Multiple sequence alignment - TraesCS7B01G138600

Loading Multiple Alignment...

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 TraesCS7B01G138600 chr7B 100.000 3269 0 0 1 3269 174073424 174070156 0.000000e+00 6037.0
1 TraesCS7B01G138600 chr7D 94.141 1519 67 7 788 2288 222517076 222518590 0.000000e+00 2292.0
2 TraesCS7B01G138600 chr7D 96.045 885 32 3 2386 3269 222518592 222519474 0.000000e+00 1437.0
3 TraesCS7B01G138600 chr7D 95.643 459 12 5 1 452 222516485 222516942 0.000000e+00 730.0
4 TraesCS7B01G138600 chr7D 97.183 142 4 0 451 592 13396579 13396720 1.170000e-59 241.0
5 TraesCS7B01G138600 chr7D 89.362 94 2 1 594 679 222516940 222517033 9.590000e-21 111.0
6 TraesCS7B01G138600 chr7D 95.652 46 1 1 718 762 222517030 222517075 4.520000e-09 73.1
7 TraesCS7B01G138600 chr7A 92.890 1505 69 14 801 2288 237502841 237504324 0.000000e+00 2152.0
8 TraesCS7B01G138600 chr7A 94.482 888 40 7 2386 3269 237504326 237505208 0.000000e+00 1360.0
9 TraesCS7B01G138600 chr7A 94.989 459 15 5 1 451 237389283 237389741 0.000000e+00 713.0
10 TraesCS7B01G138600 chr7A 90.960 177 7 5 594 762 237389740 237389915 2.540000e-56 230.0
11 TraesCS7B01G138600 chr6B 100.000 140 0 0 453 592 40203351 40203212 3.240000e-65 259.0
12 TraesCS7B01G138600 chr6B 100.000 140 0 0 453 592 720829364 720829225 3.240000e-65 259.0
13 TraesCS7B01G138600 chr5A 100.000 140 0 0 453 592 600053913 600053774 3.240000e-65 259.0
14 TraesCS7B01G138600 chr4A 100.000 140 0 0 453 592 570970376 570970515 3.240000e-65 259.0
15 TraesCS7B01G138600 chr4A 98.571 140 2 0 453 592 36282952 36282813 7.000000e-62 248.0
16 TraesCS7B01G138600 chr4A 97.143 140 4 0 453 592 46564151 46564012 1.520000e-58 237.0
17 TraesCS7B01G138600 chr1A 98.571 140 2 0 453 592 40137370 40137509 7.000000e-62 248.0
18 TraesCS7B01G138600 chr3B 97.143 140 4 0 453 592 413806268 413806407 1.520000e-58 237.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G138600 chr7B 174070156 174073424 3268 True 6037.00 6037 100.0000 1 3269 1 chr7B.!!$R1 3268
1 TraesCS7B01G138600 chr7D 222516485 222519474 2989 False 928.62 2292 94.1686 1 3269 5 chr7D.!!$F2 3268
2 TraesCS7B01G138600 chr7A 237502841 237505208 2367 False 1756.00 2152 93.6860 801 3269 2 chr7A.!!$F2 2468
3 TraesCS7B01G138600 chr7A 237389283 237389915 632 False 471.50 713 92.9745 1 762 2 chr7A.!!$F1 761

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
510 520 0.038159 AGCCGACACAAGCTCTACAC 60.038 55.0 0.0 0.0 32.71 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2364 2400 0.099968 TACAAAGACTCGATCGGGCG 59.9 55.0 16.63 6.67 0.0 6.13 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
248 249 6.239217 TCTCATTGCTGTACTATTGACCAT 57.761 37.500 0.00 0.00 0.00 3.55
296 297 1.755380 CCTCCTTAACAGAGTACCGGG 59.245 57.143 6.32 0.00 0.00 5.73
362 363 1.910580 TTTGACCGATCCCCTGAGGC 61.911 60.000 0.00 0.00 34.51 4.70
391 392 1.492993 GGTCTGGGGGAGAAAGCTGT 61.493 60.000 0.00 0.00 30.26 4.40
393 394 0.693049 TCTGGGGGAGAAAGCTGTTC 59.307 55.000 0.00 0.00 0.00 3.18
456 466 4.955089 GCCGTTTGCAATCCGAAA 57.045 50.000 17.59 0.00 40.77 3.46
457 467 3.416955 GCCGTTTGCAATCCGAAAT 57.583 47.368 17.59 0.00 40.77 2.17
458 468 1.708822 GCCGTTTGCAATCCGAAATT 58.291 45.000 17.59 0.00 40.77 1.82
459 469 1.389784 GCCGTTTGCAATCCGAAATTG 59.610 47.619 17.59 6.22 40.77 2.32
460 470 2.924454 GCCGTTTGCAATCCGAAATTGA 60.924 45.455 17.59 0.00 40.77 2.57
461 471 3.510719 CCGTTTGCAATCCGAAATTGAT 58.489 40.909 17.59 0.00 0.00 2.57
462 472 3.304026 CCGTTTGCAATCCGAAATTGATG 59.696 43.478 17.59 0.00 0.00 3.07
463 473 3.919804 CGTTTGCAATCCGAAATTGATGT 59.080 39.130 12.25 0.00 0.00 3.06
464 474 4.201513 CGTTTGCAATCCGAAATTGATGTG 60.202 41.667 12.25 0.00 0.00 3.21
465 475 2.878580 TGCAATCCGAAATTGATGTGC 58.121 42.857 12.84 6.70 32.15 4.57
466 476 2.230750 TGCAATCCGAAATTGATGTGCA 59.769 40.909 12.84 8.61 35.69 4.57
467 477 2.599973 GCAATCCGAAATTGATGTGCAC 59.400 45.455 10.75 10.75 31.98 4.57
468 478 3.835779 CAATCCGAAATTGATGTGCACA 58.164 40.909 24.08 24.08 0.00 4.57
469 479 2.987413 TCCGAAATTGATGTGCACAC 57.013 45.000 24.37 16.37 0.00 3.82
470 480 1.196581 TCCGAAATTGATGTGCACACG 59.803 47.619 24.37 18.55 0.00 4.49
471 481 1.196581 CCGAAATTGATGTGCACACGA 59.803 47.619 24.37 15.90 0.00 4.35
472 482 2.233355 CGAAATTGATGTGCACACGAC 58.767 47.619 24.37 16.70 0.00 4.34
473 483 2.349343 CGAAATTGATGTGCACACGACA 60.349 45.455 24.37 19.11 0.00 4.35
474 484 3.667695 CGAAATTGATGTGCACACGACAT 60.668 43.478 24.37 5.44 36.73 3.06
475 485 2.905959 ATTGATGTGCACACGACATG 57.094 45.000 24.37 0.00 34.10 3.21
476 486 0.238025 TTGATGTGCACACGACATGC 59.762 50.000 24.37 6.31 43.68 4.06
489 499 4.722008 CATGCAATGCCCGATGTG 57.278 55.556 1.53 0.00 37.62 3.21
490 500 1.590525 CATGCAATGCCCGATGTGC 60.591 57.895 1.53 0.00 37.62 4.57
491 501 2.675772 TGCAATGCCCGATGTGCA 60.676 55.556 1.53 0.00 44.36 4.57
492 502 2.103538 GCAATGCCCGATGTGCAG 59.896 61.111 0.00 0.00 42.92 4.41
493 503 2.103538 CAATGCCCGATGTGCAGC 59.896 61.111 0.00 0.00 42.92 5.25
494 504 3.142838 AATGCCCGATGTGCAGCC 61.143 61.111 0.00 0.00 42.92 4.85
498 508 4.758251 CCCGATGTGCAGCCGACA 62.758 66.667 4.17 0.00 0.00 4.35
499 509 3.490759 CCGATGTGCAGCCGACAC 61.491 66.667 4.17 0.00 38.55 3.67
503 513 3.279116 TGTGCAGCCGACACAAGC 61.279 61.111 1.87 0.00 44.68 4.01
504 514 2.974698 GTGCAGCCGACACAAGCT 60.975 61.111 0.00 0.00 40.89 3.74
505 515 2.666190 TGCAGCCGACACAAGCTC 60.666 61.111 0.00 0.00 37.18 4.09
506 516 2.358003 GCAGCCGACACAAGCTCT 60.358 61.111 0.00 0.00 37.18 4.09
507 517 1.079819 GCAGCCGACACAAGCTCTA 60.080 57.895 0.00 0.00 37.18 2.43
508 518 1.355066 GCAGCCGACACAAGCTCTAC 61.355 60.000 0.00 0.00 37.18 2.59
509 519 0.038251 CAGCCGACACAAGCTCTACA 60.038 55.000 0.00 0.00 37.18 2.74
510 520 0.038159 AGCCGACACAAGCTCTACAC 60.038 55.000 0.00 0.00 32.71 2.90
511 521 1.014564 GCCGACACAAGCTCTACACC 61.015 60.000 0.00 0.00 0.00 4.16
512 522 0.732880 CCGACACAAGCTCTACACCG 60.733 60.000 0.00 0.00 0.00 4.94
513 523 0.039437 CGACACAAGCTCTACACCGT 60.039 55.000 0.00 0.00 0.00 4.83
514 524 1.699343 GACACAAGCTCTACACCGTC 58.301 55.000 0.00 0.00 0.00 4.79
515 525 1.000607 GACACAAGCTCTACACCGTCA 60.001 52.381 0.00 0.00 0.00 4.35
516 526 1.000163 ACACAAGCTCTACACCGTCAG 60.000 52.381 0.00 0.00 0.00 3.51
517 527 1.269723 CACAAGCTCTACACCGTCAGA 59.730 52.381 0.00 0.00 0.00 3.27
518 528 2.094494 CACAAGCTCTACACCGTCAGAT 60.094 50.000 0.00 0.00 0.00 2.90
519 529 2.563179 ACAAGCTCTACACCGTCAGATT 59.437 45.455 0.00 0.00 0.00 2.40
520 530 2.926200 CAAGCTCTACACCGTCAGATTG 59.074 50.000 0.00 0.00 0.00 2.67
521 531 1.134965 AGCTCTACACCGTCAGATTGC 60.135 52.381 0.00 0.00 0.00 3.56
522 532 1.927895 CTCTACACCGTCAGATTGCC 58.072 55.000 0.00 0.00 0.00 4.52
523 533 1.478510 CTCTACACCGTCAGATTGCCT 59.521 52.381 0.00 0.00 0.00 4.75
524 534 2.688446 CTCTACACCGTCAGATTGCCTA 59.312 50.000 0.00 0.00 0.00 3.93
525 535 2.688446 TCTACACCGTCAGATTGCCTAG 59.312 50.000 0.00 0.00 0.00 3.02
526 536 1.267121 ACACCGTCAGATTGCCTAGT 58.733 50.000 0.00 0.00 0.00 2.57
527 537 2.453521 ACACCGTCAGATTGCCTAGTA 58.546 47.619 0.00 0.00 0.00 1.82
528 538 3.031736 ACACCGTCAGATTGCCTAGTAT 58.968 45.455 0.00 0.00 0.00 2.12
529 539 3.068307 ACACCGTCAGATTGCCTAGTATC 59.932 47.826 0.00 0.00 0.00 2.24
530 540 3.068165 CACCGTCAGATTGCCTAGTATCA 59.932 47.826 0.00 0.00 0.00 2.15
531 541 3.704566 ACCGTCAGATTGCCTAGTATCAA 59.295 43.478 0.00 0.00 0.00 2.57
532 542 4.161565 ACCGTCAGATTGCCTAGTATCAAA 59.838 41.667 0.00 0.00 0.00 2.69
533 543 5.163301 ACCGTCAGATTGCCTAGTATCAAAT 60.163 40.000 0.00 0.00 0.00 2.32
534 544 5.760253 CCGTCAGATTGCCTAGTATCAAATT 59.240 40.000 0.00 0.00 0.00 1.82
535 545 6.260936 CCGTCAGATTGCCTAGTATCAAATTT 59.739 38.462 0.00 0.00 0.00 1.82
536 546 7.441157 CCGTCAGATTGCCTAGTATCAAATTTA 59.559 37.037 0.00 0.00 0.00 1.40
537 547 8.276325 CGTCAGATTGCCTAGTATCAAATTTAC 58.724 37.037 0.00 0.00 0.00 2.01
538 548 9.109393 GTCAGATTGCCTAGTATCAAATTTACA 57.891 33.333 0.00 0.00 0.00 2.41
539 549 9.679661 TCAGATTGCCTAGTATCAAATTTACAA 57.320 29.630 0.00 0.00 0.00 2.41
542 552 9.221775 GATTGCCTAGTATCAAATTTACAAACG 57.778 33.333 0.00 0.00 0.00 3.60
543 553 7.079182 TGCCTAGTATCAAATTTACAAACGG 57.921 36.000 0.00 0.00 0.00 4.44
544 554 5.969435 GCCTAGTATCAAATTTACAAACGGC 59.031 40.000 0.00 0.00 0.00 5.68
545 555 6.492254 CCTAGTATCAAATTTACAAACGGCC 58.508 40.000 0.00 0.00 0.00 6.13
546 556 6.317893 CCTAGTATCAAATTTACAAACGGCCT 59.682 38.462 0.00 0.00 0.00 5.19
547 557 5.949735 AGTATCAAATTTACAAACGGCCTG 58.050 37.500 0.00 0.00 0.00 4.85
548 558 5.708230 AGTATCAAATTTACAAACGGCCTGA 59.292 36.000 0.00 0.00 0.00 3.86
549 559 5.659440 ATCAAATTTACAAACGGCCTGAT 57.341 34.783 0.00 0.00 0.00 2.90
550 560 4.804108 TCAAATTTACAAACGGCCTGATG 58.196 39.130 0.00 0.00 0.00 3.07
551 561 4.520874 TCAAATTTACAAACGGCCTGATGA 59.479 37.500 0.00 0.00 0.00 2.92
552 562 4.701956 AATTTACAAACGGCCTGATGAG 57.298 40.909 0.00 0.00 0.00 2.90
553 563 3.410631 TTTACAAACGGCCTGATGAGA 57.589 42.857 0.00 0.00 0.00 3.27
554 564 2.380084 TACAAACGGCCTGATGAGAC 57.620 50.000 0.00 0.00 0.00 3.36
555 565 0.396435 ACAAACGGCCTGATGAGACA 59.604 50.000 0.00 0.00 0.00 3.41
556 566 0.798776 CAAACGGCCTGATGAGACAC 59.201 55.000 0.00 0.00 0.00 3.67
557 567 0.396435 AAACGGCCTGATGAGACACA 59.604 50.000 0.00 0.00 0.00 3.72
558 568 0.615331 AACGGCCTGATGAGACACAT 59.385 50.000 0.00 0.00 42.47 3.21
565 575 3.748863 GATGAGACACATCGGCTGT 57.251 52.632 0.00 0.00 44.46 4.40
573 583 3.642901 ACATCGGCTGTGTATCGTC 57.357 52.632 0.00 0.00 36.48 4.20
574 584 1.103803 ACATCGGCTGTGTATCGTCT 58.896 50.000 0.00 0.00 36.48 4.18
575 585 1.202302 ACATCGGCTGTGTATCGTCTG 60.202 52.381 0.00 0.00 36.48 3.51
576 586 0.385751 ATCGGCTGTGTATCGTCTGG 59.614 55.000 0.00 0.00 0.00 3.86
577 587 0.678684 TCGGCTGTGTATCGTCTGGA 60.679 55.000 0.00 0.00 0.00 3.86
578 588 0.172578 CGGCTGTGTATCGTCTGGAA 59.827 55.000 0.00 0.00 0.00 3.53
579 589 1.641577 GGCTGTGTATCGTCTGGAAC 58.358 55.000 0.00 0.00 0.00 3.62
580 590 1.641577 GCTGTGTATCGTCTGGAACC 58.358 55.000 0.00 0.00 0.00 3.62
581 591 1.909376 CTGTGTATCGTCTGGAACCG 58.091 55.000 0.00 0.00 0.00 4.44
582 592 1.201647 CTGTGTATCGTCTGGAACCGT 59.798 52.381 0.00 0.00 0.00 4.83
583 593 1.200716 TGTGTATCGTCTGGAACCGTC 59.799 52.381 0.00 0.00 0.00 4.79
584 594 0.448990 TGTATCGTCTGGAACCGTCG 59.551 55.000 0.00 0.00 0.00 5.12
585 595 0.248377 GTATCGTCTGGAACCGTCGG 60.248 60.000 10.48 10.48 0.00 4.79
586 596 1.996786 TATCGTCTGGAACCGTCGGC 61.997 60.000 12.28 0.00 0.00 5.54
587 597 4.052229 CGTCTGGAACCGTCGGCT 62.052 66.667 12.28 0.00 0.00 5.52
588 598 2.432628 GTCTGGAACCGTCGGCTG 60.433 66.667 12.28 0.00 0.00 4.85
589 599 2.915659 TCTGGAACCGTCGGCTGT 60.916 61.111 12.28 0.00 0.00 4.40
590 600 1.604308 TCTGGAACCGTCGGCTGTA 60.604 57.895 12.28 0.00 0.00 2.74
591 601 0.968901 TCTGGAACCGTCGGCTGTAT 60.969 55.000 12.28 0.00 0.00 2.29
592 602 0.108329 CTGGAACCGTCGGCTGTATT 60.108 55.000 12.28 0.00 0.00 1.89
593 603 1.135527 CTGGAACCGTCGGCTGTATTA 59.864 52.381 12.28 0.00 0.00 0.98
594 604 1.758280 TGGAACCGTCGGCTGTATTAT 59.242 47.619 12.28 0.00 0.00 1.28
595 605 2.223876 TGGAACCGTCGGCTGTATTATC 60.224 50.000 12.28 0.00 0.00 1.75
617 627 0.625316 AGGTGCCAATGCCATGACTA 59.375 50.000 0.00 0.00 36.33 2.59
696 714 4.203226 TGCCAGTTTGTCATCACAACTTA 58.797 39.130 0.00 0.00 42.46 2.24
715 733 7.334921 ACAACTTAGTCTCTAGTAGTGCTACAG 59.665 40.741 11.39 7.13 38.48 2.74
762 780 3.415212 TGAAGGATTGCAGTTTCAGAGG 58.585 45.455 0.00 0.00 0.00 3.69
763 781 2.503895 AGGATTGCAGTTTCAGAGGG 57.496 50.000 0.00 0.00 0.00 4.30
764 782 1.707427 AGGATTGCAGTTTCAGAGGGT 59.293 47.619 0.00 0.00 0.00 4.34
765 783 2.108952 AGGATTGCAGTTTCAGAGGGTT 59.891 45.455 0.00 0.00 0.00 4.11
766 784 2.489722 GGATTGCAGTTTCAGAGGGTTC 59.510 50.000 0.00 0.00 0.00 3.62
767 785 2.727123 TTGCAGTTTCAGAGGGTTCA 57.273 45.000 0.00 0.00 0.00 3.18
768 786 2.957402 TGCAGTTTCAGAGGGTTCAT 57.043 45.000 0.00 0.00 0.00 2.57
769 787 2.783135 TGCAGTTTCAGAGGGTTCATC 58.217 47.619 0.00 0.00 0.00 2.92
770 788 2.106338 TGCAGTTTCAGAGGGTTCATCA 59.894 45.455 0.00 0.00 0.00 3.07
771 789 3.245016 TGCAGTTTCAGAGGGTTCATCAT 60.245 43.478 0.00 0.00 0.00 2.45
772 790 3.376546 GCAGTTTCAGAGGGTTCATCATC 59.623 47.826 0.00 0.00 0.00 2.92
773 791 4.582869 CAGTTTCAGAGGGTTCATCATCA 58.417 43.478 0.00 0.00 0.00 3.07
774 792 4.394300 CAGTTTCAGAGGGTTCATCATCAC 59.606 45.833 0.00 0.00 0.00 3.06
775 793 3.634397 TTCAGAGGGTTCATCATCACC 57.366 47.619 0.00 0.00 0.00 4.02
776 794 2.837947 TCAGAGGGTTCATCATCACCT 58.162 47.619 0.00 0.00 33.09 4.00
777 795 3.994317 TCAGAGGGTTCATCATCACCTA 58.006 45.455 0.00 0.00 33.09 3.08
778 796 3.706594 TCAGAGGGTTCATCATCACCTAC 59.293 47.826 0.00 0.00 33.09 3.18
779 797 3.041946 AGAGGGTTCATCATCACCTACC 58.958 50.000 0.00 0.00 33.09 3.18
780 798 2.771943 GAGGGTTCATCATCACCTACCA 59.228 50.000 0.00 0.00 33.09 3.25
781 799 3.189606 AGGGTTCATCATCACCTACCAA 58.810 45.455 0.00 0.00 33.09 3.67
782 800 3.591527 AGGGTTCATCATCACCTACCAAA 59.408 43.478 0.00 0.00 33.09 3.28
783 801 3.947834 GGGTTCATCATCACCTACCAAAG 59.052 47.826 0.00 0.00 33.09 2.77
784 802 3.378427 GGTTCATCATCACCTACCAAAGC 59.622 47.826 0.00 0.00 0.00 3.51
785 803 3.998913 TCATCATCACCTACCAAAGCA 57.001 42.857 0.00 0.00 0.00 3.91
786 804 4.508551 TCATCATCACCTACCAAAGCAT 57.491 40.909 0.00 0.00 0.00 3.79
798 816 5.066505 CCTACCAAAGCATTACAATGAGTCC 59.933 44.000 6.13 0.00 38.70 3.85
822 840 8.133330 CCTGTTTGGAACGGAAGATTTTCCTT 62.133 42.308 12.84 0.73 43.80 3.36
848 866 9.023962 TGATTCTTTAATATTTGAACTGCCTGT 57.976 29.630 0.00 0.00 0.00 4.00
862 880 3.701040 ACTGCCTGTTGTGAAATTTCTGT 59.299 39.130 18.64 0.00 0.00 3.41
871 889 6.019961 TGTTGTGAAATTTCTGTGAAATTCGC 60.020 34.615 18.64 14.88 0.00 4.70
911 929 7.503549 AGGATTTGAGCTTTTCTTGTGAAAAT 58.496 30.769 4.71 0.00 46.90 1.82
926 944 9.130661 TCTTGTGAAAATTACTCTTGGATCAAA 57.869 29.630 0.00 0.00 0.00 2.69
985 1004 2.620251 TTCTTACGATGGCTCCATGG 57.380 50.000 4.97 4.97 36.70 3.66
1021 1040 1.563577 GGGTTCCCTCTTCCCTCCAC 61.564 65.000 0.00 0.00 38.29 4.02
1023 1042 2.291043 TTCCCTCTTCCCTCCACGC 61.291 63.158 0.00 0.00 0.00 5.34
1024 1043 2.685380 CCCTCTTCCCTCCACGCT 60.685 66.667 0.00 0.00 0.00 5.07
1153 1172 2.580867 CTCCCTCTTCTTCGCGCG 60.581 66.667 26.76 26.76 0.00 6.86
1233 1252 2.027625 CGTGCTCCGTCCAAGAACC 61.028 63.158 0.00 0.00 0.00 3.62
1540 1559 1.079543 GACGCTGTGCAGGAGATGT 60.080 57.895 1.11 0.00 0.00 3.06
1725 1756 0.317479 ACTACAAGCTCGGCGAGTTT 59.683 50.000 34.41 31.90 33.57 2.66
1844 1875 1.227497 GCGCCTTCCTGGAGATGAG 60.227 63.158 0.00 0.00 37.90 2.90
1929 1960 0.257039 GCATGTTCTGGGACCTCCAT 59.743 55.000 0.00 0.00 46.01 3.41
1930 1961 1.341383 GCATGTTCTGGGACCTCCATT 60.341 52.381 0.00 0.00 46.01 3.16
2259 2295 3.196254 TGATCTTCATCAGTGCAGCACTA 59.804 43.478 27.80 16.02 43.43 2.74
2288 2324 5.771666 ACTAGTGCAACAAGGTAGTAGTACA 59.228 40.000 9.89 0.00 41.43 2.90
2289 2325 5.740290 AGTGCAACAAGGTAGTAGTACAT 57.260 39.130 9.89 0.00 41.43 2.29
2290 2326 5.479306 AGTGCAACAAGGTAGTAGTACATG 58.521 41.667 9.89 9.88 41.43 3.21
2291 2327 4.630069 GTGCAACAAGGTAGTAGTACATGG 59.370 45.833 9.89 2.68 36.32 3.66
2292 2328 4.528987 TGCAACAAGGTAGTAGTACATGGA 59.471 41.667 9.89 0.00 0.00 3.41
2293 2329 5.188948 TGCAACAAGGTAGTAGTACATGGAT 59.811 40.000 9.89 0.00 0.00 3.41
2294 2330 5.753921 GCAACAAGGTAGTAGTACATGGATC 59.246 44.000 9.89 0.00 0.00 3.36
2295 2331 5.769484 ACAAGGTAGTAGTACATGGATCG 57.231 43.478 9.89 0.00 0.00 3.69
2296 2332 5.443283 ACAAGGTAGTAGTACATGGATCGA 58.557 41.667 9.89 0.00 0.00 3.59
2297 2333 5.531659 ACAAGGTAGTAGTACATGGATCGAG 59.468 44.000 9.89 0.00 0.00 4.04
2298 2334 5.563876 AGGTAGTAGTACATGGATCGAGA 57.436 43.478 9.89 0.00 0.00 4.04
2299 2335 6.129414 AGGTAGTAGTACATGGATCGAGAT 57.871 41.667 9.89 0.00 0.00 2.75
2300 2336 6.174760 AGGTAGTAGTACATGGATCGAGATC 58.825 44.000 9.89 4.58 37.11 2.75
2322 2358 3.969287 AGTGACATACTGTGAGCATGT 57.031 42.857 0.00 0.00 38.49 3.21
2323 2359 3.854666 AGTGACATACTGTGAGCATGTC 58.145 45.455 12.36 12.36 45.66 3.06
2336 2372 5.981088 TGAGCATGTCACCAATTAACAAT 57.019 34.783 0.00 0.00 0.00 2.71
2338 2374 7.459795 TGAGCATGTCACCAATTAACAATAA 57.540 32.000 0.00 0.00 0.00 1.40
2339 2375 8.065473 TGAGCATGTCACCAATTAACAATAAT 57.935 30.769 0.00 0.00 33.06 1.28
2340 2376 7.975058 TGAGCATGTCACCAATTAACAATAATG 59.025 33.333 0.00 0.00 32.06 1.90
2341 2377 7.267128 AGCATGTCACCAATTAACAATAATGG 58.733 34.615 0.00 0.00 32.06 3.16
2342 2378 6.479660 GCATGTCACCAATTAACAATAATGGG 59.520 38.462 0.00 1.26 45.03 4.00
2343 2379 7.632462 GCATGTCACCAATTAACAATAATGGGA 60.632 37.037 8.63 0.00 43.02 4.37
2344 2380 7.782897 TGTCACCAATTAACAATAATGGGAA 57.217 32.000 8.63 0.00 43.02 3.97
2345 2381 7.607250 TGTCACCAATTAACAATAATGGGAAC 58.393 34.615 8.63 7.00 43.02 3.62
2346 2382 7.233553 TGTCACCAATTAACAATAATGGGAACA 59.766 33.333 8.63 8.92 43.02 3.18
2371 2407 2.835431 CTCTCTGGACCGCCCGAT 60.835 66.667 0.00 0.00 37.93 4.18
2372 2408 2.833582 TCTCTGGACCGCCCGATC 60.834 66.667 0.00 0.00 37.93 3.69
2373 2409 4.271816 CTCTGGACCGCCCGATCG 62.272 72.222 8.51 8.51 37.93 3.69
2374 2410 4.807631 TCTGGACCGCCCGATCGA 62.808 66.667 18.66 0.00 37.93 3.59
2375 2411 4.271816 CTGGACCGCCCGATCGAG 62.272 72.222 18.66 3.84 37.93 4.04
2377 2413 4.267503 GGACCGCCCGATCGAGTC 62.268 72.222 18.66 16.29 0.00 3.36
2378 2414 3.210528 GACCGCCCGATCGAGTCT 61.211 66.667 18.66 0.00 31.61 3.24
2379 2415 2.754658 ACCGCCCGATCGAGTCTT 60.755 61.111 18.66 0.00 0.00 3.01
2380 2416 2.280823 GACCGCCCGATCGAGTCTTT 62.281 60.000 18.66 0.00 31.61 2.52
2381 2417 1.878522 CCGCCCGATCGAGTCTTTG 60.879 63.158 18.66 0.00 0.00 2.77
2382 2418 1.153823 CGCCCGATCGAGTCTTTGT 60.154 57.895 18.66 0.00 0.00 2.83
2383 2419 0.099968 CGCCCGATCGAGTCTTTGTA 59.900 55.000 18.66 0.00 0.00 2.41
2384 2420 1.468565 CGCCCGATCGAGTCTTTGTAA 60.469 52.381 18.66 0.00 0.00 2.41
2403 2439 6.203808 TGTAAAGATGCTACGATGTACAGT 57.796 37.500 0.33 0.00 0.00 3.55
2476 2516 7.389053 GGAAGAGTCTTTGTAAGATGATTGTGT 59.611 37.037 6.88 0.00 40.18 3.72
2587 2628 4.285863 ACCTGACAATCCCAAAGAAAACA 58.714 39.130 0.00 0.00 0.00 2.83
2733 2774 5.738619 TGCAACTTAAGAGGAGTGACATA 57.261 39.130 10.09 0.00 0.00 2.29
2904 2945 3.493699 CCGGTGTTACTCAGGAACTTTGA 60.494 47.826 0.25 0.00 34.60 2.69
3022 3063 2.238646 CAGCTTGTATGGTTCCCCAGTA 59.761 50.000 0.00 0.00 46.15 2.74
3034 3075 1.143277 TCCCCAGTAAACGGCTCAAAA 59.857 47.619 0.00 0.00 0.00 2.44
3109 3150 4.850193 CCAACAATGGGAGTGCCT 57.150 55.556 1.06 0.00 43.51 4.75
3132 3173 1.301244 CTTCCGCACAGTGCACTCT 60.301 57.895 25.19 1.33 45.36 3.24
3161 3202 2.171448 AGCAGGGTCAGCATAGTTTAGG 59.829 50.000 0.00 0.00 0.00 2.69
3185 3227 7.828717 AGGTTGGTGATTTCAGTTGAAAATTTT 59.171 29.630 10.96 2.28 45.81 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.601067 TGGTTCGGGTAGCCGTCA 60.601 61.111 30.74 23.18 34.52 4.35
113 114 2.743928 GTCAGGTCAGGCTTGCGG 60.744 66.667 0.00 0.00 0.00 5.69
248 249 4.037446 CCCAACGAAATCAGACCAGAAAAA 59.963 41.667 0.00 0.00 0.00 1.94
296 297 6.551736 ACCGCAGATTCACATTAAAATACAC 58.448 36.000 0.00 0.00 0.00 2.90
362 363 3.760035 CCCAGACCCGACGACAGG 61.760 72.222 0.00 0.00 0.00 4.00
401 408 3.843422 TCCAACCAAACCACAGATGATT 58.157 40.909 0.00 0.00 0.00 2.57
452 462 2.233355 GTCGTGTGCACATCAATTTCG 58.767 47.619 24.69 19.19 0.00 3.46
453 463 3.266541 TGTCGTGTGCACATCAATTTC 57.733 42.857 24.69 7.07 0.00 2.17
454 464 3.567530 CATGTCGTGTGCACATCAATTT 58.432 40.909 24.69 4.07 31.83 1.82
455 465 2.669113 GCATGTCGTGTGCACATCAATT 60.669 45.455 24.69 5.77 42.08 2.32
456 466 1.135603 GCATGTCGTGTGCACATCAAT 60.136 47.619 24.69 11.72 42.08 2.57
457 467 0.238025 GCATGTCGTGTGCACATCAA 59.762 50.000 24.69 9.80 42.08 2.57
458 468 0.883814 TGCATGTCGTGTGCACATCA 60.884 50.000 24.69 21.21 46.76 3.07
459 469 1.868306 TGCATGTCGTGTGCACATC 59.132 52.632 24.69 16.44 46.76 3.06
460 470 4.061949 TGCATGTCGTGTGCACAT 57.938 50.000 24.69 2.86 46.76 3.21
464 474 1.802715 GGCATTGCATGTCGTGTGC 60.803 57.895 11.39 0.00 42.81 4.57
465 475 1.153978 GGGCATTGCATGTCGTGTG 60.154 57.895 11.39 0.00 35.21 3.82
466 476 2.689785 CGGGCATTGCATGTCGTGT 61.690 57.895 11.39 0.00 35.21 4.49
467 477 1.717791 ATCGGGCATTGCATGTCGTG 61.718 55.000 11.39 0.00 35.21 4.35
468 478 1.451927 ATCGGGCATTGCATGTCGT 60.452 52.632 11.39 0.00 35.21 4.34
469 479 1.009335 CATCGGGCATTGCATGTCG 60.009 57.895 11.39 8.52 35.21 4.35
470 480 0.248743 CACATCGGGCATTGCATGTC 60.249 55.000 11.39 0.00 0.00 3.06
471 481 1.811195 CACATCGGGCATTGCATGT 59.189 52.632 11.39 8.95 0.00 3.21
472 482 1.590525 GCACATCGGGCATTGCATG 60.591 57.895 11.39 8.31 34.97 4.06
473 483 2.011741 CTGCACATCGGGCATTGCAT 62.012 55.000 11.39 0.00 43.74 3.96
474 484 2.675772 TGCACATCGGGCATTGCA 60.676 55.556 11.39 0.00 42.60 4.08
475 485 2.103538 CTGCACATCGGGCATTGC 59.896 61.111 0.00 0.00 41.06 3.56
476 486 2.103538 GCTGCACATCGGGCATTG 59.896 61.111 0.00 0.00 41.06 2.82
477 487 3.142838 GGCTGCACATCGGGCATT 61.143 61.111 0.50 0.00 45.28 3.56
481 491 4.758251 TGTCGGCTGCACATCGGG 62.758 66.667 0.50 0.00 0.00 5.14
482 492 3.490759 GTGTCGGCTGCACATCGG 61.491 66.667 13.18 0.00 36.88 4.18
483 493 2.231745 CTTGTGTCGGCTGCACATCG 62.232 60.000 19.07 11.95 44.91 3.84
484 494 1.499056 CTTGTGTCGGCTGCACATC 59.501 57.895 19.07 7.00 44.91 3.06
485 495 2.620112 GCTTGTGTCGGCTGCACAT 61.620 57.895 19.07 0.00 44.91 3.21
486 496 3.279116 GCTTGTGTCGGCTGCACA 61.279 61.111 15.83 15.83 44.05 4.57
487 497 2.959357 GAGCTTGTGTCGGCTGCAC 61.959 63.158 11.69 11.69 39.05 4.57
488 498 1.815817 TAGAGCTTGTGTCGGCTGCA 61.816 55.000 0.50 0.00 39.05 4.41
489 499 1.079819 TAGAGCTTGTGTCGGCTGC 60.080 57.895 0.00 0.00 39.05 5.25
490 500 0.038251 TGTAGAGCTTGTGTCGGCTG 60.038 55.000 0.00 0.00 39.05 4.85
491 501 0.038159 GTGTAGAGCTTGTGTCGGCT 60.038 55.000 0.00 0.00 41.88 5.52
492 502 1.014564 GGTGTAGAGCTTGTGTCGGC 61.015 60.000 0.00 0.00 0.00 5.54
493 503 0.732880 CGGTGTAGAGCTTGTGTCGG 60.733 60.000 0.00 0.00 0.00 4.79
494 504 0.039437 ACGGTGTAGAGCTTGTGTCG 60.039 55.000 0.00 0.00 0.00 4.35
495 505 1.000607 TGACGGTGTAGAGCTTGTGTC 60.001 52.381 0.00 0.00 0.00 3.67
496 506 1.000163 CTGACGGTGTAGAGCTTGTGT 60.000 52.381 0.00 0.00 0.00 3.72
497 507 1.269723 TCTGACGGTGTAGAGCTTGTG 59.730 52.381 0.00 0.00 0.00 3.33
498 508 1.617322 TCTGACGGTGTAGAGCTTGT 58.383 50.000 0.00 0.00 0.00 3.16
499 509 2.926200 CAATCTGACGGTGTAGAGCTTG 59.074 50.000 0.00 0.00 0.00 4.01
500 510 2.675317 GCAATCTGACGGTGTAGAGCTT 60.675 50.000 0.00 0.00 0.00 3.74
501 511 1.134965 GCAATCTGACGGTGTAGAGCT 60.135 52.381 0.00 0.00 0.00 4.09
502 512 1.281899 GCAATCTGACGGTGTAGAGC 58.718 55.000 0.00 0.00 0.00 4.09
503 513 1.478510 AGGCAATCTGACGGTGTAGAG 59.521 52.381 0.00 0.00 0.00 2.43
504 514 1.557099 AGGCAATCTGACGGTGTAGA 58.443 50.000 0.00 0.00 0.00 2.59
505 515 2.427453 ACTAGGCAATCTGACGGTGTAG 59.573 50.000 0.00 0.00 0.00 2.74
506 516 2.453521 ACTAGGCAATCTGACGGTGTA 58.546 47.619 0.00 0.00 0.00 2.90
507 517 1.267121 ACTAGGCAATCTGACGGTGT 58.733 50.000 0.00 0.00 0.00 4.16
508 518 3.068165 TGATACTAGGCAATCTGACGGTG 59.932 47.826 0.00 0.00 0.00 4.94
509 519 3.296854 TGATACTAGGCAATCTGACGGT 58.703 45.455 0.00 0.00 0.00 4.83
510 520 4.322080 TTGATACTAGGCAATCTGACGG 57.678 45.455 0.00 0.00 0.00 4.79
511 521 6.851222 AATTTGATACTAGGCAATCTGACG 57.149 37.500 0.00 0.00 0.00 4.35
512 522 9.109393 TGTAAATTTGATACTAGGCAATCTGAC 57.891 33.333 0.00 0.00 0.00 3.51
513 523 9.679661 TTGTAAATTTGATACTAGGCAATCTGA 57.320 29.630 0.00 0.00 0.00 3.27
516 526 9.221775 CGTTTGTAAATTTGATACTAGGCAATC 57.778 33.333 0.00 0.00 0.00 2.67
517 527 8.188139 CCGTTTGTAAATTTGATACTAGGCAAT 58.812 33.333 0.00 0.00 0.00 3.56
518 528 7.531716 CCGTTTGTAAATTTGATACTAGGCAA 58.468 34.615 0.00 0.00 0.00 4.52
519 529 6.403855 GCCGTTTGTAAATTTGATACTAGGCA 60.404 38.462 0.00 0.00 37.45 4.75
520 530 5.969435 GCCGTTTGTAAATTTGATACTAGGC 59.031 40.000 0.00 4.47 0.00 3.93
521 531 6.317893 AGGCCGTTTGTAAATTTGATACTAGG 59.682 38.462 0.00 0.00 0.00 3.02
522 532 7.065324 TCAGGCCGTTTGTAAATTTGATACTAG 59.935 37.037 0.00 0.00 0.00 2.57
523 533 6.879993 TCAGGCCGTTTGTAAATTTGATACTA 59.120 34.615 0.00 0.00 0.00 1.82
524 534 5.708230 TCAGGCCGTTTGTAAATTTGATACT 59.292 36.000 0.00 0.00 0.00 2.12
525 535 5.945155 TCAGGCCGTTTGTAAATTTGATAC 58.055 37.500 0.00 0.00 0.00 2.24
526 536 6.375736 TCATCAGGCCGTTTGTAAATTTGATA 59.624 34.615 0.00 0.00 0.00 2.15
527 537 5.184864 TCATCAGGCCGTTTGTAAATTTGAT 59.815 36.000 0.00 0.00 0.00 2.57
528 538 4.520874 TCATCAGGCCGTTTGTAAATTTGA 59.479 37.500 0.00 0.00 0.00 2.69
529 539 4.804108 TCATCAGGCCGTTTGTAAATTTG 58.196 39.130 0.00 0.00 0.00 2.32
530 540 4.764823 TCTCATCAGGCCGTTTGTAAATTT 59.235 37.500 0.00 0.00 0.00 1.82
531 541 4.156008 GTCTCATCAGGCCGTTTGTAAATT 59.844 41.667 0.00 0.00 0.00 1.82
532 542 3.689649 GTCTCATCAGGCCGTTTGTAAAT 59.310 43.478 0.00 0.00 0.00 1.40
533 543 3.071479 GTCTCATCAGGCCGTTTGTAAA 58.929 45.455 0.00 0.00 0.00 2.01
534 544 2.037902 TGTCTCATCAGGCCGTTTGTAA 59.962 45.455 0.00 0.00 0.00 2.41
535 545 1.621317 TGTCTCATCAGGCCGTTTGTA 59.379 47.619 0.00 0.00 0.00 2.41
536 546 0.396435 TGTCTCATCAGGCCGTTTGT 59.604 50.000 0.00 0.00 0.00 2.83
537 547 0.798776 GTGTCTCATCAGGCCGTTTG 59.201 55.000 0.00 0.00 0.00 2.93
538 548 0.396435 TGTGTCTCATCAGGCCGTTT 59.604 50.000 0.00 0.00 0.00 3.60
539 549 0.615331 ATGTGTCTCATCAGGCCGTT 59.385 50.000 0.00 0.00 29.76 4.44
540 550 2.290847 ATGTGTCTCATCAGGCCGT 58.709 52.632 0.00 0.00 29.76 5.68
547 557 3.748863 ACAGCCGATGTGTCTCATC 57.251 52.632 5.03 5.03 46.68 2.92
555 565 1.103803 AGACGATACACAGCCGATGT 58.896 50.000 0.00 0.00 45.43 3.06
556 566 1.481240 CAGACGATACACAGCCGATG 58.519 55.000 0.00 0.00 0.00 3.84
557 567 0.385751 CCAGACGATACACAGCCGAT 59.614 55.000 0.00 0.00 0.00 4.18
558 568 0.678684 TCCAGACGATACACAGCCGA 60.679 55.000 0.00 0.00 0.00 5.54
559 569 0.172578 TTCCAGACGATACACAGCCG 59.827 55.000 0.00 0.00 0.00 5.52
560 570 1.641577 GTTCCAGACGATACACAGCC 58.358 55.000 0.00 0.00 0.00 4.85
561 571 1.641577 GGTTCCAGACGATACACAGC 58.358 55.000 0.00 0.00 0.00 4.40
562 572 1.201647 ACGGTTCCAGACGATACACAG 59.798 52.381 0.00 0.00 0.00 3.66
563 573 1.200716 GACGGTTCCAGACGATACACA 59.799 52.381 0.00 0.00 0.00 3.72
564 574 1.792993 CGACGGTTCCAGACGATACAC 60.793 57.143 0.00 0.00 0.00 2.90
565 575 0.448990 CGACGGTTCCAGACGATACA 59.551 55.000 0.00 0.00 0.00 2.29
566 576 0.248377 CCGACGGTTCCAGACGATAC 60.248 60.000 5.48 0.00 0.00 2.24
567 577 1.996786 GCCGACGGTTCCAGACGATA 61.997 60.000 16.73 0.00 0.00 2.92
568 578 2.882876 CCGACGGTTCCAGACGAT 59.117 61.111 5.48 0.00 0.00 3.73
569 579 4.047059 GCCGACGGTTCCAGACGA 62.047 66.667 16.73 0.00 0.00 4.20
570 580 4.052229 AGCCGACGGTTCCAGACG 62.052 66.667 16.73 0.00 0.00 4.18
571 581 1.870055 TACAGCCGACGGTTCCAGAC 61.870 60.000 16.73 0.00 0.00 3.51
572 582 0.968901 ATACAGCCGACGGTTCCAGA 60.969 55.000 16.73 0.00 0.00 3.86
573 583 0.108329 AATACAGCCGACGGTTCCAG 60.108 55.000 16.73 0.00 0.00 3.86
574 584 1.184431 TAATACAGCCGACGGTTCCA 58.816 50.000 16.73 0.00 0.00 3.53
575 585 2.035576 AGATAATACAGCCGACGGTTCC 59.964 50.000 16.73 0.00 0.00 3.62
576 586 3.243301 TGAGATAATACAGCCGACGGTTC 60.243 47.826 16.73 0.00 0.00 3.62
577 587 2.691526 TGAGATAATACAGCCGACGGTT 59.308 45.455 16.73 6.58 0.00 4.44
578 588 2.293677 CTGAGATAATACAGCCGACGGT 59.706 50.000 16.73 0.00 0.00 4.83
579 589 2.351835 CCTGAGATAATACAGCCGACGG 60.352 54.545 10.29 10.29 33.40 4.79
580 590 2.293677 ACCTGAGATAATACAGCCGACG 59.706 50.000 0.00 0.00 33.40 5.12
581 591 3.643763 CACCTGAGATAATACAGCCGAC 58.356 50.000 0.00 0.00 33.40 4.79
582 592 2.035961 GCACCTGAGATAATACAGCCGA 59.964 50.000 0.00 0.00 33.40 5.54
583 593 2.408050 GCACCTGAGATAATACAGCCG 58.592 52.381 0.00 0.00 33.40 5.52
584 594 2.104792 TGGCACCTGAGATAATACAGCC 59.895 50.000 0.00 0.00 39.95 4.85
585 595 3.475566 TGGCACCTGAGATAATACAGC 57.524 47.619 0.00 0.00 33.40 4.40
586 596 4.214971 GCATTGGCACCTGAGATAATACAG 59.785 45.833 0.61 0.00 40.72 2.74
587 597 4.136796 GCATTGGCACCTGAGATAATACA 58.863 43.478 0.61 0.00 40.72 2.29
588 598 3.503748 GGCATTGGCACCTGAGATAATAC 59.496 47.826 5.17 0.00 43.71 1.89
589 599 3.138098 TGGCATTGGCACCTGAGATAATA 59.862 43.478 9.11 0.00 43.71 0.98
590 600 2.091720 TGGCATTGGCACCTGAGATAAT 60.092 45.455 9.11 0.00 43.71 1.28
591 601 1.284491 TGGCATTGGCACCTGAGATAA 59.716 47.619 9.11 0.00 43.71 1.75
592 602 0.918258 TGGCATTGGCACCTGAGATA 59.082 50.000 9.11 0.00 43.71 1.98
593 603 0.260816 ATGGCATTGGCACCTGAGAT 59.739 50.000 15.84 0.00 41.84 2.75
594 604 0.681887 CATGGCATTGGCACCTGAGA 60.682 55.000 15.84 0.00 41.84 3.27
595 605 0.681887 TCATGGCATTGGCACCTGAG 60.682 55.000 15.84 3.89 41.84 3.35
617 627 5.747951 GCTCAGCAGCTGATAATAAACTT 57.252 39.130 25.59 0.00 43.09 2.66
679 697 7.868415 ACTAGAGACTAAGTTGTGATGACAAAC 59.132 37.037 0.00 0.00 43.77 2.93
696 714 4.448210 GCTCTGTAGCACTACTAGAGACT 58.552 47.826 25.20 0.00 44.18 3.24
715 733 3.256631 ACATTTCATTTCACAGGTGGCTC 59.743 43.478 0.00 0.00 0.00 4.70
762 780 3.378427 GCTTTGGTAGGTGATGATGAACC 59.622 47.826 0.00 0.00 36.66 3.62
763 781 4.009675 TGCTTTGGTAGGTGATGATGAAC 58.990 43.478 0.00 0.00 0.00 3.18
764 782 4.299586 TGCTTTGGTAGGTGATGATGAA 57.700 40.909 0.00 0.00 0.00 2.57
765 783 3.998913 TGCTTTGGTAGGTGATGATGA 57.001 42.857 0.00 0.00 0.00 2.92
766 784 5.589855 TGTAATGCTTTGGTAGGTGATGATG 59.410 40.000 0.00 0.00 0.00 3.07
767 785 5.754782 TGTAATGCTTTGGTAGGTGATGAT 58.245 37.500 0.00 0.00 0.00 2.45
768 786 5.172687 TGTAATGCTTTGGTAGGTGATGA 57.827 39.130 0.00 0.00 0.00 2.92
769 787 5.895636 TTGTAATGCTTTGGTAGGTGATG 57.104 39.130 0.00 0.00 0.00 3.07
770 788 6.186957 TCATTGTAATGCTTTGGTAGGTGAT 58.813 36.000 0.00 0.00 36.36 3.06
771 789 5.565509 TCATTGTAATGCTTTGGTAGGTGA 58.434 37.500 0.00 0.00 36.36 4.02
772 790 5.415701 ACTCATTGTAATGCTTTGGTAGGTG 59.584 40.000 0.00 0.00 36.36 4.00
773 791 5.570320 ACTCATTGTAATGCTTTGGTAGGT 58.430 37.500 0.00 0.00 36.36 3.08
774 792 5.066505 GGACTCATTGTAATGCTTTGGTAGG 59.933 44.000 0.00 0.00 36.36 3.18
775 793 5.882557 AGGACTCATTGTAATGCTTTGGTAG 59.117 40.000 0.00 0.00 36.36 3.18
776 794 5.647658 CAGGACTCATTGTAATGCTTTGGTA 59.352 40.000 0.00 0.00 36.36 3.25
777 795 4.460382 CAGGACTCATTGTAATGCTTTGGT 59.540 41.667 0.00 0.00 36.36 3.67
778 796 4.460382 ACAGGACTCATTGTAATGCTTTGG 59.540 41.667 0.00 0.00 36.36 3.28
779 797 5.633830 ACAGGACTCATTGTAATGCTTTG 57.366 39.130 0.00 0.00 36.36 2.77
780 798 6.449698 CAAACAGGACTCATTGTAATGCTTT 58.550 36.000 0.00 0.00 36.36 3.51
781 799 5.047802 CCAAACAGGACTCATTGTAATGCTT 60.048 40.000 0.00 0.00 41.22 3.91
782 800 4.460382 CCAAACAGGACTCATTGTAATGCT 59.540 41.667 0.00 0.00 41.22 3.79
783 801 4.458989 TCCAAACAGGACTCATTGTAATGC 59.541 41.667 0.00 0.00 43.07 3.56
798 816 4.546570 GGAAAATCTTCCGTTCCAAACAG 58.453 43.478 0.00 0.00 41.89 3.16
822 840 9.023962 ACAGGCAGTTCAAATATTAAAGAATCA 57.976 29.630 0.00 0.00 0.00 2.57
848 866 5.172951 CGCGAATTTCACAGAAATTTCACAA 59.827 36.000 19.99 5.65 30.68 3.33
862 880 4.994220 TTGTAGCTTAACGCGAATTTCA 57.006 36.364 15.93 0.00 45.59 2.69
871 889 7.011482 AGCTCAAATCCTATTTGTAGCTTAACG 59.989 37.037 20.90 0.00 38.48 3.18
911 929 7.807977 GGCTCAATATTTGATCCAAGAGTAA 57.192 36.000 5.48 0.00 43.65 2.24
946 964 3.764885 AAAAGAGCAATGCCATCGTAC 57.235 42.857 0.00 0.00 0.00 3.67
952 970 4.159377 CGTAAGAAAAAGAGCAATGCCA 57.841 40.909 0.00 0.00 43.02 4.92
985 1004 4.505742 GGAACCCATATCACCTCATCCTTC 60.506 50.000 0.00 0.00 0.00 3.46
1023 1042 3.883744 AACGGTGGAAGGCAGCGAG 62.884 63.158 1.57 0.00 45.03 5.03
1024 1043 3.876589 GAACGGTGGAAGGCAGCGA 62.877 63.158 1.57 0.00 45.03 4.93
1104 1123 1.095600 CGTGATGAGACGAGGAGGAA 58.904 55.000 0.00 0.00 42.10 3.36
1153 1172 2.419739 GGGAGAGACGGAGCTCACC 61.420 68.421 17.19 3.53 42.68 4.02
1168 1187 2.747686 GGCGAGGTCAGTTTGGGA 59.252 61.111 0.00 0.00 0.00 4.37
1527 1546 2.981302 CGGGACATCTCCTGCACA 59.019 61.111 0.00 0.00 36.06 4.57
1929 1960 2.031919 ATGTGCTCGGCGGTGAAA 59.968 55.556 7.21 0.00 0.00 2.69
1930 1961 2.741985 CATGTGCTCGGCGGTGAA 60.742 61.111 7.21 0.00 0.00 3.18
2156 2192 2.055310 TAGTACGTCCATCGCCGCTG 62.055 60.000 0.00 0.00 44.19 5.18
2259 2295 6.110411 ACTACCTTGTTGCACTAGTGTAAT 57.890 37.500 26.05 14.16 37.50 1.89
2314 2350 5.981088 ATTGTTAATTGGTGACATGCTCA 57.019 34.783 0.00 0.00 42.32 4.26
2315 2351 7.436080 CCATTATTGTTAATTGGTGACATGCTC 59.564 37.037 0.00 0.00 42.32 4.26
2316 2352 7.267128 CCATTATTGTTAATTGGTGACATGCT 58.733 34.615 0.00 0.00 42.32 3.79
2317 2353 6.479660 CCCATTATTGTTAATTGGTGACATGC 59.520 38.462 0.00 0.00 42.32 4.06
2318 2354 7.780064 TCCCATTATTGTTAATTGGTGACATG 58.220 34.615 0.00 0.00 42.32 3.21
2319 2355 7.969690 TCCCATTATTGTTAATTGGTGACAT 57.030 32.000 0.00 0.00 42.32 3.06
2320 2356 7.233553 TGTTCCCATTATTGTTAATTGGTGACA 59.766 33.333 0.00 0.00 33.99 3.58
2321 2357 7.607250 TGTTCCCATTATTGTTAATTGGTGAC 58.393 34.615 0.00 0.00 33.99 3.67
2322 2358 7.782897 TGTTCCCATTATTGTTAATTGGTGA 57.217 32.000 0.00 0.00 33.99 4.02
2323 2359 7.011295 GCATGTTCCCATTATTGTTAATTGGTG 59.989 37.037 0.00 0.00 33.99 4.17
2324 2360 7.047271 GCATGTTCCCATTATTGTTAATTGGT 58.953 34.615 0.00 0.00 33.99 3.67
2325 2361 6.482973 GGCATGTTCCCATTATTGTTAATTGG 59.517 38.462 0.00 0.00 33.72 3.16
2326 2362 6.482973 GGGCATGTTCCCATTATTGTTAATTG 59.517 38.462 3.64 0.00 45.82 2.32
2327 2363 6.591001 GGGCATGTTCCCATTATTGTTAATT 58.409 36.000 3.64 0.00 45.82 1.40
2328 2364 6.173427 GGGCATGTTCCCATTATTGTTAAT 57.827 37.500 3.64 0.00 45.82 1.40
2329 2365 5.606348 GGGCATGTTCCCATTATTGTTAA 57.394 39.130 3.64 0.00 45.82 2.01
2354 2390 2.835431 ATCGGGCGGTCCAGAGAG 60.835 66.667 0.00 0.00 39.89 3.20
2355 2391 2.833582 GATCGGGCGGTCCAGAGA 60.834 66.667 0.00 0.00 39.89 3.10
2356 2392 4.271816 CGATCGGGCGGTCCAGAG 62.272 72.222 7.38 0.00 39.89 3.35
2357 2393 4.807631 TCGATCGGGCGGTCCAGA 62.808 66.667 16.41 0.00 40.79 3.86
2358 2394 4.271816 CTCGATCGGGCGGTCCAG 62.272 72.222 16.41 0.00 34.36 3.86
2360 2396 4.267503 GACTCGATCGGGCGGTCC 62.268 72.222 16.63 0.00 0.00 4.46
2361 2397 2.280823 AAAGACTCGATCGGGCGGTC 62.281 60.000 16.63 16.90 34.15 4.79
2362 2398 2.348888 AAAGACTCGATCGGGCGGT 61.349 57.895 16.63 9.14 0.00 5.68
2363 2399 1.878522 CAAAGACTCGATCGGGCGG 60.879 63.158 16.63 5.87 0.00 6.13
2364 2400 0.099968 TACAAAGACTCGATCGGGCG 59.900 55.000 16.63 6.67 0.00 6.13
2365 2401 2.288961 TTACAAAGACTCGATCGGGC 57.711 50.000 16.63 8.21 0.00 6.13
2366 2402 4.106029 TCTTTACAAAGACTCGATCGGG 57.894 45.455 14.88 14.88 39.95 5.14
2367 2403 4.026475 GCATCTTTACAAAGACTCGATCGG 60.026 45.833 16.41 8.65 46.80 4.18
2368 2404 4.800993 AGCATCTTTACAAAGACTCGATCG 59.199 41.667 9.36 9.36 46.80 3.69
2369 2405 6.075310 CGTAGCATCTTTACAAAGACTCGATC 60.075 42.308 6.56 0.00 46.80 3.69
2370 2406 5.744345 CGTAGCATCTTTACAAAGACTCGAT 59.256 40.000 6.56 1.19 46.80 3.59
2371 2407 5.093457 CGTAGCATCTTTACAAAGACTCGA 58.907 41.667 6.56 0.00 46.80 4.04
2372 2408 5.093457 TCGTAGCATCTTTACAAAGACTCG 58.907 41.667 6.56 7.63 46.80 4.18
2373 2409 6.531948 ACATCGTAGCATCTTTACAAAGACTC 59.468 38.462 6.56 2.55 46.80 3.36
2374 2410 6.398918 ACATCGTAGCATCTTTACAAAGACT 58.601 36.000 6.56 3.84 46.80 3.24
2375 2411 6.648725 ACATCGTAGCATCTTTACAAAGAC 57.351 37.500 6.56 0.00 46.80 3.01
2377 2413 7.275779 ACTGTACATCGTAGCATCTTTACAAAG 59.724 37.037 0.00 0.00 37.36 2.77
2378 2414 7.062956 CACTGTACATCGTAGCATCTTTACAAA 59.937 37.037 0.00 0.00 0.00 2.83
2379 2415 6.530181 CACTGTACATCGTAGCATCTTTACAA 59.470 38.462 0.00 0.00 0.00 2.41
2380 2416 6.033966 CACTGTACATCGTAGCATCTTTACA 58.966 40.000 0.00 0.00 0.00 2.41
2381 2417 6.263344 TCACTGTACATCGTAGCATCTTTAC 58.737 40.000 0.00 0.00 0.00 2.01
2382 2418 6.445357 TCACTGTACATCGTAGCATCTTTA 57.555 37.500 0.00 0.00 0.00 1.85
2383 2419 5.324784 TCACTGTACATCGTAGCATCTTT 57.675 39.130 0.00 0.00 0.00 2.52
2384 2420 4.983671 TCACTGTACATCGTAGCATCTT 57.016 40.909 0.00 0.00 0.00 2.40
2511 2552 1.135024 GCGAACAATTGATGCCACCAT 60.135 47.619 13.59 0.00 0.00 3.55
2513 2554 0.527565 AGCGAACAATTGATGCCACC 59.472 50.000 13.59 0.00 0.00 4.61
2514 2555 1.199789 TCAGCGAACAATTGATGCCAC 59.800 47.619 13.59 0.00 0.00 5.01
2516 2557 2.857592 ATCAGCGAACAATTGATGCC 57.142 45.000 13.59 0.00 30.76 4.40
2749 2790 5.772393 ACCTGGTGTGATGGTTTATCTTA 57.228 39.130 0.00 0.00 36.71 2.10
2759 2800 2.567169 TGTCTTCCTACCTGGTGTGATG 59.433 50.000 10.23 8.08 37.07 3.07
2762 2803 3.703001 AATGTCTTCCTACCTGGTGTG 57.297 47.619 10.23 2.03 37.07 3.82
2904 2945 0.541863 GATGGTGGTCCCGAACATCT 59.458 55.000 0.84 0.00 36.06 2.90
3019 3060 2.081462 CCGGATTTTGAGCCGTTTACT 58.919 47.619 0.00 0.00 45.85 2.24
3022 3063 1.000717 CAACCGGATTTTGAGCCGTTT 60.001 47.619 9.46 0.00 45.85 3.60
3034 3075 1.227383 GCAGAATCCCCAACCGGAT 59.773 57.895 9.46 0.00 44.94 4.18
3132 3173 3.243816 TGACCCTGCTGCAGCTCA 61.244 61.111 36.61 28.29 42.66 4.26
3161 3202 8.663911 TGAAAATTTTCAACTGAAATCACCAAC 58.336 29.630 27.22 0.00 43.62 3.77
3230 3272 5.049828 CCCTTCAACACCTGAATTTTGTTC 58.950 41.667 0.00 0.00 43.20 3.18
3234 3276 3.653164 ACCCCTTCAACACCTGAATTTT 58.347 40.909 0.00 0.00 43.20 1.82
3238 3280 3.955524 TTTACCCCTTCAACACCTGAA 57.044 42.857 0.00 0.00 41.93 3.02


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

AutoCloner maintained by Alex Coulton.