Multiple sequence alignment - TraesCS7A01G069500

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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 TraesCS7A01G069500 chr7A 100.000 4139 0 0 1 4139 35525364 35521226 0.000000e+00 7644.0
1 TraesCS7A01G069500 chr7A 95.977 174 5 1 357 530 35524839 35524668 8.760000e-72 281.0
2 TraesCS7A01G069500 chr7A 95.977 174 5 1 526 697 35525008 35524835 8.760000e-72 281.0
3 TraesCS7A01G069500 chr2A 97.770 2915 48 8 526 3436 137148558 137145657 0.000000e+00 5007.0
4 TraesCS7A01G069500 chr2A 96.981 530 14 1 1 530 137148914 137148387 0.000000e+00 889.0
5 TraesCS7A01G069500 chr2A 85.160 438 39 14 1928 2340 606823447 606823011 3.820000e-115 425.0
6 TraesCS7A01G069500 chr2A 88.663 344 32 5 1426 1763 606824177 606823835 2.980000e-111 412.0
7 TraesCS7A01G069500 chr2A 86.131 137 16 3 2694 2829 425812466 425812600 1.200000e-30 145.0
8 TraesCS7A01G069500 chr2A 97.368 38 1 0 1871 1908 606823555 606823518 9.600000e-07 65.8
9 TraesCS7A01G069500 chrUn 97.601 2543 43 9 969 3507 13413464 13410936 0.000000e+00 4342.0
10 TraesCS7A01G069500 chrUn 98.478 1051 16 0 526 1576 351775728 351774678 0.000000e+00 1853.0
11 TraesCS7A01G069500 chrUn 97.364 569 8 3 2941 3507 466633701 466633138 0.000000e+00 961.0
12 TraesCS7A01G069500 chrUn 96.981 530 14 1 1 530 351776084 351775557 0.000000e+00 889.0
13 TraesCS7A01G069500 chrUn 84.444 225 32 3 2694 2917 5447783 5447561 6.970000e-53 219.0
14 TraesCS7A01G069500 chr3A 97.636 423 8 1 3719 4139 562290974 562291396 0.000000e+00 725.0
15 TraesCS7A01G069500 chr3A 81.466 696 59 23 627 1270 161457432 161458109 1.330000e-139 507.0
16 TraesCS7A01G069500 chr3A 97.674 172 4 0 3506 3677 562290810 562290981 3.130000e-76 296.0
17 TraesCS7A01G069500 chr3A 95.161 62 3 0 2370 2431 161458112 161458173 9.470000e-17 99.0
18 TraesCS7A01G069500 chr6B 94.299 421 19 4 3089 3506 544669177 544669595 1.250000e-179 640.0
19 TraesCS7A01G069500 chr6B 88.158 76 8 1 165 240 252388080 252388006 5.700000e-14 89.8
20 TraesCS7A01G069500 chr4B 93.112 421 26 2 3089 3507 22573867 22574286 7.600000e-172 614.0
21 TraesCS7A01G069500 chr4B 90.265 113 11 0 3394 3506 53328711 53328823 9.270000e-32 148.0
22 TraesCS7A01G069500 chr1B 93.301 418 23 4 3092 3506 113824972 113825387 2.740000e-171 612.0
23 TraesCS7A01G069500 chr1B 89.333 75 7 1 166 240 358391798 358391725 4.410000e-15 93.5
24 TraesCS7A01G069500 chr3B 82.779 691 61 18 614 1270 204293214 204293880 7.770000e-157 564.0
25 TraesCS7A01G069500 chr3B 89.950 199 18 2 254 452 570041837 570042033 5.310000e-64 255.0
26 TraesCS7A01G069500 chr3B 98.333 60 1 0 192 251 570041706 570041765 5.660000e-19 106.0
27 TraesCS7A01G069500 chr2B 94.801 327 15 1 3183 3507 680212892 680212566 3.690000e-140 508.0
28 TraesCS7A01G069500 chr2B 89.535 344 29 4 1426 1763 544765458 544765116 2.960000e-116 429.0
29 TraesCS7A01G069500 chr2B 84.897 437 37 16 1928 2336 544764698 544764263 8.280000e-112 414.0
30 TraesCS7A01G069500 chr2B 88.557 201 20 2 252 452 219256945 219257142 1.490000e-59 241.0
31 TraesCS7A01G069500 chr2B 95.000 60 3 0 192 251 219256818 219256877 1.220000e-15 95.3
32 TraesCS7A01G069500 chr2B 87.059 85 10 1 156 240 371931254 371931337 1.220000e-15 95.3
33 TraesCS7A01G069500 chr3D 83.106 586 55 11 712 1270 142488080 142488648 1.030000e-135 494.0
34 TraesCS7A01G069500 chr3D 96.774 62 2 0 2370 2431 142488651 142488712 2.040000e-18 104.0
35 TraesCS7A01G069500 chr2D 86.316 475 39 6 1426 1876 461840079 461839607 1.030000e-135 494.0
36 TraesCS7A01G069500 chr2D 97.368 38 1 0 1871 1908 461839419 461839382 9.600000e-07 65.8
37 TraesCS7A01G069500 chr4A 84.211 228 32 4 2694 2919 22188745 22188520 6.970000e-53 219.0
38 TraesCS7A01G069500 chr4A 90.265 113 11 0 3394 3506 524313924 524314036 9.270000e-32 148.0
39 TraesCS7A01G069500 chr4A 100.000 34 0 0 193 226 221528301 221528268 3.450000e-06 63.9
40 TraesCS7A01G069500 chr5A 90.789 152 10 2 3357 3506 658992006 658991857 2.520000e-47 200.0
41 TraesCS7A01G069500 chr6D 78.816 321 36 17 3216 3507 441539968 441539651 1.960000e-43 187.0
42 TraesCS7A01G069500 chr5D 100.000 35 0 0 192 226 294582881 294582915 9.600000e-07 65.8


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 TraesCS7A01G069500 chr7A 35521226 35525364 4138 True 2735.333333 7644 97.3180 1 4139 3 chr7A.!!$R1 4138
1 TraesCS7A01G069500 chr2A 137145657 137148914 3257 True 2948.000000 5007 97.3755 1 3436 2 chr2A.!!$R1 3435
2 TraesCS7A01G069500 chr2A 606823011 606824177 1166 True 300.933333 425 90.3970 1426 2340 3 chr2A.!!$R2 914
3 TraesCS7A01G069500 chrUn 13410936 13413464 2528 True 4342.000000 4342 97.6010 969 3507 1 chrUn.!!$R2 2538
4 TraesCS7A01G069500 chrUn 351774678 351776084 1406 True 1371.000000 1853 97.7295 1 1576 2 chrUn.!!$R4 1575
5 TraesCS7A01G069500 chrUn 466633138 466633701 563 True 961.000000 961 97.3640 2941 3507 1 chrUn.!!$R3 566
6 TraesCS7A01G069500 chr3A 562290810 562291396 586 False 510.500000 725 97.6550 3506 4139 2 chr3A.!!$F2 633
7 TraesCS7A01G069500 chr3A 161457432 161458173 741 False 303.000000 507 88.3135 627 2431 2 chr3A.!!$F1 1804
8 TraesCS7A01G069500 chr3B 204293214 204293880 666 False 564.000000 564 82.7790 614 1270 1 chr3B.!!$F1 656
9 TraesCS7A01G069500 chr2B 544764263 544765458 1195 True 421.500000 429 87.2160 1426 2336 2 chr2B.!!$R2 910
10 TraesCS7A01G069500 chr3D 142488080 142488712 632 False 299.000000 494 89.9400 712 2431 2 chr3D.!!$F1 1719
11 TraesCS7A01G069500 chr2D 461839382 461840079 697 True 279.900000 494 91.8420 1426 1908 2 chr2D.!!$R1 482

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
62 63 0.813184 AGCGGCTGTTTGGATTGATG 59.187 50.000 0.00 0.0 0.00 3.07 F
488 489 1.174783 GGTCACTCGCTTGGTAGAGA 58.825 55.000 0.00 0.0 37.87 3.10 F
489 490 1.544691 GGTCACTCGCTTGGTAGAGAA 59.455 52.381 0.00 0.0 37.87 2.87 F
1510 1569 0.606130 ACATGCATGCTGACAACGGA 60.606 50.000 26.53 0.0 0.00 4.69 F
2823 3213 0.905357 AGCTTGACTTATGCCTCCGT 59.095 50.000 0.00 0.0 0.00 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1373 1432 0.838122 AGGGGTGTCCAGACTGAAGG 60.838 60.0 3.32 0.00 38.24 3.46 R
1510 1569 5.255687 TGATGAAGTTGTGGTATGCTCAAT 58.744 37.5 0.00 0.00 0.00 2.57 R
2451 2841 5.343058 CGTTCCAACAAAGCAACATATTCAG 59.657 40.0 0.00 0.00 0.00 3.02 R
2871 3261 0.473117 TTTCCCTCGGTGACCTCCTT 60.473 55.0 0.00 0.00 0.00 3.36 R
3715 4107 0.321671 GCTAGCTTCCTGTGACCACA 59.678 55.0 7.70 2.63 39.32 4.17 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
32 33 5.398169 TGCTGCATTTTACGGATTTTACTG 58.602 37.500 0.00 0.00 0.00 2.74
62 63 0.813184 AGCGGCTGTTTGGATTGATG 59.187 50.000 0.00 0.00 0.00 3.07
100 101 6.435430 TCCAAAATATTGATCGTTGACCAG 57.565 37.500 0.00 0.00 38.94 4.00
173 174 8.938906 CCCACCAGATTTTAATTTCTTGATTTG 58.061 33.333 0.00 0.00 0.00 2.32
255 256 7.009179 TGAGGAAGACTGAAGAACAATGTAT 57.991 36.000 0.00 0.00 0.00 2.29
316 317 8.567948 TGCGTTCTTTCTTCTTTCTTATTTCAT 58.432 29.630 0.00 0.00 0.00 2.57
450 451 4.973168 AGGAACTCAAATTGTCAGTAGCA 58.027 39.130 0.00 0.00 0.00 3.49
451 452 5.376625 AGGAACTCAAATTGTCAGTAGCAA 58.623 37.500 0.00 0.00 0.00 3.91
452 453 5.827797 AGGAACTCAAATTGTCAGTAGCAAA 59.172 36.000 0.00 0.00 0.00 3.68
453 454 6.491403 AGGAACTCAAATTGTCAGTAGCAAAT 59.509 34.615 0.00 0.00 0.00 2.32
454 455 7.665559 AGGAACTCAAATTGTCAGTAGCAAATA 59.334 33.333 0.00 0.00 0.00 1.40
455 456 8.462016 GGAACTCAAATTGTCAGTAGCAAATAT 58.538 33.333 0.00 0.00 0.00 1.28
458 459 9.890629 ACTCAAATTGTCAGTAGCAAATATAGA 57.109 29.630 0.00 0.00 0.00 1.98
478 479 5.189659 AGATATCTGTAAAGGTCACTCGC 57.810 43.478 3.89 0.00 0.00 5.03
479 480 4.890581 AGATATCTGTAAAGGTCACTCGCT 59.109 41.667 3.89 0.00 0.00 4.93
480 481 3.963428 ATCTGTAAAGGTCACTCGCTT 57.037 42.857 0.00 0.00 0.00 4.68
481 482 3.026630 TCTGTAAAGGTCACTCGCTTG 57.973 47.619 0.00 0.00 0.00 4.01
482 483 2.069273 CTGTAAAGGTCACTCGCTTGG 58.931 52.381 0.00 0.00 0.00 3.61
483 484 1.414919 TGTAAAGGTCACTCGCTTGGT 59.585 47.619 0.00 0.00 0.00 3.67
484 485 2.629137 TGTAAAGGTCACTCGCTTGGTA 59.371 45.455 0.00 0.00 0.00 3.25
485 486 2.457366 AAAGGTCACTCGCTTGGTAG 57.543 50.000 0.00 0.00 0.00 3.18
486 487 1.629043 AAGGTCACTCGCTTGGTAGA 58.371 50.000 0.00 0.00 0.00 2.59
487 488 1.178276 AGGTCACTCGCTTGGTAGAG 58.822 55.000 0.00 0.00 40.16 2.43
488 489 1.174783 GGTCACTCGCTTGGTAGAGA 58.825 55.000 0.00 0.00 37.87 3.10
489 490 1.544691 GGTCACTCGCTTGGTAGAGAA 59.455 52.381 0.00 0.00 37.87 2.87
490 491 2.029290 GGTCACTCGCTTGGTAGAGAAA 60.029 50.000 0.00 0.00 37.87 2.52
491 492 3.554337 GGTCACTCGCTTGGTAGAGAAAA 60.554 47.826 0.00 0.00 37.87 2.29
492 493 3.429207 GTCACTCGCTTGGTAGAGAAAAC 59.571 47.826 0.00 0.00 37.87 2.43
493 494 2.408704 CACTCGCTTGGTAGAGAAAACG 59.591 50.000 0.00 0.00 37.87 3.60
494 495 2.295349 ACTCGCTTGGTAGAGAAAACGA 59.705 45.455 0.00 0.00 37.87 3.85
495 496 2.917971 CTCGCTTGGTAGAGAAAACGAG 59.082 50.000 0.00 0.00 39.64 4.18
496 497 2.295349 TCGCTTGGTAGAGAAAACGAGT 59.705 45.455 0.00 0.00 0.00 4.18
497 498 2.408704 CGCTTGGTAGAGAAAACGAGTG 59.591 50.000 0.00 0.00 0.00 3.51
498 499 2.737252 GCTTGGTAGAGAAAACGAGTGG 59.263 50.000 0.00 0.00 0.00 4.00
499 500 3.802675 GCTTGGTAGAGAAAACGAGTGGT 60.803 47.826 0.00 0.00 0.00 4.16
500 501 4.377897 CTTGGTAGAGAAAACGAGTGGTT 58.622 43.478 0.00 0.00 41.76 3.67
501 502 5.534207 TTGGTAGAGAAAACGAGTGGTTA 57.466 39.130 0.00 0.00 38.08 2.85
502 503 5.733620 TGGTAGAGAAAACGAGTGGTTAT 57.266 39.130 0.00 0.00 38.08 1.89
503 504 6.105397 TGGTAGAGAAAACGAGTGGTTATT 57.895 37.500 0.00 0.00 38.08 1.40
504 505 7.230849 TGGTAGAGAAAACGAGTGGTTATTA 57.769 36.000 0.00 0.00 38.08 0.98
505 506 7.844009 TGGTAGAGAAAACGAGTGGTTATTAT 58.156 34.615 0.00 0.00 38.08 1.28
506 507 8.970020 TGGTAGAGAAAACGAGTGGTTATTATA 58.030 33.333 0.00 0.00 38.08 0.98
507 508 9.978044 GGTAGAGAAAACGAGTGGTTATTATAT 57.022 33.333 0.00 0.00 38.08 0.86
537 538 3.806949 TGGTAAGTCCATGCCTTTCTT 57.193 42.857 1.77 0.00 41.93 2.52
538 539 3.686016 TGGTAAGTCCATGCCTTTCTTC 58.314 45.455 1.77 0.00 41.93 2.87
539 540 3.330701 TGGTAAGTCCATGCCTTTCTTCT 59.669 43.478 1.77 0.00 41.93 2.85
540 541 3.691609 GGTAAGTCCATGCCTTTCTTCTG 59.308 47.826 1.77 0.00 35.97 3.02
541 542 3.515602 AAGTCCATGCCTTTCTTCTGT 57.484 42.857 0.00 0.00 0.00 3.41
542 543 3.515602 AGTCCATGCCTTTCTTCTGTT 57.484 42.857 0.00 0.00 0.00 3.16
543 544 3.837355 AGTCCATGCCTTTCTTCTGTTT 58.163 40.909 0.00 0.00 0.00 2.83
544 545 4.985538 AGTCCATGCCTTTCTTCTGTTTA 58.014 39.130 0.00 0.00 0.00 2.01
545 546 5.385198 AGTCCATGCCTTTCTTCTGTTTAA 58.615 37.500 0.00 0.00 0.00 1.52
546 547 5.833131 AGTCCATGCCTTTCTTCTGTTTAAA 59.167 36.000 0.00 0.00 0.00 1.52
547 548 6.323739 AGTCCATGCCTTTCTTCTGTTTAAAA 59.676 34.615 0.00 0.00 0.00 1.52
548 549 6.642540 GTCCATGCCTTTCTTCTGTTTAAAAG 59.357 38.462 0.00 0.00 0.00 2.27
549 550 6.549364 TCCATGCCTTTCTTCTGTTTAAAAGA 59.451 34.615 0.00 0.00 31.81 2.52
550 551 6.865205 CCATGCCTTTCTTCTGTTTAAAAGAG 59.135 38.462 0.00 0.00 33.32 2.85
551 552 7.428826 CATGCCTTTCTTCTGTTTAAAAGAGT 58.571 34.615 0.00 0.00 33.32 3.24
552 553 8.567948 CATGCCTTTCTTCTGTTTAAAAGAGTA 58.432 33.333 0.00 0.00 33.32 2.59
553 554 7.927048 TGCCTTTCTTCTGTTTAAAAGAGTAC 58.073 34.615 0.00 0.00 33.32 2.73
554 555 7.554835 TGCCTTTCTTCTGTTTAAAAGAGTACA 59.445 33.333 0.00 0.00 33.32 2.90
555 556 7.856398 GCCTTTCTTCTGTTTAAAAGAGTACAC 59.144 37.037 0.00 0.00 33.32 2.90
556 557 8.343366 CCTTTCTTCTGTTTAAAAGAGTACACC 58.657 37.037 0.00 0.00 33.32 4.16
557 558 8.795842 TTTCTTCTGTTTAAAAGAGTACACCA 57.204 30.769 0.00 0.00 33.32 4.17
558 559 8.974060 TTCTTCTGTTTAAAAGAGTACACCAT 57.026 30.769 0.00 0.00 33.32 3.55
559 560 8.974060 TCTTCTGTTTAAAAGAGTACACCATT 57.026 30.769 0.00 0.00 0.00 3.16
560 561 9.052759 TCTTCTGTTTAAAAGAGTACACCATTC 57.947 33.333 0.00 0.00 0.00 2.67
561 562 8.974060 TTCTGTTTAAAAGAGTACACCATTCT 57.026 30.769 0.00 0.00 0.00 2.40
562 563 8.974060 TCTGTTTAAAAGAGTACACCATTCTT 57.026 30.769 0.00 0.00 34.87 2.52
563 564 9.052759 TCTGTTTAAAAGAGTACACCATTCTTC 57.947 33.333 0.00 0.00 32.40 2.87
564 565 8.740123 TGTTTAAAAGAGTACACCATTCTTCA 57.260 30.769 0.00 0.00 32.40 3.02
565 566 9.349713 TGTTTAAAAGAGTACACCATTCTTCAT 57.650 29.630 0.00 0.00 32.40 2.57
568 569 6.727824 AAAGAGTACACCATTCTTCATTCG 57.272 37.500 0.00 0.00 32.40 3.34
569 570 5.661056 AGAGTACACCATTCTTCATTCGA 57.339 39.130 0.00 0.00 0.00 3.71
570 571 6.227298 AGAGTACACCATTCTTCATTCGAT 57.773 37.500 0.00 0.00 0.00 3.59
571 572 6.276847 AGAGTACACCATTCTTCATTCGATC 58.723 40.000 0.00 0.00 0.00 3.69
572 573 5.977635 AGTACACCATTCTTCATTCGATCA 58.022 37.500 0.00 0.00 0.00 2.92
573 574 5.812642 AGTACACCATTCTTCATTCGATCAC 59.187 40.000 0.00 0.00 0.00 3.06
574 575 4.836825 ACACCATTCTTCATTCGATCACT 58.163 39.130 0.00 0.00 0.00 3.41
575 576 4.872691 ACACCATTCTTCATTCGATCACTC 59.127 41.667 0.00 0.00 0.00 3.51
576 577 5.114780 CACCATTCTTCATTCGATCACTCT 58.885 41.667 0.00 0.00 0.00 3.24
577 578 5.583854 CACCATTCTTCATTCGATCACTCTT 59.416 40.000 0.00 0.00 0.00 2.85
578 579 5.583854 ACCATTCTTCATTCGATCACTCTTG 59.416 40.000 0.00 0.00 0.00 3.02
579 580 5.007430 CCATTCTTCATTCGATCACTCTTGG 59.993 44.000 0.00 0.00 0.00 3.61
580 581 5.405935 TTCTTCATTCGATCACTCTTGGA 57.594 39.130 0.00 0.00 0.00 3.53
581 582 5.604758 TCTTCATTCGATCACTCTTGGAT 57.395 39.130 0.00 0.00 0.00 3.41
582 583 6.715347 TCTTCATTCGATCACTCTTGGATA 57.285 37.500 0.00 0.00 0.00 2.59
583 584 7.112452 TCTTCATTCGATCACTCTTGGATAA 57.888 36.000 0.00 0.00 0.00 1.75
584 585 7.730084 TCTTCATTCGATCACTCTTGGATAAT 58.270 34.615 0.00 0.00 0.00 1.28
585 586 8.206867 TCTTCATTCGATCACTCTTGGATAATT 58.793 33.333 0.00 0.00 0.00 1.40
586 587 7.953158 TCATTCGATCACTCTTGGATAATTC 57.047 36.000 0.00 0.00 0.00 2.17
587 588 6.931281 TCATTCGATCACTCTTGGATAATTCC 59.069 38.462 0.00 0.00 42.94 3.01
588 589 6.485830 TTCGATCACTCTTGGATAATTCCT 57.514 37.500 0.00 0.00 43.07 3.36
589 590 6.485830 TCGATCACTCTTGGATAATTCCTT 57.514 37.500 0.00 0.00 43.07 3.36
590 591 6.516718 TCGATCACTCTTGGATAATTCCTTC 58.483 40.000 0.00 0.00 43.07 3.46
591 592 6.325028 TCGATCACTCTTGGATAATTCCTTCT 59.675 38.462 0.00 0.00 43.07 2.85
592 593 6.423302 CGATCACTCTTGGATAATTCCTTCTG 59.577 42.308 0.00 0.00 43.07 3.02
593 594 6.627087 TCACTCTTGGATAATTCCTTCTGT 57.373 37.500 0.00 0.00 43.07 3.41
594 595 7.020827 TCACTCTTGGATAATTCCTTCTGTT 57.979 36.000 0.00 0.00 43.07 3.16
595 596 7.461749 TCACTCTTGGATAATTCCTTCTGTTT 58.538 34.615 0.00 0.00 43.07 2.83
596 597 7.391554 TCACTCTTGGATAATTCCTTCTGTTTG 59.608 37.037 0.00 0.00 43.07 2.93
597 598 7.391554 CACTCTTGGATAATTCCTTCTGTTTGA 59.608 37.037 0.00 0.00 43.07 2.69
598 599 7.609532 ACTCTTGGATAATTCCTTCTGTTTGAG 59.390 37.037 0.00 0.00 43.07 3.02
599 600 6.886459 TCTTGGATAATTCCTTCTGTTTGAGG 59.114 38.462 0.00 0.00 43.07 3.86
600 601 6.387192 TGGATAATTCCTTCTGTTTGAGGA 57.613 37.500 0.00 0.00 43.07 3.71
601 602 6.789268 TGGATAATTCCTTCTGTTTGAGGAA 58.211 36.000 7.24 7.24 43.07 3.36
602 603 6.659242 TGGATAATTCCTTCTGTTTGAGGAAC 59.341 38.462 6.96 0.00 42.38 3.62
603 604 6.887002 GGATAATTCCTTCTGTTTGAGGAACT 59.113 38.462 6.96 0.00 42.38 3.01
780 811 4.170292 AGCAAAACTGAAGCTGCAATAG 57.830 40.909 1.02 0.00 37.20 1.73
905 937 9.238368 CCTGAAAGTTACCATTTCATTTAGGTA 57.762 33.333 1.94 0.00 43.63 3.08
1384 1443 5.308825 AGTGTTTATGTTCCTTCAGTCTGG 58.691 41.667 0.00 0.00 0.00 3.86
1448 1507 8.783093 TGAGTTCAACTACAGGAAATTATGTTG 58.217 33.333 0.00 0.00 35.89 3.33
1510 1569 0.606130 ACATGCATGCTGACAACGGA 60.606 50.000 26.53 0.00 0.00 4.69
2015 2378 9.941664 CTATGCACAGGAAGATTAGTTTAATTG 57.058 33.333 0.00 0.00 0.00 2.32
2084 2456 7.978982 TGCTTTAGAAGAATCTATTGAGTTGC 58.021 34.615 0.00 0.00 37.97 4.17
2169 2556 9.869757 TTATCATTAGATCTGTTCTTTGTTCGA 57.130 29.630 5.18 0.00 35.79 3.71
2451 2841 9.476202 AGTTTTCAGTTGAACCAATTTTATAGC 57.524 29.630 0.00 0.00 33.13 2.97
2485 2875 4.261447 GCTTTGTTGGAACGTATGAAGGTT 60.261 41.667 0.00 0.00 36.45 3.50
2750 3140 7.825270 TCCTTTGTTTGTAACTTAGTTGAGTGA 59.175 33.333 8.00 0.00 0.00 3.41
2811 3201 4.305989 TGTGGAAATGTGAAAGCTTGAC 57.694 40.909 0.00 0.18 0.00 3.18
2812 3202 3.953612 TGTGGAAATGTGAAAGCTTGACT 59.046 39.130 0.00 0.00 0.00 3.41
2813 3203 4.402155 TGTGGAAATGTGAAAGCTTGACTT 59.598 37.500 0.00 0.00 41.70 3.01
2814 3204 5.592282 TGTGGAAATGTGAAAGCTTGACTTA 59.408 36.000 0.00 0.00 37.75 2.24
2815 3205 6.265196 TGTGGAAATGTGAAAGCTTGACTTAT 59.735 34.615 0.00 0.00 37.75 1.73
2817 3207 5.574443 GGAAATGTGAAAGCTTGACTTATGC 59.426 40.000 0.00 0.00 37.75 3.14
2818 3208 4.708726 ATGTGAAAGCTTGACTTATGCC 57.291 40.909 0.00 0.00 37.75 4.40
2819 3209 3.754965 TGTGAAAGCTTGACTTATGCCT 58.245 40.909 0.00 0.00 37.75 4.75
2820 3210 3.753272 TGTGAAAGCTTGACTTATGCCTC 59.247 43.478 0.00 0.00 37.75 4.70
2821 3211 3.127721 GTGAAAGCTTGACTTATGCCTCC 59.872 47.826 0.00 0.00 37.75 4.30
2822 3212 2.029838 AAGCTTGACTTATGCCTCCG 57.970 50.000 0.00 0.00 36.62 4.63
2823 3213 0.905357 AGCTTGACTTATGCCTCCGT 59.095 50.000 0.00 0.00 0.00 4.69
2824 3214 1.009829 GCTTGACTTATGCCTCCGTG 58.990 55.000 0.00 0.00 0.00 4.94
2825 3215 1.656652 CTTGACTTATGCCTCCGTGG 58.343 55.000 0.00 0.00 39.35 4.94
2871 3261 0.902984 ATGTGCAGGTGGGTAGTCGA 60.903 55.000 0.00 0.00 0.00 4.20
3230 3622 4.764823 CACTAATAAAGGTTGCCTGGACAA 59.235 41.667 0.00 0.00 32.13 3.18
3310 3702 4.020751 TGCCTCATAAGATGTATCTCTGGC 60.021 45.833 0.00 0.00 35.76 4.85
3419 3811 9.826574 ACCAGCAGTAAGTATTTATTATTTCGA 57.173 29.630 0.00 0.00 0.00 3.71
3446 3838 4.023291 TGCCTGAATTTTTCTATCACCCC 58.977 43.478 0.00 0.00 0.00 4.95
3520 3912 4.686091 TCATCTAGTTCGTGTCAAAAGCTG 59.314 41.667 0.00 0.00 0.00 4.24
3546 3938 2.752903 GCCTTGTCCGTGAAAATATGGT 59.247 45.455 0.00 0.00 0.00 3.55
3557 3949 3.299503 GAAAATATGGTGGATGGTGGCT 58.700 45.455 0.00 0.00 0.00 4.75
3672 4064 0.392998 AAAGGATAGGCAGCACGGTG 60.393 55.000 3.15 3.15 0.00 4.94
3676 4068 0.528684 GATAGGCAGCACGGTGACTC 60.529 60.000 13.29 0.00 36.96 3.36
3677 4069 1.961180 ATAGGCAGCACGGTGACTCC 61.961 60.000 13.29 8.45 36.96 3.85
3678 4070 4.314440 GGCAGCACGGTGACTCCA 62.314 66.667 13.29 0.00 35.57 3.86
3679 4071 2.740055 GCAGCACGGTGACTCCAG 60.740 66.667 13.29 0.00 35.57 3.86
3680 4072 3.051210 CAGCACGGTGACTCCAGA 58.949 61.111 13.29 0.00 35.57 3.86
3681 4073 1.373497 CAGCACGGTGACTCCAGAC 60.373 63.158 13.29 0.00 35.57 3.51
3682 4074 2.048127 GCACGGTGACTCCAGACC 60.048 66.667 13.29 0.00 35.57 3.85
3683 4075 2.574955 GCACGGTGACTCCAGACCT 61.575 63.158 13.29 0.00 35.57 3.85
3684 4076 1.290324 CACGGTGACTCCAGACCTG 59.710 63.158 0.74 0.00 35.57 4.00
3685 4077 1.153061 ACGGTGACTCCAGACCTGA 59.847 57.895 0.00 0.00 35.57 3.86
3686 4078 0.251832 ACGGTGACTCCAGACCTGAT 60.252 55.000 0.00 0.00 35.57 2.90
3687 4079 0.898320 CGGTGACTCCAGACCTGATT 59.102 55.000 0.00 0.00 35.57 2.57
3688 4080 2.100197 CGGTGACTCCAGACCTGATTA 58.900 52.381 0.00 0.00 35.57 1.75
3689 4081 2.099921 CGGTGACTCCAGACCTGATTAG 59.900 54.545 0.00 0.00 35.57 1.73
3690 4082 3.100671 GGTGACTCCAGACCTGATTAGT 58.899 50.000 0.00 0.00 35.97 2.24
3691 4083 3.515901 GGTGACTCCAGACCTGATTAGTT 59.484 47.826 0.00 0.00 35.97 2.24
3692 4084 4.710375 GGTGACTCCAGACCTGATTAGTTA 59.290 45.833 0.00 0.00 35.97 2.24
3693 4085 5.163499 GGTGACTCCAGACCTGATTAGTTAG 60.163 48.000 0.00 0.00 35.97 2.34
3694 4086 5.419471 GTGACTCCAGACCTGATTAGTTAGT 59.581 44.000 0.00 0.00 0.00 2.24
3695 4087 6.017192 TGACTCCAGACCTGATTAGTTAGTT 58.983 40.000 0.00 0.00 0.00 2.24
3696 4088 6.497259 TGACTCCAGACCTGATTAGTTAGTTT 59.503 38.462 0.00 0.00 0.00 2.66
3697 4089 6.702329 ACTCCAGACCTGATTAGTTAGTTTG 58.298 40.000 0.00 0.00 0.00 2.93
3698 4090 6.049955 TCCAGACCTGATTAGTTAGTTTGG 57.950 41.667 0.00 0.00 34.80 3.28
3699 4091 5.546499 TCCAGACCTGATTAGTTAGTTTGGT 59.454 40.000 0.00 0.00 35.01 3.67
3700 4092 5.643777 CCAGACCTGATTAGTTAGTTTGGTG 59.356 44.000 0.00 0.00 30.27 4.17
3701 4093 6.464222 CAGACCTGATTAGTTAGTTTGGTGA 58.536 40.000 0.00 0.00 0.00 4.02
3702 4094 7.106239 CAGACCTGATTAGTTAGTTTGGTGAT 58.894 38.462 0.00 0.00 0.00 3.06
3703 4095 7.607991 CAGACCTGATTAGTTAGTTTGGTGATT 59.392 37.037 0.00 0.00 0.00 2.57
3704 4096 8.164070 AGACCTGATTAGTTAGTTTGGTGATTT 58.836 33.333 0.00 0.00 0.00 2.17
3705 4097 8.706322 ACCTGATTAGTTAGTTTGGTGATTTT 57.294 30.769 0.00 0.00 0.00 1.82
3706 4098 8.576442 ACCTGATTAGTTAGTTTGGTGATTTTG 58.424 33.333 0.00 0.00 0.00 2.44
3707 4099 8.576442 CCTGATTAGTTAGTTTGGTGATTTTGT 58.424 33.333 0.00 0.00 0.00 2.83
3708 4100 9.965824 CTGATTAGTTAGTTTGGTGATTTTGTT 57.034 29.630 0.00 0.00 0.00 2.83
3709 4101 9.743057 TGATTAGTTAGTTTGGTGATTTTGTTG 57.257 29.630 0.00 0.00 0.00 3.33
3710 4102 9.959749 GATTAGTTAGTTTGGTGATTTTGTTGA 57.040 29.630 0.00 0.00 0.00 3.18
3712 4104 9.575783 TTAGTTAGTTTGGTGATTTTGTTGAAC 57.424 29.630 0.00 0.00 0.00 3.18
3713 4105 7.836842 AGTTAGTTTGGTGATTTTGTTGAACT 58.163 30.769 0.00 0.00 0.00 3.01
3714 4106 7.759433 AGTTAGTTTGGTGATTTTGTTGAACTG 59.241 33.333 0.00 0.00 0.00 3.16
3715 4107 6.036577 AGTTTGGTGATTTTGTTGAACTGT 57.963 33.333 0.00 0.00 0.00 3.55
3716 4108 5.868801 AGTTTGGTGATTTTGTTGAACTGTG 59.131 36.000 0.00 0.00 0.00 3.66
3717 4109 5.398603 TTGGTGATTTTGTTGAACTGTGT 57.601 34.783 0.00 0.00 0.00 3.72
3718 4110 4.742417 TGGTGATTTTGTTGAACTGTGTG 58.258 39.130 0.00 0.00 0.00 3.82
3719 4111 4.111916 GGTGATTTTGTTGAACTGTGTGG 58.888 43.478 0.00 0.00 0.00 4.17
3720 4112 4.381505 GGTGATTTTGTTGAACTGTGTGGT 60.382 41.667 0.00 0.00 0.00 4.16
3721 4113 4.798387 GTGATTTTGTTGAACTGTGTGGTC 59.202 41.667 0.00 0.00 0.00 4.02
3722 4114 4.460731 TGATTTTGTTGAACTGTGTGGTCA 59.539 37.500 0.00 0.00 41.27 4.02
3792 4184 4.157840 GGAATGTTCTGGTGGATTTGTACC 59.842 45.833 0.00 0.00 0.00 3.34
3868 4260 6.025896 GCATGTCTCAATGTATGAACAAGTG 58.974 40.000 0.00 0.00 39.58 3.16
4105 4497 0.345502 AGGCTATCCCCAACCAGGTA 59.654 55.000 0.00 0.00 34.66 3.08
4107 4499 1.694693 GGCTATCCCCAACCAGGTAGA 60.695 57.143 0.00 0.00 34.66 2.59
4112 4504 0.768622 CCCCAACCAGGTAGACAACA 59.231 55.000 0.00 0.00 34.66 3.33
4129 4521 0.759346 ACAATACCCTCAGCCGATCC 59.241 55.000 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 6.607689 TCACAGTAAAATCCGTAAAATGCAG 58.392 36.000 0.00 0.00 0.00 4.41
32 33 0.601311 ACAGCCGCTGAGTTCTTCAC 60.601 55.000 27.12 0.00 35.18 3.18
62 63 2.203266 GGATGGGCAGCTGTAGGC 60.203 66.667 16.64 0.87 42.19 3.93
100 101 0.534203 TCCAAACGACTTCACCAGCC 60.534 55.000 0.00 0.00 0.00 4.85
255 256 9.405587 GCTAAAAAGAAATTAAGTATGCACACA 57.594 29.630 0.00 0.00 0.00 3.72
452 453 8.679100 GCGAGTGACCTTTACAGATATCTATAT 58.321 37.037 4.54 0.00 0.00 0.86
453 454 7.883833 AGCGAGTGACCTTTACAGATATCTATA 59.116 37.037 4.54 0.00 0.00 1.31
454 455 6.717540 AGCGAGTGACCTTTACAGATATCTAT 59.282 38.462 4.54 0.00 0.00 1.98
455 456 6.062749 AGCGAGTGACCTTTACAGATATCTA 58.937 40.000 4.54 0.00 0.00 1.98
456 457 4.890581 AGCGAGTGACCTTTACAGATATCT 59.109 41.667 0.00 0.00 0.00 1.98
457 458 5.189659 AGCGAGTGACCTTTACAGATATC 57.810 43.478 0.00 0.00 0.00 1.63
458 459 5.352284 CAAGCGAGTGACCTTTACAGATAT 58.648 41.667 0.00 0.00 0.00 1.63
459 460 4.381612 CCAAGCGAGTGACCTTTACAGATA 60.382 45.833 0.00 0.00 0.00 1.98
460 461 3.589988 CAAGCGAGTGACCTTTACAGAT 58.410 45.455 0.00 0.00 0.00 2.90
461 462 2.288825 CCAAGCGAGTGACCTTTACAGA 60.289 50.000 0.00 0.00 0.00 3.41
462 463 2.069273 CCAAGCGAGTGACCTTTACAG 58.931 52.381 0.00 0.00 0.00 2.74
463 464 1.414919 ACCAAGCGAGTGACCTTTACA 59.585 47.619 0.00 0.00 0.00 2.41
464 465 2.165319 ACCAAGCGAGTGACCTTTAC 57.835 50.000 0.00 0.00 0.00 2.01
465 466 3.159472 TCTACCAAGCGAGTGACCTTTA 58.841 45.455 0.00 0.00 0.00 1.85
466 467 1.968493 TCTACCAAGCGAGTGACCTTT 59.032 47.619 0.00 0.00 0.00 3.11
467 468 1.546476 CTCTACCAAGCGAGTGACCTT 59.454 52.381 0.00 0.00 0.00 3.50
468 469 1.178276 CTCTACCAAGCGAGTGACCT 58.822 55.000 0.00 0.00 0.00 3.85
469 470 1.174783 TCTCTACCAAGCGAGTGACC 58.825 55.000 0.00 0.00 0.00 4.02
470 471 3.299340 TTTCTCTACCAAGCGAGTGAC 57.701 47.619 0.00 0.00 0.00 3.67
471 472 3.650139 GTTTTCTCTACCAAGCGAGTGA 58.350 45.455 0.00 0.00 0.00 3.41
472 473 2.408704 CGTTTTCTCTACCAAGCGAGTG 59.591 50.000 0.00 0.00 0.00 3.51
473 474 2.295349 TCGTTTTCTCTACCAAGCGAGT 59.705 45.455 0.00 0.00 31.68 4.18
474 475 2.917971 CTCGTTTTCTCTACCAAGCGAG 59.082 50.000 4.19 4.19 43.96 5.03
475 476 2.295349 ACTCGTTTTCTCTACCAAGCGA 59.705 45.455 0.00 0.00 34.88 4.93
476 477 2.408704 CACTCGTTTTCTCTACCAAGCG 59.591 50.000 0.00 0.00 0.00 4.68
477 478 2.737252 CCACTCGTTTTCTCTACCAAGC 59.263 50.000 0.00 0.00 0.00 4.01
478 479 3.991367 ACCACTCGTTTTCTCTACCAAG 58.009 45.455 0.00 0.00 0.00 3.61
479 480 4.411256 AACCACTCGTTTTCTCTACCAA 57.589 40.909 0.00 0.00 0.00 3.67
480 481 5.733620 ATAACCACTCGTTTTCTCTACCA 57.266 39.130 0.00 0.00 35.79 3.25
481 482 9.978044 ATATAATAACCACTCGTTTTCTCTACC 57.022 33.333 0.00 0.00 35.79 3.18
518 519 3.691609 CAGAAGAAAGGCATGGACTTACC 59.308 47.826 0.00 0.00 39.54 2.85
519 520 4.327680 ACAGAAGAAAGGCATGGACTTAC 58.672 43.478 0.00 0.00 26.79 2.34
520 521 4.640771 ACAGAAGAAAGGCATGGACTTA 57.359 40.909 0.00 0.00 26.79 2.24
521 522 3.515602 ACAGAAGAAAGGCATGGACTT 57.484 42.857 0.00 0.00 28.57 3.01
522 523 3.515602 AACAGAAGAAAGGCATGGACT 57.484 42.857 0.00 0.00 0.00 3.85
523 524 5.705609 TTAAACAGAAGAAAGGCATGGAC 57.294 39.130 0.00 0.00 0.00 4.02
524 525 6.549364 TCTTTTAAACAGAAGAAAGGCATGGA 59.451 34.615 0.00 0.00 31.69 3.41
525 526 6.748132 TCTTTTAAACAGAAGAAAGGCATGG 58.252 36.000 0.00 0.00 31.69 3.66
526 527 7.428826 ACTCTTTTAAACAGAAGAAAGGCATG 58.571 34.615 1.15 0.00 31.99 4.06
527 528 7.588497 ACTCTTTTAAACAGAAGAAAGGCAT 57.412 32.000 1.15 0.00 31.99 4.40
528 529 7.554835 TGTACTCTTTTAAACAGAAGAAAGGCA 59.445 33.333 0.00 0.00 31.99 4.75
529 530 7.856398 GTGTACTCTTTTAAACAGAAGAAAGGC 59.144 37.037 0.00 0.00 31.99 4.35
530 531 8.343366 GGTGTACTCTTTTAAACAGAAGAAAGG 58.657 37.037 0.00 0.00 31.99 3.11
531 532 8.889717 TGGTGTACTCTTTTAAACAGAAGAAAG 58.110 33.333 0.00 0.00 31.99 2.62
532 533 8.795842 TGGTGTACTCTTTTAAACAGAAGAAA 57.204 30.769 0.00 0.00 31.99 2.52
533 534 8.974060 ATGGTGTACTCTTTTAAACAGAAGAA 57.026 30.769 0.00 0.00 31.99 2.52
534 535 8.974060 AATGGTGTACTCTTTTAAACAGAAGA 57.026 30.769 0.00 0.00 0.00 2.87
535 536 9.057089 AGAATGGTGTACTCTTTTAAACAGAAG 57.943 33.333 0.00 0.00 0.00 2.85
536 537 8.974060 AGAATGGTGTACTCTTTTAAACAGAA 57.026 30.769 0.00 0.00 0.00 3.02
537 538 8.974060 AAGAATGGTGTACTCTTTTAAACAGA 57.026 30.769 0.00 1.50 0.00 3.41
538 539 8.836413 TGAAGAATGGTGTACTCTTTTAAACAG 58.164 33.333 0.00 0.00 29.59 3.16
539 540 8.740123 TGAAGAATGGTGTACTCTTTTAAACA 57.260 30.769 0.00 0.00 29.59 2.83
542 543 8.717821 CGAATGAAGAATGGTGTACTCTTTTAA 58.282 33.333 0.00 0.00 29.59 1.52
543 544 8.092068 TCGAATGAAGAATGGTGTACTCTTTTA 58.908 33.333 0.00 0.00 29.59 1.52
544 545 6.934645 TCGAATGAAGAATGGTGTACTCTTTT 59.065 34.615 0.00 0.00 29.59 2.27
545 546 6.464222 TCGAATGAAGAATGGTGTACTCTTT 58.536 36.000 0.00 0.00 29.59 2.52
546 547 6.037786 TCGAATGAAGAATGGTGTACTCTT 57.962 37.500 0.00 0.00 32.11 2.85
547 548 5.661056 TCGAATGAAGAATGGTGTACTCT 57.339 39.130 0.00 0.00 0.00 3.24
548 549 6.019479 GTGATCGAATGAAGAATGGTGTACTC 60.019 42.308 0.00 0.00 0.00 2.59
549 550 5.812642 GTGATCGAATGAAGAATGGTGTACT 59.187 40.000 0.00 0.00 0.00 2.73
550 551 5.812642 AGTGATCGAATGAAGAATGGTGTAC 59.187 40.000 0.00 0.00 0.00 2.90
551 552 5.977635 AGTGATCGAATGAAGAATGGTGTA 58.022 37.500 0.00 0.00 0.00 2.90
552 553 4.836825 AGTGATCGAATGAAGAATGGTGT 58.163 39.130 0.00 0.00 0.00 4.16
553 554 5.114780 AGAGTGATCGAATGAAGAATGGTG 58.885 41.667 0.00 0.00 0.00 4.17
554 555 5.350504 AGAGTGATCGAATGAAGAATGGT 57.649 39.130 0.00 0.00 0.00 3.55
555 556 5.007430 CCAAGAGTGATCGAATGAAGAATGG 59.993 44.000 0.00 0.00 0.00 3.16
556 557 5.814188 TCCAAGAGTGATCGAATGAAGAATG 59.186 40.000 0.00 0.00 0.00 2.67
557 558 5.982356 TCCAAGAGTGATCGAATGAAGAAT 58.018 37.500 0.00 0.00 0.00 2.40
558 559 5.405935 TCCAAGAGTGATCGAATGAAGAA 57.594 39.130 0.00 0.00 0.00 2.52
559 560 5.604758 ATCCAAGAGTGATCGAATGAAGA 57.395 39.130 0.00 0.00 0.00 2.87
560 561 7.959689 ATTATCCAAGAGTGATCGAATGAAG 57.040 36.000 0.00 0.00 0.00 3.02
561 562 7.442364 GGAATTATCCAAGAGTGATCGAATGAA 59.558 37.037 0.00 0.00 45.79 2.57
562 563 6.931281 GGAATTATCCAAGAGTGATCGAATGA 59.069 38.462 0.00 0.00 45.79 2.57
563 564 7.126726 GGAATTATCCAAGAGTGATCGAATG 57.873 40.000 0.00 0.00 45.79 2.67
576 577 7.176690 GTTCCTCAAACAGAAGGAATTATCCAA 59.823 37.037 7.08 0.00 41.89 3.53
577 578 6.659242 GTTCCTCAAACAGAAGGAATTATCCA 59.341 38.462 7.08 0.00 41.89 3.41
578 579 6.887002 AGTTCCTCAAACAGAAGGAATTATCC 59.113 38.462 7.08 0.00 42.28 2.59
579 580 7.607991 TGAGTTCCTCAAACAGAAGGAATTATC 59.392 37.037 7.08 6.95 40.56 1.75
580 581 7.461749 TGAGTTCCTCAAACAGAAGGAATTAT 58.538 34.615 7.08 0.00 40.56 1.28
581 582 6.837312 TGAGTTCCTCAAACAGAAGGAATTA 58.163 36.000 7.08 0.00 40.56 1.40
582 583 5.694995 TGAGTTCCTCAAACAGAAGGAATT 58.305 37.500 7.08 3.27 40.56 2.17
583 584 5.310409 TGAGTTCCTCAAACAGAAGGAAT 57.690 39.130 7.08 0.00 40.56 3.01
584 585 4.771114 TGAGTTCCTCAAACAGAAGGAA 57.229 40.909 0.00 0.00 40.56 3.36
585 586 4.771114 TTGAGTTCCTCAAACAGAAGGA 57.229 40.909 4.27 0.00 45.84 3.36
594 595 5.470098 GCTACTGACAATTTGAGTTCCTCAA 59.530 40.000 2.79 2.65 46.93 3.02
595 596 4.997395 GCTACTGACAATTTGAGTTCCTCA 59.003 41.667 2.79 0.00 38.87 3.86
596 597 4.997395 TGCTACTGACAATTTGAGTTCCTC 59.003 41.667 2.79 0.00 0.00 3.71
597 598 4.973168 TGCTACTGACAATTTGAGTTCCT 58.027 39.130 2.79 0.00 0.00 3.36
598 599 5.689383 TTGCTACTGACAATTTGAGTTCC 57.311 39.130 2.79 0.00 0.00 3.62
601 602 9.890629 TCTATATTTGCTACTGACAATTTGAGT 57.109 29.630 2.79 0.00 0.00 3.41
780 811 4.832823 CACCCCATGTATAAAATCCTTCCC 59.167 45.833 0.00 0.00 0.00 3.97
1373 1432 0.838122 AGGGGTGTCCAGACTGAAGG 60.838 60.000 3.32 0.00 38.24 3.46
1510 1569 5.255687 TGATGAAGTTGTGGTATGCTCAAT 58.744 37.500 0.00 0.00 0.00 2.57
2084 2456 5.461078 CCACATGCAGAACTTTTTCAAGAAG 59.539 40.000 0.00 0.00 33.72 2.85
2451 2841 5.343058 CGTTCCAACAAAGCAACATATTCAG 59.657 40.000 0.00 0.00 0.00 3.02
2485 2875 6.942532 AAGTTGCAATGTACTTCTTCTCAA 57.057 33.333 0.59 0.00 28.79 3.02
2537 2927 3.201290 CTGCTACATTCAAGCCGATTCT 58.799 45.455 0.00 0.00 39.30 2.40
2720 3110 8.238631 TCAACTAAGTTACAAACAAAGGACAAC 58.761 33.333 0.00 0.00 0.00 3.32
2821 3211 4.463879 CTCCAGCTCCAGCCCACG 62.464 72.222 0.00 0.00 43.38 4.94
2822 3212 4.106925 CCTCCAGCTCCAGCCCAC 62.107 72.222 0.00 0.00 43.38 4.61
2871 3261 0.473117 TTTCCCTCGGTGACCTCCTT 60.473 55.000 0.00 0.00 0.00 3.36
3107 3497 3.034721 TGCGAGTGGTGGTTTTAGTAG 57.965 47.619 0.00 0.00 0.00 2.57
3230 3622 6.686630 TCATGAATATTGAAAACGGCTTTGT 58.313 32.000 0.00 0.00 0.00 2.83
3419 3811 7.014615 GGGTGATAGAAAAATTCAGGCACATAT 59.985 37.037 0.00 0.00 31.83 1.78
3436 3828 6.326583 CCAAGTATTGTAAGAGGGGTGATAGA 59.673 42.308 0.00 0.00 46.99 1.98
3446 3838 6.074088 CGATAGCAAGCCAAGTATTGTAAGAG 60.074 42.308 0.00 0.00 46.99 2.85
3520 3912 1.104577 TTTCACGGACAAGGCCAACC 61.105 55.000 5.01 1.04 0.00 3.77
3546 3938 4.746309 GCTGGCAGCCACCATCCA 62.746 66.667 28.87 0.00 39.54 3.41
3672 4064 6.532988 AACTAACTAATCAGGTCTGGAGTC 57.467 41.667 0.00 0.00 0.00 3.36
3676 4068 5.643777 CACCAAACTAACTAATCAGGTCTGG 59.356 44.000 0.00 0.00 0.00 3.86
3677 4069 6.464222 TCACCAAACTAACTAATCAGGTCTG 58.536 40.000 0.00 0.00 0.00 3.51
3678 4070 6.681729 TCACCAAACTAACTAATCAGGTCT 57.318 37.500 0.00 0.00 0.00 3.85
3679 4071 7.923414 AATCACCAAACTAACTAATCAGGTC 57.077 36.000 0.00 0.00 0.00 3.85
3680 4072 8.576442 CAAAATCACCAAACTAACTAATCAGGT 58.424 33.333 0.00 0.00 0.00 4.00
3681 4073 8.576442 ACAAAATCACCAAACTAACTAATCAGG 58.424 33.333 0.00 0.00 0.00 3.86
3682 4074 9.965824 AACAAAATCACCAAACTAACTAATCAG 57.034 29.630 0.00 0.00 0.00 2.90
3683 4075 9.743057 CAACAAAATCACCAAACTAACTAATCA 57.257 29.630 0.00 0.00 0.00 2.57
3684 4076 9.959749 TCAACAAAATCACCAAACTAACTAATC 57.040 29.630 0.00 0.00 0.00 1.75
3686 4078 9.575783 GTTCAACAAAATCACCAAACTAACTAA 57.424 29.630 0.00 0.00 0.00 2.24
3687 4079 8.962679 AGTTCAACAAAATCACCAAACTAACTA 58.037 29.630 0.00 0.00 0.00 2.24
3688 4080 7.759433 CAGTTCAACAAAATCACCAAACTAACT 59.241 33.333 0.00 0.00 0.00 2.24
3689 4081 7.544217 ACAGTTCAACAAAATCACCAAACTAAC 59.456 33.333 0.00 0.00 0.00 2.34
3690 4082 7.543868 CACAGTTCAACAAAATCACCAAACTAA 59.456 33.333 0.00 0.00 0.00 2.24
3691 4083 7.032580 CACAGTTCAACAAAATCACCAAACTA 58.967 34.615 0.00 0.00 0.00 2.24
3692 4084 5.868801 CACAGTTCAACAAAATCACCAAACT 59.131 36.000 0.00 0.00 0.00 2.66
3693 4085 5.637387 ACACAGTTCAACAAAATCACCAAAC 59.363 36.000 0.00 0.00 0.00 2.93
3694 4086 5.636965 CACACAGTTCAACAAAATCACCAAA 59.363 36.000 0.00 0.00 0.00 3.28
3695 4087 5.167121 CACACAGTTCAACAAAATCACCAA 58.833 37.500 0.00 0.00 0.00 3.67
3696 4088 4.381398 CCACACAGTTCAACAAAATCACCA 60.381 41.667 0.00 0.00 0.00 4.17
3697 4089 4.111916 CCACACAGTTCAACAAAATCACC 58.888 43.478 0.00 0.00 0.00 4.02
3698 4090 4.743493 ACCACACAGTTCAACAAAATCAC 58.257 39.130 0.00 0.00 0.00 3.06
3699 4091 4.460731 TGACCACACAGTTCAACAAAATCA 59.539 37.500 0.00 0.00 0.00 2.57
3700 4092 4.798387 GTGACCACACAGTTCAACAAAATC 59.202 41.667 0.00 0.00 45.32 2.17
3701 4093 4.743493 GTGACCACACAGTTCAACAAAAT 58.257 39.130 0.00 0.00 45.32 1.82
3702 4094 4.167554 GTGACCACACAGTTCAACAAAA 57.832 40.909 0.00 0.00 45.32 2.44
3703 4095 3.840890 GTGACCACACAGTTCAACAAA 57.159 42.857 0.00 0.00 45.32 2.83
3714 4106 1.941668 GCTAGCTTCCTGTGACCACAC 60.942 57.143 7.70 0.00 46.09 3.82
3715 4107 0.321671 GCTAGCTTCCTGTGACCACA 59.678 55.000 7.70 2.63 39.32 4.17
3716 4108 0.610687 AGCTAGCTTCCTGTGACCAC 59.389 55.000 12.68 0.00 0.00 4.16
3717 4109 1.276421 GAAGCTAGCTTCCTGTGACCA 59.724 52.381 37.06 0.00 44.76 4.02
3718 4110 2.017138 GAAGCTAGCTTCCTGTGACC 57.983 55.000 37.06 17.36 44.76 4.02
3767 4159 4.082125 ACAAATCCACCAGAACATTCCTC 58.918 43.478 0.00 0.00 0.00 3.71
3792 4184 7.570140 GCATATTTGTCTCGTTGTCCATCTATG 60.570 40.741 0.00 0.00 0.00 2.23
3868 4260 7.625828 AAAACCATACAAGTAGGCTGATTAC 57.374 36.000 0.00 0.00 0.00 1.89
3982 4374 6.968263 TGGATTGTTGTGATTACCTTTGAA 57.032 33.333 0.00 0.00 0.00 2.69
4105 4497 1.066143 CGGCTGAGGGTATTGTTGTCT 60.066 52.381 0.00 0.00 0.00 3.41
4107 4499 0.981183 TCGGCTGAGGGTATTGTTGT 59.019 50.000 0.00 0.00 0.00 3.32
4112 4504 2.050269 CGGATCGGCTGAGGGTATT 58.950 57.895 0.00 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.