Multiple sequence alignment - TraesCS4D01G310000

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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 TraesCS4D01G310000 chr4D 100.000 2735 0 0 1 2735 477364639 477361905 0.000000e+00 5051
1 TraesCS4D01G310000 chr4D 85.088 456 39 19 1286 1728 30755409 30755848 3.230000e-119 438
2 TraesCS4D01G310000 chr4A 89.186 1794 106 37 531 2256 684176759 684174986 0.000000e+00 2158
3 TraesCS4D01G310000 chr4A 97.898 333 5 2 1 331 684177551 684177219 2.360000e-160 575
4 TraesCS4D01G310000 chr4A 82.909 550 58 24 1286 1818 571971959 571972489 1.920000e-126 462
5 TraesCS4D01G310000 chr4A 84.848 231 17 11 2312 2533 684174979 684174758 1.650000e-52 217
6 TraesCS4D01G310000 chr4B 92.091 1454 60 18 531 1949 602039846 602038413 0.000000e+00 1997
7 TraesCS4D01G310000 chr4B 90.639 673 35 17 1941 2606 602034651 602034000 0.000000e+00 869
8 TraesCS4D01G310000 chr4B 97.281 331 9 0 1 331 602044415 602044085 1.840000e-156 562
9 TraesCS4D01G310000 chr4B 85.714 448 48 14 1286 1728 44118922 44119358 2.480000e-125 459
10 TraesCS4D01G310000 chr5D 80.460 783 96 35 1001 1750 409008136 409007378 1.850000e-151 545
11 TraesCS4D01G310000 chr5D 85.458 502 55 10 1256 1754 409357954 409357468 8.740000e-140 507
12 TraesCS4D01G310000 chr5B 85.110 544 63 11 1214 1754 491173701 491173173 8.620000e-150 540
13 TraesCS4D01G310000 chr5B 87.419 310 38 1 1963 2272 633277985 633278293 3.350000e-94 355
14 TraesCS4D01G310000 chr5A 83.824 544 70 10 1214 1754 520532121 520531593 4.070000e-138 501
15 TraesCS4D01G310000 chr5A 80.963 436 59 13 1295 1718 662430646 662431069 9.450000e-85 324
16 TraesCS4D01G310000 chr1A 87.742 310 37 1 1963 2272 276801028 276800720 7.200000e-96 361
17 TraesCS4D01G310000 chr1A 87.419 310 38 1 1963 2272 493004735 493005043 3.350000e-94 355
18 TraesCS4D01G310000 chr1A 87.460 311 36 3 1963 2272 551940235 551939927 3.350000e-94 355
19 TraesCS4D01G310000 chr7B 87.419 310 38 1 1963 2272 84528323 84528631 3.350000e-94 355
20 TraesCS4D01G310000 chr6A 87.013 308 39 1 1965 2272 532871184 532871490 2.020000e-91 346
21 TraesCS4D01G310000 chr6B 85.933 327 41 5 1963 2286 695057712 695058036 7.250000e-91 344
22 TraesCS4D01G310000 chr2A 85.366 328 44 2 1963 2287 762775747 762775421 1.210000e-88 337


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 TraesCS4D01G310000 chr4D 477361905 477364639 2734 True 5051.000000 5051 100.000 1 2735 1 chr4D.!!$R1 2734
1 TraesCS4D01G310000 chr4A 684174758 684177551 2793 True 983.333333 2158 90.644 1 2533 3 chr4A.!!$R1 2532
2 TraesCS4D01G310000 chr4A 571971959 571972489 530 False 462.000000 462 82.909 1286 1818 1 chr4A.!!$F1 532
3 TraesCS4D01G310000 chr4B 602034000 602039846 5846 True 1433.000000 1997 91.365 531 2606 2 chr4B.!!$R2 2075
4 TraesCS4D01G310000 chr5D 409007378 409008136 758 True 545.000000 545 80.460 1001 1750 1 chr5D.!!$R1 749
5 TraesCS4D01G310000 chr5B 491173173 491173701 528 True 540.000000 540 85.110 1214 1754 1 chr5B.!!$R1 540
6 TraesCS4D01G310000 chr5A 520531593 520532121 528 True 501.000000 501 83.824 1214 1754 1 chr5A.!!$R1 540

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
941 1328 0.10741 ATCTCGTCTCCTCGCTGAGT 60.107 55.0 5.15 0.0 33.93 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2621 6872 0.1078 GTTAAGAACTCCGAGCCCCC 60.108 60.0 0.0 0.0 0.0 5.4 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
127 128 4.744137 GCAGTAATGCTAGATCAGAGTGTG 59.256 45.833 8.13 0.00 0.00 3.82
170 173 2.834618 GCTGCCGGGGCTATTTTCG 61.835 63.158 11.55 0.00 42.51 3.46
259 262 3.895232 ACTTCATGTGCTAGATTCGGT 57.105 42.857 0.00 0.00 0.00 4.69
305 308 1.768275 ACGTGGCATCCTTCCATATCA 59.232 47.619 0.00 0.00 35.81 2.15
331 334 6.987992 TCACTTTATATAGTACCCGGCAAAAG 59.012 38.462 0.00 0.00 0.00 2.27
333 336 7.660208 CACTTTATATAGTACCCGGCAAAAGAT 59.340 37.037 0.00 0.00 0.00 2.40
339 342 5.362105 AGTACCCGGCAAAAGATAATACA 57.638 39.130 0.00 0.00 0.00 2.29
340 343 5.747342 AGTACCCGGCAAAAGATAATACAA 58.253 37.500 0.00 0.00 0.00 2.41
341 344 6.181908 AGTACCCGGCAAAAGATAATACAAA 58.818 36.000 0.00 0.00 0.00 2.83
343 346 6.347859 ACCCGGCAAAAGATAATACAAAAA 57.652 33.333 0.00 0.00 0.00 1.94
366 369 6.874297 AAAAAGTGCGGTTTACAACTTTAC 57.126 33.333 0.51 0.00 0.00 2.01
367 370 5.564048 AAAGTGCGGTTTACAACTTTACA 57.436 34.783 0.00 0.00 0.00 2.41
368 371 5.761165 AAGTGCGGTTTACAACTTTACAT 57.239 34.783 0.00 0.00 0.00 2.29
369 372 6.864360 AAGTGCGGTTTACAACTTTACATA 57.136 33.333 0.00 0.00 0.00 2.29
370 373 6.232139 AGTGCGGTTTACAACTTTACATAC 57.768 37.500 0.00 0.00 0.00 2.39
396 454 6.599356 ACATATGTACGGTTATGATAGCCA 57.401 37.500 6.56 0.00 31.64 4.75
398 456 7.041721 ACATATGTACGGTTATGATAGCCATG 58.958 38.462 6.56 3.45 36.71 3.66
422 480 5.798434 GTCCTTTTGAATGGCGTTTACATAC 59.202 40.000 0.00 0.00 0.00 2.39
436 792 7.752239 GGCGTTTACATACGTACACATATCTAT 59.248 37.037 0.00 0.00 43.22 1.98
437 793 9.759259 GCGTTTACATACGTACACATATCTATA 57.241 33.333 0.00 0.00 43.22 1.31
441 797 7.912056 ACATACGTACACATATCTATACGGT 57.088 36.000 0.00 0.00 43.58 4.83
442 798 8.327941 ACATACGTACACATATCTATACGGTT 57.672 34.615 0.00 0.15 43.58 4.44
443 799 9.435688 ACATACGTACACATATCTATACGGTTA 57.564 33.333 0.00 0.77 43.58 2.85
446 802 8.552083 ACGTACACATATCTATACGGTTATGA 57.448 34.615 11.71 0.00 43.58 2.15
447 803 9.170734 ACGTACACATATCTATACGGTTATGAT 57.829 33.333 11.71 0.84 43.58 2.45
465 821 8.132995 GGTTATGATAACCGTCCTTTTAAATGG 58.867 37.037 17.75 12.82 0.00 3.16
466 822 5.570234 TGATAACCGTCCTTTTAAATGGC 57.430 39.130 13.95 9.06 0.00 4.40
467 823 4.095185 TGATAACCGTCCTTTTAAATGGCG 59.905 41.667 20.13 20.13 0.00 5.69
468 824 1.900245 ACCGTCCTTTTAAATGGCGT 58.100 45.000 22.71 13.99 0.00 5.68
469 825 2.232399 ACCGTCCTTTTAAATGGCGTT 58.768 42.857 22.71 13.95 0.00 4.84
470 826 2.624364 ACCGTCCTTTTAAATGGCGTTT 59.376 40.909 22.71 9.96 0.00 3.60
471 827 3.819902 ACCGTCCTTTTAAATGGCGTTTA 59.180 39.130 22.71 7.80 0.00 2.01
472 828 4.160594 CCGTCCTTTTAAATGGCGTTTAC 58.839 43.478 22.71 13.35 32.17 2.01
473 829 4.320348 CCGTCCTTTTAAATGGCGTTTACA 60.320 41.667 22.71 2.72 32.17 2.41
474 830 5.395642 CGTCCTTTTAAATGGCGTTTACAT 58.604 37.500 11.31 0.00 32.17 2.29
475 831 6.403418 CCGTCCTTTTAAATGGCGTTTACATA 60.403 38.462 22.71 0.00 32.17 2.29
476 832 6.466730 CGTCCTTTTAAATGGCGTTTACATAC 59.533 38.462 11.31 5.63 32.17 2.39
477 833 7.306953 GTCCTTTTAAATGGCGTTTACATACA 58.693 34.615 11.31 0.00 32.17 2.29
478 834 7.971722 GTCCTTTTAAATGGCGTTTACATACAT 59.028 33.333 11.31 0.00 32.17 2.29
479 835 9.175312 TCCTTTTAAATGGCGTTTACATACATA 57.825 29.630 11.31 0.00 32.17 2.29
480 836 9.959749 CCTTTTAAATGGCGTTTACATACATAT 57.040 29.630 11.31 0.00 32.17 1.78
484 840 9.938670 TTAAATGGCGTTTACATACATATTCAC 57.061 29.630 11.31 0.00 32.17 3.18
485 841 7.801716 AATGGCGTTTACATACATATTCACT 57.198 32.000 0.00 0.00 0.00 3.41
486 842 6.838198 TGGCGTTTACATACATATTCACTC 57.162 37.500 0.00 0.00 0.00 3.51
487 843 5.756347 TGGCGTTTACATACATATTCACTCC 59.244 40.000 0.00 0.00 0.00 3.85
488 844 5.107607 GGCGTTTACATACATATTCACTCCG 60.108 44.000 0.00 0.00 0.00 4.63
489 845 5.461078 GCGTTTACATACATATTCACTCCGT 59.539 40.000 0.00 0.00 0.00 4.69
490 846 6.019318 GCGTTTACATACATATTCACTCCGTT 60.019 38.462 0.00 0.00 0.00 4.44
491 847 7.464977 GCGTTTACATACATATTCACTCCGTTT 60.465 37.037 0.00 0.00 0.00 3.60
492 848 8.054236 CGTTTACATACATATTCACTCCGTTTC 58.946 37.037 0.00 0.00 0.00 2.78
493 849 8.875803 GTTTACATACATATTCACTCCGTTTCA 58.124 33.333 0.00 0.00 0.00 2.69
494 850 9.438228 TTTACATACATATTCACTCCGTTTCAA 57.562 29.630 0.00 0.00 0.00 2.69
495 851 7.915293 ACATACATATTCACTCCGTTTCAAA 57.085 32.000 0.00 0.00 0.00 2.69
496 852 8.330466 ACATACATATTCACTCCGTTTCAAAA 57.670 30.769 0.00 0.00 0.00 2.44
497 853 8.956426 ACATACATATTCACTCCGTTTCAAAAT 58.044 29.630 0.00 0.00 0.00 1.82
501 857 9.010029 ACATATTCACTCCGTTTCAAAATAAGT 57.990 29.630 0.00 0.00 0.00 2.24
502 858 9.277565 CATATTCACTCCGTTTCAAAATAAGTG 57.722 33.333 0.00 0.00 35.20 3.16
503 859 6.687081 TTCACTCCGTTTCAAAATAAGTGT 57.313 33.333 6.83 0.00 35.37 3.55
504 860 6.295039 TCACTCCGTTTCAAAATAAGTGTC 57.705 37.500 6.83 0.00 35.37 3.67
505 861 5.050634 TCACTCCGTTTCAAAATAAGTGTCG 60.051 40.000 6.83 0.00 35.37 4.35
506 862 4.812626 ACTCCGTTTCAAAATAAGTGTCGT 59.187 37.500 0.00 0.00 0.00 4.34
507 863 5.984926 ACTCCGTTTCAAAATAAGTGTCGTA 59.015 36.000 0.00 0.00 0.00 3.43
508 864 6.074142 ACTCCGTTTCAAAATAAGTGTCGTAC 60.074 38.462 0.00 0.00 0.00 3.67
509 865 5.984926 TCCGTTTCAAAATAAGTGTCGTACT 59.015 36.000 0.00 0.00 42.89 2.73
563 919 0.668706 CCATCGCTCGACCATCATCC 60.669 60.000 0.00 0.00 0.00 3.51
564 920 1.005804 CATCGCTCGACCATCATCCG 61.006 60.000 0.00 0.00 0.00 4.18
566 922 1.065764 CGCTCGACCATCATCCGAA 59.934 57.895 0.00 0.00 31.59 4.30
578 934 4.734854 CCATCATCCGAAATTTAAAGTGCG 59.265 41.667 9.06 9.06 0.00 5.34
579 935 3.753842 TCATCCGAAATTTAAAGTGCGC 58.246 40.909 10.52 0.00 0.00 6.09
580 936 3.438781 TCATCCGAAATTTAAAGTGCGCT 59.561 39.130 10.52 0.00 0.00 5.92
581 937 4.632251 TCATCCGAAATTTAAAGTGCGCTA 59.368 37.500 10.52 1.49 0.00 4.26
582 938 5.295787 TCATCCGAAATTTAAAGTGCGCTAT 59.704 36.000 10.52 3.76 0.00 2.97
583 939 6.480651 TCATCCGAAATTTAAAGTGCGCTATA 59.519 34.615 10.52 0.00 0.00 1.31
586 942 8.014322 TCCGAAATTTAAAGTGCGCTATATAG 57.986 34.615 10.52 5.30 0.00 1.31
601 961 4.333095 GCTATATAGAGCTTCCGATCGACA 59.667 45.833 18.66 0.00 39.50 4.35
693 1080 8.934507 AAAGTAATAAGAAGAGAGATTGACCG 57.065 34.615 0.00 0.00 0.00 4.79
833 1220 1.770294 AGCTACTGGCCTAGTGACTC 58.230 55.000 15.55 4.76 40.65 3.36
915 1302 1.623542 TTAAGCTTCTCCGCTCCCCC 61.624 60.000 0.00 0.00 39.86 5.40
939 1326 0.816018 GGATCTCGTCTCCTCGCTGA 60.816 60.000 0.00 0.00 0.00 4.26
940 1327 0.586319 GATCTCGTCTCCTCGCTGAG 59.414 60.000 0.00 0.00 0.00 3.35
941 1328 0.107410 ATCTCGTCTCCTCGCTGAGT 60.107 55.000 5.15 0.00 33.93 3.41
975 1362 6.748333 ACTGTACACTTTACGTAGATGCTA 57.252 37.500 0.00 0.00 0.00 3.49
976 1363 7.149569 ACTGTACACTTTACGTAGATGCTAA 57.850 36.000 0.00 0.00 0.00 3.09
988 1377 6.636705 ACGTAGATGCTAAACATGGAACTAA 58.363 36.000 0.00 0.00 39.84 2.24
1057 1446 2.348666 CACGGCTACTCCATTTCTTTCG 59.651 50.000 0.00 0.00 34.01 3.46
1062 1451 3.623060 GCTACTCCATTTCTTTCGCATCA 59.377 43.478 0.00 0.00 0.00 3.07
1066 1455 5.404946 ACTCCATTTCTTTCGCATCAAATG 58.595 37.500 0.00 0.00 36.42 2.32
1135 1533 3.075005 CGGGGATCGACCACCAGT 61.075 66.667 0.00 0.00 39.29 4.00
1284 1709 2.086094 TCCAGTAGTTCACGCGATACA 58.914 47.619 15.93 0.00 0.00 2.29
1296 1721 2.767445 CGATACACCGGACTCGCCA 61.767 63.158 9.46 0.00 35.94 5.69
1401 1826 0.393820 GTACCTTCGACACCCCACAA 59.606 55.000 0.00 0.00 0.00 3.33
1775 2236 1.673665 GGTGAACCAGCAGCTCCTG 60.674 63.158 0.00 0.00 35.64 3.86
1924 2394 2.074230 AACCACGGCATGCAACACAG 62.074 55.000 21.36 5.09 0.00 3.66
1972 6210 4.584638 TTCTTGGGCCTTCTTGCTAATA 57.415 40.909 4.53 0.00 0.00 0.98
1976 6214 1.134189 GGGCCTTCTTGCTAATACGGT 60.134 52.381 0.84 0.00 0.00 4.83
1993 6231 2.691526 ACGGTCGGATGCACTAAGATTA 59.308 45.455 0.00 0.00 0.00 1.75
2001 6239 6.876789 TCGGATGCACTAAGATTAAAGTGAAA 59.123 34.615 8.83 0.00 44.79 2.69
2006 6244 6.093495 TGCACTAAGATTAAAGTGAAATCGGG 59.907 38.462 8.83 0.00 44.79 5.14
2141 6379 5.600696 TCATTGTAATAGAGAGCGCAATGA 58.399 37.500 11.47 9.26 45.27 2.57
2208 6446 0.115745 ATTGGATGGATGATGCCCCC 59.884 55.000 0.00 0.00 0.00 5.40
2214 6452 1.076192 GGATGATGCCCCCTGATGG 59.924 63.158 0.00 0.00 0.00 3.51
2300 6540 9.444600 TGTAAAAGAAAACAGGTATCATACTCC 57.555 33.333 0.00 0.00 0.00 3.85
2305 6545 2.228059 ACAGGTATCATACTCCGTCCG 58.772 52.381 0.00 0.00 0.00 4.79
2341 6581 0.389948 CGCCTACACTCCACCACTTC 60.390 60.000 0.00 0.00 0.00 3.01
2344 6584 1.550976 CCTACACTCCACCACTTCTCC 59.449 57.143 0.00 0.00 0.00 3.71
2449 6693 5.506815 GCAAGATGCATGCACAACTGTATAT 60.507 40.000 25.37 1.94 44.26 0.86
2478 6722 3.708195 GCAACACTATTGCTGCCAG 57.292 52.632 4.40 0.00 38.66 4.85
2557 6808 0.181350 CCAGACCCCCACTCTTATGC 59.819 60.000 0.00 0.00 0.00 3.14
2558 6809 0.179073 CAGACCCCCACTCTTATGCG 60.179 60.000 0.00 0.00 0.00 4.73
2574 6825 2.107950 TGCGGACAAAGGAAGTATGG 57.892 50.000 0.00 0.00 0.00 2.74
2585 6836 2.110011 AGGAAGTATGGTTTTGTGGCCT 59.890 45.455 3.32 0.00 0.00 5.19
2593 6844 1.270550 GGTTTTGTGGCCTGTCATCTG 59.729 52.381 3.32 0.00 0.00 2.90
2606 6857 3.585862 TGTCATCTGTCGACCTAAAAGC 58.414 45.455 14.12 0.00 32.15 3.51
2607 6858 2.930682 GTCATCTGTCGACCTAAAAGCC 59.069 50.000 14.12 0.00 0.00 4.35
2608 6859 2.832129 TCATCTGTCGACCTAAAAGCCT 59.168 45.455 14.12 0.00 0.00 4.58
2609 6860 4.021229 TCATCTGTCGACCTAAAAGCCTA 58.979 43.478 14.12 0.00 0.00 3.93
2610 6861 4.098044 TCATCTGTCGACCTAAAAGCCTAG 59.902 45.833 14.12 0.00 0.00 3.02
2611 6862 2.758979 TCTGTCGACCTAAAAGCCTAGG 59.241 50.000 14.12 3.67 43.70 3.02
2612 6863 2.758979 CTGTCGACCTAAAAGCCTAGGA 59.241 50.000 14.75 0.00 41.02 2.94
2613 6864 2.758979 TGTCGACCTAAAAGCCTAGGAG 59.241 50.000 14.75 0.00 41.02 3.69
2614 6865 2.101082 GTCGACCTAAAAGCCTAGGAGG 59.899 54.545 14.75 12.59 41.02 4.30
2615 6866 1.413077 CGACCTAAAAGCCTAGGAGGG 59.587 57.143 14.75 6.75 41.02 4.30
2616 6867 1.769465 GACCTAAAAGCCTAGGAGGGG 59.231 57.143 14.75 7.47 41.02 4.79
2617 6868 1.141185 CCTAAAAGCCTAGGAGGGGG 58.859 60.000 14.75 2.23 41.02 5.40
2638 6889 4.045469 GGGGGCTCGGAGTTCTTA 57.955 61.111 6.90 0.00 0.00 2.10
2639 6890 2.293877 GGGGGCTCGGAGTTCTTAA 58.706 57.895 6.90 0.00 0.00 1.85
2640 6891 0.107800 GGGGGCTCGGAGTTCTTAAC 60.108 60.000 6.90 0.00 0.00 2.01
2641 6892 0.903236 GGGGCTCGGAGTTCTTAACT 59.097 55.000 6.90 0.00 46.38 2.24
2662 6913 9.921637 TTAACTCCAAATTCATAAACATTGTCC 57.078 29.630 0.00 0.00 0.00 4.02
2663 6914 7.781324 ACTCCAAATTCATAAACATTGTCCT 57.219 32.000 0.00 0.00 0.00 3.85
2664 6915 8.193953 ACTCCAAATTCATAAACATTGTCCTT 57.806 30.769 0.00 0.00 0.00 3.36
2665 6916 8.090214 ACTCCAAATTCATAAACATTGTCCTTG 58.910 33.333 0.00 0.00 0.00 3.61
2666 6917 7.961351 TCCAAATTCATAAACATTGTCCTTGT 58.039 30.769 0.00 0.00 0.00 3.16
2667 6918 8.087750 TCCAAATTCATAAACATTGTCCTTGTC 58.912 33.333 0.00 0.00 0.00 3.18
2668 6919 7.331687 CCAAATTCATAAACATTGTCCTTGTCC 59.668 37.037 0.00 0.00 0.00 4.02
2669 6920 7.537596 AATTCATAAACATTGTCCTTGTCCA 57.462 32.000 0.00 0.00 0.00 4.02
2670 6921 6.968263 TTCATAAACATTGTCCTTGTCCAA 57.032 33.333 0.00 0.00 0.00 3.53
2671 6922 7.537596 TTCATAAACATTGTCCTTGTCCAAT 57.462 32.000 0.00 0.00 0.00 3.16
2672 6923 7.537596 TCATAAACATTGTCCTTGTCCAATT 57.462 32.000 0.00 0.00 0.00 2.32
2673 6924 8.642935 TCATAAACATTGTCCTTGTCCAATTA 57.357 30.769 0.00 0.00 0.00 1.40
2674 6925 8.519526 TCATAAACATTGTCCTTGTCCAATTAC 58.480 33.333 0.00 0.00 0.00 1.89
2675 6926 6.723298 AAACATTGTCCTTGTCCAATTACA 57.277 33.333 0.00 0.00 0.00 2.41
2676 6927 6.723298 AACATTGTCCTTGTCCAATTACAA 57.277 33.333 8.74 8.74 37.75 2.41
2677 6928 6.723298 ACATTGTCCTTGTCCAATTACAAA 57.277 33.333 9.81 0.00 38.81 2.83
2678 6929 7.118496 ACATTGTCCTTGTCCAATTACAAAA 57.882 32.000 9.81 0.00 38.81 2.44
2679 6930 6.983890 ACATTGTCCTTGTCCAATTACAAAAC 59.016 34.615 9.81 0.00 38.81 2.43
2680 6931 6.783708 TTGTCCTTGTCCAATTACAAAACT 57.216 33.333 5.39 0.00 38.81 2.66
2681 6932 6.385649 TGTCCTTGTCCAATTACAAAACTC 57.614 37.500 0.00 0.00 38.81 3.01
2682 6933 6.126409 TGTCCTTGTCCAATTACAAAACTCT 58.874 36.000 0.00 0.00 38.81 3.24
2683 6934 6.605594 TGTCCTTGTCCAATTACAAAACTCTT 59.394 34.615 0.00 0.00 38.81 2.85
2684 6935 7.123547 TGTCCTTGTCCAATTACAAAACTCTTT 59.876 33.333 0.00 0.00 38.81 2.52
2685 6936 7.648112 GTCCTTGTCCAATTACAAAACTCTTTC 59.352 37.037 0.00 0.00 38.81 2.62
2686 6937 6.923508 CCTTGTCCAATTACAAAACTCTTTCC 59.076 38.462 0.00 0.00 38.81 3.13
2687 6938 7.411486 TTGTCCAATTACAAAACTCTTTCCA 57.589 32.000 0.00 0.00 36.45 3.53
2688 6939 7.411486 TGTCCAATTACAAAACTCTTTCCAA 57.589 32.000 0.00 0.00 0.00 3.53
2689 6940 7.841956 TGTCCAATTACAAAACTCTTTCCAAA 58.158 30.769 0.00 0.00 0.00 3.28
2690 6941 7.762159 TGTCCAATTACAAAACTCTTTCCAAAC 59.238 33.333 0.00 0.00 0.00 2.93
2691 6942 7.979537 GTCCAATTACAAAACTCTTTCCAAACT 59.020 33.333 0.00 0.00 0.00 2.66
2692 6943 9.191479 TCCAATTACAAAACTCTTTCCAAACTA 57.809 29.630 0.00 0.00 0.00 2.24
2693 6944 9.981114 CCAATTACAAAACTCTTTCCAAACTAT 57.019 29.630 0.00 0.00 0.00 2.12
2705 6956 3.971032 CCAAACTATGGGCGAATCTTC 57.029 47.619 0.00 0.00 46.27 2.87
2706 6957 3.545703 CCAAACTATGGGCGAATCTTCT 58.454 45.455 0.00 0.00 46.27 2.85
2707 6958 3.947834 CCAAACTATGGGCGAATCTTCTT 59.052 43.478 0.00 0.00 46.27 2.52
2708 6959 5.123227 CCAAACTATGGGCGAATCTTCTTA 58.877 41.667 0.00 0.00 46.27 2.10
2709 6960 5.588648 CCAAACTATGGGCGAATCTTCTTAA 59.411 40.000 0.00 0.00 46.27 1.85
2710 6961 6.238484 CCAAACTATGGGCGAATCTTCTTAAG 60.238 42.308 0.00 0.00 46.27 1.85
2711 6962 4.381411 ACTATGGGCGAATCTTCTTAAGC 58.619 43.478 0.00 0.00 0.00 3.09
2712 6963 2.038387 TGGGCGAATCTTCTTAAGCC 57.962 50.000 0.00 0.00 43.47 4.35
2713 6964 1.280710 TGGGCGAATCTTCTTAAGCCA 59.719 47.619 6.61 0.00 45.79 4.75
2714 6965 2.290641 TGGGCGAATCTTCTTAAGCCAA 60.291 45.455 6.61 0.00 45.79 4.52
2715 6966 2.356069 GGGCGAATCTTCTTAAGCCAAG 59.644 50.000 6.61 0.00 45.79 3.61
2716 6967 3.010420 GGCGAATCTTCTTAAGCCAAGT 58.990 45.455 0.00 0.00 43.65 3.16
2717 6968 4.189231 GGCGAATCTTCTTAAGCCAAGTA 58.811 43.478 0.00 0.00 43.65 2.24
2718 6969 4.034163 GGCGAATCTTCTTAAGCCAAGTAC 59.966 45.833 0.00 0.00 43.65 2.73
2719 6970 4.259850 GCGAATCTTCTTAAGCCAAGTACG 60.260 45.833 0.00 6.67 35.58 3.67
2720 6971 4.863131 CGAATCTTCTTAAGCCAAGTACGT 59.137 41.667 0.00 0.00 35.58 3.57
2721 6972 5.004535 CGAATCTTCTTAAGCCAAGTACGTC 59.995 44.000 0.00 0.00 35.58 4.34
2722 6973 4.184079 TCTTCTTAAGCCAAGTACGTCC 57.816 45.455 0.00 0.00 35.58 4.79
2723 6974 3.830755 TCTTCTTAAGCCAAGTACGTCCT 59.169 43.478 0.00 0.00 35.58 3.85
2724 6975 5.012239 TCTTCTTAAGCCAAGTACGTCCTA 58.988 41.667 0.00 0.00 35.58 2.94
2725 6976 5.477984 TCTTCTTAAGCCAAGTACGTCCTAA 59.522 40.000 0.00 0.00 35.58 2.69
2726 6977 5.064441 TCTTAAGCCAAGTACGTCCTAAC 57.936 43.478 0.00 0.00 35.58 2.34
2727 6978 4.768968 TCTTAAGCCAAGTACGTCCTAACT 59.231 41.667 0.00 0.00 35.58 2.24
2728 6979 3.589495 AAGCCAAGTACGTCCTAACTC 57.411 47.619 0.00 0.00 0.00 3.01
2729 6980 1.823610 AGCCAAGTACGTCCTAACTCC 59.176 52.381 0.00 0.00 0.00 3.85
2730 6981 1.823610 GCCAAGTACGTCCTAACTCCT 59.176 52.381 0.00 0.00 0.00 3.69
2731 6982 2.233186 GCCAAGTACGTCCTAACTCCTT 59.767 50.000 0.00 0.00 0.00 3.36
2732 6983 3.675502 GCCAAGTACGTCCTAACTCCTTC 60.676 52.174 0.00 0.00 0.00 3.46
2733 6984 3.508793 CCAAGTACGTCCTAACTCCTTCA 59.491 47.826 0.00 0.00 0.00 3.02
2734 6985 4.021719 CCAAGTACGTCCTAACTCCTTCAA 60.022 45.833 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 128 4.809426 ACGATAAGCCATTAGTGTAAGCAC 59.191 41.667 0.00 0.00 45.57 4.40
170 173 0.393402 TGCATGCAGATGGACAGGAC 60.393 55.000 18.46 0.00 0.00 3.85
218 221 8.880244 TGAAGTACATATACATATGGAAAGGCT 58.120 33.333 7.80 0.00 43.38 4.58
259 262 1.755395 GCTGGATGGCAATGGCTCA 60.755 57.895 8.59 3.39 40.87 4.26
305 308 6.675413 TTGCCGGGTACTATATAAAGTGAT 57.325 37.500 2.18 0.00 0.00 3.06
348 351 8.082915 GTACGTATGTAAAGTTGTAAACCGCAC 61.083 40.741 0.00 0.00 39.07 5.34
350 353 6.128956 TGTACGTATGTAAAGTTGTAAACCGC 60.129 38.462 0.00 0.00 39.07 5.68
351 354 7.332003 TGTACGTATGTAAAGTTGTAAACCG 57.668 36.000 0.00 0.00 39.07 4.44
379 437 4.021368 AGGACATGGCTATCATAACCGTAC 60.021 45.833 0.00 0.00 36.26 3.67
383 441 5.827797 TCAAAAGGACATGGCTATCATAACC 59.172 40.000 0.00 0.00 34.12 2.85
390 448 3.385755 GCCATTCAAAAGGACATGGCTAT 59.614 43.478 13.63 0.00 46.00 2.97
396 454 4.279671 TGTAAACGCCATTCAAAAGGACAT 59.720 37.500 0.00 0.00 0.00 3.06
398 456 4.231718 TGTAAACGCCATTCAAAAGGAC 57.768 40.909 0.00 0.00 0.00 3.85
439 795 8.132995 CCATTTAAAAGGACGGTTATCATAACC 58.867 37.037 15.86 15.86 36.96 2.85
440 796 7.646526 GCCATTTAAAAGGACGGTTATCATAAC 59.353 37.037 13.58 0.00 0.00 1.89
441 797 7.467539 CGCCATTTAAAAGGACGGTTATCATAA 60.468 37.037 13.58 0.00 0.00 1.90
442 798 6.017770 CGCCATTTAAAAGGACGGTTATCATA 60.018 38.462 13.58 0.00 0.00 2.15
443 799 5.220970 CGCCATTTAAAAGGACGGTTATCAT 60.221 40.000 13.58 0.00 0.00 2.45
444 800 4.095185 CGCCATTTAAAAGGACGGTTATCA 59.905 41.667 13.58 0.00 0.00 2.15
445 801 4.095334 ACGCCATTTAAAAGGACGGTTATC 59.905 41.667 21.48 2.00 0.00 1.75
446 802 4.011698 ACGCCATTTAAAAGGACGGTTAT 58.988 39.130 21.48 6.39 0.00 1.89
447 803 3.410508 ACGCCATTTAAAAGGACGGTTA 58.589 40.909 21.48 0.00 0.00 2.85
448 804 2.232399 ACGCCATTTAAAAGGACGGTT 58.768 42.857 21.48 7.14 0.00 4.44
449 805 1.900245 ACGCCATTTAAAAGGACGGT 58.100 45.000 21.48 11.18 0.00 4.83
450 806 3.291809 AAACGCCATTTAAAAGGACGG 57.708 42.857 21.48 10.70 0.00 4.79
451 807 4.785417 TGTAAACGCCATTTAAAAGGACG 58.215 39.130 13.58 16.40 34.50 4.79
452 808 7.306953 TGTATGTAAACGCCATTTAAAAGGAC 58.693 34.615 13.58 2.88 34.50 3.85
453 809 7.450124 TGTATGTAAACGCCATTTAAAAGGA 57.550 32.000 13.58 0.00 34.50 3.36
454 810 9.959749 ATATGTATGTAAACGCCATTTAAAAGG 57.040 29.630 5.07 5.07 34.50 3.11
458 814 9.938670 GTGAATATGTATGTAAACGCCATTTAA 57.061 29.630 0.00 0.00 34.50 1.52
459 815 9.332502 AGTGAATATGTATGTAAACGCCATTTA 57.667 29.630 0.00 0.00 0.00 1.40
460 816 8.220755 AGTGAATATGTATGTAAACGCCATTT 57.779 30.769 0.00 0.00 0.00 2.32
461 817 7.041372 GGAGTGAATATGTATGTAAACGCCATT 60.041 37.037 0.00 0.00 0.00 3.16
462 818 6.426937 GGAGTGAATATGTATGTAAACGCCAT 59.573 38.462 0.00 0.00 0.00 4.40
463 819 5.756347 GGAGTGAATATGTATGTAAACGCCA 59.244 40.000 0.00 0.00 0.00 5.69
464 820 5.107607 CGGAGTGAATATGTATGTAAACGCC 60.108 44.000 0.00 0.00 0.00 5.68
465 821 5.461078 ACGGAGTGAATATGTATGTAAACGC 59.539 40.000 0.00 0.00 42.51 4.84
466 822 7.459394 AACGGAGTGAATATGTATGTAAACG 57.541 36.000 0.00 0.00 45.00 3.60
467 823 8.875803 TGAAACGGAGTGAATATGTATGTAAAC 58.124 33.333 0.00 0.00 45.00 2.01
468 824 9.438228 TTGAAACGGAGTGAATATGTATGTAAA 57.562 29.630 0.00 0.00 45.00 2.01
469 825 9.438228 TTTGAAACGGAGTGAATATGTATGTAA 57.562 29.630 0.00 0.00 45.00 2.41
470 826 9.438228 TTTTGAAACGGAGTGAATATGTATGTA 57.562 29.630 0.00 0.00 45.00 2.29
471 827 7.915293 TTTGAAACGGAGTGAATATGTATGT 57.085 32.000 0.00 0.00 45.00 2.29
475 831 9.010029 ACTTATTTTGAAACGGAGTGAATATGT 57.990 29.630 0.00 0.00 45.00 2.29
476 832 9.277565 CACTTATTTTGAAACGGAGTGAATATG 57.722 33.333 7.55 0.00 45.00 1.78
477 833 9.010029 ACACTTATTTTGAAACGGAGTGAATAT 57.990 29.630 15.94 0.00 45.00 1.28
478 834 8.385898 ACACTTATTTTGAAACGGAGTGAATA 57.614 30.769 15.94 0.00 45.00 1.75
479 835 7.272037 ACACTTATTTTGAAACGGAGTGAAT 57.728 32.000 15.94 0.00 45.00 2.57
480 836 6.510478 CGACACTTATTTTGAAACGGAGTGAA 60.510 38.462 15.94 0.00 45.00 3.18
481 837 5.050634 CGACACTTATTTTGAAACGGAGTGA 60.051 40.000 15.94 0.00 45.00 3.41
482 838 5.137403 CGACACTTATTTTGAAACGGAGTG 58.863 41.667 10.38 10.38 45.00 3.51
483 839 8.161416 AGTACGACACTTATTTTGAAACGGAGT 61.161 37.037 0.00 0.00 36.47 3.85
484 840 5.338614 ACGACACTTATTTTGAAACGGAG 57.661 39.130 0.00 0.00 0.00 4.63
485 841 5.984926 AGTACGACACTTATTTTGAAACGGA 59.015 36.000 0.00 0.00 31.59 4.69
486 842 6.219302 AGTACGACACTTATTTTGAAACGG 57.781 37.500 0.00 0.00 31.59 4.44
512 868 9.897744 CAGCTTTCACAGAATAAATTTGAACTA 57.102 29.630 0.00 0.00 0.00 2.24
513 869 7.383300 GCAGCTTTCACAGAATAAATTTGAACT 59.617 33.333 0.00 0.00 0.00 3.01
514 870 7.169645 TGCAGCTTTCACAGAATAAATTTGAAC 59.830 33.333 0.00 0.00 0.00 3.18
515 871 7.208777 TGCAGCTTTCACAGAATAAATTTGAA 58.791 30.769 0.00 0.00 0.00 2.69
516 872 6.747125 TGCAGCTTTCACAGAATAAATTTGA 58.253 32.000 0.00 0.00 0.00 2.69
517 873 7.410800 TTGCAGCTTTCACAGAATAAATTTG 57.589 32.000 0.00 0.00 0.00 2.32
518 874 8.611654 ATTTGCAGCTTTCACAGAATAAATTT 57.388 26.923 0.00 0.00 0.00 1.82
519 875 7.332678 GGATTTGCAGCTTTCACAGAATAAATT 59.667 33.333 0.00 0.00 0.00 1.82
520 876 6.815142 GGATTTGCAGCTTTCACAGAATAAAT 59.185 34.615 0.00 0.00 0.00 1.40
521 877 6.158598 GGATTTGCAGCTTTCACAGAATAAA 58.841 36.000 0.00 0.00 0.00 1.40
522 878 5.243507 TGGATTTGCAGCTTTCACAGAATAA 59.756 36.000 0.00 0.00 0.00 1.40
523 879 4.766373 TGGATTTGCAGCTTTCACAGAATA 59.234 37.500 0.00 0.00 0.00 1.75
524 880 3.575256 TGGATTTGCAGCTTTCACAGAAT 59.425 39.130 0.00 0.00 0.00 2.40
525 881 2.957680 TGGATTTGCAGCTTTCACAGAA 59.042 40.909 0.00 0.00 0.00 3.02
526 882 2.585330 TGGATTTGCAGCTTTCACAGA 58.415 42.857 0.00 0.00 0.00 3.41
527 883 3.508762 GATGGATTTGCAGCTTTCACAG 58.491 45.455 0.00 0.00 0.00 3.66
528 884 2.095110 CGATGGATTTGCAGCTTTCACA 60.095 45.455 0.00 0.00 0.00 3.58
529 885 2.523015 CGATGGATTTGCAGCTTTCAC 58.477 47.619 0.00 0.00 0.00 3.18
563 919 7.684489 GCTCTATATAGCGCACTTTAAATTTCG 59.316 37.037 17.80 0.00 34.36 3.46
564 920 8.867248 GCTCTATATAGCGCACTTTAAATTTC 57.133 34.615 17.80 0.00 34.36 2.17
578 934 4.333095 TGTCGATCGGAAGCTCTATATAGC 59.667 45.833 16.41 1.94 43.11 2.97
579 935 5.503357 GCTGTCGATCGGAAGCTCTATATAG 60.503 48.000 25.91 3.10 32.82 1.31
580 936 4.333095 GCTGTCGATCGGAAGCTCTATATA 59.667 45.833 25.91 0.00 32.82 0.86
581 937 3.127895 GCTGTCGATCGGAAGCTCTATAT 59.872 47.826 25.91 0.00 32.82 0.86
582 938 2.484651 GCTGTCGATCGGAAGCTCTATA 59.515 50.000 25.91 0.00 32.82 1.31
583 939 1.268352 GCTGTCGATCGGAAGCTCTAT 59.732 52.381 25.91 0.00 32.82 1.98
586 942 1.139734 TGCTGTCGATCGGAAGCTC 59.860 57.895 29.94 13.26 36.60 4.09
627 987 1.330234 TGCATGCATGGTCAACAAGT 58.670 45.000 27.34 0.00 0.00 3.16
693 1080 1.179814 ACCTCTCCGTATCCATCGGC 61.180 60.000 0.00 0.00 46.49 5.54
730 1117 2.166664 GGCTGGATACGACAGAGAACTT 59.833 50.000 0.00 0.00 38.20 2.66
734 1121 1.725557 GCGGCTGGATACGACAGAGA 61.726 60.000 0.00 0.00 38.20 3.10
833 1220 8.467402 ACGACAGAAACTGATGAAATACTAAG 57.533 34.615 5.76 0.00 35.18 2.18
915 1302 1.036707 GAGGAGACGAGATCCAAGGG 58.963 60.000 7.79 0.00 39.47 3.95
975 1362 5.697067 TGTAGGTGGTTTAGTTCCATGTTT 58.303 37.500 0.00 0.00 37.30 2.83
976 1363 5.072600 TCTGTAGGTGGTTTAGTTCCATGTT 59.927 40.000 0.00 0.00 37.30 2.71
988 1377 1.958288 AGCTCCATCTGTAGGTGGTT 58.042 50.000 10.80 0.00 36.84 3.67
1066 1455 1.325640 CTGATGATGCGTGTAGTGTGC 59.674 52.381 0.00 0.00 0.00 4.57
1112 1510 1.684391 TGGTCGATCCCCGTGTCAT 60.684 57.895 0.00 0.00 39.75 3.06
1135 1533 1.985895 GGGGAAGGAGAAGGAGAACAA 59.014 52.381 0.00 0.00 0.00 2.83
1161 1559 2.936032 AAGGAGGTGGAGGTGGCC 60.936 66.667 0.00 0.00 0.00 5.36
1203 1610 1.117749 TCATGATCTCCTCCCAGGCG 61.118 60.000 0.00 0.00 34.61 5.52
1236 1661 1.214373 GCGGTAACAACGACGGTGAA 61.214 55.000 21.82 4.06 0.00 3.18
1239 1664 1.662446 CTGCGGTAACAACGACGGT 60.662 57.895 0.00 0.00 0.00 4.83
1284 1709 2.680352 ATGAGTGGCGAGTCCGGT 60.680 61.111 0.00 0.00 37.80 5.28
1296 1721 3.000819 TTCCGCACCCCGATGAGT 61.001 61.111 0.00 0.00 40.02 3.41
1621 2058 4.504916 CTCCTGCCTCGTCGCCTG 62.505 72.222 0.00 0.00 0.00 4.85
1787 2252 4.957954 TCTCATGGAAGGAAATGGATTTGG 59.042 41.667 0.00 0.00 0.00 3.28
1840 2305 1.002624 CACGGGCCAGCCTCTTTTA 60.003 57.895 4.39 0.00 36.10 1.52
1924 2394 4.563580 CCCAAAAACGACACACCTAAAAAC 59.436 41.667 0.00 0.00 0.00 2.43
1939 6177 2.549992 GGCCCAAGAATGACCCAAAAAC 60.550 50.000 0.00 0.00 0.00 2.43
1972 6210 1.112113 ATCTTAGTGCATCCGACCGT 58.888 50.000 0.00 0.00 0.00 4.83
1976 6214 5.972935 TCACTTTAATCTTAGTGCATCCGA 58.027 37.500 0.00 0.00 41.16 4.55
1993 6231 2.073816 CACGCTACCCGATTTCACTTT 58.926 47.619 0.00 0.00 41.02 2.66
2001 6239 2.043248 ACCTCCACGCTACCCGAT 60.043 61.111 0.00 0.00 41.02 4.18
2006 6244 0.753262 ATCCATCACCTCCACGCTAC 59.247 55.000 0.00 0.00 0.00 3.58
2088 6326 8.599624 AAATGACATGGGAAAAGTCTAATGAT 57.400 30.769 0.00 0.00 33.56 2.45
2141 6379 7.483580 AACCTTACTAGTTCATGAGCTACTT 57.516 36.000 14.61 7.91 0.00 2.24
2274 6512 9.444600 GGAGTATGATACCTGTTTTCTTTTACA 57.555 33.333 0.00 0.00 0.00 2.41
2275 6513 8.601476 CGGAGTATGATACCTGTTTTCTTTTAC 58.399 37.037 0.00 0.00 0.00 2.01
2277 6515 7.166167 ACGGAGTATGATACCTGTTTTCTTTT 58.834 34.615 0.00 0.00 41.94 2.27
2300 6540 1.992170 CAGTCTTTTAGGGACGGACG 58.008 55.000 0.00 0.00 38.58 4.79
2305 6545 0.796927 GCGTGCAGTCTTTTAGGGAC 59.203 55.000 0.00 0.00 0.00 4.46
2341 6581 5.109903 CCAGACCTACACTTATTTTCGGAG 58.890 45.833 0.00 0.00 0.00 4.63
2344 6584 4.504858 AGCCAGACCTACACTTATTTTCG 58.495 43.478 0.00 0.00 0.00 3.46
2442 6683 6.256539 AGTGTTGCTTCGATTCACATATACAG 59.743 38.462 0.00 0.00 0.00 2.74
2449 6693 4.378356 GCAATAGTGTTGCTTCGATTCACA 60.378 41.667 16.53 0.00 41.87 3.58
2475 6719 3.711704 TCCTCCCTCATTTAAGCTACTGG 59.288 47.826 0.00 0.00 0.00 4.00
2476 6720 5.359194 TTCCTCCCTCATTTAAGCTACTG 57.641 43.478 0.00 0.00 0.00 2.74
2477 6721 4.410555 CCTTCCTCCCTCATTTAAGCTACT 59.589 45.833 0.00 0.00 0.00 2.57
2478 6722 4.445019 CCCTTCCTCCCTCATTTAAGCTAC 60.445 50.000 0.00 0.00 0.00 3.58
2557 6808 4.277423 ACAAAACCATACTTCCTTTGTCCG 59.723 41.667 0.00 0.00 35.82 4.79
2558 6809 5.508994 CCACAAAACCATACTTCCTTTGTCC 60.509 44.000 0.00 0.00 37.95 4.02
2574 6825 1.956477 ACAGATGACAGGCCACAAAAC 59.044 47.619 5.01 0.00 0.00 2.43
2585 6836 3.585862 GCTTTTAGGTCGACAGATGACA 58.414 45.455 18.91 0.00 38.10 3.58
2593 6844 2.101082 CCTCCTAGGCTTTTAGGTCGAC 59.899 54.545 7.13 7.13 40.91 4.20
2621 6872 0.107800 GTTAAGAACTCCGAGCCCCC 60.108 60.000 0.00 0.00 0.00 5.40
2622 6873 0.903236 AGTTAAGAACTCCGAGCCCC 59.097 55.000 0.00 0.00 37.02 5.80
2636 6887 9.921637 GGACAATGTTTATGAATTTGGAGTTAA 57.078 29.630 0.00 0.00 0.00 2.01
2637 6888 9.308000 AGGACAATGTTTATGAATTTGGAGTTA 57.692 29.630 0.00 0.00 0.00 2.24
2638 6889 8.193953 AGGACAATGTTTATGAATTTGGAGTT 57.806 30.769 0.00 0.00 0.00 3.01
2639 6890 7.781324 AGGACAATGTTTATGAATTTGGAGT 57.219 32.000 0.00 0.00 0.00 3.85
2640 6891 8.090214 ACAAGGACAATGTTTATGAATTTGGAG 58.910 33.333 0.00 0.00 0.00 3.86
2641 6892 7.961351 ACAAGGACAATGTTTATGAATTTGGA 58.039 30.769 0.00 0.00 0.00 3.53
2642 6893 7.331687 GGACAAGGACAATGTTTATGAATTTGG 59.668 37.037 0.00 0.00 0.00 3.28
2643 6894 7.871973 TGGACAAGGACAATGTTTATGAATTTG 59.128 33.333 0.00 0.00 0.00 2.32
2644 6895 7.961351 TGGACAAGGACAATGTTTATGAATTT 58.039 30.769 0.00 0.00 0.00 1.82
2645 6896 7.537596 TGGACAAGGACAATGTTTATGAATT 57.462 32.000 0.00 0.00 0.00 2.17
2646 6897 7.537596 TTGGACAAGGACAATGTTTATGAAT 57.462 32.000 0.00 0.00 0.00 2.57
2647 6898 6.968263 TTGGACAAGGACAATGTTTATGAA 57.032 33.333 0.00 0.00 0.00 2.57
2648 6899 7.537596 AATTGGACAAGGACAATGTTTATGA 57.462 32.000 0.00 0.00 37.38 2.15
2649 6900 8.303156 TGTAATTGGACAAGGACAATGTTTATG 58.697 33.333 0.00 0.00 37.38 1.90
2650 6901 8.415950 TGTAATTGGACAAGGACAATGTTTAT 57.584 30.769 0.00 0.00 37.38 1.40
2651 6902 7.825331 TGTAATTGGACAAGGACAATGTTTA 57.175 32.000 0.00 0.00 37.38 2.01
2652 6903 6.723298 TGTAATTGGACAAGGACAATGTTT 57.277 33.333 0.00 0.00 37.38 2.83
2653 6904 6.723298 TTGTAATTGGACAAGGACAATGTT 57.277 33.333 9.27 0.00 37.38 2.71
2654 6905 6.723298 TTTGTAATTGGACAAGGACAATGT 57.277 33.333 12.47 0.00 40.31 2.71
2655 6906 7.209475 AGTTTTGTAATTGGACAAGGACAATG 58.791 34.615 12.47 0.00 40.31 2.82
2656 6907 7.287696 AGAGTTTTGTAATTGGACAAGGACAAT 59.712 33.333 12.47 0.00 40.31 2.71
2657 6908 6.605594 AGAGTTTTGTAATTGGACAAGGACAA 59.394 34.615 9.27 9.27 40.31 3.18
2658 6909 6.126409 AGAGTTTTGTAATTGGACAAGGACA 58.874 36.000 10.06 0.00 40.31 4.02
2659 6910 6.635030 AGAGTTTTGTAATTGGACAAGGAC 57.365 37.500 0.00 0.00 40.31 3.85
2660 6911 7.201875 GGAAAGAGTTTTGTAATTGGACAAGGA 60.202 37.037 0.00 0.00 40.31 3.36
2661 6912 6.923508 GGAAAGAGTTTTGTAATTGGACAAGG 59.076 38.462 0.00 0.00 40.31 3.61
2662 6913 7.488322 TGGAAAGAGTTTTGTAATTGGACAAG 58.512 34.615 0.00 0.00 40.31 3.16
2663 6914 7.411486 TGGAAAGAGTTTTGTAATTGGACAA 57.589 32.000 0.00 0.00 37.54 3.18
2664 6915 7.411486 TTGGAAAGAGTTTTGTAATTGGACA 57.589 32.000 0.00 0.00 0.00 4.02
2665 6916 7.979537 AGTTTGGAAAGAGTTTTGTAATTGGAC 59.020 33.333 0.00 0.00 0.00 4.02
2666 6917 8.073467 AGTTTGGAAAGAGTTTTGTAATTGGA 57.927 30.769 0.00 0.00 0.00 3.53
2667 6918 9.981114 ATAGTTTGGAAAGAGTTTTGTAATTGG 57.019 29.630 0.00 0.00 0.00 3.16
2685 6936 3.545703 AGAAGATTCGCCCATAGTTTGG 58.454 45.455 0.00 0.00 46.00 3.28
2686 6937 6.677781 TTAAGAAGATTCGCCCATAGTTTG 57.322 37.500 0.00 0.00 0.00 2.93
2687 6938 5.297029 GCTTAAGAAGATTCGCCCATAGTTT 59.703 40.000 6.67 0.00 0.00 2.66
2688 6939 4.816925 GCTTAAGAAGATTCGCCCATAGTT 59.183 41.667 6.67 0.00 0.00 2.24
2689 6940 4.381411 GCTTAAGAAGATTCGCCCATAGT 58.619 43.478 6.67 0.00 0.00 2.12
2690 6941 3.748568 GGCTTAAGAAGATTCGCCCATAG 59.251 47.826 6.67 0.00 0.00 2.23
2691 6942 3.135712 TGGCTTAAGAAGATTCGCCCATA 59.864 43.478 6.67 0.00 36.74 2.74
2692 6943 2.092429 TGGCTTAAGAAGATTCGCCCAT 60.092 45.455 6.67 0.00 36.74 4.00
2693 6944 1.280710 TGGCTTAAGAAGATTCGCCCA 59.719 47.619 6.67 0.00 36.74 5.36
2694 6945 2.038387 TGGCTTAAGAAGATTCGCCC 57.962 50.000 6.67 0.00 36.74 6.13
2695 6946 3.010420 ACTTGGCTTAAGAAGATTCGCC 58.990 45.455 6.67 0.00 39.76 5.54
2696 6947 4.259850 CGTACTTGGCTTAAGAAGATTCGC 60.260 45.833 6.67 0.00 39.76 4.70
2697 6948 4.863131 ACGTACTTGGCTTAAGAAGATTCG 59.137 41.667 6.67 11.03 39.76 3.34
2698 6949 5.291371 GGACGTACTTGGCTTAAGAAGATTC 59.709 44.000 6.67 0.06 39.76 2.52
2699 6950 5.046520 AGGACGTACTTGGCTTAAGAAGATT 60.047 40.000 6.67 0.00 39.76 2.40
2700 6951 4.466726 AGGACGTACTTGGCTTAAGAAGAT 59.533 41.667 6.67 0.00 39.76 2.40
2701 6952 3.830755 AGGACGTACTTGGCTTAAGAAGA 59.169 43.478 6.67 0.00 39.76 2.87
2702 6953 4.189639 AGGACGTACTTGGCTTAAGAAG 57.810 45.455 6.67 4.51 39.76 2.85
2703 6954 5.244626 AGTTAGGACGTACTTGGCTTAAGAA 59.755 40.000 5.12 0.00 39.76 2.52
2704 6955 4.768968 AGTTAGGACGTACTTGGCTTAAGA 59.231 41.667 5.12 0.00 39.76 2.10
2705 6956 5.069501 AGTTAGGACGTACTTGGCTTAAG 57.930 43.478 5.12 0.00 42.30 1.85
2706 6957 4.082026 GGAGTTAGGACGTACTTGGCTTAA 60.082 45.833 5.12 0.00 0.00 1.85
2707 6958 3.445096 GGAGTTAGGACGTACTTGGCTTA 59.555 47.826 5.12 0.00 0.00 3.09
2708 6959 2.233186 GGAGTTAGGACGTACTTGGCTT 59.767 50.000 5.12 0.00 0.00 4.35
2709 6960 1.823610 GGAGTTAGGACGTACTTGGCT 59.176 52.381 5.12 1.33 0.00 4.75
2710 6961 1.823610 AGGAGTTAGGACGTACTTGGC 59.176 52.381 5.12 0.00 0.00 4.52
2711 6962 3.508793 TGAAGGAGTTAGGACGTACTTGG 59.491 47.826 5.12 0.00 0.00 3.61
2712 6963 4.778534 TGAAGGAGTTAGGACGTACTTG 57.221 45.455 5.12 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.