Multiple sequence alignment - TraesCS5B01G118300

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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 TraesCS5B01G118300 chr5B 100.000 4417 0 0 1 4417 208711068 208706652 0.000000e+00 8157.0
1 TraesCS5B01G118300 chr5B 75.576 651 139 14 1 644 271579358 271579995 2.000000e-78 303.0
2 TraesCS5B01G118300 chr5B 76.399 572 123 10 1 563 466020873 466021441 9.290000e-77 298.0
3 TraesCS5B01G118300 chr5B 88.421 95 9 2 3011 3104 100836921 100837014 3.610000e-21 113.0
4 TraesCS5B01G118300 chr5D 94.138 2644 89 24 1518 4138 202906025 202908625 0.000000e+00 3964.0
5 TraesCS5B01G118300 chr5D 94.072 641 35 3 1 639 202904575 202905214 0.000000e+00 970.0
6 TraesCS5B01G118300 chr5D 94.127 647 23 4 845 1478 202905253 202905897 0.000000e+00 970.0
7 TraesCS5B01G118300 chr5D 89.474 285 28 2 4133 4417 202910663 202910945 4.200000e-95 359.0
8 TraesCS5B01G118300 chr5D 85.083 181 25 2 3176 3356 436546896 436546718 2.710000e-42 183.0
9 TraesCS5B01G118300 chr5D 89.552 134 12 2 3011 3143 436547032 436546900 7.600000e-38 169.0
10 TraesCS5B01G118300 chr5A 95.771 2081 68 10 1359 3427 219687384 219689456 0.000000e+00 3338.0
11 TraesCS5B01G118300 chr5A 91.935 682 48 4 3743 4417 219691342 219692023 0.000000e+00 948.0
12 TraesCS5B01G118300 chr5A 91.932 533 38 4 81 612 219677966 219678494 0.000000e+00 741.0
13 TraesCS5B01G118300 chr5A 90.511 411 16 6 906 1309 219682114 219682508 5.060000e-144 521.0
14 TraesCS5B01G118300 chr5A 91.620 179 14 1 3528 3706 219691162 219691339 3.410000e-61 246.0
15 TraesCS5B01G118300 chr5A 99.187 123 1 0 3415 3537 219689542 219689664 5.750000e-54 222.0
16 TraesCS5B01G118300 chr5A 92.537 134 10 0 692 825 381703535 381703402 4.510000e-45 193.0
17 TraesCS5B01G118300 chr5A 93.023 86 5 1 1 85 219653579 219653664 1.670000e-24 124.0
18 TraesCS5B01G118300 chr6B 76.876 653 133 13 1 644 485547825 485547182 1.950000e-93 353.0
19 TraesCS5B01G118300 chr6B 78.799 283 40 10 3229 3510 511279288 511279025 5.870000e-39 172.0
20 TraesCS5B01G118300 chr3B 75.957 653 139 13 1 644 778993627 778992984 1.980000e-83 320.0
21 TraesCS5B01G118300 chr3B 89.655 145 12 1 3002 3143 273250199 273250343 9.760000e-42 182.0
22 TraesCS5B01G118300 chr3B 92.683 41 2 1 650 690 238571805 238571844 1.720000e-04 58.4
23 TraesCS5B01G118300 chr2B 75.920 652 139 11 2 644 126425118 126425760 7.130000e-83 318.0
24 TraesCS5B01G118300 chr2B 87.500 104 13 0 723 826 449219144 449219247 2.160000e-23 121.0
25 TraesCS5B01G118300 chr4D 93.532 201 13 0 4217 4417 434068288 434068488 2.580000e-77 300.0
26 TraesCS5B01G118300 chr4D 93.035 201 14 0 4217 4417 443713129 443713329 1.200000e-75 294.0
27 TraesCS5B01G118300 chr4D 97.297 37 1 0 649 685 340703836 340703872 3.690000e-06 63.9
28 TraesCS5B01G118300 chr3D 93.532 201 13 0 4217 4417 580909921 580909721 2.580000e-77 300.0
29 TraesCS5B01G118300 chr3D 94.030 134 8 0 692 825 5177899 5177766 2.080000e-48 204.0
30 TraesCS5B01G118300 chr3D 97.222 36 1 0 649 684 515636178 515636213 1.330000e-05 62.1
31 TraesCS5B01G118300 chr3D 91.304 46 2 1 641 684 581879521 581879566 1.330000e-05 62.1
32 TraesCS5B01G118300 chr1B 93.532 201 13 0 4217 4417 94009434 94009234 2.580000e-77 300.0
33 TraesCS5B01G118300 chr1B 93.035 201 14 0 4217 4417 589132754 589132554 1.200000e-75 294.0
34 TraesCS5B01G118300 chr2D 93.035 201 14 0 4217 4417 24439603 24439803 1.200000e-75 294.0
35 TraesCS5B01G118300 chr2D 93.846 195 12 0 4223 4417 571067456 571067262 1.200000e-75 294.0
36 TraesCS5B01G118300 chr2D 74.290 599 132 14 52 639 57200482 57201069 2.660000e-57 233.0
37 TraesCS5B01G118300 chr2D 79.819 332 44 11 3209 3531 74123765 74124082 2.070000e-53 220.0
38 TraesCS5B01G118300 chr2D 97.222 36 1 0 649 684 190218712 190218747 1.330000e-05 62.1
39 TraesCS5B01G118300 chr2D 97.222 36 1 0 649 684 373220146 373220111 1.330000e-05 62.1
40 TraesCS5B01G118300 chr6D 76.036 555 111 17 68 611 334348663 334348120 7.280000e-68 268.0
41 TraesCS5B01G118300 chr6A 92.754 138 10 0 688 825 11559223 11559360 2.690000e-47 200.0
42 TraesCS5B01G118300 chr6A 83.439 157 25 1 3209 3364 86625684 86625528 1.280000e-30 145.0
43 TraesCS5B01G118300 chr6A 95.349 43 2 0 650 692 198073654 198073696 7.930000e-08 69.4
44 TraesCS5B01G118300 chr7D 93.284 134 8 1 692 825 586885911 586885779 3.490000e-46 196.0
45 TraesCS5B01G118300 chr4A 79.276 304 43 10 3229 3531 211671587 211671871 1.250000e-45 195.0
46 TraesCS5B01G118300 chr4A 83.425 181 27 3 3176 3356 256956136 256955959 9.830000e-37 165.0
47 TraesCS5B01G118300 chr4A 90.991 111 10 0 3035 3145 257295306 257295196 2.750000e-32 150.0
48 TraesCS5B01G118300 chr3A 77.846 325 50 12 3209 3531 530086352 530086656 9.760000e-42 182.0
49 TraesCS5B01G118300 chr3A 97.368 38 1 0 649 686 60612419 60612456 1.030000e-06 65.8
50 TraesCS5B01G118300 chr1D 88.966 145 13 1 3002 3143 241967660 241967516 4.540000e-40 176.0
51 TraesCS5B01G118300 chr4B 92.135 89 7 0 1212 1300 378000872 378000960 4.640000e-25 126.0
52 TraesCS5B01G118300 chr4B 91.489 47 2 2 649 695 571178212 571178168 3.690000e-06 63.9
53 TraesCS5B01G118300 chr2A 93.056 72 5 0 1229 1300 528101460 528101389 6.040000e-19 106.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G118300 chr5B 208706652 208711068 4416 True 8157.00 8157 100.00000 1 4417 1 chr5B.!!$R1 4416
1 TraesCS5B01G118300 chr5B 271579358 271579995 637 False 303.00 303 75.57600 1 644 1 chr5B.!!$F2 643
2 TraesCS5B01G118300 chr5B 466020873 466021441 568 False 298.00 298 76.39900 1 563 1 chr5B.!!$F3 562
3 TraesCS5B01G118300 chr5D 202904575 202910945 6370 False 1565.75 3964 92.95275 1 4417 4 chr5D.!!$F1 4416
4 TraesCS5B01G118300 chr5A 219687384 219692023 4639 False 1188.50 3338 94.62825 1359 4417 4 chr5A.!!$F3 3058
5 TraesCS5B01G118300 chr5A 219677966 219682508 4542 False 631.00 741 91.22150 81 1309 2 chr5A.!!$F2 1228
6 TraesCS5B01G118300 chr6B 485547182 485547825 643 True 353.00 353 76.87600 1 644 1 chr6B.!!$R1 643
7 TraesCS5B01G118300 chr3B 778992984 778993627 643 True 320.00 320 75.95700 1 644 1 chr3B.!!$R1 643
8 TraesCS5B01G118300 chr2B 126425118 126425760 642 False 318.00 318 75.92000 2 644 1 chr2B.!!$F1 642
9 TraesCS5B01G118300 chr2D 57200482 57201069 587 False 233.00 233 74.29000 52 639 1 chr2D.!!$F2 587
10 TraesCS5B01G118300 chr6D 334348120 334348663 543 True 268.00 268 76.03600 68 611 1 chr6D.!!$R1 543

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
799 2500 0.103937 CTCCACAGATTCTCGGAGCC 59.896 60.0 13.3 0.0 38.74 4.70 F
1608 5222 0.038310 GGGGAGTTCCTTTGGTCCTG 59.962 60.0 0.0 0.0 35.95 3.86 F
1610 5224 0.402121 GGAGTTCCTTTGGTCCTGCT 59.598 55.0 0.0 0.0 0.00 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2541 6160 1.210478 TCCAGCTCTGCAAATCCCTAC 59.790 52.381 0.0 0.0 0.0 3.18 R
3380 7010 1.593196 TTCTTCGTTGAGCTGTTGGG 58.407 50.000 0.0 0.0 0.0 4.12 R
3580 8822 1.887242 GAACAGCCACACGAGCACA 60.887 57.895 0.0 0.0 0.0 4.57 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
36 37 2.750814 AGCCATTACCAATTCCCCAAG 58.249 47.619 0.00 0.00 0.00 3.61
49 50 3.858696 TCCCCAAGTACTCCCTCTTTA 57.141 47.619 0.00 0.00 0.00 1.85
56 57 6.013119 CCCAAGTACTCCCTCTTTAAAAGGTA 60.013 42.308 0.00 0.88 31.51 3.08
134 136 0.179936 GAGCAACTCATCAGAGGGGG 59.820 60.000 0.00 0.00 46.44 5.40
336 347 3.384467 CCCCACCAATAGTGCAAAATAGG 59.616 47.826 0.00 0.00 45.83 2.57
589 601 7.453126 AGAAAGAGACTCCGTCATTATATCCAT 59.547 37.037 0.00 0.00 34.60 3.41
648 2349 8.677148 TGTATTGAGGCTGAAATAAATACTCC 57.323 34.615 0.00 0.00 33.62 3.85
652 2353 8.415950 TTGAGGCTGAAATAAATACTCCAAAA 57.584 30.769 0.00 0.00 0.00 2.44
653 2354 8.415950 TGAGGCTGAAATAAATACTCCAAAAA 57.584 30.769 0.00 0.00 0.00 1.94
654 2355 8.303876 TGAGGCTGAAATAAATACTCCAAAAAC 58.696 33.333 0.00 0.00 0.00 2.43
655 2356 8.189119 AGGCTGAAATAAATACTCCAAAAACA 57.811 30.769 0.00 0.00 0.00 2.83
656 2357 8.815912 AGGCTGAAATAAATACTCCAAAAACAT 58.184 29.630 0.00 0.00 0.00 2.71
657 2358 9.435688 GGCTGAAATAAATACTCCAAAAACATT 57.564 29.630 0.00 0.00 0.00 2.71
675 2376 7.948034 AAACATTCTTATATTTTGGGACGGA 57.052 32.000 0.00 0.00 0.00 4.69
676 2377 7.568199 AACATTCTTATATTTTGGGACGGAG 57.432 36.000 0.00 0.00 0.00 4.63
677 2378 6.062095 ACATTCTTATATTTTGGGACGGAGG 58.938 40.000 0.00 0.00 0.00 4.30
678 2379 5.961398 TTCTTATATTTTGGGACGGAGGA 57.039 39.130 0.00 0.00 0.00 3.71
679 2380 5.961398 TCTTATATTTTGGGACGGAGGAA 57.039 39.130 0.00 0.00 0.00 3.36
680 2381 5.925509 TCTTATATTTTGGGACGGAGGAAG 58.074 41.667 0.00 0.00 0.00 3.46
681 2382 5.427481 TCTTATATTTTGGGACGGAGGAAGT 59.573 40.000 0.00 0.00 0.00 3.01
682 2383 6.612456 TCTTATATTTTGGGACGGAGGAAGTA 59.388 38.462 0.00 0.00 0.00 2.24
683 2384 3.629142 ATTTTGGGACGGAGGAAGTAG 57.371 47.619 0.00 0.00 0.00 2.57
684 2385 2.314071 TTTGGGACGGAGGAAGTAGA 57.686 50.000 0.00 0.00 0.00 2.59
685 2386 2.544844 TTGGGACGGAGGAAGTAGAT 57.455 50.000 0.00 0.00 0.00 1.98
686 2387 1.776662 TGGGACGGAGGAAGTAGATG 58.223 55.000 0.00 0.00 0.00 2.90
687 2388 1.286849 TGGGACGGAGGAAGTAGATGA 59.713 52.381 0.00 0.00 0.00 2.92
688 2389 2.091278 TGGGACGGAGGAAGTAGATGAT 60.091 50.000 0.00 0.00 0.00 2.45
689 2390 2.966516 GGGACGGAGGAAGTAGATGATT 59.033 50.000 0.00 0.00 0.00 2.57
690 2391 3.388350 GGGACGGAGGAAGTAGATGATTT 59.612 47.826 0.00 0.00 0.00 2.17
691 2392 4.587684 GGGACGGAGGAAGTAGATGATTTA 59.412 45.833 0.00 0.00 0.00 1.40
692 2393 5.279056 GGGACGGAGGAAGTAGATGATTTAG 60.279 48.000 0.00 0.00 0.00 1.85
693 2394 5.279056 GGACGGAGGAAGTAGATGATTTAGG 60.279 48.000 0.00 0.00 0.00 2.69
694 2395 5.455872 ACGGAGGAAGTAGATGATTTAGGA 58.544 41.667 0.00 0.00 0.00 2.94
695 2396 5.302313 ACGGAGGAAGTAGATGATTTAGGAC 59.698 44.000 0.00 0.00 0.00 3.85
696 2397 5.279056 CGGAGGAAGTAGATGATTTAGGACC 60.279 48.000 0.00 0.00 0.00 4.46
697 2398 5.012251 GGAGGAAGTAGATGATTTAGGACCC 59.988 48.000 0.00 0.00 0.00 4.46
698 2399 4.589374 AGGAAGTAGATGATTTAGGACCCG 59.411 45.833 0.00 0.00 0.00 5.28
699 2400 4.344390 GGAAGTAGATGATTTAGGACCCGT 59.656 45.833 0.00 0.00 0.00 5.28
700 2401 5.163332 GGAAGTAGATGATTTAGGACCCGTT 60.163 44.000 0.00 0.00 0.00 4.44
701 2402 5.532664 AGTAGATGATTTAGGACCCGTTC 57.467 43.478 0.00 0.00 0.00 3.95
702 2403 3.454371 AGATGATTTAGGACCCGTTCG 57.546 47.619 0.00 0.00 0.00 3.95
703 2404 2.102588 AGATGATTTAGGACCCGTTCGG 59.897 50.000 4.08 4.08 37.81 4.30
712 2413 2.196319 ACCCGTTCGGTATCACTCC 58.804 57.895 10.36 0.00 45.97 3.85
713 2414 0.612732 ACCCGTTCGGTATCACTCCA 60.613 55.000 10.36 0.00 45.97 3.86
714 2415 0.179119 CCCGTTCGGTATCACTCCAC 60.179 60.000 10.36 0.00 0.00 4.02
715 2416 0.815734 CCGTTCGGTATCACTCCACT 59.184 55.000 2.82 0.00 0.00 4.00
716 2417 1.202268 CCGTTCGGTATCACTCCACTC 60.202 57.143 2.82 0.00 0.00 3.51
717 2418 1.202268 CGTTCGGTATCACTCCACTCC 60.202 57.143 0.00 0.00 0.00 3.85
718 2419 1.100510 TTCGGTATCACTCCACTCCG 58.899 55.000 0.00 0.00 39.40 4.63
719 2420 1.065928 CGGTATCACTCCACTCCGC 59.934 63.158 0.00 0.00 0.00 5.54
720 2421 1.065928 GGTATCACTCCACTCCGCG 59.934 63.158 0.00 0.00 0.00 6.46
721 2422 1.065928 GTATCACTCCACTCCGCGG 59.934 63.158 22.12 22.12 0.00 6.46
722 2423 2.782222 TATCACTCCACTCCGCGGC 61.782 63.158 23.51 0.00 0.00 6.53
724 2425 4.803426 CACTCCACTCCGCGGCTC 62.803 72.222 23.51 0.00 0.00 4.70
765 2466 4.152607 GCTGTAGCTCAAAAACTTGGAG 57.847 45.455 0.00 0.00 38.21 3.86
769 2470 2.322371 GCTCAAAAACTTGGAGCGAG 57.678 50.000 0.15 0.00 43.83 5.03
770 2471 1.664302 GCTCAAAAACTTGGAGCGAGC 60.664 52.381 0.15 0.00 43.83 5.03
771 2472 1.603802 CTCAAAAACTTGGAGCGAGCA 59.396 47.619 0.00 0.00 0.00 4.26
772 2473 2.020720 TCAAAAACTTGGAGCGAGCAA 58.979 42.857 0.00 0.00 0.00 3.91
773 2474 2.425312 TCAAAAACTTGGAGCGAGCAAA 59.575 40.909 0.00 0.00 0.00 3.68
774 2475 2.492019 AAAACTTGGAGCGAGCAAAC 57.508 45.000 0.00 0.00 0.00 2.93
775 2476 1.388547 AAACTTGGAGCGAGCAAACA 58.611 45.000 0.00 0.00 0.00 2.83
776 2477 0.947244 AACTTGGAGCGAGCAAACAG 59.053 50.000 0.00 0.00 0.00 3.16
777 2478 1.208614 CTTGGAGCGAGCAAACAGC 59.791 57.895 0.00 0.00 46.19 4.40
786 2487 3.840437 GCAAACAGCCACTCCACA 58.160 55.556 0.00 0.00 37.23 4.17
787 2488 1.656441 GCAAACAGCCACTCCACAG 59.344 57.895 0.00 0.00 37.23 3.66
788 2489 0.819259 GCAAACAGCCACTCCACAGA 60.819 55.000 0.00 0.00 37.23 3.41
789 2490 1.901591 CAAACAGCCACTCCACAGAT 58.098 50.000 0.00 0.00 0.00 2.90
790 2491 2.233271 CAAACAGCCACTCCACAGATT 58.767 47.619 0.00 0.00 0.00 2.40
791 2492 2.191128 AACAGCCACTCCACAGATTC 57.809 50.000 0.00 0.00 0.00 2.52
792 2493 1.356124 ACAGCCACTCCACAGATTCT 58.644 50.000 0.00 0.00 0.00 2.40
793 2494 1.277557 ACAGCCACTCCACAGATTCTC 59.722 52.381 0.00 0.00 0.00 2.87
794 2495 0.534412 AGCCACTCCACAGATTCTCG 59.466 55.000 0.00 0.00 0.00 4.04
795 2496 0.460987 GCCACTCCACAGATTCTCGG 60.461 60.000 0.00 0.00 0.00 4.63
796 2497 1.186200 CCACTCCACAGATTCTCGGA 58.814 55.000 2.20 2.20 0.00 4.55
798 2499 3.657956 CTCCACAGATTCTCGGAGC 57.342 57.895 13.30 0.00 38.74 4.70
799 2500 0.103937 CTCCACAGATTCTCGGAGCC 59.896 60.000 13.30 0.00 38.74 4.70
800 2501 1.227089 CCACAGATTCTCGGAGCCG 60.227 63.158 1.74 1.74 41.35 5.52
801 2502 1.227089 CACAGATTCTCGGAGCCGG 60.227 63.158 9.29 0.00 40.25 6.13
802 2503 1.682684 ACAGATTCTCGGAGCCGGT 60.683 57.895 9.29 0.00 40.25 5.28
803 2504 1.227089 CAGATTCTCGGAGCCGGTG 60.227 63.158 9.29 3.02 40.25 4.94
804 2505 2.107141 GATTCTCGGAGCCGGTGG 59.893 66.667 9.29 0.59 40.25 4.61
805 2506 2.363795 ATTCTCGGAGCCGGTGGA 60.364 61.111 9.29 2.94 40.25 4.02
806 2507 1.749334 GATTCTCGGAGCCGGTGGAT 61.749 60.000 9.29 2.94 40.25 3.41
807 2508 1.338136 ATTCTCGGAGCCGGTGGATT 61.338 55.000 9.29 0.30 40.25 3.01
808 2509 0.685131 TTCTCGGAGCCGGTGGATTA 60.685 55.000 9.29 0.00 40.25 1.75
809 2510 1.067582 CTCGGAGCCGGTGGATTAC 59.932 63.158 9.29 0.00 40.25 1.89
810 2511 2.108362 CGGAGCCGGTGGATTACC 59.892 66.667 1.90 0.00 46.56 2.85
855 2556 3.091545 CCATTTGTGGCAAGGTCATAGT 58.908 45.455 0.00 0.00 0.00 2.12
903 2604 2.035704 TGTTTGCATTTTCAGCATCCGT 59.964 40.909 0.00 0.00 42.33 4.69
928 4434 6.426025 TCCTCATAAGCATCAAAGAATCATCG 59.574 38.462 0.00 0.00 0.00 3.84
965 4471 2.319025 AATTGGAAATTCCCCACGGT 57.681 45.000 9.87 0.00 35.03 4.83
1020 4526 2.125229 CCAGCAGCACAGCGAGAT 60.125 61.111 0.00 0.00 40.15 2.75
1484 5010 2.026301 CGATTCGGTCCGCTCTCC 59.974 66.667 6.34 0.00 0.00 3.71
1485 5011 2.417936 GATTCGGTCCGCTCTCCC 59.582 66.667 6.34 0.00 0.00 4.30
1507 5033 1.599576 GCCTCCCTTTCGCTTCTCT 59.400 57.895 0.00 0.00 0.00 3.10
1510 5036 0.898320 CTCCCTTTCGCTTCTCTCCA 59.102 55.000 0.00 0.00 0.00 3.86
1552 5166 0.882042 AGCACGCTGTTCTGTTCCTG 60.882 55.000 0.00 0.00 0.00 3.86
1599 5213 1.256812 CGCAAAATTGGGGAGTTCCT 58.743 50.000 2.52 0.00 37.46 3.36
1608 5222 0.038310 GGGGAGTTCCTTTGGTCCTG 59.962 60.000 0.00 0.00 35.95 3.86
1609 5223 0.609406 GGGAGTTCCTTTGGTCCTGC 60.609 60.000 0.00 0.00 35.95 4.85
1610 5224 0.402121 GGAGTTCCTTTGGTCCTGCT 59.598 55.000 0.00 0.00 0.00 4.24
1611 5225 1.628846 GGAGTTCCTTTGGTCCTGCTA 59.371 52.381 0.00 0.00 0.00 3.49
1612 5226 2.355209 GGAGTTCCTTTGGTCCTGCTAG 60.355 54.545 0.00 0.00 0.00 3.42
1613 5227 2.303311 GAGTTCCTTTGGTCCTGCTAGT 59.697 50.000 0.00 0.00 0.00 2.57
1621 5235 2.034878 TGGTCCTGCTAGTGCTATCTG 58.965 52.381 0.00 0.00 40.48 2.90
1880 5497 4.790937 TGTATTATCCATGCAAGCCAGAA 58.209 39.130 0.00 0.00 0.00 3.02
1896 5513 3.557898 GCCAGAACAGACTTTGATGAGGA 60.558 47.826 0.00 0.00 0.00 3.71
1913 5530 8.206126 TGATGAGGATTATAGCTTTCCATACA 57.794 34.615 0.00 0.00 31.65 2.29
1988 5607 3.380320 TGTCATACATACTCGACCAGGTG 59.620 47.826 0.00 0.00 0.00 4.00
2144 5763 2.546494 GCACTTCTGTTGGCGCAGT 61.546 57.895 10.83 0.00 37.70 4.40
2165 5784 4.593206 AGTCAAATATGGAAGGCCGATAGA 59.407 41.667 0.00 0.00 36.79 1.98
2358 5977 4.586421 TGTTGACCTTTGCCAATGTCAATA 59.414 37.500 19.37 15.58 44.45 1.90
2468 6087 0.961019 TGTCAATGCTGCCCTGAAAC 59.039 50.000 0.00 0.00 0.00 2.78
2528 6147 8.346300 TCTCGCTTCTTATCTGTAGTTTATCTG 58.654 37.037 0.00 0.00 0.00 2.90
2541 6160 5.763444 AGTTTATCTGTGAACGTTGATCG 57.237 39.130 5.00 0.00 46.00 3.69
2591 6210 4.252971 TGCTTCGTTATATGGGAGCTAC 57.747 45.455 5.66 0.00 0.00 3.58
2826 6452 6.274579 GCTAACTGGACCTAACTTCATAGTC 58.725 44.000 0.00 0.00 31.99 2.59
2851 6477 5.986135 GTGACGCTAGAAATGGTTGAGATAT 59.014 40.000 0.00 0.00 0.00 1.63
3014 6641 9.847224 TTGAAAGATTGAGTAATAACCTATCCC 57.153 33.333 0.00 0.00 0.00 3.85
3263 6893 5.079643 ACTTCTGTTTGTGCAGGGATTTAT 58.920 37.500 0.00 0.00 37.12 1.40
3306 6936 6.567511 CGAAAAATTGGGCCAAATTCGAATTT 60.568 34.615 36.10 26.51 38.73 1.82
3380 7010 1.349357 GGGCCATCTGAGAATCTACCC 59.651 57.143 4.39 0.00 34.92 3.69
3392 7022 1.668826 ATCTACCCCCAACAGCTCAA 58.331 50.000 0.00 0.00 0.00 3.02
3400 7030 1.946768 CCCAACAGCTCAACGAAGAAA 59.053 47.619 0.00 0.00 0.00 2.52
3432 7160 5.010415 GGGCGGTAACTAAGTATGTGTATCT 59.990 44.000 0.00 0.00 0.00 1.98
3580 8822 3.120338 CGTTGAGTCGGCAACATAAATGT 60.120 43.478 14.03 0.00 46.45 2.71
3583 8825 3.188254 TGAGTCGGCAACATAAATGTGTG 59.812 43.478 0.00 0.00 41.61 3.82
3586 8828 2.161410 TCGGCAACATAAATGTGTGCTC 59.839 45.455 19.81 13.47 41.61 4.26
3610 8852 0.825010 GGCTGTTCCCATGGCCTATG 60.825 60.000 6.09 6.24 41.20 2.23
3614 8856 1.064758 TGTTCCCATGGCCTATGTGAC 60.065 52.381 6.09 5.35 34.87 3.67
3636 8878 1.144936 CTTCGCATCCCTCTGTCCC 59.855 63.158 0.00 0.00 0.00 4.46
3650 8892 4.058817 CTCTGTCCCCAAATATAAGACGC 58.941 47.826 0.00 0.00 0.00 5.19
3659 8901 9.226606 TCCCCAAATATAAGACGCTAAAATATG 57.773 33.333 0.00 0.00 0.00 1.78
3720 8962 6.847421 ACTAGAAAACGGGTTCTATACTGT 57.153 37.500 9.66 3.51 38.96 3.55
3721 8963 6.628185 ACTAGAAAACGGGTTCTATACTGTG 58.372 40.000 9.66 2.20 38.96 3.66
3741 8983 4.083003 TGTGCAGAATTCGGAAATGTTACC 60.083 41.667 9.97 0.00 0.00 2.85
3801 9043 1.281577 TGTGCATCATACCTGGCTGAA 59.718 47.619 3.94 0.00 0.00 3.02
3819 9061 3.575630 TGAACTTATCTGCTGACGTGTC 58.424 45.455 0.00 0.00 0.00 3.67
3848 9090 0.232303 GTTCGCGTTGGAACAGTCAG 59.768 55.000 5.77 0.00 44.44 3.51
3860 9102 0.603065 ACAGTCAGAGCGCACATGTA 59.397 50.000 11.47 0.00 0.00 2.29
3914 9156 3.275143 TCTTGCGTCTTTTGTCCTTCAA 58.725 40.909 0.00 0.00 0.00 2.69
4076 9324 6.527722 CCTAATTTGAACGTGTGAATGGATTG 59.472 38.462 0.00 0.00 0.00 2.67
4104 9352 1.737793 CCTGTATTTCTTGGACCGTGC 59.262 52.381 0.00 0.00 0.00 5.34
4114 9362 2.741092 GACCGTGCCCTTGAGACA 59.259 61.111 0.00 0.00 0.00 3.41
4153 11445 4.743644 GGTCTCAGGTGTGTATAATAACGC 59.256 45.833 0.00 0.00 0.00 4.84
4243 11535 1.745489 GTGTTGCCCCGGACTGATC 60.745 63.158 0.73 0.00 0.00 2.92
4305 11597 2.017049 AGGTCCGCAAAACTGCATATC 58.983 47.619 0.00 0.00 34.41 1.63
4345 11637 0.396417 CTCGGGTGAGGAGGTGATCT 60.396 60.000 0.00 0.00 38.65 2.75
4385 11677 2.282180 GTTGTGGTGGTGCCGGAT 60.282 61.111 5.05 0.00 41.21 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 8.319881 AGTTCATACCTTTTAAAGAGGGAGTAC 58.680 37.037 6.24 9.76 38.65 2.73
49 50 3.806949 TGGCTGGAGTTCATACCTTTT 57.193 42.857 0.00 0.00 0.00 2.27
125 127 3.375699 GATCAAAGTACTCCCCCTCTGA 58.624 50.000 0.00 0.00 0.00 3.27
297 306 1.615919 GGGGTGACATGGAAAACCGAT 60.616 52.381 0.00 0.00 33.24 4.18
336 347 5.831702 AATTTGCAAGAGGATCACTGATC 57.168 39.130 10.22 10.22 37.82 2.92
507 519 5.708736 ATTGTGGTGGATAGTGTGGATTA 57.291 39.130 0.00 0.00 0.00 1.75
553 565 5.245075 ACGGAGTCTCTTTCTCTTTCTGATT 59.755 40.000 0.00 0.00 29.74 2.57
589 601 6.491745 TGCAAAAGTGGAGGTATGTCAAATTA 59.508 34.615 0.00 0.00 0.00 1.40
646 2347 9.936759 GTCCCAAAATATAAGAATGTTTTTGGA 57.063 29.630 21.09 13.44 41.56 3.53
647 2348 8.868916 CGTCCCAAAATATAAGAATGTTTTTGG 58.131 33.333 15.23 15.23 38.91 3.28
648 2349 8.868916 CCGTCCCAAAATATAAGAATGTTTTTG 58.131 33.333 0.00 0.00 35.09 2.44
652 2353 6.546034 CCTCCGTCCCAAAATATAAGAATGTT 59.454 38.462 0.00 0.00 0.00 2.71
653 2354 6.062095 CCTCCGTCCCAAAATATAAGAATGT 58.938 40.000 0.00 0.00 0.00 2.71
654 2355 6.296026 TCCTCCGTCCCAAAATATAAGAATG 58.704 40.000 0.00 0.00 0.00 2.67
655 2356 6.509523 TCCTCCGTCCCAAAATATAAGAAT 57.490 37.500 0.00 0.00 0.00 2.40
656 2357 5.961398 TCCTCCGTCCCAAAATATAAGAA 57.039 39.130 0.00 0.00 0.00 2.52
657 2358 5.427481 ACTTCCTCCGTCCCAAAATATAAGA 59.573 40.000 0.00 0.00 0.00 2.10
658 2359 5.681639 ACTTCCTCCGTCCCAAAATATAAG 58.318 41.667 0.00 0.00 0.00 1.73
659 2360 5.703730 ACTTCCTCCGTCCCAAAATATAA 57.296 39.130 0.00 0.00 0.00 0.98
660 2361 6.138263 TCTACTTCCTCCGTCCCAAAATATA 58.862 40.000 0.00 0.00 0.00 0.86
661 2362 4.966805 TCTACTTCCTCCGTCCCAAAATAT 59.033 41.667 0.00 0.00 0.00 1.28
663 2364 3.178865 TCTACTTCCTCCGTCCCAAAAT 58.821 45.455 0.00 0.00 0.00 1.82
664 2365 2.612000 TCTACTTCCTCCGTCCCAAAA 58.388 47.619 0.00 0.00 0.00 2.44
666 2367 2.108168 CATCTACTTCCTCCGTCCCAA 58.892 52.381 0.00 0.00 0.00 4.12
667 2368 1.286849 TCATCTACTTCCTCCGTCCCA 59.713 52.381 0.00 0.00 0.00 4.37
668 2369 2.068834 TCATCTACTTCCTCCGTCCC 57.931 55.000 0.00 0.00 0.00 4.46
669 2370 4.674281 AAATCATCTACTTCCTCCGTCC 57.326 45.455 0.00 0.00 0.00 4.79
672 2373 5.279056 GGTCCTAAATCATCTACTTCCTCCG 60.279 48.000 0.00 0.00 0.00 4.63
675 2376 4.589374 CGGGTCCTAAATCATCTACTTCCT 59.411 45.833 0.00 0.00 0.00 3.36
676 2377 4.344390 ACGGGTCCTAAATCATCTACTTCC 59.656 45.833 0.00 0.00 0.00 3.46
677 2378 5.532664 ACGGGTCCTAAATCATCTACTTC 57.467 43.478 0.00 0.00 0.00 3.01
678 2379 5.451520 CGAACGGGTCCTAAATCATCTACTT 60.452 44.000 0.00 0.00 0.00 2.24
679 2380 4.037684 CGAACGGGTCCTAAATCATCTACT 59.962 45.833 0.00 0.00 0.00 2.57
680 2381 4.296690 CGAACGGGTCCTAAATCATCTAC 58.703 47.826 0.00 0.00 0.00 2.59
681 2382 3.319972 CCGAACGGGTCCTAAATCATCTA 59.680 47.826 5.25 0.00 0.00 1.98
682 2383 2.102588 CCGAACGGGTCCTAAATCATCT 59.897 50.000 5.25 0.00 0.00 2.90
683 2384 2.480845 CCGAACGGGTCCTAAATCATC 58.519 52.381 5.25 0.00 0.00 2.92
684 2385 2.614829 CCGAACGGGTCCTAAATCAT 57.385 50.000 5.25 0.00 0.00 2.45
695 2396 0.179119 GTGGAGTGATACCGAACGGG 60.179 60.000 17.44 0.00 43.62 5.28
696 2397 0.815734 AGTGGAGTGATACCGAACGG 59.184 55.000 11.83 11.83 42.03 4.44
697 2398 1.202268 GGAGTGGAGTGATACCGAACG 60.202 57.143 0.00 0.00 0.00 3.95
698 2399 1.202268 CGGAGTGGAGTGATACCGAAC 60.202 57.143 0.00 0.00 42.40 3.95
699 2400 1.100510 CGGAGTGGAGTGATACCGAA 58.899 55.000 0.00 0.00 42.40 4.30
700 2401 1.381928 GCGGAGTGGAGTGATACCGA 61.382 60.000 0.00 0.00 42.40 4.69
701 2402 1.065928 GCGGAGTGGAGTGATACCG 59.934 63.158 0.00 0.00 42.63 4.02
702 2403 1.065928 CGCGGAGTGGAGTGATACC 59.934 63.158 0.00 0.00 0.00 2.73
703 2404 4.711980 CGCGGAGTGGAGTGATAC 57.288 61.111 0.00 0.00 0.00 2.24
732 2433 3.438017 CTACAGCTCCGCCTGCTCC 62.438 68.421 0.00 0.00 38.92 4.70
733 2434 2.105930 CTACAGCTCCGCCTGCTC 59.894 66.667 0.00 0.00 38.92 4.26
734 2435 4.154347 GCTACAGCTCCGCCTGCT 62.154 66.667 0.00 0.00 42.06 4.24
744 2445 3.610349 GCTCCAAGTTTTTGAGCTACAGC 60.610 47.826 10.22 0.00 42.49 4.40
745 2446 3.364366 CGCTCCAAGTTTTTGAGCTACAG 60.364 47.826 13.84 0.00 36.33 2.74
746 2447 2.548057 CGCTCCAAGTTTTTGAGCTACA 59.452 45.455 13.84 0.00 36.33 2.74
747 2448 2.806244 TCGCTCCAAGTTTTTGAGCTAC 59.194 45.455 13.84 0.00 36.33 3.58
748 2449 3.067106 CTCGCTCCAAGTTTTTGAGCTA 58.933 45.455 13.84 5.50 36.33 3.32
749 2450 1.876156 CTCGCTCCAAGTTTTTGAGCT 59.124 47.619 13.84 0.00 36.33 4.09
750 2451 1.664302 GCTCGCTCCAAGTTTTTGAGC 60.664 52.381 8.19 8.19 36.36 4.26
751 2452 1.603802 TGCTCGCTCCAAGTTTTTGAG 59.396 47.619 0.00 0.00 36.36 3.02
752 2453 1.674359 TGCTCGCTCCAAGTTTTTGA 58.326 45.000 0.00 0.00 36.36 2.69
753 2454 2.490328 TTGCTCGCTCCAAGTTTTTG 57.510 45.000 0.00 0.00 0.00 2.44
754 2455 2.165437 TGTTTGCTCGCTCCAAGTTTTT 59.835 40.909 0.00 0.00 0.00 1.94
755 2456 1.748493 TGTTTGCTCGCTCCAAGTTTT 59.252 42.857 0.00 0.00 0.00 2.43
756 2457 1.334869 CTGTTTGCTCGCTCCAAGTTT 59.665 47.619 0.00 0.00 0.00 2.66
757 2458 0.947244 CTGTTTGCTCGCTCCAAGTT 59.053 50.000 0.00 0.00 0.00 2.66
758 2459 1.510480 GCTGTTTGCTCGCTCCAAGT 61.510 55.000 0.00 0.00 38.95 3.16
759 2460 1.208614 GCTGTTTGCTCGCTCCAAG 59.791 57.895 0.00 0.00 38.95 3.61
760 2461 2.260869 GGCTGTTTGCTCGCTCCAA 61.261 57.895 0.00 0.00 42.39 3.53
761 2462 2.669569 GGCTGTTTGCTCGCTCCA 60.670 61.111 0.00 0.00 42.39 3.86
762 2463 2.669569 TGGCTGTTTGCTCGCTCC 60.670 61.111 0.00 0.00 42.39 4.70
763 2464 1.905922 GAGTGGCTGTTTGCTCGCTC 61.906 60.000 0.00 0.00 39.93 5.03
764 2465 1.963338 GAGTGGCTGTTTGCTCGCT 60.963 57.895 0.00 0.00 42.39 4.93
765 2466 2.558313 GAGTGGCTGTTTGCTCGC 59.442 61.111 0.00 0.00 42.39 5.03
766 2467 1.597854 TGGAGTGGCTGTTTGCTCG 60.598 57.895 0.00 0.00 42.39 5.03
767 2468 0.819259 TGTGGAGTGGCTGTTTGCTC 60.819 55.000 0.00 0.00 42.39 4.26
768 2469 0.820891 CTGTGGAGTGGCTGTTTGCT 60.821 55.000 0.00 0.00 42.39 3.91
769 2470 0.819259 TCTGTGGAGTGGCTGTTTGC 60.819 55.000 0.00 0.00 41.94 3.68
770 2471 1.901591 ATCTGTGGAGTGGCTGTTTG 58.098 50.000 0.00 0.00 0.00 2.93
771 2472 2.107204 AGAATCTGTGGAGTGGCTGTTT 59.893 45.455 0.00 0.00 0.00 2.83
772 2473 1.701847 AGAATCTGTGGAGTGGCTGTT 59.298 47.619 0.00 0.00 0.00 3.16
773 2474 1.277557 GAGAATCTGTGGAGTGGCTGT 59.722 52.381 0.00 0.00 0.00 4.40
774 2475 1.738365 CGAGAATCTGTGGAGTGGCTG 60.738 57.143 0.00 0.00 0.00 4.85
775 2476 0.534412 CGAGAATCTGTGGAGTGGCT 59.466 55.000 0.00 0.00 0.00 4.75
776 2477 0.460987 CCGAGAATCTGTGGAGTGGC 60.461 60.000 0.00 0.00 0.00 5.01
777 2478 1.135915 CTCCGAGAATCTGTGGAGTGG 59.864 57.143 16.12 0.00 42.45 4.00
778 2479 2.575694 CTCCGAGAATCTGTGGAGTG 57.424 55.000 16.12 0.00 42.45 3.51
781 2482 1.667154 CGGCTCCGAGAATCTGTGGA 61.667 60.000 1.35 0.00 42.83 4.02
782 2483 1.227089 CGGCTCCGAGAATCTGTGG 60.227 63.158 1.35 0.00 42.83 4.17
783 2484 1.227089 CCGGCTCCGAGAATCTGTG 60.227 63.158 10.28 0.00 42.83 3.66
784 2485 1.682684 ACCGGCTCCGAGAATCTGT 60.683 57.895 10.28 0.00 42.83 3.41
785 2486 1.227089 CACCGGCTCCGAGAATCTG 60.227 63.158 10.28 0.00 42.83 2.90
786 2487 2.427245 CCACCGGCTCCGAGAATCT 61.427 63.158 10.28 0.00 42.83 2.40
787 2488 1.749334 ATCCACCGGCTCCGAGAATC 61.749 60.000 10.28 0.00 42.83 2.52
788 2489 1.338136 AATCCACCGGCTCCGAGAAT 61.338 55.000 10.28 0.00 42.83 2.40
789 2490 0.685131 TAATCCACCGGCTCCGAGAA 60.685 55.000 10.28 0.00 42.83 2.87
790 2491 1.076559 TAATCCACCGGCTCCGAGA 60.077 57.895 10.28 4.17 42.83 4.04
791 2492 1.067582 GTAATCCACCGGCTCCGAG 59.932 63.158 10.28 2.72 42.83 4.63
792 2493 2.428925 GGTAATCCACCGGCTCCGA 61.429 63.158 10.28 0.00 42.83 4.55
793 2494 2.108362 GGTAATCCACCGGCTCCG 59.892 66.667 0.00 0.48 37.63 4.63
801 2502 2.456577 AGGCCATGTTTGGTAATCCAC 58.543 47.619 5.01 0.00 45.57 4.02
802 2503 2.917713 AGGCCATGTTTGGTAATCCA 57.082 45.000 5.01 0.00 45.57 3.41
803 2504 3.068165 GCTAAGGCCATGTTTGGTAATCC 59.932 47.826 5.01 0.00 45.57 3.01
804 2505 4.307443 GCTAAGGCCATGTTTGGTAATC 57.693 45.455 5.01 0.00 45.57 1.75
818 2519 2.361230 GGTGGGTGTGGCTAAGGC 60.361 66.667 0.00 0.00 37.82 4.35
819 2520 0.039618 AATGGTGGGTGTGGCTAAGG 59.960 55.000 0.00 0.00 0.00 2.69
820 2521 1.545582 CAAATGGTGGGTGTGGCTAAG 59.454 52.381 0.00 0.00 0.00 2.18
903 2604 6.426025 CGATGATTCTTTGATGCTTATGAGGA 59.574 38.462 0.00 0.00 0.00 3.71
928 4434 8.655651 TTCCAATTTCACATTTACCTTTTGTC 57.344 30.769 0.00 0.00 0.00 3.18
956 4462 1.189524 AGATGAACGAACCGTGGGGA 61.190 55.000 0.00 0.00 39.99 4.81
965 4471 1.194547 GCAGCGAAACAGATGAACGAA 59.805 47.619 0.00 0.00 0.00 3.85
1014 4520 1.796796 GTGCACTTGGGAATCTCGC 59.203 57.895 10.32 0.00 0.00 5.03
1020 4526 3.820590 CACACGTGCACTTGGGAA 58.179 55.556 25.13 0.00 0.00 3.97
1040 4546 0.890542 GCTTGTGGATGGTGAGCACA 60.891 55.000 2.75 0.00 33.68 4.57
1135 4649 0.660595 CCGGCGAAGTGTAGCGATAG 60.661 60.000 9.30 0.00 0.00 2.08
1344 4870 1.376037 CTTCCACTTCCACGCCCTC 60.376 63.158 0.00 0.00 0.00 4.30
1494 5020 0.737715 CCGTGGAGAGAAGCGAAAGG 60.738 60.000 0.00 0.00 0.00 3.11
1552 5166 2.699954 ACATCAACCACAATCGGAGAC 58.300 47.619 0.00 0.00 42.51 3.36
1599 5213 3.107601 AGATAGCACTAGCAGGACCAAA 58.892 45.455 0.00 0.00 45.49 3.28
1608 5222 3.383185 AGGAACAGTCAGATAGCACTAGC 59.617 47.826 0.00 0.00 42.56 3.42
1609 5223 5.126222 TGAAGGAACAGTCAGATAGCACTAG 59.874 44.000 0.00 0.00 0.00 2.57
1610 5224 5.016831 TGAAGGAACAGTCAGATAGCACTA 58.983 41.667 0.00 0.00 0.00 2.74
1611 5225 3.834813 TGAAGGAACAGTCAGATAGCACT 59.165 43.478 0.00 0.00 0.00 4.40
1612 5226 4.193826 TGAAGGAACAGTCAGATAGCAC 57.806 45.455 0.00 0.00 0.00 4.40
1613 5227 5.426689 AATGAAGGAACAGTCAGATAGCA 57.573 39.130 0.00 0.00 0.00 3.49
1621 5235 9.860898 ATAAGCAAAAATAATGAAGGAACAGTC 57.139 29.630 0.00 0.00 0.00 3.51
1795 5412 5.897377 TTTTAAGGTATGCAAGGAGAAGC 57.103 39.130 0.00 0.00 0.00 3.86
1880 5497 7.372260 AGCTATAATCCTCATCAAAGTCTGT 57.628 36.000 0.00 0.00 0.00 3.41
1896 5513 7.256296 GGGGCAAATTGTATGGAAAGCTATAAT 60.256 37.037 0.00 0.00 0.00 1.28
1913 5530 2.688477 TCAGGTTCAAAGGGGCAAATT 58.312 42.857 0.00 0.00 0.00 1.82
1988 5607 9.908152 AGTAGCACCATTTGTAAATAAAGAAAC 57.092 29.630 0.00 0.00 0.00 2.78
2081 5700 7.232330 CAGTGGGTATCATCTGAGATTCTAGAA 59.768 40.741 7.82 7.82 31.02 2.10
2144 5763 5.485353 AGATCTATCGGCCTTCCATATTTGA 59.515 40.000 0.00 0.00 0.00 2.69
2165 5784 9.995003 GATCCACTTTAATCACTTCATCTAGAT 57.005 33.333 0.00 0.00 0.00 1.98
2334 5953 3.665745 GACATTGGCAAAGGTCAACAT 57.334 42.857 22.73 0.00 44.57 2.71
2437 6056 5.163622 GGCAGCATTGACATTGTACATAACT 60.164 40.000 0.00 0.00 30.39 2.24
2468 6087 3.466836 TGGTAGACAAAGCACAGTTCAG 58.533 45.455 0.00 0.00 0.00 3.02
2541 6160 1.210478 TCCAGCTCTGCAAATCCCTAC 59.790 52.381 0.00 0.00 0.00 3.18
2591 6210 4.327982 ACTACCATGGTCGAATCATCTG 57.672 45.455 23.76 2.66 0.00 2.90
2826 6452 2.333926 TCAACCATTTCTAGCGTCACG 58.666 47.619 0.00 0.00 0.00 4.35
2868 6494 8.995027 AATACAAGCAGGATTGTGGATAATAA 57.005 30.769 12.73 0.00 43.14 1.40
2870 6496 7.560991 TGAAATACAAGCAGGATTGTGGATAAT 59.439 33.333 12.73 0.00 43.14 1.28
2871 6497 6.889177 TGAAATACAAGCAGGATTGTGGATAA 59.111 34.615 12.73 0.00 43.14 1.75
3306 6936 2.820197 TGCGTCTCTTCAGCTCTCTTAA 59.180 45.455 0.00 0.00 0.00 1.85
3380 7010 1.593196 TTCTTCGTTGAGCTGTTGGG 58.407 50.000 0.00 0.00 0.00 4.12
3392 7022 2.143925 CGCCCTCTTCTTTTTCTTCGT 58.856 47.619 0.00 0.00 0.00 3.85
3400 7030 3.581770 ACTTAGTTACCGCCCTCTTCTTT 59.418 43.478 0.00 0.00 0.00 2.52
3580 8822 1.887242 GAACAGCCACACGAGCACA 60.887 57.895 0.00 0.00 0.00 4.57
3583 8825 3.050275 GGGAACAGCCACACGAGC 61.050 66.667 0.00 0.00 38.95 5.03
3610 8852 1.810030 GGGATGCGAAGACCGTCAC 60.810 63.158 0.40 0.00 41.15 3.67
3614 8856 1.227089 CAGAGGGATGCGAAGACCG 60.227 63.158 0.00 0.00 42.21 4.79
3689 8931 2.229784 ACCCGTTTTCTAGTACTCCGTG 59.770 50.000 0.00 0.00 0.00 4.94
3691 8933 3.192212 AGAACCCGTTTTCTAGTACTCCG 59.808 47.826 0.00 0.00 33.89 4.63
3720 8962 3.442273 GGGTAACATTTCCGAATTCTGCA 59.558 43.478 3.52 0.00 39.74 4.41
3721 8963 3.442273 TGGGTAACATTTCCGAATTCTGC 59.558 43.478 3.52 0.00 39.74 4.26
3761 9003 8.303780 TGCACATCATTGGGATCTAATTAAAA 57.696 30.769 0.00 0.00 32.57 1.52
3793 9035 2.935201 GTCAGCAGATAAGTTCAGCCAG 59.065 50.000 0.00 0.00 37.57 4.85
3801 9043 2.672478 GCAGACACGTCAGCAGATAAGT 60.672 50.000 9.42 0.00 41.09 2.24
3819 9061 0.451628 CAACGCGAACACATCTGCAG 60.452 55.000 15.93 7.63 0.00 4.41
3825 9067 0.586319 CTGTTCCAACGCGAACACAT 59.414 50.000 15.93 0.00 45.49 3.21
3848 9090 1.956170 CCGGGATACATGTGCGCTC 60.956 63.158 9.73 5.51 39.74 5.03
3914 9156 3.809832 CGACAAATTGGTCACAACTCTCT 59.190 43.478 13.42 0.00 39.87 3.10
4020 9268 3.416156 GATAAGGTGGCTGGATCATTCC 58.584 50.000 0.00 0.00 42.94 3.01
4029 9277 3.193479 GGAACTTTTGGATAAGGTGGCTG 59.807 47.826 0.00 0.00 0.00 4.85
4076 9324 5.181433 GGTCCAAGAAATACAGGAGACAAAC 59.819 44.000 0.00 0.00 0.00 2.93
4114 9362 1.187087 GACCGGGAGATTGAGACAGT 58.813 55.000 6.32 0.00 0.00 3.55
4153 11445 2.037511 ACTAGACGGAGGGAGTAGATCG 59.962 54.545 0.00 0.00 0.00 3.69
4237 11529 4.119862 CCATTATCGTTGAACGGATCAGT 58.880 43.478 18.32 0.00 42.81 3.41
4243 11535 2.675844 TGAAGCCATTATCGTTGAACGG 59.324 45.455 18.32 1.35 42.81 4.44
4248 11540 5.868801 ACCAAAAATGAAGCCATTATCGTTG 59.131 36.000 0.00 0.00 41.84 4.10
4292 11584 3.313249 TCCATCGCTGATATGCAGTTTTG 59.687 43.478 0.00 0.00 46.62 2.44
4296 11588 1.607509 GCTCCATCGCTGATATGCAGT 60.608 52.381 0.00 0.00 46.62 4.40
4345 11637 2.552315 GCCACCGAAGAAAAGAATGACA 59.448 45.455 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.