Multiple sequence alignment - TraesCS2B01G366200

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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 TraesCS2B01G366200 chr2B 100.000 5723 0 0 1 5723 522078439 522084161 0.000000e+00 10569.0
1 TraesCS2B01G366200 chr2B 84.146 410 37 15 1534 1915 182254422 182254013 7.000000e-99 372.0
2 TraesCS2B01G366200 chr2B 90.000 280 24 3 1531 1808 283295414 283295691 5.450000e-95 359.0
3 TraesCS2B01G366200 chr2B 95.794 214 5 4 539 750 197148610 197148821 5.490000e-90 342.0
4 TraesCS2B01G366200 chr2B 95.327 214 9 1 539 752 599279028 599279240 7.100000e-89 339.0
5 TraesCS2B01G366200 chr2B 80.086 467 46 23 3085 3539 182254008 182253577 2.590000e-78 303.0
6 TraesCS2B01G366200 chr2B 84.713 314 35 3 3240 3541 283295963 283296275 9.320000e-78 302.0
7 TraesCS2B01G366200 chr2B 80.247 405 58 15 77 467 283294167 283294563 9.390000e-73 285.0
8 TraesCS2B01G366200 chr2B 88.514 148 15 2 1283 1429 689712173 689712319 1.640000e-40 178.0
9 TraesCS2B01G366200 chr2B 89.552 67 4 3 722 786 514319211 514319276 1.320000e-11 82.4
10 TraesCS2B01G366200 chr2B 95.238 42 0 2 744 784 296066695 296066735 1.330000e-06 65.8
11 TraesCS2B01G366200 chr2B 100.000 29 0 0 751 779 771233652 771233624 3.000000e-03 54.7
12 TraesCS2B01G366200 chr2D 96.792 2930 69 8 774 3685 442976634 442979556 0.000000e+00 4867.0
13 TraesCS2B01G366200 chr2D 94.932 1184 24 7 3702 4885 442979543 442980690 0.000000e+00 1821.0
14 TraesCS2B01G366200 chr2D 90.000 810 48 17 4944 5723 442982401 442983207 0.000000e+00 1016.0
15 TraesCS2B01G366200 chr2D 94.012 501 23 2 2 495 442976136 442976636 0.000000e+00 752.0
16 TraesCS2B01G366200 chr2D 88.750 160 15 3 1278 1434 463879040 463878881 5.850000e-45 193.0
17 TraesCS2B01G366200 chr2A 96.638 2915 76 6 788 3685 586445989 586448898 0.000000e+00 4820.0
18 TraesCS2B01G366200 chr2A 92.484 2049 70 26 3702 5723 586448885 586450876 0.000000e+00 2854.0
19 TraesCS2B01G366200 chr2A 92.449 490 25 4 2 484 586445495 586445979 0.000000e+00 689.0
20 TraesCS2B01G366200 chr1B 85.788 584 60 16 1435 2006 357238307 357238879 1.060000e-166 597.0
21 TraesCS2B01G366200 chr1B 80.039 511 50 29 774 1283 357237846 357238305 1.190000e-86 331.0
22 TraesCS2B01G366200 chr1B 86.957 207 21 1 3342 3542 357239093 357239299 1.600000e-55 228.0
23 TraesCS2B01G366200 chr4B 83.493 418 39 17 1531 1920 195450940 195451355 4.210000e-96 363.0
24 TraesCS2B01G366200 chr4B 93.833 227 11 3 525 749 39903586 39903811 7.100000e-89 339.0
25 TraesCS2B01G366200 chr4B 80.810 469 52 17 3085 3541 195451355 195451797 3.300000e-87 333.0
26 TraesCS2B01G366200 chr7B 97.970 197 3 1 524 719 624944931 624944735 1.970000e-89 340.0
27 TraesCS2B01G366200 chr7B 97.143 35 1 0 485 519 593057007 593056973 6.190000e-05 60.2
28 TraesCS2B01G366200 chr4A 97.475 198 3 2 539 736 456485705 456485510 2.550000e-88 337.0
29 TraesCS2B01G366200 chr4A 97.475 198 3 2 539 736 456486510 456486315 2.550000e-88 337.0
30 TraesCS2B01G366200 chr4A 95.694 209 6 3 525 733 323906542 323906747 3.300000e-87 333.0
31 TraesCS2B01G366200 chr5B 95.283 212 6 3 539 749 526272249 526272041 3.300000e-87 333.0
32 TraesCS2B01G366200 chr3A 93.665 221 12 2 529 748 361622685 361622466 4.270000e-86 329.0
33 TraesCS2B01G366200 chr3B 84.229 279 36 8 2399 2672 479852440 479852165 1.220000e-66 265.0
34 TraesCS2B01G366200 chr3B 92.188 64 4 1 722 784 752097811 752097874 7.900000e-14 89.8
35 TraesCS2B01G366200 chr3B 89.231 65 6 1 722 785 237977303 237977239 4.750000e-11 80.5
36 TraesCS2B01G366200 chr6B 90.132 152 10 4 1282 1430 641305586 641305437 5.850000e-45 193.0
37 TraesCS2B01G366200 chr6B 88.462 52 6 0 2555 2606 554033901 554033850 4.790000e-06 63.9
38 TraesCS2B01G366200 chr5A 89.474 152 13 3 1281 1431 321920629 321920778 7.570000e-44 189.0
39 TraesCS2B01G366200 chr1A 88.961 154 15 2 1283 1434 155857859 155857706 7.570000e-44 189.0
40 TraesCS2B01G366200 chr1D 88.742 151 16 1 1285 1434 351254860 351254710 3.520000e-42 183.0
41 TraesCS2B01G366200 chr1D 89.394 66 3 3 722 784 299211502 299211566 4.750000e-11 80.5
42 TraesCS2B01G366200 chr7A 86.145 166 20 3 1279 1442 512336363 512336527 5.890000e-40 176.0
43 TraesCS2B01G366200 chr7A 90.625 64 5 1 722 784 108210455 108210518 3.670000e-12 84.2
44 TraesCS2B01G366200 chr6D 90.909 66 5 1 722 786 429715307 429715372 2.840000e-13 87.9
45 TraesCS2B01G366200 chrUn 88.732 71 5 3 722 790 84435436 84435367 3.670000e-12 84.2
46 TraesCS2B01G366200 chr3D 97.059 34 1 0 494 527 336805347 336805380 2.230000e-04 58.4


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 TraesCS2B01G366200 chr2B 522078439 522084161 5722 False 10569.000000 10569 100.000000 1 5723 1 chr2B.!!$F4 5722
1 TraesCS2B01G366200 chr2B 182253577 182254422 845 True 337.500000 372 82.116000 1534 3539 2 chr2B.!!$R2 2005
2 TraesCS2B01G366200 chr2B 283294167 283296275 2108 False 315.333333 359 84.986667 77 3541 3 chr2B.!!$F7 3464
3 TraesCS2B01G366200 chr2D 442976136 442983207 7071 False 2114.000000 4867 93.934000 2 5723 4 chr2D.!!$F1 5721
4 TraesCS2B01G366200 chr2A 586445495 586450876 5381 False 2787.666667 4820 93.857000 2 5723 3 chr2A.!!$F1 5721
5 TraesCS2B01G366200 chr1B 357237846 357239299 1453 False 385.333333 597 84.261333 774 3542 3 chr1B.!!$F1 2768
6 TraesCS2B01G366200 chr4B 195450940 195451797 857 False 348.000000 363 82.151500 1531 3541 2 chr4B.!!$F2 2010
7 TraesCS2B01G366200 chr4A 456485510 456486510 1000 True 337.000000 337 97.475000 539 736 2 chr4A.!!$R1 197

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
727 915 1.354368 AGGCTCCCCTTCGATTTTTGA 59.646 47.619 0.00 0.0 38.74 2.69 F
1061 1249 2.357952 GCAATTGGAAGGTAATCCGACC 59.642 50.000 7.72 0.0 42.76 4.79 F
2661 3179 0.397941 CCCAGGCAGAAGAAGACACA 59.602 55.000 0.00 0.0 0.00 3.72 F
3348 3904 0.040499 AGGAGGAGGTCTCTGTGGAC 59.960 60.000 0.00 0.0 42.10 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1774 2106 3.594134 ACACTCTGAGCAATACTGAAGC 58.406 45.455 4.19 0.0 0.0 3.86 R
2756 3274 1.016653 GGAGCACGAAGGACTTGAGC 61.017 60.000 0.00 0.0 0.0 4.26 R
4186 4754 1.098129 GCAATCTCCTTCTTCCCGGC 61.098 60.000 0.00 0.0 0.0 6.13 R
5027 7263 0.107456 CCGCGGAGTAGTAGGTAGGA 59.893 60.000 24.07 0.0 0.0 2.94 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
65 66 8.791327 TTGCATGTTACAATTCAGAATCTAGA 57.209 30.769 0.00 0.00 0.00 2.43
76 77 4.615949 TCAGAATCTAGATTTCTCTGCGC 58.384 43.478 21.00 0.00 32.66 6.09
145 146 4.337274 TGAAATATGCTGTCATTGCTCCAG 59.663 41.667 0.00 0.00 34.22 3.86
152 153 3.503748 GCTGTCATTGCTCCAGTTTTAGT 59.496 43.478 0.00 0.00 0.00 2.24
174 175 3.812577 CCGAACTGGCAAAAATCCC 57.187 52.632 0.00 0.00 0.00 3.85
353 362 4.641989 GTGCTAATTGTGGGTGAATCAGAT 59.358 41.667 0.00 0.00 0.00 2.90
416 604 5.375417 TTTCATGTTGTTAGGACTGCATG 57.625 39.130 0.00 0.00 38.60 4.06
440 628 8.523523 TGCTTAATTGATGACATGTTTTTCTG 57.476 30.769 0.00 0.00 0.00 3.02
496 684 9.686683 AAGATATAGGCATCTTTGTTTTGTACT 57.313 29.630 0.00 0.00 41.46 2.73
497 685 9.331282 AGATATAGGCATCTTTGTTTTGTACTC 57.669 33.333 0.00 0.00 30.93 2.59
498 686 6.759497 ATAGGCATCTTTGTTTTGTACTCC 57.241 37.500 0.00 0.00 0.00 3.85
499 687 3.826729 AGGCATCTTTGTTTTGTACTCCC 59.173 43.478 0.00 0.00 0.00 4.30
500 688 3.826729 GGCATCTTTGTTTTGTACTCCCT 59.173 43.478 0.00 0.00 0.00 4.20
501 689 4.082733 GGCATCTTTGTTTTGTACTCCCTC 60.083 45.833 0.00 0.00 0.00 4.30
502 690 4.082733 GCATCTTTGTTTTGTACTCCCTCC 60.083 45.833 0.00 0.00 0.00 4.30
503 691 4.781775 TCTTTGTTTTGTACTCCCTCCA 57.218 40.909 0.00 0.00 0.00 3.86
504 692 5.319043 TCTTTGTTTTGTACTCCCTCCAT 57.681 39.130 0.00 0.00 0.00 3.41
505 693 5.313712 TCTTTGTTTTGTACTCCCTCCATC 58.686 41.667 0.00 0.00 0.00 3.51
506 694 3.713826 TGTTTTGTACTCCCTCCATCC 57.286 47.619 0.00 0.00 0.00 3.51
507 695 2.307686 TGTTTTGTACTCCCTCCATCCC 59.692 50.000 0.00 0.00 0.00 3.85
508 696 2.307686 GTTTTGTACTCCCTCCATCCCA 59.692 50.000 0.00 0.00 0.00 4.37
509 697 2.587060 TTGTACTCCCTCCATCCCAT 57.413 50.000 0.00 0.00 0.00 4.00
510 698 3.717507 TTGTACTCCCTCCATCCCATA 57.282 47.619 0.00 0.00 0.00 2.74
511 699 3.717507 TGTACTCCCTCCATCCCATAA 57.282 47.619 0.00 0.00 0.00 1.90
512 700 4.228237 TGTACTCCCTCCATCCCATAAT 57.772 45.455 0.00 0.00 0.00 1.28
513 701 4.168101 TGTACTCCCTCCATCCCATAATC 58.832 47.826 0.00 0.00 0.00 1.75
514 702 3.663298 ACTCCCTCCATCCCATAATCT 57.337 47.619 0.00 0.00 0.00 2.40
515 703 4.785173 ACTCCCTCCATCCCATAATCTA 57.215 45.455 0.00 0.00 0.00 1.98
516 704 5.106631 ACTCCCTCCATCCCATAATCTAA 57.893 43.478 0.00 0.00 0.00 2.10
517 705 5.097234 ACTCCCTCCATCCCATAATCTAAG 58.903 45.833 0.00 0.00 0.00 2.18
518 706 5.162715 ACTCCCTCCATCCCATAATCTAAGA 60.163 44.000 0.00 0.00 0.00 2.10
519 707 5.094387 TCCCTCCATCCCATAATCTAAGAC 58.906 45.833 0.00 0.00 0.00 3.01
520 708 4.081420 CCCTCCATCCCATAATCTAAGACG 60.081 50.000 0.00 0.00 0.00 4.18
521 709 4.772624 CCTCCATCCCATAATCTAAGACGA 59.227 45.833 0.00 0.00 0.00 4.20
522 710 5.423610 CCTCCATCCCATAATCTAAGACGAT 59.576 44.000 0.00 0.00 0.00 3.73
523 711 6.070538 CCTCCATCCCATAATCTAAGACGATT 60.071 42.308 0.00 0.00 37.40 3.34
524 712 7.316393 TCCATCCCATAATCTAAGACGATTT 57.684 36.000 0.00 0.00 35.40 2.17
525 713 7.745717 TCCATCCCATAATCTAAGACGATTTT 58.254 34.615 0.00 0.00 35.40 1.82
526 714 8.217799 TCCATCCCATAATCTAAGACGATTTTT 58.782 33.333 0.00 0.00 35.40 1.94
527 715 8.292448 CCATCCCATAATCTAAGACGATTTTTG 58.708 37.037 0.00 0.00 35.40 2.44
528 716 9.056005 CATCCCATAATCTAAGACGATTTTTGA 57.944 33.333 0.00 0.00 35.40 2.69
529 717 8.433421 TCCCATAATCTAAGACGATTTTTGAC 57.567 34.615 0.00 0.00 35.40 3.18
530 718 8.265055 TCCCATAATCTAAGACGATTTTTGACT 58.735 33.333 0.00 0.00 35.40 3.41
531 719 8.552034 CCCATAATCTAAGACGATTTTTGACTC 58.448 37.037 0.00 0.00 35.40 3.36
532 720 9.319143 CCATAATCTAAGACGATTTTTGACTCT 57.681 33.333 0.00 0.00 35.40 3.24
536 724 8.690680 ATCTAAGACGATTTTTGACTCTACAC 57.309 34.615 0.00 0.00 0.00 2.90
537 725 7.883217 TCTAAGACGATTTTTGACTCTACACT 58.117 34.615 0.00 0.00 0.00 3.55
726 914 1.839424 AGGCTCCCCTTCGATTTTTG 58.161 50.000 0.00 0.00 38.74 2.44
727 915 1.354368 AGGCTCCCCTTCGATTTTTGA 59.646 47.619 0.00 0.00 38.74 2.69
730 918 2.420372 GCTCCCCTTCGATTTTTGACTC 59.580 50.000 0.00 0.00 0.00 3.36
731 919 3.870299 GCTCCCCTTCGATTTTTGACTCT 60.870 47.826 0.00 0.00 0.00 3.24
734 922 4.285003 TCCCCTTCGATTTTTGACTCTACA 59.715 41.667 0.00 0.00 0.00 2.74
735 923 4.392138 CCCCTTCGATTTTTGACTCTACAC 59.608 45.833 0.00 0.00 0.00 2.90
736 924 5.238583 CCCTTCGATTTTTGACTCTACACT 58.761 41.667 0.00 0.00 0.00 3.55
737 925 6.395629 CCCTTCGATTTTTGACTCTACACTA 58.604 40.000 0.00 0.00 0.00 2.74
738 926 6.872020 CCCTTCGATTTTTGACTCTACACTAA 59.128 38.462 0.00 0.00 0.00 2.24
739 927 7.063544 CCCTTCGATTTTTGACTCTACACTAAG 59.936 40.741 0.00 0.00 0.00 2.18
740 928 7.599245 CCTTCGATTTTTGACTCTACACTAAGT 59.401 37.037 0.00 0.00 0.00 2.24
741 929 9.622004 CTTCGATTTTTGACTCTACACTAAGTA 57.378 33.333 0.00 0.00 0.00 2.24
742 930 9.970395 TTCGATTTTTGACTCTACACTAAGTAA 57.030 29.630 0.00 0.00 30.92 2.24
743 931 9.970395 TCGATTTTTGACTCTACACTAAGTAAA 57.030 29.630 0.00 0.00 30.92 2.01
768 956 7.948034 AAAAATTCTTACATTATGGGACGGA 57.052 32.000 0.00 0.00 0.00 4.69
769 957 7.568199 AAAATTCTTACATTATGGGACGGAG 57.432 36.000 0.00 0.00 0.00 4.63
770 958 4.682778 TTCTTACATTATGGGACGGAGG 57.317 45.455 0.00 0.00 0.00 4.30
771 959 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
772 960 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
786 974 5.583854 GGACGGAGGGAGTATTTCTTTAAAC 59.416 44.000 0.00 0.00 0.00 2.01
1011 1199 2.501610 GACGCCATGGAGAGGGTC 59.498 66.667 23.45 11.43 38.54 4.46
1061 1249 2.357952 GCAATTGGAAGGTAATCCGACC 59.642 50.000 7.72 0.00 42.76 4.79
1148 1342 8.603898 TGTGGACTGTCTTTAGATATAGGAAA 57.396 34.615 7.85 0.00 0.00 3.13
1380 1576 5.578005 AGCACACTACAACGTGTCTATAT 57.422 39.130 0.00 0.00 45.74 0.86
1381 1577 6.688637 AGCACACTACAACGTGTCTATATA 57.311 37.500 0.00 0.00 45.74 0.86
1774 2106 5.125097 AGCTGTTGATAAAGCCAAGAATCTG 59.875 40.000 0.00 0.00 40.42 2.90
1916 2428 5.179368 TGTTCTTTTACTGCACTGCTACATC 59.821 40.000 1.98 0.00 0.00 3.06
1966 2483 0.455633 CGCTCATCAAACTTGCTGGC 60.456 55.000 0.00 0.00 0.00 4.85
1972 2489 0.752743 TCAAACTTGCTGGCTGTGCT 60.753 50.000 0.00 0.00 0.00 4.40
2031 2548 5.609423 TCCTTTTACAGCAATGCAATGTTT 58.391 33.333 8.35 0.00 0.00 2.83
2159 2676 5.192327 AGAAACACTTCCAGAAGCAATTG 57.808 39.130 7.32 0.00 41.99 2.32
2193 2710 3.127589 TCACTGGTCATGTACAAACGTG 58.872 45.455 0.00 6.56 42.93 4.49
2257 2774 2.421388 CGGATTCACCATAAGCAGGGAA 60.421 50.000 0.00 0.00 38.90 3.97
2260 2777 5.385198 GGATTCACCATAAGCAGGGAATTA 58.615 41.667 0.00 0.00 38.79 1.40
2661 3179 0.397941 CCCAGGCAGAAGAAGACACA 59.602 55.000 0.00 0.00 0.00 3.72
2747 3265 3.379372 AGCGAAACAATGGATTCCATCAG 59.621 43.478 18.45 15.66 44.40 2.90
2756 3274 1.476471 GGATTCCATCAGCTCCCAGTG 60.476 57.143 0.00 0.00 0.00 3.66
2787 3305 2.416747 TCGTGCTCCTTCACTTCAATG 58.583 47.619 0.00 0.00 34.92 2.82
2798 3316 3.141398 TCACTTCAATGTCCAGCTCAAC 58.859 45.455 0.00 0.00 0.00 3.18
2973 3500 1.002990 TGGTCAGACCTACGAGCGA 60.003 57.895 20.82 0.00 39.58 4.93
3135 3662 0.890996 CTAATGCCCCGCCAGAATCC 60.891 60.000 0.00 0.00 0.00 3.01
3238 3768 2.892334 GACGCAGGCGCAAAAGACA 61.892 57.895 14.32 0.00 44.19 3.41
3288 3818 2.634940 TGCTTTGGAGAAGTGCTCTAGT 59.365 45.455 0.00 0.00 43.43 2.57
3330 3886 3.500558 TCTGAGACATGCGAAGAAGAG 57.499 47.619 0.00 0.00 0.00 2.85
3348 3904 0.040499 AGGAGGAGGTCTCTGTGGAC 59.960 60.000 0.00 0.00 42.10 4.02
3618 4186 3.881937 ATGGCTCTTTTCAATCTTGCC 57.118 42.857 0.00 0.00 39.33 4.52
3719 4287 6.627087 AAGAATCTCCCTCAAATCACAGTA 57.373 37.500 0.00 0.00 0.00 2.74
3739 4307 5.936956 CAGTATCAGAGAAAAGGCTCTTTGT 59.063 40.000 0.00 0.00 42.41 2.83
3765 4333 6.699366 ACAAGCATAGGTAGATCAGATGATG 58.301 40.000 0.00 0.00 34.37 3.07
3813 4381 2.086869 TCAGCTCTATGTTTGCCTTGC 58.913 47.619 0.00 0.00 0.00 4.01
3918 4486 0.535335 TGGCGATGTACCTCAACCTC 59.465 55.000 8.16 0.00 0.00 3.85
3921 4489 1.202428 GCGATGTACCTCAACCTCTCC 60.202 57.143 0.00 0.00 0.00 3.71
3924 4492 2.696526 TGTACCTCAACCTCTCCTGT 57.303 50.000 0.00 0.00 0.00 4.00
4095 4663 3.878519 CTCCTCTCGTCGGGCGTC 61.879 72.222 0.49 0.00 42.13 5.19
4181 4749 1.364626 CTGATCAACCTGGCGCTGAC 61.365 60.000 7.64 0.00 0.00 3.51
4203 4771 1.636769 GGGCCGGGAAGAAGGAGATT 61.637 60.000 2.18 0.00 0.00 2.40
4409 4977 1.600636 CCAAGGACAAGGCGCAGAA 60.601 57.895 10.83 0.00 0.00 3.02
4524 5092 0.178891 AGCAGGAACAGGAGGAGGAA 60.179 55.000 0.00 0.00 0.00 3.36
4526 5094 1.944177 CAGGAACAGGAGGAGGAAGA 58.056 55.000 0.00 0.00 0.00 2.87
4527 5095 1.830477 CAGGAACAGGAGGAGGAAGAG 59.170 57.143 0.00 0.00 0.00 2.85
4528 5096 0.539518 GGAACAGGAGGAGGAAGAGC 59.460 60.000 0.00 0.00 0.00 4.09
4539 5113 1.970114 GGAAGAGCAGCAGCAGCAA 60.970 57.895 12.92 0.00 45.49 3.91
4677 5251 2.618816 GGTCATCACCTGCCTCATCAAA 60.619 50.000 0.00 0.00 40.00 2.69
4721 5298 1.070843 CGGCGACAAGTGTAAACTGTG 60.071 52.381 0.00 0.00 0.00 3.66
4780 5364 2.118683 CACCAAAAATGTGTGTGCTCG 58.881 47.619 0.00 0.00 0.00 5.03
4781 5365 2.020720 ACCAAAAATGTGTGTGCTCGA 58.979 42.857 0.00 0.00 0.00 4.04
4782 5366 2.223479 ACCAAAAATGTGTGTGCTCGAC 60.223 45.455 0.00 0.00 0.00 4.20
4783 5367 2.033299 CCAAAAATGTGTGTGCTCGACT 59.967 45.455 0.00 0.00 0.00 4.18
4784 5368 3.038017 CAAAAATGTGTGTGCTCGACTG 58.962 45.455 0.00 0.00 0.00 3.51
4785 5369 0.588252 AAATGTGTGTGCTCGACTGC 59.412 50.000 0.00 0.00 0.00 4.40
4786 5370 0.250038 AATGTGTGTGCTCGACTGCT 60.250 50.000 0.00 0.00 0.00 4.24
4787 5371 0.668706 ATGTGTGTGCTCGACTGCTC 60.669 55.000 0.00 0.00 0.00 4.26
4788 5372 2.050077 TGTGTGCTCGACTGCTCG 60.050 61.111 0.00 0.00 41.65 5.03
4789 5373 2.049985 GTGTGCTCGACTGCTCGT 60.050 61.111 0.00 0.00 41.02 4.18
4790 5374 2.050077 TGTGCTCGACTGCTCGTG 60.050 61.111 0.00 0.00 41.02 4.35
4791 5375 2.255554 GTGCTCGACTGCTCGTGA 59.744 61.111 2.07 0.00 41.02 4.35
4792 5376 1.371758 GTGCTCGACTGCTCGTGAA 60.372 57.895 2.07 0.00 41.02 3.18
4793 5377 1.081175 TGCTCGACTGCTCGTGAAG 60.081 57.895 2.07 0.00 41.02 3.02
4828 5412 7.585286 AAAATACAACTAGCGAAATCGTACA 57.415 32.000 4.59 0.00 42.22 2.90
4885 5469 2.953466 TCTCCCGTCCGAGTAAAATG 57.047 50.000 0.00 0.00 0.00 2.32
4886 5470 2.173519 TCTCCCGTCCGAGTAAAATGT 58.826 47.619 0.00 0.00 0.00 2.71
4887 5471 3.355378 TCTCCCGTCCGAGTAAAATGTA 58.645 45.455 0.00 0.00 0.00 2.29
4888 5472 3.763360 TCTCCCGTCCGAGTAAAATGTAA 59.237 43.478 0.00 0.00 0.00 2.41
4891 5475 6.096705 TCTCCCGTCCGAGTAAAATGTAATTA 59.903 38.462 0.00 0.00 33.67 1.40
4892 5476 6.275335 TCCCGTCCGAGTAAAATGTAATTAG 58.725 40.000 0.00 0.00 33.67 1.73
4893 5477 6.044682 CCCGTCCGAGTAAAATGTAATTAGT 58.955 40.000 0.00 0.00 33.67 2.24
4895 5479 7.254218 CCCGTCCGAGTAAAATGTAATTAGTTC 60.254 40.741 0.00 0.00 33.67 3.01
4896 5480 7.490402 CCGTCCGAGTAAAATGTAATTAGTTCT 59.510 37.037 0.00 0.00 33.67 3.01
4898 5482 8.529911 GTCCGAGTAAAATGTAATTAGTTCTCG 58.470 37.037 0.00 0.00 39.98 4.04
4899 5483 8.246180 TCCGAGTAAAATGTAATTAGTTCTCGT 58.754 33.333 0.00 0.00 39.37 4.18
4900 5484 8.318876 CCGAGTAAAATGTAATTAGTTCTCGTG 58.681 37.037 0.00 0.00 39.37 4.35
4901 5485 7.839837 CGAGTAAAATGTAATTAGTTCTCGTGC 59.160 37.037 0.00 0.00 37.92 5.34
4902 5486 8.773404 AGTAAAATGTAATTAGTTCTCGTGCT 57.227 30.769 0.00 0.00 33.67 4.40
4903 5487 9.865321 AGTAAAATGTAATTAGTTCTCGTGCTA 57.135 29.630 0.00 0.00 33.67 3.49
4905 5489 8.773404 AAAATGTAATTAGTTCTCGTGCTAGT 57.227 30.769 0.00 0.00 33.67 2.57
4907 5491 9.517609 AAATGTAATTAGTTCTCGTGCTAGTAG 57.482 33.333 0.00 0.00 33.67 2.57
4909 5493 8.722480 TGTAATTAGTTCTCGTGCTAGTAGTA 57.278 34.615 0.00 0.00 0.00 1.82
4910 5494 8.607459 TGTAATTAGTTCTCGTGCTAGTAGTAC 58.393 37.037 8.24 8.24 0.00 2.73
4917 5501 3.850657 CGTGCTAGTAGTACGTACTCC 57.149 52.381 30.53 20.39 46.68 3.85
4918 5502 3.452474 CGTGCTAGTAGTACGTACTCCT 58.548 50.000 30.53 26.09 46.68 3.69
4926 7150 2.111384 AGTACGTACTCCTACTCCCGA 58.889 52.381 22.45 0.00 0.00 5.14
4967 7203 3.432588 CGACGACGGAGAGCAGGT 61.433 66.667 0.00 0.00 35.72 4.00
4989 7225 3.727258 TGGCATAACCAGGGCGCT 61.727 61.111 7.64 0.00 46.36 5.92
5027 7263 0.252284 CTGACTGGTCTACCCACCCT 60.252 60.000 0.00 0.00 38.72 4.34
5028 7264 0.252103 TGACTGGTCTACCCACCCTC 60.252 60.000 0.00 0.00 38.72 4.30
5354 7616 3.066203 GTGAAGTGTTTGACGGAATGGTT 59.934 43.478 0.00 0.00 0.00 3.67
5369 7631 2.203153 GTTGGTCCGTGCAGTGGT 60.203 61.111 4.90 0.00 0.00 4.16
5518 7780 3.650647 TGGTGAGCCCATTTCTGTC 57.349 52.632 0.00 0.00 38.72 3.51
5536 7798 6.229936 TCTGTCTGTTAACTAACTTGTGGT 57.770 37.500 7.22 0.00 37.12 4.16
5538 7800 4.573201 TGTCTGTTAACTAACTTGTGGTGC 59.427 41.667 7.22 0.00 37.12 5.01
5544 7806 0.235665 CTAACTTGTGGTGCTGTGCG 59.764 55.000 0.00 0.00 0.00 5.34
5591 7865 2.740714 GCGAATGGTGCGACCTGTC 61.741 63.158 6.83 3.84 39.58 3.51
5602 7876 2.135933 GCGACCTGTCTACATTATGGC 58.864 52.381 0.00 0.00 0.00 4.40
5702 7978 1.474143 GGCATGCACTCCTCTCCTTAC 60.474 57.143 21.36 0.00 0.00 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 66 3.004629 TGTGTTCAAATGCGCAGAGAAAT 59.995 39.130 18.32 0.00 0.00 2.17
76 77 3.856521 TGCGAGTTGTTTGTGTTCAAATG 59.143 39.130 0.00 0.00 43.92 2.32
145 146 2.699251 CCAGTTCGGCCAACTAAAAC 57.301 50.000 16.88 5.45 44.14 2.43
174 175 6.099341 ACAAGGTGCTTTTGTGTCTAAAAAG 58.901 36.000 4.64 4.64 44.09 2.27
269 274 8.840833 AGAGAAGAAGAAAAAGGATGTCTAAC 57.159 34.615 0.00 0.00 0.00 2.34
328 337 3.505680 TGATTCACCCACAATTAGCACAC 59.494 43.478 0.00 0.00 0.00 3.82
416 604 8.524870 ACAGAAAAACATGTCATCAATTAAGC 57.475 30.769 0.00 0.00 0.00 3.09
440 628 2.802816 GGCATCGATCACATAACCTGAC 59.197 50.000 0.00 0.00 0.00 3.51
495 683 5.188751 GTCTTAGATTATGGGATGGAGGGAG 59.811 48.000 0.00 0.00 0.00 4.30
496 684 5.094387 GTCTTAGATTATGGGATGGAGGGA 58.906 45.833 0.00 0.00 0.00 4.20
497 685 4.081420 CGTCTTAGATTATGGGATGGAGGG 60.081 50.000 0.00 0.00 0.00 4.30
498 686 4.772624 TCGTCTTAGATTATGGGATGGAGG 59.227 45.833 0.00 0.00 0.00 4.30
499 687 5.984695 TCGTCTTAGATTATGGGATGGAG 57.015 43.478 0.00 0.00 0.00 3.86
500 688 6.935240 AATCGTCTTAGATTATGGGATGGA 57.065 37.500 0.00 0.00 38.90 3.41
501 689 7.986085 AAAATCGTCTTAGATTATGGGATGG 57.014 36.000 0.00 0.00 39.69 3.51
502 690 9.056005 TCAAAAATCGTCTTAGATTATGGGATG 57.944 33.333 0.00 0.00 39.69 3.51
503 691 9.057089 GTCAAAAATCGTCTTAGATTATGGGAT 57.943 33.333 0.00 0.00 39.69 3.85
504 692 8.265055 AGTCAAAAATCGTCTTAGATTATGGGA 58.735 33.333 0.00 0.00 39.69 4.37
505 693 8.438676 AGTCAAAAATCGTCTTAGATTATGGG 57.561 34.615 0.00 0.00 39.69 4.00
506 694 9.319143 AGAGTCAAAAATCGTCTTAGATTATGG 57.681 33.333 0.00 0.00 39.69 2.74
510 698 9.141400 GTGTAGAGTCAAAAATCGTCTTAGATT 57.859 33.333 0.00 0.00 42.13 2.40
511 699 8.524487 AGTGTAGAGTCAAAAATCGTCTTAGAT 58.476 33.333 0.00 0.00 0.00 1.98
512 700 7.883217 AGTGTAGAGTCAAAAATCGTCTTAGA 58.117 34.615 0.00 0.00 0.00 2.10
513 701 9.622004 TTAGTGTAGAGTCAAAAATCGTCTTAG 57.378 33.333 0.00 0.00 0.00 2.18
514 702 9.970395 TTTAGTGTAGAGTCAAAAATCGTCTTA 57.030 29.630 0.00 0.00 0.00 2.10
515 703 8.882415 TTTAGTGTAGAGTCAAAAATCGTCTT 57.118 30.769 0.00 0.00 0.00 3.01
516 704 7.599245 CCTTTAGTGTAGAGTCAAAAATCGTCT 59.401 37.037 0.00 0.00 0.00 4.18
517 705 7.148623 CCCTTTAGTGTAGAGTCAAAAATCGTC 60.149 40.741 0.00 0.00 0.00 4.20
518 706 6.649557 CCCTTTAGTGTAGAGTCAAAAATCGT 59.350 38.462 0.00 0.00 0.00 3.73
519 707 6.402226 GCCCTTTAGTGTAGAGTCAAAAATCG 60.402 42.308 0.00 0.00 0.00 3.34
520 708 6.430000 TGCCCTTTAGTGTAGAGTCAAAAATC 59.570 38.462 0.00 0.00 0.00 2.17
521 709 6.303839 TGCCCTTTAGTGTAGAGTCAAAAAT 58.696 36.000 0.00 0.00 0.00 1.82
522 710 5.686753 TGCCCTTTAGTGTAGAGTCAAAAA 58.313 37.500 0.00 0.00 0.00 1.94
523 711 5.298989 TGCCCTTTAGTGTAGAGTCAAAA 57.701 39.130 0.00 0.00 0.00 2.44
524 712 4.967084 TGCCCTTTAGTGTAGAGTCAAA 57.033 40.909 0.00 0.00 0.00 2.69
525 713 4.504340 GGTTGCCCTTTAGTGTAGAGTCAA 60.504 45.833 0.00 0.00 0.00 3.18
526 714 3.007614 GGTTGCCCTTTAGTGTAGAGTCA 59.992 47.826 0.00 0.00 0.00 3.41
527 715 3.261137 AGGTTGCCCTTTAGTGTAGAGTC 59.739 47.826 0.00 0.00 38.13 3.36
528 716 3.008049 CAGGTTGCCCTTTAGTGTAGAGT 59.992 47.826 0.00 0.00 39.89 3.24
529 717 3.600388 CAGGTTGCCCTTTAGTGTAGAG 58.400 50.000 0.00 0.00 39.89 2.43
530 718 2.304761 CCAGGTTGCCCTTTAGTGTAGA 59.695 50.000 0.00 0.00 39.89 2.59
531 719 2.039879 ACCAGGTTGCCCTTTAGTGTAG 59.960 50.000 0.00 0.00 39.89 2.74
532 720 2.059490 ACCAGGTTGCCCTTTAGTGTA 58.941 47.619 0.00 0.00 39.89 2.90
533 721 0.850784 ACCAGGTTGCCCTTTAGTGT 59.149 50.000 0.00 0.00 39.89 3.55
534 722 1.247567 CACCAGGTTGCCCTTTAGTG 58.752 55.000 0.00 0.00 39.89 2.74
535 723 0.539669 GCACCAGGTTGCCCTTTAGT 60.540 55.000 0.00 0.00 39.89 2.24
536 724 0.539438 TGCACCAGGTTGCCCTTTAG 60.539 55.000 10.46 0.00 42.25 1.85
537 725 0.114168 ATGCACCAGGTTGCCCTTTA 59.886 50.000 10.46 0.00 42.25 1.85
744 932 7.068226 CCTCCGTCCCATAATGTAAGAATTTTT 59.932 37.037 0.00 0.00 0.00 1.94
745 933 6.546034 CCTCCGTCCCATAATGTAAGAATTTT 59.454 38.462 0.00 0.00 0.00 1.82
746 934 6.062095 CCTCCGTCCCATAATGTAAGAATTT 58.938 40.000 0.00 0.00 0.00 1.82
747 935 5.456186 CCCTCCGTCCCATAATGTAAGAATT 60.456 44.000 0.00 0.00 0.00 2.17
748 936 4.041691 CCCTCCGTCCCATAATGTAAGAAT 59.958 45.833 0.00 0.00 0.00 2.40
749 937 3.389983 CCCTCCGTCCCATAATGTAAGAA 59.610 47.826 0.00 0.00 0.00 2.52
750 938 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
751 939 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
752 940 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
753 941 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
754 942 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
755 943 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
756 944 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
757 945 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
758 946 3.116862 AGAAATACTCCCTCCGTCCCATA 60.117 47.826 0.00 0.00 0.00 2.74
759 947 2.047830 GAAATACTCCCTCCGTCCCAT 58.952 52.381 0.00 0.00 0.00 4.00
760 948 1.007963 AGAAATACTCCCTCCGTCCCA 59.992 52.381 0.00 0.00 0.00 4.37
761 949 1.790818 AGAAATACTCCCTCCGTCCC 58.209 55.000 0.00 0.00 0.00 4.46
762 950 3.908643 AAAGAAATACTCCCTCCGTCC 57.091 47.619 0.00 0.00 0.00 4.79
763 951 6.168389 TGTTTAAAGAAATACTCCCTCCGTC 58.832 40.000 0.00 0.00 0.00 4.79
764 952 6.013984 TCTGTTTAAAGAAATACTCCCTCCGT 60.014 38.462 0.00 0.00 0.00 4.69
765 953 6.403878 TCTGTTTAAAGAAATACTCCCTCCG 58.596 40.000 0.00 0.00 0.00 4.63
766 954 7.883833 AGTTCTGTTTAAAGAAATACTCCCTCC 59.116 37.037 0.00 0.00 37.90 4.30
767 955 8.850007 AGTTCTGTTTAAAGAAATACTCCCTC 57.150 34.615 0.00 0.00 37.90 4.30
768 956 9.067986 CAAGTTCTGTTTAAAGAAATACTCCCT 57.932 33.333 0.00 0.00 37.90 4.20
769 957 9.063615 TCAAGTTCTGTTTAAAGAAATACTCCC 57.936 33.333 0.00 0.00 37.90 4.30
1011 1199 1.663702 AAAGTCCGCGTCAACCTCG 60.664 57.895 4.92 0.00 0.00 4.63
1061 1249 3.290948 TTTGGTGGAATTAGGGGATCG 57.709 47.619 0.00 0.00 0.00 3.69
1148 1342 2.854963 TCAGAAGCTGTGTTCAATGCT 58.145 42.857 0.00 0.00 37.37 3.79
1774 2106 3.594134 ACACTCTGAGCAATACTGAAGC 58.406 45.455 4.19 0.00 0.00 3.86
1916 2428 9.853555 TGTCCAACTAGCATTAACAATTTTATG 57.146 29.630 0.00 0.00 0.00 1.90
1966 2483 5.929697 TTGTTCTCTAACATCAAGCACAG 57.070 39.130 0.00 0.00 44.85 3.66
2159 2676 4.389374 TGACCAGTGAAAACCTGAGAATC 58.611 43.478 0.00 0.00 31.38 2.52
2346 2863 9.552114 CCAAAAATATATCATCTGAAGAATCGC 57.448 33.333 0.00 0.00 0.00 4.58
2347 2864 9.552114 GCCAAAAATATATCATCTGAAGAATCG 57.448 33.333 0.00 0.00 0.00 3.34
2348 2865 9.552114 CGCCAAAAATATATCATCTGAAGAATC 57.448 33.333 0.00 0.00 0.00 2.52
2620 3138 4.394610 GGCTCTTTCAAGAAGCCTTCTAAG 59.605 45.833 7.53 8.14 41.75 2.18
2747 3265 1.376553 GGACTTGAGCACTGGGAGC 60.377 63.158 0.00 0.00 0.00 4.70
2756 3274 1.016653 GGAGCACGAAGGACTTGAGC 61.017 60.000 0.00 0.00 0.00 4.26
2787 3305 1.552337 TGGAGATCAGTTGAGCTGGAC 59.448 52.381 4.40 0.00 41.40 4.02
2798 3316 4.280425 TCTCGAGATTTCCATGGAGATCAG 59.720 45.833 34.75 28.69 37.96 2.90
2808 3326 2.167281 CAGGAGCTTCTCGAGATTTCCA 59.833 50.000 27.97 11.79 0.00 3.53
2973 3500 2.119801 ACCATTTCTCGATGCAAGCT 57.880 45.000 0.00 0.00 0.00 3.74
3118 3645 2.123726 GGATTCTGGCGGGGCATT 60.124 61.111 0.00 0.00 0.00 3.56
3119 3646 4.209866 GGGATTCTGGCGGGGCAT 62.210 66.667 0.00 0.00 0.00 4.40
3238 3768 4.379082 GGTGTTCAACTTGTCGTCTTTTGT 60.379 41.667 0.00 0.00 0.00 2.83
3288 3818 4.314522 TGTTGCTTCCCTGGAATTATGA 57.685 40.909 0.00 0.00 33.28 2.15
3330 3886 0.251832 TGTCCACAGAGACCTCCTCC 60.252 60.000 0.00 0.00 42.97 4.30
3348 3904 5.474876 AGGGTTATTCTGAAAAGAGCACTTG 59.525 40.000 0.00 0.00 36.39 3.16
3618 4186 7.011016 TGTGATATTTACCTGTTATTGCTGACG 59.989 37.037 0.00 0.00 0.00 4.35
3693 4261 6.779539 ACTGTGATTTGAGGGAGATTCTTTTT 59.220 34.615 0.00 0.00 0.00 1.94
3694 4262 6.310149 ACTGTGATTTGAGGGAGATTCTTTT 58.690 36.000 0.00 0.00 0.00 2.27
3695 4263 5.885465 ACTGTGATTTGAGGGAGATTCTTT 58.115 37.500 0.00 0.00 0.00 2.52
3696 4264 5.511386 ACTGTGATTTGAGGGAGATTCTT 57.489 39.130 0.00 0.00 0.00 2.52
3697 4265 6.385176 TGATACTGTGATTTGAGGGAGATTCT 59.615 38.462 0.00 0.00 0.00 2.40
3698 4266 6.586344 TGATACTGTGATTTGAGGGAGATTC 58.414 40.000 0.00 0.00 0.00 2.52
3699 4267 6.385176 TCTGATACTGTGATTTGAGGGAGATT 59.615 38.462 0.00 0.00 0.00 2.40
3700 4268 5.901853 TCTGATACTGTGATTTGAGGGAGAT 59.098 40.000 0.00 0.00 0.00 2.75
3719 4287 6.299141 TGTTACAAAGAGCCTTTTCTCTGAT 58.701 36.000 0.00 0.00 42.25 2.90
3739 4307 7.839680 TCATCTGATCTACCTATGCTTGTTA 57.160 36.000 0.00 0.00 0.00 2.41
3765 4333 2.485814 CAGGCCAAAGAACTGAGCTAAC 59.514 50.000 5.01 0.00 34.21 2.34
3813 4381 2.670934 AGCTGCCGCTTGTTCCTG 60.671 61.111 0.00 0.00 46.47 3.86
3921 4489 3.368190 CTGCGCCTCCTCCAGACAG 62.368 68.421 4.18 0.00 0.00 3.51
3958 4526 2.502947 TGATCAGGACAGGGATGACTTG 59.497 50.000 0.00 0.00 0.00 3.16
4095 4663 2.034879 GGTGTGGATGCTGTGGACG 61.035 63.158 0.00 0.00 0.00 4.79
4124 4692 1.862147 GTCCACGACGACGACGATG 60.862 63.158 25.15 17.69 42.66 3.84
4125 4693 2.477845 GTCCACGACGACGACGAT 59.522 61.111 25.15 7.72 42.66 3.73
4181 4749 4.115199 CCTTCTTCCCGGCCCAGG 62.115 72.222 0.00 0.00 0.00 4.45
4186 4754 1.098129 GCAATCTCCTTCTTCCCGGC 61.098 60.000 0.00 0.00 0.00 6.13
4409 4977 4.400961 GGAACAGCCGGAGCAGCT 62.401 66.667 5.05 0.00 43.56 4.24
4524 5092 1.527611 TTGTTGCTGCTGCTGCTCT 60.528 52.632 27.67 0.00 40.48 4.09
4526 5094 2.071844 CTGTTGTTGCTGCTGCTGCT 62.072 55.000 27.67 0.00 40.48 4.24
4527 5095 1.660575 CTGTTGTTGCTGCTGCTGC 60.661 57.895 22.51 22.51 40.48 5.25
4528 5096 1.660575 GCTGTTGTTGCTGCTGCTG 60.661 57.895 17.00 0.77 40.48 4.41
4539 5113 2.753029 GCCTCCTCCTGCTGTTGT 59.247 61.111 0.00 0.00 0.00 3.32
4677 5251 2.030562 CCTGGCGTCGTCCACTTT 59.969 61.111 4.55 0.00 31.74 2.66
4721 5298 2.615493 CCACCACACATTCTACAGGGTC 60.615 54.545 0.00 0.00 0.00 4.46
4785 5369 2.654749 TACACATGGAGCTTCACGAG 57.345 50.000 0.00 0.00 0.00 4.18
4786 5370 3.394674 TTTACACATGGAGCTTCACGA 57.605 42.857 0.00 0.00 0.00 4.35
4787 5371 4.685169 ATTTTACACATGGAGCTTCACG 57.315 40.909 0.00 0.00 0.00 4.35
4788 5372 6.494893 TGTATTTTACACATGGAGCTTCAC 57.505 37.500 0.00 0.00 32.89 3.18
4789 5373 6.714810 AGTTGTATTTTACACATGGAGCTTCA 59.285 34.615 0.00 0.00 38.63 3.02
4790 5374 7.145932 AGTTGTATTTTACACATGGAGCTTC 57.854 36.000 0.00 0.00 38.63 3.86
4791 5375 7.148239 GCTAGTTGTATTTTACACATGGAGCTT 60.148 37.037 0.00 0.00 38.63 3.74
4792 5376 6.316390 GCTAGTTGTATTTTACACATGGAGCT 59.684 38.462 0.00 0.00 38.63 4.09
4793 5377 6.487103 GCTAGTTGTATTTTACACATGGAGC 58.513 40.000 0.00 0.00 38.63 4.70
4794 5378 6.533723 TCGCTAGTTGTATTTTACACATGGAG 59.466 38.462 0.00 0.00 38.63 3.86
4828 5412 0.597637 CCAGTCGCAGTTGAACGTCT 60.598 55.000 0.00 0.00 0.00 4.18
4885 5469 7.791590 CGTACTACTAGCACGAGAACTAATTAC 59.208 40.741 3.07 0.00 37.16 1.89
4886 5470 7.492669 ACGTACTACTAGCACGAGAACTAATTA 59.507 37.037 14.52 0.00 37.16 1.40
4887 5471 6.314896 ACGTACTACTAGCACGAGAACTAATT 59.685 38.462 14.52 0.00 37.16 1.40
4888 5472 5.814705 ACGTACTACTAGCACGAGAACTAAT 59.185 40.000 14.52 0.00 37.16 1.73
4891 5475 3.594134 ACGTACTACTAGCACGAGAACT 58.406 45.455 14.52 0.00 37.16 3.01
4892 5476 4.564769 AGTACGTACTACTAGCACGAGAAC 59.435 45.833 26.36 9.56 37.16 3.01
4893 5477 4.748892 AGTACGTACTACTAGCACGAGAA 58.251 43.478 26.36 0.00 37.16 2.87
4895 5479 3.489047 GGAGTACGTACTACTAGCACGAG 59.511 52.174 27.45 0.00 37.16 4.18
4896 5480 3.131223 AGGAGTACGTACTACTAGCACGA 59.869 47.826 34.24 0.00 45.47 4.35
4902 5486 4.278669 CGGGAGTAGGAGTACGTACTACTA 59.721 50.000 34.20 34.20 45.47 1.82
4904 5488 3.068307 TCGGGAGTAGGAGTACGTACTAC 59.932 52.174 27.48 27.48 44.32 2.73
4905 5489 3.296854 TCGGGAGTAGGAGTACGTACTA 58.703 50.000 27.44 10.38 44.32 1.82
4907 5491 2.604046 TCGGGAGTAGGAGTACGTAC 57.396 55.000 18.10 18.10 37.56 3.67
4909 5493 2.087646 GTTTCGGGAGTAGGAGTACGT 58.912 52.381 0.00 0.00 33.97 3.57
4910 5494 2.086869 TGTTTCGGGAGTAGGAGTACG 58.913 52.381 0.00 0.00 33.97 3.67
4911 5495 2.159268 GCTGTTTCGGGAGTAGGAGTAC 60.159 54.545 0.00 0.00 0.00 2.73
4912 5496 2.097825 GCTGTTTCGGGAGTAGGAGTA 58.902 52.381 0.00 0.00 0.00 2.59
4913 5497 0.896226 GCTGTTTCGGGAGTAGGAGT 59.104 55.000 0.00 0.00 0.00 3.85
4914 5498 0.175989 GGCTGTTTCGGGAGTAGGAG 59.824 60.000 0.00 0.00 0.00 3.69
4915 5499 1.601419 CGGCTGTTTCGGGAGTAGGA 61.601 60.000 0.00 0.00 0.00 2.94
4916 5500 1.153628 CGGCTGTTTCGGGAGTAGG 60.154 63.158 0.00 0.00 0.00 3.18
4917 5501 0.460311 ATCGGCTGTTTCGGGAGTAG 59.540 55.000 0.00 0.00 0.00 2.57
4918 5502 0.174845 CATCGGCTGTTTCGGGAGTA 59.825 55.000 0.00 0.00 0.00 2.59
4948 7172 4.838486 CTGCTCTCCGTCGTCGCC 62.838 72.222 0.00 0.00 35.54 5.54
4958 7194 2.433318 GCCACGACACCTGCTCTC 60.433 66.667 0.00 0.00 0.00 3.20
4967 7203 1.298340 CCCTGGTTATGCCACGACA 59.702 57.895 0.00 0.00 43.61 4.35
5027 7263 0.107456 CCGCGGAGTAGTAGGTAGGA 59.893 60.000 24.07 0.00 0.00 2.94
5028 7264 1.513836 GCCGCGGAGTAGTAGGTAGG 61.514 65.000 33.48 0.00 0.00 3.18
5085 7323 1.290134 GTTTGGATGGGGAGAGGAGT 58.710 55.000 0.00 0.00 0.00 3.85
5139 7377 1.002792 AGCAGGAGGAAGAGGAGGG 59.997 63.158 0.00 0.00 0.00 4.30
5147 7385 2.119611 TGGGACGAGCAGGAGGAA 59.880 61.111 0.00 0.00 0.00 3.36
5148 7386 2.680352 GTGGGACGAGCAGGAGGA 60.680 66.667 0.00 0.00 0.00 3.71
5149 7387 4.135153 CGTGGGACGAGCAGGAGG 62.135 72.222 0.00 0.00 46.05 4.30
5150 7388 4.803426 GCGTGGGACGAGCAGGAG 62.803 72.222 0.00 0.00 46.05 3.69
5152 7390 4.803426 GAGCGTGGGACGAGCAGG 62.803 72.222 0.00 0.00 46.05 4.85
5334 7596 3.550030 CCAACCATTCCGTCAAACACTTC 60.550 47.826 0.00 0.00 0.00 3.01
5336 7598 1.953686 CCAACCATTCCGTCAAACACT 59.046 47.619 0.00 0.00 0.00 3.55
5354 7616 2.842462 AGACCACTGCACGGACCA 60.842 61.111 4.39 0.00 0.00 4.02
5369 7631 4.111016 CTGTACGCCGCCACGAGA 62.111 66.667 0.00 0.00 36.70 4.04
5518 7780 4.574828 ACAGCACCACAAGTTAGTTAACAG 59.425 41.667 8.61 0.19 38.62 3.16
5536 7798 4.284860 AGACAGCGACGCACAGCA 62.285 61.111 23.70 0.00 35.48 4.41
5538 7800 2.085262 CAGAGACAGCGACGCACAG 61.085 63.158 23.70 13.67 0.00 3.66
5544 7806 0.173481 TGGCATACAGAGACAGCGAC 59.827 55.000 0.00 0.00 0.00 5.19
5602 7876 1.795768 TTGCGACAAGGAGCACTAAG 58.204 50.000 0.00 0.00 43.69 2.18
5659 7933 3.405831 CATCAAGAGAGACCAACAGCAA 58.594 45.455 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.