.00 0.00 1.40
1809 1865 2.699321 GCTACTCCCTCCGTTCCTAAAT 59.301 50.000 0.00 0.00 0.00 1.40
1810 1866 2.105766 GCTACTCCCTCCGTTCCTAAA 58.894 52.381 0.00 0.00 0.00 1.85
1811 1867 1.287146 AGCTACTCCCTCCGTTCCTAA 59.713 52.381 0.00 0.00 0.00 2.69
1812 1868 0.924823 AGCTACTCCCTCCGTTCCTA 59.075 55.000 0.00 0.00 0.00 2.94
1813 1869 0.924823 TAGCTACTCCCTCCGTTCCT 59.075 55.000 0.00 0.00 0.00 3.36
1814 1870 1.031235 GTAGCTACTCCCTCCGTTCC 58.969 60.000 16.88 0.00 0.00 3.62
1815 1871 2.055684 AGTAGCTACTCCCTCCGTTC 57.944 55.000 20.95 0.00 0.00 3.95
1816 1872 3.553904 CTTAGTAGCTACTCCCTCCGTT 58.446 50.000 29.28 5.71 37.73 4.44
1817 1873 2.749132 GCTTAGTAGCTACTCCCTCCGT 60.749 54.545 29.28 6.46 44.27 4.69
1818 1874 1.881324 GCTTAGTAGCTACTCCCTCCG 59.119 57.143 29.28 13.09 44.27 4.63
1871 1927 2.385013 TAGCTACATGTGCACAGGTG 57.615 50.000 39.07 29.45 41.33 4.00
1909 1966 6.306643 TCCAACTGACATACATATTGGTGA 57.693 37.500 0.00 0.00 41.48 4.02
1961 2018 5.065218 ACGAATTTCTTATCATGCTGTCCAC 59.935 40.000 0.00 0.00 0.00 4.02
1970 2027 8.454106 CAGACTTTTGGACGAATTTCTTATCAT 58.546 33.333 0.00 0.00 0.00 2.45
2209 2281 7.591006 AAAGAATGCTGATTAATTGTGCAAG 57.409 32.000 12.57 0.00 37.20 4.01
2246 2318 9.188588 CCAAAGCTAATAACAGATGCATAAATG 57.811 33.333 0.00 1.46 0.00 2.32
2247 2319 8.917088 ACCAAAGCTAATAACAGATGCATAAAT 58.083 29.630 0.00 0.00 0.00 1.40
2431 2503 6.494893 TGTTTCCACAGCATTTACTATCAC 57.505 37.500 0.00 0.00 0.00 3.06
2447 2519 5.886609 TCCCTCATAAAGTCAATGTTTCCA 58.113 37.500 0.00 0.00 0.00 3.53
2459 2531 8.642935 TCTAGTACATCTGATCCCTCATAAAG 57.357 38.462 0.00 0.00 0.00 1.85
2520 2592 2.034179 TGAACTACACGTGGACACTCTG 59.966 50.000 21.57 0.00 0.00 3.35
2578 2652 7.378966 TCACCTTGTTCTCAGTTAGTTCATAG 58.621 38.462 0.00 0.00 0.00 2.23
2670 2748 6.115446 ACTGCTGCTACTATGCTTATTTCAA 58.885 36.000 0.00 0.00 0.00 2.69
2715 2793 7.653713 AGAGTAAGTCGCGAATGATTGAATAAT 59.346 33.333 12.06 0.00 0.00 1.28
2722 2800 5.972382 GTCTAAGAGTAAGTCGCGAATGATT 59.028 40.000 12.06 0.00 0.00 2.57
2730 2808 5.408356 TCAATTGGTCTAAGAGTAAGTCGC 58.592 41.667 5.42 0.00 0.00 5.19
2731 2809 6.019479 GCATCAATTGGTCTAAGAGTAAGTCG 60.019 42.308 5.42 0.00 0.00 4.18
2740 2818 8.778358 GGTTAGATTAGCATCAATTGGTCTAAG 58.222 37.037 5.42 0.00 37.26 2.18
2869 2972 6.986904 AAGGATCACGAAAGAAAGATTACC 57.013 37.500 0.00 0.00 0.00 2.85
2895 3005 8.824159 TGAAAGTGTGAAAACAAAGAATGAAA 57.176 26.923 0.00 0.00 0.00 2.69
2943 3053 3.189910 CCCGGTTACTTTTAAGCTGGAAC 59.810 47.826 0.00 0.00 40.64 3.62
3054 3164 8.808529 CACATGTGACTAATTTGTACTACTAGC 58.191 37.037 21.64 0.00 0.00 3.42
3093 3203 7.012327 TGTCAGTTTATGCACCAAGATATTAGC 59.988 37.037 0.00 0.00 0.00 3.09
3104 3214 4.218417 ACCATTTCTGTCAGTTTATGCACC 59.782 41.667 0.00 0.00 0.00 5.01
3187 3297 5.009911 TGTGAAATATGTTATGCCCATGAGC 59.990 40.000 0.00 0.00 0.00 4.26
3206 3316 2.766925 AACCCCTGCCAGCTGTGAA 61.767 57.895 13.81 0.00 0.00 3.18
3237 3347 4.098416 GTCAAATTGCGTTAGAATCAGCC 58.902 43.478 0.00 0.00 0.00 4.85
3240 3350 7.022979 CAGATTGTCAAATTGCGTTAGAATCA 58.977 34.615 0.00 0.00 0.00 2.57
3241 3351 7.023575 ACAGATTGTCAAATTGCGTTAGAATC 58.976 34.615 0.00 0.00 0.00 2.52
3256 3366 2.036604 TCCGTACTGCAACAGATTGTCA 59.963 45.455 0.78 0.00 38.17 3.58
3355 3465 6.645790 AGAAAATGAATCATCTGCATACCC 57.354 37.500 0.00 0.00 0.00 3.69
3371 3481 6.215845 CCCACTTGGAACTGTAAAGAAAATG 58.784 40.000 0.00 0.00 37.39 2.32
3396 3506 2.663826 TGTCAAGTGCCAAAACCAAC 57.336 45.000 0.00 0.00 0.00 3.77
3406 3516 3.070018 AGCAGAGTACATTGTCAAGTGC 58.930 45.455 0.00 0.00 0.00 4.40
3436 3546 1.876156 GCACCACTGAAACCAGAGAAG 59.124 52.381 0.00 0.00 35.67 2.85
3437 3547 1.490490 AGCACCACTGAAACCAGAGAA 59.510 47.619 0.00 0.00 35.67 2.87
3564 3676 0.039978 TTGGTTGCATACGTTTGCGG 60.040 50.000 22.96 0.00 45.77 5.69
3590 3702 4.796231 AGATCGCGGTGTCGGTGC 62.796 66.667 6.13 0.00 36.79 5.01
3627 3739 5.941788 ACATACAAAAGAGAGGGTTTCAGT 58.058 37.500 0.00 0.00 0.00 3.41
3713 3825 0.957395 AATGGTGGTGCTGCGAGAAG 60.957 55.000 0.00 0.00 0.00 2.85
3752 3864 3.807538 GAGTACACGCGCCGAGGA 61.808 66.667 5.73 0.00 0.00 3.71
3836 3948 3.775654 CCCAGGACGACCAGGAGC 61.776 72.222 16.61 0.00 44.34 4.70
3905 4024 1.899814 TCTCAGACAACCATAACGCCT 59.100 47.619 0.00 0.00 0.00 5.52
3994 4113 1.746787 CATAACAGAGCCTGCAATGCA 59.253 47.619 7.99 7.99 34.37 3.96
4100 4220 5.163195 ACTGCCTCCACCCAGTTATTATTAG 60.163 44.000 0.00 0.00 39.11 1.73
4180 4300 5.236478 TCTTCTCGAACCAAATCAAAGACAC 59.764 40.000 0.00 0.00 0.00 3.67
4229 4349 4.671377 GAGCAACATTTCTCACACACAAA 58.329 39.130 0.00 0.00 0.00 2.83
4230 4350 3.242706 CGAGCAACATTTCTCACACACAA 60.243 43.478 0.00 0.00 0.00 3.33
4231 4351 2.287644 CGAGCAACATTTCTCACACACA 59.712 45.455 0.00 0.00 0.00 3.72
4232 4352 2.349817 CCGAGCAACATTTCTCACACAC 60.350 50.000 0.00 0.00 0.00 3.82
4260 4380 5.359756 GCTTCACAACCTCCAAAAGAAAAT 58.640 37.500 0.00 0.00 0.00 1.82
4265 4385 1.676006 ACGCTTCACAACCTCCAAAAG 59.324 47.619 0.00 0.00 0.00 2.27
4306 4426 2.354821 GAGGTTGTGAAGCGTCTGTTTT 59.645 45.455 0.31 0.00 0.00 2.43
4307 4427 1.940613 GAGGTTGTGAAGCGTCTGTTT 59.059 47.619 0.31 0.00 0.00 2.83
4311 4431 0.468226 TTGGAGGTTGTGAAGCGTCT 59.532 50.000 0.31 0.00 0.00 4.18
4312 4432 1.305201 TTTGGAGGTTGTGAAGCGTC 58.695 50.000 0.00 0.00 0.00 5.19
4313 4433 1.757682 TTTTGGAGGTTGTGAAGCGT 58.242 45.000 0.00 0.00 0.00 5.07
4314 4434 2.861462 TTTTTGGAGGTTGTGAAGCG 57.139 45.000 0.00 0.00 0.00 4.68
4332 4452 3.181429 TGGTCAATGGGCTCTCTCTTTTT 60.181 43.478 0.00 0.00 0.00 1.94
4333 4453 2.376518 TGGTCAATGGGCTCTCTCTTTT 59.623 45.455 0.00 0.00 0.00 2.27
4334 4454 1.988107 TGGTCAATGGGCTCTCTCTTT 59.012 47.619 0.00 0.00 0.00 2.52
4652 7203 7.436376 CGTGATCAGAGACTATGCTTTATTGAA 59.564 37.037 0.00 0.00 0.00 2.69
4671 7222 4.470334 TCTGACATTGAATCCGTGATCA 57.530 40.909 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.