Multiple sequence alignment - TraesCS7A01G291900

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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 TraesCS7A01G291900 chr7A 100.000 5593 0 0 2270 7862 360612033 360617625 0.000000e+00 10329.0
1 TraesCS7A01G291900 chr7A 100.000 2004 0 0 1 2004 360609764 360611767 0.000000e+00 3701.0
2 TraesCS7A01G291900 chr7A 87.705 244 27 3 474 715 682249348 682249590 1.670000e-71 281.0
3 TraesCS7A01G291900 chr7A 81.967 122 16 6 3455 3573 694549231 694549113 1.810000e-16 99.0
4 TraesCS7A01G291900 chr7A 94.828 58 2 1 1434 1491 86111601 86111545 1.090000e-13 89.8
5 TraesCS7A01G291900 chr7B 96.177 4813 120 20 2291 7066 339027156 339022371 0.000000e+00 7810.0
6 TraesCS7A01G291900 chr7B 94.983 578 17 3 865 1438 339028728 339028159 0.000000e+00 896.0
7 TraesCS7A01G291900 chr7B 92.557 524 11 3 1489 2004 339028162 339027659 0.000000e+00 726.0
8 TraesCS7A01G291900 chr7B 91.601 381 32 0 7482 7862 339020829 339020449 1.940000e-145 527.0
9 TraesCS7A01G291900 chr7B 90.659 182 9 2 7331 7504 339020947 339020766 1.320000e-57 235.0
10 TraesCS7A01G291900 chr7B 85.106 141 18 3 7112 7250 339021531 339021392 2.960000e-29 141.0
11 TraesCS7A01G291900 chr7B 80.833 120 21 2 3455 3573 683516406 683516288 8.400000e-15 93.5
12 TraesCS7A01G291900 chr7D 96.920 2727 55 9 4381 7080 311272621 311275345 0.000000e+00 4543.0
13 TraesCS7A01G291900 chr7D 98.066 2120 32 3 2274 4385 311268233 311270351 0.000000e+00 3679.0
14 TraesCS7A01G291900 chr7D 98.060 567 10 1 872 1437 311266797 311267363 0.000000e+00 985.0
15 TraesCS7A01G291900 chr7D 97.386 459 9 2 1548 2004 311267455 311267912 0.000000e+00 778.0
16 TraesCS7A01G291900 chr7D 92.786 402 28 1 34 434 104529624 104530025 1.470000e-161 580.0
17 TraesCS7A01G291900 chr7D 92.913 381 27 0 7482 7862 311276130 311276510 8.910000e-154 555.0
18 TraesCS7A01G291900 chr7D 91.391 302 21 2 472 773 84346117 84346413 7.340000e-110 409.0
19 TraesCS7A01G291900 chr7D 91.566 249 12 2 7251 7490 311275925 311276173 1.260000e-87 335.0
20 TraesCS7A01G291900 chr7D 86.495 311 33 5 1 304 591692846 591693154 4.550000e-87 333.0
21 TraesCS7A01G291900 chr7D 88.525 244 24 4 474 715 591693967 591694208 7.720000e-75 292.0
22 TraesCS7A01G291900 chr7D 94.118 102 6 0 371 472 84345977 84346078 1.060000e-33 156.0
23 TraesCS7A01G291900 chr7D 97.436 78 2 0 1488 1565 311267364 311267441 4.950000e-27 134.0
24 TraesCS7A01G291900 chr7D 85.714 105 14 1 7112 7215 63015310 63015414 8.340000e-20 110.0
25 TraesCS7A01G291900 chr7D 82.645 121 17 4 3455 3573 602905001 602904883 3.880000e-18 104.0
26 TraesCS7A01G291900 chr7D 95.238 63 2 1 807 869 311266152 311266213 1.810000e-16 99.0
27 TraesCS7A01G291900 chr7D 92.308 65 3 2 1427 1490 382256751 382256814 3.020000e-14 91.6
28 TraesCS7A01G291900 chr7D 94.286 35 1 1 7100 7133 311275447 311275481 1.400000e-02 52.8
29 TraesCS7A01G291900 chr3D 94.015 401 24 0 34 434 84584734 84584334 6.750000e-170 608.0
30 TraesCS7A01G291900 chr5D 92.768 401 29 0 34 434 550184820 550185220 1.470000e-161 580.0
31 TraesCS7A01G291900 chr5D 85.714 98 14 0 3449 3546 512300871 512300968 3.880000e-18 104.0
32 TraesCS7A01G291900 chr1D 92.786 402 28 1 34 434 97224286 97224687 1.470000e-161 580.0
33 TraesCS7A01G291900 chr1D 80.576 139 27 0 3449 3587 423252387 423252249 3.000000e-19 108.0
34 TraesCS7A01G291900 chr1D 88.406 69 8 0 7784 7852 278511650 278511582 5.060000e-12 84.2
35 TraesCS7A01G291900 chrUn 92.537 402 29 1 34 434 27018698 27019099 6.840000e-160 575.0
36 TraesCS7A01G291900 chr2D 92.519 401 30 0 34 434 629573638 629573238 6.840000e-160 575.0
37 TraesCS7A01G291900 chr2D 88.163 245 25 3 474 715 7985848 7986091 9.980000e-74 289.0
38 TraesCS7A01G291900 chr2D 96.429 56 2 0 1435 1490 126125702 126125757 8.400000e-15 93.5
39 TraesCS7A01G291900 chr4D 84.375 416 48 10 1 405 46723464 46723873 7.400000e-105 392.0
40 TraesCS7A01G291900 chr6D 88.485 330 15 4 472 800 18529369 18529062 2.070000e-100 377.0
41 TraesCS7A01G291900 chr6D 90.164 183 18 0 260 442 18529762 18529580 1.020000e-58 239.0
42 TraesCS7A01G291900 chr6D 86.364 110 14 1 7112 7220 121160028 121159919 1.390000e-22 119.0
43 TraesCS7A01G291900 chr6D 81.481 108 18 2 7112 7217 8016398 8016505 3.910000e-13 87.9
44 TraesCS7A01G291900 chr1A 82.836 402 55 9 16 404 577594143 577594543 1.620000e-91 348.0
45 TraesCS7A01G291900 chr1A 78.676 136 29 0 3452 3587 519254258 519254123 3.020000e-14 91.6
46 TraesCS7A01G291900 chr6B 86.869 99 13 0 510 608 44088449 44088351 2.320000e-20 111.0
47 TraesCS7A01G291900 chr5A 83.784 111 16 2 7112 7220 692767727 692767617 3.880000e-18 104.0
48 TraesCS7A01G291900 chr5A 94.915 59 3 0 1436 1494 134091424 134091482 8.400000e-15 93.5
49 TraesCS7A01G291900 chr4B 84.112 107 16 1 7112 7217 62974441 62974547 1.400000e-17 102.0
50 TraesCS7A01G291900 chr5B 81.250 128 20 3 3449 3573 643301845 643301971 5.020000e-17 100.0
51 TraesCS7A01G291900 chr5B 90.909 66 4 2 1428 1492 712433484 712433548 3.910000e-13 87.9
52 TraesCS7A01G291900 chr3B 96.552 58 2 0 1435 1492 814884435 814884378 6.490000e-16 97.1
53 TraesCS7A01G291900 chr3B 92.188 64 4 1 1427 1490 446708424 446708486 1.090000e-13 89.8
54 TraesCS7A01G291900 chr4A 81.982 111 18 2 7112 7220 121480330 121480220 8.400000e-15 93.5
55 TraesCS7A01G291900 chr4A 95.000 60 2 1 1435 1493 614706364 614706423 8.400000e-15 93.5
56 TraesCS7A01G291900 chr4A 93.651 63 0 2 1435 1493 741472554 741472616 3.020000e-14 91.6
57 TraesCS7A01G291900 chr3A 88.312 77 9 0 7138 7214 620990019 620990095 8.400000e-15 93.5
58 TraesCS7A01G291900 chr3A 82.653 98 17 0 510 607 724551937 724552034 3.910000e-13 87.9
59 TraesCS7A01G291900 chr6A 81.373 102 19 0 7116 7217 37060591 37060692 5.060000e-12 84.2


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 TraesCS7A01G291900 chr7A 360609764 360617625 7861 False 7015.000000 10329 100.000000 1 7862 2 chr7A.!!$F2 7861
1 TraesCS7A01G291900 chr7B 339020449 339028728 8279 True 1722.500000 7810 91.847167 865 7862 6 chr7B.!!$R2 6997
2 TraesCS7A01G291900 chr7D 311266152 311276510 10358 False 1240.088889 4543 95.763444 807 7862 9 chr7D.!!$F5 7055
3 TraesCS7A01G291900 chr7D 591692846 591694208 1362 False 312.500000 333 87.510000 1 715 2 chr7D.!!$F6 714
4 TraesCS7A01G291900 chr6D 18529062 18529762 700 True 308.000000 377 89.324500 260 800 2 chr6D.!!$R2 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
80 81 0.034767 CAATGGCAGAGGAGAGGCAA 60.035 55.000 0.00 0.00 43.78 4.52 F
707 1427 0.687427 GGGCTACACATGGGGCAATT 60.687 55.000 0.00 0.00 0.00 2.32 F
769 1489 1.075542 TTACAATTGCCTCGCGTGAG 58.924 50.000 19.15 19.15 42.18 3.51 F
805 1525 2.058593 GCCTAGCACTGGCCTTTATT 57.941 50.000 3.32 0.00 44.32 1.40 F
2370 3933 1.615392 GCATTGAGCTTCTTTGGTGGT 59.385 47.619 0.00 0.00 41.15 4.16 F
2803 4372 0.038618 GAAAAATGGTCCGCACCCAC 60.039 55.000 0.00 0.00 42.99 4.61 F
3986 5558 0.520847 GCAGCCTTGACAAAGAGCTC 59.479 55.000 5.27 5.27 37.64 4.09 F
4872 8721 1.484240 AGTGCAGTTAGAGAGGGCATC 59.516 52.381 0.00 0.00 36.79 3.91 F
5925 9780 1.202794 TGATTGGCACTTGTCTGCTGA 60.203 47.619 0.00 0.00 37.33 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1479 2785 1.207329 CCAAGGAAAGTACTCCCTCCG 59.793 57.143 14.88 10.32 35.95 4.63 R
2340 3903 1.293924 AGCTCAATGCATGCGTCTAC 58.706 50.000 13.95 3.54 45.94 2.59 R
2367 3930 4.528920 ACTGTTTTACTGGCACTAAACCA 58.471 39.130 10.19 4.95 35.40 3.67 R
2525 4094 5.771666 ACTTCTTCTCAATGAGCCATTTTCA 59.228 36.000 5.18 0.00 31.05 2.69 R
3725 5297 0.460811 TCCATCTGATGCACGCTCAC 60.461 55.000 12.17 0.00 0.00 3.51 R
4496 8345 1.818674 TGTAATGCTCTGTCTCGCTCA 59.181 47.619 0.00 0.00 0.00 4.26 R
5674 9526 2.918934 TCATGAAAACCATCAGAGGGGA 59.081 45.455 5.98 0.00 31.94 4.81 R
6056 9911 0.313987 TATCCACGTAGCTCATGCGG 59.686 55.000 0.00 0.00 45.42 5.69 R
7195 11968 0.179032 ACACATGGCAACTCCGAACA 60.179 50.000 0.00 0.00 37.80 3.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.402564 CCTCCAGCCTTATCTTCTCCA 58.597 52.381 0.00 0.00 0.00 3.86
27 28 2.103941 CTCCAGCCTTATCTTCTCCACC 59.896 54.545 0.00 0.00 0.00 4.61
39 40 0.909610 TCTCCACCCATCGCTTCCTT 60.910 55.000 0.00 0.00 0.00 3.36
42 43 1.604378 CACCCATCGCTTCCTTCCT 59.396 57.895 0.00 0.00 0.00 3.36
45 46 1.075536 ACCCATCGCTTCCTTCCTTTT 59.924 47.619 0.00 0.00 0.00 2.27
64 65 3.518992 TTCCCCCTTTTCTCGTTCAAT 57.481 42.857 0.00 0.00 0.00 2.57
80 81 0.034767 CAATGGCAGAGGAGAGGCAA 60.035 55.000 0.00 0.00 43.78 4.52
81 82 0.924823 AATGGCAGAGGAGAGGCAAT 59.075 50.000 0.00 0.00 43.78 3.56
83 84 1.583556 TGGCAGAGGAGAGGCAATAA 58.416 50.000 0.00 0.00 37.37 1.40
87 95 2.806382 GCAGAGGAGAGGCAATAAGAGC 60.806 54.545 0.00 0.00 0.00 4.09
105 113 1.775459 AGCAGCCTGATTCATCCTCAT 59.225 47.619 0.00 0.00 0.00 2.90
106 114 2.152830 GCAGCCTGATTCATCCTCATC 58.847 52.381 0.00 0.00 0.00 2.92
109 117 1.610102 GCCTGATTCATCCTCATCCCG 60.610 57.143 0.00 0.00 0.00 5.14
161 169 2.029844 GAAGGTCTGTCGTGGCTGC 61.030 63.158 0.00 0.00 0.00 5.25
162 170 2.715532 GAAGGTCTGTCGTGGCTGCA 62.716 60.000 0.50 0.00 0.00 4.41
177 185 4.481112 GCATTGAAGCGCCACCGG 62.481 66.667 2.29 0.00 34.32 5.28
187 195 4.783621 GCCACCGGAGCTGCATCA 62.784 66.667 9.46 0.00 0.00 3.07
189 197 2.046988 CACCGGAGCTGCATCACA 60.047 61.111 9.46 0.00 0.00 3.58
206 214 2.973899 AGCTTCCGCTGTCATCGT 59.026 55.556 0.00 0.00 46.86 3.73
209 217 1.154016 CTTCCGCTGTCATCGTCGT 60.154 57.895 0.00 0.00 0.00 4.34
215 223 1.068832 GCTGTCATCGTCGTGCGTTA 61.069 55.000 0.00 0.00 42.13 3.18
228 236 2.099062 CGTTACGTCGTAGCGCCT 59.901 61.111 24.90 0.00 36.16 5.52
349 885 2.046023 CAATGGAGCGTGCCAGGA 60.046 61.111 0.00 0.00 42.15 3.86
408 1086 2.747460 GGCTGCAATGGAGCACGA 60.747 61.111 27.02 0.00 40.11 4.35
426 1104 1.615424 ACGGGGGCAGTAATGGAGT 60.615 57.895 0.00 0.00 0.00 3.85
434 1112 2.004583 CAGTAATGGAGTTTCGCCGA 57.995 50.000 0.00 0.00 0.00 5.54
513 1231 2.151202 GCTTGTTTTCCATCGTCTCCA 58.849 47.619 0.00 0.00 0.00 3.86
634 1353 1.071987 CACTGCAGAGGAGGCACAA 59.928 57.895 23.35 0.00 36.11 3.33
679 1399 2.713976 GTGCGATTTTTCTGTGTTGACG 59.286 45.455 0.00 0.00 0.00 4.35
689 1409 4.174411 TCTGTGTTGACGTGATCTAAGG 57.826 45.455 0.00 0.00 0.00 2.69
707 1427 0.687427 GGGCTACACATGGGGCAATT 60.687 55.000 0.00 0.00 0.00 2.32
765 1485 1.246970 CGTTTTACAATTGCCTCGCG 58.753 50.000 5.05 0.00 0.00 5.87
766 1486 1.399215 CGTTTTACAATTGCCTCGCGT 60.399 47.619 5.77 0.00 0.00 6.01
767 1487 1.976045 GTTTTACAATTGCCTCGCGTG 59.024 47.619 5.77 2.75 0.00 5.34
768 1488 1.514003 TTTACAATTGCCTCGCGTGA 58.486 45.000 10.21 0.00 0.00 4.35
769 1489 1.075542 TTACAATTGCCTCGCGTGAG 58.924 50.000 19.15 19.15 42.18 3.51
804 1524 3.808984 GCCTAGCACTGGCCTTTAT 57.191 52.632 3.32 0.00 44.32 1.40
805 1525 2.058593 GCCTAGCACTGGCCTTTATT 57.941 50.000 3.32 0.00 44.32 1.40
823 1543 9.025041 GCCTTTATTATTAGGGCAAGATAACAT 57.975 33.333 0.00 0.00 42.08 2.71
835 1555 6.429385 GGGCAAGATAACATAGATTGAGGAAG 59.571 42.308 0.00 0.00 0.00 3.46
1111 2413 4.193334 CATCTCGGCGCGGAGACA 62.193 66.667 39.41 24.78 45.24 3.41
1239 2541 2.981805 TCGTCTCGTGTTAAAATGGTCG 59.018 45.455 0.00 0.00 0.00 4.79
1405 2711 5.106157 CCCTTGCTATTTGACTACTTTGTGG 60.106 44.000 0.00 0.00 0.00 4.17
1418 2724 3.149196 ACTTTGTGGGATGCTGTAGTTG 58.851 45.455 0.00 0.00 0.00 3.16
1461 2767 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
1462 2768 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.00 0.00 5.03
1463 2769 7.069578 TCCCTCTGTAAAGAAATATAAGAGCGT 59.930 37.037 0.00 0.00 0.00 5.07
1464 2770 7.711339 CCCTCTGTAAAGAAATATAAGAGCGTT 59.289 37.037 0.00 0.00 0.00 4.84
1465 2771 9.099454 CCTCTGTAAAGAAATATAAGAGCGTTT 57.901 33.333 0.00 0.00 0.00 3.60
1480 2786 5.808403 AGAGCGTTTAGATCACTACTTACG 58.192 41.667 0.00 0.00 37.82 3.18
1481 2787 4.918037 AGCGTTTAGATCACTACTTACGG 58.082 43.478 0.00 0.00 33.17 4.02
1482 2788 4.637534 AGCGTTTAGATCACTACTTACGGA 59.362 41.667 0.00 0.00 33.17 4.69
1483 2789 4.968788 GCGTTTAGATCACTACTTACGGAG 59.031 45.833 0.00 0.00 33.17 4.63
1484 2790 5.508872 CGTTTAGATCACTACTTACGGAGG 58.491 45.833 0.00 0.00 31.09 4.30
1485 2791 5.505324 CGTTTAGATCACTACTTACGGAGGG 60.505 48.000 0.00 0.00 31.09 4.30
1486 2792 3.947612 AGATCACTACTTACGGAGGGA 57.052 47.619 0.00 0.00 0.00 4.20
1502 2808 3.329814 GGAGGGAGTACTTTCCTTGGAAA 59.670 47.826 16.65 13.43 37.40 3.13
1569 2906 4.675063 AAGGTATTGGGAAGTGAACCAT 57.325 40.909 0.00 0.00 36.48 3.55
1651 2998 7.069208 TGCATCTTAGTCTGACAATGTCTATCT 59.931 37.037 14.97 11.32 33.15 1.98
1655 3002 8.845227 TCTTAGTCTGACAATGTCTATCTGATC 58.155 37.037 14.97 0.00 33.15 2.92
2367 3930 2.353406 GCATGCATTGAGCTTCTTTGGT 60.353 45.455 14.21 0.00 45.94 3.67
2370 3933 1.615392 GCATTGAGCTTCTTTGGTGGT 59.385 47.619 0.00 0.00 41.15 4.16
2525 4094 4.134563 AGCAACTGGTAAAACTTCGTGAT 58.865 39.130 0.00 0.00 0.00 3.06
2575 4144 4.321675 GGAGAGCTCTAACTATAAGGCAGC 60.322 50.000 18.25 0.00 0.00 5.25
2803 4372 0.038618 GAAAAATGGTCCGCACCCAC 60.039 55.000 0.00 0.00 42.99 4.61
2847 4416 3.491619 AGCTATAAGCAGTGTCATCACGG 60.492 47.826 1.22 0.00 45.56 4.94
2906 4477 1.625818 ACGCTTCACTCCTCTTTGGAT 59.374 47.619 0.00 0.00 45.16 3.41
2984 4555 8.854312 GCTGCAAGAAACAACTATTATTCTTTC 58.146 33.333 0.00 0.00 39.43 2.62
3725 5297 4.221703 AGATGAGTTGAGTACAAGGGACAG 59.778 45.833 0.00 0.00 36.64 3.51
3753 5325 4.449131 GTGCATCAGATGGATCTCTTCAA 58.551 43.478 12.54 0.00 34.22 2.69
3978 5550 2.032528 CGAAGGGCAGCCTTGACA 59.967 61.111 12.43 0.00 32.23 3.58
3986 5558 0.520847 GCAGCCTTGACAAAGAGCTC 59.479 55.000 5.27 5.27 37.64 4.09
3991 5563 2.157863 GCCTTGACAAAGAGCTCGTTAC 59.842 50.000 14.72 12.02 35.19 2.50
4385 8234 4.639334 TGGTTTTGTTAGTGTGCGGTATA 58.361 39.130 0.00 0.00 0.00 1.47
4386 8235 4.691685 TGGTTTTGTTAGTGTGCGGTATAG 59.308 41.667 0.00 0.00 0.00 1.31
4496 8345 3.500343 AGCTTTACAGGGTGCTTTTCAT 58.500 40.909 0.00 0.00 30.96 2.57
4589 8438 6.040391 TCTCAATTTTTAGTTCCCACACTTGG 59.960 38.462 0.00 0.00 43.50 3.61
4602 8451 2.749621 CACACTTGGAATTCAGCTACCC 59.250 50.000 7.93 0.00 0.00 3.69
4603 8452 2.009774 CACTTGGAATTCAGCTACCCG 58.990 52.381 7.93 0.00 0.00 5.28
4647 8496 2.813754 GTTGTGCAGAAGCTATTCCACA 59.186 45.455 0.00 6.21 42.74 4.17
4670 8519 8.853345 CACATAACTTCATTTGAACAATGTAGC 58.147 33.333 8.77 0.00 30.99 3.58
4872 8721 1.484240 AGTGCAGTTAGAGAGGGCATC 59.516 52.381 0.00 0.00 36.79 3.91
5674 9526 3.181455 TGTTGACAGGTGCTGACTATTGT 60.181 43.478 0.00 0.00 35.18 2.71
5691 9544 2.879103 TGTCCCCTCTGATGGTTTTC 57.121 50.000 0.00 0.00 0.00 2.29
5706 9559 7.915508 TGATGGTTTTCATGAATACGTATGTC 58.084 34.615 18.82 9.38 35.97 3.06
5834 9689 8.103305 AGAACAATCATGTACACAGTAAATCCT 58.897 33.333 0.00 0.00 39.40 3.24
5925 9780 1.202794 TGATTGGCACTTGTCTGCTGA 60.203 47.619 0.00 0.00 37.33 4.26
5960 9815 5.916883 GCCATATTGTGACATCTGTTAATGC 59.083 40.000 0.00 0.00 0.00 3.56
5977 9832 9.590451 CTGTTAATGCCAAACATATCTGAAAAT 57.410 29.630 0.00 0.00 38.34 1.82
6056 9911 7.832503 ATATGCCTGTTTGTGCTTTTATTTC 57.167 32.000 0.00 0.00 0.00 2.17
6204 10059 7.798596 ATGGTATCATGAAACTCATCAACTC 57.201 36.000 0.00 0.00 34.28 3.01
6283 10138 0.321919 TTCGCATGCTTGGCTTCTCT 60.322 50.000 17.13 0.00 0.00 3.10
6343 10198 2.291365 GTTGGTAAGGTTGTTGTCCGT 58.709 47.619 0.00 0.00 0.00 4.69
6450 10305 2.176798 ACCAGGTGGGATCTTTTTGTCA 59.823 45.455 0.04 0.00 41.15 3.58
6457 10312 5.696270 GGTGGGATCTTTTTGTCATTTGTTC 59.304 40.000 0.00 0.00 0.00 3.18
6473 10329 7.274904 GTCATTTGTTCTTTCCATGATGATGTG 59.725 37.037 0.00 0.00 0.00 3.21
6497 10353 8.186163 GTGATCATATCTCTGTTGCATCAAAAA 58.814 33.333 0.00 0.00 0.00 1.94
6609 10465 6.272822 AGTTCCAAATATTTGCAGTCCTTC 57.727 37.500 20.67 6.49 36.86 3.46
6696 10552 1.582968 CGCTGCAAGGCTTTCACAT 59.417 52.632 0.00 0.00 0.00 3.21
6702 10558 2.957680 TGCAAGGCTTTCACATGAAGAA 59.042 40.909 0.00 0.00 35.21 2.52
6795 10651 2.479566 AGCCACATCAGTTTGATCGT 57.520 45.000 0.00 0.00 34.28 3.73
6816 10672 1.532868 CCAGATTCCGATGAATTCCGC 59.467 52.381 2.27 0.00 41.30 5.54
6904 10761 4.851639 AGTGCTGGATGACTTATTTCCT 57.148 40.909 0.00 0.00 0.00 3.36
6949 10825 5.781210 TGACAATGTGGCAATTTTAGTCA 57.219 34.783 0.00 0.00 28.38 3.41
6954 10830 6.365789 ACAATGTGGCAATTTTAGTCAATTCG 59.634 34.615 0.00 0.00 0.00 3.34
6978 10854 6.351456 CGAAGTTTTTATTCTCTCTCCCCTCT 60.351 42.308 0.00 0.00 0.00 3.69
7008 10884 7.451255 TGGCATCTAAGGAAATATGTAAATGGG 59.549 37.037 0.00 0.00 0.00 4.00
7068 11612 4.693283 TGTATGTATGCTTGCTGTCTACC 58.307 43.478 0.00 0.00 0.00 3.18
7080 11624 1.079336 GTCTACCGGACCAGTTGCC 60.079 63.158 9.46 0.00 38.93 4.52
7081 11625 1.534476 TCTACCGGACCAGTTGCCA 60.534 57.895 9.46 0.00 0.00 4.92
7082 11626 0.907704 TCTACCGGACCAGTTGCCAT 60.908 55.000 9.46 0.00 0.00 4.40
7083 11627 0.744414 CTACCGGACCAGTTGCCATG 60.744 60.000 9.46 0.00 0.00 3.66
7084 11628 1.485294 TACCGGACCAGTTGCCATGT 61.485 55.000 9.46 0.00 0.00 3.21
7085 11629 2.334946 CCGGACCAGTTGCCATGTG 61.335 63.158 0.00 0.00 0.00 3.21
7086 11630 1.600636 CGGACCAGTTGCCATGTGT 60.601 57.895 0.00 0.00 0.00 3.72
7087 11631 1.172180 CGGACCAGTTGCCATGTGTT 61.172 55.000 0.00 0.00 0.00 3.32
7088 11632 0.598065 GGACCAGTTGCCATGTGTTC 59.402 55.000 0.00 0.00 0.00 3.18
7089 11633 1.609208 GACCAGTTGCCATGTGTTCT 58.391 50.000 0.00 0.00 0.00 3.01
7090 11634 1.956477 GACCAGTTGCCATGTGTTCTT 59.044 47.619 0.00 0.00 0.00 2.52
7091 11635 1.682854 ACCAGTTGCCATGTGTTCTTG 59.317 47.619 0.00 0.00 0.00 3.02
7092 11636 1.955778 CCAGTTGCCATGTGTTCTTGA 59.044 47.619 0.00 0.00 0.00 3.02
7093 11637 2.361757 CCAGTTGCCATGTGTTCTTGAA 59.638 45.455 0.00 0.00 0.00 2.69
7094 11638 3.006110 CCAGTTGCCATGTGTTCTTGAAT 59.994 43.478 0.00 0.00 0.00 2.57
7095 11639 4.501915 CCAGTTGCCATGTGTTCTTGAATT 60.502 41.667 0.00 0.00 0.00 2.17
7096 11640 4.446385 CAGTTGCCATGTGTTCTTGAATTG 59.554 41.667 0.00 0.00 0.00 2.32
7097 11641 4.099881 AGTTGCCATGTGTTCTTGAATTGT 59.900 37.500 0.00 0.00 0.00 2.71
7098 11642 4.241590 TGCCATGTGTTCTTGAATTGTC 57.758 40.909 0.00 0.00 0.00 3.18
7135 11809 4.597075 ACTAAATTTGCCATCCAAAAGGGT 59.403 37.500 0.00 0.00 45.80 4.34
7174 11848 5.852282 ACTAAAGTTGCCATTCTTGTGTT 57.148 34.783 0.00 0.00 0.00 3.32
7175 11849 6.952773 ACTAAAGTTGCCATTCTTGTGTTA 57.047 33.333 0.00 0.00 0.00 2.41
7178 11852 4.836125 AGTTGCCATTCTTGTGTTACTG 57.164 40.909 0.00 0.00 0.00 2.74
7179 11853 3.569701 AGTTGCCATTCTTGTGTTACTGG 59.430 43.478 0.00 0.00 0.00 4.00
7185 11958 4.821805 CCATTCTTGTGTTACTGGACTTGT 59.178 41.667 0.00 0.00 0.00 3.16
7220 11993 2.229792 GGAGTTGCCATGTGTTCTTGA 58.770 47.619 0.00 0.00 36.34 3.02
7221 11994 2.622942 GGAGTTGCCATGTGTTCTTGAA 59.377 45.455 0.00 0.00 36.34 2.69
7224 12010 4.624015 AGTTGCCATGTGTTCTTGAATTG 58.376 39.130 0.00 0.00 0.00 2.32
7234 12020 4.452455 GTGTTCTTGAATTGTCATCCTCGT 59.548 41.667 0.00 0.00 32.48 4.18
7247 12033 6.693466 TGTCATCCTCGTGTCATTAAACTTA 58.307 36.000 0.00 0.00 0.00 2.24
7266 12289 5.142639 ACTTACCCACGCTCCTACATTATA 58.857 41.667 0.00 0.00 0.00 0.98
7329 12403 4.966965 TTAGACTCCTCGAGTGTCATTC 57.033 45.455 26.63 10.54 43.53 2.67
7337 12411 4.280929 TCCTCGAGTGTCATTCTTCTTCAA 59.719 41.667 12.31 0.00 0.00 2.69
7366 12440 3.008835 TGCTGCTGCCTCTATCAAAAT 57.991 42.857 13.47 0.00 38.71 1.82
7473 12547 6.419771 GCTTTAGCGTGTATGATAAAAGACC 58.580 40.000 0.00 0.00 30.21 3.85
7474 12548 6.036735 GCTTTAGCGTGTATGATAAAAGACCA 59.963 38.462 0.00 0.00 30.21 4.02
7475 12549 7.534085 TTTAGCGTGTATGATAAAAGACCAG 57.466 36.000 0.00 0.00 27.70 4.00
7476 12550 3.871594 AGCGTGTATGATAAAAGACCAGC 59.128 43.478 0.00 0.00 0.00 4.85
7477 12551 3.871594 GCGTGTATGATAAAAGACCAGCT 59.128 43.478 0.00 0.00 0.00 4.24
7478 12552 4.025647 GCGTGTATGATAAAAGACCAGCTC 60.026 45.833 0.00 0.00 0.00 4.09
7479 12553 5.109210 CGTGTATGATAAAAGACCAGCTCA 58.891 41.667 0.00 0.00 0.00 4.26
7480 12554 5.580691 CGTGTATGATAAAAGACCAGCTCAA 59.419 40.000 0.00 0.00 0.00 3.02
7481 12555 6.092122 CGTGTATGATAAAAGACCAGCTCAAA 59.908 38.462 0.00 0.00 0.00 2.69
7482 12556 7.467623 GTGTATGATAAAAGACCAGCTCAAAG 58.532 38.462 0.00 0.00 0.00 2.77
7483 12557 5.573337 ATGATAAAAGACCAGCTCAAAGC 57.427 39.130 0.00 0.00 42.84 3.51
7509 12583 4.564041 AGCATGTATGATAGAAGAAGCCG 58.436 43.478 0.00 0.00 0.00 5.52
7559 12633 1.045407 AGAAGGCGACACTTACACCA 58.955 50.000 0.00 0.00 0.00 4.17
7630 12704 5.191722 ACATCACCATAAATCCTACACCAGT 59.808 40.000 0.00 0.00 0.00 4.00
7641 12715 1.000506 CTACACCAGTACCACAAGCGT 59.999 52.381 0.00 0.00 0.00 5.07
7690 12764 1.153958 GTGCCATTGAAAGCGAGGC 60.154 57.895 0.00 0.00 45.41 4.70
7705 12779 0.458260 GAGGCGACCTCTTTCCTCTC 59.542 60.000 15.90 0.00 46.41 3.20
7708 12782 0.174617 GCGACCTCTTTCCTCTCCAG 59.825 60.000 0.00 0.00 0.00 3.86
7761 12835 2.686106 TGGAGTACCCGCCTTCCC 60.686 66.667 0.00 0.00 37.93 3.97
7790 12864 2.740826 GCAAGCGCCAGTTACCGA 60.741 61.111 2.29 0.00 0.00 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.632512 GAGAAGATAAGGCTGGAGGGAG 59.367 54.545 0.00 0.00 0.00 4.30
9 10 1.839994 TGGGTGGAGAAGATAAGGCTG 59.160 52.381 0.00 0.00 0.00 4.85
25 26 0.698818 AAAGGAAGGAAGCGATGGGT 59.301 50.000 0.00 0.00 0.00 4.51
27 28 1.745653 GGAAAAGGAAGGAAGCGATGG 59.254 52.381 0.00 0.00 0.00 3.51
39 40 1.778484 ACGAGAAAAGGGGGAAAAGGA 59.222 47.619 0.00 0.00 0.00 3.36
42 43 3.300239 TGAACGAGAAAAGGGGGAAAA 57.700 42.857 0.00 0.00 0.00 2.29
45 46 2.554344 CCATTGAACGAGAAAAGGGGGA 60.554 50.000 0.00 0.00 0.00 4.81
64 65 1.487976 CTTATTGCCTCTCCTCTGCCA 59.512 52.381 0.00 0.00 0.00 4.92
80 81 3.651904 AGGATGAATCAGGCTGCTCTTAT 59.348 43.478 10.34 0.18 0.00 1.73
81 82 3.044156 AGGATGAATCAGGCTGCTCTTA 58.956 45.455 10.34 0.00 0.00 2.10
83 84 1.417145 GAGGATGAATCAGGCTGCTCT 59.583 52.381 10.34 0.00 0.00 4.09
87 95 2.552591 GGGATGAGGATGAATCAGGCTG 60.553 54.545 8.58 8.58 0.00 4.85
109 117 4.537433 CTCTACTGCAGCCCCGGC 62.537 72.222 15.27 0.00 42.33 6.13
147 155 0.950555 TCAATGCAGCCACGACAGAC 60.951 55.000 0.00 0.00 0.00 3.51
161 169 2.745884 TCCGGTGGCGCTTCAATG 60.746 61.111 7.64 0.00 0.00 2.82
162 170 2.436646 CTCCGGTGGCGCTTCAAT 60.437 61.111 7.64 0.00 0.00 2.57
241 249 1.600916 AACAACCTCGCTCCCTTGC 60.601 57.895 0.00 0.00 0.00 4.01
245 253 1.578206 GCTTCAACAACCTCGCTCCC 61.578 60.000 0.00 0.00 0.00 4.30
349 885 2.360350 CGTGGTCCATTGCAGCCT 60.360 61.111 0.00 0.00 0.00 4.58
408 1086 1.205460 AACTCCATTACTGCCCCCGT 61.205 55.000 0.00 0.00 0.00 5.28
418 1096 1.468565 CGTCTCGGCGAAACTCCATTA 60.469 52.381 12.13 0.00 0.00 1.90
577 1295 1.490490 GCCATCAATCCCACCTCACTA 59.510 52.381 0.00 0.00 0.00 2.74
578 1296 0.257039 GCCATCAATCCCACCTCACT 59.743 55.000 0.00 0.00 0.00 3.41
634 1353 1.813092 GCAGCTCGTCATCAATCCCAT 60.813 52.381 0.00 0.00 0.00 4.00
679 1399 3.495100 CCCATGTGTAGCCCTTAGATCAC 60.495 52.174 0.00 0.00 0.00 3.06
689 1409 1.134729 CAAATTGCCCCATGTGTAGCC 60.135 52.381 0.00 0.00 0.00 3.93
748 1468 1.874231 TCACGCGAGGCAATTGTAAAA 59.126 42.857 15.93 0.00 0.00 1.52
772 1492 2.600122 CTAGGCGTCGTCCAGCTGAC 62.600 65.000 17.39 10.62 40.81 3.51
778 1498 2.675423 AGTGCTAGGCGTCGTCCA 60.675 61.111 8.15 0.00 0.00 4.02
823 1543 6.183361 TGTTTCTTTTCCCCTTCCTCAATCTA 60.183 38.462 0.00 0.00 0.00 1.98
829 1549 4.152647 ACATGTTTCTTTTCCCCTTCCTC 58.847 43.478 0.00 0.00 0.00 3.71
835 1555 7.394641 AGAGATAAAGACATGTTTCTTTTCCCC 59.605 37.037 15.39 9.18 42.09 4.81
992 2294 2.186532 AGAGCTCCGCATCTACGATA 57.813 50.000 10.93 0.00 34.06 2.92
1170 2472 2.693762 CGTTACCTCGTCCGGCTCA 61.694 63.158 0.00 0.00 0.00 4.26
1405 2711 4.457834 ACAGACTACAACTACAGCATCC 57.542 45.455 0.00 0.00 0.00 3.51
1437 2743 7.069578 ACGCTCTTATATTTCTTTACAGAGGGA 59.930 37.037 14.96 0.00 40.49 4.20
1438 2744 7.210873 ACGCTCTTATATTTCTTTACAGAGGG 58.789 38.462 8.36 8.36 42.53 4.30
1439 2745 8.649973 AACGCTCTTATATTTCTTTACAGAGG 57.350 34.615 0.00 0.00 0.00 3.69
1454 2760 8.068977 CGTAAGTAGTGATCTAAACGCTCTTAT 58.931 37.037 0.00 0.00 0.00 1.73
1455 2761 7.404985 CGTAAGTAGTGATCTAAACGCTCTTA 58.595 38.462 0.00 0.00 0.00 2.10
1456 2762 6.256686 CGTAAGTAGTGATCTAAACGCTCTT 58.743 40.000 0.00 0.00 0.00 2.85
1457 2763 5.220815 CCGTAAGTAGTGATCTAAACGCTCT 60.221 44.000 0.00 0.00 32.62 4.09
1458 2764 4.968788 CCGTAAGTAGTGATCTAAACGCTC 59.031 45.833 0.00 0.00 32.62 5.03
1459 2765 4.637534 TCCGTAAGTAGTGATCTAAACGCT 59.362 41.667 0.00 0.00 32.62 5.07
1460 2766 4.913376 TCCGTAAGTAGTGATCTAAACGC 58.087 43.478 0.00 0.00 32.62 4.84
1461 2767 5.505324 CCCTCCGTAAGTAGTGATCTAAACG 60.505 48.000 0.00 0.00 33.18 3.60
1462 2768 5.591877 TCCCTCCGTAAGTAGTGATCTAAAC 59.408 44.000 0.00 0.00 0.00 2.01
1463 2769 5.759059 TCCCTCCGTAAGTAGTGATCTAAA 58.241 41.667 0.00 0.00 0.00 1.85
1464 2770 5.104193 ACTCCCTCCGTAAGTAGTGATCTAA 60.104 44.000 0.00 0.00 0.00 2.10
1465 2771 4.411540 ACTCCCTCCGTAAGTAGTGATCTA 59.588 45.833 0.00 0.00 0.00 1.98
1466 2772 3.202595 ACTCCCTCCGTAAGTAGTGATCT 59.797 47.826 0.00 0.00 0.00 2.75
1467 2773 3.553904 ACTCCCTCCGTAAGTAGTGATC 58.446 50.000 0.00 0.00 0.00 2.92
1468 2774 3.666345 ACTCCCTCCGTAAGTAGTGAT 57.334 47.619 0.00 0.00 0.00 3.06
1469 2775 3.521126 AGTACTCCCTCCGTAAGTAGTGA 59.479 47.826 0.00 0.00 30.02 3.41
1470 2776 3.883669 AGTACTCCCTCCGTAAGTAGTG 58.116 50.000 0.00 0.00 30.02 2.74
1471 2777 4.582973 AAGTACTCCCTCCGTAAGTAGT 57.417 45.455 0.00 0.00 31.96 2.73
1472 2778 4.337836 GGAAAGTACTCCCTCCGTAAGTAG 59.662 50.000 0.00 0.00 0.00 2.57
1473 2779 4.018050 AGGAAAGTACTCCCTCCGTAAGTA 60.018 45.833 10.16 0.00 35.95 2.24
1474 2780 3.095332 GGAAAGTACTCCCTCCGTAAGT 58.905 50.000 0.00 0.00 0.00 2.24
1475 2781 3.363627 AGGAAAGTACTCCCTCCGTAAG 58.636 50.000 10.16 0.00 35.95 2.34
1476 2782 3.463048 AGGAAAGTACTCCCTCCGTAA 57.537 47.619 10.16 0.00 35.95 3.18
1477 2783 3.094572 CAAGGAAAGTACTCCCTCCGTA 58.905 50.000 14.88 0.00 35.95 4.02
1478 2784 1.900486 CAAGGAAAGTACTCCCTCCGT 59.100 52.381 14.88 8.64 35.95 4.69
1479 2785 1.207329 CCAAGGAAAGTACTCCCTCCG 59.793 57.143 14.88 10.32 35.95 4.63
1480 2786 2.547990 TCCAAGGAAAGTACTCCCTCC 58.452 52.381 14.88 12.20 35.95 4.30
1481 2787 4.635699 TTTCCAAGGAAAGTACTCCCTC 57.364 45.455 14.88 4.58 38.95 4.30
1482 2788 5.074515 TGAATTTCCAAGGAAAGTACTCCCT 59.925 40.000 18.20 10.16 45.66 4.20
1483 2789 5.183331 GTGAATTTCCAAGGAAAGTACTCCC 59.817 44.000 18.20 0.50 45.66 4.30
1484 2790 6.004574 AGTGAATTTCCAAGGAAAGTACTCC 58.995 40.000 18.20 6.09 45.66 3.85
1485 2791 6.710744 TGAGTGAATTTCCAAGGAAAGTACTC 59.289 38.462 27.38 27.38 45.66 2.59
1486 2792 6.601332 TGAGTGAATTTCCAAGGAAAGTACT 58.399 36.000 18.20 18.86 45.66 2.73
1569 2906 5.780282 TTGGAACATACCTTCTCTTCAGAGA 59.220 40.000 2.15 2.15 44.08 3.10
1651 2998 6.653020 AGCAACATATACTTCACTTGGATCA 58.347 36.000 0.00 0.00 0.00 2.92
1655 3002 6.349300 AGGTAGCAACATATACTTCACTTGG 58.651 40.000 0.00 0.00 0.00 3.61
2272 3619 6.584185 AAACAGATACGCAATAGGGTTTTT 57.416 33.333 0.00 0.00 41.60 1.94
2340 3903 1.293924 AGCTCAATGCATGCGTCTAC 58.706 50.000 13.95 3.54 45.94 2.59
2367 3930 4.528920 ACTGTTTTACTGGCACTAAACCA 58.471 39.130 10.19 4.95 35.40 3.67
2370 3933 8.071368 CGAATTAACTGTTTTACTGGCACTAAA 58.929 33.333 0.00 0.00 0.00 1.85
2525 4094 5.771666 ACTTCTTCTCAATGAGCCATTTTCA 59.228 36.000 5.18 0.00 31.05 2.69
2575 4144 5.991606 TCGATTACATTAGAATTGCCTGAGG 59.008 40.000 0.00 0.00 0.00 3.86
2816 4385 7.883217 TGACACTGCTTATAGCTATACCTTAC 58.117 38.462 13.12 2.52 42.97 2.34
2906 4477 8.994429 AACAAAACACAATCTTGTCAATAACA 57.006 26.923 0.00 0.00 39.91 2.41
2984 4555 8.394971 TCCCTGTAACATAATATGCATTCAAG 57.605 34.615 3.54 0.00 0.00 3.02
3507 5079 4.037923 AGGCGCATAAGATGGGTAAAAATG 59.962 41.667 10.83 0.00 44.22 2.32
3725 5297 0.460811 TCCATCTGATGCACGCTCAC 60.461 55.000 12.17 0.00 0.00 3.51
3753 5325 3.535561 CATCACCATACTTCGAAGGCTT 58.464 45.455 27.86 10.82 0.00 4.35
3978 5550 4.870991 GCTTTCCATAGTAACGAGCTCTTT 59.129 41.667 12.85 11.65 0.00 2.52
3986 5558 4.212425 TGTGTTGTGCTTTCCATAGTAACG 59.788 41.667 0.00 0.00 0.00 3.18
3991 5563 6.042143 ACTTTTTGTGTTGTGCTTTCCATAG 58.958 36.000 0.00 0.00 0.00 2.23
4434 8283 4.087182 TCGTCCTTGACCTTCATAGAGTT 58.913 43.478 0.00 0.00 0.00 3.01
4435 8284 3.697045 CTCGTCCTTGACCTTCATAGAGT 59.303 47.826 0.00 0.00 0.00 3.24
4437 8286 3.964411 TCTCGTCCTTGACCTTCATAGA 58.036 45.455 0.00 0.00 0.00 1.98
4496 8345 1.818674 TGTAATGCTCTGTCTCGCTCA 59.181 47.619 0.00 0.00 0.00 4.26
4589 8438 5.409826 CCATCTTATTCGGGTAGCTGAATTC 59.590 44.000 28.73 0.00 36.32 2.17
4602 8451 6.435904 ACCTAATCCTCTCTCCATCTTATTCG 59.564 42.308 0.00 0.00 0.00 3.34
4603 8452 7.790782 ACCTAATCCTCTCTCCATCTTATTC 57.209 40.000 0.00 0.00 0.00 1.75
4647 8496 9.577110 CATGCTACATTGTTCAAATGAAGTTAT 57.423 29.630 5.13 0.00 34.27 1.89
4686 8535 5.117592 CCTTTTAAGCAGATGAGTTTTTGCG 59.882 40.000 0.00 0.00 41.27 4.85
4872 8721 4.543692 CTGCTTTGTCATCTCAACCTTTG 58.456 43.478 0.00 0.00 0.00 2.77
5674 9526 2.918934 TCATGAAAACCATCAGAGGGGA 59.081 45.455 5.98 0.00 31.94 4.81
5691 9544 5.348164 TCTGTGTGGACATACGTATTCATG 58.652 41.667 5.03 0.00 0.00 3.07
5706 9559 7.975058 TGCATAAAACAAATATCATCTGTGTGG 59.025 33.333 0.00 0.00 0.00 4.17
5925 9780 4.644685 GTCACAATATGGCCACCAAATAGT 59.355 41.667 8.16 0.00 36.95 2.12
5960 9815 7.774134 TGATCACCATTTTCAGATATGTTTGG 58.226 34.615 0.00 0.00 0.00 3.28
6056 9911 0.313987 TATCCACGTAGCTCATGCGG 59.686 55.000 0.00 0.00 45.42 5.69
6196 10051 7.524912 ACTTGATGAGAATTTTCGAGTTGATG 58.475 34.615 0.00 0.00 31.47 3.07
6283 10138 3.795688 ATTCTTTGCTTGTCCTCCTCA 57.204 42.857 0.00 0.00 0.00 3.86
6343 10198 1.410932 CCAGGAAGACCCAAAACACCA 60.411 52.381 0.00 0.00 37.41 4.17
6450 10305 7.470935 TCACATCATCATGGAAAGAACAAAT 57.529 32.000 0.00 0.00 33.82 2.32
6457 10312 8.794335 AGATATGATCACATCATCATGGAAAG 57.206 34.615 16.09 0.00 46.62 2.62
6497 10353 3.577848 TGACTTTTTATGTGGCTGCCATT 59.422 39.130 26.22 17.58 35.28 3.16
6609 10465 1.142748 GTCCACCCAGAGATCTGCG 59.857 63.158 0.00 0.00 42.47 5.18
6696 10552 6.059484 CCTACTGGTAGTTTGGTTTTCTTCA 58.941 40.000 6.96 0.00 0.00 3.02
6702 10558 4.745783 GCACTCCTACTGGTAGTTTGGTTT 60.746 45.833 6.96 0.00 34.23 3.27
6795 10651 2.806745 GCGGAATTCATCGGAATCTGGA 60.807 50.000 7.93 0.00 42.87 3.86
6816 10672 2.568090 GGCGCAAGTGGAACCATG 59.432 61.111 10.83 0.00 37.80 3.66
6902 10759 8.653338 CAACAAATGAAATGAATAGCTCAAAGG 58.347 33.333 0.00 0.00 37.67 3.11
6904 10761 9.195411 GTCAACAAATGAAATGAATAGCTCAAA 57.805 29.630 0.00 0.00 40.50 2.69
6949 10825 7.337184 GGGGAGAGAGAATAAAAACTTCGAATT 59.663 37.037 0.00 0.00 0.00 2.17
6954 10830 6.953101 AGAGGGGAGAGAGAATAAAAACTTC 58.047 40.000 0.00 0.00 0.00 3.01
6978 10854 5.765510 ACATATTTCCTTAGATGCCACCAA 58.234 37.500 0.00 0.00 0.00 3.67
7008 10884 1.338020 CCTTTTGTTGACTGACAGGGC 59.662 52.381 7.51 0.00 0.00 5.19
7068 11612 1.172180 AACACATGGCAACTGGTCCG 61.172 55.000 0.00 0.00 37.61 4.79
7080 11624 6.204301 AGAGTCAGACAATTCAAGAACACATG 59.796 38.462 2.66 0.00 0.00 3.21
7081 11625 6.294473 AGAGTCAGACAATTCAAGAACACAT 58.706 36.000 2.66 0.00 0.00 3.21
7082 11626 5.674525 AGAGTCAGACAATTCAAGAACACA 58.325 37.500 2.66 0.00 0.00 3.72
7083 11627 6.610741 AAGAGTCAGACAATTCAAGAACAC 57.389 37.500 2.66 0.00 0.00 3.32
7084 11628 7.630242 AAAAGAGTCAGACAATTCAAGAACA 57.370 32.000 2.66 0.00 0.00 3.18
7085 11629 8.612619 TGTAAAAGAGTCAGACAATTCAAGAAC 58.387 33.333 2.66 0.00 0.00 3.01
7086 11630 8.731275 TGTAAAAGAGTCAGACAATTCAAGAA 57.269 30.769 2.66 0.00 0.00 2.52
7087 11631 8.612619 GTTGTAAAAGAGTCAGACAATTCAAGA 58.387 33.333 2.66 0.00 32.99 3.02
7088 11632 8.616076 AGTTGTAAAAGAGTCAGACAATTCAAG 58.384 33.333 2.66 0.00 32.99 3.02
7089 11633 8.506168 AGTTGTAAAAGAGTCAGACAATTCAA 57.494 30.769 2.66 0.00 32.99 2.69
7090 11634 9.607988 TTAGTTGTAAAAGAGTCAGACAATTCA 57.392 29.630 2.66 0.00 32.99 2.57
7096 11640 9.170584 GCAAATTTAGTTGTAAAAGAGTCAGAC 57.829 33.333 0.00 0.00 31.81 3.51
7097 11641 8.349983 GGCAAATTTAGTTGTAAAAGAGTCAGA 58.650 33.333 0.00 0.00 31.81 3.27
7098 11642 8.134895 TGGCAAATTTAGTTGTAAAAGAGTCAG 58.865 33.333 0.00 0.00 31.81 3.51
7135 11809 6.402222 ACTTTAGTTTTCAAACATGGCAACA 58.598 32.000 5.26 0.00 43.82 3.33
7194 11967 1.167851 CACATGGCAACTCCGAACAT 58.832 50.000 0.00 0.00 37.80 2.71
7195 11968 0.179032 ACACATGGCAACTCCGAACA 60.179 50.000 0.00 0.00 37.80 3.18
7220 11993 6.655003 AGTTTAATGACACGAGGATGACAATT 59.345 34.615 0.00 0.00 0.00 2.32
7221 11994 6.173339 AGTTTAATGACACGAGGATGACAAT 58.827 36.000 0.00 0.00 0.00 2.71
7224 12010 6.035758 GGTAAGTTTAATGACACGAGGATGAC 59.964 42.308 0.00 0.00 0.00 3.06
7234 12020 3.998341 GAGCGTGGGTAAGTTTAATGACA 59.002 43.478 0.00 0.00 0.00 3.58
7247 12033 5.104652 ACTTTTATAATGTAGGAGCGTGGGT 60.105 40.000 0.00 0.00 0.00 4.51
7266 12289 6.574269 GCAAGCTTGGGATGGTTATAACTTTT 60.574 38.462 27.10 0.93 0.00 2.27
7284 12307 0.320374 TGTAGCACGTAGGCAAGCTT 59.680 50.000 0.86 0.00 38.47 3.74
7337 12411 2.350514 GCAGCAGCAAGAGTCCCT 59.649 61.111 0.00 0.00 41.58 4.20
7395 12469 2.952978 AGGCGTTGAACCATTACAAACA 59.047 40.909 0.00 0.00 0.00 2.83
7459 12533 6.490534 GCTTTGAGCTGGTCTTTTATCATAC 58.509 40.000 8.47 0.00 38.45 2.39
7460 12534 6.683974 GCTTTGAGCTGGTCTTTTATCATA 57.316 37.500 8.47 0.00 38.45 2.15
7461 12535 5.573337 GCTTTGAGCTGGTCTTTTATCAT 57.427 39.130 8.47 0.00 38.45 2.45
7475 12549 5.490139 TCATACATGCTAAAGCTTTGAGC 57.510 39.130 22.02 22.57 42.84 4.26
7476 12550 8.599055 TCTATCATACATGCTAAAGCTTTGAG 57.401 34.615 22.02 14.80 42.66 3.02
7477 12551 8.962884 TTCTATCATACATGCTAAAGCTTTGA 57.037 30.769 22.02 8.01 42.66 2.69
7478 12552 9.049523 TCTTCTATCATACATGCTAAAGCTTTG 57.950 33.333 22.02 12.32 42.66 2.77
7479 12553 9.618890 TTCTTCTATCATACATGCTAAAGCTTT 57.381 29.630 17.30 17.30 42.66 3.51
7480 12554 9.270640 CTTCTTCTATCATACATGCTAAAGCTT 57.729 33.333 3.26 0.00 42.66 3.74
7481 12555 7.387397 GCTTCTTCTATCATACATGCTAAAGCT 59.613 37.037 3.26 0.00 42.66 3.74
7482 12556 7.360776 GGCTTCTTCTATCATACATGCTAAAGC 60.361 40.741 0.00 0.00 42.50 3.51
7483 12557 7.148672 CGGCTTCTTCTATCATACATGCTAAAG 60.149 40.741 0.00 0.00 0.00 1.85
7484 12558 6.646653 CGGCTTCTTCTATCATACATGCTAAA 59.353 38.462 0.00 0.00 0.00 1.85
7485 12559 6.015434 TCGGCTTCTTCTATCATACATGCTAA 60.015 38.462 0.00 0.00 0.00 3.09
7486 12560 5.476945 TCGGCTTCTTCTATCATACATGCTA 59.523 40.000 0.00 0.00 0.00 3.49
7487 12561 4.281941 TCGGCTTCTTCTATCATACATGCT 59.718 41.667 0.00 0.00 0.00 3.79
7488 12562 4.387256 GTCGGCTTCTTCTATCATACATGC 59.613 45.833 0.00 0.00 0.00 4.06
7489 12563 5.777802 AGTCGGCTTCTTCTATCATACATG 58.222 41.667 0.00 0.00 0.00 3.21
7490 12564 5.536538 TGAGTCGGCTTCTTCTATCATACAT 59.463 40.000 0.00 0.00 0.00 2.29
7491 12565 4.887655 TGAGTCGGCTTCTTCTATCATACA 59.112 41.667 0.00 0.00 0.00 2.29
7559 12633 7.014230 ACAACACTAGGCTAATTTCATTGTTGT 59.986 33.333 12.86 12.86 45.88 3.32
7598 12672 5.612688 AGGATTTATGGTGATGTCCATAGGT 59.387 40.000 5.73 0.45 46.75 3.08
7630 12704 2.147958 GTCCAATTGACGCTTGTGGTA 58.852 47.619 7.12 0.00 33.49 3.25
7641 12715 4.039245 GGATCTAGTCATCGGTCCAATTGA 59.961 45.833 7.12 0.00 0.00 2.57
7690 12764 1.474879 GTCTGGAGAGGAAAGAGGTCG 59.525 57.143 0.00 0.00 0.00 4.79
7697 12771 3.055094 GCATAGGTTGTCTGGAGAGGAAA 60.055 47.826 0.00 0.00 0.00 3.13
7705 12779 0.673333 TGCACGCATAGGTTGTCTGG 60.673 55.000 0.00 0.00 0.00 3.86
7708 12782 1.795162 GCAATGCACGCATAGGTTGTC 60.795 52.381 4.68 0.00 35.31 3.18
7775 12849 1.374252 CACTCGGTAACTGGCGCTT 60.374 57.895 7.64 0.00 0.00 4.68


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

AutoCloner maintained by Alex Coulton.