Multiple sequence alignment - TraesCS3B01G075400

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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 TraesCS3B01G075400 chr3B 100.000 2462 0 0 1 2462 46366946 46364485 0.000000e+00 4547.0
1 TraesCS3B01G075400 chr3B 94.938 1699 71 5 775 2462 47121115 47122809 0.000000e+00 2647.0
2 TraesCS3B01G075400 chr3B 100.000 1230 0 0 2736 3965 46364211 46362982 0.000000e+00 2272.0
3 TraesCS3B01G075400 chr3B 96.965 1252 14 4 2736 3965 47122865 47124114 0.000000e+00 2080.0
4 TraesCS3B01G075400 chr3B 78.343 845 159 13 1308 2134 47202136 47202974 3.510000e-145 525.0
5 TraesCS3B01G075400 chr3B 76.273 982 175 33 1316 2257 47193033 47193996 1.670000e-128 470.0
6 TraesCS3B01G075400 chr3B 89.571 326 24 7 1 317 47120166 47120490 4.770000e-109 405.0
7 TraesCS3B01G075400 chr3B 84.321 287 41 2 434 719 41426467 41426184 1.090000e-70 278.0
8 TraesCS3B01G075400 chr3B 90.826 109 10 0 312 420 47120688 47120796 3.190000e-31 147.0
9 TraesCS3B01G075400 chr3B 80.488 205 24 7 2868 3057 47195533 47195736 4.130000e-30 143.0
10 TraesCS3B01G075400 chr3B 77.483 151 31 2 2868 3016 46307800 46307949 1.960000e-13 87.9
11 TraesCS3B01G075400 chr3B 100.000 28 0 0 3277 3304 79132281 79132254 7.000000e-03 52.8
12 TraesCS3B01G075400 chr3A 93.112 1626 95 7 847 2462 37823990 37822372 0.000000e+00 2366.0
13 TraesCS3B01G075400 chr3A 89.507 467 16 10 2737 3180 37822323 37821867 9.620000e-156 560.0
14 TraesCS3B01G075400 chr3A 93.824 340 16 3 3178 3517 37821744 37821410 1.270000e-139 507.0
15 TraesCS3B01G075400 chr3A 93.878 196 10 2 3515 3708 37821329 37821134 1.080000e-75 294.0
16 TraesCS3B01G075400 chr3A 89.671 213 18 2 102 314 37824467 37824259 6.530000e-68 268.0
17 TraesCS3B01G075400 chr3A 98.462 130 1 1 3705 3834 37821042 37820914 1.110000e-55 228.0
18 TraesCS3B01G075400 chr3A 89.583 96 4 5 3875 3965 37820919 37820825 2.500000e-22 117.0
19 TraesCS3B01G075400 chr3D 89.246 1525 126 13 847 2344 27948418 27949931 0.000000e+00 1873.0
20 TraesCS3B01G075400 chr3D 89.984 1268 41 28 2736 3965 27950064 27951283 0.000000e+00 1559.0
21 TraesCS3B01G075400 chr3D 75.841 832 156 23 1451 2250 27681531 27680713 8.040000e-102 381.0
22 TraesCS3B01G075400 chr3D 88.426 216 21 2 99 314 27948031 27948242 1.410000e-64 257.0
23 TraesCS3B01G075400 chr3D 94.382 89 2 2 2377 2462 27949926 27950014 2.490000e-27 134.0
24 TraesCS3B01G075400 chr3D 75.221 226 42 10 2868 3089 4924771 4924556 1.170000e-15 95.3
25 TraesCS3B01G075400 chr3D 94.643 56 3 0 2271 2326 112712704 112712759 1.960000e-13 87.9
26 TraesCS3B01G075400 chr4B 85.467 289 35 5 434 720 532721900 532721617 1.080000e-75 294.0
27 TraesCS3B01G075400 chr2B 84.775 289 38 4 434 720 21207824 21207540 6.490000e-73 285.0
28 TraesCS3B01G075400 chr7D 83.562 292 43 3 430 720 445784412 445784699 6.530000e-68 268.0
29 TraesCS3B01G075400 chr7D 88.889 72 6 2 2270 2339 443416090 443416019 1.960000e-13 87.9
30 TraesCS3B01G075400 chr7B 83.737 289 41 4 434 720 508662869 508662585 6.530000e-68 268.0
31 TraesCS3B01G075400 chr6D 83.681 288 43 2 434 720 382124278 382123994 6.530000e-68 268.0
32 TraesCS3B01G075400 chr4D 83.681 288 43 2 434 720 442392825 442392541 6.530000e-68 268.0
33 TraesCS3B01G075400 chr4D 90.909 66 3 2 2271 2334 218516255 218516191 7.060000e-13 86.1
34 TraesCS3B01G075400 chr4D 90.909 66 2 3 2263 2325 350506864 350506928 7.060000e-13 86.1
35 TraesCS3B01G075400 chr1D 83.681 288 43 3 434 720 493675549 493675833 6.530000e-68 268.0
36 TraesCS3B01G075400 chr1D 92.063 63 3 1 2271 2331 337065245 337065183 1.960000e-13 87.9
37 TraesCS3B01G075400 chr1A 83.681 288 43 2 434 720 27754267 27754551 6.530000e-68 268.0
38 TraesCS3B01G075400 chr5B 95.000 60 1 1 2271 2328 540361809 540361750 4.220000e-15 93.5


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 TraesCS3B01G075400 chr3B 46362982 46366946 3964 True 3409.50 4547 100.000000 1 3965 2 chr3B.!!$R3 3964
1 TraesCS3B01G075400 chr3B 47120166 47124114 3948 False 1319.75 2647 93.075000 1 3965 4 chr3B.!!$F3 3964
2 TraesCS3B01G075400 chr3B 47202136 47202974 838 False 525.00 525 78.343000 1308 2134 1 chr3B.!!$F2 826
3 TraesCS3B01G075400 chr3B 47193033 47195736 2703 False 306.50 470 78.380500 1316 3057 2 chr3B.!!$F4 1741
4 TraesCS3B01G075400 chr3A 37820825 37824467 3642 True 620.00 2366 92.576714 102 3965 7 chr3A.!!$R1 3863
5 TraesCS3B01G075400 chr3D 27948031 27951283 3252 False 955.75 1873 90.509500 99 3965 4 chr3D.!!$F2 3866
6 TraesCS3B01G075400 chr3D 27680713 27681531 818 True 381.00 381 75.841000 1451 2250 1 chr3D.!!$R2 799

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
443 708 0.106819 AACAGCATCAGGGCATCTCC 60.107 55.0 0.00 0.0 35.83 3.71 F
612 877 0.109597 GCAAGGAGCGTTGGTTCATG 60.110 55.0 5.24 0.0 0.00 3.07 F
720 985 1.176527 ACAACCATTGAAGATGCCCG 58.823 50.0 0.00 0.0 0.00 6.13 F
1616 2204 0.256752 TGGGGCAATCTCATCACAGG 59.743 55.0 0.00 0.0 0.00 4.00 F
1949 2565 0.179089 CCTCAGATTGTCAGAGGCGG 60.179 60.0 5.61 0.0 42.10 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1372 1954 0.036765 GTGATAGGGGTGCACACGAA 60.037 55.000 20.43 6.84 32.96 3.85 R
1512 2097 1.203518 AGGACCACCTTAAAGGGGCTA 60.204 52.381 0.00 0.00 45.36 3.93 R
1684 2272 4.958509 AGCATGTCATTCCTCATAGTCAG 58.041 43.478 0.00 0.00 0.00 3.51 R
2792 4625 1.261619 GCTGACAAACGTGACTTGAGG 59.738 52.381 5.50 0.00 0.00 3.86 R
3055 4926 1.819208 GCGGGTGCATGCTATGACA 60.819 57.895 20.33 0.00 42.15 3.58 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
32 33 9.814899 TGAAGTTTGATGTTGTGAATATTTTGT 57.185 25.926 0.00 0.00 0.00 2.83
37 38 7.282332 TGATGTTGTGAATATTTTGTGGACA 57.718 32.000 0.00 0.00 0.00 4.02
71 72 3.057734 CTCTGATAACCCGGTTATTCGC 58.942 50.000 21.40 11.22 38.62 4.70
75 76 3.387374 TGATAACCCGGTTATTCGCCTTA 59.613 43.478 21.40 0.00 38.62 2.69
78 79 0.872388 CCCGGTTATTCGCCTTATGC 59.128 55.000 0.00 0.00 0.00 3.14
123 131 5.720202 TGGTAGCACTAGTTTGATGTACAG 58.280 41.667 0.33 0.00 0.00 2.74
180 188 2.367567 TCTTACAGGAGTCGTGGCTTTT 59.632 45.455 16.69 0.00 0.00 2.27
267 277 5.064452 CAGAATGCTTGGCTTAACTAGACAG 59.936 44.000 0.00 0.00 44.57 3.51
274 284 3.124560 GGCTTAACTAGACAGCGGATTC 58.875 50.000 0.00 0.00 34.09 2.52
318 531 9.651913 GGTCTAATTTTATCTTTTGAAATGGCA 57.348 29.630 0.00 0.00 0.00 4.92
322 535 4.511617 TTATCTTTTGAAATGGCACGCA 57.488 36.364 0.00 0.00 0.00 5.24
326 539 1.850377 TTTGAAATGGCACGCAACTG 58.150 45.000 0.00 0.00 0.00 3.16
357 570 1.657751 GGCCGACCAGATTCAAAGGC 61.658 60.000 0.00 0.00 42.10 4.35
388 653 4.557296 GCTGCATTTTTAACAGACTGAGCA 60.557 41.667 10.08 5.23 33.10 4.26
420 685 5.858581 CCAGCAAAAAGTGTAAATACTGAGC 59.141 40.000 0.00 0.00 0.00 4.26
421 686 5.858581 CAGCAAAAAGTGTAAATACTGAGCC 59.141 40.000 0.00 0.00 0.00 4.70
422 687 5.048013 AGCAAAAAGTGTAAATACTGAGCCC 60.048 40.000 0.00 0.00 0.00 5.19
423 688 5.278758 GCAAAAAGTGTAAATACTGAGCCCA 60.279 40.000 0.00 0.00 0.00 5.36
424 689 6.737346 GCAAAAAGTGTAAATACTGAGCCCAA 60.737 38.462 0.00 0.00 0.00 4.12
425 690 6.969993 AAAAGTGTAAATACTGAGCCCAAA 57.030 33.333 0.00 0.00 0.00 3.28
426 691 5.959618 AAGTGTAAATACTGAGCCCAAAC 57.040 39.130 0.00 0.00 0.00 2.93
427 692 4.980573 AGTGTAAATACTGAGCCCAAACA 58.019 39.130 0.00 0.00 0.00 2.83
428 693 5.003804 AGTGTAAATACTGAGCCCAAACAG 58.996 41.667 0.00 0.00 39.65 3.16
429 694 3.756434 TGTAAATACTGAGCCCAAACAGC 59.244 43.478 0.00 0.00 37.61 4.40
430 695 2.584835 AATACTGAGCCCAAACAGCA 57.415 45.000 0.00 0.00 37.61 4.41
431 696 2.814805 ATACTGAGCCCAAACAGCAT 57.185 45.000 0.00 0.00 37.61 3.79
432 697 2.113860 TACTGAGCCCAAACAGCATC 57.886 50.000 0.00 0.00 37.61 3.91
433 698 0.111061 ACTGAGCCCAAACAGCATCA 59.889 50.000 0.00 0.00 37.61 3.07
434 699 0.809385 CTGAGCCCAAACAGCATCAG 59.191 55.000 0.00 0.00 32.88 2.90
435 700 0.609957 TGAGCCCAAACAGCATCAGG 60.610 55.000 0.00 0.00 0.00 3.86
436 701 1.304713 AGCCCAAACAGCATCAGGG 60.305 57.895 0.00 0.00 42.55 4.45
437 702 3.291611 CCCAAACAGCATCAGGGC 58.708 61.111 0.00 0.00 31.81 5.19
438 703 1.607178 CCCAAACAGCATCAGGGCA 60.607 57.895 0.00 0.00 35.83 5.36
439 704 0.974010 CCCAAACAGCATCAGGGCAT 60.974 55.000 0.00 0.00 35.83 4.40
440 705 0.458669 CCAAACAGCATCAGGGCATC 59.541 55.000 0.00 0.00 35.83 3.91
441 706 1.471119 CAAACAGCATCAGGGCATCT 58.529 50.000 0.00 0.00 35.83 2.90
442 707 1.404391 CAAACAGCATCAGGGCATCTC 59.596 52.381 0.00 0.00 35.83 2.75
443 708 0.106819 AACAGCATCAGGGCATCTCC 60.107 55.000 0.00 0.00 35.83 3.71
444 709 1.276859 ACAGCATCAGGGCATCTCCA 61.277 55.000 0.00 0.00 36.21 3.86
445 710 0.535328 CAGCATCAGGGCATCTCCAG 60.535 60.000 0.00 0.00 36.21 3.86
446 711 1.897615 GCATCAGGGCATCTCCAGC 60.898 63.158 0.00 0.00 36.21 4.85
447 712 1.530283 CATCAGGGCATCTCCAGCA 59.470 57.895 0.00 0.00 36.21 4.41
448 713 0.535328 CATCAGGGCATCTCCAGCAG 60.535 60.000 0.00 0.00 36.21 4.24
449 714 0.987081 ATCAGGGCATCTCCAGCAGT 60.987 55.000 0.00 0.00 36.21 4.40
450 715 1.203441 TCAGGGCATCTCCAGCAGTT 61.203 55.000 0.00 0.00 36.21 3.16
451 716 0.323178 CAGGGCATCTCCAGCAGTTT 60.323 55.000 0.00 0.00 36.21 2.66
452 717 0.323178 AGGGCATCTCCAGCAGTTTG 60.323 55.000 0.00 0.00 36.21 2.93
453 718 0.610232 GGGCATCTCCAGCAGTTTGT 60.610 55.000 0.00 0.00 36.21 2.83
454 719 1.251251 GGCATCTCCAGCAGTTTGTT 58.749 50.000 0.00 0.00 34.01 2.83
455 720 1.615392 GGCATCTCCAGCAGTTTGTTT 59.385 47.619 0.00 0.00 34.01 2.83
456 721 2.608752 GGCATCTCCAGCAGTTTGTTTG 60.609 50.000 0.00 0.00 34.01 2.93
457 722 2.035066 GCATCTCCAGCAGTTTGTTTGT 59.965 45.455 0.00 0.00 0.00 2.83
458 723 3.491447 GCATCTCCAGCAGTTTGTTTGTT 60.491 43.478 0.00 0.00 0.00 2.83
459 724 4.261572 GCATCTCCAGCAGTTTGTTTGTTA 60.262 41.667 0.00 0.00 0.00 2.41
460 725 5.455392 CATCTCCAGCAGTTTGTTTGTTAG 58.545 41.667 0.00 0.00 0.00 2.34
461 726 3.315191 TCTCCAGCAGTTTGTTTGTTAGC 59.685 43.478 0.00 0.00 0.00 3.09
462 727 3.287222 TCCAGCAGTTTGTTTGTTAGCT 58.713 40.909 0.00 0.00 0.00 3.32
463 728 3.699038 TCCAGCAGTTTGTTTGTTAGCTT 59.301 39.130 0.00 0.00 0.00 3.74
464 729 3.798337 CCAGCAGTTTGTTTGTTAGCTTG 59.202 43.478 0.00 0.00 0.00 4.01
465 730 4.423732 CAGCAGTTTGTTTGTTAGCTTGT 58.576 39.130 0.00 0.00 0.00 3.16
466 731 4.864247 CAGCAGTTTGTTTGTTAGCTTGTT 59.136 37.500 0.00 0.00 0.00 2.83
467 732 6.033341 CAGCAGTTTGTTTGTTAGCTTGTTA 58.967 36.000 0.00 0.00 0.00 2.41
468 733 6.197096 CAGCAGTTTGTTTGTTAGCTTGTTAG 59.803 38.462 0.00 0.00 0.00 2.34
469 734 6.033966 GCAGTTTGTTTGTTAGCTTGTTAGT 58.966 36.000 0.00 0.00 0.00 2.24
470 735 7.066525 AGCAGTTTGTTTGTTAGCTTGTTAGTA 59.933 33.333 0.00 0.00 0.00 1.82
471 736 7.698970 GCAGTTTGTTTGTTAGCTTGTTAGTAA 59.301 33.333 0.00 0.00 0.00 2.24
472 737 9.562583 CAGTTTGTTTGTTAGCTTGTTAGTAAA 57.437 29.630 0.00 0.00 0.00 2.01
495 760 8.969260 AAAATATATCTTGTGATCAGCTGACA 57.031 30.769 20.97 16.09 34.32 3.58
496 761 7.959689 AATATATCTTGTGATCAGCTGACAC 57.040 36.000 28.04 28.04 34.32 3.67
497 762 2.462456 TCTTGTGATCAGCTGACACC 57.538 50.000 29.85 19.82 34.18 4.16
498 763 1.973515 TCTTGTGATCAGCTGACACCT 59.026 47.619 29.85 14.93 34.18 4.00
499 764 2.369860 TCTTGTGATCAGCTGACACCTT 59.630 45.455 29.85 14.61 34.18 3.50
500 765 3.578282 TCTTGTGATCAGCTGACACCTTA 59.422 43.478 29.85 20.35 34.18 2.69
501 766 4.040339 TCTTGTGATCAGCTGACACCTTAA 59.960 41.667 29.85 21.81 34.18 1.85
502 767 3.664107 TGTGATCAGCTGACACCTTAAC 58.336 45.455 29.85 16.73 34.18 2.01
503 768 3.070878 TGTGATCAGCTGACACCTTAACA 59.929 43.478 29.85 18.59 34.18 2.41
504 769 4.256920 GTGATCAGCTGACACCTTAACAT 58.743 43.478 26.09 8.16 0.00 2.71
505 770 5.046663 TGTGATCAGCTGACACCTTAACATA 60.047 40.000 29.85 16.19 34.18 2.29
506 771 6.051717 GTGATCAGCTGACACCTTAACATAT 58.948 40.000 26.09 7.54 0.00 1.78
507 772 7.147742 TGTGATCAGCTGACACCTTAACATATA 60.148 37.037 29.85 15.23 34.18 0.86
508 773 7.875041 GTGATCAGCTGACACCTTAACATATAT 59.125 37.037 26.09 6.60 0.00 0.86
509 774 8.090831 TGATCAGCTGACACCTTAACATATATC 58.909 37.037 20.97 7.21 0.00 1.63
510 775 7.603180 TCAGCTGACACCTTAACATATATCT 57.397 36.000 13.74 0.00 0.00 1.98
511 776 7.661968 TCAGCTGACACCTTAACATATATCTC 58.338 38.462 13.74 0.00 0.00 2.75
512 777 6.584184 CAGCTGACACCTTAACATATATCTCG 59.416 42.308 8.42 0.00 0.00 4.04
513 778 6.265649 AGCTGACACCTTAACATATATCTCGT 59.734 38.462 0.00 0.00 0.00 4.18
514 779 6.583050 GCTGACACCTTAACATATATCTCGTC 59.417 42.308 0.00 0.00 0.00 4.20
515 780 6.978338 TGACACCTTAACATATATCTCGTCC 58.022 40.000 0.00 0.00 0.00 4.79
516 781 6.548251 TGACACCTTAACATATATCTCGTCCA 59.452 38.462 0.00 0.00 0.00 4.02
517 782 7.068962 TGACACCTTAACATATATCTCGTCCAA 59.931 37.037 0.00 0.00 0.00 3.53
518 783 7.963532 ACACCTTAACATATATCTCGTCCAAT 58.036 34.615 0.00 0.00 0.00 3.16
519 784 9.085645 ACACCTTAACATATATCTCGTCCAATA 57.914 33.333 0.00 0.00 0.00 1.90
520 785 9.574458 CACCTTAACATATATCTCGTCCAATAG 57.426 37.037 0.00 0.00 0.00 1.73
521 786 9.529823 ACCTTAACATATATCTCGTCCAATAGA 57.470 33.333 0.00 0.00 0.00 1.98
567 832 8.854614 AGGATGTGAGATAATAAATAAGGTGC 57.145 34.615 0.00 0.00 0.00 5.01
568 833 8.664079 AGGATGTGAGATAATAAATAAGGTGCT 58.336 33.333 0.00 0.00 0.00 4.40
569 834 8.940952 GGATGTGAGATAATAAATAAGGTGCTC 58.059 37.037 0.00 0.00 0.00 4.26
570 835 9.717942 GATGTGAGATAATAAATAAGGTGCTCT 57.282 33.333 0.00 0.00 0.00 4.09
571 836 9.717942 ATGTGAGATAATAAATAAGGTGCTCTC 57.282 33.333 0.00 0.00 0.00 3.20
572 837 8.928448 TGTGAGATAATAAATAAGGTGCTCTCT 58.072 33.333 0.00 0.00 0.00 3.10
573 838 9.418045 GTGAGATAATAAATAAGGTGCTCTCTC 57.582 37.037 0.00 0.00 0.00 3.20
574 839 9.147732 TGAGATAATAAATAAGGTGCTCTCTCA 57.852 33.333 0.00 0.00 33.74 3.27
580 845 9.771534 AATAAATAAGGTGCTCTCTCATTCTAC 57.228 33.333 0.00 0.00 0.00 2.59
581 846 6.798427 AATAAGGTGCTCTCTCATTCTACA 57.202 37.500 0.00 0.00 0.00 2.74
582 847 6.992664 ATAAGGTGCTCTCTCATTCTACAT 57.007 37.500 0.00 0.00 0.00 2.29
583 848 8.484214 AATAAGGTGCTCTCTCATTCTACATA 57.516 34.615 0.00 0.00 0.00 2.29
584 849 6.403866 AAGGTGCTCTCTCATTCTACATAG 57.596 41.667 0.00 0.00 0.00 2.23
585 850 5.700183 AGGTGCTCTCTCATTCTACATAGA 58.300 41.667 0.00 0.00 0.00 1.98
586 851 6.132658 AGGTGCTCTCTCATTCTACATAGAA 58.867 40.000 3.88 3.88 45.43 2.10
587 852 6.265196 AGGTGCTCTCTCATTCTACATAGAAG 59.735 42.308 7.39 1.12 44.67 2.85
588 853 5.920273 GTGCTCTCTCATTCTACATAGAAGC 59.080 44.000 7.39 4.11 44.67 3.86
589 854 5.832595 TGCTCTCTCATTCTACATAGAAGCT 59.167 40.000 7.39 0.00 44.67 3.74
590 855 6.323482 TGCTCTCTCATTCTACATAGAAGCTT 59.677 38.462 0.00 0.00 44.67 3.74
591 856 6.642131 GCTCTCTCATTCTACATAGAAGCTTG 59.358 42.308 2.10 0.00 44.67 4.01
592 857 7.652524 TCTCTCATTCTACATAGAAGCTTGT 57.347 36.000 2.10 1.06 44.67 3.16
593 858 7.487484 TCTCTCATTCTACATAGAAGCTTGTG 58.513 38.462 2.10 2.35 44.67 3.33
594 859 6.045318 TCTCATTCTACATAGAAGCTTGTGC 58.955 40.000 2.10 0.00 44.67 4.57
595 860 5.733676 TCATTCTACATAGAAGCTTGTGCA 58.266 37.500 2.10 0.00 44.67 4.57
596 861 6.172630 TCATTCTACATAGAAGCTTGTGCAA 58.827 36.000 2.10 0.00 44.67 4.08
597 862 6.314648 TCATTCTACATAGAAGCTTGTGCAAG 59.685 38.462 2.10 7.51 44.67 4.01
598 863 4.507710 TCTACATAGAAGCTTGTGCAAGG 58.492 43.478 2.10 0.00 42.74 3.61
599 864 3.423539 ACATAGAAGCTTGTGCAAGGA 57.576 42.857 2.10 0.00 42.74 3.36
600 865 3.341823 ACATAGAAGCTTGTGCAAGGAG 58.658 45.455 2.10 0.00 42.74 3.69
601 866 1.813513 TAGAAGCTTGTGCAAGGAGC 58.186 50.000 2.10 8.68 42.74 4.70
610 875 3.744559 GCAAGGAGCGTTGGTTCA 58.255 55.556 5.24 0.00 0.00 3.18
611 876 2.257353 GCAAGGAGCGTTGGTTCAT 58.743 52.632 5.24 0.00 0.00 2.57
612 877 0.109597 GCAAGGAGCGTTGGTTCATG 60.110 55.000 5.24 0.00 0.00 3.07
613 878 1.238439 CAAGGAGCGTTGGTTCATGT 58.762 50.000 0.00 0.00 0.00 3.21
614 879 2.422597 CAAGGAGCGTTGGTTCATGTA 58.577 47.619 0.00 0.00 0.00 2.29
615 880 2.094762 AGGAGCGTTGGTTCATGTAC 57.905 50.000 0.00 0.00 0.00 2.90
616 881 1.346395 AGGAGCGTTGGTTCATGTACA 59.654 47.619 0.00 0.00 0.00 2.90
617 882 2.027192 AGGAGCGTTGGTTCATGTACAT 60.027 45.455 1.41 1.41 0.00 2.29
618 883 3.196901 AGGAGCGTTGGTTCATGTACATA 59.803 43.478 8.32 0.00 0.00 2.29
619 884 3.555956 GGAGCGTTGGTTCATGTACATAG 59.444 47.826 8.32 3.61 0.00 2.23
620 885 4.181578 GAGCGTTGGTTCATGTACATAGT 58.818 43.478 8.32 0.00 0.00 2.12
621 886 5.333299 AGCGTTGGTTCATGTACATAGTA 57.667 39.130 8.32 0.00 0.00 1.82
622 887 5.107133 AGCGTTGGTTCATGTACATAGTAC 58.893 41.667 8.32 6.81 0.00 2.73
623 888 4.865925 GCGTTGGTTCATGTACATAGTACA 59.134 41.667 8.32 11.88 0.00 2.90
624 889 5.349270 GCGTTGGTTCATGTACATAGTACAA 59.651 40.000 8.32 9.20 0.00 2.41
625 890 6.036735 GCGTTGGTTCATGTACATAGTACAAT 59.963 38.462 8.32 1.44 0.00 2.71
626 891 7.618442 CGTTGGTTCATGTACATAGTACAATC 58.382 38.462 8.32 6.55 0.00 2.67
627 892 7.491372 CGTTGGTTCATGTACATAGTACAATCT 59.509 37.037 8.32 0.00 0.00 2.40
628 893 9.162764 GTTGGTTCATGTACATAGTACAATCTT 57.837 33.333 8.32 0.00 0.00 2.40
654 919 8.827177 ATTCTAGTTTCTCGTTTATTGTGTGA 57.173 30.769 0.00 0.00 0.00 3.58
655 920 7.633361 TCTAGTTTCTCGTTTATTGTGTGAC 57.367 36.000 0.00 0.00 0.00 3.67
656 921 7.204604 TCTAGTTTCTCGTTTATTGTGTGACA 58.795 34.615 0.00 0.00 0.00 3.58
657 922 6.287107 AGTTTCTCGTTTATTGTGTGACAG 57.713 37.500 0.00 0.00 0.00 3.51
658 923 6.046593 AGTTTCTCGTTTATTGTGTGACAGA 58.953 36.000 0.00 0.00 0.00 3.41
659 924 6.706270 AGTTTCTCGTTTATTGTGTGACAGAT 59.294 34.615 0.00 0.00 0.00 2.90
660 925 6.706055 TTCTCGTTTATTGTGTGACAGATC 57.294 37.500 0.00 0.00 0.00 2.75
661 926 5.778862 TCTCGTTTATTGTGTGACAGATCA 58.221 37.500 0.00 0.00 0.00 2.92
662 927 6.398095 TCTCGTTTATTGTGTGACAGATCAT 58.602 36.000 0.00 0.00 37.14 2.45
663 928 6.531594 TCTCGTTTATTGTGTGACAGATCATC 59.468 38.462 0.00 0.00 37.14 2.92
664 929 6.162777 TCGTTTATTGTGTGACAGATCATCA 58.837 36.000 0.00 0.00 37.14 3.07
665 930 6.648725 TCGTTTATTGTGTGACAGATCATCAA 59.351 34.615 0.00 0.00 37.14 2.57
666 931 7.172361 TCGTTTATTGTGTGACAGATCATCAAA 59.828 33.333 0.00 0.00 37.14 2.69
667 932 7.802720 CGTTTATTGTGTGACAGATCATCAAAA 59.197 33.333 0.00 0.00 37.14 2.44
668 933 9.462174 GTTTATTGTGTGACAGATCATCAAAAA 57.538 29.630 0.00 0.00 37.14 1.94
671 936 8.752766 ATTGTGTGACAGATCATCAAAAATTC 57.247 30.769 0.00 0.00 37.14 2.17
672 937 6.680810 TGTGTGACAGATCATCAAAAATTCC 58.319 36.000 0.00 0.00 37.14 3.01
673 938 6.264970 TGTGTGACAGATCATCAAAAATTCCA 59.735 34.615 0.00 0.00 37.14 3.53
674 939 7.039574 TGTGTGACAGATCATCAAAAATTCCAT 60.040 33.333 0.00 0.00 37.14 3.41
675 940 7.274904 GTGTGACAGATCATCAAAAATTCCATG 59.725 37.037 0.00 0.00 37.14 3.66
676 941 7.039574 TGTGACAGATCATCAAAAATTCCATGT 60.040 33.333 0.00 0.00 37.14 3.21
677 942 7.274904 GTGACAGATCATCAAAAATTCCATGTG 59.725 37.037 0.00 0.00 37.14 3.21
678 943 7.177041 TGACAGATCATCAAAAATTCCATGTGA 59.823 33.333 0.00 0.00 0.00 3.58
679 944 7.318141 ACAGATCATCAAAAATTCCATGTGAC 58.682 34.615 0.00 0.00 0.00 3.67
680 945 7.039574 ACAGATCATCAAAAATTCCATGTGACA 60.040 33.333 0.00 0.00 0.00 3.58
681 946 7.815549 CAGATCATCAAAAATTCCATGTGACAA 59.184 33.333 0.00 0.00 0.00 3.18
682 947 8.369424 AGATCATCAAAAATTCCATGTGACAAA 58.631 29.630 0.00 0.00 0.00 2.83
683 948 7.949903 TCATCAAAAATTCCATGTGACAAAG 57.050 32.000 0.00 0.00 0.00 2.77
684 949 7.724287 TCATCAAAAATTCCATGTGACAAAGA 58.276 30.769 0.00 0.00 0.00 2.52
685 950 7.652909 TCATCAAAAATTCCATGTGACAAAGAC 59.347 33.333 0.00 0.00 0.00 3.01
686 951 7.111247 TCAAAAATTCCATGTGACAAAGACT 57.889 32.000 0.00 0.00 0.00 3.24
687 952 8.231692 TCAAAAATTCCATGTGACAAAGACTA 57.768 30.769 0.00 0.00 0.00 2.59
688 953 8.859090 TCAAAAATTCCATGTGACAAAGACTAT 58.141 29.630 0.00 0.00 0.00 2.12
689 954 9.132521 CAAAAATTCCATGTGACAAAGACTATC 57.867 33.333 0.00 0.00 0.00 2.08
690 955 8.408043 AAAATTCCATGTGACAAAGACTATCA 57.592 30.769 0.00 0.00 0.00 2.15
691 956 8.408043 AAATTCCATGTGACAAAGACTATCAA 57.592 30.769 0.00 0.00 0.00 2.57
692 957 8.408043 AATTCCATGTGACAAAGACTATCAAA 57.592 30.769 0.00 0.00 0.00 2.69
693 958 7.815840 TTCCATGTGACAAAGACTATCAAAA 57.184 32.000 0.00 0.00 0.00 2.44
694 959 7.202016 TCCATGTGACAAAGACTATCAAAAC 57.798 36.000 0.00 0.00 0.00 2.43
695 960 6.998074 TCCATGTGACAAAGACTATCAAAACT 59.002 34.615 0.00 0.00 0.00 2.66
696 961 8.154203 TCCATGTGACAAAGACTATCAAAACTA 58.846 33.333 0.00 0.00 0.00 2.24
697 962 8.950210 CCATGTGACAAAGACTATCAAAACTAT 58.050 33.333 0.00 0.00 0.00 2.12
719 984 4.799564 TTTACAACCATTGAAGATGCCC 57.200 40.909 0.00 0.00 0.00 5.36
720 985 1.176527 ACAACCATTGAAGATGCCCG 58.823 50.000 0.00 0.00 0.00 6.13
771 1056 2.266055 GACGGGGTGGAGCTCAAG 59.734 66.667 17.19 2.10 0.00 3.02
868 1420 3.991121 CCACGTTTGTTTTGTTTCCTTGT 59.009 39.130 0.00 0.00 0.00 3.16
941 1493 2.772287 GATCGGGCCTAAGAAATCCAG 58.228 52.381 0.84 0.00 0.00 3.86
956 1508 2.300956 TCCAGCATTGCTTTTACCCA 57.699 45.000 8.83 0.00 36.40 4.51
960 1512 2.297033 CAGCATTGCTTTTACCCACAGT 59.703 45.455 8.83 0.00 36.40 3.55
1095 1647 2.280524 CCGCCACAACCGTCTTCA 60.281 61.111 0.00 0.00 0.00 3.02
1182 1734 1.287815 CTTCTACGCACACCACCGA 59.712 57.895 0.00 0.00 0.00 4.69
1188 1740 2.473760 CGCACACCACCGAAAACCA 61.474 57.895 0.00 0.00 0.00 3.67
1225 1777 2.668250 TCGAGTACCAACGTGACAATG 58.332 47.619 0.00 0.00 0.00 2.82
1284 1836 2.482721 CCCTCGTGAGCGTTTTAACATT 59.517 45.455 0.00 0.00 39.49 2.71
1288 1840 3.185594 TCGTGAGCGTTTTAACATTGGAG 59.814 43.478 0.00 0.00 39.49 3.86
1291 1843 2.227865 GAGCGTTTTAACATTGGAGGCA 59.772 45.455 0.00 0.00 0.00 4.75
1296 1878 4.568956 GTTTTAACATTGGAGGCAGCATT 58.431 39.130 0.00 0.00 0.00 3.56
1372 1954 1.740664 CATGTGCGCACAGAGCTCT 60.741 57.895 41.77 25.53 45.48 4.09
1512 2097 4.363990 CACGGCGGCTGTCACTCT 62.364 66.667 12.39 0.00 0.00 3.24
1531 2116 1.212195 CTAGCCCCTTTAAGGTGGTCC 59.788 57.143 10.40 0.21 31.93 4.46
1588 2176 1.678627 CATGTGTCTACTCCTCGGAGG 59.321 57.143 18.25 18.25 45.88 4.30
1612 2200 3.120796 GCATGGGGCAATCTCATCA 57.879 52.632 0.00 0.00 43.97 3.07
1615 2203 1.954382 CATGGGGCAATCTCATCACAG 59.046 52.381 0.00 0.00 0.00 3.66
1616 2204 0.256752 TGGGGCAATCTCATCACAGG 59.743 55.000 0.00 0.00 0.00 4.00
1684 2272 6.633500 TTATTGGTAATGCATTCTACTGGC 57.367 37.500 16.86 0.00 0.00 4.85
1755 2356 2.410322 CTGTGCTTAGTGGGCCACCA 62.410 60.000 32.30 18.04 46.94 4.17
1949 2565 0.179089 CCTCAGATTGTCAGAGGCGG 60.179 60.000 5.61 0.00 42.10 6.13
2252 2891 3.707102 GTCCCTTTGCTAGGTAGACAGAT 59.293 47.826 4.99 0.00 43.07 2.90
2942 4800 3.076621 ACGTTGTGGTACGACTATCTGA 58.923 45.455 9.54 0.00 43.99 3.27
2946 4804 5.229469 CGTTGTGGTACGACTATCTGATTTC 59.771 44.000 9.54 0.00 43.99 2.17
3055 4926 4.471078 TCCAGATGCCTACATAGGTAGT 57.529 45.455 13.17 0.00 44.54 2.73
3477 5491 2.548480 ACTTAAAAACTCGTCTGCCAGC 59.452 45.455 0.00 0.00 0.00 4.85
3851 6045 3.244078 ACAAAGACTCTACACGGCAATCA 60.244 43.478 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 8.487176 GTCCACAAAATATTCACAACATCAAAC 58.513 33.333 0.00 0.00 0.00 2.93
12 13 7.720442 TGTCCACAAAATATTCACAACATCAA 58.280 30.769 0.00 0.00 0.00 2.57
71 72 1.258982 GACGCTCACAATCGCATAAGG 59.741 52.381 0.00 0.00 0.00 2.69
75 76 0.108662 TCAGACGCTCACAATCGCAT 60.109 50.000 0.00 0.00 0.00 4.73
78 79 5.193216 CAATTAATCAGACGCTCACAATCG 58.807 41.667 0.00 0.00 0.00 3.34
123 131 0.521735 GTGACACCCCGCAGAAAATC 59.478 55.000 0.00 0.00 0.00 2.17
133 141 2.488153 GTGCAAGATAAAGTGACACCCC 59.512 50.000 0.84 0.00 0.00 4.95
135 143 4.537015 GTTGTGCAAGATAAAGTGACACC 58.463 43.478 0.84 0.00 0.00 4.16
180 188 1.280133 CCAGTGCCAGGAGAAATGAGA 59.720 52.381 0.00 0.00 0.00 3.27
267 277 2.365582 ACAATTACAGTGGGAATCCGC 58.634 47.619 0.00 0.00 43.69 5.54
274 284 4.398319 AGACCAGAAACAATTACAGTGGG 58.602 43.478 0.00 0.00 0.00 4.61
310 320 0.388907 ATGCAGTTGCGTGCCATTTC 60.389 50.000 0.00 0.00 45.83 2.17
318 531 2.283298 CTGAAGGATATGCAGTTGCGT 58.717 47.619 4.06 4.06 45.83 5.24
322 535 1.475751 CGGCCTGAAGGATATGCAGTT 60.476 52.381 0.00 0.00 37.39 3.16
326 539 0.603975 GGTCGGCCTGAAGGATATGC 60.604 60.000 0.00 0.00 37.39 3.14
366 579 4.913924 GTGCTCAGTCTGTTAAAAATGCAG 59.086 41.667 0.00 0.00 0.00 4.41
375 588 2.558795 GGAGTCTGTGCTCAGTCTGTTA 59.441 50.000 18.06 0.00 39.40 2.41
380 645 0.246086 CTGGGAGTCTGTGCTCAGTC 59.754 60.000 15.01 9.98 41.91 3.51
388 653 2.301346 CACTTTTTGCTGGGAGTCTGT 58.699 47.619 0.00 0.00 0.00 3.41
420 685 0.974010 ATGCCCTGATGCTGTTTGGG 60.974 55.000 0.00 0.00 40.74 4.12
421 686 0.458669 GATGCCCTGATGCTGTTTGG 59.541 55.000 0.00 0.00 0.00 3.28
422 687 1.404391 GAGATGCCCTGATGCTGTTTG 59.596 52.381 0.00 0.00 0.00 2.93
423 688 1.684248 GGAGATGCCCTGATGCTGTTT 60.684 52.381 0.00 0.00 0.00 2.83
424 689 0.106819 GGAGATGCCCTGATGCTGTT 60.107 55.000 0.00 0.00 0.00 3.16
425 690 1.276859 TGGAGATGCCCTGATGCTGT 61.277 55.000 0.00 0.00 34.97 4.40
426 691 0.535328 CTGGAGATGCCCTGATGCTG 60.535 60.000 0.00 0.00 34.97 4.41
427 692 1.837789 CTGGAGATGCCCTGATGCT 59.162 57.895 0.00 0.00 34.97 3.79
428 693 1.897615 GCTGGAGATGCCCTGATGC 60.898 63.158 0.00 0.00 34.97 3.91
429 694 0.535328 CTGCTGGAGATGCCCTGATG 60.535 60.000 0.00 0.00 34.97 3.07
430 695 0.987081 ACTGCTGGAGATGCCCTGAT 60.987 55.000 2.24 0.00 34.97 2.90
431 696 1.203441 AACTGCTGGAGATGCCCTGA 61.203 55.000 2.24 0.00 34.97 3.86
432 697 0.323178 AAACTGCTGGAGATGCCCTG 60.323 55.000 2.24 0.00 34.97 4.45
433 698 0.323178 CAAACTGCTGGAGATGCCCT 60.323 55.000 2.24 0.00 34.97 5.19
434 699 0.610232 ACAAACTGCTGGAGATGCCC 60.610 55.000 2.24 0.00 34.97 5.36
435 700 1.251251 AACAAACTGCTGGAGATGCC 58.749 50.000 2.24 0.00 37.10 4.40
436 701 2.035066 ACAAACAAACTGCTGGAGATGC 59.965 45.455 2.24 0.00 0.00 3.91
437 702 3.996150 ACAAACAAACTGCTGGAGATG 57.004 42.857 2.24 4.29 0.00 2.90
438 703 4.022849 GCTAACAAACAAACTGCTGGAGAT 60.023 41.667 2.24 0.00 0.00 2.75
439 704 3.315191 GCTAACAAACAAACTGCTGGAGA 59.685 43.478 2.24 0.00 0.00 3.71
440 705 3.316308 AGCTAACAAACAAACTGCTGGAG 59.684 43.478 0.00 0.00 0.00 3.86
441 706 3.287222 AGCTAACAAACAAACTGCTGGA 58.713 40.909 0.00 0.00 0.00 3.86
442 707 3.715628 AGCTAACAAACAAACTGCTGG 57.284 42.857 0.00 0.00 0.00 4.85
443 708 4.423732 ACAAGCTAACAAACAAACTGCTG 58.576 39.130 0.00 0.00 0.00 4.41
444 709 4.718940 ACAAGCTAACAAACAAACTGCT 57.281 36.364 0.00 0.00 0.00 4.24
445 710 6.033966 ACTAACAAGCTAACAAACAAACTGC 58.966 36.000 0.00 0.00 0.00 4.40
446 711 9.562583 TTTACTAACAAGCTAACAAACAAACTG 57.437 29.630 0.00 0.00 0.00 3.16
470 735 8.834465 GTGTCAGCTGATCACAAGATATATTTT 58.166 33.333 28.98 0.00 33.72 1.82
471 736 7.443575 GGTGTCAGCTGATCACAAGATATATTT 59.556 37.037 31.85 0.00 33.72 1.40
472 737 6.933521 GGTGTCAGCTGATCACAAGATATATT 59.066 38.462 31.85 0.00 33.72 1.28
473 738 6.269538 AGGTGTCAGCTGATCACAAGATATAT 59.730 38.462 31.85 15.56 33.72 0.86
474 739 5.600069 AGGTGTCAGCTGATCACAAGATATA 59.400 40.000 31.85 5.54 33.72 0.86
475 740 4.408270 AGGTGTCAGCTGATCACAAGATAT 59.592 41.667 31.85 17.53 33.72 1.63
476 741 3.771479 AGGTGTCAGCTGATCACAAGATA 59.229 43.478 31.85 6.15 33.72 1.98
477 742 2.570752 AGGTGTCAGCTGATCACAAGAT 59.429 45.455 31.85 20.22 37.13 2.40
478 743 1.973515 AGGTGTCAGCTGATCACAAGA 59.026 47.619 31.85 7.46 34.27 3.02
479 744 2.469274 AGGTGTCAGCTGATCACAAG 57.531 50.000 31.85 4.79 34.27 3.16
480 745 2.936919 AAGGTGTCAGCTGATCACAA 57.063 45.000 31.85 13.72 34.27 3.33
481 746 3.070878 TGTTAAGGTGTCAGCTGATCACA 59.929 43.478 31.85 21.21 34.27 3.58
482 747 3.664107 TGTTAAGGTGTCAGCTGATCAC 58.336 45.455 27.39 27.39 0.00 3.06
483 748 4.558226 ATGTTAAGGTGTCAGCTGATCA 57.442 40.909 21.47 16.40 0.00 2.92
484 749 8.310382 AGATATATGTTAAGGTGTCAGCTGATC 58.690 37.037 21.47 15.64 0.00 2.92
485 750 8.200024 AGATATATGTTAAGGTGTCAGCTGAT 57.800 34.615 21.47 5.78 0.00 2.90
486 751 7.522236 CGAGATATATGTTAAGGTGTCAGCTGA 60.522 40.741 13.74 13.74 0.00 4.26
487 752 6.584184 CGAGATATATGTTAAGGTGTCAGCTG 59.416 42.308 7.63 7.63 0.00 4.24
488 753 6.265649 ACGAGATATATGTTAAGGTGTCAGCT 59.734 38.462 0.00 0.00 0.00 4.24
489 754 6.448006 ACGAGATATATGTTAAGGTGTCAGC 58.552 40.000 0.00 0.00 0.00 4.26
490 755 7.085116 GGACGAGATATATGTTAAGGTGTCAG 58.915 42.308 0.00 0.00 0.00 3.51
491 756 6.548251 TGGACGAGATATATGTTAAGGTGTCA 59.452 38.462 0.00 0.00 0.00 3.58
492 757 6.978338 TGGACGAGATATATGTTAAGGTGTC 58.022 40.000 0.00 0.00 0.00 3.67
493 758 6.971726 TGGACGAGATATATGTTAAGGTGT 57.028 37.500 0.00 0.00 0.00 4.16
494 759 9.574458 CTATTGGACGAGATATATGTTAAGGTG 57.426 37.037 0.00 0.00 0.00 4.00
495 760 9.529823 TCTATTGGACGAGATATATGTTAAGGT 57.470 33.333 0.00 0.00 0.00 3.50
541 806 9.944376 GCACCTTATTTATTATCTCACATCCTA 57.056 33.333 0.00 0.00 0.00 2.94
542 807 8.664079 AGCACCTTATTTATTATCTCACATCCT 58.336 33.333 0.00 0.00 0.00 3.24
543 808 8.854614 AGCACCTTATTTATTATCTCACATCC 57.145 34.615 0.00 0.00 0.00 3.51
544 809 9.717942 AGAGCACCTTATTTATTATCTCACATC 57.282 33.333 0.00 0.00 0.00 3.06
545 810 9.717942 GAGAGCACCTTATTTATTATCTCACAT 57.282 33.333 0.00 0.00 32.76 3.21
546 811 8.928448 AGAGAGCACCTTATTTATTATCTCACA 58.072 33.333 0.00 0.00 34.49 3.58
547 812 9.418045 GAGAGAGCACCTTATTTATTATCTCAC 57.582 37.037 0.00 0.00 34.49 3.51
548 813 9.147732 TGAGAGAGCACCTTATTTATTATCTCA 57.852 33.333 0.00 0.00 36.78 3.27
554 819 9.771534 GTAGAATGAGAGAGCACCTTATTTATT 57.228 33.333 0.00 0.00 0.00 1.40
555 820 8.928448 TGTAGAATGAGAGAGCACCTTATTTAT 58.072 33.333 0.00 0.00 0.00 1.40
556 821 8.306313 TGTAGAATGAGAGAGCACCTTATTTA 57.694 34.615 0.00 0.00 0.00 1.40
557 822 7.187824 TGTAGAATGAGAGAGCACCTTATTT 57.812 36.000 0.00 0.00 0.00 1.40
558 823 6.798427 TGTAGAATGAGAGAGCACCTTATT 57.202 37.500 0.00 0.00 0.00 1.40
559 824 6.992664 ATGTAGAATGAGAGAGCACCTTAT 57.007 37.500 0.00 0.00 0.00 1.73
560 825 7.290813 TCTATGTAGAATGAGAGAGCACCTTA 58.709 38.462 0.00 0.00 0.00 2.69
561 826 6.132658 TCTATGTAGAATGAGAGAGCACCTT 58.867 40.000 0.00 0.00 0.00 3.50
562 827 5.700183 TCTATGTAGAATGAGAGAGCACCT 58.300 41.667 0.00 0.00 0.00 4.00
563 828 6.398234 TTCTATGTAGAATGAGAGAGCACC 57.602 41.667 0.00 0.00 37.40 5.01
564 829 5.920273 GCTTCTATGTAGAATGAGAGAGCAC 59.080 44.000 3.15 0.00 41.12 4.40
565 830 5.832595 AGCTTCTATGTAGAATGAGAGAGCA 59.167 40.000 3.15 0.00 41.12 4.26
566 831 6.331369 AGCTTCTATGTAGAATGAGAGAGC 57.669 41.667 3.15 2.14 41.12 4.09
567 832 7.648908 CACAAGCTTCTATGTAGAATGAGAGAG 59.351 40.741 0.00 0.00 41.12 3.20
568 833 7.487484 CACAAGCTTCTATGTAGAATGAGAGA 58.513 38.462 0.00 0.00 41.12 3.10
569 834 6.200665 GCACAAGCTTCTATGTAGAATGAGAG 59.799 42.308 0.00 0.00 41.12 3.20
570 835 6.045318 GCACAAGCTTCTATGTAGAATGAGA 58.955 40.000 0.00 0.00 41.12 3.27
571 836 5.814188 TGCACAAGCTTCTATGTAGAATGAG 59.186 40.000 0.00 0.57 41.12 2.90
572 837 5.733676 TGCACAAGCTTCTATGTAGAATGA 58.266 37.500 0.00 0.00 41.12 2.57
573 838 6.426980 TTGCACAAGCTTCTATGTAGAATG 57.573 37.500 0.00 2.53 41.12 2.67
574 839 5.587844 CCTTGCACAAGCTTCTATGTAGAAT 59.412 40.000 0.00 0.00 42.74 2.40
575 840 4.937620 CCTTGCACAAGCTTCTATGTAGAA 59.062 41.667 0.00 2.76 42.74 2.10
576 841 4.222810 TCCTTGCACAAGCTTCTATGTAGA 59.777 41.667 0.00 0.00 42.74 2.59
577 842 4.507710 TCCTTGCACAAGCTTCTATGTAG 58.492 43.478 0.00 0.00 42.74 2.74
578 843 4.507710 CTCCTTGCACAAGCTTCTATGTA 58.492 43.478 0.00 0.00 42.74 2.29
579 844 3.341823 CTCCTTGCACAAGCTTCTATGT 58.658 45.455 0.00 0.00 42.74 2.29
580 845 2.097142 GCTCCTTGCACAAGCTTCTATG 59.903 50.000 0.00 0.00 42.74 2.23
581 846 2.363683 GCTCCTTGCACAAGCTTCTAT 58.636 47.619 0.00 0.00 42.74 1.98
582 847 1.813513 GCTCCTTGCACAAGCTTCTA 58.186 50.000 0.00 0.00 42.74 2.10
583 848 1.233285 CGCTCCTTGCACAAGCTTCT 61.233 55.000 0.00 0.00 43.06 2.85
584 849 1.208614 CGCTCCTTGCACAAGCTTC 59.791 57.895 0.00 0.00 43.06 3.86
585 850 1.103398 AACGCTCCTTGCACAAGCTT 61.103 50.000 4.82 0.00 43.06 3.74
586 851 1.526917 AACGCTCCTTGCACAAGCT 60.527 52.632 4.82 0.00 43.06 3.74
587 852 1.370900 CAACGCTCCTTGCACAAGC 60.371 57.895 4.82 4.46 43.06 4.01
588 853 1.283793 CCAACGCTCCTTGCACAAG 59.716 57.895 3.32 3.32 43.06 3.16
589 854 1.034838 AACCAACGCTCCTTGCACAA 61.035 50.000 0.00 0.00 43.06 3.33
590 855 1.444119 GAACCAACGCTCCTTGCACA 61.444 55.000 0.00 0.00 43.06 4.57
591 856 1.282875 GAACCAACGCTCCTTGCAC 59.717 57.895 0.00 0.00 43.06 4.57
592 857 0.537143 ATGAACCAACGCTCCTTGCA 60.537 50.000 0.00 0.00 43.06 4.08
593 858 0.109597 CATGAACCAACGCTCCTTGC 60.110 55.000 0.00 0.00 38.57 4.01
594 859 1.238439 ACATGAACCAACGCTCCTTG 58.762 50.000 0.00 0.00 0.00 3.61
595 860 2.224426 TGTACATGAACCAACGCTCCTT 60.224 45.455 0.00 0.00 0.00 3.36
596 861 1.346395 TGTACATGAACCAACGCTCCT 59.654 47.619 0.00 0.00 0.00 3.69
597 862 1.803334 TGTACATGAACCAACGCTCC 58.197 50.000 0.00 0.00 0.00 4.70
598 863 4.181578 ACTATGTACATGAACCAACGCTC 58.818 43.478 18.81 0.00 0.00 5.03
599 864 4.202245 ACTATGTACATGAACCAACGCT 57.798 40.909 18.81 0.00 0.00 5.07
600 865 4.865925 TGTACTATGTACATGAACCAACGC 59.134 41.667 18.81 0.39 0.00 4.84
601 866 6.954616 TTGTACTATGTACATGAACCAACG 57.045 37.500 18.81 0.00 0.00 4.10
602 867 8.718102 AGATTGTACTATGTACATGAACCAAC 57.282 34.615 18.81 8.26 0.00 3.77
628 893 9.917129 TCACACAATAAACGAGAAACTAGAATA 57.083 29.630 0.00 0.00 0.00 1.75
629 894 8.709646 GTCACACAATAAACGAGAAACTAGAAT 58.290 33.333 0.00 0.00 0.00 2.40
630 895 7.707464 TGTCACACAATAAACGAGAAACTAGAA 59.293 33.333 0.00 0.00 0.00 2.10
631 896 7.204604 TGTCACACAATAAACGAGAAACTAGA 58.795 34.615 0.00 0.00 0.00 2.43
632 897 7.381408 TCTGTCACACAATAAACGAGAAACTAG 59.619 37.037 0.00 0.00 0.00 2.57
633 898 7.204604 TCTGTCACACAATAAACGAGAAACTA 58.795 34.615 0.00 0.00 0.00 2.24
634 899 6.046593 TCTGTCACACAATAAACGAGAAACT 58.953 36.000 0.00 0.00 0.00 2.66
635 900 6.281848 TCTGTCACACAATAAACGAGAAAC 57.718 37.500 0.00 0.00 0.00 2.78
636 901 6.704050 TGATCTGTCACACAATAAACGAGAAA 59.296 34.615 0.00 0.00 0.00 2.52
637 902 6.220201 TGATCTGTCACACAATAAACGAGAA 58.780 36.000 0.00 0.00 0.00 2.87
638 903 5.778862 TGATCTGTCACACAATAAACGAGA 58.221 37.500 0.00 0.00 0.00 4.04
639 904 6.311200 TGATGATCTGTCACACAATAAACGAG 59.689 38.462 0.00 0.00 37.14 4.18
640 905 6.162777 TGATGATCTGTCACACAATAAACGA 58.837 36.000 0.00 0.00 37.14 3.85
641 906 6.407475 TGATGATCTGTCACACAATAAACG 57.593 37.500 0.00 0.00 37.14 3.60
642 907 9.462174 TTTTTGATGATCTGTCACACAATAAAC 57.538 29.630 0.00 0.00 37.14 2.01
645 910 9.844790 GAATTTTTGATGATCTGTCACACAATA 57.155 29.630 0.00 0.00 37.14 1.90
646 911 7.816031 GGAATTTTTGATGATCTGTCACACAAT 59.184 33.333 0.00 0.00 37.14 2.71
647 912 7.147312 GGAATTTTTGATGATCTGTCACACAA 58.853 34.615 0.00 0.00 37.14 3.33
648 913 6.264970 TGGAATTTTTGATGATCTGTCACACA 59.735 34.615 0.00 0.00 37.14 3.72
649 914 6.680810 TGGAATTTTTGATGATCTGTCACAC 58.319 36.000 0.00 0.00 37.14 3.82
650 915 6.897706 TGGAATTTTTGATGATCTGTCACA 57.102 33.333 0.00 0.00 37.14 3.58
651 916 7.274904 CACATGGAATTTTTGATGATCTGTCAC 59.725 37.037 0.00 0.00 37.14 3.67
652 917 7.177041 TCACATGGAATTTTTGATGATCTGTCA 59.823 33.333 0.00 0.00 39.04 3.58
653 918 7.487189 GTCACATGGAATTTTTGATGATCTGTC 59.513 37.037 0.00 0.00 0.00 3.51
654 919 7.039574 TGTCACATGGAATTTTTGATGATCTGT 60.040 33.333 0.00 0.00 0.00 3.41
655 920 7.317390 TGTCACATGGAATTTTTGATGATCTG 58.683 34.615 0.00 0.00 0.00 2.90
656 921 7.470935 TGTCACATGGAATTTTTGATGATCT 57.529 32.000 0.00 0.00 0.00 2.75
657 922 8.537049 TTTGTCACATGGAATTTTTGATGATC 57.463 30.769 0.00 0.00 0.00 2.92
658 923 8.369424 TCTTTGTCACATGGAATTTTTGATGAT 58.631 29.630 0.00 0.00 0.00 2.45
659 924 7.652909 GTCTTTGTCACATGGAATTTTTGATGA 59.347 33.333 0.00 0.00 0.00 2.92
660 925 7.654520 AGTCTTTGTCACATGGAATTTTTGATG 59.345 33.333 0.00 0.00 0.00 3.07
661 926 7.729116 AGTCTTTGTCACATGGAATTTTTGAT 58.271 30.769 0.00 0.00 0.00 2.57
662 927 7.111247 AGTCTTTGTCACATGGAATTTTTGA 57.889 32.000 0.00 0.00 0.00 2.69
663 928 9.132521 GATAGTCTTTGTCACATGGAATTTTTG 57.867 33.333 0.00 0.00 0.00 2.44
664 929 8.859090 TGATAGTCTTTGTCACATGGAATTTTT 58.141 29.630 0.00 0.00 0.00 1.94
665 930 8.408043 TGATAGTCTTTGTCACATGGAATTTT 57.592 30.769 0.00 0.00 0.00 1.82
666 931 8.408043 TTGATAGTCTTTGTCACATGGAATTT 57.592 30.769 0.00 0.00 0.00 1.82
667 932 8.408043 TTTGATAGTCTTTGTCACATGGAATT 57.592 30.769 0.00 0.00 0.00 2.17
668 933 8.299570 GTTTTGATAGTCTTTGTCACATGGAAT 58.700 33.333 0.00 0.00 0.00 3.01
669 934 7.502226 AGTTTTGATAGTCTTTGTCACATGGAA 59.498 33.333 0.00 0.00 0.00 3.53
670 935 6.998074 AGTTTTGATAGTCTTTGTCACATGGA 59.002 34.615 0.00 0.00 0.00 3.41
671 936 7.206981 AGTTTTGATAGTCTTTGTCACATGG 57.793 36.000 0.00 0.00 0.00 3.66
691 956 9.423061 GCATCTTCAATGGTTGTAAAATAGTTT 57.577 29.630 0.00 0.00 0.00 2.66
692 957 8.034804 GGCATCTTCAATGGTTGTAAAATAGTT 58.965 33.333 0.00 0.00 0.00 2.24
693 958 7.363793 GGGCATCTTCAATGGTTGTAAAATAGT 60.364 37.037 0.00 0.00 0.00 2.12
694 959 6.980397 GGGCATCTTCAATGGTTGTAAAATAG 59.020 38.462 0.00 0.00 0.00 1.73
695 960 6.405286 CGGGCATCTTCAATGGTTGTAAAATA 60.405 38.462 0.00 0.00 0.00 1.40
696 961 5.624281 CGGGCATCTTCAATGGTTGTAAAAT 60.624 40.000 0.00 0.00 0.00 1.82
697 962 4.321601 CGGGCATCTTCAATGGTTGTAAAA 60.322 41.667 0.00 0.00 0.00 1.52
698 963 3.192422 CGGGCATCTTCAATGGTTGTAAA 59.808 43.478 0.00 0.00 0.00 2.01
699 964 2.752354 CGGGCATCTTCAATGGTTGTAA 59.248 45.455 0.00 0.00 0.00 2.41
700 965 2.364632 CGGGCATCTTCAATGGTTGTA 58.635 47.619 0.00 0.00 0.00 2.41
701 966 1.176527 CGGGCATCTTCAATGGTTGT 58.823 50.000 0.00 0.00 0.00 3.32
702 967 0.179129 GCGGGCATCTTCAATGGTTG 60.179 55.000 0.00 0.00 0.00 3.77
703 968 0.611618 TGCGGGCATCTTCAATGGTT 60.612 50.000 0.00 0.00 0.00 3.67
704 969 0.396139 ATGCGGGCATCTTCAATGGT 60.396 50.000 0.00 0.00 29.42 3.55
705 970 1.608055 TATGCGGGCATCTTCAATGG 58.392 50.000 9.79 0.00 37.82 3.16
706 971 2.880268 TCTTATGCGGGCATCTTCAATG 59.120 45.455 9.79 0.00 37.82 2.82
707 972 2.880890 GTCTTATGCGGGCATCTTCAAT 59.119 45.455 9.79 0.00 37.82 2.57
708 973 2.092968 AGTCTTATGCGGGCATCTTCAA 60.093 45.455 9.79 0.00 37.82 2.69
711 976 1.210478 ACAGTCTTATGCGGGCATCTT 59.790 47.619 9.79 0.00 37.82 2.40
715 980 1.220749 GGACAGTCTTATGCGGGCA 59.779 57.895 0.00 0.00 0.00 5.36
716 981 0.179045 ATGGACAGTCTTATGCGGGC 60.179 55.000 0.00 0.00 0.00 6.13
719 984 0.940126 GCCATGGACAGTCTTATGCG 59.060 55.000 18.40 2.60 0.00 4.73
720 985 0.940126 CGCCATGGACAGTCTTATGC 59.060 55.000 18.40 0.00 0.00 3.14
754 1039 2.266055 CTTGAGCTCCACCCCGTC 59.734 66.667 12.15 0.00 0.00 4.79
771 1056 1.519408 TTCTGCTCGGCTTGTTAACC 58.481 50.000 2.48 0.00 0.00 2.85
795 1337 5.750547 GGAGAAGAGTTTGCCTTTTCTTTTG 59.249 40.000 0.00 0.00 42.88 2.44
800 1342 3.139077 TCGGAGAAGAGTTTGCCTTTTC 58.861 45.455 0.00 0.00 35.12 2.29
941 1493 2.035832 ACACTGTGGGTAAAAGCAATGC 59.964 45.455 13.09 0.00 0.00 3.56
956 1508 1.471684 GGGATCGAAGACGTACACTGT 59.528 52.381 0.00 0.00 42.51 3.55
960 1512 0.677731 ACGGGGATCGAAGACGTACA 60.678 55.000 6.11 0.00 42.51 2.90
1182 1734 0.477795 AGCCTAGGAGGGGTGGTTTT 60.478 55.000 14.75 0.00 35.37 2.43
1188 1740 0.688087 CGAAGAAGCCTAGGAGGGGT 60.688 60.000 14.75 0.00 35.37 4.95
1225 1777 2.427506 GAGGATGGAGGTGAACACAAC 58.572 52.381 7.25 0.65 0.00 3.32
1288 1840 0.833287 TCTGAGGAGGTAATGCTGCC 59.167 55.000 0.00 0.00 0.00 4.85
1291 1843 2.038659 GCTCTCTGAGGAGGTAATGCT 58.961 52.381 4.59 0.00 39.86 3.79
1296 1878 3.826524 CACATAGCTCTCTGAGGAGGTA 58.173 50.000 4.59 10.71 45.98 3.08
1372 1954 0.036765 GTGATAGGGGTGCACACGAA 60.037 55.000 20.43 6.84 32.96 3.85
1424 2006 5.304686 AGTATGGAGGACTGTTTTGAACA 57.695 39.130 0.00 0.00 39.52 3.18
1512 2097 1.203518 AGGACCACCTTAAAGGGGCTA 60.204 52.381 0.00 0.00 45.36 3.93
1531 2116 5.948992 TCGTCTCTATACATGATCACCAG 57.051 43.478 0.00 0.00 0.00 4.00
1632 2220 5.200483 CCAGGTCTATGGGCATTAAAAAGA 58.800 41.667 0.00 0.00 36.64 2.52
1659 2247 6.672147 CCAGTAGAATGCATTACCAATAAGC 58.328 40.000 12.97 0.00 0.00 3.09
1684 2272 4.958509 AGCATGTCATTCCTCATAGTCAG 58.041 43.478 0.00 0.00 0.00 3.51
1755 2356 9.280174 TGACTATGGACGAAAAGATTTTTAACT 57.720 29.630 0.00 0.00 0.00 2.24
1949 2565 8.097662 CCTCTGAATATCCTAGTATTGTTTCCC 58.902 40.741 0.00 0.00 0.00 3.97
2792 4625 1.261619 GCTGACAAACGTGACTTGAGG 59.738 52.381 5.50 0.00 0.00 3.86
2942 4800 8.649841 CATTTCAACACATTAGCAAATCGAAAT 58.350 29.630 0.00 0.00 0.00 2.17
2946 4804 5.574055 AGCATTTCAACACATTAGCAAATCG 59.426 36.000 0.00 0.00 0.00 3.34
3055 4926 1.819208 GCGGGTGCATGCTATGACA 60.819 57.895 20.33 0.00 42.15 3.58
3477 5491 2.572191 AAGTGGATCATGCAAATGCG 57.428 45.000 0.00 0.00 45.83 4.73
3718 5912 5.343307 AGTTCTGTTCATTTGCCTTGTTT 57.657 34.783 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.