Multiple sequence alignment - TraesCS6A01G211700

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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 TraesCS6A01G211700 chr6A 100.000 2411 0 0 1 2411 384798077 384795667 0.000000e+00 4453
1 TraesCS6A01G211700 chr6A 96.494 713 25 0 1699 2411 376392804 376392092 0.000000e+00 1179
2 TraesCS6A01G211700 chr6A 96.364 715 26 0 1697 2411 61613912 61614626 0.000000e+00 1177
3 TraesCS6A01G211700 chr6A 95.470 574 26 0 1 574 152814661 152815234 0.000000e+00 917
4 TraesCS6A01G211700 chr6A 95.470 574 25 1 1 574 612458701 612458129 0.000000e+00 915
5 TraesCS6A01G211700 chr3A 97.195 713 20 0 1699 2411 259401994 259402706 0.000000e+00 1206
6 TraesCS6A01G211700 chr3A 96.914 713 21 1 1699 2411 684271167 684270456 0.000000e+00 1194
7 TraesCS6A01G211700 chr3A 95.470 574 26 0 1 574 330330029 330330602 0.000000e+00 917
8 TraesCS6A01G211700 chr3A 95.470 574 26 0 1 574 507890386 507889813 0.000000e+00 917
9 TraesCS6A01G211700 chr3A 96.923 195 5 1 1383 1576 105550322 105550516 2.310000e-85 326
10 TraesCS6A01G211700 chr4A 96.364 715 26 0 1697 2411 185958641 185959355 0.000000e+00 1177
11 TraesCS6A01G211700 chr4A 96.073 713 28 0 1699 2411 185171735 185172447 0.000000e+00 1162
12 TraesCS6A01G211700 chr1A 96.364 715 25 1 1697 2411 296861891 296862604 0.000000e+00 1175
13 TraesCS6A01G211700 chr1A 96.213 713 27 0 1699 2411 157154694 157153982 0.000000e+00 1168
14 TraesCS6A01G211700 chr1A 97.943 632 13 0 754 1385 554490871 554490240 0.000000e+00 1096
15 TraesCS6A01G211700 chr1A 95.296 574 27 0 1 574 157155273 157154700 0.000000e+00 911
16 TraesCS6A01G211700 chr1A 96.923 195 5 1 1383 1576 554488662 554488468 2.310000e-85 326
17 TraesCS6A01G211700 chr5A 96.213 713 26 1 1699 2411 512528114 512527403 0.000000e+00 1166
18 TraesCS6A01G211700 chr5A 96.516 574 19 1 1 574 390316174 390315602 0.000000e+00 948
19 TraesCS6A01G211700 chr5A 95.470 574 26 0 1 574 383384626 383385199 0.000000e+00 917
20 TraesCS6A01G211700 chr5A 99.160 119 1 0 1577 1695 482021757 482021875 5.220000e-52 215
21 TraesCS6A01G211700 chr5D 97.940 631 13 0 755 1385 503322336 503321706 0.000000e+00 1094
22 TraesCS6A01G211700 chr5D 97.472 633 16 0 753 1385 432325217 432325849 0.000000e+00 1081
23 TraesCS6A01G211700 chr5D 97.314 633 17 0 753 1385 6244431 6245063 0.000000e+00 1075
24 TraesCS6A01G211700 chr5D 96.923 195 5 1 1383 1576 329198271 329198077 2.310000e-85 326
25 TraesCS6A01G211700 chr5D 96.923 195 5 1 1383 1576 503320131 503319937 2.310000e-85 326
26 TraesCS6A01G211700 chr5D 96.410 195 6 1 1383 1576 503346067 503345873 1.080000e-83 320
27 TraesCS6A01G211700 chr5D 97.207 179 3 1 574 752 483803952 483804128 3.900000e-78 302
28 TraesCS6A01G211700 chr5D 99.160 119 1 0 1577 1695 503255038 503254920 5.220000e-52 215
29 TraesCS6A01G211700 chr2B 97.788 633 13 1 753 1385 683737243 683736612 0.000000e+00 1090
30 TraesCS6A01G211700 chr2B 97.207 179 3 1 574 752 161762239 161762063 3.900000e-78 302
31 TraesCS6A01G211700 chr2B 96.648 179 4 1 574 752 474938675 474938499 1.810000e-76 296
32 TraesCS6A01G211700 chrUn 97.630 633 15 0 753 1385 359775417 359774785 0.000000e+00 1086
33 TraesCS6A01G211700 chrUn 96.923 195 5 1 1383 1576 424637299 424637493 2.310000e-85 326
34 TraesCS6A01G211700 chrUn 99.160 119 1 0 1577 1695 341018953 341019071 5.220000e-52 215
35 TraesCS6A01G211700 chrUn 99.160 119 1 0 1577 1695 454067439 454067557 5.220000e-52 215
36 TraesCS6A01G211700 chrUn 98.319 119 2 0 1577 1695 355920181 355920299 2.430000e-50 209
37 TraesCS6A01G211700 chr7B 97.630 633 15 0 753 1385 662746227 662746859 0.000000e+00 1086
38 TraesCS6A01G211700 chr7B 99.160 119 1 0 1577 1695 622428211 622428093 5.220000e-52 215
39 TraesCS6A01G211700 chr4D 97.472 633 15 1 753 1385 19909520 19908889 0.000000e+00 1079
40 TraesCS6A01G211700 chr1D 97.314 633 16 1 753 1385 180377419 180378050 0.000000e+00 1074
41 TraesCS6A01G211700 chr1D 96.410 195 6 1 1383 1576 51825328 51825522 1.080000e-83 320
42 TraesCS6A01G211700 chr1D 96.410 195 6 1 1383 1576 254466041 254465847 1.080000e-83 320
43 TraesCS6A01G211700 chr1D 97.765 179 4 0 574 752 244361447 244361269 2.330000e-80 309
44 TraesCS6A01G211700 chr1D 96.648 179 3 2 574 752 254480803 254480628 6.520000e-76 294
45 TraesCS6A01G211700 chr7A 95.993 574 23 0 1 574 198058304 198058877 0.000000e+00 933
46 TraesCS6A01G211700 chr7A 95.462 573 26 0 1 573 358775263 358775835 0.000000e+00 915
47 TraesCS6A01G211700 chr3B 96.923 195 5 1 1383 1576 201479042 201478848 2.310000e-85 326
48 TraesCS6A01G211700 chr3B 99.160 119 1 0 1577 1695 201553053 201553171 5.220000e-52 215
49 TraesCS6A01G211700 chr3D 97.765 179 4 0 574 752 24150359 24150537 2.330000e-80 309
50 TraesCS6A01G211700 chr3D 99.160 119 1 0 1577 1695 158939486 158939368 5.220000e-52 215
51 TraesCS6A01G211700 chr3D 98.319 119 2 0 1577 1695 589250456 589250338 2.430000e-50 209
52 TraesCS6A01G211700 chr2D 97.207 179 3 1 574 752 359631070 359631246 3.900000e-78 302
53 TraesCS6A01G211700 chr2D 97.207 179 3 1 574 752 628292686 628292862 3.900000e-78 302
54 TraesCS6A01G211700 chr2D 96.648 179 4 1 574 752 643857167 643856991 1.810000e-76 296


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 TraesCS6A01G211700 chr6A 384795667 384798077 2410 True 4453.0 4453 100.0000 1 2411 1 chr6A.!!$R2 2410
1 TraesCS6A01G211700 chr6A 376392092 376392804 712 True 1179.0 1179 96.4940 1699 2411 1 chr6A.!!$R1 712
2 TraesCS6A01G211700 chr6A 61613912 61614626 714 False 1177.0 1177 96.3640 1697 2411 1 chr6A.!!$F1 714
3 TraesCS6A01G211700 chr6A 152814661 152815234 573 False 917.0 917 95.4700 1 574 1 chr6A.!!$F2 573
4 TraesCS6A01G211700 chr6A 612458129 612458701 572 True 915.0 915 95.4700 1 574 1 chr6A.!!$R3 573
5 TraesCS6A01G211700 chr3A 259401994 259402706 712 False 1206.0 1206 97.1950 1699 2411 1 chr3A.!!$F2 712
6 TraesCS6A01G211700 chr3A 684270456 684271167 711 True 1194.0 1194 96.9140 1699 2411 1 chr3A.!!$R2 712
7 TraesCS6A01G211700 chr3A 330330029 330330602 573 False 917.0 917 95.4700 1 574 1 chr3A.!!$F3 573
8 TraesCS6A01G211700 chr3A 507889813 507890386 573 True 917.0 917 95.4700 1 574 1 chr3A.!!$R1 573
9 TraesCS6A01G211700 chr4A 185958641 185959355 714 False 1177.0 1177 96.3640 1697 2411 1 chr4A.!!$F2 714
10 TraesCS6A01G211700 chr4A 185171735 185172447 712 False 1162.0 1162 96.0730 1699 2411 1 chr4A.!!$F1 712
11 TraesCS6A01G211700 chr1A 296861891 296862604 713 False 1175.0 1175 96.3640 1697 2411 1 chr1A.!!$F1 714
12 TraesCS6A01G211700 chr1A 157153982 157155273 1291 True 1039.5 1168 95.7545 1 2411 2 chr1A.!!$R1 2410
13 TraesCS6A01G211700 chr1A 554488468 554490871 2403 True 711.0 1096 97.4330 754 1576 2 chr1A.!!$R2 822
14 TraesCS6A01G211700 chr5A 512527403 512528114 711 True 1166.0 1166 96.2130 1699 2411 1 chr5A.!!$R2 712
15 TraesCS6A01G211700 chr5A 390315602 390316174 572 True 948.0 948 96.5160 1 574 1 chr5A.!!$R1 573
16 TraesCS6A01G211700 chr5A 383384626 383385199 573 False 917.0 917 95.4700 1 574 1 chr5A.!!$F1 573
17 TraesCS6A01G211700 chr5D 432325217 432325849 632 False 1081.0 1081 97.4720 753 1385 1 chr5D.!!$F2 632
18 TraesCS6A01G211700 chr5D 6244431 6245063 632 False 1075.0 1075 97.3140 753 1385 1 chr5D.!!$F1 632
19 TraesCS6A01G211700 chr5D 503319937 503322336 2399 True 710.0 1094 97.4315 755 1576 2 chr5D.!!$R4 821
20 TraesCS6A01G211700 chr2B 683736612 683737243 631 True 1090.0 1090 97.7880 753 1385 1 chr2B.!!$R3 632
21 TraesCS6A01G211700 chrUn 359774785 359775417 632 True 1086.0 1086 97.6300 753 1385 1 chrUn.!!$R1 632
22 TraesCS6A01G211700 chr7B 662746227 662746859 632 False 1086.0 1086 97.6300 753 1385 1 chr7B.!!$F1 632
23 TraesCS6A01G211700 chr4D 19908889 19909520 631 True 1079.0 1079 97.4720 753 1385 1 chr4D.!!$R1 632
24 TraesCS6A01G211700 chr1D 180377419 180378050 631 False 1074.0 1074 97.3140 753 1385 1 chr1D.!!$F2 632
25 TraesCS6A01G211700 chr7A 198058304 198058877 573 False 933.0 933 95.9930 1 574 1 chr7A.!!$F1 573
26 TraesCS6A01G211700 chr7A 358775263 358775835 572 False 915.0 915 95.4620 1 573 1 chr7A.!!$F2 572

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
618 620 0.030908 GCTCCTTATCGACGTGGAGG 59.969 60.0 22.65 8.4 44.46 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2093 3677 0.035317 CCTTTGGCCTTTCCTTTGCC 59.965 55.0 3.32 0.0 45.56 4.52 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
205 206 1.703513 GACCCCACCAAGGTTTAGTCT 59.296 52.381 0.00 0.00 37.88 3.24
220 221 6.042781 AGGTTTAGTCTGTCACTGAATGGTTA 59.957 38.462 0.00 0.00 33.42 2.85
438 440 0.033504 CTGCCGGATATACGCAAGGT 59.966 55.000 5.05 0.00 46.39 3.50
552 554 7.094377 ACTGAAACCGCATGAGTTAAATTATGT 60.094 33.333 9.09 0.00 0.00 2.29
554 556 5.403897 ACCGCATGAGTTAAATTATGTCG 57.596 39.130 9.09 11.56 0.00 4.35
574 576 1.273048 GTGCATGATTTGGAGTTGGCA 59.727 47.619 0.00 0.00 0.00 4.92
576 578 1.134907 GCATGATTTGGAGTTGGCAGG 60.135 52.381 0.00 0.00 0.00 4.85
577 579 2.173519 CATGATTTGGAGTTGGCAGGT 58.826 47.619 0.00 0.00 0.00 4.00
578 580 3.355378 CATGATTTGGAGTTGGCAGGTA 58.645 45.455 0.00 0.00 0.00 3.08
579 581 3.737559 TGATTTGGAGTTGGCAGGTAT 57.262 42.857 0.00 0.00 0.00 2.73
580 582 4.046286 TGATTTGGAGTTGGCAGGTATT 57.954 40.909 0.00 0.00 0.00 1.89
581 583 5.186256 TGATTTGGAGTTGGCAGGTATTA 57.814 39.130 0.00 0.00 0.00 0.98
582 584 5.575157 TGATTTGGAGTTGGCAGGTATTAA 58.425 37.500 0.00 0.00 0.00 1.40
583 585 5.652014 TGATTTGGAGTTGGCAGGTATTAAG 59.348 40.000 0.00 0.00 0.00 1.85
584 586 3.644966 TGGAGTTGGCAGGTATTAAGG 57.355 47.619 0.00 0.00 0.00 2.69
585 587 2.916934 TGGAGTTGGCAGGTATTAAGGT 59.083 45.455 0.00 0.00 0.00 3.50
586 588 3.054655 TGGAGTTGGCAGGTATTAAGGTC 60.055 47.826 0.00 0.00 0.00 3.85
587 589 3.195661 GAGTTGGCAGGTATTAAGGTCG 58.804 50.000 0.00 0.00 0.00 4.79
588 590 2.570302 AGTTGGCAGGTATTAAGGTCGT 59.430 45.455 0.00 0.00 0.00 4.34
589 591 2.934553 GTTGGCAGGTATTAAGGTCGTC 59.065 50.000 0.00 0.00 0.00 4.20
590 592 1.135527 TGGCAGGTATTAAGGTCGTCG 59.864 52.381 0.00 0.00 0.00 5.12
591 593 1.406539 GGCAGGTATTAAGGTCGTCGA 59.593 52.381 0.00 0.00 0.00 4.20
592 594 2.035576 GGCAGGTATTAAGGTCGTCGAT 59.964 50.000 0.00 0.00 0.00 3.59
593 595 3.306818 GCAGGTATTAAGGTCGTCGATC 58.693 50.000 0.00 0.00 0.00 3.69
594 596 3.004524 GCAGGTATTAAGGTCGTCGATCT 59.995 47.826 1.05 1.05 0.00 2.75
595 597 4.499357 GCAGGTATTAAGGTCGTCGATCTT 60.499 45.833 23.35 23.35 36.85 2.40
596 598 5.589192 CAGGTATTAAGGTCGTCGATCTTT 58.411 41.667 24.81 11.41 34.57 2.52
597 599 6.040878 CAGGTATTAAGGTCGTCGATCTTTT 58.959 40.000 24.81 15.34 34.57 2.27
598 600 7.198390 CAGGTATTAAGGTCGTCGATCTTTTA 58.802 38.462 24.81 14.22 34.57 1.52
599 601 7.378995 CAGGTATTAAGGTCGTCGATCTTTTAG 59.621 40.741 24.81 6.19 34.57 1.85
600 602 6.143598 GGTATTAAGGTCGTCGATCTTTTAGC 59.856 42.308 24.81 20.12 34.57 3.09
601 603 3.870633 AAGGTCGTCGATCTTTTAGCT 57.129 42.857 15.03 0.00 27.14 3.32
602 604 3.423996 AGGTCGTCGATCTTTTAGCTC 57.576 47.619 1.05 0.00 0.00 4.09
603 605 2.099427 AGGTCGTCGATCTTTTAGCTCC 59.901 50.000 1.05 0.00 0.00 4.70
604 606 2.099427 GGTCGTCGATCTTTTAGCTCCT 59.901 50.000 0.00 0.00 0.00 3.69
605 607 3.429135 GGTCGTCGATCTTTTAGCTCCTT 60.429 47.826 0.00 0.00 0.00 3.36
606 608 4.201990 GGTCGTCGATCTTTTAGCTCCTTA 60.202 45.833 0.00 0.00 0.00 2.69
607 609 5.507650 GGTCGTCGATCTTTTAGCTCCTTAT 60.508 44.000 0.00 0.00 0.00 1.73
608 610 5.626132 GTCGTCGATCTTTTAGCTCCTTATC 59.374 44.000 0.00 0.00 0.00 1.75
609 611 4.613448 CGTCGATCTTTTAGCTCCTTATCG 59.387 45.833 10.44 10.44 36.87 2.92
610 612 5.560375 CGTCGATCTTTTAGCTCCTTATCGA 60.560 44.000 13.70 13.70 40.78 3.59
611 613 5.759963 TCGATCTTTTAGCTCCTTATCGAC 58.240 41.667 13.70 0.00 38.89 4.20
612 614 4.613448 CGATCTTTTAGCTCCTTATCGACG 59.387 45.833 10.97 0.00 37.52 5.12
613 615 4.978083 TCTTTTAGCTCCTTATCGACGT 57.022 40.909 0.00 0.00 0.00 4.34
614 616 4.669318 TCTTTTAGCTCCTTATCGACGTG 58.331 43.478 0.00 0.00 0.00 4.49
615 617 3.431922 TTTAGCTCCTTATCGACGTGG 57.568 47.619 0.00 0.00 0.00 4.94
616 618 2.336945 TAGCTCCTTATCGACGTGGA 57.663 50.000 1.72 1.72 0.00 4.02
617 619 1.025812 AGCTCCTTATCGACGTGGAG 58.974 55.000 19.24 19.24 46.38 3.86
618 620 0.030908 GCTCCTTATCGACGTGGAGG 59.969 60.000 22.65 8.40 44.46 4.30
619 621 1.676746 CTCCTTATCGACGTGGAGGA 58.323 55.000 16.99 6.64 41.59 3.71
620 622 2.022195 CTCCTTATCGACGTGGAGGAA 58.978 52.381 16.99 2.25 41.59 3.36
621 623 2.426024 CTCCTTATCGACGTGGAGGAAA 59.574 50.000 16.99 0.05 41.59 3.13
622 624 2.827322 TCCTTATCGACGTGGAGGAAAA 59.173 45.455 6.39 0.00 33.77 2.29
623 625 3.258872 TCCTTATCGACGTGGAGGAAAAA 59.741 43.478 6.39 0.00 33.77 1.94
624 626 4.081309 TCCTTATCGACGTGGAGGAAAAAT 60.081 41.667 6.39 0.00 33.77 1.82
625 627 5.127519 TCCTTATCGACGTGGAGGAAAAATA 59.872 40.000 6.39 0.00 33.77 1.40
626 628 5.462398 CCTTATCGACGTGGAGGAAAAATAG 59.538 44.000 6.39 0.00 0.00 1.73
627 629 3.241067 TCGACGTGGAGGAAAAATAGG 57.759 47.619 0.00 0.00 0.00 2.57
628 630 2.827322 TCGACGTGGAGGAAAAATAGGA 59.173 45.455 0.00 0.00 0.00 2.94
629 631 2.928116 CGACGTGGAGGAAAAATAGGAC 59.072 50.000 0.00 0.00 0.00 3.85
630 632 3.368116 CGACGTGGAGGAAAAATAGGACT 60.368 47.826 0.00 0.00 0.00 3.85
631 633 4.142315 CGACGTGGAGGAAAAATAGGACTA 60.142 45.833 0.00 0.00 0.00 2.59
632 634 5.451520 CGACGTGGAGGAAAAATAGGACTAT 60.452 44.000 0.00 0.00 0.00 2.12
633 635 6.309389 ACGTGGAGGAAAAATAGGACTATT 57.691 37.500 0.00 0.00 37.36 1.73
634 636 6.113411 ACGTGGAGGAAAAATAGGACTATTG 58.887 40.000 5.41 0.00 36.04 1.90
635 637 5.527582 CGTGGAGGAAAAATAGGACTATTGG 59.472 44.000 5.41 0.00 36.04 3.16
636 638 5.828328 GTGGAGGAAAAATAGGACTATTGGG 59.172 44.000 5.41 0.00 36.04 4.12
637 639 5.103686 TGGAGGAAAAATAGGACTATTGGGG 60.104 44.000 5.41 0.00 36.04 4.96
638 640 5.386060 GAGGAAAAATAGGACTATTGGGGG 58.614 45.833 5.41 0.00 36.04 5.40
656 658 4.822734 GGGGGCTGGAGTAGGTAA 57.177 61.111 0.00 0.00 0.00 2.85
657 659 3.016745 GGGGGCTGGAGTAGGTAAA 57.983 57.895 0.00 0.00 0.00 2.01
658 660 1.292085 GGGGGCTGGAGTAGGTAAAA 58.708 55.000 0.00 0.00 0.00 1.52
659 661 1.850998 GGGGGCTGGAGTAGGTAAAAT 59.149 52.381 0.00 0.00 0.00 1.82
660 662 3.050835 GGGGGCTGGAGTAGGTAAAATA 58.949 50.000 0.00 0.00 0.00 1.40
661 663 3.072622 GGGGGCTGGAGTAGGTAAAATAG 59.927 52.174 0.00 0.00 0.00 1.73
662 664 3.715315 GGGGCTGGAGTAGGTAAAATAGT 59.285 47.826 0.00 0.00 0.00 2.12
663 665 4.903649 GGGGCTGGAGTAGGTAAAATAGTA 59.096 45.833 0.00 0.00 0.00 1.82
664 666 5.221601 GGGGCTGGAGTAGGTAAAATAGTAC 60.222 48.000 0.00 0.00 0.00 2.73
665 667 5.601729 GGGCTGGAGTAGGTAAAATAGTACT 59.398 44.000 0.00 0.00 0.00 2.73
666 668 6.462628 GGGCTGGAGTAGGTAAAATAGTACTG 60.463 46.154 5.39 0.00 0.00 2.74
667 669 6.323225 GGCTGGAGTAGGTAAAATAGTACTGA 59.677 42.308 5.39 0.00 0.00 3.41
668 670 7.015389 GGCTGGAGTAGGTAAAATAGTACTGAT 59.985 40.741 5.39 0.00 0.00 2.90
669 671 8.083462 GCTGGAGTAGGTAAAATAGTACTGATC 58.917 40.741 5.39 0.00 0.00 2.92
670 672 9.132923 CTGGAGTAGGTAAAATAGTACTGATCA 57.867 37.037 5.39 0.00 0.00 2.92
671 673 9.656323 TGGAGTAGGTAAAATAGTACTGATCAT 57.344 33.333 5.39 0.00 0.00 2.45
672 674 9.915629 GGAGTAGGTAAAATAGTACTGATCATG 57.084 37.037 5.39 0.00 0.00 3.07
673 675 9.915629 GAGTAGGTAAAATAGTACTGATCATGG 57.084 37.037 5.39 0.00 0.00 3.66
674 676 9.656323 AGTAGGTAAAATAGTACTGATCATGGA 57.344 33.333 5.39 0.00 0.00 3.41
703 705 8.867112 AATCAATAACATTGCTAAAGCTCATG 57.133 30.769 3.26 8.07 42.66 3.07
704 706 6.798482 TCAATAACATTGCTAAAGCTCATGG 58.202 36.000 15.03 0.00 42.66 3.66
705 707 5.779529 ATAACATTGCTAAAGCTCATGGG 57.220 39.130 15.03 0.00 42.66 4.00
706 708 2.381911 ACATTGCTAAAGCTCATGGGG 58.618 47.619 15.03 0.00 42.66 4.96
707 709 1.684983 CATTGCTAAAGCTCATGGGGG 59.315 52.381 3.26 0.00 42.66 5.40
708 710 0.684153 TTGCTAAAGCTCATGGGGGC 60.684 55.000 3.26 0.00 42.66 5.80
709 711 2.189499 GCTAAAGCTCATGGGGGCG 61.189 63.158 0.00 0.00 38.21 6.13
710 712 1.224592 CTAAAGCTCATGGGGGCGT 59.775 57.895 0.00 0.00 0.00 5.68
711 713 0.468226 CTAAAGCTCATGGGGGCGTA 59.532 55.000 0.00 0.00 0.00 4.42
712 714 1.072331 CTAAAGCTCATGGGGGCGTAT 59.928 52.381 0.00 0.00 0.00 3.06
713 715 0.179018 AAAGCTCATGGGGGCGTATC 60.179 55.000 0.00 0.00 0.00 2.24
714 716 2.032681 GCTCATGGGGGCGTATCC 59.967 66.667 0.00 0.00 0.00 2.59
715 717 2.343758 CTCATGGGGGCGTATCCG 59.656 66.667 0.00 0.00 34.94 4.18
716 718 2.445085 TCATGGGGGCGTATCCGT 60.445 61.111 0.00 0.00 36.15 4.69
717 719 1.152504 TCATGGGGGCGTATCCGTA 60.153 57.895 0.00 0.00 36.15 4.02
718 720 0.543410 TCATGGGGGCGTATCCGTAT 60.543 55.000 0.00 0.00 36.15 3.06
719 721 0.323629 CATGGGGGCGTATCCGTATT 59.676 55.000 0.00 0.00 36.15 1.89
720 722 0.611714 ATGGGGGCGTATCCGTATTC 59.388 55.000 0.00 0.00 36.15 1.75
721 723 1.080298 GGGGGCGTATCCGTATTCG 60.080 63.158 0.00 0.00 36.15 3.34
733 735 0.672342 CGTATTCGGTGGAGTAGGGG 59.328 60.000 0.00 0.00 0.00 4.79
734 736 1.751733 CGTATTCGGTGGAGTAGGGGA 60.752 57.143 0.00 0.00 0.00 4.81
735 737 2.391678 GTATTCGGTGGAGTAGGGGAA 58.608 52.381 0.00 0.00 0.00 3.97
736 738 1.201424 ATTCGGTGGAGTAGGGGAAC 58.799 55.000 0.00 0.00 0.00 3.62
737 739 0.178926 TTCGGTGGAGTAGGGGAACA 60.179 55.000 0.00 0.00 0.00 3.18
738 740 0.613853 TCGGTGGAGTAGGGGAACAG 60.614 60.000 0.00 0.00 0.00 3.16
739 741 0.613853 CGGTGGAGTAGGGGAACAGA 60.614 60.000 0.00 0.00 0.00 3.41
740 742 0.903236 GGTGGAGTAGGGGAACAGAC 59.097 60.000 0.00 0.00 0.00 3.51
741 743 1.552719 GGTGGAGTAGGGGAACAGACT 60.553 57.143 0.00 0.00 0.00 3.24
742 744 1.826096 GTGGAGTAGGGGAACAGACTC 59.174 57.143 0.00 0.00 40.83 3.36
743 745 1.104630 GGAGTAGGGGAACAGACTCG 58.895 60.000 0.00 0.00 41.87 4.18
744 746 1.616456 GGAGTAGGGGAACAGACTCGT 60.616 57.143 0.00 0.00 41.87 4.18
745 747 1.473278 GAGTAGGGGAACAGACTCGTG 59.527 57.143 0.00 0.00 34.96 4.35
746 748 1.075050 AGTAGGGGAACAGACTCGTGA 59.925 52.381 0.00 0.00 0.00 4.35
747 749 1.891150 GTAGGGGAACAGACTCGTGAA 59.109 52.381 0.00 0.00 0.00 3.18
748 750 0.969894 AGGGGAACAGACTCGTGAAG 59.030 55.000 0.00 0.00 0.00 3.02
749 751 0.037232 GGGGAACAGACTCGTGAAGG 60.037 60.000 0.00 0.00 0.00 3.46
750 752 0.966920 GGGAACAGACTCGTGAAGGA 59.033 55.000 0.00 0.00 0.00 3.36
751 753 1.343465 GGGAACAGACTCGTGAAGGAA 59.657 52.381 0.00 0.00 0.00 3.36
811 813 7.417456 GGGATCCTGTAAAAACAACTTTTGAGT 60.417 37.037 12.58 0.00 37.78 3.41
821 823 4.159557 ACAACTTTTGAGTAATGGGCCAT 58.840 39.130 14.78 14.78 0.00 4.40
963 965 7.226720 TCTCGAAAAGTCTTTAGTGCTCATTTT 59.773 33.333 0.00 0.00 0.00 1.82
967 969 4.729868 AGTCTTTAGTGCTCATTTTGGGT 58.270 39.130 0.00 0.00 0.00 4.51
1014 1016 2.684881 GAGTGGCATGTACTTTCATGGG 59.315 50.000 8.41 0.00 43.54 4.00
1069 1071 1.191535 TCCTACTCACATTGGACCCG 58.808 55.000 0.00 0.00 0.00 5.28
1286 1289 1.003545 CCATTATCACAAAGCCGCTCG 60.004 52.381 0.00 0.00 0.00 5.03
1529 3113 2.106477 TGCTACCGCACATGATTTCA 57.894 45.000 0.00 0.00 42.25 2.69
1581 3165 9.659830 ACGTCTTTATCAGAACATTTTAAACAC 57.340 29.630 0.00 0.00 31.28 3.32
1582 3166 9.878599 CGTCTTTATCAGAACATTTTAAACACT 57.121 29.630 0.00 0.00 31.28 3.55
1592 3176 9.811995 AGAACATTTTAAACACTAGGAAAAACC 57.188 29.630 0.00 0.00 39.35 3.27
1593 3177 8.951787 AACATTTTAAACACTAGGAAAAACCC 57.048 30.769 0.00 0.00 40.05 4.11
1594 3178 8.080363 ACATTTTAAACACTAGGAAAAACCCA 57.920 30.769 0.00 0.00 40.05 4.51
1595 3179 8.710239 ACATTTTAAACACTAGGAAAAACCCAT 58.290 29.630 0.00 0.00 40.05 4.00
1599 3183 5.914898 AACACTAGGAAAAACCCATATGC 57.085 39.130 0.00 0.00 40.05 3.14
1600 3184 3.945285 ACACTAGGAAAAACCCATATGCG 59.055 43.478 0.00 0.00 40.05 4.73
1601 3185 4.196193 CACTAGGAAAAACCCATATGCGA 58.804 43.478 0.00 0.00 40.05 5.10
1602 3186 4.035208 CACTAGGAAAAACCCATATGCGAC 59.965 45.833 0.00 0.00 40.05 5.19
1603 3187 2.014128 AGGAAAAACCCATATGCGACG 58.986 47.619 0.00 0.00 40.05 5.12
1604 3188 2.011222 GGAAAAACCCATATGCGACGA 58.989 47.619 0.00 0.00 0.00 4.20
1605 3189 2.420722 GGAAAAACCCATATGCGACGAA 59.579 45.455 0.00 0.00 0.00 3.85
1606 3190 3.486875 GGAAAAACCCATATGCGACGAAG 60.487 47.826 0.00 0.00 0.00 3.79
1607 3191 2.684001 AAACCCATATGCGACGAAGA 57.316 45.000 0.00 0.00 0.00 2.87
1608 3192 2.910688 AACCCATATGCGACGAAGAT 57.089 45.000 0.00 0.00 0.00 2.40
1609 3193 2.910688 ACCCATATGCGACGAAGATT 57.089 45.000 0.00 0.00 0.00 2.40
1610 3194 3.194005 ACCCATATGCGACGAAGATTT 57.806 42.857 0.00 0.00 0.00 2.17
1611 3195 3.541632 ACCCATATGCGACGAAGATTTT 58.458 40.909 0.00 0.00 0.00 1.82
1612 3196 3.945285 ACCCATATGCGACGAAGATTTTT 59.055 39.130 0.00 0.00 0.00 1.94
1631 3215 5.759506 TTTTTGTTGCTGTCGGAATAAGA 57.240 34.783 0.00 0.00 0.00 2.10
1632 3216 5.759506 TTTTGTTGCTGTCGGAATAAGAA 57.240 34.783 0.00 0.00 0.00 2.52
1633 3217 5.957842 TTTGTTGCTGTCGGAATAAGAAT 57.042 34.783 0.00 0.00 0.00 2.40
1634 3218 7.441890 TTTTGTTGCTGTCGGAATAAGAATA 57.558 32.000 0.00 0.00 0.00 1.75
1635 3219 7.441890 TTTGTTGCTGTCGGAATAAGAATAA 57.558 32.000 0.00 0.00 0.00 1.40
1636 3220 6.662414 TGTTGCTGTCGGAATAAGAATAAG 57.338 37.500 0.00 0.00 0.00 1.73
1637 3221 5.584649 TGTTGCTGTCGGAATAAGAATAAGG 59.415 40.000 0.00 0.00 0.00 2.69
1638 3222 4.127171 TGCTGTCGGAATAAGAATAAGGC 58.873 43.478 0.00 0.00 0.00 4.35
1639 3223 3.498777 GCTGTCGGAATAAGAATAAGGCC 59.501 47.826 0.00 0.00 0.00 5.19
1640 3224 4.703897 CTGTCGGAATAAGAATAAGGCCA 58.296 43.478 5.01 0.00 0.00 5.36
1641 3225 5.105567 TGTCGGAATAAGAATAAGGCCAA 57.894 39.130 5.01 0.00 0.00 4.52
1642 3226 5.502079 TGTCGGAATAAGAATAAGGCCAAA 58.498 37.500 5.01 0.00 0.00 3.28
1643 3227 6.126409 TGTCGGAATAAGAATAAGGCCAAAT 58.874 36.000 5.01 0.00 0.00 2.32
1644 3228 6.262273 TGTCGGAATAAGAATAAGGCCAAATC 59.738 38.462 5.01 0.00 0.00 2.17
1645 3229 5.768164 TCGGAATAAGAATAAGGCCAAATCC 59.232 40.000 5.01 0.00 0.00 3.01
1646 3230 5.048013 CGGAATAAGAATAAGGCCAAATCCC 60.048 44.000 5.01 0.00 0.00 3.85
1647 3231 5.838521 GGAATAAGAATAAGGCCAAATCCCA 59.161 40.000 5.01 0.00 0.00 4.37
1648 3232 6.498303 GGAATAAGAATAAGGCCAAATCCCAT 59.502 38.462 5.01 0.00 0.00 4.00
1649 3233 7.016563 GGAATAAGAATAAGGCCAAATCCCATT 59.983 37.037 5.01 0.38 0.00 3.16
1650 3234 5.619132 AAGAATAAGGCCAAATCCCATTG 57.381 39.130 5.01 0.00 0.00 2.82
1651 3235 4.882559 AGAATAAGGCCAAATCCCATTGA 58.117 39.130 5.01 0.00 31.84 2.57
1652 3236 4.651045 AGAATAAGGCCAAATCCCATTGAC 59.349 41.667 5.01 0.00 31.84 3.18
1653 3237 2.323999 AAGGCCAAATCCCATTGACA 57.676 45.000 5.01 0.00 31.84 3.58
1654 3238 2.555732 AGGCCAAATCCCATTGACAT 57.444 45.000 5.01 0.00 31.84 3.06
1655 3239 3.686227 AGGCCAAATCCCATTGACATA 57.314 42.857 5.01 0.00 31.84 2.29
1656 3240 3.992999 AGGCCAAATCCCATTGACATAA 58.007 40.909 5.01 0.00 31.84 1.90
1657 3241 4.559726 AGGCCAAATCCCATTGACATAAT 58.440 39.130 5.01 0.00 31.84 1.28
1658 3242 5.714863 AGGCCAAATCCCATTGACATAATA 58.285 37.500 5.01 0.00 31.84 0.98
1659 3243 6.142498 AGGCCAAATCCCATTGACATAATAA 58.858 36.000 5.01 0.00 31.84 1.40
1660 3244 6.041979 AGGCCAAATCCCATTGACATAATAAC 59.958 38.462 5.01 0.00 31.84 1.89
1661 3245 6.041979 GGCCAAATCCCATTGACATAATAACT 59.958 38.462 0.00 0.00 31.84 2.24
1662 3246 6.925165 GCCAAATCCCATTGACATAATAACTG 59.075 38.462 0.00 0.00 31.84 3.16
1663 3247 7.436118 CCAAATCCCATTGACATAATAACTGG 58.564 38.462 0.00 0.00 31.84 4.00
1664 3248 7.287466 CCAAATCCCATTGACATAATAACTGGA 59.713 37.037 0.00 0.00 31.84 3.86
1665 3249 8.694540 CAAATCCCATTGACATAATAACTGGAA 58.305 33.333 0.00 0.00 31.84 3.53
1666 3250 8.469309 AATCCCATTGACATAATAACTGGAAG 57.531 34.615 0.00 0.00 42.29 3.46
1679 3263 0.908198 CTGGAAGTGGGAGAAGAGGG 59.092 60.000 0.00 0.00 0.00 4.30
1680 3264 0.491823 TGGAAGTGGGAGAAGAGGGA 59.508 55.000 0.00 0.00 0.00 4.20
1681 3265 1.081174 TGGAAGTGGGAGAAGAGGGAT 59.919 52.381 0.00 0.00 0.00 3.85
1682 3266 2.200955 GGAAGTGGGAGAAGAGGGATT 58.799 52.381 0.00 0.00 0.00 3.01
1683 3267 3.246350 TGGAAGTGGGAGAAGAGGGATTA 60.246 47.826 0.00 0.00 0.00 1.75
1684 3268 3.134985 GGAAGTGGGAGAAGAGGGATTAC 59.865 52.174 0.00 0.00 0.00 1.89
1685 3269 2.765502 AGTGGGAGAAGAGGGATTACC 58.234 52.381 0.00 0.00 40.67 2.85
1741 3325 9.401058 ACTTGGAGACATTATCTTATTGGAAAG 57.599 33.333 0.00 0.00 42.32 2.62
1844 3428 9.959721 GATGGTTGGAGCTTATAAAGGATTATA 57.040 33.333 0.00 0.00 33.75 0.98
2093 3677 3.738282 CGCCGAGATAAAAGAGAGAATGG 59.262 47.826 0.00 0.00 0.00 3.16
2357 3941 4.464008 AGTGAAGGCAGAACATCAAAAGA 58.536 39.130 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.978156 TGTGCTCCCCTTCATTCTTT 57.022 45.000 0.00 0.00 0.00 2.52
45 46 0.529378 CAAATGCTCCTTGTGCTCCC 59.471 55.000 0.00 0.00 0.00 4.30
205 206 2.778299 GGTGCTAACCATTCAGTGACA 58.222 47.619 0.00 0.00 46.75 3.58
220 221 0.764890 TGCTAACTGAAGTGGGTGCT 59.235 50.000 0.00 0.00 0.00 4.40
438 440 2.350007 GCGTCGCAATACACTTGGAAAA 60.350 45.455 13.44 0.00 0.00 2.29
552 554 1.811965 CCAACTCCAAATCATGCACGA 59.188 47.619 0.00 0.00 0.00 4.35
554 556 1.273048 TGCCAACTCCAAATCATGCAC 59.727 47.619 0.00 0.00 0.00 4.57
574 576 5.848833 AAAGATCGACGACCTTAATACCT 57.151 39.130 4.54 0.00 0.00 3.08
576 578 6.916932 AGCTAAAAGATCGACGACCTTAATAC 59.083 38.462 4.54 0.00 0.00 1.89
577 579 7.035840 AGCTAAAAGATCGACGACCTTAATA 57.964 36.000 4.54 1.37 0.00 0.98
578 580 5.903810 AGCTAAAAGATCGACGACCTTAAT 58.096 37.500 4.54 0.13 0.00 1.40
579 581 5.320549 AGCTAAAAGATCGACGACCTTAA 57.679 39.130 4.54 0.00 0.00 1.85
580 582 4.201990 GGAGCTAAAAGATCGACGACCTTA 60.202 45.833 4.54 0.00 29.85 2.69
581 583 3.429135 GGAGCTAAAAGATCGACGACCTT 60.429 47.826 0.00 0.00 29.85 3.50
582 584 2.099427 GGAGCTAAAAGATCGACGACCT 59.901 50.000 0.00 0.00 29.85 3.85
583 585 2.099427 AGGAGCTAAAAGATCGACGACC 59.901 50.000 0.00 0.00 29.85 4.79
584 586 3.423996 AGGAGCTAAAAGATCGACGAC 57.576 47.619 0.00 0.00 29.85 4.34
585 587 5.560375 CGATAAGGAGCTAAAAGATCGACGA 60.560 44.000 0.00 0.00 37.49 4.20
586 588 4.613448 CGATAAGGAGCTAAAAGATCGACG 59.387 45.833 10.39 0.00 37.49 5.12
587 589 5.759963 TCGATAAGGAGCTAAAAGATCGAC 58.240 41.667 13.21 0.00 38.88 4.20
588 590 5.560375 CGTCGATAAGGAGCTAAAAGATCGA 60.560 44.000 13.21 13.21 40.80 3.59
589 591 4.613448 CGTCGATAAGGAGCTAAAAGATCG 59.387 45.833 9.88 9.88 36.83 3.69
590 592 5.399892 CACGTCGATAAGGAGCTAAAAGATC 59.600 44.000 0.00 0.00 0.00 2.75
591 593 5.282510 CACGTCGATAAGGAGCTAAAAGAT 58.717 41.667 0.00 0.00 0.00 2.40
592 594 4.439700 CCACGTCGATAAGGAGCTAAAAGA 60.440 45.833 0.00 0.00 0.00 2.52
593 595 3.797256 CCACGTCGATAAGGAGCTAAAAG 59.203 47.826 0.00 0.00 0.00 2.27
594 596 3.444742 TCCACGTCGATAAGGAGCTAAAA 59.555 43.478 0.00 0.00 0.00 1.52
595 597 3.018856 TCCACGTCGATAAGGAGCTAAA 58.981 45.455 0.00 0.00 0.00 1.85
596 598 2.617308 CTCCACGTCGATAAGGAGCTAA 59.383 50.000 14.42 0.00 40.98 3.09
597 599 2.219458 CTCCACGTCGATAAGGAGCTA 58.781 52.381 14.42 0.00 40.98 3.32
598 600 1.025812 CTCCACGTCGATAAGGAGCT 58.974 55.000 14.42 0.00 40.98 4.09
599 601 0.030908 CCTCCACGTCGATAAGGAGC 59.969 60.000 18.98 0.00 44.95 4.70
600 602 1.676746 TCCTCCACGTCGATAAGGAG 58.323 55.000 17.98 17.98 45.68 3.69
601 603 2.133281 TTCCTCCACGTCGATAAGGA 57.867 50.000 0.00 4.72 34.36 3.36
602 604 2.953466 TTTCCTCCACGTCGATAAGG 57.047 50.000 0.00 2.18 0.00 2.69
603 605 5.462398 CCTATTTTTCCTCCACGTCGATAAG 59.538 44.000 0.00 0.00 0.00 1.73
604 606 5.127519 TCCTATTTTTCCTCCACGTCGATAA 59.872 40.000 0.00 0.00 0.00 1.75
605 607 4.646040 TCCTATTTTTCCTCCACGTCGATA 59.354 41.667 0.00 0.00 0.00 2.92
606 608 3.449737 TCCTATTTTTCCTCCACGTCGAT 59.550 43.478 0.00 0.00 0.00 3.59
607 609 2.827322 TCCTATTTTTCCTCCACGTCGA 59.173 45.455 0.00 0.00 0.00 4.20
608 610 2.928116 GTCCTATTTTTCCTCCACGTCG 59.072 50.000 0.00 0.00 0.00 5.12
609 611 4.203654 AGTCCTATTTTTCCTCCACGTC 57.796 45.455 0.00 0.00 0.00 4.34
610 612 5.952347 ATAGTCCTATTTTTCCTCCACGT 57.048 39.130 0.00 0.00 0.00 4.49
611 613 5.527582 CCAATAGTCCTATTTTTCCTCCACG 59.472 44.000 0.00 0.00 33.79 4.94
612 614 5.828328 CCCAATAGTCCTATTTTTCCTCCAC 59.172 44.000 0.00 0.00 33.79 4.02
613 615 5.103686 CCCCAATAGTCCTATTTTTCCTCCA 60.104 44.000 0.00 0.00 33.79 3.86
614 616 5.386060 CCCCAATAGTCCTATTTTTCCTCC 58.614 45.833 0.00 0.00 33.79 4.30
615 617 5.386060 CCCCCAATAGTCCTATTTTTCCTC 58.614 45.833 0.00 0.00 33.79 3.71
616 618 5.403558 CCCCCAATAGTCCTATTTTTCCT 57.596 43.478 0.00 0.00 33.79 3.36
639 641 1.292085 TTTTACCTACTCCAGCCCCC 58.708 55.000 0.00 0.00 0.00 5.40
640 642 3.715315 ACTATTTTACCTACTCCAGCCCC 59.285 47.826 0.00 0.00 0.00 5.80
641 643 5.601729 AGTACTATTTTACCTACTCCAGCCC 59.398 44.000 0.00 0.00 0.00 5.19
642 644 6.323225 TCAGTACTATTTTACCTACTCCAGCC 59.677 42.308 0.00 0.00 0.00 4.85
643 645 7.344095 TCAGTACTATTTTACCTACTCCAGC 57.656 40.000 0.00 0.00 0.00 4.85
644 646 9.132923 TGATCAGTACTATTTTACCTACTCCAG 57.867 37.037 0.00 0.00 0.00 3.86
645 647 9.656323 ATGATCAGTACTATTTTACCTACTCCA 57.344 33.333 0.09 0.00 0.00 3.86
646 648 9.915629 CATGATCAGTACTATTTTACCTACTCC 57.084 37.037 0.09 0.00 0.00 3.85
647 649 9.915629 CCATGATCAGTACTATTTTACCTACTC 57.084 37.037 0.09 0.00 0.00 2.59
648 650 9.656323 TCCATGATCAGTACTATTTTACCTACT 57.344 33.333 0.09 0.00 0.00 2.57
677 679 9.955208 CATGAGCTTTAGCAATGTTATTGATTA 57.045 29.630 4.33 0.00 45.16 1.75
678 680 7.924412 CCATGAGCTTTAGCAATGTTATTGATT 59.076 33.333 4.33 0.00 45.16 2.57
679 681 7.431249 CCATGAGCTTTAGCAATGTTATTGAT 58.569 34.615 4.33 1.86 45.16 2.57
680 682 6.183360 CCCATGAGCTTTAGCAATGTTATTGA 60.183 38.462 4.33 0.00 45.16 2.57
681 683 5.981315 CCCATGAGCTTTAGCAATGTTATTG 59.019 40.000 4.33 0.00 45.16 1.90
682 684 5.069516 CCCCATGAGCTTTAGCAATGTTATT 59.930 40.000 4.33 0.00 45.16 1.40
683 685 4.586001 CCCCATGAGCTTTAGCAATGTTAT 59.414 41.667 4.33 0.00 45.16 1.89
684 686 3.953612 CCCCATGAGCTTTAGCAATGTTA 59.046 43.478 4.33 0.00 45.16 2.41
685 687 2.762327 CCCCATGAGCTTTAGCAATGTT 59.238 45.455 4.33 0.00 45.16 2.71
686 688 2.381911 CCCCATGAGCTTTAGCAATGT 58.618 47.619 4.33 0.00 45.16 2.71
687 689 1.684983 CCCCCATGAGCTTTAGCAATG 59.315 52.381 4.33 7.35 45.16 2.82
688 690 2.031097 GCCCCCATGAGCTTTAGCAAT 61.031 52.381 4.33 0.00 45.16 3.56
689 691 0.684153 GCCCCCATGAGCTTTAGCAA 60.684 55.000 4.33 0.00 45.16 3.91
690 692 1.076777 GCCCCCATGAGCTTTAGCA 60.077 57.895 4.33 0.00 45.16 3.49
691 693 2.189499 CGCCCCCATGAGCTTTAGC 61.189 63.158 0.00 0.00 42.49 3.09
692 694 0.468226 TACGCCCCCATGAGCTTTAG 59.532 55.000 0.00 0.00 0.00 1.85
693 695 1.071699 GATACGCCCCCATGAGCTTTA 59.928 52.381 0.00 0.00 0.00 1.85
694 696 0.179018 GATACGCCCCCATGAGCTTT 60.179 55.000 0.00 0.00 0.00 3.51
695 697 1.451936 GATACGCCCCCATGAGCTT 59.548 57.895 0.00 0.00 0.00 3.74
696 698 2.520536 GGATACGCCCCCATGAGCT 61.521 63.158 0.00 0.00 0.00 4.09
697 699 2.032681 GGATACGCCCCCATGAGC 59.967 66.667 0.00 0.00 0.00 4.26
714 716 0.672342 CCCCTACTCCACCGAATACG 59.328 60.000 0.00 0.00 39.43 3.06
715 717 2.077687 TCCCCTACTCCACCGAATAC 57.922 55.000 0.00 0.00 0.00 1.89
716 718 2.292389 TGTTCCCCTACTCCACCGAATA 60.292 50.000 0.00 0.00 0.00 1.75
717 719 1.201424 GTTCCCCTACTCCACCGAAT 58.799 55.000 0.00 0.00 0.00 3.34
718 720 0.178926 TGTTCCCCTACTCCACCGAA 60.179 55.000 0.00 0.00 0.00 4.30
719 721 0.613853 CTGTTCCCCTACTCCACCGA 60.614 60.000 0.00 0.00 0.00 4.69
720 722 0.613853 TCTGTTCCCCTACTCCACCG 60.614 60.000 0.00 0.00 0.00 4.94
721 723 0.903236 GTCTGTTCCCCTACTCCACC 59.097 60.000 0.00 0.00 0.00 4.61
722 724 1.826096 GAGTCTGTTCCCCTACTCCAC 59.174 57.143 0.00 0.00 33.74 4.02
723 725 1.616187 CGAGTCTGTTCCCCTACTCCA 60.616 57.143 0.00 0.00 35.93 3.86
724 726 1.104630 CGAGTCTGTTCCCCTACTCC 58.895 60.000 0.00 0.00 35.93 3.85
725 727 1.473278 CACGAGTCTGTTCCCCTACTC 59.527 57.143 0.00 0.00 35.97 2.59
726 728 1.075050 TCACGAGTCTGTTCCCCTACT 59.925 52.381 0.00 0.00 0.00 2.57
727 729 1.542492 TCACGAGTCTGTTCCCCTAC 58.458 55.000 0.00 0.00 0.00 3.18
728 730 2.168496 CTTCACGAGTCTGTTCCCCTA 58.832 52.381 0.00 0.00 0.00 3.53
729 731 0.969894 CTTCACGAGTCTGTTCCCCT 59.030 55.000 0.00 0.00 0.00 4.79
730 732 0.037232 CCTTCACGAGTCTGTTCCCC 60.037 60.000 0.00 0.00 0.00 4.81
731 733 0.966920 TCCTTCACGAGTCTGTTCCC 59.033 55.000 0.00 0.00 0.00 3.97
732 734 2.405172 GTTCCTTCACGAGTCTGTTCC 58.595 52.381 0.00 0.00 0.00 3.62
733 735 2.052157 CGTTCCTTCACGAGTCTGTTC 58.948 52.381 0.00 0.00 43.15 3.18
734 736 1.868519 GCGTTCCTTCACGAGTCTGTT 60.869 52.381 0.00 0.00 43.15 3.16
735 737 0.318784 GCGTTCCTTCACGAGTCTGT 60.319 55.000 0.00 0.00 43.15 3.41
736 738 1.009389 GGCGTTCCTTCACGAGTCTG 61.009 60.000 0.00 0.00 43.15 3.51
737 739 1.289380 GGCGTTCCTTCACGAGTCT 59.711 57.895 0.00 0.00 43.15 3.24
738 740 2.087009 CGGCGTTCCTTCACGAGTC 61.087 63.158 0.00 0.00 43.15 3.36
739 741 2.049433 CGGCGTTCCTTCACGAGT 60.049 61.111 0.00 0.00 43.15 4.18
740 742 2.758770 TTCCGGCGTTCCTTCACGAG 62.759 60.000 6.01 0.00 43.15 4.18
741 743 2.858862 TTCCGGCGTTCCTTCACGA 61.859 57.895 6.01 0.00 43.15 4.35
742 744 2.356553 TTCCGGCGTTCCTTCACG 60.357 61.111 6.01 0.00 43.36 4.35
743 745 2.322830 GGTTCCGGCGTTCCTTCAC 61.323 63.158 6.01 0.00 0.00 3.18
744 746 2.031465 GGTTCCGGCGTTCCTTCA 59.969 61.111 6.01 0.00 0.00 3.02
745 747 2.031465 TGGTTCCGGCGTTCCTTC 59.969 61.111 6.01 0.00 0.00 3.46
746 748 2.032071 CTGGTTCCGGCGTTCCTT 59.968 61.111 6.01 0.00 0.00 3.36
747 749 2.450479 CTTCTGGTTCCGGCGTTCCT 62.450 60.000 6.01 0.00 0.00 3.36
748 750 2.031465 TTCTGGTTCCGGCGTTCC 59.969 61.111 6.01 5.71 0.00 3.62
749 751 0.037975 TACTTCTGGTTCCGGCGTTC 60.038 55.000 6.01 0.00 0.00 3.95
750 752 0.393820 TTACTTCTGGTTCCGGCGTT 59.606 50.000 6.01 0.00 0.00 4.84
751 753 0.393820 TTTACTTCTGGTTCCGGCGT 59.606 50.000 6.01 0.00 0.00 5.68
821 823 1.281419 TCTTGAGAAATGGCCGGGTA 58.719 50.000 2.18 0.00 0.00 3.69
963 965 8.802267 CAAAGAAAGATAATGGAAAGTTACCCA 58.198 33.333 0.06 0.06 36.79 4.51
1014 1016 3.878160 TCATAATTGGAAAAACGGGCC 57.122 42.857 0.00 0.00 0.00 5.80
1069 1071 0.960861 GGCCAAACTACCTGAGCACC 60.961 60.000 0.00 0.00 0.00 5.01
1286 1289 0.396060 TTGGAACCAGGCCAATTTGC 59.604 50.000 5.01 0.00 40.32 3.68
1389 2973 6.712547 GCCACTATCCTACAGCAATAATTCTT 59.287 38.462 0.00 0.00 0.00 2.52
1401 2985 3.061369 TCCTCCTAGCCACTATCCTACA 58.939 50.000 0.00 0.00 0.00 2.74
1477 3061 3.596940 ATATGACGAGTAGTGGGGTCT 57.403 47.619 0.00 0.00 0.00 3.85
1576 3160 5.105917 CGCATATGGGTTTTTCCTAGTGTTT 60.106 40.000 11.48 0.00 36.25 2.83
1577 3161 4.398044 CGCATATGGGTTTTTCCTAGTGTT 59.602 41.667 11.48 0.00 36.25 3.32
1578 3162 3.945285 CGCATATGGGTTTTTCCTAGTGT 59.055 43.478 11.48 0.00 36.25 3.55
1579 3163 4.035208 GTCGCATATGGGTTTTTCCTAGTG 59.965 45.833 18.27 0.00 36.25 2.74
1580 3164 4.196971 GTCGCATATGGGTTTTTCCTAGT 58.803 43.478 18.27 0.00 36.25 2.57
1581 3165 3.247648 CGTCGCATATGGGTTTTTCCTAG 59.752 47.826 18.27 0.00 36.25 3.02
1582 3166 3.118702 TCGTCGCATATGGGTTTTTCCTA 60.119 43.478 18.27 0.00 36.25 2.94
1583 3167 2.014128 CGTCGCATATGGGTTTTTCCT 58.986 47.619 18.27 0.00 36.25 3.36
1584 3168 2.011222 TCGTCGCATATGGGTTTTTCC 58.989 47.619 18.27 2.18 0.00 3.13
1585 3169 3.372822 TCTTCGTCGCATATGGGTTTTTC 59.627 43.478 18.27 5.87 0.00 2.29
1586 3170 3.340034 TCTTCGTCGCATATGGGTTTTT 58.660 40.909 18.27 0.00 0.00 1.94
1587 3171 2.980568 TCTTCGTCGCATATGGGTTTT 58.019 42.857 18.27 0.00 0.00 2.43
1588 3172 2.684001 TCTTCGTCGCATATGGGTTT 57.316 45.000 18.27 0.00 0.00 3.27
1589 3173 2.910688 ATCTTCGTCGCATATGGGTT 57.089 45.000 18.27 0.00 0.00 4.11
1590 3174 2.910688 AATCTTCGTCGCATATGGGT 57.089 45.000 18.27 0.00 0.00 4.51
1591 3175 4.552166 AAAAATCTTCGTCGCATATGGG 57.448 40.909 13.38 13.38 0.00 4.00
1609 3193 5.759506 TCTTATTCCGACAGCAACAAAAA 57.240 34.783 0.00 0.00 0.00 1.94
1610 3194 5.759506 TTCTTATTCCGACAGCAACAAAA 57.240 34.783 0.00 0.00 0.00 2.44
1611 3195 5.957842 ATTCTTATTCCGACAGCAACAAA 57.042 34.783 0.00 0.00 0.00 2.83
1612 3196 6.093495 CCTTATTCTTATTCCGACAGCAACAA 59.907 38.462 0.00 0.00 0.00 2.83
1613 3197 5.584649 CCTTATTCTTATTCCGACAGCAACA 59.415 40.000 0.00 0.00 0.00 3.33
1614 3198 5.504173 GCCTTATTCTTATTCCGACAGCAAC 60.504 44.000 0.00 0.00 0.00 4.17
1615 3199 4.574828 GCCTTATTCTTATTCCGACAGCAA 59.425 41.667 0.00 0.00 0.00 3.91
1616 3200 4.127171 GCCTTATTCTTATTCCGACAGCA 58.873 43.478 0.00 0.00 0.00 4.41
1617 3201 3.498777 GGCCTTATTCTTATTCCGACAGC 59.501 47.826 0.00 0.00 0.00 4.40
1618 3202 4.703897 TGGCCTTATTCTTATTCCGACAG 58.296 43.478 3.32 0.00 0.00 3.51
1619 3203 4.764050 TGGCCTTATTCTTATTCCGACA 57.236 40.909 3.32 0.00 0.00 4.35
1620 3204 6.294010 GGATTTGGCCTTATTCTTATTCCGAC 60.294 42.308 3.32 0.00 0.00 4.79
1621 3205 5.768164 GGATTTGGCCTTATTCTTATTCCGA 59.232 40.000 3.32 0.00 0.00 4.55
1622 3206 5.048013 GGGATTTGGCCTTATTCTTATTCCG 60.048 44.000 3.32 0.00 0.00 4.30
1623 3207 5.838521 TGGGATTTGGCCTTATTCTTATTCC 59.161 40.000 3.32 0.00 0.00 3.01
1624 3208 6.976934 TGGGATTTGGCCTTATTCTTATTC 57.023 37.500 3.32 0.00 0.00 1.75
1625 3209 7.568366 TCAATGGGATTTGGCCTTATTCTTATT 59.432 33.333 3.32 0.00 0.00 1.40
1626 3210 7.015584 GTCAATGGGATTTGGCCTTATTCTTAT 59.984 37.037 3.32 0.00 0.00 1.73
1627 3211 6.323739 GTCAATGGGATTTGGCCTTATTCTTA 59.676 38.462 3.32 0.00 0.00 2.10
1628 3212 5.129320 GTCAATGGGATTTGGCCTTATTCTT 59.871 40.000 3.32 0.00 0.00 2.52
1629 3213 4.651045 GTCAATGGGATTTGGCCTTATTCT 59.349 41.667 3.32 0.00 0.00 2.40
1630 3214 4.405358 TGTCAATGGGATTTGGCCTTATTC 59.595 41.667 3.32 0.00 30.05 1.75
1631 3215 4.360889 TGTCAATGGGATTTGGCCTTATT 58.639 39.130 3.32 0.00 30.05 1.40
1632 3216 3.992999 TGTCAATGGGATTTGGCCTTAT 58.007 40.909 3.32 0.00 30.05 1.73
1633 3217 3.464720 TGTCAATGGGATTTGGCCTTA 57.535 42.857 3.32 0.00 30.05 2.69
1634 3218 2.323999 TGTCAATGGGATTTGGCCTT 57.676 45.000 3.32 0.00 30.05 4.35
1635 3219 2.555732 ATGTCAATGGGATTTGGCCT 57.444 45.000 3.32 0.00 30.05 5.19
1636 3220 4.961438 ATTATGTCAATGGGATTTGGCC 57.039 40.909 0.00 0.00 30.05 5.36
1637 3221 6.925165 CAGTTATTATGTCAATGGGATTTGGC 59.075 38.462 0.00 0.00 0.00 4.52
1638 3222 7.287466 TCCAGTTATTATGTCAATGGGATTTGG 59.713 37.037 0.00 0.00 0.00 3.28
1639 3223 8.236585 TCCAGTTATTATGTCAATGGGATTTG 57.763 34.615 0.00 0.00 0.00 2.32
1640 3224 8.837099 TTCCAGTTATTATGTCAATGGGATTT 57.163 30.769 0.00 0.00 0.00 2.17
1641 3225 8.061304 ACTTCCAGTTATTATGTCAATGGGATT 58.939 33.333 0.00 0.00 0.00 3.01
1642 3226 7.503566 CACTTCCAGTTATTATGTCAATGGGAT 59.496 37.037 0.00 0.00 0.00 3.85
1643 3227 6.828273 CACTTCCAGTTATTATGTCAATGGGA 59.172 38.462 0.00 0.00 0.00 4.37
1644 3228 6.039717 CCACTTCCAGTTATTATGTCAATGGG 59.960 42.308 0.00 0.00 0.00 4.00
1645 3229 6.039717 CCCACTTCCAGTTATTATGTCAATGG 59.960 42.308 0.00 0.00 0.00 3.16
1646 3230 6.828273 TCCCACTTCCAGTTATTATGTCAATG 59.172 38.462 0.00 0.00 0.00 2.82
1647 3231 6.969043 TCCCACTTCCAGTTATTATGTCAAT 58.031 36.000 0.00 0.00 0.00 2.57
1648 3232 6.214615 TCTCCCACTTCCAGTTATTATGTCAA 59.785 38.462 0.00 0.00 0.00 3.18
1649 3233 5.724370 TCTCCCACTTCCAGTTATTATGTCA 59.276 40.000 0.00 0.00 0.00 3.58
1650 3234 6.235231 TCTCCCACTTCCAGTTATTATGTC 57.765 41.667 0.00 0.00 0.00 3.06
1651 3235 6.443849 TCTTCTCCCACTTCCAGTTATTATGT 59.556 38.462 0.00 0.00 0.00 2.29
1652 3236 6.889198 TCTTCTCCCACTTCCAGTTATTATG 58.111 40.000 0.00 0.00 0.00 1.90
1653 3237 6.100424 CCTCTTCTCCCACTTCCAGTTATTAT 59.900 42.308 0.00 0.00 0.00 1.28
1654 3238 5.425539 CCTCTTCTCCCACTTCCAGTTATTA 59.574 44.000 0.00 0.00 0.00 0.98
1655 3239 4.226168 CCTCTTCTCCCACTTCCAGTTATT 59.774 45.833 0.00 0.00 0.00 1.40
1656 3240 3.777522 CCTCTTCTCCCACTTCCAGTTAT 59.222 47.826 0.00 0.00 0.00 1.89
1657 3241 3.173965 CCTCTTCTCCCACTTCCAGTTA 58.826 50.000 0.00 0.00 0.00 2.24
1658 3242 1.981495 CCTCTTCTCCCACTTCCAGTT 59.019 52.381 0.00 0.00 0.00 3.16
1659 3243 1.650528 CCTCTTCTCCCACTTCCAGT 58.349 55.000 0.00 0.00 0.00 4.00
1660 3244 0.908198 CCCTCTTCTCCCACTTCCAG 59.092 60.000 0.00 0.00 0.00 3.86
1661 3245 0.491823 TCCCTCTTCTCCCACTTCCA 59.508 55.000 0.00 0.00 0.00 3.53
1662 3246 1.886422 ATCCCTCTTCTCCCACTTCC 58.114 55.000 0.00 0.00 0.00 3.46
1663 3247 3.134985 GGTAATCCCTCTTCTCCCACTTC 59.865 52.174 0.00 0.00 0.00 3.01
1664 3248 3.116174 GGTAATCCCTCTTCTCCCACTT 58.884 50.000 0.00 0.00 0.00 3.16
1665 3249 2.765502 GGTAATCCCTCTTCTCCCACT 58.234 52.381 0.00 0.00 0.00 4.00
1677 3261 8.597925 GCACTATGTATATGCATGGGTAATCCC 61.598 44.444 18.74 0.00 45.06 3.85
1678 3262 6.260936 GCACTATGTATATGCATGGGTAATCC 59.739 42.308 18.74 4.64 39.23 3.01
1679 3263 6.823182 TGCACTATGTATATGCATGGGTAATC 59.177 38.462 18.74 9.68 44.17 1.75
1680 3264 6.720309 TGCACTATGTATATGCATGGGTAAT 58.280 36.000 18.74 0.00 44.17 1.89
1681 3265 6.120507 TGCACTATGTATATGCATGGGTAA 57.879 37.500 18.74 3.72 44.17 2.85
1682 3266 5.753721 TGCACTATGTATATGCATGGGTA 57.246 39.130 18.74 7.01 44.17 3.69
1683 3267 4.639078 TGCACTATGTATATGCATGGGT 57.361 40.909 18.74 12.99 44.17 4.51
1689 3273 4.152223 TCAACGCATGCACTATGTATATGC 59.848 41.667 19.57 0.00 40.40 3.14
1690 3274 5.844301 TCAACGCATGCACTATGTATATG 57.156 39.130 19.57 2.78 39.08 1.78
1691 3275 6.146184 GTCTTCAACGCATGCACTATGTATAT 59.854 38.462 19.57 0.00 39.08 0.86
1692 3276 5.462068 GTCTTCAACGCATGCACTATGTATA 59.538 40.000 19.57 0.00 39.08 1.47
1693 3277 4.271049 GTCTTCAACGCATGCACTATGTAT 59.729 41.667 19.57 0.00 39.08 2.29
1694 3278 3.616821 GTCTTCAACGCATGCACTATGTA 59.383 43.478 19.57 3.62 39.08 2.29
1695 3279 2.416547 GTCTTCAACGCATGCACTATGT 59.583 45.455 19.57 3.67 39.08 2.29
1741 3325 3.059597 GGTCAGTGTATACATCGCAATGC 60.060 47.826 9.18 0.00 36.26 3.56
1844 3428 7.215789 CCTAGATGATAGTGAAGCTTCATGTT 58.784 38.462 30.65 20.76 39.73 2.71
2018 3602 8.311836 TCGAATCTTTCCTAACAATGTAGACTT 58.688 33.333 0.00 0.00 0.00 3.01
2093 3677 0.035317 CCTTTGGCCTTTCCTTTGCC 59.965 55.000 3.32 0.00 45.56 4.52
2147 3731 1.530323 GGCACATAAACACGGTCCTT 58.470 50.000 0.00 0.00 0.00 3.36
2357 3941 0.676782 GGCTGTAACAATCCGGCTGT 60.677 55.000 0.00 0.00 33.41 4.40


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

AutoCloner maintained by Alex Coulton.