Multiple sequence alignment - TraesCS1B01G437500

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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 TraesCS1B01G437500 chr1B 100.000 3371 0 0 1 3371 660104481 660107851 0.000000e+00 6226.0
1 TraesCS1B01G437500 chr1D 89.568 1112 69 28 1600 2694 474922392 474923473 0.000000e+00 1367.0
2 TraesCS1B01G437500 chr1D 88.115 833 33 20 122 896 474920570 474921394 0.000000e+00 929.0
3 TraesCS1B01G437500 chr1D 94.667 600 31 1 968 1566 474921721 474922320 0.000000e+00 929.0
4 TraesCS1B01G437500 chr1D 92.105 342 13 5 3037 3371 474924183 474924517 1.420000e-128 470.0
5 TraesCS1B01G437500 chr1D 93.600 125 7 1 1 124 474919274 474919398 5.740000e-43 185.0
6 TraesCS1B01G437500 chr1D 97.500 40 1 0 922 961 474921442 474921481 6.040000e-08 69.4
7 TraesCS1B01G437500 chr1A 93.103 522 35 1 965 1485 570446344 570446865 0.000000e+00 763.0
8 TraesCS1B01G437500 chr1A 89.775 577 32 17 1949 2502 570447974 570448546 0.000000e+00 713.0
9 TraesCS1B01G437500 chr1A 87.539 634 29 18 287 896 570445410 570446017 0.000000e+00 688.0
10 TraesCS1B01G437500 chr1A 92.571 350 18 4 3030 3371 570448853 570449202 2.340000e-136 496.0
11 TraesCS1B01G437500 chr1A 94.697 264 13 1 1591 1854 570447644 570447906 3.130000e-110 409.0
12 TraesCS1B01G437500 chr1A 91.078 269 21 3 1 267 570443573 570443840 8.890000e-96 361.0
13 TraesCS1B01G437500 chr1A 84.921 252 26 7 2788 3039 570448586 570448825 9.340000e-61 244.0
14 TraesCS1B01G437500 chr1A 84.459 148 21 2 2505 2652 465505240 465505095 9.750000e-31 145.0
15 TraesCS1B01G437500 chr1A 95.506 89 4 0 1478 1566 570447469 570447557 3.510000e-30 143.0
16 TraesCS1B01G437500 chr1A 97.674 43 1 0 2652 2694 570448545 570448587 1.300000e-09 75.0
17 TraesCS1B01G437500 chr7B 88.105 496 29 12 426 896 609229467 609229957 2.270000e-156 562.0
18 TraesCS1B01G437500 chr3B 88.471 399 24 8 519 896 89815992 89816389 2.370000e-126 462.0
19 TraesCS1B01G437500 chr3B 96.000 50 0 1 911 958 89816381 89816430 2.790000e-11 80.5
20 TraesCS1B01G437500 chr6B 88.608 395 23 7 522 896 397896999 397896607 8.520000e-126 460.0
21 TraesCS1B01G437500 chr6B 85.517 145 19 2 2509 2653 536829847 536829705 2.100000e-32 150.0
22 TraesCS1B01G437500 chr3A 81.121 339 27 7 383 704 463999442 463999760 1.560000e-58 237.0
23 TraesCS1B01G437500 chr7A 86.986 146 17 2 2509 2654 41966502 41966359 2.690000e-36 163.0
24 TraesCS1B01G437500 chr7D 84.431 167 21 4 2493 2657 145917569 145917732 3.480000e-35 159.0
25 TraesCS1B01G437500 chr7D 83.234 167 23 4 2493 2657 140920280 140920117 7.540000e-32 148.0
26 TraesCS1B01G437500 chr4B 86.000 150 18 3 2505 2654 510827805 510827659 1.250000e-34 158.0
27 TraesCS1B01G437500 chr2D 85.906 149 19 2 2505 2653 617101067 617101213 1.250000e-34 158.0
28 TraesCS1B01G437500 chr2A 85.906 149 19 2 2505 2653 747272181 747272327 1.250000e-34 158.0
29 TraesCS1B01G437500 chr4D 85.235 149 19 2 2505 2653 41217535 41217680 2.100000e-32 150.0


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 TraesCS1B01G437500 chr1B 660104481 660107851 3370 False 6226.000000 6226 100.000000 1 3371 1 chr1B.!!$F1 3370
1 TraesCS1B01G437500 chr1D 474919274 474924517 5243 False 658.233333 1367 92.592500 1 3371 6 chr1D.!!$F1 3370
2 TraesCS1B01G437500 chr1A 570443573 570449202 5629 False 432.444444 763 91.873778 1 3371 9 chr1A.!!$F1 3370

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
709 3479 0.038526 GCTGCTTGTTGCTCATTGCT 60.039 50.0 0.0 0.0 43.37 3.91 F
711 3481 0.319211 TGCTTGTTGCTCATTGCTGC 60.319 50.0 0.0 0.0 43.37 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2352 6070 0.670546 ATCACACAAAGGACGCTCCG 60.671 55.000 0.00 0.00 42.75 4.63 R
2433 6174 3.339253 TCTGGACCAACTCATGACATG 57.661 47.619 9.28 9.28 0.00 3.21 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
44 46 4.522405 TGAATATGAAGGGTGTGGTTGTTG 59.478 41.667 0.00 0.00 0.00 3.33
45 47 2.452600 ATGAAGGGTGTGGTTGTTGT 57.547 45.000 0.00 0.00 0.00 3.32
124 126 0.818040 GATTTGCCCGCTCCGGTTAT 60.818 55.000 0.00 0.00 46.80 1.89
125 127 1.101049 ATTTGCCCGCTCCGGTTATG 61.101 55.000 0.00 0.00 46.80 1.90
136 1312 2.019249 TCCGGTTATGGACACTCTACG 58.981 52.381 0.00 0.00 31.53 3.51
274 2991 0.609957 CATGTTCCTTGCAGCCTCCA 60.610 55.000 0.00 0.00 0.00 3.86
333 3069 7.674471 AAATAGTGGAGAAAGTAAGCAAGAC 57.326 36.000 0.00 0.00 0.00 3.01
433 3180 2.731374 GCGGATCTTCTCTCCCCG 59.269 66.667 0.00 0.00 42.74 5.73
504 3260 1.227883 CTAGGCCCTAGCTCGACGA 60.228 63.158 4.50 0.00 39.73 4.20
528 3296 2.263545 GTTGGTTAGTAGGGGTGGTCT 58.736 52.381 0.00 0.00 0.00 3.85
682 3452 0.520847 GCTCTGCTTCTTGTTCTGGC 59.479 55.000 0.00 0.00 0.00 4.85
704 3474 3.663176 GCCGCTGCTTGTTGCTCA 61.663 61.111 0.00 0.00 43.37 4.26
705 3475 2.986306 GCCGCTGCTTGTTGCTCAT 61.986 57.895 0.00 0.00 43.37 2.90
706 3476 1.582968 CCGCTGCTTGTTGCTCATT 59.417 52.632 0.00 0.00 43.37 2.57
707 3477 0.731514 CCGCTGCTTGTTGCTCATTG 60.732 55.000 0.00 0.00 43.37 2.82
708 3478 1.342082 CGCTGCTTGTTGCTCATTGC 61.342 55.000 0.00 0.00 43.37 3.56
709 3479 0.038526 GCTGCTTGTTGCTCATTGCT 60.039 50.000 0.00 0.00 43.37 3.91
710 3480 1.698165 CTGCTTGTTGCTCATTGCTG 58.302 50.000 0.00 0.00 43.37 4.41
711 3481 0.319211 TGCTTGTTGCTCATTGCTGC 60.319 50.000 0.00 0.00 43.37 5.25
712 3482 1.012486 GCTTGTTGCTCATTGCTGCC 61.012 55.000 0.00 0.00 43.37 4.85
713 3483 0.731514 CTTGTTGCTCATTGCTGCCG 60.732 55.000 0.00 0.00 43.37 5.69
717 3488 4.849329 GCTCATTGCTGCCGCTGC 62.849 66.667 14.83 14.83 38.95 5.25
781 3552 9.161629 TCTGTACTGAAATTATTGTGGTGTATG 57.838 33.333 0.00 0.00 0.00 2.39
782 3553 8.856153 TGTACTGAAATTATTGTGGTGTATGT 57.144 30.769 0.00 0.00 0.00 2.29
783 3554 9.290988 TGTACTGAAATTATTGTGGTGTATGTT 57.709 29.630 0.00 0.00 0.00 2.71
784 3555 9.554724 GTACTGAAATTATTGTGGTGTATGTTG 57.445 33.333 0.00 0.00 0.00 3.33
785 3556 8.177119 ACTGAAATTATTGTGGTGTATGTTGT 57.823 30.769 0.00 0.00 0.00 3.32
786 3557 8.081633 ACTGAAATTATTGTGGTGTATGTTGTG 58.918 33.333 0.00 0.00 0.00 3.33
792 3563 5.487153 TTGTGGTGTATGTTGTGTTGTAC 57.513 39.130 0.00 0.00 0.00 2.90
793 3564 3.878103 TGTGGTGTATGTTGTGTTGTACC 59.122 43.478 0.00 0.00 0.00 3.34
826 3597 9.455847 CCATTAGAAATATTTTTGTAGAGCAGC 57.544 33.333 1.43 0.00 0.00 5.25
828 3599 8.807948 TTAGAAATATTTTTGTAGAGCAGCCT 57.192 30.769 1.43 0.00 0.00 4.58
847 3619 3.683822 GCCTCTCAAGTGATTTGACAGAG 59.316 47.826 0.00 0.00 40.82 3.35
848 3620 4.252073 CCTCTCAAGTGATTTGACAGAGG 58.748 47.826 10.22 10.22 44.83 3.69
853 3625 6.828273 TCTCAAGTGATTTGACAGAGGAAAAA 59.172 34.615 0.00 0.00 40.82 1.94
896 3669 7.713734 ATTGTGAAGATCATGGACTGAAAAT 57.286 32.000 0.00 0.00 37.44 1.82
897 3670 7.528996 TTGTGAAGATCATGGACTGAAAATT 57.471 32.000 0.00 0.00 37.44 1.82
898 3671 6.916440 TGTGAAGATCATGGACTGAAAATTG 58.084 36.000 0.00 0.00 37.44 2.32
899 3672 6.491062 TGTGAAGATCATGGACTGAAAATTGT 59.509 34.615 0.00 0.00 37.44 2.71
900 3673 6.805271 GTGAAGATCATGGACTGAAAATTGTG 59.195 38.462 0.00 0.00 37.44 3.33
902 3675 7.231115 TGAAGATCATGGACTGAAAATTGTGAA 59.769 33.333 0.00 0.00 37.44 3.18
903 3676 7.154435 AGATCATGGACTGAAAATTGTGAAG 57.846 36.000 0.00 0.00 37.44 3.02
904 3677 6.944290 AGATCATGGACTGAAAATTGTGAAGA 59.056 34.615 0.00 0.00 37.44 2.87
908 3681 7.395206 TCATGGACTGAAAATTGTGAAGATCAT 59.605 33.333 0.00 0.00 0.00 2.45
910 3683 6.071784 TGGACTGAAAATTGTGAAGATCATGG 60.072 38.462 0.00 0.00 0.00 3.66
911 3684 6.151648 GGACTGAAAATTGTGAAGATCATGGA 59.848 38.462 0.00 0.00 0.00 3.41
912 3685 6.917533 ACTGAAAATTGTGAAGATCATGGAC 58.082 36.000 0.00 0.00 0.00 4.02
914 3687 6.916440 TGAAAATTGTGAAGATCATGGACTG 58.084 36.000 0.00 0.00 0.00 3.51
915 3688 6.716173 TGAAAATTGTGAAGATCATGGACTGA 59.284 34.615 0.00 0.00 38.53 3.41
916 3689 7.231115 TGAAAATTGTGAAGATCATGGACTGAA 59.769 33.333 0.00 0.00 37.44 3.02
917 3690 7.528996 AAATTGTGAAGATCATGGACTGAAA 57.471 32.000 0.00 0.00 37.44 2.69
920 3693 4.761739 TGTGAAGATCATGGACTGAAAACC 59.238 41.667 0.00 0.00 37.44 3.27
985 4016 6.368779 TGTAGTAAGCAAAACCTACAGGAT 57.631 37.500 1.29 0.00 35.95 3.24
1036 4067 1.014564 CGGTCCGTCAGAGAAAAGGC 61.015 60.000 2.08 0.00 0.00 4.35
1071 4102 8.697507 TCTGTCTGAGTAATAGCAGATTGATA 57.302 34.615 0.00 0.00 42.51 2.15
1076 4107 6.914259 TGAGTAATAGCAGATTGATACCTCG 58.086 40.000 0.00 0.00 0.00 4.63
1098 4129 4.260620 CGTTTAGAGACAACCACCTGTTTG 60.261 45.833 0.00 0.00 34.00 2.93
1109 4140 6.603997 ACAACCACCTGTTTGTTGATTAGTTA 59.396 34.615 13.46 0.00 41.38 2.24
1349 4381 2.734673 GCTCGTCTGGCTGCTTTCG 61.735 63.158 0.00 0.41 0.00 3.46
1355 4387 2.413837 GTCTGGCTGCTTTCGTAAAGA 58.586 47.619 0.00 0.00 41.02 2.52
1357 4389 3.067106 TCTGGCTGCTTTCGTAAAGAAG 58.933 45.455 0.00 9.99 45.42 2.85
1427 4459 6.563222 ATGAAGTTTTGAATTTGCAATGGG 57.437 33.333 0.00 0.00 0.00 4.00
1437 4469 6.528321 TGAATTTGCAATGGGTTTGTGATAA 58.472 32.000 0.00 0.00 37.65 1.75
1556 5200 3.702048 CCGGCGACCCTTCAGGAA 61.702 66.667 9.30 0.00 39.89 3.36
1566 5210 3.418047 ACCCTTCAGGAAACGGTAAATG 58.582 45.455 0.00 0.00 39.89 2.32
1567 5211 2.752903 CCCTTCAGGAAACGGTAAATGG 59.247 50.000 0.00 0.00 38.24 3.16
1569 5213 1.828979 TCAGGAAACGGTAAATGGGC 58.171 50.000 0.00 0.00 0.00 5.36
1570 5214 0.450184 CAGGAAACGGTAAATGGGCG 59.550 55.000 0.00 0.00 0.00 6.13
1571 5215 0.325602 AGGAAACGGTAAATGGGCGA 59.674 50.000 0.00 0.00 0.00 5.54
1572 5216 1.166989 GGAAACGGTAAATGGGCGAA 58.833 50.000 0.00 0.00 0.00 4.70
1573 5217 1.746787 GGAAACGGTAAATGGGCGAAT 59.253 47.619 0.00 0.00 0.00 3.34
1580 5287 3.186909 GGTAAATGGGCGAATTTGCTTC 58.813 45.455 17.19 10.41 33.95 3.86
1581 5288 2.385013 AAATGGGCGAATTTGCTTCC 57.615 45.000 17.19 11.26 34.52 3.46
1582 5289 1.265236 AATGGGCGAATTTGCTTCCA 58.735 45.000 17.19 16.29 31.99 3.53
1586 5293 2.270923 GGGCGAATTTGCTTCCATTTC 58.729 47.619 17.19 0.00 34.52 2.17
1587 5294 2.270923 GGCGAATTTGCTTCCATTTCC 58.729 47.619 17.19 0.00 34.52 3.13
1589 5296 3.324993 GCGAATTTGCTTCCATTTCCAA 58.675 40.909 10.62 0.00 0.00 3.53
1614 5321 7.156673 ACGTTTGGAGCTAAATTACTTACTGA 58.843 34.615 0.00 0.00 0.00 3.41
1708 5415 2.425592 CTGAGGCAACGGACCACA 59.574 61.111 0.00 0.00 46.39 4.17
1795 5502 4.507916 CTCCTCCCGCTCCTCCGA 62.508 72.222 0.00 0.00 0.00 4.55
1798 5505 2.519541 CTCCCGCTCCTCCGATCA 60.520 66.667 0.00 0.00 0.00 2.92
1857 5564 2.646175 GGCTGCTCAGGGTACGTCA 61.646 63.158 0.00 0.00 0.00 4.35
1858 5565 1.517832 GCTGCTCAGGGTACGTCAT 59.482 57.895 0.00 0.00 0.00 3.06
1859 5566 0.528684 GCTGCTCAGGGTACGTCATC 60.529 60.000 0.00 0.00 0.00 2.92
1861 5568 0.613572 TGCTCAGGGTACGTCATCCA 60.614 55.000 0.00 0.00 0.00 3.41
1871 5589 8.474831 TCAGGGTACGTCATCCATATATATTTG 58.525 37.037 0.00 0.00 0.00 2.32
1872 5590 7.710907 CAGGGTACGTCATCCATATATATTTGG 59.289 40.741 14.29 14.29 0.00 3.28
1876 5594 9.109393 GTACGTCATCCATATATATTTGGCAAT 57.891 33.333 15.34 4.47 32.80 3.56
1927 5645 2.952702 GCAGAGTAGGACAGTCCCATCT 60.953 54.545 16.72 13.61 37.19 2.90
1929 5647 2.856231 AGAGTAGGACAGTCCCATCTCT 59.144 50.000 22.73 22.73 37.19 3.10
1953 5671 3.857217 CAGAGGCTCATCTGCTGTT 57.143 52.632 18.26 0.00 40.26 3.16
1954 5672 2.975732 CAGAGGCTCATCTGCTGTTA 57.024 50.000 18.26 0.00 40.26 2.41
1957 5675 3.560481 CAGAGGCTCATCTGCTGTTAATG 59.440 47.826 18.26 0.00 40.26 1.90
2352 6070 0.318784 ACTTCGACCGCACTGAACTC 60.319 55.000 0.00 0.00 0.00 3.01
2391 6109 0.249868 TTCTCCGTGGAGCAGTTGTG 60.250 55.000 11.17 0.00 41.71 3.33
2393 6111 0.946221 CTCCGTGGAGCAGTTGTGAC 60.946 60.000 2.38 0.00 35.31 3.67
2394 6112 1.227527 CCGTGGAGCAGTTGTGACA 60.228 57.895 0.00 0.00 0.00 3.58
2396 6114 1.337728 CCGTGGAGCAGTTGTGACATA 60.338 52.381 0.00 0.00 0.00 2.29
2397 6115 2.412870 CGTGGAGCAGTTGTGACATAA 58.587 47.619 0.00 0.00 0.00 1.90
2398 6116 2.413112 CGTGGAGCAGTTGTGACATAAG 59.587 50.000 0.00 0.00 0.00 1.73
2402 6120 6.338146 GTGGAGCAGTTGTGACATAAGTATA 58.662 40.000 0.00 0.00 0.00 1.47
2404 6122 7.169982 GTGGAGCAGTTGTGACATAAGTATATC 59.830 40.741 0.00 0.00 0.00 1.63
2406 6124 8.577296 GGAGCAGTTGTGACATAAGTATATCTA 58.423 37.037 0.00 0.00 0.00 1.98
2407 6125 9.619316 GAGCAGTTGTGACATAAGTATATCTAG 57.381 37.037 0.00 0.00 0.00 2.43
2408 6126 9.355916 AGCAGTTGTGACATAAGTATATCTAGA 57.644 33.333 0.00 0.00 0.00 2.43
2457 6198 5.027293 TGTCATGAGTTGGTCCAGATATG 57.973 43.478 0.00 0.00 0.00 1.78
2458 6199 4.141642 TGTCATGAGTTGGTCCAGATATGG 60.142 45.833 0.00 0.00 0.00 2.74
2470 6211 7.226441 TGGTCCAGATATGGAGAATTATGTTG 58.774 38.462 9.95 0.00 38.88 3.33
2480 6221 7.581213 TGGAGAATTATGTTGTGTTCACTTT 57.419 32.000 4.59 0.00 0.00 2.66
2507 6250 5.128827 TCTCTCTCTCTCAGAACTACTCTCC 59.871 48.000 0.00 0.00 29.07 3.71
2512 6255 4.004314 CTCTCAGAACTACTCTCCGTTCA 58.996 47.826 0.00 0.00 41.40 3.18
2521 6264 9.796180 AGAACTACTCTCCGTTCACTATTATAT 57.204 33.333 0.00 0.00 41.40 0.86
2528 6271 9.347934 CTCTCCGTTCACTATTATATGATGTTC 57.652 37.037 0.00 0.00 0.00 3.18
2529 6272 9.078990 TCTCCGTTCACTATTATATGATGTTCT 57.921 33.333 0.00 0.00 0.00 3.01
2566 6309 7.525688 AAATCAGATGTATGTAGACACGTTG 57.474 36.000 0.00 0.00 30.52 4.10
2571 6314 6.469275 CAGATGTATGTAGACACGTTGTAGTG 59.531 42.308 0.00 0.00 46.83 2.74
2581 6324 4.593597 CACGTTGTAGTGTGTTTGTTCT 57.406 40.909 0.00 0.00 37.35 3.01
2582 6325 4.574759 CACGTTGTAGTGTGTTTGTTCTC 58.425 43.478 0.00 0.00 37.35 2.87
2583 6326 4.328983 CACGTTGTAGTGTGTTTGTTCTCT 59.671 41.667 0.00 0.00 37.35 3.10
2584 6327 4.565564 ACGTTGTAGTGTGTTTGTTCTCTC 59.434 41.667 0.00 0.00 0.00 3.20
2585 6328 4.317139 CGTTGTAGTGTGTTTGTTCTCTCG 60.317 45.833 0.00 0.00 0.00 4.04
2586 6329 4.380841 TGTAGTGTGTTTGTTCTCTCGT 57.619 40.909 0.00 0.00 0.00 4.18
2587 6330 4.751060 TGTAGTGTGTTTGTTCTCTCGTT 58.249 39.130 0.00 0.00 0.00 3.85
2588 6331 5.172934 TGTAGTGTGTTTGTTCTCTCGTTT 58.827 37.500 0.00 0.00 0.00 3.60
2589 6332 4.859629 AGTGTGTTTGTTCTCTCGTTTC 57.140 40.909 0.00 0.00 0.00 2.78
2590 6333 4.250464 AGTGTGTTTGTTCTCTCGTTTCA 58.750 39.130 0.00 0.00 0.00 2.69
2591 6334 4.330074 AGTGTGTTTGTTCTCTCGTTTCAG 59.670 41.667 0.00 0.00 0.00 3.02
2592 6335 4.092968 GTGTGTTTGTTCTCTCGTTTCAGT 59.907 41.667 0.00 0.00 0.00 3.41
2593 6336 4.693566 TGTGTTTGTTCTCTCGTTTCAGTT 59.306 37.500 0.00 0.00 0.00 3.16
2594 6337 5.163893 TGTGTTTGTTCTCTCGTTTCAGTTC 60.164 40.000 0.00 0.00 0.00 3.01
2604 6347 5.625251 TCTCGTTTCAGTTCGTATGTAGTC 58.375 41.667 0.00 0.00 0.00 2.59
2605 6348 4.726416 TCGTTTCAGTTCGTATGTAGTCC 58.274 43.478 0.00 0.00 0.00 3.85
2694 6437 9.930693 CAAGGTAAATCTCTTGAAACTACTAGT 57.069 33.333 0.00 0.00 41.94 2.57
2697 6440 8.751242 GGTAAATCTCTTGAAACTACTAGTCCT 58.249 37.037 0.00 0.00 0.00 3.85
2700 6443 9.713713 AAATCTCTTGAAACTACTAGTCCTTTC 57.286 33.333 0.00 8.33 0.00 2.62
2701 6444 6.910995 TCTCTTGAAACTACTAGTCCTTTCG 58.089 40.000 0.00 0.00 0.00 3.46
2702 6445 6.713903 TCTCTTGAAACTACTAGTCCTTTCGA 59.286 38.462 0.00 6.78 0.00 3.71
2703 6446 7.393796 TCTCTTGAAACTACTAGTCCTTTCGAT 59.606 37.037 0.00 0.00 0.00 3.59
2704 6447 7.536855 TCTTGAAACTACTAGTCCTTTCGATC 58.463 38.462 0.00 0.00 0.00 3.69
2705 6448 6.205101 TGAAACTACTAGTCCTTTCGATCC 57.795 41.667 0.00 0.00 0.00 3.36
2706 6449 5.713389 TGAAACTACTAGTCCTTTCGATCCA 59.287 40.000 0.00 0.00 0.00 3.41
2707 6450 6.380274 TGAAACTACTAGTCCTTTCGATCCAT 59.620 38.462 0.00 0.00 0.00 3.41
2708 6451 7.558807 TGAAACTACTAGTCCTTTCGATCCATA 59.441 37.037 0.00 0.00 0.00 2.74
2709 6452 8.480133 AAACTACTAGTCCTTTCGATCCATAT 57.520 34.615 0.00 0.00 0.00 1.78
2710 6453 8.480133 AACTACTAGTCCTTTCGATCCATATT 57.520 34.615 0.00 0.00 0.00 1.28
2711 6454 9.584008 AACTACTAGTCCTTTCGATCCATATTA 57.416 33.333 0.00 0.00 0.00 0.98
2712 6455 9.584008 ACTACTAGTCCTTTCGATCCATATTAA 57.416 33.333 0.00 0.00 0.00 1.40
2715 6458 9.712305 ACTAGTCCTTTCGATCCATATTAATTG 57.288 33.333 0.00 0.00 0.00 2.32
2716 6459 9.929180 CTAGTCCTTTCGATCCATATTAATTGA 57.071 33.333 0.00 0.00 0.00 2.57
2718 6461 9.224267 AGTCCTTTCGATCCATATTAATTGATG 57.776 33.333 0.00 0.00 0.00 3.07
2719 6462 9.219603 GTCCTTTCGATCCATATTAATTGATGA 57.780 33.333 0.00 0.00 0.00 2.92
2720 6463 9.964354 TCCTTTCGATCCATATTAATTGATGAT 57.036 29.630 0.00 0.00 0.00 2.45
2763 6506 9.257651 AGTATAAAGTTGTACTTTGTCAGTGTC 57.742 33.333 13.52 0.00 46.83 3.67
2764 6507 9.037737 GTATAAAGTTGTACTTTGTCAGTGTCA 57.962 33.333 13.52 0.00 46.83 3.58
2765 6508 6.811253 AAAGTTGTACTTTGTCAGTGTCAA 57.189 33.333 4.14 0.00 45.83 3.18
2766 6509 7.391148 AAAGTTGTACTTTGTCAGTGTCAAT 57.609 32.000 3.62 0.00 45.83 2.57
2767 6510 7.391148 AAGTTGTACTTTGTCAGTGTCAATT 57.609 32.000 3.62 0.00 34.11 2.32
2768 6511 8.500753 AAGTTGTACTTTGTCAGTGTCAATTA 57.499 30.769 3.62 0.00 34.11 1.40
2769 6512 8.500753 AGTTGTACTTTGTCAGTGTCAATTAA 57.499 30.769 3.62 0.00 35.97 1.40
2770 6513 9.120538 AGTTGTACTTTGTCAGTGTCAATTAAT 57.879 29.630 3.62 0.00 35.97 1.40
2771 6514 9.730420 GTTGTACTTTGTCAGTGTCAATTAATT 57.270 29.630 3.62 0.00 35.97 1.40
2773 6516 9.729023 TGTACTTTGTCAGTGTCAATTAATTTG 57.271 29.630 3.62 0.00 35.97 2.32
2774 6517 9.180678 GTACTTTGTCAGTGTCAATTAATTTGG 57.819 33.333 3.62 0.00 35.97 3.28
2775 6518 7.209475 ACTTTGTCAGTGTCAATTAATTTGGG 58.791 34.615 3.62 0.00 33.14 4.12
2776 6519 6.723298 TTGTCAGTGTCAATTAATTTGGGT 57.277 33.333 0.00 0.00 35.92 4.51
2777 6520 7.825331 TTGTCAGTGTCAATTAATTTGGGTA 57.175 32.000 0.00 0.00 35.92 3.69
2778 6521 7.447374 TGTCAGTGTCAATTAATTTGGGTAG 57.553 36.000 0.00 0.00 35.92 3.18
2779 6522 6.432783 TGTCAGTGTCAATTAATTTGGGTAGG 59.567 38.462 0.00 0.00 35.92 3.18
2780 6523 6.657541 GTCAGTGTCAATTAATTTGGGTAGGA 59.342 38.462 0.00 0.00 35.92 2.94
2781 6524 6.884295 TCAGTGTCAATTAATTTGGGTAGGAG 59.116 38.462 0.00 0.00 35.92 3.69
2782 6525 6.095440 CAGTGTCAATTAATTTGGGTAGGAGG 59.905 42.308 0.00 0.00 35.92 4.30
2783 6526 5.359860 GTGTCAATTAATTTGGGTAGGAGGG 59.640 44.000 0.00 0.00 35.92 4.30
2784 6527 5.254267 TGTCAATTAATTTGGGTAGGAGGGA 59.746 40.000 0.00 0.00 35.92 4.20
2785 6528 5.828328 GTCAATTAATTTGGGTAGGAGGGAG 59.172 44.000 0.00 0.00 35.92 4.30
2786 6529 3.945640 TTAATTTGGGTAGGAGGGAGC 57.054 47.619 0.00 0.00 0.00 4.70
2787 6530 1.681229 AATTTGGGTAGGAGGGAGCA 58.319 50.000 0.00 0.00 0.00 4.26
2799 6542 2.436417 GAGGGAGCAGCAAATTGTACA 58.564 47.619 0.00 0.00 0.00 2.90
2822 6565 8.681486 ACATGCTAAGCAAGTCATCAAATATA 57.319 30.769 0.00 0.00 43.62 0.86
2823 6566 9.293404 ACATGCTAAGCAAGTCATCAAATATAT 57.707 29.630 0.00 0.00 43.62 0.86
2824 6567 9.556030 CATGCTAAGCAAGTCATCAAATATATG 57.444 33.333 0.00 0.00 43.62 1.78
2850 6757 3.733709 GGGGGAATGCATTCTCGAT 57.266 52.632 32.48 2.42 38.17 3.59
2865 6772 9.342308 TGCATTCTCGATATTTTATTTCCTTCT 57.658 29.630 0.00 0.00 0.00 2.85
2902 6809 3.563479 GGGCCCAACTCTCTAAAATCCAA 60.563 47.826 19.95 0.00 0.00 3.53
2907 6814 6.628175 GCCCAACTCTCTAAAATCCAAATTCC 60.628 42.308 0.00 0.00 0.00 3.01
2932 6839 9.844257 CCTCTAATTTTAGAATCAGATCCTTGT 57.156 33.333 1.97 0.00 39.15 3.16
2960 6867 7.402054 TGGGAAAAAGATGCTTCTAGAATACA 58.598 34.615 5.44 8.14 0.00 2.29
3004 6911 7.307751 GGTTCAATTAAAAGATCACGTGTCAGA 60.308 37.037 16.51 0.00 0.00 3.27
3035 6942 9.170734 CTCTGAGATGAAAACTTTATCCAATGA 57.829 33.333 0.00 0.00 0.00 2.57
3065 7304 5.180117 GCATATCTAACGGCTGACATTTGAT 59.820 40.000 0.00 0.00 0.00 2.57
3082 7329 9.494479 GACATTTGATGTTATTGTCACACTATG 57.506 33.333 0.00 0.00 45.03 2.23
3086 7333 7.770801 TGATGTTATTGTCACACTATGTAGC 57.229 36.000 0.00 0.00 0.00 3.58
3092 7339 4.563337 TGTCACACTATGTAGCGGTATC 57.437 45.455 0.00 0.00 0.00 2.24
3093 7340 3.949113 TGTCACACTATGTAGCGGTATCA 59.051 43.478 0.00 0.00 0.00 2.15
3152 7406 0.949397 CAGCGCACATAAGGCATGAT 59.051 50.000 11.47 0.00 38.10 2.45
3154 7408 0.110509 GCGCACATAAGGCATGATCG 60.111 55.000 0.30 0.00 38.10 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 46 0.179215 CGCTTCTCATTGTTCGCCAC 60.179 55.000 0.00 0.00 0.00 5.01
45 47 1.298157 CCGCTTCTCATTGTTCGCCA 61.298 55.000 0.00 0.00 0.00 5.69
74 76 4.471726 GTCCGCGGACGTGTCGAT 62.472 66.667 39.77 0.00 37.70 3.59
114 116 0.824759 AGAGTGTCCATAACCGGAGC 59.175 55.000 9.46 0.00 35.10 4.70
176 1352 3.168237 GAAATGGTCGCGCGATGGG 62.168 63.158 37.03 3.87 0.00 4.00
219 1396 1.351153 GTCGCACTGAGGCTTACTTC 58.649 55.000 0.00 0.00 0.00 3.01
274 2991 3.610040 TGCTGATACTCGGTCAATGTT 57.390 42.857 0.00 0.00 0.00 2.71
333 3069 1.512694 GCTTGGAAAAGATGGCCGG 59.487 57.895 0.00 0.00 0.00 6.13
419 3166 2.028337 GCGCGGGGAGAGAAGATC 59.972 66.667 8.83 0.00 0.00 2.75
468 3219 0.043485 AGGAGGGAGGAAGAAGGGAC 59.957 60.000 0.00 0.00 0.00 4.46
504 3260 0.178894 ACCCCTACTAACCAACCCGT 60.179 55.000 0.00 0.00 0.00 5.28
528 3296 1.379176 CTCCTCCTCGCTCCTCACA 60.379 63.158 0.00 0.00 0.00 3.58
557 3325 0.102120 GTGCCATCTCAGAGAGGACG 59.898 60.000 13.87 0.00 0.00 4.79
654 3422 2.434534 AAGCAGAGCAGAGCAGCG 60.435 61.111 0.00 0.00 40.15 5.18
717 3488 2.613133 GGATAAGAAGCAGAGCAGCAAG 59.387 50.000 0.00 0.00 36.85 4.01
781 3552 3.587923 TGGCTATACGGTACAACACAAC 58.412 45.455 0.00 0.00 0.00 3.32
782 3553 3.957591 TGGCTATACGGTACAACACAA 57.042 42.857 0.00 0.00 0.00 3.33
783 3554 4.475051 AATGGCTATACGGTACAACACA 57.525 40.909 0.00 0.00 0.00 3.72
784 3555 5.835257 TCTAATGGCTATACGGTACAACAC 58.165 41.667 0.00 0.00 0.00 3.32
785 3556 6.468333 TTCTAATGGCTATACGGTACAACA 57.532 37.500 0.00 0.00 0.00 3.33
786 3557 7.958053 ATTTCTAATGGCTATACGGTACAAC 57.042 36.000 0.00 0.00 0.00 3.32
816 3587 1.547820 CACTTGAGAGGCTGCTCTACA 59.452 52.381 12.88 0.00 35.91 2.74
828 3599 5.551305 TTCCTCTGTCAAATCACTTGAGA 57.449 39.130 0.00 0.00 44.83 3.27
896 3669 5.241506 GGTTTTCAGTCCATGATCTTCACAA 59.758 40.000 0.00 0.00 37.89 3.33
897 3670 4.761739 GGTTTTCAGTCCATGATCTTCACA 59.238 41.667 0.00 0.00 37.89 3.58
898 3671 5.006386 AGGTTTTCAGTCCATGATCTTCAC 58.994 41.667 0.00 0.00 37.89 3.18
899 3672 5.013495 AGAGGTTTTCAGTCCATGATCTTCA 59.987 40.000 0.00 0.00 37.89 3.02
900 3673 5.353678 CAGAGGTTTTCAGTCCATGATCTTC 59.646 44.000 0.00 0.00 37.89 2.87
902 3675 4.533707 TCAGAGGTTTTCAGTCCATGATCT 59.466 41.667 0.00 0.00 37.89 2.75
903 3676 4.836825 TCAGAGGTTTTCAGTCCATGATC 58.163 43.478 0.00 0.00 37.89 2.92
904 3677 4.916041 TCAGAGGTTTTCAGTCCATGAT 57.084 40.909 0.00 0.00 37.89 2.45
908 3681 6.043243 AGAGTTTATCAGAGGTTTTCAGTCCA 59.957 38.462 0.00 0.00 0.00 4.02
910 3683 9.490379 TTTAGAGTTTATCAGAGGTTTTCAGTC 57.510 33.333 0.00 0.00 0.00 3.51
911 3684 9.274206 GTTTAGAGTTTATCAGAGGTTTTCAGT 57.726 33.333 0.00 0.00 0.00 3.41
912 3685 9.495572 AGTTTAGAGTTTATCAGAGGTTTTCAG 57.504 33.333 0.00 0.00 0.00 3.02
914 3687 9.274206 ACAGTTTAGAGTTTATCAGAGGTTTTC 57.726 33.333 0.00 0.00 0.00 2.29
916 3689 9.930693 CTACAGTTTAGAGTTTATCAGAGGTTT 57.069 33.333 0.00 0.00 0.00 3.27
917 3690 9.091220 ACTACAGTTTAGAGTTTATCAGAGGTT 57.909 33.333 0.00 0.00 0.00 3.50
920 3693 8.865001 GCAACTACAGTTTAGAGTTTATCAGAG 58.135 37.037 0.00 0.00 35.83 3.35
962 3757 5.811796 TCCTGTAGGTTTTGCTTACTACA 57.188 39.130 0.00 0.00 42.32 2.74
963 3758 8.255905 TCTAATCCTGTAGGTTTTGCTTACTAC 58.744 37.037 0.00 0.00 37.05 2.73
964 3759 8.370266 TCTAATCCTGTAGGTTTTGCTTACTA 57.630 34.615 0.00 0.00 36.34 1.82
965 3760 7.253905 TCTAATCCTGTAGGTTTTGCTTACT 57.746 36.000 0.00 0.00 36.34 2.24
966 3761 7.822822 TCTTCTAATCCTGTAGGTTTTGCTTAC 59.177 37.037 0.00 0.00 36.34 2.34
985 4016 4.042809 TCCTTCCATTGTGGCTTCTTCTAA 59.957 41.667 0.00 0.00 37.47 2.10
1023 4054 2.620585 AGTTGCTTGCCTTTTCTCTGAC 59.379 45.455 0.00 0.00 0.00 3.51
1036 4067 5.991328 TTACTCAGACAGAAAGTTGCTTG 57.009 39.130 0.00 0.00 0.00 4.01
1071 4102 2.036862 GGTGGTTGTCTCTAAACGAGGT 59.963 50.000 0.00 0.00 40.30 3.85
1076 4107 5.169836 CAAACAGGTGGTTGTCTCTAAAC 57.830 43.478 0.00 0.00 40.35 2.01
1109 4140 8.458573 AGAGAGAAATATAACGATGAGAGTGT 57.541 34.615 0.00 0.00 0.00 3.55
1129 4161 0.108138 CCACGGCAACCCTAAGAGAG 60.108 60.000 0.00 0.00 0.00 3.20
1335 4367 2.413837 TCTTTACGAAAGCAGCCAGAC 58.586 47.619 0.00 0.00 38.39 3.51
1349 4381 3.498777 AGCTTGCCGAACTTCTTCTTTAC 59.501 43.478 0.00 0.00 0.00 2.01
1355 4387 1.604278 GTCAAGCTTGCCGAACTTCTT 59.396 47.619 21.99 0.00 0.00 2.52
1357 4389 0.944386 TGTCAAGCTTGCCGAACTTC 59.056 50.000 21.99 5.02 0.00 3.01
1427 4459 7.945033 TGAAATTGCCTTCTTTATCACAAAC 57.055 32.000 0.00 0.00 0.00 2.93
1461 4493 0.247419 CGCGTGAGTGCAATGATCAC 60.247 55.000 0.00 1.74 39.93 3.06
1550 5194 1.828979 GCCCATTTACCGTTTCCTGA 58.171 50.000 0.00 0.00 0.00 3.86
1556 5200 2.672760 GCAAATTCGCCCATTTACCGTT 60.673 45.455 0.00 0.00 0.00 4.44
1566 5210 2.270923 GAAATGGAAGCAAATTCGCCC 58.729 47.619 0.00 0.00 38.95 6.13
1567 5211 2.270923 GGAAATGGAAGCAAATTCGCC 58.729 47.619 0.00 0.00 38.95 5.54
1569 5213 3.364621 CGTTGGAAATGGAAGCAAATTCG 59.635 43.478 0.00 0.00 38.95 3.34
1570 5214 4.306600 ACGTTGGAAATGGAAGCAAATTC 58.693 39.130 0.00 0.00 37.08 2.17
1571 5215 4.335400 ACGTTGGAAATGGAAGCAAATT 57.665 36.364 0.00 0.00 37.08 1.82
1572 5216 4.335400 AACGTTGGAAATGGAAGCAAAT 57.665 36.364 0.00 0.00 37.08 2.32
1573 5217 3.810310 AACGTTGGAAATGGAAGCAAA 57.190 38.095 0.00 0.00 37.08 3.68
1587 5294 7.744715 CAGTAAGTAATTTAGCTCCAAACGTTG 59.255 37.037 0.00 0.00 0.00 4.10
1589 5296 7.156673 TCAGTAAGTAATTTAGCTCCAAACGT 58.843 34.615 0.00 0.00 0.00 3.99
1601 5308 8.301252 ACCAAACAACCTTCAGTAAGTAATTT 57.699 30.769 0.00 0.00 0.00 1.82
1614 5321 2.114616 TGGATGCAACCAAACAACCTT 58.885 42.857 14.14 0.00 36.96 3.50
1699 5406 2.803817 GGTGGTCTGTGTGGTCCGT 61.804 63.158 0.00 0.00 0.00 4.69
1708 5415 1.845627 CTGCATCCTGGGTGGTCTGT 61.846 60.000 9.40 0.00 37.07 3.41
1795 5502 1.043116 TTCTGCCGTCGGAGGATGAT 61.043 55.000 17.49 0.00 0.00 2.45
1798 5505 1.742768 GATTCTGCCGTCGGAGGAT 59.257 57.895 17.49 9.75 0.00 3.24
1857 5564 9.758021 TGAACTGATTGCCAAATATATATGGAT 57.242 29.630 6.57 0.00 39.12 3.41
1858 5565 9.585369 TTGAACTGATTGCCAAATATATATGGA 57.415 29.630 6.57 0.00 39.12 3.41
1872 5590 3.061322 TGCAGCAAATTGAACTGATTGC 58.939 40.909 0.00 1.31 46.43 3.56
1876 5594 3.797451 TTGTGCAGCAAATTGAACTGA 57.203 38.095 0.00 0.00 33.53 3.41
1927 5645 3.867600 GCAGATGAGCCTCTGTTTTGAGA 60.868 47.826 9.50 0.00 43.75 3.27
1929 5647 2.039480 AGCAGATGAGCCTCTGTTTTGA 59.961 45.455 9.50 0.00 43.75 2.69
1953 5671 8.599055 TGAAATACTGCATTTTTGCAACATTA 57.401 26.923 0.00 0.00 44.88 1.90
1954 5672 7.493743 TGAAATACTGCATTTTTGCAACATT 57.506 28.000 0.00 2.31 44.88 2.71
1957 5675 5.376537 GCTGAAATACTGCATTTTTGCAAC 58.623 37.500 0.00 0.00 44.88 4.17
2139 5857 3.052082 CACACCAGCGCCTTGGAG 61.052 66.667 21.44 15.92 40.87 3.86
2352 6070 0.670546 ATCACACAAAGGACGCTCCG 60.671 55.000 0.00 0.00 42.75 4.63
2410 6128 9.800433 CATGGTGTTATTGCAAAGATAACATAA 57.200 29.630 21.01 14.87 46.03 1.90
2413 6131 7.040132 TGACATGGTGTTATTGCAAAGATAACA 60.040 33.333 16.45 16.45 43.78 2.41
2414 6132 7.312154 TGACATGGTGTTATTGCAAAGATAAC 58.688 34.615 1.71 8.82 39.36 1.89
2415 6133 7.459795 TGACATGGTGTTATTGCAAAGATAA 57.540 32.000 1.71 0.00 0.00 1.75
2417 6135 5.981088 TGACATGGTGTTATTGCAAAGAT 57.019 34.783 1.71 0.00 0.00 2.40
2418 6136 5.476254 TCATGACATGGTGTTATTGCAAAGA 59.524 36.000 15.37 0.00 0.00 2.52
2419 6137 5.712004 TCATGACATGGTGTTATTGCAAAG 58.288 37.500 15.37 0.00 0.00 2.77
2433 6174 3.339253 TCTGGACCAACTCATGACATG 57.661 47.619 9.28 9.28 0.00 3.21
2457 6198 8.871686 AAAAAGTGAACACAACATAATTCTCC 57.128 30.769 7.68 0.00 0.00 3.71
2480 6221 7.458397 AGAGTAGTTCTGAGAGAGAGAGAAAA 58.542 38.462 0.00 0.00 33.93 2.29
2484 6225 5.360591 GGAGAGTAGTTCTGAGAGAGAGAG 58.639 50.000 0.00 0.00 35.87 3.20
2540 6283 9.249457 CAACGTGTCTACATACATCTGATTTAT 57.751 33.333 0.00 0.00 0.00 1.40
2543 6286 6.631016 ACAACGTGTCTACATACATCTGATT 58.369 36.000 0.00 0.00 0.00 2.57
2546 6289 6.469275 CACTACAACGTGTCTACATACATCTG 59.531 42.308 0.00 0.00 0.00 2.90
2547 6290 6.150641 ACACTACAACGTGTCTACATACATCT 59.849 38.462 0.00 0.00 44.32 2.90
2553 6296 4.579454 ACACACTACAACGTGTCTACAT 57.421 40.909 0.00 0.00 45.74 2.29
2566 6309 5.290158 TGAAACGAGAGAACAAACACACTAC 59.710 40.000 0.00 0.00 0.00 2.73
2571 6314 4.859629 ACTGAAACGAGAGAACAAACAC 57.140 40.909 0.00 0.00 0.00 3.32
2573 6316 4.032558 ACGAACTGAAACGAGAGAACAAAC 59.967 41.667 0.00 0.00 0.00 2.93
2575 6318 3.777478 ACGAACTGAAACGAGAGAACAA 58.223 40.909 0.00 0.00 0.00 2.83
2576 6319 3.431922 ACGAACTGAAACGAGAGAACA 57.568 42.857 0.00 0.00 0.00 3.18
2579 6322 4.761235 ACATACGAACTGAAACGAGAGA 57.239 40.909 0.00 0.00 0.00 3.10
2580 6323 5.629097 ACTACATACGAACTGAAACGAGAG 58.371 41.667 0.00 0.00 0.00 3.20
2581 6324 5.391310 GGACTACATACGAACTGAAACGAGA 60.391 44.000 0.00 0.00 0.00 4.04
2582 6325 4.792189 GGACTACATACGAACTGAAACGAG 59.208 45.833 0.00 0.00 0.00 4.18
2583 6326 4.216042 TGGACTACATACGAACTGAAACGA 59.784 41.667 0.00 0.00 0.00 3.85
2584 6327 4.478699 TGGACTACATACGAACTGAAACG 58.521 43.478 0.00 0.00 0.00 3.60
2585 6328 8.540492 CAATATGGACTACATACGAACTGAAAC 58.460 37.037 0.00 0.00 44.41 2.78
2586 6329 8.471609 TCAATATGGACTACATACGAACTGAAA 58.528 33.333 0.00 0.00 44.41 2.69
2587 6330 8.002984 TCAATATGGACTACATACGAACTGAA 57.997 34.615 0.00 0.00 44.41 3.02
2588 6331 7.576861 TCAATATGGACTACATACGAACTGA 57.423 36.000 0.00 0.00 44.41 3.41
2589 6332 8.642908 TTTCAATATGGACTACATACGAACTG 57.357 34.615 0.00 0.00 44.41 3.16
2646 6389 9.050601 CCTTGACATTGGAAATATTCTACTCTC 57.949 37.037 0.00 0.00 0.00 3.20
2647 6390 8.552296 ACCTTGACATTGGAAATATTCTACTCT 58.448 33.333 2.47 0.00 0.00 3.24
2694 6437 9.964354 ATCATCAATTAATATGGATCGAAAGGA 57.036 29.630 0.00 0.00 0.00 3.36
2737 6480 9.257651 GACACTGACAAAGTACAACTTTATACT 57.742 33.333 4.81 0.00 45.84 2.12
2738 6481 9.037737 TGACACTGACAAAGTACAACTTTATAC 57.962 33.333 4.81 1.73 45.84 1.47
2739 6482 9.602568 TTGACACTGACAAAGTACAACTTTATA 57.397 29.630 4.81 0.00 45.84 0.98
2740 6483 8.500753 TTGACACTGACAAAGTACAACTTTAT 57.499 30.769 4.81 0.00 45.84 1.40
2741 6484 7.908827 TTGACACTGACAAAGTACAACTTTA 57.091 32.000 4.81 0.00 45.84 1.85
2743 6486 7.391148 AATTGACACTGACAAAGTACAACTT 57.609 32.000 0.00 0.00 40.80 2.66
2744 6487 8.500753 TTAATTGACACTGACAAAGTACAACT 57.499 30.769 0.00 0.00 36.83 3.16
2745 6488 9.730420 AATTAATTGACACTGACAAAGTACAAC 57.270 29.630 0.00 0.00 36.83 3.32
2747 6490 9.729023 CAAATTAATTGACACTGACAAAGTACA 57.271 29.630 0.39 0.00 41.85 2.90
2748 6491 9.180678 CCAAATTAATTGACACTGACAAAGTAC 57.819 33.333 0.39 0.00 41.85 2.73
2749 6492 8.356657 CCCAAATTAATTGACACTGACAAAGTA 58.643 33.333 0.39 0.00 41.85 2.24
2750 6493 7.147742 ACCCAAATTAATTGACACTGACAAAGT 60.148 33.333 0.39 0.00 41.85 2.66
2751 6494 7.209475 ACCCAAATTAATTGACACTGACAAAG 58.791 34.615 0.39 0.00 41.85 2.77
2752 6495 7.118496 ACCCAAATTAATTGACACTGACAAA 57.882 32.000 0.39 0.00 41.85 2.83
2753 6496 6.723298 ACCCAAATTAATTGACACTGACAA 57.277 33.333 0.39 0.00 41.85 3.18
2754 6497 6.432783 CCTACCCAAATTAATTGACACTGACA 59.567 38.462 0.39 0.00 41.85 3.58
2755 6498 6.657541 TCCTACCCAAATTAATTGACACTGAC 59.342 38.462 0.39 0.00 41.85 3.51
2756 6499 6.785076 TCCTACCCAAATTAATTGACACTGA 58.215 36.000 0.39 0.00 41.85 3.41
2757 6500 6.095440 CCTCCTACCCAAATTAATTGACACTG 59.905 42.308 0.39 0.00 41.85 3.66
2758 6501 6.187682 CCTCCTACCCAAATTAATTGACACT 58.812 40.000 0.39 0.00 41.85 3.55
2759 6502 5.359860 CCCTCCTACCCAAATTAATTGACAC 59.640 44.000 0.39 0.00 41.85 3.67
2760 6503 5.254267 TCCCTCCTACCCAAATTAATTGACA 59.746 40.000 0.39 0.00 41.85 3.58
2761 6504 5.762279 TCCCTCCTACCCAAATTAATTGAC 58.238 41.667 0.39 0.00 41.85 3.18
2762 6505 5.633854 GCTCCCTCCTACCCAAATTAATTGA 60.634 44.000 0.39 0.00 41.85 2.57
2763 6506 4.584743 GCTCCCTCCTACCCAAATTAATTG 59.415 45.833 0.39 0.00 38.84 2.32
2764 6507 4.231890 TGCTCCCTCCTACCCAAATTAATT 59.768 41.667 0.00 0.00 0.00 1.40
2765 6508 3.791545 TGCTCCCTCCTACCCAAATTAAT 59.208 43.478 0.00 0.00 0.00 1.40
2766 6509 3.194620 TGCTCCCTCCTACCCAAATTAA 58.805 45.455 0.00 0.00 0.00 1.40
2767 6510 2.777692 CTGCTCCCTCCTACCCAAATTA 59.222 50.000 0.00 0.00 0.00 1.40
2768 6511 1.566231 CTGCTCCCTCCTACCCAAATT 59.434 52.381 0.00 0.00 0.00 1.82
2769 6512 1.216990 CTGCTCCCTCCTACCCAAAT 58.783 55.000 0.00 0.00 0.00 2.32
2770 6513 1.562672 GCTGCTCCCTCCTACCCAAA 61.563 60.000 0.00 0.00 0.00 3.28
2771 6514 1.995626 GCTGCTCCCTCCTACCCAA 60.996 63.158 0.00 0.00 0.00 4.12
2772 6515 2.365635 GCTGCTCCCTCCTACCCA 60.366 66.667 0.00 0.00 0.00 4.51
2773 6516 1.562672 TTTGCTGCTCCCTCCTACCC 61.563 60.000 0.00 0.00 0.00 3.69
2774 6517 0.548510 ATTTGCTGCTCCCTCCTACC 59.451 55.000 0.00 0.00 0.00 3.18
2775 6518 2.019984 CAATTTGCTGCTCCCTCCTAC 58.980 52.381 0.00 0.00 0.00 3.18
2776 6519 1.635487 ACAATTTGCTGCTCCCTCCTA 59.365 47.619 0.00 0.00 0.00 2.94
2777 6520 0.407139 ACAATTTGCTGCTCCCTCCT 59.593 50.000 0.00 0.00 0.00 3.69
2778 6521 1.745653 GTACAATTTGCTGCTCCCTCC 59.254 52.381 0.00 0.00 0.00 4.30
2779 6522 2.436417 TGTACAATTTGCTGCTCCCTC 58.564 47.619 0.00 0.00 0.00 4.30
2780 6523 2.584835 TGTACAATTTGCTGCTCCCT 57.415 45.000 0.00 0.00 0.00 4.20
2781 6524 2.736400 GCATGTACAATTTGCTGCTCCC 60.736 50.000 11.78 0.00 33.61 4.30
2782 6525 2.165030 AGCATGTACAATTTGCTGCTCC 59.835 45.455 19.11 0.00 44.63 4.70
2783 6526 3.498927 AGCATGTACAATTTGCTGCTC 57.501 42.857 19.11 0.00 44.63 4.26
2784 6527 4.676196 GCTTAGCATGTACAATTTGCTGCT 60.676 41.667 25.62 22.79 45.76 4.24
2785 6528 3.549070 GCTTAGCATGTACAATTTGCTGC 59.451 43.478 25.62 19.27 45.76 5.25
2786 6529 4.735985 TGCTTAGCATGTACAATTTGCTG 58.264 39.130 25.62 14.76 45.76 4.41
2787 6530 6.843426 GACTTGCTTAGCATGTACAATTTGCT 60.843 38.462 22.61 22.31 44.77 3.91
2799 6542 9.511272 TCATATATTTGATGACTTGCTTAGCAT 57.489 29.630 8.05 0.00 38.76 3.79
2865 6772 0.819259 GGCCCTGCATTCTTCGCATA 60.819 55.000 0.00 0.00 39.02 3.14
2878 6785 2.879103 TTTTAGAGAGTTGGGCCCTG 57.121 50.000 25.70 0.00 0.00 4.45
2913 6820 6.830324 CCCATGACAAGGATCTGATTCTAAAA 59.170 38.462 0.00 0.00 0.00 1.52
2927 6834 3.512724 AGCATCTTTTTCCCATGACAAGG 59.487 43.478 0.00 0.00 0.00 3.61
2932 6839 6.065976 TCTAGAAGCATCTTTTTCCCATGA 57.934 37.500 0.00 0.00 37.10 3.07
2960 6867 4.419875 TGAACCCCCATTCTATCATCCATT 59.580 41.667 0.00 0.00 0.00 3.16
2976 6883 5.048294 ACACGTGATCTTTTAATTGAACCCC 60.048 40.000 25.01 0.00 0.00 4.95
3004 6911 9.183368 GGATAAAGTTTTCATCTCAGAGGATTT 57.817 33.333 0.00 0.00 0.00 2.17
3035 6942 3.324846 TCAGCCGTTAGATATGCTCCATT 59.675 43.478 0.00 0.00 30.08 3.16
3065 7304 5.106442 CCGCTACATAGTGTGACAATAACA 58.894 41.667 0.00 0.00 32.08 2.41
3082 7329 4.303086 TGCTACTCTTTGATACCGCTAC 57.697 45.455 0.00 0.00 0.00 3.58
3086 7333 7.062371 GCTTACATATGCTACTCTTTGATACCG 59.938 40.741 1.58 0.00 0.00 4.02
3092 7339 7.959689 ATCTGCTTACATATGCTACTCTTTG 57.040 36.000 1.58 0.00 0.00 2.77
3093 7340 9.083422 TCTATCTGCTTACATATGCTACTCTTT 57.917 33.333 1.58 0.00 0.00 2.52
3189 7443 7.644490 TGATGTTTGTAAATTGTCTGGTGTAC 58.356 34.615 0.00 0.00 0.00 2.90
3222 7476 1.153549 CTACCACGGAGCTCCTTGC 60.154 63.158 29.27 5.70 43.29 4.01


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

AutoCloner maintained by Alex Coulton.