Multiple sequence alignment - TraesCS3B01G344500

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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 TraesCS3B01G344500 chr3B 100.000 4643 0 0 1 4643 554098241 554093599 0.000000e+00 8575.0
1 TraesCS3B01G344500 chr3B 100.000 108 0 0 491 598 732824767 732824874 2.830000e-47 200.0
2 TraesCS3B01G344500 chr3B 94.355 124 6 1 491 613 623661393 623661270 6.130000e-44 189.0
3 TraesCS3B01G344500 chr3D 95.474 4065 146 22 595 4643 424347792 424343750 0.000000e+00 6453.0
4 TraesCS3B01G344500 chr3D 91.667 204 5 6 296 493 424347989 424347792 5.920000e-69 272.0
5 TraesCS3B01G344500 chr3A 94.806 3947 156 19 725 4643 564446255 564450180 0.000000e+00 6107.0
6 TraesCS3B01G344500 chr3A 92.135 356 18 6 144 493 564443538 564443889 1.160000e-135 494.0
7 TraesCS3B01G344500 chr3A 90.000 210 16 4 749 957 564444284 564444489 2.750000e-67 267.0
8 TraesCS3B01G344500 chr3A 93.197 147 8 1 1 147 564443353 564443497 1.010000e-51 215.0
9 TraesCS3B01G344500 chr3A 84.768 151 5 4 597 747 564443888 564444020 8.100000e-28 135.0
10 TraesCS3B01G344500 chr5B 100.000 110 0 0 491 600 145479146 145479255 2.190000e-48 204.0
11 TraesCS3B01G344500 chr5B 98.276 116 2 0 491 606 583512143 583512258 2.190000e-48 204.0
12 TraesCS3B01G344500 chr5B 97.414 116 2 1 492 606 512985321 512985206 3.660000e-46 196.0
13 TraesCS3B01G344500 chr5B 97.391 115 3 0 484 598 623213000 623213114 3.660000e-46 196.0
14 TraesCS3B01G344500 chr5B 97.391 115 3 0 484 598 623221927 623222041 3.660000e-46 196.0
15 TraesCS3B01G344500 chr5B 97.391 115 3 0 484 598 626874380 626874494 3.660000e-46 196.0
16 TraesCS3B01G344500 chr2B 99.091 110 1 0 489 598 99152091 99152200 1.020000e-46 198.0
17 TraesCS3B01G344500 chr2D 100.000 32 0 0 4592 4623 24911712 24911681 5.020000e-05 60.2
18 TraesCS3B01G344500 chr2D 97.222 36 0 1 4594 4629 24911741 24911775 5.020000e-05 60.2


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 TraesCS3B01G344500 chr3B 554093599 554098241 4642 True 8575.0 8575 100.0000 1 4643 1 chr3B.!!$R1 4642
1 TraesCS3B01G344500 chr3D 424343750 424347989 4239 True 3362.5 6453 93.5705 296 4643 2 chr3D.!!$R1 4347
2 TraesCS3B01G344500 chr3A 564443353 564450180 6827 False 1443.6 6107 90.9812 1 4643 5 chr3A.!!$F1 4642

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
507 562 0.115745 ACCTACTCCCTCCGTTCCAA 59.884 55.0 0.00 0.0 0.00 3.53 F
1200 3526 0.105593 TCGCCAGAGAAGCATGGATC 59.894 55.0 0.00 0.0 39.02 3.36 F
1881 4207 1.004277 GAGTGCTTGTGACGACTCGG 61.004 60.0 2.98 0.0 0.00 4.63 F
1911 4237 1.131638 TGTCTGGCTCAGTTGAAGGT 58.868 50.0 2.68 0.0 32.61 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1894 4220 0.250467 GCACCTTCAACTGAGCCAGA 60.250 55.000 8.91 0.0 35.18 3.86 R
2499 4825 1.075374 ACACTTGGGCCTTTATCAGCA 59.925 47.619 4.53 0.0 0.00 4.41 R
3571 5897 3.784202 ACCCTTATAAAATCGTCCCCACT 59.216 43.478 0.00 0.0 0.00 4.00 R
3859 6199 5.278266 GCACCTTTCAGCTAAAATGTACACA 60.278 40.000 0.00 0.0 0.00 3.72 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
52 53 9.121658 TGATACACCTACACACAAAAATTACAA 57.878 29.630 0.00 0.00 0.00 2.41
53 54 9.953697 GATACACCTACACACAAAAATTACAAA 57.046 29.630 0.00 0.00 0.00 2.83
79 80 4.500603 TGAGAAGTACGTCAGGACTTTC 57.499 45.455 11.47 4.35 36.04 2.62
80 81 4.142790 TGAGAAGTACGTCAGGACTTTCT 58.857 43.478 11.47 0.00 36.04 2.52
96 97 8.072567 CAGGACTTTCTTTAACAGTGATGAAAG 58.927 37.037 16.36 16.36 43.20 2.62
120 121 2.613691 GCAGAGGCACCAAATTCATTG 58.386 47.619 0.00 0.00 40.72 2.82
165 210 6.739008 GCATGTATGGACTAAGGGAGTTACTC 60.739 46.154 3.36 3.36 39.06 2.59
213 258 3.342377 TTCATCCGTCCATTAGCAACA 57.658 42.857 0.00 0.00 0.00 3.33
226 271 2.275380 GCAACATTTGAGGCCCGGT 61.275 57.895 0.00 0.00 0.00 5.28
227 272 1.883021 CAACATTTGAGGCCCGGTC 59.117 57.895 0.00 0.00 0.00 4.79
234 279 2.107141 GAGGCCCGGTCGAAGATG 59.893 66.667 0.00 0.00 40.67 2.90
245 290 2.094894 GGTCGAAGATGACAATGCACAG 59.905 50.000 0.00 0.00 40.67 3.66
274 319 4.153117 GGCTCAATGTAGACACACTGAAAG 59.847 45.833 0.00 0.00 40.17 2.62
493 548 2.033194 GCACCGTTCTGCCACCTAC 61.033 63.158 0.00 0.00 0.00 3.18
494 549 1.671742 CACCGTTCTGCCACCTACT 59.328 57.895 0.00 0.00 0.00 2.57
495 550 0.389948 CACCGTTCTGCCACCTACTC 60.390 60.000 0.00 0.00 0.00 2.59
496 551 1.218316 CCGTTCTGCCACCTACTCC 59.782 63.158 0.00 0.00 0.00 3.85
497 552 1.218316 CGTTCTGCCACCTACTCCC 59.782 63.158 0.00 0.00 0.00 4.30
498 553 1.258445 CGTTCTGCCACCTACTCCCT 61.258 60.000 0.00 0.00 0.00 4.20
499 554 0.537653 GTTCTGCCACCTACTCCCTC 59.462 60.000 0.00 0.00 0.00 4.30
500 555 0.617820 TTCTGCCACCTACTCCCTCC 60.618 60.000 0.00 0.00 0.00 4.30
501 556 2.363795 TGCCACCTACTCCCTCCG 60.364 66.667 0.00 0.00 0.00 4.63
502 557 2.363925 GCCACCTACTCCCTCCGT 60.364 66.667 0.00 0.00 0.00 4.69
503 558 1.988406 GCCACCTACTCCCTCCGTT 60.988 63.158 0.00 0.00 0.00 4.44
504 559 1.957765 GCCACCTACTCCCTCCGTTC 61.958 65.000 0.00 0.00 0.00 3.95
505 560 1.328430 CCACCTACTCCCTCCGTTCC 61.328 65.000 0.00 0.00 0.00 3.62
506 561 0.613853 CACCTACTCCCTCCGTTCCA 60.614 60.000 0.00 0.00 0.00 3.53
507 562 0.115745 ACCTACTCCCTCCGTTCCAA 59.884 55.000 0.00 0.00 0.00 3.53
508 563 1.272807 CCTACTCCCTCCGTTCCAAA 58.727 55.000 0.00 0.00 0.00 3.28
509 564 1.838077 CCTACTCCCTCCGTTCCAAAT 59.162 52.381 0.00 0.00 0.00 2.32
510 565 2.238898 CCTACTCCCTCCGTTCCAAATT 59.761 50.000 0.00 0.00 0.00 1.82
511 566 3.453353 CCTACTCCCTCCGTTCCAAATTA 59.547 47.826 0.00 0.00 0.00 1.40
512 567 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
513 568 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
514 569 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
515 570 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
516 571 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
517 572 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
518 573 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
519 574 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
520 575 1.990563 CGTTCCAAATTACTCGTCGCT 59.009 47.619 0.00 0.00 0.00 4.93
521 576 2.222508 CGTTCCAAATTACTCGTCGCTG 60.223 50.000 0.00 0.00 0.00 5.18
522 577 2.991190 GTTCCAAATTACTCGTCGCTGA 59.009 45.455 0.00 0.00 0.00 4.26
523 578 3.306917 TCCAAATTACTCGTCGCTGAA 57.693 42.857 0.00 0.00 0.00 3.02
524 579 3.655486 TCCAAATTACTCGTCGCTGAAA 58.345 40.909 0.00 0.00 0.00 2.69
525 580 4.250464 TCCAAATTACTCGTCGCTGAAAT 58.750 39.130 0.00 0.00 0.00 2.17
526 581 4.092821 TCCAAATTACTCGTCGCTGAAATG 59.907 41.667 0.00 0.00 0.00 2.32
527 582 4.334443 CAAATTACTCGTCGCTGAAATGG 58.666 43.478 0.00 0.00 0.00 3.16
528 583 3.520290 ATTACTCGTCGCTGAAATGGA 57.480 42.857 0.00 0.00 0.00 3.41
529 584 3.520290 TTACTCGTCGCTGAAATGGAT 57.480 42.857 0.00 0.00 0.00 3.41
530 585 1.645034 ACTCGTCGCTGAAATGGATG 58.355 50.000 0.00 0.00 0.00 3.51
531 586 1.066858 ACTCGTCGCTGAAATGGATGT 60.067 47.619 0.00 0.00 0.00 3.06
532 587 2.165641 ACTCGTCGCTGAAATGGATGTA 59.834 45.455 0.00 0.00 0.00 2.29
533 588 3.181475 ACTCGTCGCTGAAATGGATGTAT 60.181 43.478 0.00 0.00 0.00 2.29
534 589 3.381045 TCGTCGCTGAAATGGATGTATC 58.619 45.455 0.00 0.00 0.00 2.24
535 590 3.068165 TCGTCGCTGAAATGGATGTATCT 59.932 43.478 0.00 0.00 0.00 1.98
536 591 4.277423 TCGTCGCTGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 0.00 1.98
537 592 4.618912 CGTCGCTGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 0.00 2.43
538 593 5.562890 CGTCGCTGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 0.00 2.43
539 594 6.216569 GTCGCTGAAATGGATGTATCTAGAA 58.783 40.000 0.00 0.00 0.00 2.10
540 595 6.144724 GTCGCTGAAATGGATGTATCTAGAAC 59.855 42.308 0.00 0.00 0.00 3.01
541 596 6.040955 TCGCTGAAATGGATGTATCTAGAACT 59.959 38.462 0.00 0.00 0.00 3.01
542 597 7.230712 TCGCTGAAATGGATGTATCTAGAACTA 59.769 37.037 0.00 0.00 0.00 2.24
543 598 7.867909 CGCTGAAATGGATGTATCTAGAACTAA 59.132 37.037 0.00 0.00 0.00 2.24
544 599 9.547753 GCTGAAATGGATGTATCTAGAACTAAA 57.452 33.333 0.00 0.00 0.00 1.85
571 626 6.567959 ACATCTAGATACATCCATATGTGCG 58.432 40.000 4.54 0.00 45.99 5.34
572 627 6.378280 ACATCTAGATACATCCATATGTGCGA 59.622 38.462 4.54 0.00 45.99 5.10
573 628 6.196079 TCTAGATACATCCATATGTGCGAC 57.804 41.667 1.24 0.00 45.99 5.19
574 629 4.871933 AGATACATCCATATGTGCGACA 57.128 40.909 1.24 0.00 45.99 4.35
575 630 5.213891 AGATACATCCATATGTGCGACAA 57.786 39.130 1.24 0.00 45.99 3.18
576 631 5.233225 AGATACATCCATATGTGCGACAAG 58.767 41.667 1.24 0.00 45.99 3.16
577 632 3.266510 ACATCCATATGTGCGACAAGT 57.733 42.857 1.24 0.00 44.79 3.16
578 633 4.400529 ACATCCATATGTGCGACAAGTA 57.599 40.909 1.24 0.00 44.79 2.24
579 634 4.765273 ACATCCATATGTGCGACAAGTAA 58.235 39.130 1.24 0.00 44.79 2.24
580 635 5.368145 ACATCCATATGTGCGACAAGTAAT 58.632 37.500 1.24 0.00 44.79 1.89
581 636 5.822519 ACATCCATATGTGCGACAAGTAATT 59.177 36.000 1.24 0.00 44.79 1.40
582 637 5.984233 TCCATATGTGCGACAAGTAATTC 57.016 39.130 1.24 0.00 0.00 2.17
583 638 4.506288 TCCATATGTGCGACAAGTAATTCG 59.494 41.667 1.24 0.00 38.31 3.34
584 639 4.318760 CCATATGTGCGACAAGTAATTCGG 60.319 45.833 1.24 0.00 35.73 4.30
585 640 2.442212 TGTGCGACAAGTAATTCGGA 57.558 45.000 0.00 0.00 35.73 4.55
586 641 2.756829 TGTGCGACAAGTAATTCGGAA 58.243 42.857 0.00 0.00 37.32 4.30
587 642 2.477375 TGTGCGACAAGTAATTCGGAAC 59.523 45.455 0.00 0.00 37.32 3.62
617 672 6.869388 GGAGTAGGTCTTAACTGAACTGAAAG 59.131 42.308 0.00 0.00 35.38 2.62
620 675 6.742559 AGGTCTTAACTGAACTGAAAGGTA 57.257 37.500 0.00 0.00 39.30 3.08
657 712 4.821805 AGGATGTGAAACTGTTTACTGTGG 59.178 41.667 5.64 0.00 38.04 4.17
664 719 5.648526 TGAAACTGTTTACTGTGGTTTGCTA 59.351 36.000 5.64 0.00 31.51 3.49
672 727 8.347035 TGTTTACTGTGGTTTGCTATTTTACTC 58.653 33.333 0.00 0.00 0.00 2.59
679 734 8.999431 TGTGGTTTGCTATTTTACTCTCTTTAG 58.001 33.333 0.00 0.00 0.00 1.85
712 768 2.612285 ATGGATCCTATCGAGCTCCA 57.388 50.000 14.23 0.00 37.38 3.86
803 3116 2.423538 GCTTCTGGGAAATTATGCACGT 59.576 45.455 0.00 0.00 0.00 4.49
808 3121 4.520874 TCTGGGAAATTATGCACGTTTGAA 59.479 37.500 0.00 0.00 0.00 2.69
813 3126 3.848272 ATTATGCACGTTTGAACAGGG 57.152 42.857 0.00 0.00 0.00 4.45
818 3131 2.037902 TGCACGTTTGAACAGGGATAGA 59.962 45.455 0.00 0.00 0.00 1.98
834 3147 1.489481 TAGATGACCCAGACTGCAGG 58.511 55.000 19.93 2.50 0.00 4.85
872 3185 3.371917 CCCAAGGATCTCAGTTTGGCATA 60.372 47.826 0.00 0.00 38.96 3.14
875 3189 5.185635 CCAAGGATCTCAGTTTGGCATAAAA 59.814 40.000 0.00 0.00 34.28 1.52
876 3190 6.327934 CAAGGATCTCAGTTTGGCATAAAAG 58.672 40.000 0.00 0.00 0.00 2.27
877 3191 4.400567 AGGATCTCAGTTTGGCATAAAAGC 59.599 41.667 0.00 0.00 0.00 3.51
879 3193 3.407698 TCTCAGTTTGGCATAAAAGCGA 58.592 40.909 0.00 0.00 34.64 4.93
886 3200 5.988561 AGTTTGGCATAAAAGCGATTGAAAA 59.011 32.000 0.00 0.00 34.64 2.29
926 3240 1.303561 GCACTGCCCATTGACCTCA 60.304 57.895 0.00 0.00 0.00 3.86
929 3243 0.251341 ACTGCCCATTGACCTCAACC 60.251 55.000 0.00 0.00 38.86 3.77
936 3250 2.571653 CCATTGACCTCAACCTCCTACA 59.428 50.000 0.00 0.00 38.86 2.74
946 3260 5.770162 CCTCAACCTCCTACAAGAAAATTGT 59.230 40.000 0.00 0.00 36.49 2.71
947 3261 6.940298 CCTCAACCTCCTACAAGAAAATTGTA 59.060 38.462 0.97 0.97 34.11 2.41
948 3262 7.119846 CCTCAACCTCCTACAAGAAAATTGTAG 59.880 40.741 17.04 17.04 46.91 2.74
949 3263 6.430000 TCAACCTCCTACAAGAAAATTGTAGC 59.570 38.462 18.10 0.00 46.34 3.58
950 3264 5.876357 ACCTCCTACAAGAAAATTGTAGCA 58.124 37.500 18.10 6.71 46.34 3.49
951 3265 5.940470 ACCTCCTACAAGAAAATTGTAGCAG 59.060 40.000 18.10 14.31 46.34 4.24
952 3266 6.173339 CCTCCTACAAGAAAATTGTAGCAGA 58.827 40.000 16.60 11.22 46.34 4.26
953 3267 6.092807 CCTCCTACAAGAAAATTGTAGCAGAC 59.907 42.308 16.60 0.00 46.34 3.51
954 3268 5.637810 TCCTACAAGAAAATTGTAGCAGACG 59.362 40.000 18.10 7.92 46.34 4.18
956 3270 4.385825 ACAAGAAAATTGTAGCAGACGGA 58.614 39.130 0.00 0.00 0.00 4.69
957 3271 4.452455 ACAAGAAAATTGTAGCAGACGGAG 59.548 41.667 0.00 0.00 0.00 4.63
960 3274 2.770164 AATTGTAGCAGACGGAGCTT 57.230 45.000 3.90 0.00 43.25 3.74
1011 3337 1.322538 GCATTTCCATGGCCGAACCT 61.323 55.000 6.96 0.00 40.22 3.50
1034 3360 2.494471 TGCTTGCTTCTTTGATCCATGG 59.506 45.455 4.97 4.97 0.00 3.66
1177 3503 1.667151 GTTTGCAGCATTGAGGGCA 59.333 52.632 0.00 0.00 0.00 5.36
1200 3526 0.105593 TCGCCAGAGAAGCATGGATC 59.894 55.000 0.00 0.00 39.02 3.36
1260 3586 4.094684 GACATCTTCGACGCCAGG 57.905 61.111 0.00 0.00 0.00 4.45
1299 3625 4.040339 TGTGTTCTTGGTAAGCTGAGATCA 59.960 41.667 0.00 0.00 0.00 2.92
1395 3721 4.527509 TGCAGTTGAAAGACCTAGAGAG 57.472 45.455 0.00 0.00 0.00 3.20
1638 3964 1.154205 AATGCTGCGCGTGGATCTAC 61.154 55.000 8.43 0.00 0.00 2.59
1728 4054 2.757917 GAGGCGAGCTCCCTCTGT 60.758 66.667 29.65 10.71 44.40 3.41
1881 4207 1.004277 GAGTGCTTGTGACGACTCGG 61.004 60.000 2.98 0.00 0.00 4.63
1911 4237 1.131638 TGTCTGGCTCAGTTGAAGGT 58.868 50.000 2.68 0.00 32.61 3.50
1965 4291 3.511146 TGCCATTTGAAGATTCCTGGAAC 59.489 43.478 12.11 6.12 0.00 3.62
2138 4464 1.963515 GTGGAAAAGTGTCCTGGCAAT 59.036 47.619 0.00 0.00 38.62 3.56
2301 4627 6.828785 AGAAATTAGTTCGGTTATGGATTGCT 59.171 34.615 0.00 0.00 41.52 3.91
2332 4658 3.822735 TGTGAAAGAAAAGGCTGATGAGG 59.177 43.478 0.00 0.00 0.00 3.86
2387 4713 3.159472 AGCTGATCAACAAAAGCATGGA 58.841 40.909 0.00 0.00 38.14 3.41
2451 4777 3.940221 GCAGAGTTCATGCTCTTCTTCAT 59.060 43.478 0.50 0.00 42.69 2.57
2499 4825 9.649167 GAAAATGAGAAATTTTCCATCATCTGT 57.351 29.630 11.94 4.08 40.34 3.41
2607 4933 5.375417 TGCGATCTGTTTTCATGTTCAAT 57.625 34.783 0.00 0.00 0.00 2.57
2608 4934 5.155643 TGCGATCTGTTTTCATGTTCAATG 58.844 37.500 0.00 0.00 0.00 2.82
2672 4998 4.985538 AGCTTTGGTCTGGTAAGAATTCA 58.014 39.130 8.44 0.00 33.05 2.57
2787 5113 4.670765 AGAAGCTCCCAAGAACAATGAAT 58.329 39.130 0.00 0.00 0.00 2.57
2832 5158 7.014518 ACTCTTGATATCAGGAAGACTCAGATG 59.985 40.741 17.27 5.65 31.40 2.90
2912 5238 2.928334 AGATGACCAATGCATCCAGAC 58.072 47.619 0.00 0.00 42.36 3.51
3086 5412 6.655003 TCTTCTGTGAACAATATGAAGGAACC 59.345 38.462 9.15 0.00 33.77 3.62
3294 5620 2.844946 TCAGTTCTTGTTCGATTGCCA 58.155 42.857 0.00 0.00 0.00 4.92
3571 5897 5.256626 TCCTTTCTTGGTAAATTGGGGGATA 59.743 40.000 0.00 0.00 0.00 2.59
3576 5902 2.516277 TGGTAAATTGGGGGATAGTGGG 59.484 50.000 0.00 0.00 0.00 4.61
3579 5905 1.231963 AATTGGGGGATAGTGGGGAC 58.768 55.000 0.00 0.00 0.00 4.46
3596 5922 4.227754 TGGGGACGATTTTATAAGGGTCAA 59.772 41.667 0.00 0.00 0.00 3.18
3636 5962 4.081862 CAGATCATTCAACAGTTTGGGCAT 60.082 41.667 0.00 0.00 33.06 4.40
3659 5985 7.555087 CATCCCTAAAATTGTCCTGCAAATAA 58.445 34.615 0.00 0.00 40.91 1.40
3661 5987 6.951198 TCCCTAAAATTGTCCTGCAAATAAGA 59.049 34.615 0.00 0.00 40.91 2.10
3662 5988 7.035612 CCCTAAAATTGTCCTGCAAATAAGAC 58.964 38.462 0.00 0.00 40.91 3.01
3664 5990 8.306761 CCTAAAATTGTCCTGCAAATAAGACTT 58.693 33.333 0.00 0.00 40.91 3.01
3665 5991 7.951530 AAAATTGTCCTGCAAATAAGACTTG 57.048 32.000 0.00 0.00 40.91 3.16
3666 5992 6.899393 AATTGTCCTGCAAATAAGACTTGA 57.101 33.333 0.00 0.00 40.91 3.02
3668 5994 5.947228 TGTCCTGCAAATAAGACTTGAAG 57.053 39.130 0.00 0.00 0.00 3.02
3669 5995 5.620206 TGTCCTGCAAATAAGACTTGAAGA 58.380 37.500 0.00 0.00 31.86 2.87
3670 5996 6.240894 TGTCCTGCAAATAAGACTTGAAGAT 58.759 36.000 0.00 0.00 31.86 2.40
3671 5997 6.149973 TGTCCTGCAAATAAGACTTGAAGATG 59.850 38.462 0.00 0.00 31.86 2.90
3672 5998 6.372659 GTCCTGCAAATAAGACTTGAAGATGA 59.627 38.462 0.00 0.00 31.86 2.92
3673 5999 7.066766 GTCCTGCAAATAAGACTTGAAGATGAT 59.933 37.037 0.00 0.00 31.86 2.45
3674 6000 7.066645 TCCTGCAAATAAGACTTGAAGATGATG 59.933 37.037 0.00 0.00 31.86 3.07
3675 6001 7.066645 CCTGCAAATAAGACTTGAAGATGATGA 59.933 37.037 0.00 0.00 31.86 2.92
3676 6002 8.515695 TGCAAATAAGACTTGAAGATGATGAT 57.484 30.769 0.00 0.00 0.00 2.45
3677 6003 8.403236 TGCAAATAAGACTTGAAGATGATGATG 58.597 33.333 0.00 0.00 0.00 3.07
3678 6004 8.618677 GCAAATAAGACTTGAAGATGATGATGA 58.381 33.333 0.00 0.00 0.00 2.92
3778 6118 3.402110 CATGACAGTGACAGCTTGGTTA 58.598 45.455 0.00 0.00 0.00 2.85
3851 6191 1.041447 GCTGCTCCCTCTACCGGTTA 61.041 60.000 15.04 0.00 0.00 2.85
3852 6192 1.481871 CTGCTCCCTCTACCGGTTAA 58.518 55.000 15.04 0.00 0.00 2.01
3859 6199 5.396101 GCTCCCTCTACCGGTTAAAAACTAT 60.396 44.000 15.04 0.00 0.00 2.12
3904 6244 6.978659 GGTGCCCTTATGTTTAATCTTTAAGC 59.021 38.462 0.00 0.00 0.00 3.09
3921 6261 6.378848 TCTTTAAGCCCCAATGTACCATAAAC 59.621 38.462 0.00 0.00 0.00 2.01
3927 6267 4.466015 CCCCAATGTACCATAAACAAGCTT 59.534 41.667 0.00 0.00 0.00 3.74
3931 6271 7.029563 CCAATGTACCATAAACAAGCTTCTTC 58.970 38.462 0.00 0.00 0.00 2.87
3934 6274 5.992829 TGTACCATAAACAAGCTTCTTCGAA 59.007 36.000 0.00 0.00 0.00 3.71
3945 6285 6.371548 ACAAGCTTCTTCGAATATGTTAGCAA 59.628 34.615 0.00 0.00 0.00 3.91
3969 6309 9.630098 CAATCAGTAGAATTGCTTGTTGTAAAT 57.370 29.630 0.00 0.00 0.00 1.40
4069 6409 9.836864 TGATATAGCATCAAGAAAAGTACATGT 57.163 29.630 2.69 2.69 0.00 3.21
4118 6458 6.040209 TGCATAACAAATGGCAGAGAATTT 57.960 33.333 0.00 0.00 0.00 1.82
4136 6476 9.160496 AGAGAATTTTATCTTCTGCAGTAGTTG 57.840 33.333 18.55 4.45 33.18 3.16
4167 6507 4.810191 AGTACCTCATGTTCCTCTTGAC 57.190 45.455 0.00 0.00 0.00 3.18
4173 6513 4.380233 CCTCATGTTCCTCTTGACAAATGC 60.380 45.833 0.00 0.00 0.00 3.56
4178 6518 4.516698 TGTTCCTCTTGACAAATGCTTCTC 59.483 41.667 0.00 0.00 0.00 2.87
4180 6520 2.417933 CCTCTTGACAAATGCTTCTCCG 59.582 50.000 0.00 0.00 0.00 4.63
4237 6577 7.093322 ACTCATCCAAAGCTGATCAATTAAC 57.907 36.000 0.00 0.00 0.00 2.01
4259 6599 2.727298 GCAGCAGAAGAGCAATTCGTTC 60.727 50.000 0.00 0.00 36.85 3.95
4262 6602 2.224079 GCAGAAGAGCAATTCGTTCACA 59.776 45.455 0.00 0.00 34.27 3.58
4271 6611 6.313905 AGAGCAATTCGTTCACAATTAGTAGG 59.686 38.462 0.00 0.00 0.00 3.18
4466 6807 6.507023 TCAGAAGTCAAATTTCAAAGCTTCC 58.493 36.000 0.00 0.00 33.46 3.46
4467 6808 6.096705 TCAGAAGTCAAATTTCAAAGCTTCCA 59.903 34.615 0.00 0.00 33.46 3.53
4480 6822 8.729805 TTCAAAGCTTCCAAAATAAAACACAT 57.270 26.923 0.00 0.00 0.00 3.21
4558 6900 3.156293 TGTTCATTTGTAGGCAGCACAT 58.844 40.909 0.00 0.00 0.00 3.21
4588 6930 7.681939 AAACAAACGTGTGGATCTATAACAT 57.318 32.000 11.18 0.00 38.27 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 0.324614 ATGTCCGTGGTTGCATCAGA 59.675 50.000 0.00 0.00 0.00 3.27
12 13 1.002544 TGTATCATGTCCGTGGTTGCA 59.997 47.619 0.00 0.00 0.00 4.08
19 20 3.093814 TGTGTAGGTGTATCATGTCCGT 58.906 45.455 0.00 0.00 0.00 4.69
52 53 4.396790 GTCCTGACGTACTTCTCATCTCTT 59.603 45.833 0.68 0.00 0.00 2.85
53 54 3.942748 GTCCTGACGTACTTCTCATCTCT 59.057 47.826 0.68 0.00 0.00 3.10
79 80 4.213270 TGCCGACTTTCATCACTGTTAAAG 59.787 41.667 0.00 0.00 35.54 1.85
80 81 4.130857 TGCCGACTTTCATCACTGTTAAA 58.869 39.130 0.00 0.00 0.00 1.52
96 97 1.244019 AATTTGGTGCCTCTGCCGAC 61.244 55.000 0.00 0.00 36.33 4.79
97 98 0.960364 GAATTTGGTGCCTCTGCCGA 60.960 55.000 0.00 0.00 36.33 5.54
120 121 3.058016 TGCTGCAAACTGTTATTGAGCTC 60.058 43.478 6.82 6.82 34.71 4.09
184 229 6.428159 GCTAATGGACGGATGAAAACTCATAT 59.572 38.462 0.00 0.00 0.00 1.78
186 231 4.576463 GCTAATGGACGGATGAAAACTCAT 59.424 41.667 0.00 0.00 0.00 2.90
196 241 4.269183 TCAAATGTTGCTAATGGACGGAT 58.731 39.130 0.00 0.00 0.00 4.18
213 258 1.078426 CTTCGACCGGGCCTCAAAT 60.078 57.895 6.32 0.00 0.00 2.32
226 271 1.733912 GCTGTGCATTGTCATCTTCGA 59.266 47.619 0.00 0.00 0.00 3.71
227 272 1.736126 AGCTGTGCATTGTCATCTTCG 59.264 47.619 0.00 0.00 0.00 3.79
234 279 0.109412 GCCTTGAGCTGTGCATTGTC 60.109 55.000 0.00 0.00 38.99 3.18
245 290 2.675348 GTGTCTACATTGAGCCTTGAGC 59.325 50.000 0.00 0.00 44.25 4.26
274 319 2.436824 GAGCCCGTCTTTGGAGCC 60.437 66.667 0.00 0.00 0.00 4.70
493 548 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
494 549 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
495 550 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
496 551 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
497 552 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
498 553 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
499 554 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
500 555 1.990563 AGCGACGAGTAATTTGGAACG 59.009 47.619 0.00 0.00 0.00 3.95
501 556 2.991190 TCAGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
502 557 3.306917 TCAGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
503 558 3.306917 TTCAGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
504 559 4.334443 CATTTCAGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
505 560 4.092821 TCCATTTCAGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
506 561 4.250464 TCCATTTCAGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
507 562 3.857052 TCCATTTCAGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
508 563 3.520290 TCCATTTCAGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
509 564 3.186909 CATCCATTTCAGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
510 565 2.165641 ACATCCATTTCAGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
511 566 1.066858 ACATCCATTTCAGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
512 567 1.645034 ACATCCATTTCAGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
513 568 2.951457 TACATCCATTTCAGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
514 569 3.384668 AGATACATCCATTTCAGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
515 570 5.773575 TCTAGATACATCCATTTCAGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
516 571 6.040955 AGTTCTAGATACATCCATTTCAGCGA 59.959 38.462 0.00 0.00 0.00 4.93
517 572 6.219473 AGTTCTAGATACATCCATTTCAGCG 58.781 40.000 0.00 0.00 0.00 5.18
518 573 9.547753 TTTAGTTCTAGATACATCCATTTCAGC 57.452 33.333 0.00 0.00 0.00 4.26
545 600 8.355913 CGCACATATGGATGTATCTAGATGTAT 58.644 37.037 15.79 9.11 44.68 2.29
546 601 7.556275 TCGCACATATGGATGTATCTAGATGTA 59.444 37.037 15.79 4.44 44.68 2.29
547 602 6.378280 TCGCACATATGGATGTATCTAGATGT 59.622 38.462 15.79 11.23 46.49 3.06
548 603 6.694844 GTCGCACATATGGATGTATCTAGATG 59.305 42.308 15.79 10.16 44.82 2.90
549 604 6.378280 TGTCGCACATATGGATGTATCTAGAT 59.622 38.462 10.73 10.73 44.82 1.98
550 605 5.710099 TGTCGCACATATGGATGTATCTAGA 59.290 40.000 7.80 0.00 44.82 2.43
551 606 5.954335 TGTCGCACATATGGATGTATCTAG 58.046 41.667 7.80 0.00 44.82 2.43
552 607 5.975693 TGTCGCACATATGGATGTATCTA 57.024 39.130 7.80 0.00 44.82 1.98
553 608 4.871933 TGTCGCACATATGGATGTATCT 57.128 40.909 7.80 0.00 44.82 1.98
554 609 4.991056 ACTTGTCGCACATATGGATGTATC 59.009 41.667 7.80 0.00 44.82 2.24
555 610 4.960938 ACTTGTCGCACATATGGATGTAT 58.039 39.130 7.80 0.00 44.82 2.29
556 611 4.400529 ACTTGTCGCACATATGGATGTA 57.599 40.909 7.80 0.00 44.82 2.29
558 613 5.929697 ATTACTTGTCGCACATATGGATG 57.070 39.130 7.80 0.00 39.16 3.51
559 614 5.177511 CGAATTACTTGTCGCACATATGGAT 59.822 40.000 7.80 0.00 0.00 3.41
560 615 4.506288 CGAATTACTTGTCGCACATATGGA 59.494 41.667 7.80 0.00 0.00 3.41
561 616 4.318760 CCGAATTACTTGTCGCACATATGG 60.319 45.833 7.80 0.00 35.93 2.74
562 617 4.506288 TCCGAATTACTTGTCGCACATATG 59.494 41.667 0.00 0.00 35.93 1.78
563 618 4.689071 TCCGAATTACTTGTCGCACATAT 58.311 39.130 0.00 0.00 35.93 1.78
564 619 4.112716 TCCGAATTACTTGTCGCACATA 57.887 40.909 0.00 0.00 35.93 2.29
565 620 2.967362 TCCGAATTACTTGTCGCACAT 58.033 42.857 0.00 0.00 35.93 3.21
566 621 2.442212 TCCGAATTACTTGTCGCACA 57.558 45.000 0.00 0.00 35.93 4.57
567 622 2.471749 CGTTCCGAATTACTTGTCGCAC 60.472 50.000 0.00 0.00 35.93 5.34
568 623 1.722464 CGTTCCGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 35.93 5.10
569 624 1.060122 CCGTTCCGAATTACTTGTCGC 59.940 52.381 0.00 0.00 35.93 5.19
570 625 2.597305 CTCCGTTCCGAATTACTTGTCG 59.403 50.000 0.00 0.00 37.01 4.35
571 626 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
572 627 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
573 628 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
574 629 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
575 630 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
576 631 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
577 632 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
578 633 1.755380 CTACTCCCTCCGTTCCGAATT 59.245 52.381 0.00 0.00 0.00 2.17
579 634 1.400737 CTACTCCCTCCGTTCCGAAT 58.599 55.000 0.00 0.00 0.00 3.34
580 635 0.682209 CCTACTCCCTCCGTTCCGAA 60.682 60.000 0.00 0.00 0.00 4.30
581 636 1.077212 CCTACTCCCTCCGTTCCGA 60.077 63.158 0.00 0.00 0.00 4.55
582 637 1.379576 ACCTACTCCCTCCGTTCCG 60.380 63.158 0.00 0.00 0.00 4.30
583 638 0.033306 AGACCTACTCCCTCCGTTCC 60.033 60.000 0.00 0.00 0.00 3.62
584 639 1.849977 AAGACCTACTCCCTCCGTTC 58.150 55.000 0.00 0.00 0.00 3.95
585 640 3.095332 GTTAAGACCTACTCCCTCCGTT 58.905 50.000 0.00 0.00 0.00 4.44
586 641 2.311243 AGTTAAGACCTACTCCCTCCGT 59.689 50.000 0.00 0.00 0.00 4.69
587 642 2.688958 CAGTTAAGACCTACTCCCTCCG 59.311 54.545 0.00 0.00 0.00 4.63
588 643 3.978610 TCAGTTAAGACCTACTCCCTCC 58.021 50.000 0.00 0.00 0.00 4.30
589 644 5.018149 AGTTCAGTTAAGACCTACTCCCTC 58.982 45.833 0.00 0.00 0.00 4.30
590 645 4.773149 CAGTTCAGTTAAGACCTACTCCCT 59.227 45.833 0.00 0.00 0.00 4.20
591 646 4.771054 TCAGTTCAGTTAAGACCTACTCCC 59.229 45.833 0.00 0.00 0.00 4.30
592 647 5.979288 TCAGTTCAGTTAAGACCTACTCC 57.021 43.478 0.00 0.00 0.00 3.85
593 648 6.869388 CCTTTCAGTTCAGTTAAGACCTACTC 59.131 42.308 0.00 0.00 0.00 2.59
594 649 6.326843 ACCTTTCAGTTCAGTTAAGACCTACT 59.673 38.462 0.00 0.00 0.00 2.57
617 672 5.065218 CACATCCTTGCTACATGAAGTTACC 59.935 44.000 0.00 0.00 0.00 2.85
620 675 4.910195 TCACATCCTTGCTACATGAAGTT 58.090 39.130 0.00 0.00 0.00 2.66
672 727 8.207350 TCCATATGTTCCCTATTCCTAAAGAG 57.793 38.462 1.24 0.00 0.00 2.85
679 734 7.472100 CGATAGGATCCATATGTTCCCTATTCC 60.472 44.444 15.82 11.86 37.18 3.01
778 3091 5.700832 CGTGCATAATTTCCCAGAAGCTATA 59.299 40.000 0.00 0.00 0.00 1.31
779 3092 4.516698 CGTGCATAATTTCCCAGAAGCTAT 59.483 41.667 0.00 0.00 0.00 2.97
803 3116 3.849574 TGGGTCATCTATCCCTGTTCAAA 59.150 43.478 0.00 0.00 43.74 2.69
808 3121 2.248686 AGTCTGGGTCATCTATCCCTGT 59.751 50.000 0.00 0.00 43.74 4.00
813 3126 2.036992 CCTGCAGTCTGGGTCATCTATC 59.963 54.545 13.81 0.00 0.00 2.08
818 3131 2.304056 CCCCTGCAGTCTGGGTCAT 61.304 63.158 16.29 0.00 46.73 3.06
875 3189 9.553064 ACTGATTAGAAGATATTTTCAATCGCT 57.447 29.630 8.56 3.29 32.91 4.93
876 3190 9.591404 CACTGATTAGAAGATATTTTCAATCGC 57.409 33.333 8.56 0.00 32.91 4.58
886 3200 7.288852 AGTGCTGTACCACTGATTAGAAGATAT 59.711 37.037 4.22 0.00 44.00 1.63
936 3250 3.437049 GCTCCGTCTGCTACAATTTTCTT 59.563 43.478 0.00 0.00 0.00 2.52
946 3260 1.038130 GGAGGAAGCTCCGTCTGCTA 61.038 60.000 0.00 0.00 42.75 3.49
947 3261 2.355193 GGAGGAAGCTCCGTCTGCT 61.355 63.158 0.00 0.00 42.75 4.24
948 3262 2.185608 GGAGGAAGCTCCGTCTGC 59.814 66.667 0.00 0.00 42.75 4.26
954 3268 2.039084 TGTTGAAGAAGGAGGAAGCTCC 59.961 50.000 0.00 0.00 43.65 4.70
956 3270 3.117888 TGTTGTTGAAGAAGGAGGAAGCT 60.118 43.478 0.00 0.00 0.00 3.74
957 3271 3.214328 TGTTGTTGAAGAAGGAGGAAGC 58.786 45.455 0.00 0.00 0.00 3.86
960 3274 4.771114 TTCTGTTGTTGAAGAAGGAGGA 57.229 40.909 0.00 0.00 0.00 3.71
970 3296 4.199310 CTGGTCTTCCTTTCTGTTGTTGA 58.801 43.478 0.00 0.00 34.23 3.18
1011 3337 2.585330 TGGATCAAAGAAGCAAGCACA 58.415 42.857 0.00 0.00 0.00 4.57
1093 3419 1.153647 GCCATCCGACATCACGACA 60.154 57.895 0.00 0.00 35.09 4.35
1116 3442 1.773054 GCATGCTGTGGAGCTCATCG 61.773 60.000 17.19 1.57 46.39 3.84
1177 3503 3.011635 ATGCTTCTCTGGCGACGCT 62.012 57.895 20.77 0.00 0.00 5.07
1200 3526 3.976339 GATGTCCCTCATCTGGTCG 57.024 57.895 0.00 0.00 46.64 4.79
1229 3555 2.016393 GATGTCGATGGCGTCCTCCA 62.016 60.000 0.14 0.00 40.97 3.86
1260 3586 0.239347 CACAGCAGCCTTGTACTTGC 59.761 55.000 0.00 0.00 36.83 4.01
1299 3625 2.124151 GCCCCGACATCATGCCTT 60.124 61.111 0.00 0.00 0.00 4.35
1308 3634 3.147595 CTGATCCGAGCCCCGACA 61.148 66.667 0.00 0.00 41.76 4.35
1395 3721 4.818546 CCATGGATCCACTTATCACTTGAC 59.181 45.833 18.99 0.00 0.00 3.18
1728 4054 3.079578 CAATTCTTGGAGCTGCTTCTCA 58.920 45.455 9.76 3.51 34.84 3.27
1881 4207 3.044059 GCCAGACACAGCGGCATTC 62.044 63.158 1.45 0.00 45.52 2.67
1894 4220 0.250467 GCACCTTCAACTGAGCCAGA 60.250 55.000 8.91 0.00 35.18 3.86
1911 4237 3.381189 CTGCTGTACAGTGCTCTTTGCA 61.381 50.000 23.44 11.91 43.14 4.08
1965 4291 5.488645 AGAATGCCTTTTTGCAAAACAAG 57.511 34.783 23.79 18.37 45.84 3.16
2138 4464 6.060136 CCATTGCTTAGATCCTTCTGAATGA 58.940 40.000 0.00 0.00 33.17 2.57
2217 4543 4.081309 AGCAGCATAAAACATGGCTTCAAT 60.081 37.500 0.00 0.00 33.60 2.57
2301 4627 4.382577 GCCTTTTCTTTCACAAACCCTTCA 60.383 41.667 0.00 0.00 0.00 3.02
2332 4658 5.049129 ACTTCTCTGCAGTAATTTCAAGTGC 60.049 40.000 14.67 0.37 42.47 4.40
2387 4713 2.032981 CTTGCCGTTGCCACTTCTT 58.967 52.632 0.00 0.00 36.33 2.52
2441 4767 6.266323 CAAATGGCAAGATCATGAAGAAGAG 58.734 40.000 0.00 0.00 0.00 2.85
2499 4825 1.075374 ACACTTGGGCCTTTATCAGCA 59.925 47.619 4.53 0.00 0.00 4.41
2672 4998 5.954150 AGCATGTTACCATCTTCAAAATCCT 59.046 36.000 0.00 0.00 0.00 3.24
2787 5113 6.042638 AGAGTTTGCAAGTGATAGAGCTTA 57.957 37.500 0.00 0.00 0.00 3.09
2832 5158 8.633408 CATTTGATTTGAAACGTGATTCTCTTC 58.367 33.333 0.00 0.00 0.00 2.87
2912 5238 4.559862 AGCTGATTAAATCCTATCGGGG 57.440 45.455 0.00 0.00 35.33 5.73
3034 5360 5.069501 AGCTCTTTGGCATCTTCATTTTC 57.930 39.130 0.00 0.00 34.17 2.29
3086 5412 6.183360 GCTAGGGAAGATGGATAGGTATGATG 60.183 46.154 0.00 0.00 0.00 3.07
3571 5897 3.784202 ACCCTTATAAAATCGTCCCCACT 59.216 43.478 0.00 0.00 0.00 4.00
3576 5902 6.746745 TGTTTGACCCTTATAAAATCGTCC 57.253 37.500 0.00 0.00 0.00 4.79
3579 5905 9.893305 GGAATATGTTTGACCCTTATAAAATCG 57.107 33.333 0.00 0.00 0.00 3.34
3596 5922 9.902684 GAATGATCTGGATAGATGGAATATGTT 57.097 33.333 0.00 0.00 43.63 2.71
3636 5962 6.951198 TCTTATTTGCAGGACAATTTTAGGGA 59.049 34.615 0.00 0.00 38.31 4.20
3673 5999 9.809096 GTCTTGTCAACTCTTAAGATATCATCA 57.191 33.333 5.44 0.00 32.44 3.07
3676 6002 9.645059 CAAGTCTTGTCAACTCTTAAGATATCA 57.355 33.333 5.44 0.00 32.44 2.15
3677 6003 9.862371 TCAAGTCTTGTCAACTCTTAAGATATC 57.138 33.333 12.30 0.00 32.44 1.63
3679 6005 9.698309 CTTCAAGTCTTGTCAACTCTTAAGATA 57.302 33.333 12.30 0.00 32.44 1.98
3680 6006 8.424918 TCTTCAAGTCTTGTCAACTCTTAAGAT 58.575 33.333 12.30 0.00 32.44 2.40
3681 6007 7.782049 TCTTCAAGTCTTGTCAACTCTTAAGA 58.218 34.615 12.30 4.81 0.00 2.10
3682 6008 8.494347 CATCTTCAAGTCTTGTCAACTCTTAAG 58.506 37.037 12.30 0.00 0.00 1.85
3683 6009 8.204160 TCATCTTCAAGTCTTGTCAACTCTTAA 58.796 33.333 12.30 0.00 0.00 1.85
3684 6010 7.726216 TCATCTTCAAGTCTTGTCAACTCTTA 58.274 34.615 12.30 0.00 0.00 2.10
3685 6011 6.586344 TCATCTTCAAGTCTTGTCAACTCTT 58.414 36.000 12.30 0.00 0.00 2.85
3686 6012 6.166984 TCATCTTCAAGTCTTGTCAACTCT 57.833 37.500 12.30 0.00 0.00 3.24
3690 6016 9.322773 GATATCATCATCTTCAAGTCTTGTCAA 57.677 33.333 12.30 0.00 0.00 3.18
3859 6199 5.278266 GCACCTTTCAGCTAAAATGTACACA 60.278 40.000 0.00 0.00 0.00 3.72
3921 6261 6.349973 TGCTAACATATTCGAAGAAGCTTG 57.650 37.500 2.10 3.23 45.90 4.01
3927 6267 8.630037 TCTACTGATTGCTAACATATTCGAAGA 58.370 33.333 3.35 0.00 0.00 2.87
3931 6271 9.803130 CAATTCTACTGATTGCTAACATATTCG 57.197 33.333 0.00 0.00 0.00 3.34
4067 6407 6.841443 TTACACGAGTTTCGGAATAAAACA 57.159 33.333 3.37 0.00 45.59 2.83
4118 6458 9.582431 GTAATGTACAACTACTGCAGAAGATAA 57.418 33.333 23.35 0.00 0.00 1.75
4136 6476 8.235359 AGGAACATGAGGTACTAGTAATGTAC 57.765 38.462 15.14 12.13 41.55 2.90
4167 6507 2.907910 CTTCACCGGAGAAGCATTTG 57.092 50.000 25.56 5.42 38.64 2.32
4173 6513 0.603707 TTGCTGCTTCACCGGAGAAG 60.604 55.000 30.50 30.50 46.06 2.85
4178 6518 1.453155 ATACTTTGCTGCTTCACCGG 58.547 50.000 0.00 0.00 0.00 5.28
4180 6520 3.375299 CACCTATACTTTGCTGCTTCACC 59.625 47.826 0.00 0.00 0.00 4.02
4203 6543 6.479990 TCAGCTTTGGATGAGTATATCAAACG 59.520 38.462 0.00 0.00 42.53 3.60
4237 6577 0.247576 CGAATTGCTCTTCTGCTGCG 60.248 55.000 0.00 0.00 0.00 5.18
4442 6783 6.096705 TGGAAGCTTTGAAATTTGACTTCTGA 59.903 34.615 0.00 0.00 34.06 3.27
4443 6784 6.275335 TGGAAGCTTTGAAATTTGACTTCTG 58.725 36.000 0.00 0.00 34.06 3.02
4527 6869 9.421806 CTGCCTACAAATGAACATATTTTGAAA 57.578 29.630 4.27 0.00 0.00 2.69
4548 6890 4.399004 TTGTTTTGTTTATGTGCTGCCT 57.601 36.364 0.00 0.00 0.00 4.75
4558 6900 6.197364 AGATCCACACGTTTGTTTTGTTTA 57.803 33.333 0.36 0.00 31.66 2.01
4588 6930 9.807921 TGTGGATCTATATAGATGTACTGTCAA 57.192 33.333 26.47 5.29 42.79 3.18


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

AutoCloner maintained by Alex Coulton.