Multiple sequence alignment - TraesCS1A01G384000

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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 TraesCS1A01G384000 chr1A 100.000 5312 0 0 986 6297 554203927 554209238 0.000000e+00 9810.0
1 TraesCS1A01G384000 chr1A 100.000 702 0 0 1 702 554202942 554203643 0.000000e+00 1297.0
2 TraesCS1A01G384000 chr1D 96.953 3741 88 14 2096 5830 462382918 462386638 0.000000e+00 6253.0
3 TraesCS1A01G384000 chr1D 91.489 1081 45 10 986 2055 462381683 462382727 0.000000e+00 1443.0
4 TraesCS1A01G384000 chr1D 88.178 719 55 18 2 702 462380901 462381607 0.000000e+00 830.0
5 TraesCS1A01G384000 chr1D 95.833 48 0 1 2053 2098 462382856 462382903 6.770000e-10 76.8
6 TraesCS1A01G384000 chr1B 88.477 2430 198 45 3352 5762 637497529 637499895 0.000000e+00 2861.0
7 TraesCS1A01G384000 chr1B 82.870 1366 120 58 986 2298 637495198 637496502 0.000000e+00 1122.0
8 TraesCS1A01G384000 chr1B 80.221 723 59 31 17 702 637494447 637495122 3.440000e-127 466.0
9 TraesCS1A01G384000 chr1B 88.503 374 40 2 2543 2914 637496612 637496984 3.460000e-122 449.0
10 TraesCS1A01G384000 chr1B 92.432 185 7 1 5865 6049 637500357 637500534 2.250000e-64 257.0
11 TraesCS1A01G384000 chr1B 82.209 163 21 6 2310 2469 637496426 637496583 3.960000e-27 134.0
12 TraesCS1A01G384000 chr1B 94.545 55 2 1 6048 6101 637500560 637500614 4.050000e-12 84.2
13 TraesCS1A01G384000 chr1B 97.059 34 1 0 5818 5851 637500052 637500085 2.450000e-04 58.4
14 TraesCS1A01G384000 chrUn 87.466 367 39 5 2 366 307102195 307101834 3.510000e-112 416.0
15 TraesCS1A01G384000 chrUn 80.732 410 50 16 1295 1694 34454524 34454914 6.170000e-75 292.0
16 TraesCS1A01G384000 chr4B 78.169 284 36 18 1296 1574 20334671 20334409 2.350000e-34 158.0
17 TraesCS1A01G384000 chr4A 78.169 284 36 18 1296 1574 591526408 591526146 2.350000e-34 158.0
18 TraesCS1A01G384000 chr4A 78.169 284 36 18 1296 1574 592517893 592518155 2.350000e-34 158.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G384000 chr1A 554202942 554209238 6296 False 5553.50 9810 100.00000 1 6297 2 chr1A.!!$F1 6296
1 TraesCS1A01G384000 chr1D 462380901 462386638 5737 False 2150.70 6253 93.11325 2 5830 4 chr1D.!!$F1 5828
2 TraesCS1A01G384000 chr1B 637494447 637500614 6167 False 678.95 2861 88.28950 17 6101 8 chr1B.!!$F1 6084

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
556 588 1.000145 CCACGGCCCCCAATTACTT 60.000 57.895 0.00 0.0 0.0 2.24 F
1572 1657 0.175073 CCCGGACAGCAGGTAGTAAC 59.825 60.000 0.73 0.0 0.0 2.50 F
1986 2079 1.699083 TCTGCACCTCCAAGATTGTGA 59.301 47.619 0.00 0.0 0.0 3.58 F
1989 2082 2.158623 TGCACCTCCAAGATTGTGAAGT 60.159 45.455 0.00 0.0 0.0 3.01 F
1994 2087 3.318839 CCTCCAAGATTGTGAAGTTTGCA 59.681 43.478 0.00 0.0 0.0 4.08 F
3741 4129 4.381411 GTTCTGCACTTCCTCTAAACAGT 58.619 43.478 0.00 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1694 1786 1.000618 TGCTCACTGCTCACTGAGAAG 59.999 52.381 12.10 12.10 40.99 2.85 R
2629 2877 1.687123 GGCAGTACGATGGATACCTGT 59.313 52.381 0.00 0.00 0.00 4.00 R
3960 4356 4.151335 CAGATAAGATGCGCATTACCAGTC 59.849 45.833 26.12 16.84 0.00 3.51 R
4761 5159 6.568462 CGATCAAATGGAAGCAAAACTACACT 60.568 38.462 0.00 0.00 0.00 3.55 R
4893 5291 4.395625 GGTTTAGCTTAACTGGTCCAACT 58.604 43.478 14.69 0.00 0.00 3.16 R
6201 7004 0.034337 ATTGTTCTACGGTGTGCGGT 59.966 50.000 0.00 0.00 0.00 5.68 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
54 56 2.341846 AAGCCAACTTTCGAGTGGAA 57.658 45.000 9.85 0.00 29.41 3.53
103 105 1.587043 TTCTCTCACCCGCGACTCAG 61.587 60.000 8.23 0.00 0.00 3.35
104 106 3.057547 CTCTCACCCGCGACTCAGG 62.058 68.421 8.23 1.13 0.00 3.86
217 219 3.134458 CCCTCTTCGCCACATTCTTATC 58.866 50.000 0.00 0.00 0.00 1.75
225 227 1.334869 CCACATTCTTATCTTGGCGGC 59.665 52.381 0.00 0.00 0.00 6.53
297 308 3.388350 GGGATCGAGTTTAGGAAGTGGAT 59.612 47.826 0.00 0.00 36.66 3.41
299 310 3.887621 TCGAGTTTAGGAAGTGGATGG 57.112 47.619 0.00 0.00 0.00 3.51
328 339 7.723616 TCATTTTTCTCAAGGACCTATGTTCAA 59.276 33.333 0.00 0.00 0.00 2.69
329 340 8.526147 CATTTTTCTCAAGGACCTATGTTCAAT 58.474 33.333 0.00 0.00 0.00 2.57
330 341 8.477419 TTTTTCTCAAGGACCTATGTTCAATT 57.523 30.769 0.00 0.00 0.00 2.32
331 342 8.477419 TTTTCTCAAGGACCTATGTTCAATTT 57.523 30.769 0.00 0.00 0.00 1.82
365 376 9.613428 TTTATGTAAGGATGATGTTGTAAGGAG 57.387 33.333 0.00 0.00 0.00 3.69
384 413 2.562738 GAGTGGTTTTGCTATTTGGCCT 59.437 45.455 3.32 0.00 0.00 5.19
385 414 2.972021 AGTGGTTTTGCTATTTGGCCTT 59.028 40.909 3.32 0.00 0.00 4.35
447 476 2.159382 AGGTCAAATTAGGTGGCAACG 58.841 47.619 0.00 0.00 42.51 4.10
509 541 3.582120 ACACGGCACAAACGCTGG 61.582 61.111 0.00 0.00 42.90 4.85
556 588 1.000145 CCACGGCCCCCAATTACTT 60.000 57.895 0.00 0.00 0.00 2.24
573 607 1.207329 ACTTAATTCCTTCTCGCCGCT 59.793 47.619 0.00 0.00 0.00 5.52
604 648 3.893763 CCAAACCACCGCGCAACA 61.894 61.111 8.75 0.00 0.00 3.33
1039 1083 2.040442 TCTCCATCCCCTTCGCCA 59.960 61.111 0.00 0.00 0.00 5.69
1138 1186 2.955402 AGACTGACTGACGCCGTC 59.045 61.111 10.96 10.96 0.00 4.79
1261 1334 1.100510 CGTGAGTATCCGTCCCTTGA 58.899 55.000 0.00 0.00 0.00 3.02
1379 1461 0.980754 TGCCGGATTTCCCAGCTCTA 60.981 55.000 5.05 0.00 34.05 2.43
1445 1527 2.032681 GCCCCTCGTTTCAGTGCT 59.967 61.111 0.00 0.00 0.00 4.40
1448 1530 1.672356 CCCTCGTTTCAGTGCTGGG 60.672 63.158 0.00 0.00 0.00 4.45
1471 1553 0.537143 AGTTCAGTGCCCAAATGCGA 60.537 50.000 0.00 0.00 0.00 5.10
1523 1608 5.456621 CTGTCTGTCAGAGTTGCAAACCTT 61.457 45.833 0.00 0.00 46.27 3.50
1543 1628 4.699257 CCTTCCTGAAGATGTGAAGAAAGG 59.301 45.833 8.46 0.00 40.79 3.11
1571 1656 0.251922 ACCCGGACAGCAGGTAGTAA 60.252 55.000 0.73 0.00 30.13 2.24
1572 1657 0.175073 CCCGGACAGCAGGTAGTAAC 59.825 60.000 0.73 0.00 0.00 2.50
1674 1766 7.744087 TGGTTGATATACAATATGTGCTTCC 57.256 36.000 0.00 0.00 40.76 3.46
1689 1781 2.548057 TGCTTCCGTTCATGTCAAGTTC 59.452 45.455 0.00 0.00 0.00 3.01
1694 1786 4.171005 TCCGTTCATGTCAAGTTCGATAC 58.829 43.478 0.00 0.00 0.00 2.24
1731 1823 5.410924 GTGAGCACACTGTGAGTATTGATA 58.589 41.667 15.86 0.00 42.99 2.15
1732 1824 5.869344 GTGAGCACACTGTGAGTATTGATAA 59.131 40.000 15.86 0.00 42.99 1.75
1733 1825 6.368791 GTGAGCACACTGTGAGTATTGATAAA 59.631 38.462 15.86 0.00 42.99 1.40
1734 1826 7.065085 GTGAGCACACTGTGAGTATTGATAAAT 59.935 37.037 15.86 0.00 42.99 1.40
1735 1827 7.278646 TGAGCACACTGTGAGTATTGATAAATC 59.721 37.037 15.86 0.00 35.23 2.17
1736 1828 7.105588 AGCACACTGTGAGTATTGATAAATCA 58.894 34.615 15.86 0.00 35.23 2.57
1737 1829 7.772292 AGCACACTGTGAGTATTGATAAATCAT 59.228 33.333 15.86 0.00 34.40 2.45
1868 1960 3.330110 TCGGTAAACATTCCCCCTTGTAA 59.670 43.478 0.00 0.00 0.00 2.41
1916 2008 7.337689 TCCTGTCAGTTTCTGAATGATAATTGG 59.662 37.037 0.00 0.00 42.46 3.16
1919 2012 9.246670 TGTCAGTTTCTGAATGATAATTGGAAT 57.753 29.630 0.88 0.00 42.46 3.01
1960 2053 6.156519 GGTATTGTTGAACTTCATTCCCAAC 58.843 40.000 0.00 0.00 36.36 3.77
1986 2079 1.699083 TCTGCACCTCCAAGATTGTGA 59.301 47.619 0.00 0.00 0.00 3.58
1989 2082 2.158623 TGCACCTCCAAGATTGTGAAGT 60.159 45.455 0.00 0.00 0.00 3.01
1994 2087 3.318839 CCTCCAAGATTGTGAAGTTTGCA 59.681 43.478 0.00 0.00 0.00 4.08
2044 2137 8.469200 AGCAAAATGAACTTAGCTATTGCATTA 58.531 29.630 20.55 0.00 43.12 1.90
3120 3414 8.797266 CGCAATAATGTGTCTACATAACTCTA 57.203 34.615 0.00 0.00 46.54 2.43
3121 3415 8.906693 CGCAATAATGTGTCTACATAACTCTAG 58.093 37.037 0.00 0.00 46.54 2.43
3162 3456 9.528018 CTTTCTTAAGCTTTTAATGGACAAACA 57.472 29.630 3.20 0.00 0.00 2.83
3198 3492 8.429641 TGTCTTTGTAAGATCTCCACTAGTTTT 58.570 33.333 0.00 0.00 40.18 2.43
3376 3763 6.063404 ACCCGTAAGTGTCTTTTGGAAATAA 58.937 36.000 0.00 0.00 0.00 1.40
3741 4129 4.381411 GTTCTGCACTTCCTCTAAACAGT 58.619 43.478 0.00 0.00 0.00 3.55
3759 4147 6.851222 AACAGTCCATCAAGAATAATAGCG 57.149 37.500 0.00 0.00 0.00 4.26
3866 4262 8.586744 ACCTTTCCAGTTTTTAGTTGTAACAAA 58.413 29.630 0.00 0.00 0.00 2.83
4104 4501 4.881920 ACATGTGGCCTGTTTATGAAAAC 58.118 39.130 3.32 0.00 44.40 2.43
4926 5324 3.439857 AAGCTAAACCCAGCAGAATCA 57.560 42.857 0.00 0.00 44.35 2.57
5122 5522 4.409570 CATCAAAATCTTGCCTCACTTCG 58.590 43.478 0.00 0.00 32.14 3.79
5124 5524 3.498397 TCAAAATCTTGCCTCACTTCGTC 59.502 43.478 0.00 0.00 32.14 4.20
5195 5595 6.430000 GCTCCTTTTTGGTTCTACTAATGTCA 59.570 38.462 0.00 0.00 37.07 3.58
5284 5686 6.042781 AGAGACTGGTGAACAAGTATTACCAA 59.957 38.462 0.00 0.00 40.58 3.67
5287 5689 5.072600 ACTGGTGAACAAGTATTACCAAGGA 59.927 40.000 0.00 0.00 40.58 3.36
5321 5723 2.386661 GTGGATTGTCACGATGAGGT 57.613 50.000 0.00 0.00 0.00 3.85
5324 5726 1.675714 GGATTGTCACGATGAGGTGCA 60.676 52.381 0.00 0.00 37.83 4.57
5328 5730 0.244994 GTCACGATGAGGTGCAGAGT 59.755 55.000 0.00 0.00 37.83 3.24
5330 5732 1.745653 TCACGATGAGGTGCAGAGTAG 59.254 52.381 0.00 0.00 37.83 2.57
5332 5734 2.164422 CACGATGAGGTGCAGAGTAGAA 59.836 50.000 0.00 0.00 0.00 2.10
5334 5736 2.685388 CGATGAGGTGCAGAGTAGAAGA 59.315 50.000 0.00 0.00 0.00 2.87
5335 5737 3.243035 CGATGAGGTGCAGAGTAGAAGAG 60.243 52.174 0.00 0.00 0.00 2.85
5336 5738 2.451490 TGAGGTGCAGAGTAGAAGAGG 58.549 52.381 0.00 0.00 0.00 3.69
5338 5740 0.179124 GGTGCAGAGTAGAAGAGGCG 60.179 60.000 0.00 0.00 0.00 5.52
5339 5741 0.528470 GTGCAGAGTAGAAGAGGCGT 59.472 55.000 0.00 0.00 0.00 5.68
5340 5742 1.067495 GTGCAGAGTAGAAGAGGCGTT 60.067 52.381 0.00 0.00 0.00 4.84
5341 5743 1.067565 TGCAGAGTAGAAGAGGCGTTG 60.068 52.381 0.00 0.00 0.00 4.10
5466 5868 8.537728 ACATTACATCATTTCCATACCATGTT 57.462 30.769 0.00 0.00 0.00 2.71
5684 6086 3.173151 TGTGTTGCCATCCTCTTCTCTA 58.827 45.455 0.00 0.00 0.00 2.43
5697 6099 3.438183 TCTTCTCTACCGCCCTAGTTTT 58.562 45.455 0.00 0.00 0.00 2.43
5714 6116 7.050377 CCTAGTTTTGCCTGAATCTCTTGATA 58.950 38.462 0.00 0.00 31.70 2.15
5730 6132 3.111853 TGATATTCACCGCAGACCATC 57.888 47.619 0.00 0.00 0.00 3.51
5733 6135 1.198713 ATTCACCGCAGACCATCTCT 58.801 50.000 0.00 0.00 0.00 3.10
5814 6332 2.025981 AGGCCATTCTATCAGTGCAACA 60.026 45.455 5.01 0.00 41.43 3.33
5847 6365 5.928839 ACAATGATGTGTAGTGACTGTTCTC 59.071 40.000 0.00 0.00 38.69 2.87
5851 6369 6.621613 TGATGTGTAGTGACTGTTCTCATAC 58.378 40.000 0.00 0.00 0.00 2.39
5900 6676 6.817184 TCTAAGTGGAAATTCCTTCTATCGG 58.183 40.000 13.78 4.16 37.46 4.18
5901 6677 5.437191 AAGTGGAAATTCCTTCTATCGGT 57.563 39.130 13.78 0.00 37.46 4.69
5902 6678 6.555463 AAGTGGAAATTCCTTCTATCGGTA 57.445 37.500 13.78 0.00 37.46 4.02
5903 6679 6.749036 AGTGGAAATTCCTTCTATCGGTAT 57.251 37.500 13.78 0.00 37.46 2.73
5904 6680 7.138054 AGTGGAAATTCCTTCTATCGGTATT 57.862 36.000 13.78 0.00 37.46 1.89
5905 6681 7.217906 AGTGGAAATTCCTTCTATCGGTATTC 58.782 38.462 13.78 0.00 37.46 1.75
5906 6682 6.990349 GTGGAAATTCCTTCTATCGGTATTCA 59.010 38.462 13.78 0.00 37.46 2.57
5950 6726 5.175856 GTGAATATAGTGCAAGGAGTTAGCG 59.824 44.000 0.00 0.00 0.00 4.26
5965 6741 4.038080 GCGCCGGTGGGAACTTTG 62.038 66.667 18.41 0.00 34.06 2.77
6004 6780 5.241662 AGGTACATGCTCTGAAGTTTTCTC 58.758 41.667 0.00 0.00 0.00 2.87
6109 6912 3.728474 GCTGGCACATCGATCCTG 58.272 61.111 0.00 0.00 38.20 3.86
6110 6913 2.541120 GCTGGCACATCGATCCTGC 61.541 63.158 14.79 14.79 38.20 4.85
6111 6914 1.145598 CTGGCACATCGATCCTGCT 59.854 57.895 19.29 0.00 38.20 4.24
6112 6915 0.463295 CTGGCACATCGATCCTGCTT 60.463 55.000 19.29 0.00 38.20 3.91
6113 6916 0.462581 TGGCACATCGATCCTGCTTC 60.463 55.000 19.29 8.47 0.00 3.86
6114 6917 1.162800 GGCACATCGATCCTGCTTCC 61.163 60.000 19.29 4.72 0.00 3.46
6115 6918 0.462581 GCACATCGATCCTGCTTCCA 60.463 55.000 14.73 0.00 0.00 3.53
6116 6919 1.293924 CACATCGATCCTGCTTCCAC 58.706 55.000 0.00 0.00 0.00 4.02
6117 6920 0.179000 ACATCGATCCTGCTTCCACC 59.821 55.000 0.00 0.00 0.00 4.61
6118 6921 0.178767 CATCGATCCTGCTTCCACCA 59.821 55.000 0.00 0.00 0.00 4.17
6119 6922 0.179000 ATCGATCCTGCTTCCACCAC 59.821 55.000 0.00 0.00 0.00 4.16
6120 6923 0.904865 TCGATCCTGCTTCCACCACT 60.905 55.000 0.00 0.00 0.00 4.00
6121 6924 0.460987 CGATCCTGCTTCCACCACTC 60.461 60.000 0.00 0.00 0.00 3.51
6122 6925 0.107459 GATCCTGCTTCCACCACTCC 60.107 60.000 0.00 0.00 0.00 3.85
6123 6926 0.842030 ATCCTGCTTCCACCACTCCA 60.842 55.000 0.00 0.00 0.00 3.86
6124 6927 1.302832 CCTGCTTCCACCACTCCAC 60.303 63.158 0.00 0.00 0.00 4.02
6125 6928 1.302832 CTGCTTCCACCACTCCACC 60.303 63.158 0.00 0.00 0.00 4.61
6126 6929 2.034221 GCTTCCACCACTCCACCC 59.966 66.667 0.00 0.00 0.00 4.61
6127 6930 2.347490 CTTCCACCACTCCACCCG 59.653 66.667 0.00 0.00 0.00 5.28
6128 6931 2.446994 TTCCACCACTCCACCCGT 60.447 61.111 0.00 0.00 0.00 5.28
6129 6932 2.731691 CTTCCACCACTCCACCCGTG 62.732 65.000 0.00 0.00 0.00 4.94
6131 6934 4.248842 CACCACTCCACCCGTGCA 62.249 66.667 0.00 0.00 0.00 4.57
6132 6935 3.484806 ACCACTCCACCCGTGCAA 61.485 61.111 0.00 0.00 0.00 4.08
6133 6936 2.203280 CCACTCCACCCGTGCAAA 60.203 61.111 0.00 0.00 0.00 3.68
6134 6937 2.551912 CCACTCCACCCGTGCAAAC 61.552 63.158 0.00 0.00 0.00 2.93
6135 6938 1.821759 CACTCCACCCGTGCAAACA 60.822 57.895 0.00 0.00 0.00 2.83
6136 6939 1.822186 ACTCCACCCGTGCAAACAC 60.822 57.895 0.00 0.00 43.76 3.32
6146 6949 2.415697 GTGCAAACACACCCACATAC 57.584 50.000 0.00 0.00 46.61 2.39
6147 6950 1.953686 GTGCAAACACACCCACATACT 59.046 47.619 0.00 0.00 46.61 2.12
6148 6951 3.142951 GTGCAAACACACCCACATACTA 58.857 45.455 0.00 0.00 46.61 1.82
6149 6952 3.058501 GTGCAAACACACCCACATACTAC 60.059 47.826 0.00 0.00 46.61 2.73
6150 6953 3.142951 GCAAACACACCCACATACTACA 58.857 45.455 0.00 0.00 0.00 2.74
6151 6954 3.756434 GCAAACACACCCACATACTACAT 59.244 43.478 0.00 0.00 0.00 2.29
6152 6955 4.142687 GCAAACACACCCACATACTACATC 60.143 45.833 0.00 0.00 0.00 3.06
6153 6956 5.245531 CAAACACACCCACATACTACATCT 58.754 41.667 0.00 0.00 0.00 2.90
6154 6957 4.737855 ACACACCCACATACTACATCTC 57.262 45.455 0.00 0.00 0.00 2.75
6155 6958 4.093743 ACACACCCACATACTACATCTCA 58.906 43.478 0.00 0.00 0.00 3.27
6156 6959 4.716784 ACACACCCACATACTACATCTCAT 59.283 41.667 0.00 0.00 0.00 2.90
6157 6960 5.052481 CACACCCACATACTACATCTCATG 58.948 45.833 0.00 0.00 0.00 3.07
6158 6961 4.060900 CACCCACATACTACATCTCATGC 58.939 47.826 0.00 0.00 0.00 4.06
6159 6962 3.969976 ACCCACATACTACATCTCATGCT 59.030 43.478 0.00 0.00 0.00 3.79
6160 6963 4.039730 ACCCACATACTACATCTCATGCTC 59.960 45.833 0.00 0.00 0.00 4.26
6161 6964 4.233005 CCACATACTACATCTCATGCTCG 58.767 47.826 0.00 0.00 0.00 5.03
6162 6965 4.261783 CCACATACTACATCTCATGCTCGT 60.262 45.833 0.00 0.00 0.00 4.18
6163 6966 4.914504 CACATACTACATCTCATGCTCGTC 59.085 45.833 0.00 0.00 0.00 4.20
6164 6967 2.765108 ACTACATCTCATGCTCGTCG 57.235 50.000 0.00 0.00 0.00 5.12
6165 6968 1.268794 ACTACATCTCATGCTCGTCGC 60.269 52.381 0.00 0.00 39.77 5.19
6166 6969 1.001924 CTACATCTCATGCTCGTCGCT 60.002 52.381 0.00 0.00 40.11 4.93
6167 6970 0.527169 ACATCTCATGCTCGTCGCTG 60.527 55.000 0.00 0.00 40.11 5.18
6168 6971 0.527169 CATCTCATGCTCGTCGCTGT 60.527 55.000 0.00 0.00 40.11 4.40
6169 6972 0.248825 ATCTCATGCTCGTCGCTGTC 60.249 55.000 0.00 0.00 40.11 3.51
6170 6973 2.202479 TCATGCTCGTCGCTGTCG 60.202 61.111 0.00 0.00 40.11 4.35
6171 6974 2.202479 CATGCTCGTCGCTGTCGA 60.202 61.111 0.00 0.00 43.28 4.20
6179 6982 4.571250 TCGCTGTCGACACCATTC 57.429 55.556 15.76 0.79 40.21 2.67
6180 6983 1.964448 TCGCTGTCGACACCATTCT 59.036 52.632 15.76 0.00 40.21 2.40
6181 6984 0.109272 TCGCTGTCGACACCATTCTC 60.109 55.000 15.76 0.00 40.21 2.87
6182 6985 1.406219 CGCTGTCGACACCATTCTCG 61.406 60.000 15.76 3.28 38.10 4.04
6183 6986 0.388649 GCTGTCGACACCATTCTCGT 60.389 55.000 15.76 0.00 0.00 4.18
6184 6987 1.935300 GCTGTCGACACCATTCTCGTT 60.935 52.381 15.76 0.00 0.00 3.85
6185 6988 1.986378 CTGTCGACACCATTCTCGTTC 59.014 52.381 15.76 0.00 0.00 3.95
6186 6989 1.611977 TGTCGACACCATTCTCGTTCT 59.388 47.619 15.76 0.00 0.00 3.01
6187 6990 2.035449 TGTCGACACCATTCTCGTTCTT 59.965 45.455 15.76 0.00 0.00 2.52
6188 6991 3.057734 GTCGACACCATTCTCGTTCTTT 58.942 45.455 11.55 0.00 0.00 2.52
6189 6992 3.121445 GTCGACACCATTCTCGTTCTTTC 59.879 47.826 11.55 0.00 0.00 2.62
6190 6993 3.005472 TCGACACCATTCTCGTTCTTTCT 59.995 43.478 0.00 0.00 0.00 2.52
6191 6994 3.741344 CGACACCATTCTCGTTCTTTCTT 59.259 43.478 0.00 0.00 0.00 2.52
6192 6995 4.211374 CGACACCATTCTCGTTCTTTCTTT 59.789 41.667 0.00 0.00 0.00 2.52
6193 6996 5.277345 CGACACCATTCTCGTTCTTTCTTTT 60.277 40.000 0.00 0.00 0.00 2.27
6194 6997 6.451064 ACACCATTCTCGTTCTTTCTTTTT 57.549 33.333 0.00 0.00 0.00 1.94
6211 7014 3.330766 TTTTTGAAACCGCACACCG 57.669 47.368 0.00 0.00 0.00 4.94
6212 7015 0.526662 TTTTTGAAACCGCACACCGT 59.473 45.000 0.00 0.00 34.38 4.83
6213 7016 1.376543 TTTTGAAACCGCACACCGTA 58.623 45.000 0.00 0.00 34.38 4.02
6214 7017 0.938713 TTTGAAACCGCACACCGTAG 59.061 50.000 0.00 0.00 34.38 3.51
6215 7018 0.104487 TTGAAACCGCACACCGTAGA 59.896 50.000 0.00 0.00 34.38 2.59
6216 7019 0.104487 TGAAACCGCACACCGTAGAA 59.896 50.000 0.00 0.00 34.38 2.10
6217 7020 0.509929 GAAACCGCACACCGTAGAAC 59.490 55.000 0.00 0.00 34.38 3.01
6218 7021 0.179078 AAACCGCACACCGTAGAACA 60.179 50.000 0.00 0.00 34.38 3.18
6219 7022 0.179078 AACCGCACACCGTAGAACAA 60.179 50.000 0.00 0.00 34.38 2.83
6220 7023 0.034337 ACCGCACACCGTAGAACAAT 59.966 50.000 0.00 0.00 34.38 2.71
6221 7024 1.153353 CCGCACACCGTAGAACAATT 58.847 50.000 0.00 0.00 34.38 2.32
6222 7025 1.136085 CCGCACACCGTAGAACAATTG 60.136 52.381 3.24 3.24 34.38 2.32
6223 7026 1.529438 CGCACACCGTAGAACAATTGT 59.471 47.619 4.92 4.92 0.00 2.71
6224 7027 2.032377 CGCACACCGTAGAACAATTGTT 60.032 45.455 23.49 23.49 41.64 2.83
6225 7028 6.871133 CCGCACACCGTAGAACAATTGTTC 62.871 50.000 34.21 34.21 43.87 3.18
6238 7041 5.616488 ACAATTGTTCACCGGTATGTTAC 57.384 39.130 6.87 1.56 0.00 2.50
6239 7042 5.064558 ACAATTGTTCACCGGTATGTTACA 58.935 37.500 6.87 4.48 0.00 2.41
6240 7043 5.531659 ACAATTGTTCACCGGTATGTTACAA 59.468 36.000 6.87 13.52 33.26 2.41
6241 7044 6.039493 ACAATTGTTCACCGGTATGTTACAAA 59.961 34.615 6.87 0.00 32.83 2.83
6242 7045 6.636562 ATTGTTCACCGGTATGTTACAAAA 57.363 33.333 6.87 0.00 32.83 2.44
6243 7046 6.446781 TTGTTCACCGGTATGTTACAAAAA 57.553 33.333 6.87 0.00 0.00 1.94
6244 7047 6.062434 TGTTCACCGGTATGTTACAAAAAG 57.938 37.500 6.87 0.00 0.00 2.27
6245 7048 5.008811 TGTTCACCGGTATGTTACAAAAAGG 59.991 40.000 6.87 0.00 0.00 3.11
6246 7049 4.073549 TCACCGGTATGTTACAAAAAGGG 58.926 43.478 6.87 0.00 0.00 3.95
6247 7050 3.191791 CACCGGTATGTTACAAAAAGGGG 59.808 47.826 6.87 0.00 0.00 4.79
6248 7051 3.074242 ACCGGTATGTTACAAAAAGGGGA 59.926 43.478 4.49 0.00 0.00 4.81
6249 7052 3.692593 CCGGTATGTTACAAAAAGGGGAG 59.307 47.826 0.00 0.00 0.00 4.30
6250 7053 3.692593 CGGTATGTTACAAAAAGGGGAGG 59.307 47.826 0.00 0.00 0.00 4.30
6251 7054 4.669700 GGTATGTTACAAAAAGGGGAGGT 58.330 43.478 0.00 0.00 0.00 3.85
6252 7055 4.461431 GGTATGTTACAAAAAGGGGAGGTG 59.539 45.833 0.00 0.00 0.00 4.00
6253 7056 3.955524 TGTTACAAAAAGGGGAGGTGA 57.044 42.857 0.00 0.00 0.00 4.02
6254 7057 4.252570 TGTTACAAAAAGGGGAGGTGAA 57.747 40.909 0.00 0.00 0.00 3.18
6255 7058 4.611367 TGTTACAAAAAGGGGAGGTGAAA 58.389 39.130 0.00 0.00 0.00 2.69
6256 7059 5.024118 TGTTACAAAAAGGGGAGGTGAAAA 58.976 37.500 0.00 0.00 0.00 2.29
6257 7060 5.128008 TGTTACAAAAAGGGGAGGTGAAAAG 59.872 40.000 0.00 0.00 0.00 2.27
6258 7061 3.989056 ACAAAAAGGGGAGGTGAAAAGA 58.011 40.909 0.00 0.00 0.00 2.52
6259 7062 3.960755 ACAAAAAGGGGAGGTGAAAAGAG 59.039 43.478 0.00 0.00 0.00 2.85
6260 7063 4.215109 CAAAAAGGGGAGGTGAAAAGAGA 58.785 43.478 0.00 0.00 0.00 3.10
6261 7064 4.536295 AAAAGGGGAGGTGAAAAGAGAA 57.464 40.909 0.00 0.00 0.00 2.87
6262 7065 4.749048 AAAGGGGAGGTGAAAAGAGAAT 57.251 40.909 0.00 0.00 0.00 2.40
6263 7066 5.860648 AAAGGGGAGGTGAAAAGAGAATA 57.139 39.130 0.00 0.00 0.00 1.75
6264 7067 5.860648 AAGGGGAGGTGAAAAGAGAATAA 57.139 39.130 0.00 0.00 0.00 1.40
6265 7068 5.860648 AGGGGAGGTGAAAAGAGAATAAA 57.139 39.130 0.00 0.00 0.00 1.40
6266 7069 6.214177 AGGGGAGGTGAAAAGAGAATAAAA 57.786 37.500 0.00 0.00 0.00 1.52
6267 7070 6.010850 AGGGGAGGTGAAAAGAGAATAAAAC 58.989 40.000 0.00 0.00 0.00 2.43
6268 7071 6.010850 GGGGAGGTGAAAAGAGAATAAAACT 58.989 40.000 0.00 0.00 0.00 2.66
6269 7072 7.018249 AGGGGAGGTGAAAAGAGAATAAAACTA 59.982 37.037 0.00 0.00 0.00 2.24
6270 7073 7.668469 GGGGAGGTGAAAAGAGAATAAAACTAA 59.332 37.037 0.00 0.00 0.00 2.24
6271 7074 8.512956 GGGAGGTGAAAAGAGAATAAAACTAAC 58.487 37.037 0.00 0.00 0.00 2.34
6272 7075 9.063615 GGAGGTGAAAAGAGAATAAAACTAACA 57.936 33.333 0.00 0.00 0.00 2.41
6291 7094 9.699703 AACTAACAAAAGAGACATAGAGAGAAC 57.300 33.333 0.00 0.00 0.00 3.01
6292 7095 8.861086 ACTAACAAAAGAGACATAGAGAGAACA 58.139 33.333 0.00 0.00 0.00 3.18
6293 7096 9.352784 CTAACAAAAGAGACATAGAGAGAACAG 57.647 37.037 0.00 0.00 0.00 3.16
6294 7097 7.296628 ACAAAAGAGACATAGAGAGAACAGT 57.703 36.000 0.00 0.00 0.00 3.55
6295 7098 7.731054 ACAAAAGAGACATAGAGAGAACAGTT 58.269 34.615 0.00 0.00 0.00 3.16
6296 7099 7.870445 ACAAAAGAGACATAGAGAGAACAGTTC 59.130 37.037 5.00 5.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 6.870971 AAGTTACCTGCGAAAATAAAGACA 57.129 33.333 0.00 0.00 0.00 3.41
15 16 4.982295 GCTTTGAAAGTTACCTGCGAAAAT 59.018 37.500 6.81 0.00 0.00 1.82
20 22 1.606668 TGGCTTTGAAAGTTACCTGCG 59.393 47.619 6.81 0.00 0.00 5.18
37 39 2.098443 TGTTTTCCACTCGAAAGTTGGC 59.902 45.455 0.00 0.00 41.47 4.52
62 64 4.985538 ATAACTGGAGGACTAAGACACG 57.014 45.455 0.00 0.00 0.00 4.49
70 72 4.468153 GGTGAGAGAAATAACTGGAGGACT 59.532 45.833 0.00 0.00 0.00 3.85
103 105 2.453638 GCTAGCCGAACTTCGCACC 61.454 63.158 2.29 0.00 38.82 5.01
104 106 1.014564 AAGCTAGCCGAACTTCGCAC 61.015 55.000 12.13 0.38 38.82 5.34
133 135 2.172717 GCCTAACCTCATTAGCTTCCCA 59.827 50.000 0.00 0.00 39.29 4.37
157 159 2.818132 GGCCAGACAGATCGGAGG 59.182 66.667 0.00 0.00 0.00 4.30
159 161 3.147595 CCGGCCAGACAGATCGGA 61.148 66.667 2.24 0.00 42.94 4.55
217 219 2.324330 TGACAACGATGCCGCCAAG 61.324 57.895 0.00 0.00 39.95 3.61
225 227 2.726691 GACGCCGGTGACAACGATG 61.727 63.158 24.59 8.65 33.02 3.84
297 308 2.552315 GTCCTTGAGAAAAATGACGCCA 59.448 45.455 0.00 0.00 0.00 5.69
299 310 2.814336 AGGTCCTTGAGAAAAATGACGC 59.186 45.455 0.00 0.00 0.00 5.19
342 353 7.050377 CACTCCTTACAACATCATCCTTACAT 58.950 38.462 0.00 0.00 0.00 2.29
355 366 5.959618 ATAGCAAAACCACTCCTTACAAC 57.040 39.130 0.00 0.00 0.00 3.32
362 373 2.353704 GGCCAAATAGCAAAACCACTCC 60.354 50.000 0.00 0.00 0.00 3.85
365 376 3.401033 AAGGCCAAATAGCAAAACCAC 57.599 42.857 5.01 0.00 0.00 4.16
392 421 7.124147 TGAAACTGAATCTTGTTTTCCCTTTCT 59.876 33.333 6.45 0.00 36.64 2.52
399 428 5.455525 CACCGTGAAACTGAATCTTGTTTTC 59.544 40.000 0.00 0.00 36.64 2.29
447 476 1.433471 GCCGCCTTTGTTATCTGCC 59.567 57.895 0.00 0.00 0.00 4.85
488 520 4.230863 CGTTTGTGCCGTGTGCGT 62.231 61.111 0.00 0.00 45.60 5.24
542 574 3.923648 AGGAATTAAGTAATTGGGGGCC 58.076 45.455 0.00 0.00 36.13 5.80
556 588 0.104304 GGAGCGGCGAGAAGGAATTA 59.896 55.000 12.98 0.00 0.00 1.40
573 607 3.758973 TTTGGTCGTTGGCTGCGGA 62.759 57.895 0.00 0.00 0.00 5.54
665 709 2.476199 GCCTCCATCTATATCCAGCCT 58.524 52.381 0.00 0.00 0.00 4.58
1091 1139 0.673956 GAGGAAGGACGAAACCAGCC 60.674 60.000 0.00 0.00 0.00 4.85
1092 1140 0.321996 AGAGGAAGGACGAAACCAGC 59.678 55.000 0.00 0.00 0.00 4.85
1093 1141 1.338200 CCAGAGGAAGGACGAAACCAG 60.338 57.143 0.00 0.00 0.00 4.00
1102 1150 2.158310 TCTGTCAGAACCAGAGGAAGGA 60.158 50.000 0.00 0.00 34.12 3.36
1261 1334 1.206745 CGAATCGCCGTACGCAATCT 61.207 55.000 10.49 0.00 43.23 2.40
1445 1527 1.150536 GGGCACTGAACTGAACCCA 59.849 57.895 0.00 0.00 37.30 4.51
1448 1530 2.863704 GCATTTGGGCACTGAACTGAAC 60.864 50.000 0.00 0.00 0.00 3.18
1491 1576 5.474578 ACTCTGACAGACAGCAAATAAGA 57.525 39.130 0.00 0.00 45.38 2.10
1523 1608 4.594920 AGTCCTTTCTTCACATCTTCAGGA 59.405 41.667 0.00 0.00 0.00 3.86
1543 1628 1.592223 CTGTCCGGGTCCTCAAGTC 59.408 63.158 0.00 0.00 0.00 3.01
1578 1663 2.672098 TGGCAAAACCACATAACTGGT 58.328 42.857 0.00 0.00 46.36 4.00
1674 1766 5.763444 AAGTATCGAACTTGACATGAACG 57.237 39.130 0.00 0.00 46.90 3.95
1689 1781 3.127721 TCACTGCTCACTGAGAAGTATCG 59.872 47.826 18.05 7.80 45.97 2.92
1694 1786 1.000618 TGCTCACTGCTCACTGAGAAG 59.999 52.381 12.10 12.10 40.99 2.85
1776 1868 2.039746 ACCTGTGCAGTAGCCACAATAA 59.960 45.455 0.00 0.00 41.13 1.40
1916 2008 4.082125 ACCCAAGGTCTTGATTCACATTC 58.918 43.478 11.87 0.00 42.93 2.67
1919 2012 4.927267 ATACCCAAGGTCTTGATTCACA 57.073 40.909 11.87 0.00 42.93 3.58
1960 2053 1.345741 TCTTGGAGGTGCAGAGTGAAG 59.654 52.381 0.00 0.00 0.00 3.02
1994 2087 7.573843 GCTGACATTACACTAAGAATGCAAAGT 60.574 37.037 0.00 0.00 36.67 2.66
2044 2137 8.761575 AGTGTTGCAATCGATTTAATTTCATT 57.238 26.923 8.21 0.00 0.00 2.57
2134 2376 7.627939 GCATGGATGATGAGAAATTACCTATGC 60.628 40.741 0.00 0.00 33.31 3.14
2300 2543 4.039973 AGTTACAAAGACATCGACTTGGGA 59.960 41.667 0.00 0.00 0.00 4.37
2304 2547 6.342338 ACCTAGTTACAAAGACATCGACTT 57.658 37.500 0.00 0.00 0.00 3.01
2472 2718 6.752351 AGAATAAGTAGCTAACACATCACACG 59.248 38.462 0.00 0.00 0.00 4.49
2629 2877 1.687123 GGCAGTACGATGGATACCTGT 59.313 52.381 0.00 0.00 0.00 4.00
3120 3414 8.041919 GCTTAAGAAAGTTACAAGTATCCCTCT 58.958 37.037 6.67 0.00 34.99 3.69
3121 3415 8.041919 AGCTTAAGAAAGTTACAAGTATCCCTC 58.958 37.037 6.67 0.00 34.99 4.30
3162 3456 8.641498 AGATCTTACAAAGACAAATGGATGTT 57.359 30.769 0.00 0.00 41.01 2.71
3328 3634 9.125026 GGTACCATATCCATGATTCATATTTCC 57.875 37.037 7.15 0.00 33.67 3.13
3376 3763 5.491982 GCCGAGAATTAATATGGAGGTCAT 58.508 41.667 0.00 0.00 39.78 3.06
3741 4129 6.521162 TGCTAACGCTATTATTCTTGATGGA 58.479 36.000 0.00 0.00 36.97 3.41
3759 4147 8.328864 GCACAAGTGATAGTATAGTTTGCTAAC 58.671 37.037 4.04 2.56 34.36 2.34
3960 4356 4.151335 CAGATAAGATGCGCATTACCAGTC 59.849 45.833 26.12 16.84 0.00 3.51
4761 5159 6.568462 CGATCAAATGGAAGCAAAACTACACT 60.568 38.462 0.00 0.00 0.00 3.55
4893 5291 4.395625 GGTTTAGCTTAACTGGTCCAACT 58.604 43.478 14.69 0.00 0.00 3.16
4926 5324 8.770828 CGGATCAATTAATACCGTACAAAATCT 58.229 33.333 12.12 0.00 38.97 2.40
4947 5345 0.902531 TCACCCAGTTCTTCCGGATC 59.097 55.000 4.15 0.00 0.00 3.36
5209 5609 3.066064 CGTTTGGTGGAATCAACTGACAA 59.934 43.478 0.00 0.00 0.00 3.18
5321 5723 1.067565 CAACGCCTCTTCTACTCTGCA 60.068 52.381 0.00 0.00 0.00 4.41
5324 5726 1.546476 CACCAACGCCTCTTCTACTCT 59.454 52.381 0.00 0.00 0.00 3.24
5328 5730 2.029290 GTCTTCACCAACGCCTCTTCTA 60.029 50.000 0.00 0.00 0.00 2.10
5330 5732 1.149148 GTCTTCACCAACGCCTCTTC 58.851 55.000 0.00 0.00 0.00 2.87
5332 5734 1.006102 CGTCTTCACCAACGCCTCT 60.006 57.895 0.00 0.00 31.48 3.69
5338 5740 1.160329 AGCACAGCGTCTTCACCAAC 61.160 55.000 0.00 0.00 0.00 3.77
5339 5741 0.391228 TAGCACAGCGTCTTCACCAA 59.609 50.000 0.00 0.00 0.00 3.67
5340 5742 0.319555 GTAGCACAGCGTCTTCACCA 60.320 55.000 0.00 0.00 0.00 4.17
5341 5743 1.014564 GGTAGCACAGCGTCTTCACC 61.015 60.000 0.00 0.00 0.00 4.02
5491 5893 7.739498 TTTTATACAGTTTTCAGGAGGTCAC 57.261 36.000 0.00 0.00 0.00 3.67
5577 5979 4.638421 TGGACTCCACAAGTGTGTAAAAAG 59.362 41.667 10.40 3.05 44.21 2.27
5596 5998 2.125461 GCAAGAGCACACTTTTGGAC 57.875 50.000 0.00 0.00 38.21 4.02
5684 6086 1.303317 CAGGCAAAACTAGGGCGGT 60.303 57.895 0.00 0.00 34.32 5.68
5697 6099 5.371526 GGTGAATATCAAGAGATTCAGGCA 58.628 41.667 17.56 0.00 45.96 4.75
5714 6116 1.134580 CAGAGATGGTCTGCGGTGAAT 60.135 52.381 0.00 0.00 46.41 2.57
5730 6132 2.305927 AGTTGGTAATGTGGGGACAGAG 59.694 50.000 0.00 0.00 44.46 3.35
5733 6135 2.039746 CAGAGTTGGTAATGTGGGGACA 59.960 50.000 0.00 0.00 38.70 4.02
5737 6139 5.097742 TCATACAGAGTTGGTAATGTGGG 57.902 43.478 0.00 0.00 0.00 4.61
5790 6308 2.507058 TGCACTGATAGAATGGCCTTCT 59.493 45.455 17.83 17.83 46.16 2.85
5799 6317 7.013750 TGTTGGTATTTTGTTGCACTGATAGAA 59.986 33.333 0.00 0.00 0.00 2.10
5804 6322 4.991153 TGTTGGTATTTTGTTGCACTGA 57.009 36.364 0.00 0.00 0.00 3.41
5814 6332 8.296713 GTCACTACACATCATTGTTGGTATTTT 58.703 33.333 0.16 0.00 32.34 1.82
5873 6649 9.331282 CGATAGAAGGAATTTCCACTTAGAAAT 57.669 33.333 17.57 6.44 42.92 2.17
5900 6676 9.449719 CCCCATAGGATTATTGTTACTGAATAC 57.550 37.037 0.00 0.00 38.24 1.89
5901 6677 9.177927 ACCCCATAGGATTATTGTTACTGAATA 57.822 33.333 0.00 0.00 39.89 1.75
5902 6678 7.944554 CACCCCATAGGATTATTGTTACTGAAT 59.055 37.037 0.00 0.00 39.89 2.57
5903 6679 7.128109 TCACCCCATAGGATTATTGTTACTGAA 59.872 37.037 0.00 0.00 39.89 3.02
5904 6680 6.617784 TCACCCCATAGGATTATTGTTACTGA 59.382 38.462 0.00 0.00 39.89 3.41
5905 6681 6.837312 TCACCCCATAGGATTATTGTTACTG 58.163 40.000 0.00 0.00 39.89 2.74
5906 6682 7.460214 TTCACCCCATAGGATTATTGTTACT 57.540 36.000 0.00 0.00 39.89 2.24
5934 6710 1.376037 GGCGCTAACTCCTTGCACT 60.376 57.895 7.64 0.00 0.00 4.40
5950 6726 2.265904 GGACAAAGTTCCCACCGGC 61.266 63.158 0.00 0.00 0.00 6.13
5965 6741 4.384056 TGTACCTAGCGTAGATGTAGGAC 58.616 47.826 1.63 0.00 37.38 3.85
6049 6825 4.137116 TGACACCGCAAGAGCTATATTT 57.863 40.909 0.00 0.00 43.02 1.40
6050 6826 3.819564 TGACACCGCAAGAGCTATATT 57.180 42.857 0.00 0.00 43.02 1.28
6098 6901 0.179000 GGTGGAAGCAGGATCGATGT 59.821 55.000 0.54 0.00 0.00 3.06
6099 6902 0.178767 TGGTGGAAGCAGGATCGATG 59.821 55.000 0.54 0.00 40.88 3.84
6100 6903 2.607811 TGGTGGAAGCAGGATCGAT 58.392 52.632 0.00 0.00 40.88 3.59
6101 6904 4.128580 TGGTGGAAGCAGGATCGA 57.871 55.556 0.00 0.00 40.88 3.59
6108 6911 2.829384 GGGTGGAGTGGTGGAAGCA 61.829 63.158 0.00 0.00 45.41 3.91
6109 6912 2.034221 GGGTGGAGTGGTGGAAGC 59.966 66.667 0.00 0.00 0.00 3.86
6110 6913 2.347490 CGGGTGGAGTGGTGGAAG 59.653 66.667 0.00 0.00 0.00 3.46
6111 6914 2.446994 ACGGGTGGAGTGGTGGAA 60.447 61.111 0.00 0.00 0.00 3.53
6112 6915 3.238497 CACGGGTGGAGTGGTGGA 61.238 66.667 0.00 0.00 36.06 4.02
6114 6917 3.765894 TTGCACGGGTGGAGTGGTG 62.766 63.158 0.43 0.00 39.80 4.17
6115 6918 3.050354 TTTGCACGGGTGGAGTGGT 62.050 57.895 0.43 0.00 39.80 4.16
6116 6919 2.203280 TTTGCACGGGTGGAGTGG 60.203 61.111 0.43 0.00 39.80 4.00
6117 6920 1.821759 TGTTTGCACGGGTGGAGTG 60.822 57.895 0.43 0.00 42.15 3.51
6118 6921 1.822186 GTGTTTGCACGGGTGGAGT 60.822 57.895 0.43 0.00 35.75 3.85
6119 6922 3.030652 GTGTTTGCACGGGTGGAG 58.969 61.111 0.43 0.00 35.75 3.86
6127 6930 1.953686 AGTATGTGGGTGTGTTTGCAC 59.046 47.619 0.00 0.00 45.44 4.57
6128 6931 2.356665 AGTATGTGGGTGTGTTTGCA 57.643 45.000 0.00 0.00 0.00 4.08
6129 6932 3.142951 TGTAGTATGTGGGTGTGTTTGC 58.857 45.455 0.00 0.00 0.00 3.68
6130 6933 5.245531 AGATGTAGTATGTGGGTGTGTTTG 58.754 41.667 0.00 0.00 0.00 2.93
6131 6934 5.012664 TGAGATGTAGTATGTGGGTGTGTTT 59.987 40.000 0.00 0.00 0.00 2.83
6132 6935 4.530553 TGAGATGTAGTATGTGGGTGTGTT 59.469 41.667 0.00 0.00 0.00 3.32
6133 6936 4.093743 TGAGATGTAGTATGTGGGTGTGT 58.906 43.478 0.00 0.00 0.00 3.72
6134 6937 4.736126 TGAGATGTAGTATGTGGGTGTG 57.264 45.455 0.00 0.00 0.00 3.82
6135 6938 4.443457 GCATGAGATGTAGTATGTGGGTGT 60.443 45.833 0.00 0.00 0.00 4.16
6136 6939 4.060900 GCATGAGATGTAGTATGTGGGTG 58.939 47.826 0.00 0.00 0.00 4.61
6137 6940 3.969976 AGCATGAGATGTAGTATGTGGGT 59.030 43.478 0.00 0.00 0.00 4.51
6138 6941 4.564041 GAGCATGAGATGTAGTATGTGGG 58.436 47.826 0.00 0.00 0.00 4.61
6139 6942 4.233005 CGAGCATGAGATGTAGTATGTGG 58.767 47.826 0.00 0.00 0.00 4.17
6140 6943 4.864633 ACGAGCATGAGATGTAGTATGTG 58.135 43.478 0.00 0.00 0.00 3.21
6141 6944 4.319839 CGACGAGCATGAGATGTAGTATGT 60.320 45.833 0.00 0.00 0.00 2.29
6142 6945 4.154717 CGACGAGCATGAGATGTAGTATG 58.845 47.826 0.00 0.00 0.00 2.39
6143 6946 4.411993 CGACGAGCATGAGATGTAGTAT 57.588 45.455 0.00 0.00 0.00 2.12
6144 6947 3.879932 CGACGAGCATGAGATGTAGTA 57.120 47.619 0.00 0.00 0.00 1.82
6145 6948 2.765108 CGACGAGCATGAGATGTAGT 57.235 50.000 0.00 0.00 0.00 2.73
6162 6965 0.109272 GAGAATGGTGTCGACAGCGA 60.109 55.000 34.64 25.85 46.53 4.93
6163 6966 1.406219 CGAGAATGGTGTCGACAGCG 61.406 60.000 34.64 20.04 46.53 5.18
6164 6967 0.388649 ACGAGAATGGTGTCGACAGC 60.389 55.000 34.65 34.65 42.94 4.40
6165 6968 1.986378 GAACGAGAATGGTGTCGACAG 59.014 52.381 20.73 7.08 42.94 3.51
6166 6969 1.611977 AGAACGAGAATGGTGTCGACA 59.388 47.619 15.76 15.76 42.94 4.35
6167 6970 2.349297 AGAACGAGAATGGTGTCGAC 57.651 50.000 9.11 9.11 42.94 4.20
6168 6971 3.005472 AGAAAGAACGAGAATGGTGTCGA 59.995 43.478 0.00 0.00 42.94 4.20
6169 6972 3.318017 AGAAAGAACGAGAATGGTGTCG 58.682 45.455 0.00 0.00 45.60 4.35
6170 6973 5.674933 AAAGAAAGAACGAGAATGGTGTC 57.325 39.130 0.00 0.00 0.00 3.67
6171 6974 6.451064 AAAAAGAAAGAACGAGAATGGTGT 57.549 33.333 0.00 0.00 0.00 4.16
6193 6996 0.526662 ACGGTGTGCGGTTTCAAAAA 59.473 45.000 0.00 0.00 0.00 1.94
6194 6997 1.331138 CTACGGTGTGCGGTTTCAAAA 59.669 47.619 0.00 0.00 0.00 2.44
6195 6998 0.938713 CTACGGTGTGCGGTTTCAAA 59.061 50.000 0.00 0.00 0.00 2.69
6196 6999 0.104487 TCTACGGTGTGCGGTTTCAA 59.896 50.000 0.00 0.00 0.00 2.69
6197 7000 0.104487 TTCTACGGTGTGCGGTTTCA 59.896 50.000 0.00 0.00 0.00 2.69
6198 7001 0.509929 GTTCTACGGTGTGCGGTTTC 59.490 55.000 0.00 0.00 0.00 2.78
6199 7002 0.179078 TGTTCTACGGTGTGCGGTTT 60.179 50.000 0.00 0.00 0.00 3.27
6200 7003 0.179078 TTGTTCTACGGTGTGCGGTT 60.179 50.000 0.00 0.00 0.00 4.44
6201 7004 0.034337 ATTGTTCTACGGTGTGCGGT 59.966 50.000 0.00 0.00 0.00 5.68
6202 7005 1.136085 CAATTGTTCTACGGTGTGCGG 60.136 52.381 0.00 0.00 0.00 5.69
6203 7006 1.529438 ACAATTGTTCTACGGTGTGCG 59.471 47.619 4.92 0.00 0.00 5.34
6204 7007 3.619233 AACAATTGTTCTACGGTGTGC 57.381 42.857 18.13 0.00 31.64 4.57
6215 7018 5.531659 TGTAACATACCGGTGAACAATTGTT 59.468 36.000 23.49 23.49 41.64 2.83
6216 7019 5.064558 TGTAACATACCGGTGAACAATTGT 58.935 37.500 19.93 4.92 0.00 2.71
6217 7020 5.614923 TGTAACATACCGGTGAACAATTG 57.385 39.130 19.93 3.24 0.00 2.32
6218 7021 6.636562 TTTGTAACATACCGGTGAACAATT 57.363 33.333 19.93 5.50 32.72 2.32
6219 7022 6.636562 TTTTGTAACATACCGGTGAACAAT 57.363 33.333 19.93 0.00 32.72 2.71
6220 7023 6.446781 TTTTTGTAACATACCGGTGAACAA 57.553 33.333 19.93 16.21 31.63 2.83
6221 7024 5.008811 CCTTTTTGTAACATACCGGTGAACA 59.991 40.000 19.93 11.05 0.00 3.18
6222 7025 5.454520 CCTTTTTGTAACATACCGGTGAAC 58.545 41.667 19.93 8.43 0.00 3.18
6223 7026 4.519730 CCCTTTTTGTAACATACCGGTGAA 59.480 41.667 19.93 0.00 0.00 3.18
6224 7027 4.073549 CCCTTTTTGTAACATACCGGTGA 58.926 43.478 19.93 1.17 0.00 4.02
6225 7028 3.191791 CCCCTTTTTGTAACATACCGGTG 59.808 47.826 19.93 3.36 0.00 4.94
6226 7029 3.074242 TCCCCTTTTTGTAACATACCGGT 59.926 43.478 13.98 13.98 0.00 5.28
6227 7030 3.688235 TCCCCTTTTTGTAACATACCGG 58.312 45.455 0.00 0.00 0.00 5.28
6228 7031 3.692593 CCTCCCCTTTTTGTAACATACCG 59.307 47.826 0.00 0.00 0.00 4.02
6229 7032 4.461431 CACCTCCCCTTTTTGTAACATACC 59.539 45.833 0.00 0.00 0.00 2.73
6230 7033 5.318630 TCACCTCCCCTTTTTGTAACATAC 58.681 41.667 0.00 0.00 0.00 2.39
6231 7034 5.586155 TCACCTCCCCTTTTTGTAACATA 57.414 39.130 0.00 0.00 0.00 2.29
6232 7035 4.463050 TCACCTCCCCTTTTTGTAACAT 57.537 40.909 0.00 0.00 0.00 2.71
6233 7036 3.955524 TCACCTCCCCTTTTTGTAACA 57.044 42.857 0.00 0.00 0.00 2.41
6234 7037 5.361571 TCTTTTCACCTCCCCTTTTTGTAAC 59.638 40.000 0.00 0.00 0.00 2.50
6235 7038 5.520751 TCTTTTCACCTCCCCTTTTTGTAA 58.479 37.500 0.00 0.00 0.00 2.41
6236 7039 5.103855 TCTCTTTTCACCTCCCCTTTTTGTA 60.104 40.000 0.00 0.00 0.00 2.41
6237 7040 3.960755 CTCTTTTCACCTCCCCTTTTTGT 59.039 43.478 0.00 0.00 0.00 2.83
6238 7041 4.215109 TCTCTTTTCACCTCCCCTTTTTG 58.785 43.478 0.00 0.00 0.00 2.44
6239 7042 4.536295 TCTCTTTTCACCTCCCCTTTTT 57.464 40.909 0.00 0.00 0.00 1.94
6240 7043 4.536295 TTCTCTTTTCACCTCCCCTTTT 57.464 40.909 0.00 0.00 0.00 2.27
6241 7044 4.749048 ATTCTCTTTTCACCTCCCCTTT 57.251 40.909 0.00 0.00 0.00 3.11
6242 7045 5.860648 TTATTCTCTTTTCACCTCCCCTT 57.139 39.130 0.00 0.00 0.00 3.95
6243 7046 5.860648 TTTATTCTCTTTTCACCTCCCCT 57.139 39.130 0.00 0.00 0.00 4.79
6244 7047 6.010850 AGTTTTATTCTCTTTTCACCTCCCC 58.989 40.000 0.00 0.00 0.00 4.81
6245 7048 8.512956 GTTAGTTTTATTCTCTTTTCACCTCCC 58.487 37.037 0.00 0.00 0.00 4.30
6246 7049 9.063615 TGTTAGTTTTATTCTCTTTTCACCTCC 57.936 33.333 0.00 0.00 0.00 4.30
6265 7068 9.699703 GTTCTCTCTATGTCTCTTTTGTTAGTT 57.300 33.333 0.00 0.00 0.00 2.24
6266 7069 8.861086 TGTTCTCTCTATGTCTCTTTTGTTAGT 58.139 33.333 0.00 0.00 0.00 2.24
6267 7070 9.352784 CTGTTCTCTCTATGTCTCTTTTGTTAG 57.647 37.037 0.00 0.00 0.00 2.34
6268 7071 8.861086 ACTGTTCTCTCTATGTCTCTTTTGTTA 58.139 33.333 0.00 0.00 0.00 2.41
6269 7072 7.731054 ACTGTTCTCTCTATGTCTCTTTTGTT 58.269 34.615 0.00 0.00 0.00 2.83
6270 7073 7.296628 ACTGTTCTCTCTATGTCTCTTTTGT 57.703 36.000 0.00 0.00 0.00 2.83
6271 7074 8.238481 GAACTGTTCTCTCTATGTCTCTTTTG 57.762 38.462 13.13 0.00 0.00 2.44


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

AutoCloner maintained by Alex Coulton.