Multiple sequence alignment - TraesCS1B01G251400

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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 TraesCS1B01G251400 chr1B 100.000 3523 0 0 1 3523 444001012 444004534 0.000000e+00 6506.0
1 TraesCS1B01G251400 chr1B 94.479 163 7 1 693 853 444001543 444001705 2.100000e-62 250.0
2 TraesCS1B01G251400 chr1B 94.479 163 7 1 532 694 444001704 444001864 2.100000e-62 250.0
3 TraesCS1B01G251400 chr1B 84.112 107 9 1 1936 2034 160325324 160325218 2.890000e-16 97.1
4 TraesCS1B01G251400 chr1A 92.808 2336 92 27 793 3105 426530120 426532402 0.000000e+00 3314.0
5 TraesCS1B01G251400 chr1A 95.302 298 8 2 182 473 426529759 426530056 5.320000e-128 468.0
6 TraesCS1B01G251400 chr1A 94.340 159 9 0 1 159 426529539 426529697 9.770000e-61 244.0
7 TraesCS1B01G251400 chr1A 97.778 135 3 0 3173 3307 426532418 426532552 2.110000e-57 233.0
8 TraesCS1B01G251400 chr1A 92.308 91 4 1 492 579 426530027 426530117 3.690000e-25 126.0
9 TraesCS1B01G251400 chr1A 88.350 103 8 2 1935 2033 481925906 481926008 1.720000e-23 121.0
10 TraesCS1B01G251400 chr1A 83.178 107 10 1 1936 2034 106228181 106228075 1.350000e-14 91.6
11 TraesCS1B01G251400 chr1A 88.889 54 3 1 693 743 426530067 426530120 2.940000e-06 63.9
12 TraesCS1B01G251400 chr1D 96.231 1539 51 5 1988 3523 329479651 329481185 0.000000e+00 2514.0
13 TraesCS1B01G251400 chr1D 97.788 1311 22 3 640 1944 329478337 329479646 0.000000e+00 2254.0
14 TraesCS1B01G251400 chr1D 93.871 310 13 2 170 473 329477794 329478103 2.480000e-126 462.0
15 TraesCS1B01G251400 chr1D 94.643 280 12 2 492 770 329478074 329478351 6.990000e-117 431.0
16 TraesCS1B01G251400 chr1D 95.597 159 6 1 1 159 329477574 329477731 1.620000e-63 254.0
17 TraesCS1B01G251400 chr1D 92.638 163 8 2 693 853 329478114 329478274 7.610000e-57 231.0
18 TraesCS1B01G251400 chr1D 92.025 163 10 2 532 694 329478390 329478549 3.540000e-55 226.0
19 TraesCS1B01G251400 chr1D 85.227 88 9 2 1936 2019 316618831 316618918 1.740000e-13 87.9
20 TraesCS1B01G251400 chr1D 81.731 104 13 3 1936 2034 316618933 316618831 8.110000e-12 82.4
21 TraesCS1B01G251400 chr1D 92.727 55 2 1 801 853 329478337 329478391 1.050000e-10 78.7
22 TraesCS1B01G251400 chr3D 87.611 113 10 3 1922 2034 473457369 473457477 1.030000e-25 128.0
23 TraesCS1B01G251400 chr7B 96.000 50 2 0 1986 2035 434839303 434839254 8.110000e-12 82.4
24 TraesCS1B01G251400 chr7B 80.000 110 14 5 1936 2037 282334354 282334463 1.360000e-09 75.0
25 TraesCS1B01G251400 chr4A 81.373 102 11 1 1935 2028 578555239 578555138 3.770000e-10 76.8


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 TraesCS1B01G251400 chr1B 444001012 444004534 3522 False 2335.333333 6506 96.319333 1 3523 3 chr1B.!!$F1 3522
1 TraesCS1B01G251400 chr1A 426529539 426532552 3013 False 741.483333 3314 93.570833 1 3307 6 chr1A.!!$F2 3306
2 TraesCS1B01G251400 chr1D 329477574 329481185 3611 False 806.337500 2514 94.440000 1 3523 8 chr1D.!!$F2 3522

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
145 146 0.179127 TCTGCTACGTCTGATGCTGC 60.179 55.000 0.00 0.0 0.00 5.25 F
179 221 0.247736 AGCTGCTACTCCAGTTTCCG 59.752 55.000 0.00 0.0 35.28 4.30 F
652 867 1.289160 TTCTAGCAATGGCCTCCTGT 58.711 50.000 3.32 0.0 42.56 4.00 F
1979 2322 2.093500 TGGCGCTCAAACAGATGTATCT 60.093 45.455 7.64 0.0 37.72 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1944 2287 0.736053 GCGCCAATTAATTCCGGACA 59.264 50.000 1.83 0.0 0.00 4.02 R
1947 2290 1.021202 TGAGCGCCAATTAATTCCGG 58.979 50.000 2.29 0.0 0.00 5.14 R
2181 2524 1.408822 GGGGGCAGTTTAGGTCTCATG 60.409 57.143 0.00 0.0 0.00 3.07 R
3353 3714 0.038744 CTTGGGCCATCTGGTTGTCT 59.961 55.000 7.26 0.0 37.57 3.41 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
80 81 5.197451 TCCAAAATGGGCGTAAGTATCAAT 58.803 37.500 0.00 0.00 38.32 2.57
98 99 8.495949 AGTATCAATTAATTTTCAGATACGCGG 58.504 33.333 20.04 0.00 41.44 6.46
145 146 0.179127 TCTGCTACGTCTGATGCTGC 60.179 55.000 0.00 0.00 0.00 5.25
169 211 5.593679 TTCGTTAGGATTTAGCTGCTACT 57.406 39.130 9.27 5.85 0.00 2.57
170 212 5.184340 TCGTTAGGATTTAGCTGCTACTC 57.816 43.478 9.27 9.12 0.00 2.59
171 213 4.037684 TCGTTAGGATTTAGCTGCTACTCC 59.962 45.833 21.60 21.60 0.00 3.85
172 214 4.202121 CGTTAGGATTTAGCTGCTACTCCA 60.202 45.833 26.90 16.35 0.00 3.86
173 215 5.293560 GTTAGGATTTAGCTGCTACTCCAG 58.706 45.833 26.90 0.00 35.93 3.86
174 216 3.379452 AGGATTTAGCTGCTACTCCAGT 58.621 45.455 26.90 13.29 35.28 4.00
175 217 3.777522 AGGATTTAGCTGCTACTCCAGTT 59.222 43.478 26.90 12.78 35.28 3.16
176 218 4.226168 AGGATTTAGCTGCTACTCCAGTTT 59.774 41.667 26.90 12.53 35.28 2.66
177 219 4.572795 GGATTTAGCTGCTACTCCAGTTTC 59.427 45.833 23.13 8.33 35.28 2.78
178 220 3.611766 TTAGCTGCTACTCCAGTTTCC 57.388 47.619 9.27 0.00 35.28 3.13
179 221 0.247736 AGCTGCTACTCCAGTTTCCG 59.752 55.000 0.00 0.00 35.28 4.30
180 222 1.362406 GCTGCTACTCCAGTTTCCGC 61.362 60.000 0.00 0.00 35.28 5.54
255 313 4.572985 CCATTAACTGGTGTGGCATATG 57.427 45.455 0.00 0.00 40.49 1.78
256 314 3.953612 CCATTAACTGGTGTGGCATATGT 59.046 43.478 4.29 0.00 40.49 2.29
426 485 2.936919 TGTTCCACATTCTGTGCTCT 57.063 45.000 1.71 0.00 46.51 4.09
467 526 3.118038 ACTTGTACCCTGAAGTTGCTCAA 60.118 43.478 0.00 0.00 0.00 3.02
468 527 3.788227 TGTACCCTGAAGTTGCTCAAT 57.212 42.857 0.00 0.00 0.00 2.57
469 528 4.901197 TGTACCCTGAAGTTGCTCAATA 57.099 40.909 0.00 0.00 0.00 1.90
470 529 5.435686 TGTACCCTGAAGTTGCTCAATAT 57.564 39.130 0.00 0.00 0.00 1.28
471 530 5.815581 TGTACCCTGAAGTTGCTCAATATT 58.184 37.500 0.00 0.00 0.00 1.28
472 531 6.245408 TGTACCCTGAAGTTGCTCAATATTT 58.755 36.000 0.00 0.00 0.00 1.40
473 532 5.649782 ACCCTGAAGTTGCTCAATATTTG 57.350 39.130 0.00 0.00 0.00 2.32
474 533 5.079643 ACCCTGAAGTTGCTCAATATTTGT 58.920 37.500 0.00 0.00 0.00 2.83
475 534 6.245408 ACCCTGAAGTTGCTCAATATTTGTA 58.755 36.000 0.00 0.00 0.00 2.41
476 535 6.151144 ACCCTGAAGTTGCTCAATATTTGTAC 59.849 38.462 0.00 0.00 0.00 2.90
477 536 6.404734 CCCTGAAGTTGCTCAATATTTGTACC 60.405 42.308 0.00 0.00 0.00 3.34
478 537 6.404734 CCTGAAGTTGCTCAATATTTGTACCC 60.405 42.308 0.00 0.00 0.00 3.69
479 538 6.245408 TGAAGTTGCTCAATATTTGTACCCT 58.755 36.000 0.00 0.00 0.00 4.34
480 539 6.150976 TGAAGTTGCTCAATATTTGTACCCTG 59.849 38.462 0.00 0.00 0.00 4.45
481 540 5.815581 AGTTGCTCAATATTTGTACCCTGA 58.184 37.500 0.00 0.00 0.00 3.86
482 541 6.245408 AGTTGCTCAATATTTGTACCCTGAA 58.755 36.000 0.00 0.00 0.00 3.02
483 542 6.375455 AGTTGCTCAATATTTGTACCCTGAAG 59.625 38.462 0.00 0.00 0.00 3.02
484 543 5.815581 TGCTCAATATTTGTACCCTGAAGT 58.184 37.500 0.00 0.00 0.00 3.01
485 544 6.245408 TGCTCAATATTTGTACCCTGAAGTT 58.755 36.000 0.00 0.00 0.00 2.66
486 545 6.150976 TGCTCAATATTTGTACCCTGAAGTTG 59.849 38.462 0.00 0.00 0.00 3.16
487 546 6.509418 TCAATATTTGTACCCTGAAGTTGC 57.491 37.500 0.00 0.00 0.00 4.17
488 547 6.245408 TCAATATTTGTACCCTGAAGTTGCT 58.755 36.000 0.00 0.00 0.00 3.91
489 548 6.374333 TCAATATTTGTACCCTGAAGTTGCTC 59.626 38.462 0.00 0.00 0.00 4.26
490 549 3.569194 TTTGTACCCTGAAGTTGCTCA 57.431 42.857 0.00 0.00 0.00 4.26
491 550 3.569194 TTGTACCCTGAAGTTGCTCAA 57.431 42.857 0.00 0.00 0.00 3.02
492 551 3.788227 TGTACCCTGAAGTTGCTCAAT 57.212 42.857 0.00 0.00 0.00 2.57
493 552 4.901197 TGTACCCTGAAGTTGCTCAATA 57.099 40.909 0.00 0.00 0.00 1.90
494 553 5.435686 TGTACCCTGAAGTTGCTCAATAT 57.564 39.130 0.00 0.00 0.00 1.28
495 554 5.815581 TGTACCCTGAAGTTGCTCAATATT 58.184 37.500 0.00 0.00 0.00 1.28
496 555 6.245408 TGTACCCTGAAGTTGCTCAATATTT 58.755 36.000 0.00 0.00 0.00 1.40
497 556 5.649782 ACCCTGAAGTTGCTCAATATTTG 57.350 39.130 0.00 0.00 0.00 2.32
498 557 5.079643 ACCCTGAAGTTGCTCAATATTTGT 58.920 37.500 0.00 0.00 0.00 2.83
499 558 6.245408 ACCCTGAAGTTGCTCAATATTTGTA 58.755 36.000 0.00 0.00 0.00 2.41
500 559 6.151144 ACCCTGAAGTTGCTCAATATTTGTAC 59.849 38.462 0.00 0.00 0.00 2.90
501 560 6.404734 CCCTGAAGTTGCTCAATATTTGTACC 60.405 42.308 0.00 0.00 0.00 3.34
502 561 6.404734 CCTGAAGTTGCTCAATATTTGTACCC 60.405 42.308 0.00 0.00 0.00 3.69
503 562 6.245408 TGAAGTTGCTCAATATTTGTACCCT 58.755 36.000 0.00 0.00 0.00 4.34
504 563 6.150976 TGAAGTTGCTCAATATTTGTACCCTG 59.849 38.462 0.00 0.00 0.00 4.45
505 564 5.815581 AGTTGCTCAATATTTGTACCCTGA 58.184 37.500 0.00 0.00 0.00 3.86
506 565 6.245408 AGTTGCTCAATATTTGTACCCTGAA 58.755 36.000 0.00 0.00 0.00 3.02
507 566 6.375455 AGTTGCTCAATATTTGTACCCTGAAG 59.625 38.462 0.00 0.00 0.00 3.02
508 567 5.815581 TGCTCAATATTTGTACCCTGAAGT 58.184 37.500 0.00 0.00 0.00 3.01
509 568 6.245408 TGCTCAATATTTGTACCCTGAAGTT 58.755 36.000 0.00 0.00 0.00 2.66
510 569 6.150976 TGCTCAATATTTGTACCCTGAAGTTG 59.849 38.462 0.00 0.00 0.00 3.16
511 570 6.509418 TCAATATTTGTACCCTGAAGTTGC 57.491 37.500 0.00 0.00 0.00 4.17
512 571 6.245408 TCAATATTTGTACCCTGAAGTTGCT 58.755 36.000 0.00 0.00 0.00 3.91
513 572 6.374333 TCAATATTTGTACCCTGAAGTTGCTC 59.626 38.462 0.00 0.00 0.00 4.26
514 573 3.569194 TTTGTACCCTGAAGTTGCTCA 57.431 42.857 0.00 0.00 0.00 4.26
578 793 8.506168 TTTATTTTCTGAATTAGCTGATCCGT 57.494 30.769 0.00 0.00 0.00 4.69
579 794 5.801350 TTTTCTGAATTAGCTGATCCGTG 57.199 39.130 0.00 0.00 0.00 4.94
580 795 2.826428 TCTGAATTAGCTGATCCGTGC 58.174 47.619 0.00 0.00 0.00 5.34
581 796 2.432146 TCTGAATTAGCTGATCCGTGCT 59.568 45.455 0.00 9.37 42.67 4.40
582 797 3.636764 TCTGAATTAGCTGATCCGTGCTA 59.363 43.478 0.00 7.73 40.35 3.49
583 798 3.982475 TGAATTAGCTGATCCGTGCTAG 58.018 45.455 0.00 0.00 41.89 3.42
584 799 3.384789 TGAATTAGCTGATCCGTGCTAGT 59.615 43.478 0.00 6.87 41.89 2.57
585 800 4.583073 TGAATTAGCTGATCCGTGCTAGTA 59.417 41.667 0.00 0.00 41.89 1.82
586 801 5.243954 TGAATTAGCTGATCCGTGCTAGTAT 59.756 40.000 0.00 3.12 41.89 2.12
587 802 5.730296 ATTAGCTGATCCGTGCTAGTATT 57.270 39.130 0.00 0.00 41.89 1.89
588 803 6.835819 ATTAGCTGATCCGTGCTAGTATTA 57.164 37.500 0.00 0.27 41.89 0.98
589 804 6.644248 TTAGCTGATCCGTGCTAGTATTAA 57.356 37.500 0.00 0.00 41.89 1.40
590 805 4.872664 AGCTGATCCGTGCTAGTATTAAC 58.127 43.478 3.59 0.00 37.81 2.01
591 806 4.341235 AGCTGATCCGTGCTAGTATTAACA 59.659 41.667 3.59 0.00 37.81 2.41
592 807 4.444720 GCTGATCCGTGCTAGTATTAACAC 59.555 45.833 0.00 0.00 0.00 3.32
593 808 5.736492 GCTGATCCGTGCTAGTATTAACACT 60.736 44.000 0.00 0.00 0.00 3.55
594 809 5.828747 TGATCCGTGCTAGTATTAACACTC 58.171 41.667 0.00 0.00 0.00 3.51
595 810 4.644103 TCCGTGCTAGTATTAACACTCC 57.356 45.455 0.00 0.00 0.00 3.85
596 811 4.018490 TCCGTGCTAGTATTAACACTCCA 58.982 43.478 0.00 0.00 0.00 3.86
597 812 4.463539 TCCGTGCTAGTATTAACACTCCAA 59.536 41.667 0.00 0.00 0.00 3.53
598 813 5.128171 TCCGTGCTAGTATTAACACTCCAAT 59.872 40.000 0.00 0.00 0.00 3.16
599 814 5.815740 CCGTGCTAGTATTAACACTCCAATT 59.184 40.000 0.00 0.00 0.00 2.32
600 815 6.315393 CCGTGCTAGTATTAACACTCCAATTT 59.685 38.462 0.00 0.00 0.00 1.82
601 816 7.399523 CGTGCTAGTATTAACACTCCAATTTC 58.600 38.462 0.00 0.00 0.00 2.17
602 817 7.465513 CGTGCTAGTATTAACACTCCAATTTCC 60.466 40.741 0.00 0.00 0.00 3.13
603 818 6.826741 TGCTAGTATTAACACTCCAATTTCCC 59.173 38.462 0.00 0.00 0.00 3.97
604 819 6.262496 GCTAGTATTAACACTCCAATTTCCCC 59.738 42.308 0.00 0.00 0.00 4.81
605 820 6.402981 AGTATTAACACTCCAATTTCCCCT 57.597 37.500 0.00 0.00 0.00 4.79
606 821 6.187682 AGTATTAACACTCCAATTTCCCCTG 58.812 40.000 0.00 0.00 0.00 4.45
607 822 4.463050 TTAACACTCCAATTTCCCCTGT 57.537 40.909 0.00 0.00 0.00 4.00
608 823 5.586155 TTAACACTCCAATTTCCCCTGTA 57.414 39.130 0.00 0.00 0.00 2.74
609 824 4.463050 AACACTCCAATTTCCCCTGTAA 57.537 40.909 0.00 0.00 0.00 2.41
610 825 4.463050 ACACTCCAATTTCCCCTGTAAA 57.537 40.909 0.00 0.00 0.00 2.01
611 826 4.407365 ACACTCCAATTTCCCCTGTAAAG 58.593 43.478 0.00 0.00 0.00 1.85
612 827 4.141018 ACACTCCAATTTCCCCTGTAAAGT 60.141 41.667 0.00 0.00 0.00 2.66
613 828 5.073965 ACACTCCAATTTCCCCTGTAAAGTA 59.926 40.000 0.00 0.00 0.00 2.24
614 829 6.187682 CACTCCAATTTCCCCTGTAAAGTAT 58.812 40.000 0.00 0.00 0.00 2.12
615 830 7.037153 ACACTCCAATTTCCCCTGTAAAGTATA 60.037 37.037 0.00 0.00 0.00 1.47
616 831 7.282450 CACTCCAATTTCCCCTGTAAAGTATAC 59.718 40.741 0.00 0.00 0.00 1.47
617 832 7.037153 ACTCCAATTTCCCCTGTAAAGTATACA 60.037 37.037 5.50 0.00 0.00 2.29
618 833 7.114095 TCCAATTTCCCCTGTAAAGTATACAC 58.886 38.462 5.50 0.00 0.00 2.90
619 834 6.887545 CCAATTTCCCCTGTAAAGTATACACA 59.112 38.462 5.50 0.00 0.00 3.72
620 835 7.559897 CCAATTTCCCCTGTAAAGTATACACAT 59.440 37.037 5.50 0.00 0.00 3.21
621 836 9.621629 CAATTTCCCCTGTAAAGTATACACATA 57.378 33.333 5.50 0.00 0.00 2.29
623 838 9.793259 ATTTCCCCTGTAAAGTATACACATATG 57.207 33.333 5.50 0.00 0.00 1.78
624 839 7.311092 TCCCCTGTAAAGTATACACATATGG 57.689 40.000 7.80 0.00 0.00 2.74
625 840 6.847567 TCCCCTGTAAAGTATACACATATGGT 59.152 38.462 7.80 4.97 0.00 3.55
650 865 3.456380 TTTTTCTAGCAATGGCCTCCT 57.544 42.857 3.32 0.00 42.56 3.69
651 866 2.425143 TTTCTAGCAATGGCCTCCTG 57.575 50.000 3.32 0.00 42.56 3.86
652 867 1.289160 TTCTAGCAATGGCCTCCTGT 58.711 50.000 3.32 0.00 42.56 4.00
653 868 2.174685 TCTAGCAATGGCCTCCTGTA 57.825 50.000 3.32 0.00 42.56 2.74
654 869 2.694397 TCTAGCAATGGCCTCCTGTAT 58.306 47.619 3.32 0.00 42.56 2.29
655 870 3.048600 TCTAGCAATGGCCTCCTGTATT 58.951 45.455 3.32 0.00 42.56 1.89
656 871 2.834638 AGCAATGGCCTCCTGTATTT 57.165 45.000 3.32 0.00 42.56 1.40
657 872 2.381911 AGCAATGGCCTCCTGTATTTG 58.618 47.619 3.32 0.00 42.56 2.32
658 873 2.102578 GCAATGGCCTCCTGTATTTGT 58.897 47.619 3.32 0.00 0.00 2.83
659 874 3.053693 AGCAATGGCCTCCTGTATTTGTA 60.054 43.478 3.32 0.00 42.56 2.41
660 875 3.891366 GCAATGGCCTCCTGTATTTGTAT 59.109 43.478 3.32 0.00 0.00 2.29
661 876 4.342092 GCAATGGCCTCCTGTATTTGTATT 59.658 41.667 3.32 0.00 0.00 1.89
662 877 5.163416 GCAATGGCCTCCTGTATTTGTATTT 60.163 40.000 3.32 0.00 0.00 1.40
663 878 6.630188 GCAATGGCCTCCTGTATTTGTATTTT 60.630 38.462 3.32 0.00 0.00 1.82
664 879 5.913137 TGGCCTCCTGTATTTGTATTTTG 57.087 39.130 3.32 0.00 0.00 2.44
665 880 5.575157 TGGCCTCCTGTATTTGTATTTTGA 58.425 37.500 3.32 0.00 0.00 2.69
666 881 6.013379 TGGCCTCCTGTATTTGTATTTTGAA 58.987 36.000 3.32 0.00 0.00 2.69
667 882 6.495181 TGGCCTCCTGTATTTGTATTTTGAAA 59.505 34.615 3.32 0.00 0.00 2.69
668 883 6.811665 GGCCTCCTGTATTTGTATTTTGAAAC 59.188 38.462 0.00 0.00 0.00 2.78
669 884 6.811665 GCCTCCTGTATTTGTATTTTGAAACC 59.188 38.462 0.00 0.00 0.00 3.27
670 885 7.320399 CCTCCTGTATTTGTATTTTGAAACCC 58.680 38.462 0.00 0.00 0.00 4.11
671 886 6.915349 TCCTGTATTTGTATTTTGAAACCCG 58.085 36.000 0.00 0.00 0.00 5.28
672 887 6.490721 TCCTGTATTTGTATTTTGAAACCCGT 59.509 34.615 0.00 0.00 0.00 5.28
673 888 7.664731 TCCTGTATTTGTATTTTGAAACCCGTA 59.335 33.333 0.00 0.00 0.00 4.02
674 889 7.751793 CCTGTATTTGTATTTTGAAACCCGTAC 59.248 37.037 0.00 0.00 0.00 3.67
675 890 8.162878 TGTATTTGTATTTTGAAACCCGTACA 57.837 30.769 0.00 0.00 0.00 2.90
676 891 8.794553 TGTATTTGTATTTTGAAACCCGTACAT 58.205 29.630 0.00 0.00 0.00 2.29
681 896 9.669887 TTGTATTTTGAAACCCGTACATATACT 57.330 29.630 0.00 0.00 0.00 2.12
682 897 9.669887 TGTATTTTGAAACCCGTACATATACTT 57.330 29.630 0.00 0.00 0.00 2.24
686 901 9.499479 TTTTGAAACCCGTACATATACTTAACA 57.501 29.630 0.00 0.00 0.00 2.41
687 902 9.669887 TTTGAAACCCGTACATATACTTAACAT 57.330 29.630 0.00 0.00 0.00 2.71
688 903 8.651391 TGAAACCCGTACATATACTTAACATG 57.349 34.615 0.00 0.00 0.00 3.21
689 904 7.711772 TGAAACCCGTACATATACTTAACATGG 59.288 37.037 0.00 0.00 0.00 3.66
690 905 6.736110 ACCCGTACATATACTTAACATGGT 57.264 37.500 0.00 0.00 0.00 3.55
691 906 6.518493 ACCCGTACATATACTTAACATGGTG 58.482 40.000 0.00 0.00 0.00 4.17
692 907 6.324512 ACCCGTACATATACTTAACATGGTGA 59.675 38.462 0.00 0.00 0.00 4.02
693 908 7.147689 ACCCGTACATATACTTAACATGGTGAA 60.148 37.037 0.00 0.00 0.00 3.18
694 909 7.384115 CCCGTACATATACTTAACATGGTGAAG 59.616 40.741 0.00 0.00 30.68 3.02
695 910 7.095774 CCGTACATATACTTAACATGGTGAAGC 60.096 40.741 0.00 0.00 27.32 3.86
696 911 7.436970 CGTACATATACTTAACATGGTGAAGCA 59.563 37.037 0.00 0.00 27.32 3.91
697 912 9.273016 GTACATATACTTAACATGGTGAAGCAT 57.727 33.333 0.00 0.00 27.32 3.79
698 913 8.158169 ACATATACTTAACATGGTGAAGCATG 57.842 34.615 18.38 18.38 27.32 4.06
699 914 7.992608 ACATATACTTAACATGGTGAAGCATGA 59.007 33.333 24.90 4.89 27.32 3.07
700 915 8.839343 CATATACTTAACATGGTGAAGCATGAA 58.161 33.333 24.90 11.51 27.32 2.57
701 916 5.376854 ACTTAACATGGTGAAGCATGAAC 57.623 39.130 24.90 0.00 27.32 3.18
702 917 4.826733 ACTTAACATGGTGAAGCATGAACA 59.173 37.500 24.90 9.50 27.32 3.18
703 918 5.477984 ACTTAACATGGTGAAGCATGAACAT 59.522 36.000 24.90 12.38 27.32 2.71
704 919 6.658816 ACTTAACATGGTGAAGCATGAACATA 59.341 34.615 24.90 11.61 27.32 2.29
705 920 5.571784 AACATGGTGAAGCATGAACATAG 57.428 39.130 24.90 1.63 33.38 2.23
706 921 3.379372 ACATGGTGAAGCATGAACATAGC 59.621 43.478 24.90 0.00 33.38 2.97
707 922 3.354948 TGGTGAAGCATGAACATAGCT 57.645 42.857 0.00 0.00 41.03 3.32
779 1111 6.888088 ACCAATTTCCCCTGTAAAGTATACAC 59.112 38.462 5.50 0.00 0.00 2.90
1012 1346 8.584157 TGTGAACACCAAATATGAAGCTTTTAT 58.416 29.630 0.00 1.15 0.00 1.40
1047 1381 4.405116 AAAGCCAAGACAAGATTTTGCA 57.595 36.364 0.00 0.00 37.85 4.08
1117 1451 4.646945 ACTTTTCTCTGACTCTGTCTGACA 59.353 41.667 10.50 10.50 36.02 3.58
1362 1700 6.043411 CCATTGCTAGTCTTACACTACTTCC 58.957 44.000 0.00 0.00 36.43 3.46
1787 2129 6.881065 CCTAGTTCATCTCAATGGAAAGTTGA 59.119 38.462 0.00 0.00 34.63 3.18
1873 2216 7.342581 TGATGTGTATGGCTAAGGTATTGAAA 58.657 34.615 0.00 0.00 0.00 2.69
1955 2298 2.544844 ACTCCCTCTGTCCGGAATTA 57.455 50.000 5.23 0.00 0.00 1.40
1956 2299 2.829023 ACTCCCTCTGTCCGGAATTAA 58.171 47.619 5.23 0.00 0.00 1.40
1960 2303 3.118038 TCCCTCTGTCCGGAATTAATTGG 60.118 47.826 5.23 1.71 0.00 3.16
1970 2313 3.671971 CGGAATTAATTGGCGCTCAAACA 60.672 43.478 7.64 0.00 39.05 2.83
1979 2322 2.093500 TGGCGCTCAAACAGATGTATCT 60.093 45.455 7.64 0.00 37.72 1.98
1980 2323 3.132111 TGGCGCTCAAACAGATGTATCTA 59.868 43.478 7.64 0.00 34.85 1.98
1981 2324 3.738282 GGCGCTCAAACAGATGTATCTAG 59.262 47.826 7.64 0.00 34.85 2.43
1982 2325 3.183373 GCGCTCAAACAGATGTATCTAGC 59.817 47.826 0.00 0.00 34.85 3.42
1983 2326 4.363138 CGCTCAAACAGATGTATCTAGCA 58.637 43.478 11.84 0.00 34.68 3.49
1984 2327 4.208047 CGCTCAAACAGATGTATCTAGCAC 59.792 45.833 11.84 0.00 34.68 4.40
1985 2328 4.208047 GCTCAAACAGATGTATCTAGCACG 59.792 45.833 8.12 0.00 34.96 5.34
1986 2329 5.324784 TCAAACAGATGTATCTAGCACGT 57.675 39.130 0.00 0.00 34.85 4.49
2181 2524 9.624697 TGTGTAAGAATGATTTTTGATAAGCAC 57.375 29.630 0.00 0.00 0.00 4.40
2187 2530 8.963725 AGAATGATTTTTGATAAGCACATGAGA 58.036 29.630 0.00 0.00 0.00 3.27
2560 2903 0.612453 TGAAATGCTCCATGGCTGCA 60.612 50.000 26.49 26.49 41.13 4.41
2563 2906 2.076207 AATGCTCCATGGCTGCAATA 57.924 45.000 27.50 11.72 40.24 1.90
2594 2937 0.037326 CGCTTTGCACTACCCAGAGA 60.037 55.000 0.00 0.00 0.00 3.10
2638 2981 2.689471 TCCATGCCTGTAATTGTCATGC 59.311 45.455 0.00 0.00 34.72 4.06
2709 3052 5.964477 ACTTAAAGGTCATCTATGGGACTCA 59.036 40.000 0.00 0.00 34.49 3.41
2987 3347 7.798071 TCCTTTTTCTTAGGAACACTGTAGAA 58.202 34.615 0.00 0.00 38.83 2.10
2995 3355 8.812972 TCTTAGGAACACTGTAGAAACACATAT 58.187 33.333 0.00 0.00 0.00 1.78
3002 3362 4.864806 ACTGTAGAAACACATATGCTCACG 59.135 41.667 1.58 0.00 0.00 4.35
3014 3374 0.812549 TGCTCACGTGCGATAGGTTA 59.187 50.000 11.67 0.00 35.36 2.85
3089 3449 3.775866 TCACCATTACCCTTTCCGTATGA 59.224 43.478 0.00 0.00 0.00 2.15
3108 3469 4.122143 TGACTTTTTGTTTGAAGGGCAG 57.878 40.909 0.00 0.00 0.00 4.85
3335 3696 0.896940 AACTTGGCACCATGGCTCAG 60.897 55.000 13.04 3.52 44.10 3.35
3336 3697 1.001764 CTTGGCACCATGGCTCAGA 60.002 57.895 13.04 0.00 44.10 3.27
3346 3707 2.159142 CCATGGCTCAGAAGATTTTGCC 60.159 50.000 0.00 0.00 40.62 4.52
3353 3714 4.154195 GCTCAGAAGATTTTGCCGTTTCTA 59.846 41.667 0.00 0.00 0.00 2.10
3367 3728 2.673368 CGTTTCTAGACAACCAGATGGC 59.327 50.000 0.00 0.00 39.32 4.40
3401 3762 7.686127 GCAAGGCTGATTATCTCCATGAAAAAT 60.686 37.037 11.28 0.00 0.00 1.82
3406 3767 7.650903 GCTGATTATCTCCATGAAAAATGGAAC 59.349 37.037 8.34 0.00 46.50 3.62
3407 3768 8.827832 TGATTATCTCCATGAAAAATGGAACT 57.172 30.769 8.34 2.06 46.50 3.01
3424 3785 3.935828 GGAACTGCTAACTTAGGCTTCAG 59.064 47.826 0.00 0.00 0.00 3.02
3451 3812 3.328931 TGAAAAGCCTCCAGAACAGAGAT 59.671 43.478 0.00 0.00 32.86 2.75
3502 3863 1.203994 CCAGCATTCCTCAGCAAAAGG 59.796 52.381 0.00 0.00 35.05 3.11
3515 3876 2.363359 AGCAAAAGGACAGCTCCAAAAG 59.637 45.455 0.00 0.00 39.39 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 5.295787 AGAATGCCGCGTATCTGAAAATTAA 59.704 36.000 4.92 0.00 0.00 1.40
98 99 8.422566 ACAGTAGGAATTAGTAGGTAAGAATGC 58.577 37.037 0.00 0.00 0.00 3.56
145 146 6.043411 AGTAGCAGCTAAATCCTAACGAAAG 58.957 40.000 2.87 0.00 0.00 2.62
169 211 1.582610 GCATTTCGGCGGAAACTGGA 61.583 55.000 20.18 0.00 44.43 3.86
170 212 1.154035 GCATTTCGGCGGAAACTGG 60.154 57.895 20.18 13.92 44.43 4.00
171 213 0.240945 AAGCATTTCGGCGGAAACTG 59.759 50.000 20.18 18.30 44.43 3.16
172 214 1.816074 TAAGCATTTCGGCGGAAACT 58.184 45.000 20.18 11.82 44.43 2.66
173 215 2.247637 GTTAAGCATTTCGGCGGAAAC 58.752 47.619 20.18 9.86 44.43 2.78
174 216 1.135916 CGTTAAGCATTTCGGCGGAAA 60.136 47.619 20.08 20.08 45.60 3.13
175 217 0.444651 CGTTAAGCATTTCGGCGGAA 59.555 50.000 1.65 1.65 39.27 4.30
176 218 2.083183 CGTTAAGCATTTCGGCGGA 58.917 52.632 7.21 0.00 39.27 5.54
177 219 4.662859 CGTTAAGCATTTCGGCGG 57.337 55.556 7.21 0.00 39.27 6.13
467 526 5.815581 TGAGCAACTTCAGGGTACAAATAT 58.184 37.500 0.00 0.00 0.00 1.28
468 527 5.235850 TGAGCAACTTCAGGGTACAAATA 57.764 39.130 0.00 0.00 0.00 1.40
469 528 4.098914 TGAGCAACTTCAGGGTACAAAT 57.901 40.909 0.00 0.00 0.00 2.32
470 529 3.569194 TGAGCAACTTCAGGGTACAAA 57.431 42.857 0.00 0.00 0.00 2.83
471 530 3.569194 TTGAGCAACTTCAGGGTACAA 57.431 42.857 0.00 0.00 0.00 2.41
472 531 3.788227 ATTGAGCAACTTCAGGGTACA 57.212 42.857 0.00 0.00 0.00 2.90
473 532 6.151144 ACAAATATTGAGCAACTTCAGGGTAC 59.849 38.462 0.00 0.00 0.00 3.34
474 533 6.245408 ACAAATATTGAGCAACTTCAGGGTA 58.755 36.000 0.00 0.00 0.00 3.69
475 534 5.079643 ACAAATATTGAGCAACTTCAGGGT 58.920 37.500 0.00 0.00 0.00 4.34
476 535 5.649782 ACAAATATTGAGCAACTTCAGGG 57.350 39.130 0.00 0.00 0.00 4.45
477 536 6.404734 GGGTACAAATATTGAGCAACTTCAGG 60.405 42.308 0.00 0.00 0.00 3.86
478 537 6.375455 AGGGTACAAATATTGAGCAACTTCAG 59.625 38.462 0.00 0.00 0.00 3.02
479 538 6.150976 CAGGGTACAAATATTGAGCAACTTCA 59.849 38.462 0.00 0.00 0.00 3.02
480 539 6.374333 TCAGGGTACAAATATTGAGCAACTTC 59.626 38.462 0.00 0.00 0.00 3.01
481 540 6.245408 TCAGGGTACAAATATTGAGCAACTT 58.755 36.000 0.00 0.00 0.00 2.66
482 541 5.815581 TCAGGGTACAAATATTGAGCAACT 58.184 37.500 0.00 0.00 0.00 3.16
483 542 6.151144 ACTTCAGGGTACAAATATTGAGCAAC 59.849 38.462 0.00 0.00 0.00 4.17
484 543 6.245408 ACTTCAGGGTACAAATATTGAGCAA 58.755 36.000 0.00 0.00 0.00 3.91
485 544 5.815581 ACTTCAGGGTACAAATATTGAGCA 58.184 37.500 0.00 0.00 0.00 4.26
486 545 6.555315 CAACTTCAGGGTACAAATATTGAGC 58.445 40.000 0.00 0.00 0.00 4.26
487 546 6.375455 AGCAACTTCAGGGTACAAATATTGAG 59.625 38.462 0.00 0.00 0.00 3.02
488 547 6.245408 AGCAACTTCAGGGTACAAATATTGA 58.755 36.000 0.00 0.00 0.00 2.57
489 548 6.150976 TGAGCAACTTCAGGGTACAAATATTG 59.849 38.462 0.00 0.00 0.00 1.90
490 549 6.245408 TGAGCAACTTCAGGGTACAAATATT 58.755 36.000 0.00 0.00 0.00 1.28
491 550 5.815581 TGAGCAACTTCAGGGTACAAATAT 58.184 37.500 0.00 0.00 0.00 1.28
492 551 5.235850 TGAGCAACTTCAGGGTACAAATA 57.764 39.130 0.00 0.00 0.00 1.40
493 552 4.098914 TGAGCAACTTCAGGGTACAAAT 57.901 40.909 0.00 0.00 0.00 2.32
494 553 3.569194 TGAGCAACTTCAGGGTACAAA 57.431 42.857 0.00 0.00 0.00 2.83
495 554 3.569194 TTGAGCAACTTCAGGGTACAA 57.431 42.857 0.00 0.00 0.00 2.41
496 555 3.788227 ATTGAGCAACTTCAGGGTACA 57.212 42.857 0.00 0.00 0.00 2.90
497 556 6.759497 AAATATTGAGCAACTTCAGGGTAC 57.241 37.500 0.00 0.00 0.00 3.34
498 557 6.945435 TCAAAATATTGAGCAACTTCAGGGTA 59.055 34.615 0.00 0.00 40.59 3.69
499 558 5.774690 TCAAAATATTGAGCAACTTCAGGGT 59.225 36.000 0.00 0.00 40.59 4.34
500 559 6.271488 TCAAAATATTGAGCAACTTCAGGG 57.729 37.500 0.00 0.00 40.59 4.45
555 770 6.017934 GCACGGATCAGCTAATTCAGAAAATA 60.018 38.462 0.00 0.00 0.00 1.40
556 771 5.220931 GCACGGATCAGCTAATTCAGAAAAT 60.221 40.000 0.00 0.00 0.00 1.82
557 772 4.094887 GCACGGATCAGCTAATTCAGAAAA 59.905 41.667 0.00 0.00 0.00 2.29
558 773 3.623060 GCACGGATCAGCTAATTCAGAAA 59.377 43.478 0.00 0.00 0.00 2.52
559 774 3.118629 AGCACGGATCAGCTAATTCAGAA 60.119 43.478 4.93 0.00 39.78 3.02
560 775 2.432146 AGCACGGATCAGCTAATTCAGA 59.568 45.455 4.93 0.00 39.78 3.27
561 776 2.831333 AGCACGGATCAGCTAATTCAG 58.169 47.619 4.93 0.00 39.78 3.02
562 777 2.988010 AGCACGGATCAGCTAATTCA 57.012 45.000 4.93 0.00 39.78 2.57
563 778 3.983741 ACTAGCACGGATCAGCTAATTC 58.016 45.455 12.78 0.00 42.27 2.17
564 779 5.730296 ATACTAGCACGGATCAGCTAATT 57.270 39.130 12.78 7.31 42.27 1.40
565 780 5.730296 AATACTAGCACGGATCAGCTAAT 57.270 39.130 12.78 7.45 42.27 1.73
566 781 6.040054 TGTTAATACTAGCACGGATCAGCTAA 59.960 38.462 12.78 2.88 42.27 3.09
567 782 5.533528 TGTTAATACTAGCACGGATCAGCTA 59.466 40.000 11.64 11.64 42.05 3.32
568 783 4.341235 TGTTAATACTAGCACGGATCAGCT 59.659 41.667 10.72 10.72 44.55 4.24
569 784 4.444720 GTGTTAATACTAGCACGGATCAGC 59.555 45.833 0.00 0.00 30.79 4.26
570 785 5.833082 AGTGTTAATACTAGCACGGATCAG 58.167 41.667 2.61 0.00 42.38 2.90
571 786 5.221185 GGAGTGTTAATACTAGCACGGATCA 60.221 44.000 4.69 0.00 42.38 2.92
572 787 5.221130 GGAGTGTTAATACTAGCACGGATC 58.779 45.833 4.69 0.00 42.38 3.36
573 788 4.647853 TGGAGTGTTAATACTAGCACGGAT 59.352 41.667 4.69 0.00 42.38 4.18
574 789 4.018490 TGGAGTGTTAATACTAGCACGGA 58.982 43.478 4.69 0.00 42.38 4.69
575 790 4.380841 TGGAGTGTTAATACTAGCACGG 57.619 45.455 4.69 0.00 42.38 4.94
576 791 6.903883 AATTGGAGTGTTAATACTAGCACG 57.096 37.500 4.69 0.00 42.38 5.34
577 792 7.201705 GGGAAATTGGAGTGTTAATACTAGCAC 60.202 40.741 4.69 0.00 39.00 4.40
578 793 6.826741 GGGAAATTGGAGTGTTAATACTAGCA 59.173 38.462 4.69 0.00 0.00 3.49
579 794 6.262496 GGGGAAATTGGAGTGTTAATACTAGC 59.738 42.308 4.69 0.00 0.00 3.42
580 795 7.499232 CAGGGGAAATTGGAGTGTTAATACTAG 59.501 40.741 4.69 0.00 0.00 2.57
581 796 7.037153 ACAGGGGAAATTGGAGTGTTAATACTA 60.037 37.037 4.69 0.00 0.00 1.82
582 797 6.187682 CAGGGGAAATTGGAGTGTTAATACT 58.812 40.000 4.32 4.32 0.00 2.12
583 798 5.949952 ACAGGGGAAATTGGAGTGTTAATAC 59.050 40.000 0.00 0.00 0.00 1.89
584 799 6.147437 ACAGGGGAAATTGGAGTGTTAATA 57.853 37.500 0.00 0.00 0.00 0.98
585 800 5.010708 ACAGGGGAAATTGGAGTGTTAAT 57.989 39.130 0.00 0.00 0.00 1.40
586 801 4.463050 ACAGGGGAAATTGGAGTGTTAA 57.537 40.909 0.00 0.00 0.00 2.01
587 802 5.586155 TTACAGGGGAAATTGGAGTGTTA 57.414 39.130 0.00 0.00 0.00 2.41
588 803 4.463050 TTACAGGGGAAATTGGAGTGTT 57.537 40.909 0.00 0.00 0.00 3.32
589 804 4.141018 ACTTTACAGGGGAAATTGGAGTGT 60.141 41.667 0.00 0.00 0.00 3.55
590 805 4.407365 ACTTTACAGGGGAAATTGGAGTG 58.593 43.478 0.00 0.00 0.00 3.51
591 806 4.741928 ACTTTACAGGGGAAATTGGAGT 57.258 40.909 0.00 0.00 0.00 3.85
592 807 7.282450 GTGTATACTTTACAGGGGAAATTGGAG 59.718 40.741 4.17 0.00 0.00 3.86
593 808 7.114095 GTGTATACTTTACAGGGGAAATTGGA 58.886 38.462 4.17 0.00 0.00 3.53
594 809 6.887545 TGTGTATACTTTACAGGGGAAATTGG 59.112 38.462 4.17 0.00 0.00 3.16
595 810 7.931578 TGTGTATACTTTACAGGGGAAATTG 57.068 36.000 4.17 0.00 0.00 2.32
597 812 9.793259 CATATGTGTATACTTTACAGGGGAAAT 57.207 33.333 4.17 0.00 0.00 2.17
598 813 8.215050 CCATATGTGTATACTTTACAGGGGAAA 58.785 37.037 4.17 0.00 0.00 3.13
599 814 7.348801 ACCATATGTGTATACTTTACAGGGGAA 59.651 37.037 4.17 0.00 0.00 3.97
600 815 6.847567 ACCATATGTGTATACTTTACAGGGGA 59.152 38.462 4.17 0.00 0.00 4.81
601 816 6.934645 CACCATATGTGTATACTTTACAGGGG 59.065 42.308 4.17 6.16 40.26 4.79
602 817 7.732025 TCACCATATGTGTATACTTTACAGGG 58.268 38.462 4.17 6.46 45.61 4.45
603 818 9.778741 AATCACCATATGTGTATACTTTACAGG 57.221 33.333 4.17 2.86 45.61 4.00
630 845 3.091545 CAGGAGGCCATTGCTAGAAAAA 58.908 45.455 5.01 0.00 37.74 1.94
631 846 2.041620 ACAGGAGGCCATTGCTAGAAAA 59.958 45.455 5.01 0.00 37.74 2.29
632 847 1.635487 ACAGGAGGCCATTGCTAGAAA 59.365 47.619 5.01 0.00 37.74 2.52
633 848 1.289160 ACAGGAGGCCATTGCTAGAA 58.711 50.000 5.01 0.00 37.74 2.10
634 849 2.174685 TACAGGAGGCCATTGCTAGA 57.825 50.000 5.01 0.00 37.74 2.43
635 850 3.498774 AATACAGGAGGCCATTGCTAG 57.501 47.619 5.01 0.00 37.74 3.42
636 851 3.053693 ACAAATACAGGAGGCCATTGCTA 60.054 43.478 5.01 0.00 37.74 3.49
637 852 2.291800 ACAAATACAGGAGGCCATTGCT 60.292 45.455 5.01 0.00 37.74 3.91
638 853 2.102578 ACAAATACAGGAGGCCATTGC 58.897 47.619 5.01 0.00 0.00 3.56
639 854 6.469782 AAATACAAATACAGGAGGCCATTG 57.530 37.500 5.01 2.04 0.00 2.82
640 855 6.667414 TCAAAATACAAATACAGGAGGCCATT 59.333 34.615 5.01 0.00 0.00 3.16
641 856 6.194235 TCAAAATACAAATACAGGAGGCCAT 58.806 36.000 5.01 0.00 0.00 4.40
642 857 5.575157 TCAAAATACAAATACAGGAGGCCA 58.425 37.500 5.01 0.00 0.00 5.36
643 858 6.524101 TTCAAAATACAAATACAGGAGGCC 57.476 37.500 0.00 0.00 0.00 5.19
644 859 6.811665 GGTTTCAAAATACAAATACAGGAGGC 59.188 38.462 0.00 0.00 0.00 4.70
645 860 7.320399 GGGTTTCAAAATACAAATACAGGAGG 58.680 38.462 0.00 0.00 0.00 4.30
646 861 7.027161 CGGGTTTCAAAATACAAATACAGGAG 58.973 38.462 0.00 0.00 0.00 3.69
647 862 6.490721 ACGGGTTTCAAAATACAAATACAGGA 59.509 34.615 0.00 0.00 0.00 3.86
648 863 6.683715 ACGGGTTTCAAAATACAAATACAGG 58.316 36.000 0.00 0.00 0.00 4.00
649 864 8.291032 TGTACGGGTTTCAAAATACAAATACAG 58.709 33.333 0.00 0.00 0.00 2.74
650 865 8.162878 TGTACGGGTTTCAAAATACAAATACA 57.837 30.769 0.00 0.00 0.00 2.29
655 870 9.669887 AGTATATGTACGGGTTTCAAAATACAA 57.330 29.630 0.00 0.00 35.92 2.41
656 871 9.669887 AAGTATATGTACGGGTTTCAAAATACA 57.330 29.630 0.00 0.00 35.92 2.29
660 875 9.499479 TGTTAAGTATATGTACGGGTTTCAAAA 57.501 29.630 0.00 0.00 35.92 2.44
661 876 9.669887 ATGTTAAGTATATGTACGGGTTTCAAA 57.330 29.630 0.00 0.00 35.92 2.69
662 877 9.100554 CATGTTAAGTATATGTACGGGTTTCAA 57.899 33.333 0.00 0.00 35.92 2.69
663 878 7.711772 CCATGTTAAGTATATGTACGGGTTTCA 59.288 37.037 0.00 0.00 35.92 2.69
664 879 7.712205 ACCATGTTAAGTATATGTACGGGTTTC 59.288 37.037 0.00 0.00 35.92 2.78
665 880 7.496591 CACCATGTTAAGTATATGTACGGGTTT 59.503 37.037 0.00 0.00 35.92 3.27
666 881 6.987992 CACCATGTTAAGTATATGTACGGGTT 59.012 38.462 0.00 0.00 35.92 4.11
667 882 6.324512 TCACCATGTTAAGTATATGTACGGGT 59.675 38.462 0.00 0.00 35.92 5.28
668 883 6.751157 TCACCATGTTAAGTATATGTACGGG 58.249 40.000 0.00 0.00 35.92 5.28
669 884 7.095774 GCTTCACCATGTTAAGTATATGTACGG 60.096 40.741 0.00 0.00 35.92 4.02
670 885 7.436970 TGCTTCACCATGTTAAGTATATGTACG 59.563 37.037 0.00 0.00 35.92 3.67
671 886 8.657074 TGCTTCACCATGTTAAGTATATGTAC 57.343 34.615 0.00 0.00 0.00 2.90
672 887 9.271828 CATGCTTCACCATGTTAAGTATATGTA 57.728 33.333 0.00 0.00 38.19 2.29
673 888 7.992608 TCATGCTTCACCATGTTAAGTATATGT 59.007 33.333 2.52 0.00 42.44 2.29
674 889 8.382030 TCATGCTTCACCATGTTAAGTATATG 57.618 34.615 2.52 0.00 42.44 1.78
675 890 8.840321 GTTCATGCTTCACCATGTTAAGTATAT 58.160 33.333 2.52 0.00 42.44 0.86
676 891 7.826744 TGTTCATGCTTCACCATGTTAAGTATA 59.173 33.333 2.52 0.00 42.44 1.47
677 892 6.658816 TGTTCATGCTTCACCATGTTAAGTAT 59.341 34.615 2.52 0.00 42.44 2.12
678 893 6.000840 TGTTCATGCTTCACCATGTTAAGTA 58.999 36.000 2.52 0.00 42.44 2.24
679 894 4.826733 TGTTCATGCTTCACCATGTTAAGT 59.173 37.500 2.52 0.00 42.44 2.24
680 895 5.375417 TGTTCATGCTTCACCATGTTAAG 57.625 39.130 2.52 0.00 42.44 1.85
681 896 5.981088 ATGTTCATGCTTCACCATGTTAA 57.019 34.783 2.52 0.00 42.44 2.01
682 897 5.066375 GCTATGTTCATGCTTCACCATGTTA 59.934 40.000 2.52 0.00 42.44 2.41
683 898 4.142315 GCTATGTTCATGCTTCACCATGTT 60.142 41.667 2.52 0.00 42.44 2.71
684 899 3.379372 GCTATGTTCATGCTTCACCATGT 59.621 43.478 2.52 0.00 42.44 3.21
685 900 3.630769 AGCTATGTTCATGCTTCACCATG 59.369 43.478 0.00 0.00 43.04 3.66
686 901 3.894759 AGCTATGTTCATGCTTCACCAT 58.105 40.909 0.00 0.00 32.61 3.55
687 902 3.354948 AGCTATGTTCATGCTTCACCA 57.645 42.857 0.00 0.00 32.61 4.17
688 903 4.708726 AAAGCTATGTTCATGCTTCACC 57.291 40.909 16.31 0.00 44.94 4.02
689 904 7.253422 ACAATAAAGCTATGTTCATGCTTCAC 58.747 34.615 16.31 0.00 44.94 3.18
690 905 7.395190 ACAATAAAGCTATGTTCATGCTTCA 57.605 32.000 16.31 8.20 44.94 3.02
691 906 8.693542 AAACAATAAAGCTATGTTCATGCTTC 57.306 30.769 16.31 0.00 44.94 3.86
1012 1346 4.641094 TCTTGGCTTTTTGTAGTTTTCGGA 59.359 37.500 0.00 0.00 0.00 4.55
1047 1381 3.244422 TGAAAATAGCACGGTCCTCTGTT 60.244 43.478 0.00 0.00 0.00 3.16
1088 1422 6.016610 AGACAGAGTCAGAGAAAAGTAGTGAC 60.017 42.308 0.00 0.00 38.24 3.67
1604 1942 9.959749 GTGTTCTTTATCACCTTTGTTTTCATA 57.040 29.630 0.00 0.00 0.00 2.15
1787 2129 1.549170 ACTCGGCAAAGACGATAACCT 59.451 47.619 0.00 0.00 44.17 3.50
1873 2216 8.414778 CCCGAGAATAAATCTAGACACTAAACT 58.585 37.037 0.00 0.00 38.96 2.66
1944 2287 0.736053 GCGCCAATTAATTCCGGACA 59.264 50.000 1.83 0.00 0.00 4.02
1947 2290 1.021202 TGAGCGCCAATTAATTCCGG 58.979 50.000 2.29 0.00 0.00 5.14
1955 2298 1.888512 ACATCTGTTTGAGCGCCAATT 59.111 42.857 2.29 0.00 34.23 2.32
1956 2299 1.538047 ACATCTGTTTGAGCGCCAAT 58.462 45.000 2.29 0.00 34.23 3.16
1960 2303 3.183373 GCTAGATACATCTGTTTGAGCGC 59.817 47.826 0.00 0.00 37.76 5.92
1970 2313 3.821748 TCCAGACGTGCTAGATACATCT 58.178 45.455 0.00 0.00 40.86 2.90
1989 2332 1.859080 GACGCTCAAACGGATGTATCC 59.141 52.381 0.63 0.63 43.65 2.59
1998 2341 4.386230 CAGAATTAGTTGACGCTCAAACG 58.614 43.478 2.65 0.00 38.22 3.60
2167 2510 8.579850 TTAGGTCTCATGTGCTTATCAAAAAT 57.420 30.769 0.00 0.00 0.00 1.82
2181 2524 1.408822 GGGGGCAGTTTAGGTCTCATG 60.409 57.143 0.00 0.00 0.00 3.07
2187 2530 2.713828 ATTTTGGGGGCAGTTTAGGT 57.286 45.000 0.00 0.00 0.00 3.08
2498 2841 4.007644 CTGAGGGGCACGCACTCA 62.008 66.667 12.96 12.96 46.88 3.41
2560 2903 5.406780 GTGCAAAGCGATGCTAGTATCTATT 59.593 40.000 17.34 9.64 46.54 1.73
2563 2906 3.126831 GTGCAAAGCGATGCTAGTATCT 58.873 45.455 17.34 0.00 46.54 1.98
2638 2981 3.627123 TCACATGCATGAAATACCTTCGG 59.373 43.478 32.75 1.77 36.78 4.30
2709 3052 6.731292 AAAGGAGTTTTGAAGCCTACATTT 57.269 33.333 0.00 0.00 0.00 2.32
2739 3082 4.997395 TCAGACAACTCTTAATTCTGCCAC 59.003 41.667 0.00 0.00 34.82 5.01
2981 3341 4.625311 CACGTGAGCATATGTGTTTCTACA 59.375 41.667 10.90 0.00 33.84 2.74
2985 3345 2.774007 GCACGTGAGCATATGTGTTTC 58.226 47.619 22.23 0.00 39.27 2.78
2987 3347 0.721154 CGCACGTGAGCATATGTGTT 59.279 50.000 22.23 0.00 39.27 3.32
2995 3355 0.812549 TAACCTATCGCACGTGAGCA 59.187 50.000 22.23 6.82 0.00 4.26
3089 3449 2.235898 TGCTGCCCTTCAAACAAAAAGT 59.764 40.909 0.00 0.00 0.00 2.66
3150 3511 7.165485 AGCCTGATGTATTTTTGTACACTACA 58.835 34.615 0.00 2.31 37.40 2.74
3335 3696 5.607119 TGTCTAGAAACGGCAAAATCTTC 57.393 39.130 0.00 0.00 0.00 2.87
3336 3697 5.278315 GGTTGTCTAGAAACGGCAAAATCTT 60.278 40.000 0.00 0.00 0.00 2.40
3346 3707 2.673368 GCCATCTGGTTGTCTAGAAACG 59.327 50.000 0.00 0.00 34.97 3.60
3353 3714 0.038744 CTTGGGCCATCTGGTTGTCT 59.961 55.000 7.26 0.00 37.57 3.41
3367 3728 1.255667 AATCAGCCTTGCAGCTTGGG 61.256 55.000 0.00 0.00 42.61 4.12
3401 3762 3.326588 TGAAGCCTAAGTTAGCAGTTCCA 59.673 43.478 4.22 0.00 0.00 3.53
3406 3767 5.016051 TGATCTGAAGCCTAAGTTAGCAG 57.984 43.478 4.22 6.65 0.00 4.24
3407 3768 5.129320 TCATGATCTGAAGCCTAAGTTAGCA 59.871 40.000 4.22 0.00 0.00 3.49
3424 3785 4.012374 TGTTCTGGAGGCTTTTCATGATC 58.988 43.478 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.