Multiple sequence alignment - TraesCS2D01G169100

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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 TraesCS2D01G169100 chr2D 100.000 2453 0 0 1 2453 112912856 112915308 0.000000e+00 4530
1 TraesCS2D01G169100 chr2D 95.718 794 7 5 1665 2453 71460327 71461098 0.000000e+00 1253
2 TraesCS2D01G169100 chr2D 85.537 242 32 3 566 804 295166643 295166402 1.460000e-62 250
3 TraesCS2D01G169100 chr2D 88.235 204 20 3 2252 2453 143763497 143763296 8.770000e-60 241
4 TraesCS2D01G169100 chr6D 98.108 793 11 3 1665 2453 11335888 11335096 0.000000e+00 1378
5 TraesCS2D01G169100 chr1D 97.747 799 7 4 1665 2453 423274695 423273898 0.000000e+00 1365
6 TraesCS2D01G169100 chr1D 85.768 267 28 9 1 263 489984519 489984259 8.640000e-70 274
7 TraesCS2D01G169100 chr2A 93.051 849 49 3 806 1650 114868008 114867166 0.000000e+00 1232
8 TraesCS2D01G169100 chr2A 84.380 621 63 18 1666 2267 263526761 263527366 1.640000e-161 579
9 TraesCS2D01G169100 chr2A 83.486 545 22 17 67 564 114868541 114868018 1.730000e-121 446
10 TraesCS2D01G169100 chr2A 86.531 245 30 3 563 804 20328685 20328929 1.450000e-67 267
11 TraesCS2D01G169100 chr2B 90.741 864 56 8 803 1649 163402758 163403614 0.000000e+00 1131
12 TraesCS2D01G169100 chr2B 93.075 361 21 4 207 565 163402398 163402756 2.160000e-145 525
13 TraesCS2D01G169100 chr2B 88.991 218 12 8 1 208 163402153 163402368 2.420000e-65 259
14 TraesCS2D01G169100 chr2B 85.317 252 34 3 555 803 17691875 17691624 8.700000e-65 257
15 TraesCS2D01G169100 chr2B 83.410 217 34 2 1 216 410180512 410180297 1.490000e-47 200
16 TraesCS2D01G169100 chr5D 93.089 709 27 7 1765 2453 516634227 516634933 0.000000e+00 1018
17 TraesCS2D01G169100 chr5D 88.646 458 33 11 1665 2120 298974014 298973574 7.720000e-150 540
18 TraesCS2D01G169100 chr5D 85.950 242 31 3 566 804 113382095 113382336 3.130000e-64 255
19 TraesCS2D01G169100 chr5D 85.366 246 32 4 561 804 211982076 211982319 4.050000e-63 252
20 TraesCS2D01G169100 chr5D 88.398 181 16 5 33 210 367647110 367647288 1.910000e-51 213
21 TraesCS2D01G169100 chr5B 88.103 622 40 18 1667 2260 562451493 562450878 0.000000e+00 708
22 TraesCS2D01G169100 chr5B 89.500 200 21 0 2252 2451 562450760 562450561 1.130000e-63 254
23 TraesCS2D01G169100 chr1B 87.220 626 45 19 1665 2260 659364088 659364708 0.000000e+00 680
24 TraesCS2D01G169100 chr1B 86.008 243 32 2 563 803 98129245 98129487 2.420000e-65 259
25 TraesCS2D01G169100 chr1B 86.070 201 19 7 7 205 151745411 151745604 8.890000e-50 207
26 TraesCS2D01G169100 chr4A 86.562 640 53 17 1649 2260 698718088 698718722 0.000000e+00 675
27 TraesCS2D01G169100 chr4A 84.760 584 66 16 1665 2242 80853878 80853312 4.580000e-157 564
28 TraesCS2D01G169100 chr4A 90.099 202 19 1 2252 2453 329072025 329072225 6.730000e-66 261
29 TraesCS2D01G169100 chr5A 86.971 614 47 12 1665 2260 81226884 81226286 0.000000e+00 660
30 TraesCS2D01G169100 chr5A 89.109 202 21 1 2252 2453 81226175 81225975 1.460000e-62 250
31 TraesCS2D01G169100 chr3D 86.252 611 51 10 1649 2242 525755384 525755978 1.240000e-177 632
32 TraesCS2D01G169100 chr3D 90.594 202 18 1 2252 2453 516993188 516993388 1.450000e-67 267
33 TraesCS2D01G169100 chr3D 84.541 207 27 4 1 203 19985722 19985927 1.490000e-47 200
34 TraesCS2D01G169100 chr7D 85.714 245 32 3 566 807 31062082 31061838 3.130000e-64 255
35 TraesCS2D01G169100 chr7B 85.957 235 33 0 565 799 672550961 672550727 4.050000e-63 252
36 TraesCS2D01G169100 chr7B 86.740 181 21 3 33 211 630780448 630780269 5.350000e-47 198
37 TraesCS2D01G169100 chr7B 80.282 213 24 9 2046 2242 377009938 377009728 7.070000e-31 145
38 TraesCS2D01G169100 chr3B 85.306 245 34 2 566 808 30209900 30209656 4.050000e-63 252
39 TraesCS2D01G169100 chr3A 82.949 217 30 4 1 211 104411839 104411624 3.220000e-44 189
40 TraesCS2D01G169100 chr6B 80.709 254 30 16 29 269 258754839 258754592 1.940000e-41 180


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 TraesCS2D01G169100 chr2D 112912856 112915308 2452 False 4530.000000 4530 100.000000 1 2453 1 chr2D.!!$F2 2452
1 TraesCS2D01G169100 chr2D 71460327 71461098 771 False 1253.000000 1253 95.718000 1665 2453 1 chr2D.!!$F1 788
2 TraesCS2D01G169100 chr6D 11335096 11335888 792 True 1378.000000 1378 98.108000 1665 2453 1 chr6D.!!$R1 788
3 TraesCS2D01G169100 chr1D 423273898 423274695 797 True 1365.000000 1365 97.747000 1665 2453 1 chr1D.!!$R1 788
4 TraesCS2D01G169100 chr2A 114867166 114868541 1375 True 839.000000 1232 88.268500 67 1650 2 chr2A.!!$R1 1583
5 TraesCS2D01G169100 chr2A 263526761 263527366 605 False 579.000000 579 84.380000 1666 2267 1 chr2A.!!$F2 601
6 TraesCS2D01G169100 chr2B 163402153 163403614 1461 False 638.333333 1131 90.935667 1 1649 3 chr2B.!!$F1 1648
7 TraesCS2D01G169100 chr5D 516634227 516634933 706 False 1018.000000 1018 93.089000 1765 2453 1 chr5D.!!$F4 688
8 TraesCS2D01G169100 chr5B 562450561 562451493 932 True 481.000000 708 88.801500 1667 2451 2 chr5B.!!$R1 784
9 TraesCS2D01G169100 chr1B 659364088 659364708 620 False 680.000000 680 87.220000 1665 2260 1 chr1B.!!$F3 595
10 TraesCS2D01G169100 chr4A 698718088 698718722 634 False 675.000000 675 86.562000 1649 2260 1 chr4A.!!$F2 611
11 TraesCS2D01G169100 chr4A 80853312 80853878 566 True 564.000000 564 84.760000 1665 2242 1 chr4A.!!$R1 577
12 TraesCS2D01G169100 chr5A 81225975 81226884 909 True 455.000000 660 88.040000 1665 2453 2 chr5A.!!$R1 788
13 TraesCS2D01G169100 chr3D 525755384 525755978 594 False 632.000000 632 86.252000 1649 2242 1 chr3D.!!$F3 593

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
610 694 0.040692 GCCCGTGTTTTTCGAGGTTC 60.041 55.0 0.0 0.0 0.0 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1643 1747 0.744414 CTGGGTCCGCCAATGTACTG 60.744 60.0 0.0 0.0 36.17 2.74 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
29 30 1.596934 GGCCAGTGATCCGACAAGA 59.403 57.895 0.00 0.00 0.00 3.02
47 48 1.134530 GAGAGCCATCGTCACGTTCG 61.135 60.000 0.00 3.87 0.00 3.95
50 51 2.442188 GCCATCGTCACGTTCGGAC 61.442 63.158 0.00 2.68 0.00 4.79
54 55 0.524414 ATCGTCACGTTCGGACATGA 59.476 50.000 0.00 0.00 34.97 3.07
85 86 1.601914 GGCATGTCCGGTTTGTTGAAC 60.602 52.381 0.00 0.00 37.53 3.18
100 101 6.768029 TTGTTGAACTATGATTTGCTTTGC 57.232 33.333 0.00 0.00 0.00 3.68
112 113 5.349817 TGATTTGCTTTGCTTTGTTTCGAAA 59.650 32.000 6.47 6.47 0.00 3.46
167 177 8.985315 ATCTAAGTGCATGAATTTGAGGATTA 57.015 30.769 0.00 0.00 0.00 1.75
191 201 4.520111 GCATTTGAGGTATATGGATGTGCA 59.480 41.667 0.00 0.00 0.00 4.57
194 204 2.038952 TGAGGTATATGGATGTGCAGGC 59.961 50.000 0.00 0.00 0.00 4.85
214 254 1.220529 CAACATATGATGGACGCGCT 58.779 50.000 10.38 0.00 33.60 5.92
215 255 1.193203 CAACATATGATGGACGCGCTC 59.807 52.381 10.38 2.64 33.60 5.03
248 310 1.243902 GGACCGAATTTGCCAAGTCA 58.756 50.000 0.00 0.00 0.00 3.41
250 312 0.598065 ACCGAATTTGCCAAGTCAGC 59.402 50.000 0.00 0.00 0.00 4.26
337 416 4.831710 ACTGGTAGAAAGTTACTCGAAGGT 59.168 41.667 0.00 0.00 0.00 3.50
382 461 5.220777 CCAACTCAACGTTTGTATTCACAGT 60.221 40.000 0.00 0.00 35.67 3.55
422 502 1.826720 TCACCGGTTACACCTCATACC 59.173 52.381 2.97 0.00 35.66 2.73
471 551 8.408043 AGGAAGAATCATCACACAACATAAAA 57.592 30.769 0.00 0.00 0.00 1.52
481 561 8.588789 CATCACACAACATAAAACTGCATATTG 58.411 33.333 0.00 0.00 0.00 1.90
509 589 0.815734 TGGCAACTCTAGGAGTACGC 59.184 55.000 11.24 11.24 42.59 4.42
510 590 0.815734 GGCAACTCTAGGAGTACGCA 59.184 55.000 17.55 0.00 42.59 5.24
524 604 1.656594 GTACGCATTGTACGTGCATGA 59.343 47.619 14.17 0.00 43.71 3.07
565 649 2.785562 CCGGCAGTCTAGCTAGATACT 58.214 52.381 25.74 16.80 34.39 2.12
567 651 3.685756 CCGGCAGTCTAGCTAGATACTAC 59.314 52.174 25.74 14.16 34.39 2.73
569 653 4.628333 CGGCAGTCTAGCTAGATACTACTC 59.372 50.000 25.74 11.43 34.39 2.59
570 654 4.939439 GGCAGTCTAGCTAGATACTACTCC 59.061 50.000 25.74 15.86 34.39 3.85
571 655 4.939439 GCAGTCTAGCTAGATACTACTCCC 59.061 50.000 25.74 10.03 34.39 4.30
572 656 5.280317 GCAGTCTAGCTAGATACTACTCCCT 60.280 48.000 25.74 12.09 34.39 4.20
573 657 6.403878 CAGTCTAGCTAGATACTACTCCCTC 58.596 48.000 25.74 8.84 34.39 4.30
574 658 6.212791 CAGTCTAGCTAGATACTACTCCCTCT 59.787 46.154 25.74 10.91 34.39 3.69
575 659 6.790963 AGTCTAGCTAGATACTACTCCCTCTT 59.209 42.308 25.74 0.00 34.39 2.85
576 660 7.294008 AGTCTAGCTAGATACTACTCCCTCTTT 59.706 40.741 25.74 0.00 34.39 2.52
577 661 7.605309 GTCTAGCTAGATACTACTCCCTCTTTC 59.395 44.444 25.74 3.75 34.39 2.62
578 662 6.524545 AGCTAGATACTACTCCCTCTTTCT 57.475 41.667 0.00 0.00 0.00 2.52
579 663 7.636036 AGCTAGATACTACTCCCTCTTTCTA 57.364 40.000 0.00 0.00 0.00 2.10
580 664 8.048016 AGCTAGATACTACTCCCTCTTTCTAA 57.952 38.462 0.00 0.00 0.00 2.10
581 665 8.504409 AGCTAGATACTACTCCCTCTTTCTAAA 58.496 37.037 0.00 0.00 0.00 1.85
582 666 9.134055 GCTAGATACTACTCCCTCTTTCTAAAA 57.866 37.037 0.00 0.00 0.00 1.52
592 676 9.708092 ACTCCCTCTTTCTAAAATATAATACGC 57.292 33.333 0.00 0.00 0.00 4.42
593 677 9.152595 CTCCCTCTTTCTAAAATATAATACGCC 57.847 37.037 0.00 0.00 0.00 5.68
594 678 8.098912 TCCCTCTTTCTAAAATATAATACGCCC 58.901 37.037 0.00 0.00 0.00 6.13
595 679 7.064253 CCCTCTTTCTAAAATATAATACGCCCG 59.936 40.741 0.00 0.00 0.00 6.13
596 680 7.601508 CCTCTTTCTAAAATATAATACGCCCGT 59.398 37.037 0.00 0.00 0.00 5.28
597 681 8.301730 TCTTTCTAAAATATAATACGCCCGTG 57.698 34.615 3.22 0.00 0.00 4.94
598 682 7.927629 TCTTTCTAAAATATAATACGCCCGTGT 59.072 33.333 3.22 0.00 0.00 4.49
599 683 8.436046 TTTCTAAAATATAATACGCCCGTGTT 57.564 30.769 7.86 7.86 34.04 3.32
600 684 8.436046 TTCTAAAATATAATACGCCCGTGTTT 57.564 30.769 8.04 2.78 32.00 2.83
601 685 8.436046 TCTAAAATATAATACGCCCGTGTTTT 57.564 30.769 8.04 3.75 32.00 2.43
602 686 8.891720 TCTAAAATATAATACGCCCGTGTTTTT 58.108 29.630 8.04 5.76 32.00 1.94
603 687 7.974243 AAAATATAATACGCCCGTGTTTTTC 57.026 32.000 8.04 0.00 32.00 2.29
604 688 3.661758 ATAATACGCCCGTGTTTTTCG 57.338 42.857 8.04 0.00 32.00 3.46
605 689 1.510776 AATACGCCCGTGTTTTTCGA 58.489 45.000 3.22 0.00 0.00 3.71
606 690 1.073177 ATACGCCCGTGTTTTTCGAG 58.927 50.000 3.22 0.00 0.00 4.04
607 691 0.945265 TACGCCCGTGTTTTTCGAGG 60.945 55.000 3.22 0.00 0.00 4.63
608 692 2.248835 CGCCCGTGTTTTTCGAGGT 61.249 57.895 0.00 0.00 0.00 3.85
609 693 1.778027 CGCCCGTGTTTTTCGAGGTT 61.778 55.000 0.00 0.00 0.00 3.50
610 694 0.040692 GCCCGTGTTTTTCGAGGTTC 60.041 55.000 0.00 0.00 0.00 3.62
611 695 1.301423 CCCGTGTTTTTCGAGGTTCA 58.699 50.000 0.00 0.00 0.00 3.18
612 696 1.263217 CCCGTGTTTTTCGAGGTTCAG 59.737 52.381 0.00 0.00 0.00 3.02
613 697 1.937899 CCGTGTTTTTCGAGGTTCAGT 59.062 47.619 0.00 0.00 0.00 3.41
614 698 2.353579 CCGTGTTTTTCGAGGTTCAGTT 59.646 45.455 0.00 0.00 0.00 3.16
615 699 3.181504 CCGTGTTTTTCGAGGTTCAGTTT 60.182 43.478 0.00 0.00 0.00 2.66
616 700 4.408694 CGTGTTTTTCGAGGTTCAGTTTT 58.591 39.130 0.00 0.00 0.00 2.43
617 701 4.262045 CGTGTTTTTCGAGGTTCAGTTTTG 59.738 41.667 0.00 0.00 0.00 2.44
618 702 5.395642 GTGTTTTTCGAGGTTCAGTTTTGA 58.604 37.500 0.00 0.00 0.00 2.69
619 703 6.033966 GTGTTTTTCGAGGTTCAGTTTTGAT 58.966 36.000 0.00 0.00 32.27 2.57
620 704 6.196538 GTGTTTTTCGAGGTTCAGTTTTGATC 59.803 38.462 0.00 0.00 32.27 2.92
621 705 6.127869 TGTTTTTCGAGGTTCAGTTTTGATCA 60.128 34.615 0.00 0.00 32.27 2.92
622 706 6.633500 TTTTCGAGGTTCAGTTTTGATCAT 57.367 33.333 0.00 0.00 32.27 2.45
623 707 7.737972 TTTTCGAGGTTCAGTTTTGATCATA 57.262 32.000 0.00 0.00 32.27 2.15
624 708 7.737972 TTTCGAGGTTCAGTTTTGATCATAA 57.262 32.000 0.00 0.00 32.27 1.90
625 709 7.737972 TTCGAGGTTCAGTTTTGATCATAAA 57.262 32.000 0.00 0.00 32.27 1.40
626 710 7.921786 TCGAGGTTCAGTTTTGATCATAAAT 57.078 32.000 0.00 0.00 32.27 1.40
627 711 8.335532 TCGAGGTTCAGTTTTGATCATAAATT 57.664 30.769 0.00 0.00 32.27 1.82
628 712 8.792633 TCGAGGTTCAGTTTTGATCATAAATTT 58.207 29.630 0.00 0.00 32.27 1.82
645 729 9.349713 TCATAAATTTAACCAACAAGACTGACT 57.650 29.630 1.21 0.00 0.00 3.41
646 730 9.965824 CATAAATTTAACCAACAAGACTGACTT 57.034 29.630 1.21 0.00 39.70 3.01
648 732 8.702163 AAATTTAACCAACAAGACTGACTTTG 57.298 30.769 0.00 0.00 36.61 2.77
649 733 5.828299 TTAACCAACAAGACTGACTTTGG 57.172 39.130 8.42 8.42 40.44 3.28
650 734 2.024414 ACCAACAAGACTGACTTTGGC 58.976 47.619 9.50 0.00 39.05 4.52
651 735 1.002468 CCAACAAGACTGACTTTGGCG 60.002 52.381 0.00 0.00 36.61 5.69
652 736 1.002468 CAACAAGACTGACTTTGGCGG 60.002 52.381 0.00 0.00 36.61 6.13
653 737 0.468226 ACAAGACTGACTTTGGCGGA 59.532 50.000 0.00 0.00 36.61 5.54
654 738 1.134220 ACAAGACTGACTTTGGCGGAA 60.134 47.619 0.00 0.00 36.61 4.30
655 739 1.532868 CAAGACTGACTTTGGCGGAAG 59.467 52.381 0.00 0.00 36.61 3.46
656 740 2.147960 AAGACTGACTTTGGCGGAAGC 61.148 52.381 0.90 0.00 46.87 3.86
697 781 9.307121 TGAAAACTTCTTTTAAATGCGAATTCA 57.693 25.926 6.22 0.00 29.21 2.57
701 785 8.243289 ACTTCTTTTAAATGCGAATTCATTGG 57.757 30.769 6.22 0.00 36.83 3.16
702 786 7.872483 ACTTCTTTTAAATGCGAATTCATTGGT 59.128 29.630 6.22 0.00 36.83 3.67
703 787 9.352784 CTTCTTTTAAATGCGAATTCATTGGTA 57.647 29.630 6.22 0.00 36.83 3.25
704 788 9.868277 TTCTTTTAAATGCGAATTCATTGGTAT 57.132 25.926 6.22 0.00 36.83 2.73
711 795 9.651913 AAATGCGAATTCATTGGTATAACTTTT 57.348 25.926 6.22 0.00 36.83 2.27
712 796 8.633075 ATGCGAATTCATTGGTATAACTTTTG 57.367 30.769 6.22 0.00 0.00 2.44
713 797 7.598278 TGCGAATTCATTGGTATAACTTTTGT 58.402 30.769 6.22 0.00 0.00 2.83
714 798 8.085296 TGCGAATTCATTGGTATAACTTTTGTT 58.915 29.630 6.22 0.00 45.76 2.83
715 799 8.921670 GCGAATTCATTGGTATAACTTTTGTTT 58.078 29.630 6.22 0.00 43.32 2.83
718 802 8.980143 ATTCATTGGTATAACTTTTGTTTCCG 57.020 30.769 0.00 0.00 43.32 4.30
719 803 6.383415 TCATTGGTATAACTTTTGTTTCCGC 58.617 36.000 0.00 0.00 43.32 5.54
720 804 4.769859 TGGTATAACTTTTGTTTCCGCC 57.230 40.909 0.00 0.00 43.32 6.13
721 805 3.188873 TGGTATAACTTTTGTTTCCGCCG 59.811 43.478 0.00 0.00 43.32 6.46
722 806 2.341318 ATAACTTTTGTTTCCGCCGC 57.659 45.000 0.00 0.00 43.32 6.53
723 807 1.022735 TAACTTTTGTTTCCGCCGCA 58.977 45.000 0.00 0.00 43.32 5.69
724 808 0.248866 AACTTTTGTTTCCGCCGCAG 60.249 50.000 0.00 0.00 40.17 5.18
725 809 1.358759 CTTTTGTTTCCGCCGCAGT 59.641 52.632 0.00 0.00 0.00 4.40
726 810 0.248866 CTTTTGTTTCCGCCGCAGTT 60.249 50.000 0.00 0.00 0.00 3.16
727 811 0.526524 TTTTGTTTCCGCCGCAGTTG 60.527 50.000 0.00 0.00 0.00 3.16
728 812 2.343163 TTTGTTTCCGCCGCAGTTGG 62.343 55.000 0.00 0.00 0.00 3.77
729 813 3.284449 GTTTCCGCCGCAGTTGGT 61.284 61.111 0.00 0.00 0.00 3.67
730 814 2.975799 TTTCCGCCGCAGTTGGTC 60.976 61.111 0.00 0.00 0.00 4.02
731 815 3.469863 TTTCCGCCGCAGTTGGTCT 62.470 57.895 0.00 0.00 0.00 3.85
732 816 3.876589 TTCCGCCGCAGTTGGTCTC 62.877 63.158 0.00 0.00 0.00 3.36
735 819 2.665185 GCCGCAGTTGGTCTCGTT 60.665 61.111 0.00 0.00 0.00 3.85
736 820 2.954753 GCCGCAGTTGGTCTCGTTG 61.955 63.158 0.00 0.00 0.00 4.10
737 821 2.317609 CCGCAGTTGGTCTCGTTGG 61.318 63.158 0.00 0.00 0.00 3.77
738 822 1.594293 CGCAGTTGGTCTCGTTGGT 60.594 57.895 0.00 0.00 0.00 3.67
739 823 1.157870 CGCAGTTGGTCTCGTTGGTT 61.158 55.000 0.00 0.00 0.00 3.67
740 824 1.870580 CGCAGTTGGTCTCGTTGGTTA 60.871 52.381 0.00 0.00 0.00 2.85
741 825 2.215196 GCAGTTGGTCTCGTTGGTTAA 58.785 47.619 0.00 0.00 0.00 2.01
742 826 2.614983 GCAGTTGGTCTCGTTGGTTAAA 59.385 45.455 0.00 0.00 0.00 1.52
743 827 3.252458 GCAGTTGGTCTCGTTGGTTAAAT 59.748 43.478 0.00 0.00 0.00 1.40
744 828 4.261447 GCAGTTGGTCTCGTTGGTTAAATT 60.261 41.667 0.00 0.00 0.00 1.82
745 829 5.735070 GCAGTTGGTCTCGTTGGTTAAATTT 60.735 40.000 0.00 0.00 0.00 1.82
746 830 6.513720 GCAGTTGGTCTCGTTGGTTAAATTTA 60.514 38.462 0.00 0.00 0.00 1.40
747 831 7.590279 CAGTTGGTCTCGTTGGTTAAATTTAT 58.410 34.615 0.00 0.00 0.00 1.40
748 832 8.723311 CAGTTGGTCTCGTTGGTTAAATTTATA 58.277 33.333 0.00 0.00 0.00 0.98
749 833 8.943002 AGTTGGTCTCGTTGGTTAAATTTATAG 58.057 33.333 0.00 0.00 0.00 1.31
750 834 8.724229 GTTGGTCTCGTTGGTTAAATTTATAGT 58.276 33.333 0.00 0.00 0.00 2.12
751 835 8.483307 TGGTCTCGTTGGTTAAATTTATAGTC 57.517 34.615 0.00 0.00 0.00 2.59
752 836 7.276218 TGGTCTCGTTGGTTAAATTTATAGTCG 59.724 37.037 0.00 2.21 0.00 4.18
753 837 7.489113 GGTCTCGTTGGTTAAATTTATAGTCGA 59.511 37.037 0.00 5.97 0.00 4.20
754 838 8.863049 GTCTCGTTGGTTAAATTTATAGTCGAA 58.137 33.333 0.00 0.00 0.00 3.71
755 839 9.079833 TCTCGTTGGTTAAATTTATAGTCGAAG 57.920 33.333 0.00 0.00 0.00 3.79
756 840 8.761575 TCGTTGGTTAAATTTATAGTCGAAGT 57.238 30.769 0.00 0.00 0.00 3.01
757 841 9.206870 TCGTTGGTTAAATTTATAGTCGAAGTT 57.793 29.630 0.00 0.00 0.00 2.66
758 842 9.257865 CGTTGGTTAAATTTATAGTCGAAGTTG 57.742 33.333 0.00 0.00 0.00 3.16
762 846 9.486857 GGTTAAATTTATAGTCGAAGTTGAAGC 57.513 33.333 0.00 0.00 0.00 3.86
765 849 7.667043 AATTTATAGTCGAAGTTGAAGCACA 57.333 32.000 0.00 0.00 0.00 4.57
766 850 6.706055 TTTATAGTCGAAGTTGAAGCACAG 57.294 37.500 0.00 0.00 0.00 3.66
767 851 2.890808 AGTCGAAGTTGAAGCACAGA 57.109 45.000 0.00 0.00 0.00 3.41
768 852 3.179443 AGTCGAAGTTGAAGCACAGAA 57.821 42.857 0.00 0.00 0.00 3.02
769 853 3.531538 AGTCGAAGTTGAAGCACAGAAA 58.468 40.909 0.00 0.00 0.00 2.52
770 854 3.309954 AGTCGAAGTTGAAGCACAGAAAC 59.690 43.478 0.00 0.00 0.00 2.78
771 855 2.612212 TCGAAGTTGAAGCACAGAAACC 59.388 45.455 0.00 0.00 0.00 3.27
772 856 2.599848 CGAAGTTGAAGCACAGAAACCG 60.600 50.000 0.00 0.00 0.00 4.44
773 857 2.325583 AGTTGAAGCACAGAAACCGA 57.674 45.000 0.00 0.00 0.00 4.69
774 858 2.213499 AGTTGAAGCACAGAAACCGAG 58.787 47.619 0.00 0.00 0.00 4.63
775 859 1.264288 GTTGAAGCACAGAAACCGAGG 59.736 52.381 0.00 0.00 0.00 4.63
776 860 0.756294 TGAAGCACAGAAACCGAGGA 59.244 50.000 0.00 0.00 0.00 3.71
777 861 1.347707 TGAAGCACAGAAACCGAGGAT 59.652 47.619 0.00 0.00 0.00 3.24
778 862 1.734465 GAAGCACAGAAACCGAGGATG 59.266 52.381 0.00 0.00 0.00 3.51
779 863 0.674895 AGCACAGAAACCGAGGATGC 60.675 55.000 0.00 0.00 0.00 3.91
780 864 0.955428 GCACAGAAACCGAGGATGCA 60.955 55.000 0.00 0.00 0.00 3.96
781 865 0.798776 CACAGAAACCGAGGATGCAC 59.201 55.000 0.00 0.00 0.00 4.57
782 866 0.687354 ACAGAAACCGAGGATGCACT 59.313 50.000 0.00 0.00 0.00 4.40
783 867 1.899814 ACAGAAACCGAGGATGCACTA 59.100 47.619 0.00 0.00 0.00 2.74
784 868 2.501723 ACAGAAACCGAGGATGCACTAT 59.498 45.455 0.00 0.00 0.00 2.12
785 869 3.704566 ACAGAAACCGAGGATGCACTATA 59.295 43.478 0.00 0.00 0.00 1.31
786 870 4.345257 ACAGAAACCGAGGATGCACTATAT 59.655 41.667 0.00 0.00 0.00 0.86
787 871 5.163301 ACAGAAACCGAGGATGCACTATATT 60.163 40.000 0.00 0.00 0.00 1.28
788 872 5.760253 CAGAAACCGAGGATGCACTATATTT 59.240 40.000 0.00 0.00 0.00 1.40
789 873 6.260936 CAGAAACCGAGGATGCACTATATTTT 59.739 38.462 0.00 0.00 0.00 1.82
790 874 6.260936 AGAAACCGAGGATGCACTATATTTTG 59.739 38.462 0.00 0.00 0.00 2.44
791 875 5.290493 ACCGAGGATGCACTATATTTTGA 57.710 39.130 0.00 0.00 0.00 2.69
792 876 5.680619 ACCGAGGATGCACTATATTTTGAA 58.319 37.500 0.00 0.00 0.00 2.69
793 877 6.119536 ACCGAGGATGCACTATATTTTGAAA 58.880 36.000 0.00 0.00 0.00 2.69
794 878 6.260936 ACCGAGGATGCACTATATTTTGAAAG 59.739 38.462 0.00 0.00 0.00 2.62
795 879 6.293626 CCGAGGATGCACTATATTTTGAAAGG 60.294 42.308 0.00 0.00 0.00 3.11
796 880 6.293626 CGAGGATGCACTATATTTTGAAAGGG 60.294 42.308 0.00 0.00 0.00 3.95
797 881 5.835280 AGGATGCACTATATTTTGAAAGGGG 59.165 40.000 0.00 0.00 0.00 4.79
798 882 5.011023 GGATGCACTATATTTTGAAAGGGGG 59.989 44.000 0.00 0.00 0.00 5.40
799 883 5.199982 TGCACTATATTTTGAAAGGGGGA 57.800 39.130 0.00 0.00 0.00 4.81
800 884 5.200483 TGCACTATATTTTGAAAGGGGGAG 58.800 41.667 0.00 0.00 0.00 4.30
801 885 5.201243 GCACTATATTTTGAAAGGGGGAGT 58.799 41.667 0.00 0.00 0.00 3.85
802 886 6.069323 TGCACTATATTTTGAAAGGGGGAGTA 60.069 38.462 0.00 0.00 0.00 2.59
803 887 7.004691 GCACTATATTTTGAAAGGGGGAGTAT 58.995 38.462 0.00 0.00 0.00 2.12
804 888 7.040409 GCACTATATTTTGAAAGGGGGAGTATG 60.040 40.741 0.00 0.00 0.00 2.39
844 928 1.024271 TAACCTCGTAATCCCCGTCG 58.976 55.000 0.00 0.00 0.00 5.12
853 937 2.107041 AATCCCCGTCGCTGACAACA 62.107 55.000 8.91 0.00 32.09 3.33
872 956 5.647658 ACAACAACTTTGAGACTCATCACAA 59.352 36.000 5.87 0.00 34.12 3.33
878 962 3.303881 TGAGACTCATCACAAAGACCG 57.696 47.619 0.00 0.00 0.00 4.79
997 1085 4.512944 TCAAAGAGCTAATTCATCGCATCC 59.487 41.667 0.00 0.00 0.00 3.51
1023 1111 4.415783 TGGCTCACAGCTAGACGA 57.584 55.556 0.00 0.00 41.99 4.20
1101 1189 0.534873 AGAAGCGAAGAGAAGAGGCC 59.465 55.000 0.00 0.00 0.00 5.19
1308 1396 3.841255 GGAAGGAGAAGAAAGAGGAGGAA 59.159 47.826 0.00 0.00 0.00 3.36
1419 1507 2.569404 GGAGAAGAAGAGGAAAGAGGCA 59.431 50.000 0.00 0.00 0.00 4.75
1436 1524 4.474287 AGAGGCATCCAAGAAGAGAAAGAT 59.526 41.667 0.00 0.00 0.00 2.40
1437 1525 5.664908 AGAGGCATCCAAGAAGAGAAAGATA 59.335 40.000 0.00 0.00 0.00 1.98
1454 1542 6.548993 AGAAAGATAGCCAAGGGAAAATGATC 59.451 38.462 0.00 0.00 0.00 2.92
1465 1553 6.535963 AGGGAAAATGATCTTGGAATGTTC 57.464 37.500 0.00 0.00 0.00 3.18
1499 1588 6.215845 GGTAACATTGGTCCATTGCATATTC 58.784 40.000 12.72 2.53 0.00 1.75
1529 1618 1.269958 TAGCCTGCACTCATGACAGT 58.730 50.000 10.06 0.00 31.73 3.55
1623 1727 1.063174 GATTGTGACATCAAGGAGCGC 59.937 52.381 0.00 0.00 0.00 5.92
1643 1747 4.159857 CGCTTCAGTGTGACTAAGTACTC 58.840 47.826 0.00 0.00 0.00 2.59
1660 1764 0.462047 CTCAGTACATTGGCGGACCC 60.462 60.000 0.00 0.00 33.59 4.46
1677 1781 3.941188 CAGAGGGTGTGCCGTGGT 61.941 66.667 0.00 0.00 34.97 4.16
2056 2256 8.713271 TGCTATTTTCAACGTTTTTCTTTTTGT 58.287 25.926 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 1.154016 CGAACGTGACGATGGCTCT 60.154 57.895 13.70 0.00 0.00 4.09
47 48 5.644636 ACATGCCAAAATGAAATTCATGTCC 59.355 36.000 9.47 0.00 41.38 4.02
50 51 5.220510 CGGACATGCCAAAATGAAATTCATG 60.221 40.000 9.47 0.00 39.40 3.07
54 55 3.007831 ACCGGACATGCCAAAATGAAATT 59.992 39.130 9.46 0.00 34.92 1.82
85 86 6.363088 TCGAAACAAAGCAAAGCAAATCATAG 59.637 34.615 0.00 0.00 0.00 2.23
100 101 6.416455 TCCGAATTCAACATTTCGAAACAAAG 59.584 34.615 13.81 6.35 45.68 2.77
112 113 6.966632 CGATACAAATTGTCCGAATTCAACAT 59.033 34.615 0.22 0.00 31.33 2.71
167 177 4.763793 GCACATCCATATACCTCAAATGCT 59.236 41.667 0.00 0.00 0.00 3.79
191 201 1.815408 GCGTCCATCATATGTTGGCCT 60.815 52.381 22.99 0.00 35.42 5.19
194 204 0.235665 GCGCGTCCATCATATGTTGG 59.764 55.000 22.13 22.13 36.48 3.77
214 254 1.829533 GTCCCCTATACGCCCACGA 60.830 63.158 0.00 0.00 43.93 4.35
235 296 3.754965 TCTACAGCTGACTTGGCAAATT 58.245 40.909 23.35 0.00 0.00 1.82
271 333 8.575649 ACCGTTGTCTAATGGAGAAAATATTT 57.424 30.769 5.35 0.00 44.30 1.40
337 416 1.500474 CTAGGATGGGCCAGTCTGAA 58.500 55.000 13.78 0.00 40.02 3.02
422 502 3.334691 TCTATTTTCTCACTGCAACGGG 58.665 45.455 0.00 0.00 0.00 5.28
471 551 1.130373 CAAACGGCGACAATATGCAGT 59.870 47.619 16.62 0.00 41.24 4.40
509 589 2.487762 AGGGTTTCATGCACGTACAATG 59.512 45.455 0.00 0.00 0.00 2.82
510 590 2.487762 CAGGGTTTCATGCACGTACAAT 59.512 45.455 0.00 0.00 0.00 2.71
524 604 1.271656 CCGTAGACTCGTTCAGGGTTT 59.728 52.381 0.00 0.00 30.37 3.27
567 651 9.152595 GGCGTATTATATTTTAGAAAGAGGGAG 57.847 37.037 0.00 0.00 0.00 4.30
569 653 7.064253 CGGGCGTATTATATTTTAGAAAGAGGG 59.936 40.741 0.00 0.00 0.00 4.30
570 654 7.601508 ACGGGCGTATTATATTTTAGAAAGAGG 59.398 37.037 0.00 0.00 0.00 3.69
571 655 8.433126 CACGGGCGTATTATATTTTAGAAAGAG 58.567 37.037 0.00 0.00 0.00 2.85
572 656 7.927629 ACACGGGCGTATTATATTTTAGAAAGA 59.072 33.333 0.00 0.00 0.00 2.52
573 657 8.080083 ACACGGGCGTATTATATTTTAGAAAG 57.920 34.615 0.00 0.00 0.00 2.62
574 658 8.436046 AACACGGGCGTATTATATTTTAGAAA 57.564 30.769 0.00 0.00 0.00 2.52
575 659 8.436046 AAACACGGGCGTATTATATTTTAGAA 57.564 30.769 0.00 0.00 0.00 2.10
576 660 8.436046 AAAACACGGGCGTATTATATTTTAGA 57.564 30.769 0.00 0.00 0.00 2.10
577 661 9.161684 GAAAAACACGGGCGTATTATATTTTAG 57.838 33.333 0.00 0.00 0.00 1.85
578 662 7.850003 CGAAAAACACGGGCGTATTATATTTTA 59.150 33.333 0.00 0.00 0.00 1.52
579 663 6.687958 CGAAAAACACGGGCGTATTATATTTT 59.312 34.615 0.00 0.00 0.00 1.82
580 664 6.036953 TCGAAAAACACGGGCGTATTATATTT 59.963 34.615 0.00 0.00 0.00 1.40
581 665 5.523188 TCGAAAAACACGGGCGTATTATATT 59.477 36.000 0.00 0.00 0.00 1.28
582 666 5.049167 TCGAAAAACACGGGCGTATTATAT 58.951 37.500 0.00 0.00 0.00 0.86
583 667 4.428209 TCGAAAAACACGGGCGTATTATA 58.572 39.130 0.00 0.00 0.00 0.98
584 668 3.260740 TCGAAAAACACGGGCGTATTAT 58.739 40.909 0.00 0.00 0.00 1.28
585 669 2.667481 CTCGAAAAACACGGGCGTATTA 59.333 45.455 0.00 0.00 0.00 0.98
586 670 1.461897 CTCGAAAAACACGGGCGTATT 59.538 47.619 0.00 0.00 0.00 1.89
587 671 1.073177 CTCGAAAAACACGGGCGTAT 58.927 50.000 0.00 0.00 0.00 3.06
588 672 0.945265 CCTCGAAAAACACGGGCGTA 60.945 55.000 0.00 0.00 0.00 4.42
589 673 2.248835 CCTCGAAAAACACGGGCGT 61.249 57.895 0.00 0.00 0.00 5.68
590 674 1.778027 AACCTCGAAAAACACGGGCG 61.778 55.000 0.00 0.00 0.00 6.13
591 675 0.040692 GAACCTCGAAAAACACGGGC 60.041 55.000 0.00 0.00 0.00 6.13
592 676 1.263217 CTGAACCTCGAAAAACACGGG 59.737 52.381 0.00 0.00 0.00 5.28
593 677 1.937899 ACTGAACCTCGAAAAACACGG 59.062 47.619 0.00 0.00 0.00 4.94
594 678 3.668596 AACTGAACCTCGAAAAACACG 57.331 42.857 0.00 0.00 0.00 4.49
595 679 5.395642 TCAAAACTGAACCTCGAAAAACAC 58.604 37.500 0.00 0.00 0.00 3.32
596 680 5.630661 TCAAAACTGAACCTCGAAAAACA 57.369 34.783 0.00 0.00 0.00 2.83
597 681 6.262601 TGATCAAAACTGAACCTCGAAAAAC 58.737 36.000 0.00 0.00 0.00 2.43
598 682 6.443934 TGATCAAAACTGAACCTCGAAAAA 57.556 33.333 0.00 0.00 0.00 1.94
599 683 6.633500 ATGATCAAAACTGAACCTCGAAAA 57.367 33.333 0.00 0.00 0.00 2.29
600 684 7.737972 TTATGATCAAAACTGAACCTCGAAA 57.262 32.000 0.00 0.00 0.00 3.46
601 685 7.737972 TTTATGATCAAAACTGAACCTCGAA 57.262 32.000 0.00 0.00 0.00 3.71
602 686 7.921786 ATTTATGATCAAAACTGAACCTCGA 57.078 32.000 0.00 0.00 0.00 4.04
603 687 8.970691 AAATTTATGATCAAAACTGAACCTCG 57.029 30.769 0.00 0.00 0.00 4.63
619 703 9.349713 AGTCAGTCTTGTTGGTTAAATTTATGA 57.650 29.630 0.00 0.00 0.00 2.15
620 704 9.965824 AAGTCAGTCTTGTTGGTTAAATTTATG 57.034 29.630 0.00 0.00 34.77 1.90
622 706 9.796120 CAAAGTCAGTCTTGTTGGTTAAATTTA 57.204 29.630 0.00 0.00 36.40 1.40
623 707 7.763985 CCAAAGTCAGTCTTGTTGGTTAAATTT 59.236 33.333 0.00 0.00 36.40 1.82
624 708 7.264947 CCAAAGTCAGTCTTGTTGGTTAAATT 58.735 34.615 0.00 0.00 36.40 1.82
625 709 6.682861 GCCAAAGTCAGTCTTGTTGGTTAAAT 60.683 38.462 0.00 0.00 36.76 1.40
626 710 5.393678 GCCAAAGTCAGTCTTGTTGGTTAAA 60.394 40.000 0.00 0.00 36.76 1.52
627 711 4.097286 GCCAAAGTCAGTCTTGTTGGTTAA 59.903 41.667 0.00 0.00 36.76 2.01
628 712 3.630312 GCCAAAGTCAGTCTTGTTGGTTA 59.370 43.478 0.00 0.00 36.76 2.85
629 713 2.427095 GCCAAAGTCAGTCTTGTTGGTT 59.573 45.455 0.00 0.00 36.76 3.67
630 714 2.024414 GCCAAAGTCAGTCTTGTTGGT 58.976 47.619 0.00 0.00 36.76 3.67
631 715 1.002468 CGCCAAAGTCAGTCTTGTTGG 60.002 52.381 0.00 0.00 37.20 3.77
632 716 1.002468 CCGCCAAAGTCAGTCTTGTTG 60.002 52.381 0.00 0.00 36.40 3.33
633 717 1.134220 TCCGCCAAAGTCAGTCTTGTT 60.134 47.619 0.00 0.00 36.40 2.83
634 718 0.468226 TCCGCCAAAGTCAGTCTTGT 59.532 50.000 0.00 0.00 36.40 3.16
635 719 1.532868 CTTCCGCCAAAGTCAGTCTTG 59.467 52.381 0.00 0.00 36.40 3.02
636 720 1.884235 CTTCCGCCAAAGTCAGTCTT 58.116 50.000 0.00 0.00 38.10 3.01
637 721 0.603975 GCTTCCGCCAAAGTCAGTCT 60.604 55.000 0.00 0.00 0.00 3.24
638 722 0.884704 TGCTTCCGCCAAAGTCAGTC 60.885 55.000 0.00 0.00 34.43 3.51
639 723 0.465460 TTGCTTCCGCCAAAGTCAGT 60.465 50.000 0.00 0.00 34.43 3.41
640 724 0.667993 TTTGCTTCCGCCAAAGTCAG 59.332 50.000 0.00 0.00 34.43 3.51
641 725 1.107114 TTTTGCTTCCGCCAAAGTCA 58.893 45.000 0.00 0.00 34.43 3.41
642 726 2.217429 TTTTTGCTTCCGCCAAAGTC 57.783 45.000 0.00 0.00 33.09 3.01
643 727 2.908688 ATTTTTGCTTCCGCCAAAGT 57.091 40.000 0.00 0.00 33.09 2.66
644 728 8.641499 TTATATAATTTTTGCTTCCGCCAAAG 57.359 30.769 0.00 0.00 33.09 2.77
645 729 9.606631 AATTATATAATTTTTGCTTCCGCCAAA 57.393 25.926 13.85 0.00 32.28 3.28
646 730 9.039870 CAATTATATAATTTTTGCTTCCGCCAA 57.960 29.630 16.47 0.00 33.88 4.52
647 731 8.417106 TCAATTATATAATTTTTGCTTCCGCCA 58.583 29.630 16.47 0.00 33.88 5.69
648 732 8.810652 TCAATTATATAATTTTTGCTTCCGCC 57.189 30.769 16.47 0.00 33.88 6.13
671 755 9.307121 TGAATTCGCATTTAAAAGAAGTTTTCA 57.693 25.926 0.04 4.09 37.12 2.69
675 759 8.711457 CCAATGAATTCGCATTTAAAAGAAGTT 58.289 29.630 0.04 0.00 36.39 2.66
676 760 7.872483 ACCAATGAATTCGCATTTAAAAGAAGT 59.128 29.630 0.04 0.00 36.39 3.01
677 761 8.243289 ACCAATGAATTCGCATTTAAAAGAAG 57.757 30.769 0.04 0.00 36.39 2.85
678 762 9.868277 ATACCAATGAATTCGCATTTAAAAGAA 57.132 25.926 0.04 0.00 36.39 2.52
685 769 9.651913 AAAAGTTATACCAATGAATTCGCATTT 57.348 25.926 0.04 0.00 36.39 2.32
686 770 9.086336 CAAAAGTTATACCAATGAATTCGCATT 57.914 29.630 0.04 0.00 38.96 3.56
687 771 8.250332 ACAAAAGTTATACCAATGAATTCGCAT 58.750 29.630 0.04 0.00 0.00 4.73
688 772 7.598278 ACAAAAGTTATACCAATGAATTCGCA 58.402 30.769 0.04 0.00 0.00 5.10
689 773 8.460831 AACAAAAGTTATACCAATGAATTCGC 57.539 30.769 0.04 0.00 0.00 4.70
692 776 9.418045 CGGAAACAAAAGTTATACCAATGAATT 57.582 29.630 0.00 0.00 0.00 2.17
693 777 7.544217 GCGGAAACAAAAGTTATACCAATGAAT 59.456 33.333 0.00 0.00 0.00 2.57
694 778 6.864165 GCGGAAACAAAAGTTATACCAATGAA 59.136 34.615 0.00 0.00 0.00 2.57
695 779 6.383415 GCGGAAACAAAAGTTATACCAATGA 58.617 36.000 0.00 0.00 0.00 2.57
696 780 5.575218 GGCGGAAACAAAAGTTATACCAATG 59.425 40.000 0.00 0.00 0.00 2.82
697 781 5.620429 CGGCGGAAACAAAAGTTATACCAAT 60.620 40.000 0.00 0.00 0.00 3.16
698 782 4.320348 CGGCGGAAACAAAAGTTATACCAA 60.320 41.667 0.00 0.00 0.00 3.67
699 783 3.188873 CGGCGGAAACAAAAGTTATACCA 59.811 43.478 0.00 0.00 0.00 3.25
700 784 3.750512 CGGCGGAAACAAAAGTTATACC 58.249 45.455 0.00 0.00 0.00 2.73
701 785 3.165890 GCGGCGGAAACAAAAGTTATAC 58.834 45.455 9.78 0.00 0.00 1.47
702 786 2.812591 TGCGGCGGAAACAAAAGTTATA 59.187 40.909 9.78 0.00 0.00 0.98
703 787 1.609555 TGCGGCGGAAACAAAAGTTAT 59.390 42.857 9.78 0.00 0.00 1.89
704 788 1.002251 CTGCGGCGGAAACAAAAGTTA 60.002 47.619 9.78 0.00 0.00 2.24
705 789 0.248866 CTGCGGCGGAAACAAAAGTT 60.249 50.000 9.78 0.00 0.00 2.66
706 790 1.358759 CTGCGGCGGAAACAAAAGT 59.641 52.632 9.78 0.00 0.00 2.66
707 791 0.248866 AACTGCGGCGGAAACAAAAG 60.249 50.000 17.15 0.00 0.00 2.27
708 792 0.526524 CAACTGCGGCGGAAACAAAA 60.527 50.000 17.15 0.00 0.00 2.44
709 793 1.064946 CAACTGCGGCGGAAACAAA 59.935 52.632 17.15 0.00 0.00 2.83
710 794 2.718731 CAACTGCGGCGGAAACAA 59.281 55.556 17.15 0.00 0.00 2.83
711 795 3.283684 CCAACTGCGGCGGAAACA 61.284 61.111 17.15 0.00 0.00 2.83
712 796 3.249973 GACCAACTGCGGCGGAAAC 62.250 63.158 17.15 0.00 0.00 2.78
713 797 2.975799 GACCAACTGCGGCGGAAA 60.976 61.111 17.15 0.00 0.00 3.13
714 798 3.876589 GAGACCAACTGCGGCGGAA 62.877 63.158 17.15 0.00 0.00 4.30
715 799 4.373116 GAGACCAACTGCGGCGGA 62.373 66.667 17.15 4.40 0.00 5.54
718 802 2.665185 AACGAGACCAACTGCGGC 60.665 61.111 0.00 0.00 0.00 6.53
719 803 2.317609 CCAACGAGACCAACTGCGG 61.318 63.158 0.00 0.00 0.00 5.69
720 804 1.157870 AACCAACGAGACCAACTGCG 61.158 55.000 0.00 0.00 0.00 5.18
721 805 1.873698 TAACCAACGAGACCAACTGC 58.126 50.000 0.00 0.00 0.00 4.40
722 806 5.432885 AATTTAACCAACGAGACCAACTG 57.567 39.130 0.00 0.00 0.00 3.16
723 807 7.754851 ATAAATTTAACCAACGAGACCAACT 57.245 32.000 1.21 0.00 0.00 3.16
724 808 8.724229 ACTATAAATTTAACCAACGAGACCAAC 58.276 33.333 1.21 0.00 0.00 3.77
725 809 8.851541 ACTATAAATTTAACCAACGAGACCAA 57.148 30.769 1.21 0.00 0.00 3.67
726 810 7.276218 CGACTATAAATTTAACCAACGAGACCA 59.724 37.037 1.21 0.00 0.00 4.02
727 811 7.489113 TCGACTATAAATTTAACCAACGAGACC 59.511 37.037 1.21 0.00 0.00 3.85
728 812 8.398491 TCGACTATAAATTTAACCAACGAGAC 57.602 34.615 1.21 0.00 0.00 3.36
729 813 8.984891 TTCGACTATAAATTTAACCAACGAGA 57.015 30.769 1.21 1.11 0.00 4.04
730 814 8.866956 ACTTCGACTATAAATTTAACCAACGAG 58.133 33.333 1.21 7.24 0.00 4.18
731 815 8.761575 ACTTCGACTATAAATTTAACCAACGA 57.238 30.769 1.21 7.64 0.00 3.85
732 816 9.257865 CAACTTCGACTATAAATTTAACCAACG 57.742 33.333 1.21 5.63 0.00 4.10
736 820 9.486857 GCTTCAACTTCGACTATAAATTTAACC 57.513 33.333 1.21 0.00 0.00 2.85
739 823 9.210329 TGTGCTTCAACTTCGACTATAAATTTA 57.790 29.630 0.00 0.00 0.00 1.40
740 824 8.094798 TGTGCTTCAACTTCGACTATAAATTT 57.905 30.769 0.00 0.00 0.00 1.82
741 825 7.602644 TCTGTGCTTCAACTTCGACTATAAATT 59.397 33.333 0.00 0.00 0.00 1.82
742 826 7.097192 TCTGTGCTTCAACTTCGACTATAAAT 58.903 34.615 0.00 0.00 0.00 1.40
743 827 6.452242 TCTGTGCTTCAACTTCGACTATAAA 58.548 36.000 0.00 0.00 0.00 1.40
744 828 6.020971 TCTGTGCTTCAACTTCGACTATAA 57.979 37.500 0.00 0.00 0.00 0.98
745 829 5.638596 TCTGTGCTTCAACTTCGACTATA 57.361 39.130 0.00 0.00 0.00 1.31
746 830 4.521130 TCTGTGCTTCAACTTCGACTAT 57.479 40.909 0.00 0.00 0.00 2.12
747 831 4.316205 TTCTGTGCTTCAACTTCGACTA 57.684 40.909 0.00 0.00 0.00 2.59
748 832 2.890808 TCTGTGCTTCAACTTCGACT 57.109 45.000 0.00 0.00 0.00 4.18
749 833 3.546218 GGTTTCTGTGCTTCAACTTCGAC 60.546 47.826 0.00 0.00 0.00 4.20
750 834 2.612212 GGTTTCTGTGCTTCAACTTCGA 59.388 45.455 0.00 0.00 0.00 3.71
751 835 2.599848 CGGTTTCTGTGCTTCAACTTCG 60.600 50.000 0.00 0.00 0.00 3.79
752 836 2.612212 TCGGTTTCTGTGCTTCAACTTC 59.388 45.455 0.00 0.00 0.00 3.01
753 837 2.614057 CTCGGTTTCTGTGCTTCAACTT 59.386 45.455 0.00 0.00 0.00 2.66
754 838 2.213499 CTCGGTTTCTGTGCTTCAACT 58.787 47.619 0.00 0.00 0.00 3.16
755 839 1.264288 CCTCGGTTTCTGTGCTTCAAC 59.736 52.381 0.00 0.00 0.00 3.18
756 840 1.140052 TCCTCGGTTTCTGTGCTTCAA 59.860 47.619 0.00 0.00 0.00 2.69
757 841 0.756294 TCCTCGGTTTCTGTGCTTCA 59.244 50.000 0.00 0.00 0.00 3.02
758 842 1.734465 CATCCTCGGTTTCTGTGCTTC 59.266 52.381 0.00 0.00 0.00 3.86
759 843 1.813513 CATCCTCGGTTTCTGTGCTT 58.186 50.000 0.00 0.00 0.00 3.91
760 844 0.674895 GCATCCTCGGTTTCTGTGCT 60.675 55.000 0.00 0.00 0.00 4.40
761 845 0.955428 TGCATCCTCGGTTTCTGTGC 60.955 55.000 0.00 0.00 0.00 4.57
762 846 0.798776 GTGCATCCTCGGTTTCTGTG 59.201 55.000 0.00 0.00 0.00 3.66
763 847 0.687354 AGTGCATCCTCGGTTTCTGT 59.313 50.000 0.00 0.00 0.00 3.41
764 848 2.672961 TAGTGCATCCTCGGTTTCTG 57.327 50.000 0.00 0.00 0.00 3.02
765 849 5.552870 AATATAGTGCATCCTCGGTTTCT 57.447 39.130 0.00 0.00 0.00 2.52
766 850 6.260050 TCAAAATATAGTGCATCCTCGGTTTC 59.740 38.462 0.00 0.00 0.00 2.78
767 851 6.119536 TCAAAATATAGTGCATCCTCGGTTT 58.880 36.000 0.00 0.00 0.00 3.27
768 852 5.680619 TCAAAATATAGTGCATCCTCGGTT 58.319 37.500 0.00 0.00 0.00 4.44
769 853 5.290493 TCAAAATATAGTGCATCCTCGGT 57.710 39.130 0.00 0.00 0.00 4.69
770 854 6.293626 CCTTTCAAAATATAGTGCATCCTCGG 60.294 42.308 0.00 0.00 0.00 4.63
771 855 6.293626 CCCTTTCAAAATATAGTGCATCCTCG 60.294 42.308 0.00 0.00 0.00 4.63
772 856 6.015940 CCCCTTTCAAAATATAGTGCATCCTC 60.016 42.308 0.00 0.00 0.00 3.71
773 857 5.835280 CCCCTTTCAAAATATAGTGCATCCT 59.165 40.000 0.00 0.00 0.00 3.24
774 858 5.011023 CCCCCTTTCAAAATATAGTGCATCC 59.989 44.000 0.00 0.00 0.00 3.51
775 859 5.833131 TCCCCCTTTCAAAATATAGTGCATC 59.167 40.000 0.00 0.00 0.00 3.91
776 860 5.776358 TCCCCCTTTCAAAATATAGTGCAT 58.224 37.500 0.00 0.00 0.00 3.96
777 861 5.199982 TCCCCCTTTCAAAATATAGTGCA 57.800 39.130 0.00 0.00 0.00 4.57
778 862 5.201243 ACTCCCCCTTTCAAAATATAGTGC 58.799 41.667 0.00 0.00 0.00 4.40
779 863 8.217799 TCATACTCCCCCTTTCAAAATATAGTG 58.782 37.037 0.00 0.00 0.00 2.74
780 864 8.344939 TCATACTCCCCCTTTCAAAATATAGT 57.655 34.615 0.00 0.00 0.00 2.12
781 865 9.813826 ATTCATACTCCCCCTTTCAAAATATAG 57.186 33.333 0.00 0.00 0.00 1.31
784 868 9.807921 GATATTCATACTCCCCCTTTCAAAATA 57.192 33.333 0.00 0.00 0.00 1.40
785 869 7.448469 CGATATTCATACTCCCCCTTTCAAAAT 59.552 37.037 0.00 0.00 0.00 1.82
786 870 6.770785 CGATATTCATACTCCCCCTTTCAAAA 59.229 38.462 0.00 0.00 0.00 2.44
787 871 6.100569 TCGATATTCATACTCCCCCTTTCAAA 59.899 38.462 0.00 0.00 0.00 2.69
788 872 5.605069 TCGATATTCATACTCCCCCTTTCAA 59.395 40.000 0.00 0.00 0.00 2.69
789 873 5.152193 TCGATATTCATACTCCCCCTTTCA 58.848 41.667 0.00 0.00 0.00 2.69
790 874 5.740290 TCGATATTCATACTCCCCCTTTC 57.260 43.478 0.00 0.00 0.00 2.62
791 875 5.045578 CCATCGATATTCATACTCCCCCTTT 60.046 44.000 0.00 0.00 0.00 3.11
792 876 4.471386 CCATCGATATTCATACTCCCCCTT 59.529 45.833 0.00 0.00 0.00 3.95
793 877 4.033709 CCATCGATATTCATACTCCCCCT 58.966 47.826 0.00 0.00 0.00 4.79
794 878 3.134804 CCCATCGATATTCATACTCCCCC 59.865 52.174 0.00 0.00 0.00 5.40
795 879 4.030913 TCCCATCGATATTCATACTCCCC 58.969 47.826 0.00 0.00 0.00 4.81
796 880 4.440250 CGTCCCATCGATATTCATACTCCC 60.440 50.000 0.00 0.00 0.00 4.30
797 881 4.398358 TCGTCCCATCGATATTCATACTCC 59.602 45.833 0.00 0.00 34.85 3.85
798 882 5.106277 TGTCGTCCCATCGATATTCATACTC 60.106 44.000 0.00 0.00 41.78 2.59
799 883 4.765339 TGTCGTCCCATCGATATTCATACT 59.235 41.667 0.00 0.00 41.78 2.12
800 884 5.055642 TGTCGTCCCATCGATATTCATAC 57.944 43.478 0.00 0.00 41.78 2.39
801 885 5.715434 TTGTCGTCCCATCGATATTCATA 57.285 39.130 0.00 0.00 41.78 2.15
802 886 4.600692 TTGTCGTCCCATCGATATTCAT 57.399 40.909 0.00 0.00 41.78 2.57
803 887 4.600692 ATTGTCGTCCCATCGATATTCA 57.399 40.909 0.00 0.00 41.78 2.57
804 888 6.128634 GGTTAATTGTCGTCCCATCGATATTC 60.129 42.308 0.00 0.00 41.78 1.75
844 928 3.623060 TGAGTCTCAAAGTTGTTGTCAGC 59.377 43.478 0.00 0.00 0.00 4.26
878 962 6.761714 GCTTATATATATATATGGGCCGTGCC 59.238 42.308 20.93 6.38 37.72 5.01
1023 1111 2.979197 CTCCTCGGCTTGACGTCGT 61.979 63.158 11.62 0.00 42.47 4.34
1048 1136 0.545071 TGCCTCATCACCTGTCTCCA 60.545 55.000 0.00 0.00 0.00 3.86
1101 1189 1.807573 GAAGCAGGGCGTCTTCTCG 60.808 63.158 10.22 0.00 36.63 4.04
1308 1396 0.890996 CAACCTTCGCCTTGAGCCTT 60.891 55.000 0.00 0.00 38.78 4.35
1419 1507 5.965033 TGGCTATCTTTCTCTTCTTGGAT 57.035 39.130 0.00 0.00 0.00 3.41
1436 1524 4.280819 CCAAGATCATTTTCCCTTGGCTA 58.719 43.478 0.00 0.00 45.98 3.93
1437 1525 3.102204 CCAAGATCATTTTCCCTTGGCT 58.898 45.455 0.00 0.00 45.98 4.75
1465 1553 3.343617 ACCAATGTTACCGTGATGAAGG 58.656 45.455 0.00 0.00 0.00 3.46
1469 1557 2.705730 TGGACCAATGTTACCGTGATG 58.294 47.619 0.00 0.00 0.00 3.07
1499 1588 3.812053 GAGTGCAGGCTATAGGAACAATG 59.188 47.826 1.04 0.00 0.00 2.82
1535 1624 7.081976 CGGTTTCAAATAGGAGGTTAACAAAG 58.918 38.462 8.10 0.00 0.00 2.77
1582 1686 7.121611 ACAATCAGACATGCTCAATCAATGTAA 59.878 33.333 0.00 0.00 0.00 2.41
1616 1720 1.005630 GTCACACTGAAGCGCTCCT 60.006 57.895 12.06 0.00 0.00 3.69
1623 1727 6.320494 ACTGAGTACTTAGTCACACTGAAG 57.680 41.667 14.22 0.00 32.56 3.02
1643 1747 0.744414 CTGGGTCCGCCAATGTACTG 60.744 60.000 0.00 0.00 36.17 2.74
1660 1764 2.579657 TACCACGGCACACCCTCTG 61.580 63.158 0.00 0.00 0.00 3.35
1677 1781 6.909550 AAAATCTGTAAAATGCTGGGTGTA 57.090 33.333 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.