Multiple sequence alignment - TraesCS7A01G191800

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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 TraesCS7A01G191800 chr7A 100.000 3436 0 0 1 3436 149600462 149603897 0.000000e+00 6346.0
1 TraesCS7A01G191800 chr7D 94.112 2174 83 19 728 2893 148296789 148298925 0.000000e+00 3264.0
2 TraesCS7A01G191800 chr7D 88.146 1721 88 42 751 2450 149528673 149527048 0.000000e+00 1941.0
3 TraesCS7A01G191800 chr7D 84.244 952 112 20 2486 3435 149527047 149526132 0.000000e+00 893.0
4 TraesCS7A01G191800 chr7D 91.628 645 41 10 1 639 148277842 148278479 0.000000e+00 880.0
5 TraesCS7A01G191800 chr7D 87.176 655 65 9 4 647 399423680 399423034 0.000000e+00 726.0
6 TraesCS7A01G191800 chr7D 86.708 647 81 4 2790 3435 149520382 149519740 0.000000e+00 713.0
7 TraesCS7A01G191800 chr7D 79.383 519 95 11 2925 3436 478025739 478026252 4.220000e-94 355.0
8 TraesCS7A01G191800 chr7D 92.157 51 3 1 687 737 493572325 493572276 1.710000e-08 71.3
9 TraesCS7A01G191800 chr7D 100.000 28 0 0 661 688 263974924 263974951 6.000000e-03 52.8
10 TraesCS7A01G191800 chr7B 90.018 1683 57 30 803 2456 111367508 111369108 0.000000e+00 2074.0
11 TraesCS7A01G191800 chr7B 90.102 879 82 4 2559 3436 111370772 111371646 0.000000e+00 1136.0
12 TraesCS7A01G191800 chr7B 96.190 105 3 1 2452 2556 111369298 111369401 1.640000e-38 171.0
13 TraesCS7A01G191800 chr7B 75.617 324 67 10 2682 2999 121569663 121569980 2.140000e-32 150.0
14 TraesCS7A01G191800 chrUn 88.477 486 46 10 154 632 77076801 77077283 2.300000e-161 579.0
15 TraesCS7A01G191800 chrUn 90.566 53 3 2 680 731 95230016 95230067 6.150000e-08 69.4
16 TraesCS7A01G191800 chr5D 79.504 766 137 17 2682 3436 403565135 403564379 8.450000e-146 527.0
17 TraesCS7A01G191800 chr6A 79.363 722 118 22 2682 3394 569718399 569717700 2.400000e-131 479.0
18 TraesCS7A01G191800 chr6A 75.549 319 75 3 2682 2999 271015518 271015202 1.650000e-33 154.0
19 TraesCS7A01G191800 chr6A 97.674 43 0 1 687 729 417623113 417623072 4.760000e-09 73.1
20 TraesCS7A01G191800 chr4D 77.966 767 142 22 2682 3436 231193367 231194118 4.040000e-124 455.0
21 TraesCS7A01G191800 chr4D 76.240 766 141 26 2682 3436 507117105 507116370 5.420000e-98 368.0
22 TraesCS7A01G191800 chr4D 88.235 68 3 1 666 728 424579674 424579607 3.680000e-10 76.8
23 TraesCS7A01G191800 chr3A 77.632 760 149 16 2682 3436 491177315 491178058 3.150000e-120 442.0
24 TraesCS7A01G191800 chr4B 76.410 585 123 13 2804 3382 333290371 333289796 5.570000e-78 302.0
25 TraesCS7A01G191800 chr4B 76.056 284 60 7 2682 2960 468402048 468401768 1.290000e-29 141.0
26 TraesCS7A01G191800 chr1D 77.910 335 64 10 2679 3007 403835712 403835382 2.090000e-47 200.0
27 TraesCS7A01G191800 chr1D 90.476 63 5 1 666 728 486720852 486720791 7.900000e-12 82.4
28 TraesCS7A01G191800 chr4A 88.608 79 9 0 554 632 543751420 543751498 2.820000e-16 97.1
29 TraesCS7A01G191800 chr3B 87.179 78 9 1 571 648 603491631 603491555 1.700000e-13 87.9
30 TraesCS7A01G191800 chr3B 86.111 72 3 2 665 729 43181582 43181511 1.710000e-08 71.3
31 TraesCS7A01G191800 chr3B 85.714 63 9 0 666 728 470514724 470514662 2.210000e-07 67.6
32 TraesCS7A01G191800 chr6B 91.837 49 3 1 687 735 12535640 12535593 2.210000e-07 67.6
33 TraesCS7A01G191800 chr1A 93.182 44 3 0 2944 2987 585782996 585782953 7.960000e-07 65.8
34 TraesCS7A01G191800 chr2D 90.196 51 2 3 678 728 627332901 627332948 2.860000e-06 63.9


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 TraesCS7A01G191800 chr7A 149600462 149603897 3435 False 6346 6346 100.000000 1 3436 1 chr7A.!!$F1 3435
1 TraesCS7A01G191800 chr7D 148296789 148298925 2136 False 3264 3264 94.112000 728 2893 1 chr7D.!!$F2 2165
2 TraesCS7A01G191800 chr7D 149526132 149528673 2541 True 1417 1941 86.195000 751 3435 2 chr7D.!!$R4 2684
3 TraesCS7A01G191800 chr7D 148277842 148278479 637 False 880 880 91.628000 1 639 1 chr7D.!!$F1 638
4 TraesCS7A01G191800 chr7D 399423034 399423680 646 True 726 726 87.176000 4 647 1 chr7D.!!$R2 643
5 TraesCS7A01G191800 chr7D 149519740 149520382 642 True 713 713 86.708000 2790 3435 1 chr7D.!!$R1 645
6 TraesCS7A01G191800 chr7D 478025739 478026252 513 False 355 355 79.383000 2925 3436 1 chr7D.!!$F4 511
7 TraesCS7A01G191800 chr7B 111367508 111371646 4138 False 1127 2074 92.103333 803 3436 3 chr7B.!!$F2 2633
8 TraesCS7A01G191800 chr5D 403564379 403565135 756 True 527 527 79.504000 2682 3436 1 chr5D.!!$R1 754
9 TraesCS7A01G191800 chr6A 569717700 569718399 699 True 479 479 79.363000 2682 3394 1 chr6A.!!$R3 712
10 TraesCS7A01G191800 chr4D 231193367 231194118 751 False 455 455 77.966000 2682 3436 1 chr4D.!!$F1 754
11 TraesCS7A01G191800 chr4D 507116370 507117105 735 True 368 368 76.240000 2682 3436 1 chr4D.!!$R2 754
12 TraesCS7A01G191800 chr3A 491177315 491178058 743 False 442 442 77.632000 2682 3436 1 chr3A.!!$F1 754
13 TraesCS7A01G191800 chr4B 333289796 333290371 575 True 302 302 76.410000 2804 3382 1 chr4B.!!$R1 578

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
565 578 0.107165 GAATCCCAGCTAAACGCCCT 60.107 55.0 0.0 0.0 40.39 5.19 F
566 579 0.331616 AATCCCAGCTAAACGCCCTT 59.668 50.0 0.0 0.0 40.39 3.95 F
1175 1192 0.387622 GCACATCGCACAAGCACAAT 60.388 50.0 0.0 0.0 42.27 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2033 2089 0.465460 TTGACACCACCACCAGCTTC 60.465 55.000 0.00 0.0 0.00 3.86 R
2393 2449 2.157668 GTGCACCAGTATGTCGTTGAAG 59.842 50.000 5.22 0.0 0.00 3.02 R
2989 4617 1.539065 CCGTGCTTCGATGGCTCTAAT 60.539 52.381 11.24 0.0 42.86 1.73 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
211 213 4.515567 AGTCGTGCTATCTATCGTCATGAA 59.484 41.667 0.00 0.00 0.00 2.57
225 227 1.073025 ATGAACAGCGTTCAGGGCA 59.927 52.632 22.11 6.35 0.00 5.36
248 250 2.492090 CTAGCTGCGGTCGCTCTT 59.508 61.111 16.36 4.45 42.51 2.85
273 275 1.448013 GTCACTCTGGGTTAGCGCC 60.448 63.158 2.29 0.00 0.00 6.53
290 293 2.288518 GCGCCTTTATTTTGTCACCCAA 60.289 45.455 0.00 0.00 0.00 4.12
310 313 4.734854 CCAATTATTTTCCATCGCGAGTTG 59.265 41.667 16.66 9.07 0.00 3.16
458 471 7.042797 AGAAAAGAAAAATTAGAGCAGCACA 57.957 32.000 0.00 0.00 0.00 4.57
485 498 3.316029 GGTAATGGGCCGACCTGA 58.684 61.111 13.34 0.00 41.11 3.86
486 499 1.837090 GGTAATGGGCCGACCTGAT 59.163 57.895 13.34 0.00 41.11 2.90
487 500 0.182775 GGTAATGGGCCGACCTGATT 59.817 55.000 13.34 2.75 41.11 2.57
488 501 1.409661 GGTAATGGGCCGACCTGATTT 60.410 52.381 13.34 0.00 41.11 2.17
489 502 1.947456 GTAATGGGCCGACCTGATTTC 59.053 52.381 0.00 0.00 41.11 2.17
490 503 0.748005 AATGGGCCGACCTGATTTCG 60.748 55.000 0.00 0.00 41.11 3.46
491 504 1.910580 ATGGGCCGACCTGATTTCGT 61.911 55.000 0.00 0.00 41.11 3.85
492 505 1.814169 GGGCCGACCTGATTTCGTC 60.814 63.158 0.00 0.00 34.56 4.20
493 506 1.814169 GGCCGACCTGATTTCGTCC 60.814 63.158 0.00 0.00 34.56 4.79
494 507 1.218316 GCCGACCTGATTTCGTCCT 59.782 57.895 0.00 0.00 34.56 3.85
495 508 0.458669 GCCGACCTGATTTCGTCCTA 59.541 55.000 0.00 0.00 34.56 2.94
496 509 1.068741 GCCGACCTGATTTCGTCCTAT 59.931 52.381 0.00 0.00 34.56 2.57
497 510 2.483188 GCCGACCTGATTTCGTCCTATT 60.483 50.000 0.00 0.00 34.56 1.73
498 511 3.123804 CCGACCTGATTTCGTCCTATTG 58.876 50.000 0.00 0.00 34.56 1.90
499 512 3.430374 CCGACCTGATTTCGTCCTATTGT 60.430 47.826 0.00 0.00 34.56 2.71
500 513 3.797256 CGACCTGATTTCGTCCTATTGTC 59.203 47.826 0.00 0.00 0.00 3.18
501 514 4.120589 GACCTGATTTCGTCCTATTGTCC 58.879 47.826 0.00 0.00 0.00 4.02
502 515 3.517901 ACCTGATTTCGTCCTATTGTCCA 59.482 43.478 0.00 0.00 0.00 4.02
503 516 4.122776 CCTGATTTCGTCCTATTGTCCAG 58.877 47.826 0.00 0.00 0.00 3.86
504 517 3.531538 TGATTTCGTCCTATTGTCCAGC 58.468 45.455 0.00 0.00 0.00 4.85
505 518 2.396590 TTTCGTCCTATTGTCCAGCC 57.603 50.000 0.00 0.00 0.00 4.85
506 519 1.271856 TTCGTCCTATTGTCCAGCCA 58.728 50.000 0.00 0.00 0.00 4.75
507 520 0.824109 TCGTCCTATTGTCCAGCCAG 59.176 55.000 0.00 0.00 0.00 4.85
508 521 0.811616 CGTCCTATTGTCCAGCCAGC 60.812 60.000 0.00 0.00 0.00 4.85
509 522 0.464554 GTCCTATTGTCCAGCCAGCC 60.465 60.000 0.00 0.00 0.00 4.85
510 523 1.524621 CCTATTGTCCAGCCAGCCG 60.525 63.158 0.00 0.00 0.00 5.52
511 524 1.524621 CTATTGTCCAGCCAGCCGG 60.525 63.158 0.00 0.00 0.00 6.13
512 525 2.257409 CTATTGTCCAGCCAGCCGGT 62.257 60.000 1.90 0.00 33.28 5.28
513 526 2.252072 TATTGTCCAGCCAGCCGGTC 62.252 60.000 1.90 0.00 33.28 4.79
515 528 4.329545 GTCCAGCCAGCCGGTCAA 62.330 66.667 1.90 0.00 33.28 3.18
516 529 4.329545 TCCAGCCAGCCGGTCAAC 62.330 66.667 1.90 0.00 33.28 3.18
517 530 4.641645 CCAGCCAGCCGGTCAACA 62.642 66.667 1.90 0.00 33.28 3.33
518 531 2.594303 CAGCCAGCCGGTCAACAA 60.594 61.111 1.90 0.00 33.28 2.83
519 532 1.973281 CAGCCAGCCGGTCAACAAT 60.973 57.895 1.90 0.00 33.28 2.71
520 533 1.675641 AGCCAGCCGGTCAACAATC 60.676 57.895 1.90 0.00 33.28 2.67
521 534 1.675641 GCCAGCCGGTCAACAATCT 60.676 57.895 1.90 0.00 33.28 2.40
522 535 1.244019 GCCAGCCGGTCAACAATCTT 61.244 55.000 1.90 0.00 33.28 2.40
523 536 1.948611 GCCAGCCGGTCAACAATCTTA 60.949 52.381 1.90 0.00 33.28 2.10
524 537 2.009774 CCAGCCGGTCAACAATCTTAG 58.990 52.381 1.90 0.00 0.00 2.18
525 538 2.009774 CAGCCGGTCAACAATCTTAGG 58.990 52.381 1.90 0.00 0.00 2.69
526 539 1.065418 AGCCGGTCAACAATCTTAGGG 60.065 52.381 1.90 0.00 0.00 3.53
527 540 1.339727 GCCGGTCAACAATCTTAGGGT 60.340 52.381 1.90 0.00 0.00 4.34
528 541 2.878526 GCCGGTCAACAATCTTAGGGTT 60.879 50.000 1.90 0.00 0.00 4.11
529 542 3.418047 CCGGTCAACAATCTTAGGGTTT 58.582 45.455 0.00 0.00 0.00 3.27
530 543 3.190535 CCGGTCAACAATCTTAGGGTTTG 59.809 47.826 0.00 0.00 0.00 2.93
531 544 4.069304 CGGTCAACAATCTTAGGGTTTGA 58.931 43.478 0.00 0.00 0.00 2.69
532 545 4.083484 CGGTCAACAATCTTAGGGTTTGAC 60.083 45.833 4.10 4.10 0.00 3.18
533 546 5.070685 GGTCAACAATCTTAGGGTTTGACT 58.929 41.667 11.00 0.00 0.00 3.41
534 547 5.535030 GGTCAACAATCTTAGGGTTTGACTT 59.465 40.000 11.00 0.00 0.00 3.01
535 548 6.438763 GTCAACAATCTTAGGGTTTGACTTG 58.561 40.000 5.27 0.00 0.00 3.16
536 549 5.009610 TCAACAATCTTAGGGTTTGACTTGC 59.990 40.000 0.00 0.00 0.00 4.01
537 550 3.826729 ACAATCTTAGGGTTTGACTTGCC 59.173 43.478 0.00 0.00 0.00 4.52
538 551 3.806949 ATCTTAGGGTTTGACTTGCCA 57.193 42.857 0.00 0.00 0.00 4.92
539 552 2.858745 TCTTAGGGTTTGACTTGCCAC 58.141 47.619 0.00 0.00 0.00 5.01
540 553 2.173782 TCTTAGGGTTTGACTTGCCACA 59.826 45.455 0.00 0.00 0.00 4.17
541 554 2.969821 TAGGGTTTGACTTGCCACAT 57.030 45.000 0.00 0.00 0.00 3.21
542 555 1.620822 AGGGTTTGACTTGCCACATC 58.379 50.000 0.00 0.00 0.00 3.06
543 556 1.133513 AGGGTTTGACTTGCCACATCA 60.134 47.619 0.00 0.00 0.00 3.07
544 557 1.686052 GGGTTTGACTTGCCACATCAA 59.314 47.619 0.00 0.00 0.00 2.57
545 558 2.299867 GGGTTTGACTTGCCACATCAAT 59.700 45.455 0.00 0.00 32.61 2.57
546 559 3.319755 GGTTTGACTTGCCACATCAATG 58.680 45.455 0.00 0.00 32.61 2.82
547 560 3.005684 GGTTTGACTTGCCACATCAATGA 59.994 43.478 0.00 0.00 32.61 2.57
548 561 4.501229 GGTTTGACTTGCCACATCAATGAA 60.501 41.667 0.00 0.00 32.61 2.57
549 562 5.232463 GTTTGACTTGCCACATCAATGAAT 58.768 37.500 0.00 0.00 32.61 2.57
550 563 4.707030 TGACTTGCCACATCAATGAATC 57.293 40.909 0.00 0.00 0.00 2.52
551 564 3.444742 TGACTTGCCACATCAATGAATCC 59.555 43.478 0.00 0.00 0.00 3.01
552 565 2.762327 ACTTGCCACATCAATGAATCCC 59.238 45.455 0.00 0.00 0.00 3.85
553 566 2.528673 TGCCACATCAATGAATCCCA 57.471 45.000 0.00 0.00 0.00 4.37
554 567 2.380941 TGCCACATCAATGAATCCCAG 58.619 47.619 0.00 0.00 0.00 4.45
555 568 1.068127 GCCACATCAATGAATCCCAGC 59.932 52.381 0.00 0.00 0.00 4.85
556 569 2.662866 CCACATCAATGAATCCCAGCT 58.337 47.619 0.00 0.00 0.00 4.24
557 570 3.824133 CCACATCAATGAATCCCAGCTA 58.176 45.455 0.00 0.00 0.00 3.32
558 571 4.209538 CCACATCAATGAATCCCAGCTAA 58.790 43.478 0.00 0.00 0.00 3.09
559 572 4.646040 CCACATCAATGAATCCCAGCTAAA 59.354 41.667 0.00 0.00 0.00 1.85
560 573 5.450965 CCACATCAATGAATCCCAGCTAAAC 60.451 44.000 0.00 0.00 0.00 2.01
561 574 4.336433 ACATCAATGAATCCCAGCTAAACG 59.664 41.667 0.00 0.00 0.00 3.60
562 575 2.682856 TCAATGAATCCCAGCTAAACGC 59.317 45.455 0.00 0.00 39.57 4.84
563 576 1.680338 ATGAATCCCAGCTAAACGCC 58.320 50.000 0.00 0.00 40.39 5.68
564 577 0.393808 TGAATCCCAGCTAAACGCCC 60.394 55.000 0.00 0.00 40.39 6.13
565 578 0.107165 GAATCCCAGCTAAACGCCCT 60.107 55.000 0.00 0.00 40.39 5.19
566 579 0.331616 AATCCCAGCTAAACGCCCTT 59.668 50.000 0.00 0.00 40.39 3.95
567 580 1.209621 ATCCCAGCTAAACGCCCTTA 58.790 50.000 0.00 0.00 40.39 2.69
568 581 0.985760 TCCCAGCTAAACGCCCTTAA 59.014 50.000 0.00 0.00 40.39 1.85
569 582 1.351683 TCCCAGCTAAACGCCCTTAAA 59.648 47.619 0.00 0.00 40.39 1.52
570 583 1.743394 CCCAGCTAAACGCCCTTAAAG 59.257 52.381 0.00 0.00 40.39 1.85
571 584 2.433436 CCAGCTAAACGCCCTTAAAGT 58.567 47.619 0.00 0.00 40.39 2.66
572 585 2.817844 CCAGCTAAACGCCCTTAAAGTT 59.182 45.455 0.00 0.00 40.39 2.66
573 586 3.254903 CCAGCTAAACGCCCTTAAAGTTT 59.745 43.478 0.00 0.00 40.39 2.66
574 587 4.456566 CCAGCTAAACGCCCTTAAAGTTTA 59.543 41.667 0.00 0.00 40.39 2.01
575 588 5.048573 CCAGCTAAACGCCCTTAAAGTTTAA 60.049 40.000 7.80 7.80 39.08 1.52
576 589 6.440436 CAGCTAAACGCCCTTAAAGTTTAAA 58.560 36.000 9.28 0.00 39.08 1.52
577 590 6.919115 CAGCTAAACGCCCTTAAAGTTTAAAA 59.081 34.615 9.28 0.00 39.08 1.52
578 591 7.597369 CAGCTAAACGCCCTTAAAGTTTAAAAT 59.403 33.333 9.28 0.00 39.08 1.82
579 592 8.795513 AGCTAAACGCCCTTAAAGTTTAAAATA 58.204 29.630 9.28 0.00 39.08 1.40
580 593 9.069078 GCTAAACGCCCTTAAAGTTTAAAATAG 57.931 33.333 9.28 4.79 39.08 1.73
583 596 7.149569 ACGCCCTTAAAGTTTAAAATAGACC 57.850 36.000 9.28 0.00 0.00 3.85
584 597 6.128200 ACGCCCTTAAAGTTTAAAATAGACCG 60.128 38.462 9.28 7.67 0.00 4.79
585 598 6.092533 CGCCCTTAAAGTTTAAAATAGACCGA 59.907 38.462 9.28 0.00 0.00 4.69
586 599 7.201670 CGCCCTTAAAGTTTAAAATAGACCGAT 60.202 37.037 9.28 0.00 0.00 4.18
587 600 9.112725 GCCCTTAAAGTTTAAAATAGACCGATA 57.887 33.333 9.28 0.00 0.00 2.92
599 612 7.932120 AAATAGACCGATATCAGAAAGTTCG 57.068 36.000 3.12 0.00 0.00 3.95
603 616 3.782046 CCGATATCAGAAAGTTCGGTGT 58.218 45.455 3.12 0.00 43.27 4.16
604 617 3.551890 CCGATATCAGAAAGTTCGGTGTG 59.448 47.826 3.12 0.00 43.27 3.82
605 618 3.000322 CGATATCAGAAAGTTCGGTGTGC 60.000 47.826 3.12 0.00 0.00 4.57
606 619 2.550830 ATCAGAAAGTTCGGTGTGCT 57.449 45.000 0.00 0.00 0.00 4.40
607 620 1.581934 TCAGAAAGTTCGGTGTGCTG 58.418 50.000 0.00 0.00 0.00 4.41
608 621 1.138069 TCAGAAAGTTCGGTGTGCTGA 59.862 47.619 0.00 0.00 0.00 4.26
609 622 2.146342 CAGAAAGTTCGGTGTGCTGAT 58.854 47.619 0.00 0.00 0.00 2.90
610 623 2.549754 CAGAAAGTTCGGTGTGCTGATT 59.450 45.455 0.00 0.00 0.00 2.57
611 624 3.003689 CAGAAAGTTCGGTGTGCTGATTT 59.996 43.478 0.00 0.00 0.00 2.17
612 625 3.632145 AGAAAGTTCGGTGTGCTGATTTT 59.368 39.130 0.00 0.00 0.00 1.82
613 626 3.626028 AAGTTCGGTGTGCTGATTTTC 57.374 42.857 0.00 0.00 0.00 2.29
614 627 1.531149 AGTTCGGTGTGCTGATTTTCG 59.469 47.619 0.00 0.00 0.00 3.46
615 628 1.529438 GTTCGGTGTGCTGATTTTCGA 59.471 47.619 0.00 0.00 0.00 3.71
616 629 1.428448 TCGGTGTGCTGATTTTCGAG 58.572 50.000 0.00 0.00 0.00 4.04
617 630 1.000394 TCGGTGTGCTGATTTTCGAGA 60.000 47.619 0.00 0.00 0.00 4.04
618 631 2.002586 CGGTGTGCTGATTTTCGAGAT 58.997 47.619 0.00 0.00 0.00 2.75
619 632 2.416547 CGGTGTGCTGATTTTCGAGATT 59.583 45.455 0.00 0.00 0.00 2.40
620 633 3.616821 CGGTGTGCTGATTTTCGAGATTA 59.383 43.478 0.00 0.00 0.00 1.75
621 634 4.492570 CGGTGTGCTGATTTTCGAGATTAC 60.493 45.833 0.00 0.00 0.00 1.89
622 635 4.391830 GGTGTGCTGATTTTCGAGATTACA 59.608 41.667 0.00 0.00 0.00 2.41
623 636 5.106712 GGTGTGCTGATTTTCGAGATTACAA 60.107 40.000 0.00 0.00 0.00 2.41
624 637 6.017933 GTGTGCTGATTTTCGAGATTACAAG 58.982 40.000 0.00 0.00 0.00 3.16
625 638 5.700832 TGTGCTGATTTTCGAGATTACAAGT 59.299 36.000 0.00 0.00 0.00 3.16
626 639 6.204688 TGTGCTGATTTTCGAGATTACAAGTT 59.795 34.615 0.00 0.00 0.00 2.66
627 640 7.078228 GTGCTGATTTTCGAGATTACAAGTTT 58.922 34.615 0.00 0.00 0.00 2.66
628 641 8.227791 GTGCTGATTTTCGAGATTACAAGTTTA 58.772 33.333 0.00 0.00 0.00 2.01
629 642 8.443160 TGCTGATTTTCGAGATTACAAGTTTAG 58.557 33.333 0.00 0.00 0.00 1.85
630 643 7.905493 GCTGATTTTCGAGATTACAAGTTTAGG 59.095 37.037 0.00 0.00 0.00 2.69
631 644 8.263940 TGATTTTCGAGATTACAAGTTTAGGG 57.736 34.615 0.00 0.00 0.00 3.53
632 645 7.881232 TGATTTTCGAGATTACAAGTTTAGGGT 59.119 33.333 0.00 0.00 0.00 4.34
633 646 8.631480 ATTTTCGAGATTACAAGTTTAGGGTT 57.369 30.769 0.00 0.00 0.00 4.11
634 647 8.454570 TTTTCGAGATTACAAGTTTAGGGTTT 57.545 30.769 0.00 0.00 0.00 3.27
635 648 7.429636 TTCGAGATTACAAGTTTAGGGTTTG 57.570 36.000 0.00 0.00 0.00 2.93
636 649 6.527423 TCGAGATTACAAGTTTAGGGTTTGT 58.473 36.000 0.00 0.00 38.48 2.83
637 650 6.993902 TCGAGATTACAAGTTTAGGGTTTGTT 59.006 34.615 0.00 0.00 36.52 2.83
638 651 7.499895 TCGAGATTACAAGTTTAGGGTTTGTTT 59.500 33.333 0.00 0.00 36.52 2.83
639 652 8.132995 CGAGATTACAAGTTTAGGGTTTGTTTT 58.867 33.333 0.00 0.00 36.52 2.43
640 653 9.244799 GAGATTACAAGTTTAGGGTTTGTTTTG 57.755 33.333 0.00 0.00 36.52 2.44
641 654 8.201464 AGATTACAAGTTTAGGGTTTGTTTTGG 58.799 33.333 0.00 0.00 36.52 3.28
642 655 7.477945 TTACAAGTTTAGGGTTTGTTTTGGA 57.522 32.000 0.00 0.00 36.52 3.53
643 656 5.726397 ACAAGTTTAGGGTTTGTTTTGGAC 58.274 37.500 0.00 0.00 31.38 4.02
644 657 5.482526 ACAAGTTTAGGGTTTGTTTTGGACT 59.517 36.000 0.00 0.00 31.38 3.85
645 658 6.014070 ACAAGTTTAGGGTTTGTTTTGGACTT 60.014 34.615 0.00 0.00 31.38 3.01
646 659 6.614694 AGTTTAGGGTTTGTTTTGGACTTT 57.385 33.333 0.00 0.00 0.00 2.66
647 660 7.011499 AGTTTAGGGTTTGTTTTGGACTTTT 57.989 32.000 0.00 0.00 0.00 2.27
648 661 7.455058 AGTTTAGGGTTTGTTTTGGACTTTTT 58.545 30.769 0.00 0.00 0.00 1.94
674 687 8.575649 TTCATTCTATTTTTGTTACTCCCTCC 57.424 34.615 0.00 0.00 0.00 4.30
675 688 6.821665 TCATTCTATTTTTGTTACTCCCTCCG 59.178 38.462 0.00 0.00 0.00 4.63
676 689 5.750352 TCTATTTTTGTTACTCCCTCCGT 57.250 39.130 0.00 0.00 0.00 4.69
677 690 6.855763 TCTATTTTTGTTACTCCCTCCGTA 57.144 37.500 0.00 0.00 0.00 4.02
678 691 7.243604 TCTATTTTTGTTACTCCCTCCGTAA 57.756 36.000 0.00 0.00 0.00 3.18
679 692 7.678837 TCTATTTTTGTTACTCCCTCCGTAAA 58.321 34.615 0.00 0.00 0.00 2.01
680 693 8.323567 TCTATTTTTGTTACTCCCTCCGTAAAT 58.676 33.333 0.00 0.00 0.00 1.40
681 694 7.770366 ATTTTTGTTACTCCCTCCGTAAATT 57.230 32.000 0.00 0.00 0.00 1.82
682 695 8.866970 ATTTTTGTTACTCCCTCCGTAAATTA 57.133 30.769 0.00 0.00 0.00 1.40
683 696 8.688747 TTTTTGTTACTCCCTCCGTAAATTAA 57.311 30.769 0.00 0.00 0.00 1.40
684 697 8.866970 TTTTGTTACTCCCTCCGTAAATTAAT 57.133 30.769 0.00 0.00 0.00 1.40
685 698 9.956640 TTTTGTTACTCCCTCCGTAAATTAATA 57.043 29.630 0.00 0.00 0.00 0.98
692 705 9.151177 ACTCCCTCCGTAAATTAATATAGTTGA 57.849 33.333 0.00 0.00 0.00 3.18
788 801 8.388103 CGGTATCAAGTAGTATTTCTTGGTTTG 58.612 37.037 5.06 0.00 40.67 2.93
827 840 1.403679 TGGCGTTGACTCCTTGTTTTG 59.596 47.619 0.00 0.00 0.00 2.44
921 936 4.221482 TCTCTACATGCATTCGCTCCATAT 59.779 41.667 0.00 0.00 39.64 1.78
923 938 5.654497 TCTACATGCATTCGCTCCATATAG 58.346 41.667 0.00 0.00 39.64 1.31
963 980 1.300697 CGGCCGGTACCAATCTAGC 60.301 63.158 20.10 4.21 0.00 3.42
964 981 1.745320 CGGCCGGTACCAATCTAGCT 61.745 60.000 20.10 0.00 0.00 3.32
965 982 1.335145 GGCCGGTACCAATCTAGCTA 58.665 55.000 13.54 0.00 0.00 3.32
966 983 1.272769 GGCCGGTACCAATCTAGCTAG 59.727 57.143 15.01 15.01 0.00 3.42
991 1008 5.978814 AGTACAAGGCTTCATATCGTTCTT 58.021 37.500 0.00 0.00 0.00 2.52
992 1009 6.043411 AGTACAAGGCTTCATATCGTTCTTC 58.957 40.000 0.00 0.00 0.00 2.87
993 1010 5.091261 ACAAGGCTTCATATCGTTCTTCT 57.909 39.130 0.00 0.00 0.00 2.85
996 1013 3.632604 AGGCTTCATATCGTTCTTCTCGA 59.367 43.478 0.00 0.00 41.45 4.04
1060 1077 2.563179 TCCTTCCTCAAGAACTTCCTCG 59.437 50.000 0.00 0.00 0.00 4.63
1122 1139 3.008375 TCCACTCCACTCCATCTTCTTTG 59.992 47.826 0.00 0.00 0.00 2.77
1139 1156 7.220030 TCTTCTTTGCTCTCATATACCAATCC 58.780 38.462 0.00 0.00 0.00 3.01
1140 1157 6.753913 TCTTTGCTCTCATATACCAATCCT 57.246 37.500 0.00 0.00 0.00 3.24
1141 1158 6.528321 TCTTTGCTCTCATATACCAATCCTG 58.472 40.000 0.00 0.00 0.00 3.86
1145 1162 4.999950 GCTCTCATATACCAATCCTGTTGG 59.000 45.833 5.32 5.32 44.91 3.77
1175 1192 0.387622 GCACATCGCACAAGCACAAT 60.388 50.000 0.00 0.00 42.27 2.71
1176 1193 1.931709 GCACATCGCACAAGCACAATT 60.932 47.619 0.00 0.00 42.27 2.32
1177 1194 2.668001 GCACATCGCACAAGCACAATTA 60.668 45.455 0.00 0.00 42.27 1.40
1221 1245 5.831525 TCCTCAAGGTATATAAGCAACTCGA 59.168 40.000 0.00 0.00 36.34 4.04
1222 1246 6.493802 TCCTCAAGGTATATAAGCAACTCGAT 59.506 38.462 0.00 0.00 36.34 3.59
1223 1247 6.809196 CCTCAAGGTATATAAGCAACTCGATC 59.191 42.308 0.00 0.00 0.00 3.69
1224 1248 6.379386 TCAAGGTATATAAGCAACTCGATCG 58.621 40.000 9.36 9.36 0.00 3.69
1225 1249 5.961396 AGGTATATAAGCAACTCGATCGT 57.039 39.130 15.94 0.00 0.00 3.73
1226 1250 5.940595 AGGTATATAAGCAACTCGATCGTC 58.059 41.667 15.94 0.87 0.00 4.20
1227 1251 4.787083 GGTATATAAGCAACTCGATCGTCG 59.213 45.833 15.94 10.12 42.10 5.12
1242 1266 1.071041 TCGTCGATCGTACACGCATAG 60.071 52.381 19.44 2.82 40.80 2.23
1301 1325 4.160814 AGAAAATGGCTTGATTGCATGCTA 59.839 37.500 20.33 12.49 42.84 3.49
1302 1326 3.447918 AATGGCTTGATTGCATGCTAC 57.552 42.857 20.33 10.49 42.84 3.58
1303 1327 1.105457 TGGCTTGATTGCATGCTACC 58.895 50.000 20.33 8.92 42.84 3.18
1304 1328 1.341285 TGGCTTGATTGCATGCTACCT 60.341 47.619 20.33 0.00 42.84 3.08
1385 1441 3.434319 GTGTGGGATGGCAGCGTG 61.434 66.667 0.00 0.00 0.00 5.34
1739 1795 1.445582 GTACTGGTCGCCGTTCCTG 60.446 63.158 6.48 6.48 0.00 3.86
1844 1900 2.509336 GTGGAGGCGATGGACGTG 60.509 66.667 0.00 0.00 44.60 4.49
1907 1963 2.154567 ACTACGACAAGGGGCAGATA 57.845 50.000 0.00 0.00 0.00 1.98
2556 2806 3.306206 CGGCCACGTATGCTTTTTC 57.694 52.632 2.24 0.00 34.81 2.29
2624 4246 6.707440 TTTTTGGCATCAGTCACTTCTTTA 57.293 33.333 0.00 0.00 0.00 1.85
2635 4257 4.098960 AGTCACTTCTTTACTTGTCCGTCA 59.901 41.667 0.00 0.00 0.00 4.35
2640 4262 3.986277 TCTTTACTTGTCCGTCAGTTCC 58.014 45.455 0.00 0.00 0.00 3.62
2642 4264 4.039973 TCTTTACTTGTCCGTCAGTTCCAT 59.960 41.667 0.00 0.00 0.00 3.41
2652 4274 2.418197 CGTCAGTTCCATATCCAACCGT 60.418 50.000 0.00 0.00 0.00 4.83
2680 4302 3.195825 CGTCATCTTCCTCCTACCAACTT 59.804 47.826 0.00 0.00 0.00 2.66
2703 4325 2.288702 TGACATCAAATTTTGGCACGGG 60.289 45.455 9.18 0.00 0.00 5.28
2719 4341 4.163552 GCACGGGCAAGAACTTAATTAAC 58.836 43.478 3.77 0.00 40.72 2.01
2769 4391 6.899114 ACATGAAAAAGTTCCGTATTGTCTC 58.101 36.000 0.00 0.00 32.28 3.36
2870 4495 6.567687 TTTCATATTCATGTGTTGTTCGGT 57.432 33.333 0.00 0.00 33.57 4.69
2886 4511 4.520874 TGTTCGGTCAATTAAGCATCCAAA 59.479 37.500 0.00 0.00 0.00 3.28
2936 4564 1.347707 AGGATTGACTTCGCCTTGTCA 59.652 47.619 0.00 0.00 40.86 3.58
2951 4579 4.385748 GCCTTGTCAAAATGGTCGATTTTC 59.614 41.667 2.84 0.00 41.50 2.29
2989 4617 4.452795 TCAATCCGAAGTCGTATGCAAAAA 59.547 37.500 0.00 0.00 37.74 1.94
3005 4633 3.793492 GCAAAAATTAGAGCCATCGAAGC 59.207 43.478 2.71 2.71 0.00 3.86
3069 4698 9.025020 CAGACACACATATAGTTGATGTCTAAC 57.975 37.037 13.11 0.00 40.89 2.34
3268 4898 6.497259 TGTTGTCTCAGACTTACCTAAATCCT 59.503 38.462 6.33 0.00 33.15 3.24
3406 5040 7.239763 TGAACAATCATCTACCACTTCTACA 57.760 36.000 0.00 0.00 0.00 2.74
3414 5049 6.818644 TCATCTACCACTTCTACATTTGCTTC 59.181 38.462 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 54 8.862074 ACGGACAGTTTTTAAAAATGTAAACAC 58.138 29.630 20.76 9.92 33.94 3.32
211 213 1.893808 CACTTGCCCTGAACGCTGT 60.894 57.895 0.00 0.00 0.00 4.40
225 227 2.266055 GACCGCAGCTAGCCACTT 59.734 61.111 12.13 0.00 41.38 3.16
290 293 6.046593 TCTACAACTCGCGATGGAAAATAAT 58.953 36.000 10.36 0.00 0.00 1.28
310 313 4.570772 TGCACAAAGTCACTTGTCTTCTAC 59.429 41.667 0.00 0.00 37.43 2.59
458 471 1.373590 GCCCATTACCGCAATCGTGT 61.374 55.000 0.00 0.00 0.00 4.49
479 492 4.120589 GGACAATAGGACGAAATCAGGTC 58.879 47.826 0.00 0.00 0.00 3.85
480 493 3.517901 TGGACAATAGGACGAAATCAGGT 59.482 43.478 0.00 0.00 0.00 4.00
483 496 3.531538 GCTGGACAATAGGACGAAATCA 58.468 45.455 0.00 0.00 0.00 2.57
484 497 2.872858 GGCTGGACAATAGGACGAAATC 59.127 50.000 0.00 0.00 0.00 2.17
485 498 2.238646 TGGCTGGACAATAGGACGAAAT 59.761 45.455 0.00 0.00 0.00 2.17
486 499 1.626321 TGGCTGGACAATAGGACGAAA 59.374 47.619 0.00 0.00 0.00 3.46
487 500 1.207089 CTGGCTGGACAATAGGACGAA 59.793 52.381 0.00 0.00 0.00 3.85
488 501 0.824109 CTGGCTGGACAATAGGACGA 59.176 55.000 0.00 0.00 0.00 4.20
489 502 0.811616 GCTGGCTGGACAATAGGACG 60.812 60.000 0.00 0.00 0.00 4.79
490 503 0.464554 GGCTGGCTGGACAATAGGAC 60.465 60.000 0.00 0.00 0.00 3.85
491 504 1.915228 GGCTGGCTGGACAATAGGA 59.085 57.895 0.00 0.00 0.00 2.94
492 505 1.524621 CGGCTGGCTGGACAATAGG 60.525 63.158 0.00 0.00 0.00 2.57
493 506 1.524621 CCGGCTGGCTGGACAATAG 60.525 63.158 14.76 0.00 45.10 1.73
494 507 2.252072 GACCGGCTGGCTGGACAATA 62.252 60.000 25.13 0.00 45.10 1.90
495 508 3.628646 GACCGGCTGGCTGGACAAT 62.629 63.158 25.13 4.29 45.10 2.71
496 509 4.329545 GACCGGCTGGCTGGACAA 62.330 66.667 25.13 0.00 45.10 3.18
498 511 4.329545 TTGACCGGCTGGCTGGAC 62.330 66.667 25.13 19.40 45.10 4.02
499 512 4.329545 GTTGACCGGCTGGCTGGA 62.330 66.667 25.13 2.67 45.10 3.86
501 514 1.926511 GATTGTTGACCGGCTGGCTG 61.927 60.000 12.89 0.00 39.70 4.85
502 515 1.675641 GATTGTTGACCGGCTGGCT 60.676 57.895 12.89 0.00 39.70 4.75
503 516 1.244019 AAGATTGTTGACCGGCTGGC 61.244 55.000 12.89 5.16 39.70 4.85
504 517 2.009774 CTAAGATTGTTGACCGGCTGG 58.990 52.381 11.02 11.02 42.84 4.85
505 518 2.009774 CCTAAGATTGTTGACCGGCTG 58.990 52.381 0.00 0.00 0.00 4.85
506 519 1.065418 CCCTAAGATTGTTGACCGGCT 60.065 52.381 0.00 0.00 0.00 5.52
507 520 1.339727 ACCCTAAGATTGTTGACCGGC 60.340 52.381 0.00 0.00 0.00 6.13
508 521 2.781681 ACCCTAAGATTGTTGACCGG 57.218 50.000 0.00 0.00 0.00 5.28
509 522 4.069304 TCAAACCCTAAGATTGTTGACCG 58.931 43.478 0.00 0.00 0.00 4.79
510 523 5.070685 AGTCAAACCCTAAGATTGTTGACC 58.929 41.667 9.95 0.00 0.00 4.02
511 524 6.438763 CAAGTCAAACCCTAAGATTGTTGAC 58.561 40.000 6.29 6.29 0.00 3.18
512 525 5.009610 GCAAGTCAAACCCTAAGATTGTTGA 59.990 40.000 0.00 0.00 0.00 3.18
513 526 5.222631 GCAAGTCAAACCCTAAGATTGTTG 58.777 41.667 0.00 0.00 0.00 3.33
514 527 4.280929 GGCAAGTCAAACCCTAAGATTGTT 59.719 41.667 0.00 0.00 0.00 2.83
515 528 3.826729 GGCAAGTCAAACCCTAAGATTGT 59.173 43.478 0.00 0.00 0.00 2.71
516 529 3.826157 TGGCAAGTCAAACCCTAAGATTG 59.174 43.478 0.00 0.00 0.00 2.67
517 530 3.826729 GTGGCAAGTCAAACCCTAAGATT 59.173 43.478 0.00 0.00 0.00 2.40
518 531 3.181434 TGTGGCAAGTCAAACCCTAAGAT 60.181 43.478 0.00 0.00 0.00 2.40
519 532 2.173782 TGTGGCAAGTCAAACCCTAAGA 59.826 45.455 0.00 0.00 0.00 2.10
520 533 2.582052 TGTGGCAAGTCAAACCCTAAG 58.418 47.619 0.00 0.00 0.00 2.18
521 534 2.738587 TGTGGCAAGTCAAACCCTAA 57.261 45.000 0.00 0.00 0.00 2.69
522 535 2.107378 TGATGTGGCAAGTCAAACCCTA 59.893 45.455 0.00 0.00 0.00 3.53
523 536 1.133513 TGATGTGGCAAGTCAAACCCT 60.134 47.619 0.00 0.00 0.00 4.34
524 537 1.327303 TGATGTGGCAAGTCAAACCC 58.673 50.000 0.00 0.00 0.00 4.11
525 538 3.005684 TCATTGATGTGGCAAGTCAAACC 59.994 43.478 16.57 0.00 35.70 3.27
526 539 4.241590 TCATTGATGTGGCAAGTCAAAC 57.758 40.909 16.57 0.28 35.70 2.93
527 540 4.933505 TTCATTGATGTGGCAAGTCAAA 57.066 36.364 16.57 2.73 35.70 2.69
528 541 4.082081 GGATTCATTGATGTGGCAAGTCAA 60.082 41.667 15.41 15.41 36.42 3.18
529 542 3.444742 GGATTCATTGATGTGGCAAGTCA 59.555 43.478 0.00 0.00 0.00 3.41
530 543 3.181483 GGGATTCATTGATGTGGCAAGTC 60.181 47.826 0.00 0.00 0.00 3.01
531 544 2.762327 GGGATTCATTGATGTGGCAAGT 59.238 45.455 0.00 0.00 0.00 3.16
532 545 2.761767 TGGGATTCATTGATGTGGCAAG 59.238 45.455 0.00 0.00 0.00 4.01
533 546 2.761767 CTGGGATTCATTGATGTGGCAA 59.238 45.455 0.00 0.00 0.00 4.52
534 547 2.380941 CTGGGATTCATTGATGTGGCA 58.619 47.619 0.00 0.00 0.00 4.92
535 548 1.068127 GCTGGGATTCATTGATGTGGC 59.932 52.381 0.00 0.00 0.00 5.01
536 549 2.662866 AGCTGGGATTCATTGATGTGG 58.337 47.619 0.00 0.00 0.00 4.17
537 550 5.585390 GTTTAGCTGGGATTCATTGATGTG 58.415 41.667 0.00 0.00 0.00 3.21
538 551 4.336433 CGTTTAGCTGGGATTCATTGATGT 59.664 41.667 0.00 0.00 0.00 3.06
539 552 4.790766 GCGTTTAGCTGGGATTCATTGATG 60.791 45.833 0.00 0.00 44.04 3.07
540 553 3.316308 GCGTTTAGCTGGGATTCATTGAT 59.684 43.478 0.00 0.00 44.04 2.57
541 554 2.682856 GCGTTTAGCTGGGATTCATTGA 59.317 45.455 0.00 0.00 44.04 2.57
542 555 3.070429 GCGTTTAGCTGGGATTCATTG 57.930 47.619 0.00 0.00 44.04 2.82
557 570 8.084073 GGTCTATTTTAAACTTTAAGGGCGTTT 58.916 33.333 0.00 0.00 35.32 3.60
558 571 7.573656 CGGTCTATTTTAAACTTTAAGGGCGTT 60.574 37.037 0.00 0.00 0.00 4.84
559 572 6.128200 CGGTCTATTTTAAACTTTAAGGGCGT 60.128 38.462 0.00 0.00 0.00 5.68
560 573 6.092533 TCGGTCTATTTTAAACTTTAAGGGCG 59.907 38.462 0.00 0.00 0.00 6.13
561 574 7.381766 TCGGTCTATTTTAAACTTTAAGGGC 57.618 36.000 0.00 0.00 0.00 5.19
573 586 9.459640 CGAACTTTCTGATATCGGTCTATTTTA 57.540 33.333 11.35 0.00 0.00 1.52
574 587 7.438459 CCGAACTTTCTGATATCGGTCTATTTT 59.562 37.037 11.35 0.00 45.96 1.82
575 588 6.924060 CCGAACTTTCTGATATCGGTCTATTT 59.076 38.462 11.35 0.63 45.96 1.40
576 589 6.448006 CCGAACTTTCTGATATCGGTCTATT 58.552 40.000 11.35 3.09 45.96 1.73
577 590 6.015027 CCGAACTTTCTGATATCGGTCTAT 57.985 41.667 11.35 0.00 45.96 1.98
578 591 5.434352 CCGAACTTTCTGATATCGGTCTA 57.566 43.478 11.35 0.00 45.96 2.59
579 592 4.308899 CCGAACTTTCTGATATCGGTCT 57.691 45.455 11.35 0.00 45.96 3.85
583 596 3.000322 GCACACCGAACTTTCTGATATCG 60.000 47.826 0.00 0.00 0.00 2.92
584 597 4.033358 CAGCACACCGAACTTTCTGATATC 59.967 45.833 0.00 0.00 0.00 1.63
585 598 3.935203 CAGCACACCGAACTTTCTGATAT 59.065 43.478 0.00 0.00 0.00 1.63
586 599 3.006430 TCAGCACACCGAACTTTCTGATA 59.994 43.478 0.00 0.00 0.00 2.15
587 600 2.146342 CAGCACACCGAACTTTCTGAT 58.854 47.619 0.00 0.00 0.00 2.90
588 601 1.138069 TCAGCACACCGAACTTTCTGA 59.862 47.619 0.00 0.00 0.00 3.27
589 602 1.581934 TCAGCACACCGAACTTTCTG 58.418 50.000 0.00 0.00 0.00 3.02
590 603 2.550830 ATCAGCACACCGAACTTTCT 57.449 45.000 0.00 0.00 0.00 2.52
591 604 3.626028 AAATCAGCACACCGAACTTTC 57.374 42.857 0.00 0.00 0.00 2.62
592 605 3.548014 CGAAAATCAGCACACCGAACTTT 60.548 43.478 0.00 0.00 0.00 2.66
593 606 2.032030 CGAAAATCAGCACACCGAACTT 60.032 45.455 0.00 0.00 0.00 2.66
594 607 1.531149 CGAAAATCAGCACACCGAACT 59.469 47.619 0.00 0.00 0.00 3.01
595 608 1.529438 TCGAAAATCAGCACACCGAAC 59.471 47.619 0.00 0.00 0.00 3.95
596 609 1.798223 CTCGAAAATCAGCACACCGAA 59.202 47.619 0.00 0.00 0.00 4.30
597 610 1.000394 TCTCGAAAATCAGCACACCGA 60.000 47.619 0.00 0.00 0.00 4.69
598 611 1.428448 TCTCGAAAATCAGCACACCG 58.572 50.000 0.00 0.00 0.00 4.94
599 612 4.391830 TGTAATCTCGAAAATCAGCACACC 59.608 41.667 0.00 0.00 0.00 4.16
600 613 5.530519 TGTAATCTCGAAAATCAGCACAC 57.469 39.130 0.00 0.00 0.00 3.82
601 614 5.700832 ACTTGTAATCTCGAAAATCAGCACA 59.299 36.000 0.00 0.00 0.00 4.57
602 615 6.170675 ACTTGTAATCTCGAAAATCAGCAC 57.829 37.500 0.00 0.00 0.00 4.40
603 616 6.801539 AACTTGTAATCTCGAAAATCAGCA 57.198 33.333 0.00 0.00 0.00 4.41
604 617 7.905493 CCTAAACTTGTAATCTCGAAAATCAGC 59.095 37.037 0.00 0.00 0.00 4.26
605 618 8.391106 CCCTAAACTTGTAATCTCGAAAATCAG 58.609 37.037 0.00 0.00 0.00 2.90
606 619 7.881232 ACCCTAAACTTGTAATCTCGAAAATCA 59.119 33.333 0.00 0.00 0.00 2.57
607 620 8.265165 ACCCTAAACTTGTAATCTCGAAAATC 57.735 34.615 0.00 0.00 0.00 2.17
608 621 8.631480 AACCCTAAACTTGTAATCTCGAAAAT 57.369 30.769 0.00 0.00 0.00 1.82
609 622 8.347035 CAAACCCTAAACTTGTAATCTCGAAAA 58.653 33.333 0.00 0.00 0.00 2.29
610 623 7.499895 ACAAACCCTAAACTTGTAATCTCGAAA 59.500 33.333 0.00 0.00 31.63 3.46
611 624 6.993902 ACAAACCCTAAACTTGTAATCTCGAA 59.006 34.615 0.00 0.00 31.63 3.71
612 625 6.527423 ACAAACCCTAAACTTGTAATCTCGA 58.473 36.000 0.00 0.00 31.63 4.04
613 626 6.796705 ACAAACCCTAAACTTGTAATCTCG 57.203 37.500 0.00 0.00 31.63 4.04
614 627 9.244799 CAAAACAAACCCTAAACTTGTAATCTC 57.755 33.333 0.00 0.00 33.05 2.75
615 628 8.201464 CCAAAACAAACCCTAAACTTGTAATCT 58.799 33.333 0.00 0.00 33.05 2.40
616 629 8.198778 TCCAAAACAAACCCTAAACTTGTAATC 58.801 33.333 0.00 0.00 33.05 1.75
617 630 7.982919 GTCCAAAACAAACCCTAAACTTGTAAT 59.017 33.333 0.00 0.00 33.05 1.89
618 631 7.178805 AGTCCAAAACAAACCCTAAACTTGTAA 59.821 33.333 0.00 0.00 33.05 2.41
619 632 6.664384 AGTCCAAAACAAACCCTAAACTTGTA 59.336 34.615 0.00 0.00 33.05 2.41
620 633 5.482526 AGTCCAAAACAAACCCTAAACTTGT 59.517 36.000 0.00 0.00 34.81 3.16
621 634 5.972935 AGTCCAAAACAAACCCTAAACTTG 58.027 37.500 0.00 0.00 0.00 3.16
622 635 6.614694 AAGTCCAAAACAAACCCTAAACTT 57.385 33.333 0.00 0.00 0.00 2.66
623 636 6.614694 AAAGTCCAAAACAAACCCTAAACT 57.385 33.333 0.00 0.00 0.00 2.66
624 637 7.675962 AAAAAGTCCAAAACAAACCCTAAAC 57.324 32.000 0.00 0.00 0.00 2.01
648 661 9.020731 GGAGGGAGTAACAAAAATAGAATGAAA 57.979 33.333 0.00 0.00 0.00 2.69
649 662 7.335924 CGGAGGGAGTAACAAAAATAGAATGAA 59.664 37.037 0.00 0.00 0.00 2.57
650 663 6.821665 CGGAGGGAGTAACAAAAATAGAATGA 59.178 38.462 0.00 0.00 0.00 2.57
651 664 6.598064 ACGGAGGGAGTAACAAAAATAGAATG 59.402 38.462 0.00 0.00 0.00 2.67
652 665 6.718294 ACGGAGGGAGTAACAAAAATAGAAT 58.282 36.000 0.00 0.00 0.00 2.40
653 666 6.117975 ACGGAGGGAGTAACAAAAATAGAA 57.882 37.500 0.00 0.00 0.00 2.10
654 667 5.750352 ACGGAGGGAGTAACAAAAATAGA 57.250 39.130 0.00 0.00 0.00 1.98
655 668 7.910441 TTTACGGAGGGAGTAACAAAAATAG 57.090 36.000 0.00 0.00 34.25 1.73
656 669 8.866970 AATTTACGGAGGGAGTAACAAAAATA 57.133 30.769 0.00 0.00 34.25 1.40
657 670 7.770366 AATTTACGGAGGGAGTAACAAAAAT 57.230 32.000 0.00 0.00 34.25 1.82
658 671 8.688747 TTAATTTACGGAGGGAGTAACAAAAA 57.311 30.769 0.00 0.00 34.25 1.94
659 672 8.866970 ATTAATTTACGGAGGGAGTAACAAAA 57.133 30.769 0.00 0.00 34.25 2.44
666 679 9.151177 TCAACTATATTAATTTACGGAGGGAGT 57.849 33.333 0.00 0.00 0.00 3.85
719 732 9.968870 CTGTTAGTACTTCTTTTGTACTCTCTT 57.031 33.333 0.00 0.00 44.93 2.85
720 733 9.134055 ACTGTTAGTACTTCTTTTGTACTCTCT 57.866 33.333 0.00 0.00 44.93 3.10
721 734 9.396938 GACTGTTAGTACTTCTTTTGTACTCTC 57.603 37.037 0.00 5.90 44.93 3.20
722 735 8.910944 TGACTGTTAGTACTTCTTTTGTACTCT 58.089 33.333 0.00 0.00 44.93 3.24
723 736 9.525409 TTGACTGTTAGTACTTCTTTTGTACTC 57.475 33.333 0.00 0.00 44.93 2.59
732 745 8.314751 ACTATGCAATTGACTGTTAGTACTTCT 58.685 33.333 10.34 0.00 0.00 2.85
788 801 2.095364 CCAACAATCTGAGAGCTTGCAC 60.095 50.000 0.00 0.00 0.00 4.57
827 840 5.682943 TGAGCGCCAAATTATATGGTTAC 57.317 39.130 2.29 0.00 40.23 2.50
873 888 5.133941 TGGAATCTAGCTAGTACTGGTGAG 58.866 45.833 20.10 4.51 0.00 3.51
921 936 9.350951 CCGGGATGTGTATGTATATAAGATCTA 57.649 37.037 0.00 0.00 0.00 1.98
923 938 6.924060 GCCGGGATGTGTATGTATATAAGATC 59.076 42.308 2.18 0.00 0.00 2.75
963 980 6.740110 ACGATATGAAGCCTTGTACTTCTAG 58.260 40.000 5.24 0.00 43.23 2.43
964 981 6.710597 ACGATATGAAGCCTTGTACTTCTA 57.289 37.500 5.24 0.00 43.23 2.10
965 982 5.599999 ACGATATGAAGCCTTGTACTTCT 57.400 39.130 5.24 0.00 43.23 2.85
966 983 6.043411 AGAACGATATGAAGCCTTGTACTTC 58.957 40.000 0.00 0.00 43.15 3.01
991 1008 2.680805 GCATTCCTCCCATTTGTCGAGA 60.681 50.000 0.00 0.00 0.00 4.04
992 1009 1.672881 GCATTCCTCCCATTTGTCGAG 59.327 52.381 0.00 0.00 0.00 4.04
993 1010 1.004161 TGCATTCCTCCCATTTGTCGA 59.996 47.619 0.00 0.00 0.00 4.20
996 1013 2.893424 ACTTGCATTCCTCCCATTTGT 58.107 42.857 0.00 0.00 0.00 2.83
1081 1098 3.288964 GGAGGAGGATGTAAACGAGAGA 58.711 50.000 0.00 0.00 0.00 3.10
1122 1139 4.999950 CCAACAGGATTGGTATATGAGAGC 59.000 45.833 0.00 0.00 34.92 4.09
1139 1156 2.512485 TGCTTGAAATGCACCAACAG 57.488 45.000 0.00 0.00 42.52 3.16
1175 1192 1.003051 GGTGGGAGAGGAGGGCTAA 59.997 63.158 0.00 0.00 0.00 3.09
1176 1193 1.941820 AGGTGGGAGAGGAGGGCTA 60.942 63.158 0.00 0.00 0.00 3.93
1177 1194 3.288381 AGGTGGGAGAGGAGGGCT 61.288 66.667 0.00 0.00 0.00 5.19
1221 1245 0.306840 ATGCGTGTACGATCGACGAT 59.693 50.000 25.98 10.78 45.77 3.73
1222 1246 0.929615 TATGCGTGTACGATCGACGA 59.070 50.000 25.98 14.24 45.77 4.20
1224 1248 2.220363 TCTCTATGCGTGTACGATCGAC 59.780 50.000 24.34 15.60 43.02 4.20
1225 1249 2.476821 TCTCTATGCGTGTACGATCGA 58.523 47.619 24.34 2.23 43.02 3.59
1226 1250 2.943843 TCTCTATGCGTGTACGATCG 57.056 50.000 14.88 14.88 43.02 3.69
1227 1251 8.762426 TGTATATATCTCTATGCGTGTACGATC 58.238 37.037 8.82 0.00 43.02 3.69
1228 1252 8.658499 TGTATATATCTCTATGCGTGTACGAT 57.342 34.615 8.82 2.14 43.02 3.73
1275 1299 6.041182 AGCATGCAATCAAGCCATTTTCTATA 59.959 34.615 21.98 0.00 37.62 1.31
1301 1325 4.322057 AAAAATGGAGGTCAGCATAGGT 57.678 40.909 0.00 0.00 0.00 3.08
1324 1355 3.797546 GCTGCCAAGCTGCGAGAC 61.798 66.667 2.65 0.00 46.60 3.36
1443 1499 3.723348 GTCCGGCTTGCCGTTGAC 61.723 66.667 28.61 24.42 0.00 3.18
1844 1900 2.029666 CCCGCCGAGATCACCATC 59.970 66.667 0.00 0.00 0.00 3.51
1934 1990 1.872679 GGCGATGTCGGTCTCGTTC 60.873 63.158 4.44 0.00 40.23 3.95
2033 2089 0.465460 TTGACACCACCACCAGCTTC 60.465 55.000 0.00 0.00 0.00 3.86
2117 2173 4.202684 ACCTCTCCCTCATCATACGGATTA 60.203 45.833 0.00 0.00 32.57 1.75
2393 2449 2.157668 GTGCACCAGTATGTCGTTGAAG 59.842 50.000 5.22 0.00 0.00 3.02
2548 2798 4.602340 AGACGTCTCCTAAGAAAAAGCA 57.398 40.909 13.58 0.00 31.93 3.91
2556 2806 6.622549 ACAAGACATTTAGACGTCTCCTAAG 58.377 40.000 23.89 11.95 41.60 2.18
2624 4246 3.118738 GGATATGGAACTGACGGACAAGT 60.119 47.826 0.00 0.00 0.00 3.16
2635 4257 3.008594 TGTCAACGGTTGGATATGGAACT 59.991 43.478 19.91 0.00 0.00 3.01
2652 4274 2.248248 AGGAGGAAGATGACGTGTCAA 58.752 47.619 6.80 0.00 43.58 3.18
2703 4325 5.965922 AGGCCATGTTAATTAAGTTCTTGC 58.034 37.500 5.01 0.00 0.00 4.01
2870 4495 6.041409 TGAGGTTGTTTTGGATGCTTAATTGA 59.959 34.615 0.00 0.00 0.00 2.57
2923 4548 2.293399 GACCATTTTGACAAGGCGAAGT 59.707 45.455 0.00 0.00 0.00 3.01
2951 4579 8.883731 ACTTCGGATTGAGACAACTTTTATATG 58.116 33.333 0.00 0.00 0.00 1.78
2960 4588 2.673833 ACGACTTCGGATTGAGACAAC 58.326 47.619 3.30 0.00 44.95 3.32
2989 4617 1.539065 CCGTGCTTCGATGGCTCTAAT 60.539 52.381 11.24 0.00 42.86 1.73
3069 4698 2.586079 CATCAGTGGCGCTACCCG 60.586 66.667 21.18 12.37 37.83 5.28
3140 4769 5.069516 AGGTGAGCAACTTTCATGTTCAATT 59.930 36.000 0.00 0.00 39.28 2.32
3141 4770 4.586001 AGGTGAGCAACTTTCATGTTCAAT 59.414 37.500 0.00 0.00 39.28 2.57
3224 4854 3.959943 ACAATTCGGTTTTTCGGTCTTG 58.040 40.909 0.00 0.00 0.00 3.02
3225 4855 4.142337 ACAACAATTCGGTTTTTCGGTCTT 60.142 37.500 0.00 0.00 0.00 3.01
3406 5040 8.860780 AAACAAGAGAGAAGATAGAAGCAAAT 57.139 30.769 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.