Multiple sequence alignment - TraesCS1D01G346800

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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 TraesCS1D01G346800 chr1D 100.000 2312 0 0 1 2312 434243849 434246160 0.000000e+00 4270.0
1 TraesCS1D01G346800 chr1D 85.586 111 10 5 1662 1769 333614186 333614293 6.750000e-21 111.0
2 TraesCS1D01G346800 chr1D 77.692 130 29 0 176 305 435158305 435158176 1.900000e-11 80.5
3 TraesCS1D01G346800 chr1A 86.630 1653 169 35 595 2240 532384199 532385806 0.000000e+00 1781.0
4 TraesCS1D01G346800 chr1A 83.805 1130 118 27 498 1622 532415287 532416356 0.000000e+00 1013.0
5 TraesCS1D01G346800 chr1A 84.524 672 82 14 1571 2240 532416341 532416992 0.000000e+00 645.0
6 TraesCS1D01G346800 chr1A 90.526 285 27 0 137 421 532383857 532384141 6.030000e-101 377.0
7 TraesCS1D01G346800 chr1A 93.578 109 7 0 1 109 532382503 532382611 1.840000e-36 163.0
8 TraesCS1D01G346800 chr1B 85.185 1296 146 34 497 1777 587812310 587813574 0.000000e+00 1288.0
9 TraesCS1D01G346800 chr1B 85.450 433 49 9 3 421 587811884 587812316 2.730000e-119 438.0
10 TraesCS1D01G346800 chr1B 81.364 440 70 7 1 433 622935111 622934677 4.730000e-92 348.0
11 TraesCS1D01G346800 chr1B 79.843 382 72 5 2 379 587984928 587985308 8.140000e-70 274.0
12 TraesCS1D01G346800 chr1B 77.709 323 72 0 845 1167 622879904 622879582 5.040000e-47 198.0
13 TraesCS1D01G346800 chr1B 78.626 131 28 0 175 305 588492280 588492150 1.140000e-13 87.9
14 TraesCS1D01G346800 chr6A 89.125 377 40 1 1860 2236 83360848 83361223 3.480000e-128 468.0
15 TraesCS1D01G346800 chr5A 89.125 377 40 1 1860 2236 547533797 547534172 3.480000e-128 468.0
16 TraesCS1D01G346800 chr5A 89.674 368 37 1 1869 2236 671875061 671874695 3.480000e-128 468.0
17 TraesCS1D01G346800 chr5A 88.859 368 40 1 1869 2236 596088406 596088040 3.500000e-123 451.0
18 TraesCS1D01G346800 chr5A 93.023 43 1 2 2246 2288 228125693 228125733 6.900000e-06 62.1
19 TraesCS1D01G346800 chr5A 90.909 44 3 1 2246 2288 322581431 322581388 8.920000e-05 58.4
20 TraesCS1D01G346800 chr4A 88.329 377 43 1 1860 2236 91226656 91226281 3.500000e-123 451.0
21 TraesCS1D01G346800 chr3D 88.859 368 40 1 1869 2236 537327302 537326936 3.500000e-123 451.0
22 TraesCS1D01G346800 chr2D 88.828 367 40 1 1869 2235 36409838 36409473 1.260000e-122 449.0
23 TraesCS1D01G346800 chr2D 97.222 36 1 0 2253 2288 520616766 520616801 6.900000e-06 62.1
24 TraesCS1D01G346800 chr2B 100.000 34 0 0 2255 2288 344916419 344916452 1.920000e-06 63.9
25 TraesCS1D01G346800 chr7B 94.872 39 1 1 2250 2288 290728346 290728309 2.480000e-05 60.2
26 TraesCS1D01G346800 chr3B 89.796 49 1 3 2241 2288 207608922 207608877 2.480000e-05 60.2
27 TraesCS1D01G346800 chr3A 92.857 42 1 2 2249 2288 429943259 429943300 2.480000e-05 60.2
28 TraesCS1D01G346800 chr3A 88.889 45 5 0 447 491 646498448 646498492 3.210000e-04 56.5
29 TraesCS1D01G346800 chr3A 88.636 44 5 0 448 491 646554178 646554221 1.000000e-03 54.7
30 TraesCS1D01G346800 chr6D 89.362 47 3 2 2243 2288 119657532 119657487 8.920000e-05 58.4
31 TraesCS1D01G346800 chr6B 90.909 44 2 2 2245 2288 361699530 361699571 8.920000e-05 58.4


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 TraesCS1D01G346800 chr1D 434243849 434246160 2311 False 4270.000000 4270 100.000000 1 2312 1 chr1D.!!$F2 2311
1 TraesCS1D01G346800 chr1A 532415287 532416992 1705 False 829.000000 1013 84.164500 498 2240 2 chr1A.!!$F2 1742
2 TraesCS1D01G346800 chr1A 532382503 532385806 3303 False 773.666667 1781 90.244667 1 2240 3 chr1A.!!$F1 2239
3 TraesCS1D01G346800 chr1B 587811884 587813574 1690 False 863.000000 1288 85.317500 3 1777 2 chr1B.!!$F2 1774

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
174 1399 0.035317 AGCGTGTGATGTGGATGTGT 59.965 50.0 0.0 0.0 0.00 3.72 F
352 1577 0.178964 CCAGGTTGGTTGGGACACAT 60.179 55.0 0.0 0.0 39.29 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1179 2416 0.036388 AGCCATCCACGTTACCACTG 60.036 55.0 0.00 0.0 0.0 3.66 R
2268 3553 0.038744 AATCACCCAGGGAGCACTTG 59.961 55.0 14.54 0.0 0.0 3.16 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
77 78 0.605319 TTATCGCCATGGAATCCGCC 60.605 55.000 18.40 0.00 0.00 6.13
87 88 0.255033 GGAATCCGCCCAAGGTAAGT 59.745 55.000 0.00 0.00 0.00 2.24
102 103 9.256477 CCCAAGGTAAGTTTTAAATCAAGTTTC 57.744 33.333 0.00 0.00 0.00 2.78
117 132 8.779354 AATCAAGTTTCTCTACACATCCTTAC 57.221 34.615 0.00 0.00 0.00 2.34
118 133 7.297936 TCAAGTTTCTCTACACATCCTTACA 57.702 36.000 0.00 0.00 0.00 2.41
119 134 7.732025 TCAAGTTTCTCTACACATCCTTACAA 58.268 34.615 0.00 0.00 0.00 2.41
129 144 8.318412 TCTACACATCCTTACAAATAGAAGCAA 58.682 33.333 0.00 0.00 0.00 3.91
130 145 7.944729 ACACATCCTTACAAATAGAAGCAAT 57.055 32.000 0.00 0.00 0.00 3.56
131 146 8.353423 ACACATCCTTACAAATAGAAGCAATT 57.647 30.769 0.00 0.00 0.00 2.32
148 1373 3.622612 GCAATTATTCCAAATGTGGTGGC 59.377 43.478 0.65 0.00 46.11 5.01
158 1383 3.414700 GTGGTGGCGTTGAGAGCG 61.415 66.667 0.00 0.00 35.00 5.03
159 1384 3.923864 TGGTGGCGTTGAGAGCGT 61.924 61.111 0.00 0.00 35.00 5.07
174 1399 0.035317 AGCGTGTGATGTGGATGTGT 59.965 50.000 0.00 0.00 0.00 3.72
254 1479 3.932710 GACGTCCAACATTCTGCTGAATA 59.067 43.478 17.29 0.55 40.61 1.75
258 1483 5.634896 GTCCAACATTCTGCTGAATACAAG 58.365 41.667 17.29 8.73 40.61 3.16
271 1496 2.514458 ATACAAGGTTGGAGGCCAAG 57.486 50.000 5.01 0.00 44.82 3.61
310 1535 6.509418 TTGCTTAAGGCTTTCAATAACGAT 57.491 33.333 4.45 0.00 42.39 3.73
311 1536 5.879237 TGCTTAAGGCTTTCAATAACGATG 58.121 37.500 4.45 0.00 42.39 3.84
319 1544 5.295787 GGCTTTCAATAACGATGGTGATACA 59.704 40.000 0.00 0.00 0.00 2.29
322 1547 7.467267 GCTTTCAATAACGATGGTGATACACAT 60.467 37.037 0.00 0.00 35.86 3.21
338 1563 1.073722 CATGTGTCCACAGCCAGGT 59.926 57.895 6.27 0.00 45.48 4.00
341 1566 1.898574 GTGTCCACAGCCAGGTTGG 60.899 63.158 8.37 3.00 41.55 3.77
351 1576 1.228793 CCAGGTTGGTTGGGACACA 59.771 57.895 0.00 0.00 39.29 3.72
352 1577 0.178964 CCAGGTTGGTTGGGACACAT 60.179 55.000 0.00 0.00 39.29 3.21
364 1589 2.039746 TGGGACACATGGTTACCTTGAG 59.960 50.000 21.72 16.58 33.58 3.02
380 1605 3.341823 CTTGAGCCTGAGTAAGTGCATT 58.658 45.455 0.00 0.00 0.00 3.56
414 1639 7.945033 TCTTGTTGATTATGCTTTGAAAACC 57.055 32.000 0.00 0.00 0.00 3.27
415 1640 7.495901 TCTTGTTGATTATGCTTTGAAAACCA 58.504 30.769 0.00 0.00 0.00 3.67
416 1641 8.149647 TCTTGTTGATTATGCTTTGAAAACCAT 58.850 29.630 0.00 0.00 0.00 3.55
417 1642 7.887996 TGTTGATTATGCTTTGAAAACCATC 57.112 32.000 0.00 0.00 0.00 3.51
418 1643 7.669427 TGTTGATTATGCTTTGAAAACCATCT 58.331 30.769 0.00 0.00 0.00 2.90
419 1644 8.149647 TGTTGATTATGCTTTGAAAACCATCTT 58.850 29.630 0.00 0.00 0.00 2.40
420 1645 8.437742 GTTGATTATGCTTTGAAAACCATCTTG 58.562 33.333 0.00 0.00 0.00 3.02
421 1646 7.669427 TGATTATGCTTTGAAAACCATCTTGT 58.331 30.769 0.00 0.00 0.00 3.16
422 1647 7.814107 TGATTATGCTTTGAAAACCATCTTGTC 59.186 33.333 0.00 0.00 0.00 3.18
423 1648 3.963665 TGCTTTGAAAACCATCTTGTCG 58.036 40.909 0.00 0.00 0.00 4.35
424 1649 3.629855 TGCTTTGAAAACCATCTTGTCGA 59.370 39.130 0.00 0.00 0.00 4.20
425 1650 4.278170 TGCTTTGAAAACCATCTTGTCGAT 59.722 37.500 0.00 0.00 0.00 3.59
426 1651 5.221224 TGCTTTGAAAACCATCTTGTCGATT 60.221 36.000 0.00 0.00 0.00 3.34
427 1652 6.016693 TGCTTTGAAAACCATCTTGTCGATTA 60.017 34.615 0.00 0.00 0.00 1.75
428 1653 7.029563 GCTTTGAAAACCATCTTGTCGATTAT 58.970 34.615 0.00 0.00 0.00 1.28
429 1654 7.542130 GCTTTGAAAACCATCTTGTCGATTATT 59.458 33.333 0.00 0.00 0.00 1.40
457 1682 9.888878 ATTTTTCTTTTTAGTAAAGCGGACTAC 57.111 29.630 0.00 0.00 0.00 2.73
458 1683 7.425577 TTTCTTTTTAGTAAAGCGGACTACC 57.574 36.000 0.00 0.00 0.00 3.18
459 1684 6.350629 TCTTTTTAGTAAAGCGGACTACCT 57.649 37.500 0.00 0.00 0.00 3.08
460 1685 7.466746 TCTTTTTAGTAAAGCGGACTACCTA 57.533 36.000 0.00 0.00 0.00 3.08
461 1686 7.542025 TCTTTTTAGTAAAGCGGACTACCTAG 58.458 38.462 0.00 0.00 0.00 3.02
462 1687 5.841957 TTTAGTAAAGCGGACTACCTAGG 57.158 43.478 7.41 7.41 0.00 3.02
463 1688 2.030371 AGTAAAGCGGACTACCTAGGC 58.970 52.381 9.30 0.00 0.00 3.93
468 1693 3.828946 AAGCGGACTACCTAGGCCTCTA 61.829 54.545 9.68 0.00 45.57 2.43
469 1694 5.891980 AAGCGGACTACCTAGGCCTCTAC 62.892 56.522 9.68 0.00 45.57 2.59
473 1698 4.101645 GACTACCTAGGCCTCTACATCA 57.898 50.000 9.68 0.00 0.00 3.07
474 1699 3.822167 GACTACCTAGGCCTCTACATCAC 59.178 52.174 9.68 0.00 0.00 3.06
475 1700 2.848678 ACCTAGGCCTCTACATCACA 57.151 50.000 9.68 0.00 0.00 3.58
476 1701 3.336509 ACCTAGGCCTCTACATCACAT 57.663 47.619 9.68 0.00 0.00 3.21
477 1702 2.968574 ACCTAGGCCTCTACATCACATG 59.031 50.000 9.68 0.00 0.00 3.21
478 1703 3.234353 CCTAGGCCTCTACATCACATGA 58.766 50.000 9.68 0.00 0.00 3.07
479 1704 3.837146 CCTAGGCCTCTACATCACATGAT 59.163 47.826 9.68 0.00 34.56 2.45
504 1729 1.479323 ACATGCACATCCAATCTTGCC 59.521 47.619 0.00 0.00 33.86 4.52
506 1731 0.322366 TGCACATCCAATCTTGCCGA 60.322 50.000 0.00 0.00 33.86 5.54
516 1741 9.295825 ACATCCAATCTTGCCGATTATTAATAA 57.704 29.630 10.27 10.27 40.33 1.40
572 1801 9.815306 AGTAGTATGACTCACCTATATGTTCAT 57.185 33.333 0.00 0.00 32.09 2.57
584 1813 9.881649 CACCTATATGTTCATAATGTATGCTCT 57.118 33.333 0.00 0.00 36.14 4.09
637 1866 4.074970 ACATGCTCCCTTAAGTTTGACAG 58.925 43.478 0.97 0.00 0.00 3.51
649 1878 7.254795 CCTTAAGTTTGACAGTTGACCTACAAG 60.255 40.741 0.97 0.00 39.30 3.16
656 1885 3.753294 AGTTGACCTACAAGTGAGTGG 57.247 47.619 0.00 0.00 40.21 4.00
659 1888 3.746045 TGACCTACAAGTGAGTGGTTC 57.254 47.619 0.00 0.00 0.00 3.62
698 1928 8.776376 AAAACCTTTGATTTATGCGAAATCAT 57.224 26.923 20.91 8.76 43.62 2.45
703 1933 9.681692 CCTTTGATTTATGCGAAATCATATTGA 57.318 29.630 20.91 8.48 43.62 2.57
731 1963 9.598517 TTTTGTCAATTTTCTGCTAATTCTTGT 57.401 25.926 0.00 0.00 0.00 3.16
734 1966 9.897744 TGTCAATTTTCTGCTAATTCTTGTAAG 57.102 29.630 0.00 0.00 0.00 2.34
740 1972 8.970691 TTTCTGCTAATTCTTGTAAGATTTGC 57.029 30.769 10.44 11.23 34.49 3.68
773 2009 6.498538 AGATATCCCAAACAAACCCATGTTA 58.501 36.000 0.00 0.00 42.49 2.41
779 2015 4.987912 CCAAACAAACCCATGTTACATGAC 59.012 41.667 25.02 0.00 42.49 3.06
789 2025 5.122869 CCCATGTTACATGACTGTTCTTGAG 59.877 44.000 25.02 5.10 36.79 3.02
797 2033 3.300388 TGACTGTTCTTGAGACTGGACT 58.700 45.455 0.00 0.00 0.00 3.85
802 2038 0.884514 TCTTGAGACTGGACTCGCTG 59.115 55.000 0.00 0.00 39.49 5.18
817 2053 3.806521 ACTCGCTGATGCATTTCATACTC 59.193 43.478 0.00 0.00 39.64 2.59
826 2063 4.513442 TGCATTTCATACTCACAGGTACC 58.487 43.478 2.73 2.73 0.00 3.34
873 2110 1.954146 TGACGTGTTCAGCTTCGGC 60.954 57.895 0.00 0.00 42.17 5.54
920 2157 2.301346 GCAACCACCTATCCTGAATGG 58.699 52.381 0.00 0.00 36.46 3.16
955 2192 0.740868 CATCATCCAGTGGACGCGTT 60.741 55.000 15.86 0.00 32.98 4.84
1020 2257 1.520564 GCACGGCGACCATGATGTA 60.521 57.895 16.62 0.00 0.00 2.29
1158 2395 1.135803 GCGCGTAACCACATGAATGTT 60.136 47.619 8.43 2.08 39.39 2.71
1161 2398 2.486203 GCGTAACCACATGAATGTTGGA 59.514 45.455 0.00 0.00 39.39 3.53
1179 2416 0.530870 GATTCTACACGGCTGGGAGC 60.531 60.000 0.00 0.00 41.46 4.70
1180 2417 1.264749 ATTCTACACGGCTGGGAGCA 61.265 55.000 0.00 0.00 44.75 4.26
1217 2454 2.216046 CTACGATAGGTACGCCACTGA 58.784 52.381 0.00 0.00 43.77 3.41
1226 2463 2.479730 GGTACGCCACTGACATGTCTAG 60.480 54.545 25.55 21.27 34.09 2.43
1322 2560 2.890311 CTGTGAGGTGAGAAGAGACTGT 59.110 50.000 0.00 0.00 0.00 3.55
1328 2566 4.020543 AGGTGAGAAGAGACTGTGATACC 58.979 47.826 0.00 0.00 0.00 2.73
1355 2595 0.401738 CGCCACCTCCCATCCATAAT 59.598 55.000 0.00 0.00 0.00 1.28
1358 2598 3.497763 CGCCACCTCCCATCCATAATTTA 60.498 47.826 0.00 0.00 0.00 1.40
1367 2609 9.933723 CCTCCCATCCATAATTTATTTTCATTC 57.066 33.333 0.00 0.00 0.00 2.67
1429 2675 9.325198 TGTTATTATAGATGCAACGTCTGAAAT 57.675 29.630 0.00 0.00 0.00 2.17
1445 2691 6.356977 CGTCTGAAATTGTTCACACATGTAAC 59.643 38.462 0.00 0.00 38.88 2.50
1466 2712 5.257082 ACGTGTTTTGTTGGCTTTTCTAT 57.743 34.783 0.00 0.00 0.00 1.98
1500 2746 7.700322 TGAGAACGAGATAATGCTTGATAAC 57.300 36.000 0.00 0.00 0.00 1.89
1510 2756 9.836864 AGATAATGCTTGATAACAGTGTGATAA 57.163 29.630 0.00 0.00 0.00 1.75
1591 2838 7.864108 AACGATGATGGTGATTCTCAATTTA 57.136 32.000 0.00 0.00 0.00 1.40
1616 2897 7.397892 TTTCTCTATGAGACGAAGATGAAGT 57.602 36.000 0.00 0.00 38.51 3.01
1627 2908 6.431543 AGACGAAGATGAAGTTTCTCTACTCA 59.568 38.462 0.00 0.00 0.00 3.41
1635 2916 9.386010 GATGAAGTTTCTCTACTCACTAGTCTA 57.614 37.037 0.00 0.00 37.15 2.59
1675 2956 7.694784 ACAACTATACGTGACAACTTTGTTTTG 59.305 33.333 0.00 0.00 42.43 2.44
1676 2957 7.311364 ACTATACGTGACAACTTTGTTTTGT 57.689 32.000 0.00 0.00 42.43 2.83
1683 2964 5.151632 GACAACTTTGTTTTGTCGCTCTA 57.848 39.130 0.00 0.00 42.48 2.43
1684 2965 5.156804 ACAACTTTGTTTTGTCGCTCTAG 57.843 39.130 0.00 0.00 38.47 2.43
1685 2966 4.634443 ACAACTTTGTTTTGTCGCTCTAGT 59.366 37.500 0.00 0.00 38.47 2.57
1686 2967 4.795970 ACTTTGTTTTGTCGCTCTAGTG 57.204 40.909 0.00 0.00 0.00 2.74
1716 2997 4.107622 CACTTTGCTTATGCCATTGTAGC 58.892 43.478 0.00 0.00 38.71 3.58
1742 3023 3.569701 TGACATTTCACTTTTGCCTCTCC 59.430 43.478 0.00 0.00 0.00 3.71
1779 3060 5.698741 ATATCACAAATGTCAGTCCCTGA 57.301 39.130 0.00 0.00 38.25 3.86
1780 3061 3.855255 TCACAAATGTCAGTCCCTGAA 57.145 42.857 0.00 0.00 42.46 3.02
1815 3096 4.751767 TTTCATTTCACCTTTGCCACTT 57.248 36.364 0.00 0.00 0.00 3.16
1820 3101 5.362430 TCATTTCACCTTTGCCACTTTTAGT 59.638 36.000 0.00 0.00 0.00 2.24
1849 3130 5.610398 ACAATGTATCACAACTGTCACTCA 58.390 37.500 0.00 0.00 0.00 3.41
1864 3145 6.135290 TGTCACTCAGGAAAATTTGACTTG 57.865 37.500 0.00 0.00 35.45 3.16
1912 3194 5.535406 TCCTATAGAGAAGTTCAACCGGATC 59.465 44.000 9.46 0.00 0.00 3.36
1913 3195 4.674281 ATAGAGAAGTTCAACCGGATCC 57.326 45.455 9.46 0.00 0.00 3.36
1914 3196 1.204941 AGAGAAGTTCAACCGGATCCG 59.795 52.381 27.65 27.65 39.44 4.18
1917 3199 0.391263 AAGTTCAACCGGATCCGCTC 60.391 55.000 29.12 13.25 38.24 5.03
1920 3202 2.202932 CAACCGGATCCGCTCCTG 60.203 66.667 29.12 16.76 42.47 3.86
1948 3233 5.983720 GCGCAATACCATAGAGAGAACTTTA 59.016 40.000 0.30 0.00 0.00 1.85
2002 3287 5.592054 CTCAAGATGCCAAACTACTCGATA 58.408 41.667 0.00 0.00 0.00 2.92
2005 3290 7.047891 TCAAGATGCCAAACTACTCGATAAAT 58.952 34.615 0.00 0.00 0.00 1.40
2008 3293 9.561069 AAGATGCCAAACTACTCGATAAATAAT 57.439 29.630 0.00 0.00 0.00 1.28
2091 3376 1.208293 AGGATCTCCACTTTCTTCGGC 59.792 52.381 0.00 0.00 38.89 5.54
2100 3385 0.038159 CTTTCTTCGGCGTGAGAGGT 60.038 55.000 6.85 0.00 0.00 3.85
2106 3391 2.184830 CGGCGTGAGAGGTATCCGA 61.185 63.158 0.00 0.00 39.23 4.55
2163 3448 2.038659 ACATTATTCCCCCAAATGCGG 58.961 47.619 0.00 0.00 34.63 5.69
2164 3449 2.038659 CATTATTCCCCCAAATGCGGT 58.961 47.619 0.00 0.00 0.00 5.68
2175 3460 1.067706 CAAATGCGGTGGATGCTTCAA 60.068 47.619 1.64 0.00 0.00 2.69
2176 3461 0.527565 AATGCGGTGGATGCTTCAAC 59.472 50.000 1.64 0.00 0.00 3.18
2179 3464 1.514678 GCGGTGGATGCTTCAACACA 61.515 55.000 9.20 0.00 35.62 3.72
2184 3469 1.154150 GATGCTTCAACACAGGCGC 60.154 57.895 0.00 0.00 0.00 6.53
2236 3521 1.134521 TGAACTAGCTACCGCCATTGG 60.135 52.381 0.00 0.00 36.60 3.16
2246 3531 4.521292 GCCATTGGCCCCGATCCA 62.521 66.667 17.28 0.00 44.06 3.41
2247 3532 2.519302 CCATTGGCCCCGATCCAC 60.519 66.667 0.00 0.00 32.45 4.02
2248 3533 2.597340 CATTGGCCCCGATCCACT 59.403 61.111 0.00 0.00 32.45 4.00
2249 3534 1.705002 CCATTGGCCCCGATCCACTA 61.705 60.000 0.00 0.00 32.45 2.74
2250 3535 0.401738 CATTGGCCCCGATCCACTAT 59.598 55.000 0.00 0.00 32.45 2.12
2251 3536 0.693049 ATTGGCCCCGATCCACTATC 59.307 55.000 0.00 0.00 32.45 2.08
2259 3544 3.777016 GATCCACTATCGGCGTCTC 57.223 57.895 6.85 0.00 0.00 3.36
2260 3545 1.240256 GATCCACTATCGGCGTCTCT 58.760 55.000 6.85 0.00 0.00 3.10
2261 3546 0.955178 ATCCACTATCGGCGTCTCTG 59.045 55.000 6.85 0.00 0.00 3.35
2262 3547 0.107361 TCCACTATCGGCGTCTCTGA 60.107 55.000 6.85 0.00 33.95 3.27
2263 3548 0.738975 CCACTATCGGCGTCTCTGAA 59.261 55.000 6.85 0.00 32.98 3.02
2264 3549 1.134367 CCACTATCGGCGTCTCTGAAA 59.866 52.381 6.85 0.00 32.98 2.69
2265 3550 2.455032 CACTATCGGCGTCTCTGAAAG 58.545 52.381 6.85 0.00 32.98 2.62
2266 3551 1.202313 ACTATCGGCGTCTCTGAAAGC 60.202 52.381 6.85 0.00 32.98 3.51
2267 3552 0.815095 TATCGGCGTCTCTGAAAGCA 59.185 50.000 6.85 0.00 32.98 3.91
2268 3553 0.737715 ATCGGCGTCTCTGAAAGCAC 60.738 55.000 6.85 0.00 32.98 4.40
2269 3554 1.664649 CGGCGTCTCTGAAAGCACA 60.665 57.895 0.00 0.00 0.00 4.57
2270 3555 1.221466 CGGCGTCTCTGAAAGCACAA 61.221 55.000 0.00 0.00 0.00 3.33
2271 3556 0.514691 GGCGTCTCTGAAAGCACAAG 59.485 55.000 0.00 0.00 0.00 3.16
2272 3557 1.221414 GCGTCTCTGAAAGCACAAGT 58.779 50.000 0.00 0.00 0.00 3.16
2273 3558 1.070309 GCGTCTCTGAAAGCACAAGTG 60.070 52.381 0.00 0.00 0.00 3.16
2283 3568 2.839098 CACAAGTGCTCCCTGGGT 59.161 61.111 13.56 0.00 0.00 4.51
2284 3569 1.601759 CACAAGTGCTCCCTGGGTG 60.602 63.158 13.56 11.90 0.00 4.61
2285 3570 1.770110 ACAAGTGCTCCCTGGGTGA 60.770 57.895 18.68 0.00 0.00 4.02
2286 3571 1.136329 ACAAGTGCTCCCTGGGTGAT 61.136 55.000 18.68 0.69 0.00 3.06
2287 3572 0.038744 CAAGTGCTCCCTGGGTGATT 59.961 55.000 18.68 6.73 0.00 2.57
2288 3573 0.329596 AAGTGCTCCCTGGGTGATTC 59.670 55.000 18.68 7.43 0.00 2.52
2289 3574 0.842030 AGTGCTCCCTGGGTGATTCA 60.842 55.000 18.68 4.38 0.00 2.57
2290 3575 0.678048 GTGCTCCCTGGGTGATTCAC 60.678 60.000 18.68 12.50 0.00 3.18
2291 3576 0.842030 TGCTCCCTGGGTGATTCACT 60.842 55.000 18.68 0.00 34.40 3.41
2292 3577 1.204146 GCTCCCTGGGTGATTCACTA 58.796 55.000 18.68 5.61 34.40 2.74
2293 3578 1.134371 GCTCCCTGGGTGATTCACTAC 60.134 57.143 18.68 10.19 34.40 2.73
2294 3579 2.187958 CTCCCTGGGTGATTCACTACA 58.812 52.381 13.56 13.73 34.40 2.74
2295 3580 2.571653 CTCCCTGGGTGATTCACTACAA 59.428 50.000 13.56 1.95 34.40 2.41
2296 3581 2.304761 TCCCTGGGTGATTCACTACAAC 59.695 50.000 13.56 0.00 34.40 3.32
2297 3582 2.039746 CCCTGGGTGATTCACTACAACA 59.960 50.000 16.02 7.40 34.40 3.33
2298 3583 3.497763 CCCTGGGTGATTCACTACAACAA 60.498 47.826 16.02 0.00 34.40 2.83
2299 3584 4.141287 CCTGGGTGATTCACTACAACAAA 58.859 43.478 16.02 0.00 34.40 2.83
2300 3585 4.582656 CCTGGGTGATTCACTACAACAAAA 59.417 41.667 16.02 0.00 34.40 2.44
2301 3586 5.068460 CCTGGGTGATTCACTACAACAAAAA 59.932 40.000 16.02 0.00 34.40 1.94
2302 3587 5.897050 TGGGTGATTCACTACAACAAAAAC 58.103 37.500 16.02 0.00 34.40 2.43
2303 3588 5.419155 TGGGTGATTCACTACAACAAAAACA 59.581 36.000 16.02 0.00 34.40 2.83
2304 3589 5.746721 GGGTGATTCACTACAACAAAAACAC 59.253 40.000 16.02 0.00 34.40 3.32
2305 3590 5.746721 GGTGATTCACTACAACAAAAACACC 59.253 40.000 16.02 0.00 36.61 4.16
2306 3591 6.326375 GTGATTCACTACAACAAAAACACCA 58.674 36.000 9.59 0.00 0.00 4.17
2307 3592 6.978080 GTGATTCACTACAACAAAAACACCAT 59.022 34.615 9.59 0.00 0.00 3.55
2308 3593 6.977502 TGATTCACTACAACAAAAACACCATG 59.022 34.615 0.00 0.00 0.00 3.66
2309 3594 5.906113 TCACTACAACAAAAACACCATGT 57.094 34.783 0.00 0.00 0.00 3.21
2310 3595 7.392494 TTCACTACAACAAAAACACCATGTA 57.608 32.000 0.00 0.00 0.00 2.29
2311 3596 7.575414 TCACTACAACAAAAACACCATGTAT 57.425 32.000 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 3.735237 TCCATGGCGATAAGAAGTCTC 57.265 47.619 6.96 0.00 0.00 3.36
102 103 7.981789 TGCTTCTATTTGTAAGGATGTGTAGAG 59.018 37.037 0.00 0.00 0.00 2.43
148 1373 0.436150 CACATCACACGCTCTCAACG 59.564 55.000 0.00 0.00 0.00 4.10
158 1383 2.632377 CCCTACACATCCACATCACAC 58.368 52.381 0.00 0.00 0.00 3.82
159 1384 1.065491 GCCCTACACATCCACATCACA 60.065 52.381 0.00 0.00 0.00 3.58
174 1399 3.712016 TGTGCAAATACTCAAGCCCTA 57.288 42.857 0.00 0.00 0.00 3.53
254 1479 0.779997 ATCTTGGCCTCCAACCTTGT 59.220 50.000 3.32 0.00 38.75 3.16
258 1483 2.115291 GCGATCTTGGCCTCCAACC 61.115 63.158 3.32 0.00 38.75 3.77
292 1517 5.492895 TCACCATCGTTATTGAAAGCCTTA 58.507 37.500 0.00 0.00 0.00 2.69
310 1535 2.370189 TGTGGACACATGTGTATCACCA 59.630 45.455 35.98 31.52 45.05 4.17
311 1536 3.002791 CTGTGGACACATGTGTATCACC 58.997 50.000 35.98 30.00 45.05 4.02
319 1544 1.073722 CCTGGCTGTGGACACATGT 59.926 57.895 5.50 0.00 41.01 3.21
322 1547 1.152984 CAACCTGGCTGTGGACACA 60.153 57.895 4.92 4.92 39.32 3.72
338 1563 2.588620 GTAACCATGTGTCCCAACCAA 58.411 47.619 0.00 0.00 0.00 3.67
341 1566 2.556622 CAAGGTAACCATGTGTCCCAAC 59.443 50.000 0.00 0.00 37.17 3.77
351 1576 2.269940 ACTCAGGCTCAAGGTAACCAT 58.730 47.619 0.00 0.00 37.17 3.55
352 1577 1.729586 ACTCAGGCTCAAGGTAACCA 58.270 50.000 0.00 0.00 37.17 3.67
364 1589 3.077359 AGAACAATGCACTTACTCAGGC 58.923 45.455 0.00 0.00 0.00 4.85
431 1656 9.888878 GTAGTCCGCTTTACTAAAAAGAAAAAT 57.111 29.630 1.78 0.00 31.48 1.82
432 1657 8.344831 GGTAGTCCGCTTTACTAAAAAGAAAAA 58.655 33.333 1.78 0.00 31.48 1.94
433 1658 7.716560 AGGTAGTCCGCTTTACTAAAAAGAAAA 59.283 33.333 1.78 0.00 39.05 2.29
434 1659 7.219322 AGGTAGTCCGCTTTACTAAAAAGAAA 58.781 34.615 1.78 0.00 39.05 2.52
435 1660 6.762333 AGGTAGTCCGCTTTACTAAAAAGAA 58.238 36.000 1.78 0.00 39.05 2.52
436 1661 6.350629 AGGTAGTCCGCTTTACTAAAAAGA 57.649 37.500 1.78 0.00 39.05 2.52
437 1662 6.755607 CCTAGGTAGTCCGCTTTACTAAAAAG 59.244 42.308 0.00 0.00 39.05 2.27
438 1663 6.633856 CCTAGGTAGTCCGCTTTACTAAAAA 58.366 40.000 0.00 0.00 39.05 1.94
439 1664 5.394553 GCCTAGGTAGTCCGCTTTACTAAAA 60.395 44.000 11.31 0.00 39.05 1.52
440 1665 4.098501 GCCTAGGTAGTCCGCTTTACTAAA 59.901 45.833 11.31 0.00 39.05 1.85
441 1666 3.633986 GCCTAGGTAGTCCGCTTTACTAA 59.366 47.826 11.31 0.00 39.05 2.24
442 1667 3.217626 GCCTAGGTAGTCCGCTTTACTA 58.782 50.000 11.31 0.00 39.05 1.82
443 1668 2.030371 GCCTAGGTAGTCCGCTTTACT 58.970 52.381 11.31 0.00 39.05 2.24
444 1669 1.068281 GGCCTAGGTAGTCCGCTTTAC 59.932 57.143 11.31 0.00 39.05 2.01
445 1670 1.063417 AGGCCTAGGTAGTCCGCTTTA 60.063 52.381 1.29 0.00 39.05 1.85
446 1671 0.325390 AGGCCTAGGTAGTCCGCTTT 60.325 55.000 1.29 0.00 39.05 3.51
447 1672 0.756070 GAGGCCTAGGTAGTCCGCTT 60.756 60.000 4.42 0.00 39.05 4.68
448 1673 1.152715 GAGGCCTAGGTAGTCCGCT 60.153 63.158 4.42 0.00 39.05 5.52
449 1674 0.110104 TAGAGGCCTAGGTAGTCCGC 59.890 60.000 4.42 4.68 39.05 5.54
450 1675 1.142465 TGTAGAGGCCTAGGTAGTCCG 59.858 57.143 4.42 0.00 39.05 4.79
451 1676 3.181431 TGATGTAGAGGCCTAGGTAGTCC 60.181 52.174 4.42 2.51 0.00 3.85
452 1677 3.822167 GTGATGTAGAGGCCTAGGTAGTC 59.178 52.174 4.42 4.88 0.00 2.59
453 1678 3.204606 TGTGATGTAGAGGCCTAGGTAGT 59.795 47.826 4.42 0.00 0.00 2.73
454 1679 3.833732 TGTGATGTAGAGGCCTAGGTAG 58.166 50.000 4.42 0.00 0.00 3.18
455 1680 3.965470 TGTGATGTAGAGGCCTAGGTA 57.035 47.619 4.42 0.00 0.00 3.08
456 1681 2.848678 TGTGATGTAGAGGCCTAGGT 57.151 50.000 4.42 0.00 0.00 3.08
457 1682 3.234353 TCATGTGATGTAGAGGCCTAGG 58.766 50.000 4.42 3.67 0.00 3.02
458 1683 4.818642 CATCATGTGATGTAGAGGCCTAG 58.181 47.826 4.42 0.00 45.10 3.02
459 1684 4.879197 CATCATGTGATGTAGAGGCCTA 57.121 45.455 4.42 0.00 45.10 3.93
460 1685 3.766068 CATCATGTGATGTAGAGGCCT 57.234 47.619 3.86 3.86 45.10 5.19
481 1706 3.507786 CAAGATTGGATGTGCATGTGTG 58.492 45.455 0.00 0.00 0.00 3.82
482 1707 2.094390 GCAAGATTGGATGTGCATGTGT 60.094 45.455 0.00 0.00 36.97 3.72
483 1708 2.536365 GCAAGATTGGATGTGCATGTG 58.464 47.619 0.00 0.00 36.97 3.21
484 1709 1.479323 GGCAAGATTGGATGTGCATGT 59.521 47.619 0.00 0.00 38.78 3.21
485 1710 1.535226 CGGCAAGATTGGATGTGCATG 60.535 52.381 0.00 0.00 38.78 4.06
486 1711 0.742505 CGGCAAGATTGGATGTGCAT 59.257 50.000 0.00 0.00 38.78 3.96
487 1712 0.322366 TCGGCAAGATTGGATGTGCA 60.322 50.000 0.00 0.00 38.78 4.57
488 1713 1.027357 ATCGGCAAGATTGGATGTGC 58.973 50.000 0.00 0.00 35.73 4.57
535 1764 7.819900 GGTGAGTCATACTACTTTTGAGACAAT 59.180 37.037 0.00 0.00 0.00 2.71
568 1797 8.034313 AGGAAAGGTAGAGCATACATTATGAA 57.966 34.615 0.00 0.00 38.45 2.57
572 1801 6.143915 AGGAGGAAAGGTAGAGCATACATTA 58.856 40.000 0.31 0.00 0.00 1.90
576 1805 4.525100 CCTAGGAGGAAAGGTAGAGCATAC 59.475 50.000 1.05 0.00 37.67 2.39
584 1813 3.273886 TGATCACCCTAGGAGGAAAGGTA 59.726 47.826 11.48 0.00 37.67 3.08
637 1866 3.470645 ACCACTCACTTGTAGGTCAAC 57.529 47.619 0.00 0.00 32.18 3.18
656 1885 9.256477 CAAAGGTTTTTATCCTTAGGTTTGAAC 57.744 33.333 0.00 0.00 43.50 3.18
659 1888 9.996554 AATCAAAGGTTTTTATCCTTAGGTTTG 57.003 29.630 0.00 0.00 43.50 2.93
671 1900 9.698309 TGATTTCGCATAAATCAAAGGTTTTTA 57.302 25.926 17.44 0.00 41.92 1.52
716 1948 8.239314 CAGCAAATCTTACAAGAATTAGCAGAA 58.761 33.333 12.48 0.00 38.77 3.02
717 1949 7.607607 TCAGCAAATCTTACAAGAATTAGCAGA 59.392 33.333 12.48 9.15 38.77 4.26
736 1968 9.639563 TGTTTGGGATATCTTATATTCAGCAAA 57.360 29.630 2.05 0.00 0.00 3.68
737 1969 9.639563 TTGTTTGGGATATCTTATATTCAGCAA 57.360 29.630 2.05 0.00 0.00 3.91
738 1970 9.639563 TTTGTTTGGGATATCTTATATTCAGCA 57.360 29.630 2.05 0.00 0.00 4.41
739 1971 9.899226 GTTTGTTTGGGATATCTTATATTCAGC 57.101 33.333 2.05 0.00 0.00 4.26
746 1978 7.132128 ACATGGGTTTGTTTGGGATATCTTAT 58.868 34.615 2.05 0.00 0.00 1.73
753 1989 4.227197 TGTAACATGGGTTTGTTTGGGAT 58.773 39.130 0.00 0.00 40.25 3.85
756 1992 4.987912 GTCATGTAACATGGGTTTGTTTGG 59.012 41.667 0.00 0.00 40.25 3.28
760 1996 4.469657 ACAGTCATGTAACATGGGTTTGT 58.530 39.130 0.00 0.00 38.09 2.83
773 2009 3.643320 TCCAGTCTCAAGAACAGTCATGT 59.357 43.478 0.00 0.00 43.15 3.21
779 2015 2.924454 GCGAGTCCAGTCTCAAGAACAG 60.924 54.545 0.00 0.00 34.46 3.16
789 2025 0.179089 ATGCATCAGCGAGTCCAGTC 60.179 55.000 0.00 0.00 46.23 3.51
797 2033 3.557185 GTGAGTATGAAATGCATCAGCGA 59.443 43.478 0.00 0.00 46.23 4.93
802 2038 5.237344 GGTACCTGTGAGTATGAAATGCATC 59.763 44.000 4.06 0.00 38.44 3.91
817 2053 4.470876 CGTAGCGTGGTACCTGTG 57.529 61.111 14.36 3.83 0.00 3.66
873 2110 5.064834 TGTGACTATCTCAAGTAGCACTACG 59.935 44.000 2.29 0.00 40.80 3.51
909 2146 2.050144 GGCTCTGGACCATTCAGGATA 58.950 52.381 0.00 0.00 41.22 2.59
920 2157 2.945398 GATGCTCGTCGGCTCTGGAC 62.945 65.000 7.14 0.00 0.00 4.02
1020 2257 1.073177 CGACTTTCCATACGCCGTTT 58.927 50.000 0.00 0.00 0.00 3.60
1089 2326 1.448540 CGCCACCACCTCAGTCATC 60.449 63.158 0.00 0.00 0.00 2.92
1095 2332 1.821759 CAACAACGCCACCACCTCA 60.822 57.895 0.00 0.00 0.00 3.86
1158 2395 0.616395 TCCCAGCCGTGTAGAATCCA 60.616 55.000 0.00 0.00 0.00 3.41
1161 2398 1.264749 TGCTCCCAGCCGTGTAGAAT 61.265 55.000 0.00 0.00 41.51 2.40
1179 2416 0.036388 AGCCATCCACGTTACCACTG 60.036 55.000 0.00 0.00 0.00 3.66
1180 2417 1.206371 GTAGCCATCCACGTTACCACT 59.794 52.381 0.00 0.00 0.00 4.00
1202 2439 2.100916 GACATGTCAGTGGCGTACCTAT 59.899 50.000 21.07 0.00 36.63 2.57
1217 2454 2.833943 TGGCTCACATCACTAGACATGT 59.166 45.455 0.00 0.00 33.29 3.21
1226 2463 0.109412 GCTGCTTTGGCTCACATCAC 60.109 55.000 0.00 0.00 39.59 3.06
1322 2560 2.110213 GGCGGCCATTCGGTATCA 59.890 61.111 15.62 0.00 33.28 2.15
1355 2595 7.698912 TCCCCTTGAGAGAGAATGAAAATAAA 58.301 34.615 0.00 0.00 0.00 1.40
1358 2598 5.786121 TCCCCTTGAGAGAGAATGAAAAT 57.214 39.130 0.00 0.00 0.00 1.82
1367 2609 3.774216 AGACTTGAATCCCCTTGAGAGAG 59.226 47.826 0.00 0.00 0.00 3.20
1423 2669 6.140580 CACGTTACATGTGTGAACAATTTCAG 59.859 38.462 9.11 0.00 42.60 3.02
1425 2671 5.968848 ACACGTTACATGTGTGAACAATTTC 59.031 36.000 18.64 0.00 45.78 2.17
1429 2675 4.948608 AACACGTTACATGTGTGAACAA 57.051 36.364 18.64 0.00 46.74 2.83
1431 2677 5.090083 ACAAAACACGTTACATGTGTGAAC 58.910 37.500 18.64 10.17 46.74 3.18
1445 2691 6.202937 TGTATAGAAAAGCCAACAAAACACG 58.797 36.000 0.00 0.00 0.00 4.49
1466 2712 7.596621 GCATTATCTCGTTCTCATTCAGATGTA 59.403 37.037 0.00 0.00 34.77 2.29
1591 2838 8.006298 ACTTCATCTTCGTCTCATAGAGAAAT 57.994 34.615 0.00 0.00 40.59 2.17
1600 2881 5.713792 AGAGAAACTTCATCTTCGTCTCA 57.286 39.130 0.00 0.00 33.93 3.27
1605 2886 6.616947 AGTGAGTAGAGAAACTTCATCTTCG 58.383 40.000 0.00 0.00 0.00 3.79
1644 2925 8.705134 CAAAGTTGTCACGTATAGTTGTGAATA 58.295 33.333 4.46 0.00 45.84 1.75
1663 2944 4.963953 CACTAGAGCGACAAAACAAAGTTG 59.036 41.667 0.00 0.00 0.00 3.16
1675 2956 0.796927 GGGCAAAACACTAGAGCGAC 59.203 55.000 0.00 0.00 0.00 5.19
1676 2957 0.394938 TGGGCAAAACACTAGAGCGA 59.605 50.000 0.00 0.00 0.00 4.93
1684 2965 2.022764 AAGCAAAGTGGGCAAAACAC 57.977 45.000 0.00 0.00 39.10 3.32
1685 2966 3.726607 CATAAGCAAAGTGGGCAAAACA 58.273 40.909 0.00 0.00 0.00 2.83
1686 2967 2.480037 GCATAAGCAAAGTGGGCAAAAC 59.520 45.455 0.00 0.00 41.58 2.43
1716 2997 5.987347 AGAGGCAAAAGTGAAATGTCAAATG 59.013 36.000 0.00 0.00 34.87 2.32
1805 3086 6.959671 TGTCAAAAACTAAAAGTGGCAAAG 57.040 33.333 0.00 0.00 0.00 2.77
1820 3101 7.700234 GTGACAGTTGTGATACATTGTCAAAAA 59.300 33.333 21.04 6.28 45.68 1.94
1840 3121 6.183360 ACAAGTCAAATTTTCCTGAGTGACAG 60.183 38.462 4.60 0.00 45.36 3.51
1849 3130 7.684428 GCACCTCTTTACAAGTCAAATTTTCCT 60.684 37.037 0.00 0.00 0.00 3.36
1864 3145 2.437895 GGGGGCGCACCTCTTTAC 60.438 66.667 31.11 6.63 36.49 2.01
1877 3158 4.743705 TCTCTATAGGAGTAGTTGGGGG 57.256 50.000 0.00 0.00 42.40 5.40
1920 3202 2.478134 CTCTCTATGGTATTGCGCTTGC 59.522 50.000 9.73 0.00 39.78 4.01
1948 3233 4.263905 TGCCATTTTATCTTCCAGACACCT 60.264 41.667 0.00 0.00 0.00 4.00
2091 3376 5.122512 ACATAATTCGGATACCTCTCACG 57.877 43.478 0.00 0.00 0.00 4.35
2100 3385 8.433599 TGGAATAGTTGGAACATAATTCGGATA 58.566 33.333 0.00 0.00 39.30 2.59
2163 3448 0.242017 GCCTGTGTTGAAGCATCCAC 59.758 55.000 0.00 0.00 0.00 4.02
2164 3449 1.236616 CGCCTGTGTTGAAGCATCCA 61.237 55.000 0.00 0.00 0.00 3.41
2175 3460 3.595758 GGCACTTTGCGCCTGTGT 61.596 61.111 20.11 6.52 46.21 3.72
2184 3469 2.214376 TCCATGTTAGGGGCACTTTG 57.786 50.000 0.00 0.00 0.00 2.77
2241 3526 1.068885 CAGAGACGCCGATAGTGGATC 60.069 57.143 0.00 0.00 0.00 3.36
2242 3527 0.955178 CAGAGACGCCGATAGTGGAT 59.045 55.000 0.00 0.00 0.00 3.41
2243 3528 0.107361 TCAGAGACGCCGATAGTGGA 60.107 55.000 0.00 0.00 0.00 4.02
2244 3529 0.738975 TTCAGAGACGCCGATAGTGG 59.261 55.000 0.00 0.00 0.00 4.00
2245 3530 2.455032 CTTTCAGAGACGCCGATAGTG 58.545 52.381 0.00 0.00 0.00 2.74
2246 3531 1.202313 GCTTTCAGAGACGCCGATAGT 60.202 52.381 0.00 0.00 0.00 2.12
2247 3532 1.202302 TGCTTTCAGAGACGCCGATAG 60.202 52.381 0.00 0.00 0.00 2.08
2248 3533 0.815095 TGCTTTCAGAGACGCCGATA 59.185 50.000 0.00 0.00 0.00 2.92
2249 3534 0.737715 GTGCTTTCAGAGACGCCGAT 60.738 55.000 0.00 0.00 0.00 4.18
2250 3535 1.372997 GTGCTTTCAGAGACGCCGA 60.373 57.895 0.00 0.00 0.00 5.54
2251 3536 1.221466 TTGTGCTTTCAGAGACGCCG 61.221 55.000 0.00 0.00 0.00 6.46
2252 3537 0.514691 CTTGTGCTTTCAGAGACGCC 59.485 55.000 0.00 0.00 0.00 5.68
2253 3538 1.070309 CACTTGTGCTTTCAGAGACGC 60.070 52.381 0.00 0.00 0.00 5.19
2254 3539 1.070309 GCACTTGTGCTTTCAGAGACG 60.070 52.381 17.36 0.00 0.00 4.18
2255 3540 2.216898 AGCACTTGTGCTTTCAGAGAC 58.783 47.619 20.95 0.00 43.52 3.36
2256 3541 2.487934 GAGCACTTGTGCTTTCAGAGA 58.512 47.619 26.08 0.00 46.36 3.10
2257 3542 1.534595 GGAGCACTTGTGCTTTCAGAG 59.465 52.381 26.08 0.00 46.36 3.35
2258 3543 1.597742 GGAGCACTTGTGCTTTCAGA 58.402 50.000 26.08 0.00 46.36 3.27
2259 3544 0.595095 GGGAGCACTTGTGCTTTCAG 59.405 55.000 26.08 0.00 46.36 3.02
2260 3545 0.183492 AGGGAGCACTTGTGCTTTCA 59.817 50.000 26.08 0.00 46.36 2.69
2261 3546 0.595095 CAGGGAGCACTTGTGCTTTC 59.405 55.000 26.08 20.38 46.36 2.62
2262 3547 0.825010 CCAGGGAGCACTTGTGCTTT 60.825 55.000 26.08 14.02 46.36 3.51
2263 3548 1.228367 CCAGGGAGCACTTGTGCTT 60.228 57.895 26.08 10.63 46.36 3.91
2265 3550 2.674380 CCCAGGGAGCACTTGTGC 60.674 66.667 16.98 16.98 0.00 4.57
2266 3551 1.601759 CACCCAGGGAGCACTTGTG 60.602 63.158 14.54 0.00 0.00 3.33
2267 3552 1.136329 ATCACCCAGGGAGCACTTGT 61.136 55.000 14.54 0.00 0.00 3.16
2268 3553 0.038744 AATCACCCAGGGAGCACTTG 59.961 55.000 14.54 0.00 0.00 3.16
2269 3554 0.329596 GAATCACCCAGGGAGCACTT 59.670 55.000 14.54 0.00 0.00 3.16
2270 3555 0.842030 TGAATCACCCAGGGAGCACT 60.842 55.000 14.54 0.00 0.00 4.40
2271 3556 0.678048 GTGAATCACCCAGGGAGCAC 60.678 60.000 14.54 8.70 0.00 4.40
2272 3557 0.842030 AGTGAATCACCCAGGGAGCA 60.842 55.000 14.54 0.00 34.49 4.26
2273 3558 1.134371 GTAGTGAATCACCCAGGGAGC 60.134 57.143 14.54 0.00 34.49 4.70
2274 3559 2.187958 TGTAGTGAATCACCCAGGGAG 58.812 52.381 14.54 3.89 34.49 4.30
2275 3560 2.304761 GTTGTAGTGAATCACCCAGGGA 59.695 50.000 14.54 0.00 34.49 4.20
2276 3561 2.039746 TGTTGTAGTGAATCACCCAGGG 59.960 50.000 10.12 2.85 34.49 4.45
2277 3562 3.417069 TGTTGTAGTGAATCACCCAGG 57.583 47.619 10.12 0.00 34.49 4.45
2278 3563 5.766150 TTTTGTTGTAGTGAATCACCCAG 57.234 39.130 10.12 0.00 34.49 4.45
2279 3564 5.419155 TGTTTTTGTTGTAGTGAATCACCCA 59.581 36.000 10.12 4.52 34.49 4.51
2280 3565 5.746721 GTGTTTTTGTTGTAGTGAATCACCC 59.253 40.000 10.12 1.71 34.49 4.61
2281 3566 5.746721 GGTGTTTTTGTTGTAGTGAATCACC 59.253 40.000 10.12 0.00 34.49 4.02
2282 3567 6.326375 TGGTGTTTTTGTTGTAGTGAATCAC 58.674 36.000 5.02 5.02 34.10 3.06
2283 3568 6.516739 TGGTGTTTTTGTTGTAGTGAATCA 57.483 33.333 0.00 0.00 0.00 2.57
2284 3569 6.978080 ACATGGTGTTTTTGTTGTAGTGAATC 59.022 34.615 0.00 0.00 0.00 2.52
2285 3570 6.872920 ACATGGTGTTTTTGTTGTAGTGAAT 58.127 32.000 0.00 0.00 0.00 2.57
2286 3571 6.274157 ACATGGTGTTTTTGTTGTAGTGAA 57.726 33.333 0.00 0.00 0.00 3.18
2287 3572 5.906113 ACATGGTGTTTTTGTTGTAGTGA 57.094 34.783 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.