Multiple sequence alignment - TraesCS7A01G526600

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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 TraesCS7A01G526600 chr7A 100.000 3190 0 0 1 3190 708325426 708328615 0.000000e+00 5891
1 TraesCS7A01G526600 chr7A 81.864 1180 127 48 1095 2229 708319096 708320233 0.000000e+00 913
2 TraesCS7A01G526600 chr7A 80.423 756 95 28 2468 3190 144331573 144330838 7.840000e-146 527
3 TraesCS7A01G526600 chr7A 85.878 262 17 12 772 1021 708318804 708319057 8.780000e-66 261
4 TraesCS7A01G526600 chr7D 87.535 2519 192 50 722 3190 615774549 615776995 0.000000e+00 2800
5 TraesCS7A01G526600 chr7D 79.973 1468 186 68 790 2223 615559725 615558332 0.000000e+00 983
6 TraesCS7A01G526600 chr7D 85.410 939 90 26 1095 1998 615765511 615766437 0.000000e+00 931
7 TraesCS7A01G526600 chr7D 86.641 524 24 17 1 497 615773795 615774299 3.620000e-149 538
8 TraesCS7A01G526600 chr7D 80.321 747 104 32 2468 3190 141721527 141720800 2.820000e-145 525
9 TraesCS7A01G526600 chr7D 79.657 757 104 30 2462 3190 141558432 141559166 1.710000e-137 499
10 TraesCS7A01G526600 chr7D 87.826 115 9 4 2338 2451 615555551 615555441 2.580000e-26 130
11 TraesCS7A01G526600 chr7B 86.993 1776 150 33 682 2425 708552054 708553780 0.000000e+00 1925
12 TraesCS7A01G526600 chr7B 80.697 1694 199 69 772 2414 708445776 708447392 0.000000e+00 1199
13 TraesCS7A01G526600 chr7B 80.292 1710 193 75 772 2446 708511324 708512924 0.000000e+00 1158
14 TraesCS7A01G526600 chr7B 80.393 1576 190 79 893 2425 708529256 708530755 0.000000e+00 1088
15 TraesCS7A01G526600 chr3D 83.670 594 81 9 2468 3057 437945492 437944911 2.160000e-151 545
16 TraesCS7A01G526600 chr3D 79.902 408 60 13 3 407 85445702 85445314 2.420000e-71 279
17 TraesCS7A01G526600 chr1B 80.054 747 104 20 2468 3190 33471808 33471083 2.190000e-141 512
18 TraesCS7A01G526600 chr1B 84.615 117 7 6 3081 3190 486775719 486775831 4.350000e-19 106
19 TraesCS7A01G526600 chr5A 82.683 589 83 11 2457 3040 650200765 650201339 3.670000e-139 505
20 TraesCS7A01G526600 chr5A 98.684 152 2 0 503 654 51592901 51592750 1.460000e-68 270
21 TraesCS7A01G526600 chr5A 78.744 414 59 17 3 413 653843429 653843816 1.900000e-62 250
22 TraesCS7A01G526600 chr6D 84.600 513 64 8 2462 2971 83538559 83539059 2.210000e-136 496
23 TraesCS7A01G526600 chr6D 86.420 324 40 4 1104 1425 142139101 142138780 5.060000e-93 351
24 TraesCS7A01G526600 chr6D 77.859 411 59 11 1 408 3748027 3748408 3.200000e-55 226
25 TraesCS7A01G526600 chr2B 80.912 592 95 12 2462 3050 427887045 427887621 4.850000e-123 451
26 TraesCS7A01G526600 chr2B 84.755 387 40 8 35 414 657876257 657876631 1.400000e-98 370
27 TraesCS7A01G526600 chr2B 96.815 157 5 0 497 653 511155001 511155157 2.440000e-66 263
28 TraesCS7A01G526600 chr3A 85.819 409 41 12 9 414 658934881 658934487 4.920000e-113 418
29 TraesCS7A01G526600 chr4B 83.333 408 48 10 1 405 584967113 584967503 3.030000e-95 359
30 TraesCS7A01G526600 chr4B 99.333 150 1 0 503 652 312232748 312232599 4.050000e-69 272
31 TraesCS7A01G526600 chr1D 81.081 370 53 10 50 413 127180593 127180235 2.420000e-71 279
32 TraesCS7A01G526600 chr6A 99.342 152 1 0 503 654 485702574 485702725 3.130000e-70 276
33 TraesCS7A01G526600 chr6A 98.684 152 2 0 501 652 349509358 349509207 1.460000e-68 270
34 TraesCS7A01G526600 chr6A 79.336 271 36 6 6 275 3713203 3712952 4.230000e-39 172
35 TraesCS7A01G526600 chr1A 99.338 151 1 0 503 653 547918766 547918916 1.130000e-69 274
36 TraesCS7A01G526600 chr3B 98.639 147 2 0 503 649 625190855 625191001 8.780000e-66 261
37 TraesCS7A01G526600 chr2A 96.753 154 5 0 500 653 691671607 691671760 1.140000e-64 257
38 TraesCS7A01G526600 chr4A 97.333 150 4 0 503 652 201166813 201166962 4.080000e-64 255


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 TraesCS7A01G526600 chr7A 708325426 708328615 3189 False 5891.0 5891 100.0000 1 3190 1 chr7A.!!$F1 3189
1 TraesCS7A01G526600 chr7A 708318804 708320233 1429 False 587.0 913 83.8710 772 2229 2 chr7A.!!$F2 1457
2 TraesCS7A01G526600 chr7A 144330838 144331573 735 True 527.0 527 80.4230 2468 3190 1 chr7A.!!$R1 722
3 TraesCS7A01G526600 chr7D 615773795 615776995 3200 False 1669.0 2800 87.0880 1 3190 2 chr7D.!!$F3 3189
4 TraesCS7A01G526600 chr7D 615765511 615766437 926 False 931.0 931 85.4100 1095 1998 1 chr7D.!!$F2 903
5 TraesCS7A01G526600 chr7D 615555441 615559725 4284 True 556.5 983 83.8995 790 2451 2 chr7D.!!$R2 1661
6 TraesCS7A01G526600 chr7D 141720800 141721527 727 True 525.0 525 80.3210 2468 3190 1 chr7D.!!$R1 722
7 TraesCS7A01G526600 chr7D 141558432 141559166 734 False 499.0 499 79.6570 2462 3190 1 chr7D.!!$F1 728
8 TraesCS7A01G526600 chr7B 708552054 708553780 1726 False 1925.0 1925 86.9930 682 2425 1 chr7B.!!$F4 1743
9 TraesCS7A01G526600 chr7B 708445776 708447392 1616 False 1199.0 1199 80.6970 772 2414 1 chr7B.!!$F1 1642
10 TraesCS7A01G526600 chr7B 708511324 708512924 1600 False 1158.0 1158 80.2920 772 2446 1 chr7B.!!$F2 1674
11 TraesCS7A01G526600 chr7B 708529256 708530755 1499 False 1088.0 1088 80.3930 893 2425 1 chr7B.!!$F3 1532
12 TraesCS7A01G526600 chr3D 437944911 437945492 581 True 545.0 545 83.6700 2468 3057 1 chr3D.!!$R2 589
13 TraesCS7A01G526600 chr1B 33471083 33471808 725 True 512.0 512 80.0540 2468 3190 1 chr1B.!!$R1 722
14 TraesCS7A01G526600 chr5A 650200765 650201339 574 False 505.0 505 82.6830 2457 3040 1 chr5A.!!$F1 583
15 TraesCS7A01G526600 chr6D 83538559 83539059 500 False 496.0 496 84.6000 2462 2971 1 chr6D.!!$F2 509
16 TraesCS7A01G526600 chr2B 427887045 427887621 576 False 451.0 451 80.9120 2462 3050 1 chr2B.!!$F1 588

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
296 298 0.030235 TACTCGTCCATTCGCCGATG 59.970 55.0 0.0 0.0 0.00 3.84 F
581 609 0.035458 GCTGTGTTGCACCTAGTCCT 59.965 55.0 0.0 0.0 32.73 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2006 2476 1.017387 GAAAATGGCGGCTGTCCTAG 58.983 55.000 11.43 0.0 0.0 3.02 R
2327 5517 1.812507 ATAGGTTTTCGTCGCGCCC 60.813 57.895 0.00 0.0 0.0 6.13 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
66 67 6.288294 TCCGATCCCAGATAAACAAATACAG 58.712 40.000 0.00 0.00 0.00 2.74
84 85 2.093447 ACAGTGCTACCCTAATGTGAGC 60.093 50.000 0.00 0.00 0.00 4.26
94 95 4.225042 ACCCTAATGTGAGCATAACACTCA 59.775 41.667 0.00 0.00 41.78 3.41
141 143 8.861033 ACATACGATTCCAATTCAAAATCATG 57.139 30.769 0.00 0.00 31.25 3.07
230 232 4.202060 ACACATTGCAATTTCAACGTGGTA 60.202 37.500 18.53 0.00 42.40 3.25
250 252 4.037327 GGTAATAGACGTTGTCCTCCTACC 59.963 50.000 0.00 0.00 32.18 3.18
251 253 2.885135 TAGACGTTGTCCTCCTACCA 57.115 50.000 0.00 0.00 32.18 3.25
252 254 2.005370 AGACGTTGTCCTCCTACCAA 57.995 50.000 0.00 0.00 32.18 3.67
253 255 2.322658 AGACGTTGTCCTCCTACCAAA 58.677 47.619 0.00 0.00 32.18 3.28
254 256 2.904434 AGACGTTGTCCTCCTACCAAAT 59.096 45.455 0.00 0.00 32.18 2.32
255 257 3.056035 AGACGTTGTCCTCCTACCAAATC 60.056 47.826 0.00 0.00 32.18 2.17
256 258 2.027469 ACGTTGTCCTCCTACCAAATCC 60.027 50.000 0.00 0.00 0.00 3.01
257 259 2.027561 CGTTGTCCTCCTACCAAATCCA 60.028 50.000 0.00 0.00 0.00 3.41
291 293 4.593597 TTCAAATTACTCGTCCATTCGC 57.406 40.909 0.00 0.00 0.00 4.70
292 294 2.933906 TCAAATTACTCGTCCATTCGCC 59.066 45.455 0.00 0.00 0.00 5.54
293 295 1.567504 AATTACTCGTCCATTCGCCG 58.432 50.000 0.00 0.00 0.00 6.46
294 296 0.742505 ATTACTCGTCCATTCGCCGA 59.257 50.000 0.00 0.00 0.00 5.54
296 298 0.030235 TACTCGTCCATTCGCCGATG 59.970 55.000 0.00 0.00 0.00 3.84
297 299 1.226974 CTCGTCCATTCGCCGATGT 60.227 57.895 0.00 0.00 0.00 3.06
298 300 0.806102 CTCGTCCATTCGCCGATGTT 60.806 55.000 0.00 0.00 0.00 2.71
299 301 0.390603 TCGTCCATTCGCCGATGTTT 60.391 50.000 0.00 0.00 0.00 2.83
300 302 1.135053 TCGTCCATTCGCCGATGTTTA 60.135 47.619 0.00 0.00 0.00 2.01
301 303 1.661617 CGTCCATTCGCCGATGTTTAA 59.338 47.619 0.00 0.00 0.00 1.52
302 304 2.094575 CGTCCATTCGCCGATGTTTAAA 59.905 45.455 0.00 0.00 0.00 1.52
303 305 3.425094 CGTCCATTCGCCGATGTTTAAAA 60.425 43.478 0.00 0.00 0.00 1.52
304 306 4.477780 GTCCATTCGCCGATGTTTAAAAA 58.522 39.130 0.00 0.00 0.00 1.94
360 362 6.078664 AGAGGACCTACATTCCTACAATAGG 58.921 44.000 0.00 0.00 44.03 2.57
401 403 6.038271 AGTGACTACAACATGACCTTTTGTTC 59.962 38.462 0.00 0.00 33.93 3.18
459 487 9.959721 TTTTGATGATTTCCTAAGCTAGTAGTT 57.040 29.630 0.00 0.00 0.00 2.24
476 504 5.540911 AGTAGTTTCCCATCGTCGTTTTTA 58.459 37.500 0.00 0.00 0.00 1.52
501 529 2.992089 CGTAGGGGCATTGTGCTAG 58.008 57.895 1.64 0.00 44.28 3.42
502 530 1.160329 CGTAGGGGCATTGTGCTAGC 61.160 60.000 8.10 8.10 44.28 3.42
503 531 1.146041 TAGGGGCATTGTGCTAGCG 59.854 57.895 10.77 0.00 44.28 4.26
504 532 1.334384 TAGGGGCATTGTGCTAGCGA 61.334 55.000 10.77 0.00 44.28 4.93
505 533 1.748879 GGGGCATTGTGCTAGCGAA 60.749 57.895 10.77 5.82 44.28 4.70
506 534 1.312371 GGGGCATTGTGCTAGCGAAA 61.312 55.000 10.77 7.31 44.28 3.46
507 535 0.179163 GGGCATTGTGCTAGCGAAAC 60.179 55.000 10.77 3.29 44.28 2.78
508 536 0.804989 GGCATTGTGCTAGCGAAACT 59.195 50.000 10.77 0.00 44.28 2.66
509 537 2.006888 GGCATTGTGCTAGCGAAACTA 58.993 47.619 10.77 0.00 44.28 2.24
510 538 2.223044 GGCATTGTGCTAGCGAAACTAC 60.223 50.000 10.77 1.69 44.28 2.73
511 539 2.673368 GCATTGTGCTAGCGAAACTACT 59.327 45.455 10.77 0.00 40.96 2.57
512 540 3.125316 GCATTGTGCTAGCGAAACTACTT 59.875 43.478 10.77 0.00 40.96 2.24
513 541 4.725169 GCATTGTGCTAGCGAAACTACTTC 60.725 45.833 10.77 0.00 40.96 3.01
514 542 3.653539 TGTGCTAGCGAAACTACTTCA 57.346 42.857 10.77 0.00 33.17 3.02
515 543 3.314553 TGTGCTAGCGAAACTACTTCAC 58.685 45.455 10.77 0.00 33.17 3.18
516 544 3.243602 TGTGCTAGCGAAACTACTTCACA 60.244 43.478 10.77 0.96 33.17 3.58
517 545 3.365220 GTGCTAGCGAAACTACTTCACAG 59.635 47.826 10.77 0.00 33.17 3.66
518 546 3.254903 TGCTAGCGAAACTACTTCACAGA 59.745 43.478 10.77 0.00 33.17 3.41
519 547 3.608939 GCTAGCGAAACTACTTCACAGAC 59.391 47.826 0.00 0.00 33.17 3.51
520 548 2.662700 AGCGAAACTACTTCACAGACG 58.337 47.619 0.00 0.00 33.17 4.18
521 549 2.292569 AGCGAAACTACTTCACAGACGA 59.707 45.455 0.00 0.00 33.17 4.20
522 550 3.057456 AGCGAAACTACTTCACAGACGAT 60.057 43.478 0.00 0.00 33.17 3.73
523 551 4.155462 AGCGAAACTACTTCACAGACGATA 59.845 41.667 0.00 0.00 33.17 2.92
524 552 4.262510 GCGAAACTACTTCACAGACGATAC 59.737 45.833 0.00 0.00 33.17 2.24
525 553 5.629097 CGAAACTACTTCACAGACGATACT 58.371 41.667 0.00 0.00 33.17 2.12
526 554 5.508573 CGAAACTACTTCACAGACGATACTG 59.491 44.000 0.00 0.00 42.78 2.74
527 555 4.358494 ACTACTTCACAGACGATACTGC 57.642 45.455 0.00 0.00 41.06 4.40
528 556 4.011023 ACTACTTCACAGACGATACTGCT 58.989 43.478 0.00 0.00 41.06 4.24
529 557 3.223423 ACTTCACAGACGATACTGCTG 57.777 47.619 0.00 0.00 41.06 4.41
530 558 2.094494 ACTTCACAGACGATACTGCTGG 60.094 50.000 0.00 0.00 41.06 4.85
531 559 1.834188 TCACAGACGATACTGCTGGA 58.166 50.000 0.00 0.00 41.06 3.86
532 560 1.472878 TCACAGACGATACTGCTGGAC 59.527 52.381 0.00 0.00 41.06 4.02
533 561 0.452184 ACAGACGATACTGCTGGACG 59.548 55.000 0.00 0.00 41.06 4.79
534 562 0.733150 CAGACGATACTGCTGGACGA 59.267 55.000 11.48 0.00 0.00 4.20
535 563 1.335182 CAGACGATACTGCTGGACGAT 59.665 52.381 11.48 0.00 0.00 3.73
536 564 2.025155 AGACGATACTGCTGGACGATT 58.975 47.619 11.48 0.27 0.00 3.34
537 565 2.033550 AGACGATACTGCTGGACGATTC 59.966 50.000 11.48 2.79 0.00 2.52
538 566 1.749063 ACGATACTGCTGGACGATTCA 59.251 47.619 11.48 0.00 0.00 2.57
539 567 2.223595 ACGATACTGCTGGACGATTCAG 60.224 50.000 11.48 0.00 35.49 3.02
540 568 2.033424 CGATACTGCTGGACGATTCAGA 59.967 50.000 8.17 0.00 34.36 3.27
541 569 3.637432 GATACTGCTGGACGATTCAGAG 58.363 50.000 8.17 5.86 34.36 3.35
542 570 1.550327 ACTGCTGGACGATTCAGAGA 58.450 50.000 8.17 0.00 34.36 3.10
543 571 1.203523 ACTGCTGGACGATTCAGAGAC 59.796 52.381 8.17 0.00 34.36 3.36
544 572 0.171231 TGCTGGACGATTCAGAGACG 59.829 55.000 8.17 0.00 34.36 4.18
545 573 0.452184 GCTGGACGATTCAGAGACGA 59.548 55.000 8.17 0.00 34.36 4.20
546 574 1.066303 GCTGGACGATTCAGAGACGAT 59.934 52.381 8.17 0.00 34.36 3.73
547 575 2.290916 GCTGGACGATTCAGAGACGATA 59.709 50.000 8.17 0.00 34.36 2.92
548 576 3.057876 GCTGGACGATTCAGAGACGATAT 60.058 47.826 8.17 0.00 34.36 1.63
549 577 4.471373 CTGGACGATTCAGAGACGATATG 58.529 47.826 0.00 0.00 34.36 1.78
550 578 3.883489 TGGACGATTCAGAGACGATATGT 59.117 43.478 0.00 0.00 0.00 2.29
551 579 4.338400 TGGACGATTCAGAGACGATATGTT 59.662 41.667 0.00 0.00 0.00 2.71
552 580 5.163550 TGGACGATTCAGAGACGATATGTTT 60.164 40.000 0.00 0.00 0.00 2.83
553 581 6.038936 TGGACGATTCAGAGACGATATGTTTA 59.961 38.462 0.00 0.00 0.00 2.01
554 582 6.916387 GGACGATTCAGAGACGATATGTTTAA 59.084 38.462 0.00 0.00 0.00 1.52
555 583 7.595502 GGACGATTCAGAGACGATATGTTTAAT 59.404 37.037 0.00 0.00 0.00 1.40
556 584 8.508800 ACGATTCAGAGACGATATGTTTAATC 57.491 34.615 0.00 0.00 0.00 1.75
557 585 7.595502 ACGATTCAGAGACGATATGTTTAATCC 59.404 37.037 0.00 0.00 0.00 3.01
558 586 7.595130 CGATTCAGAGACGATATGTTTAATCCA 59.405 37.037 0.00 0.00 0.00 3.41
559 587 8.594881 ATTCAGAGACGATATGTTTAATCCAC 57.405 34.615 0.00 0.00 0.00 4.02
560 588 7.348080 TCAGAGACGATATGTTTAATCCACT 57.652 36.000 0.00 0.00 0.00 4.00
561 589 7.203218 TCAGAGACGATATGTTTAATCCACTG 58.797 38.462 0.00 0.00 0.00 3.66
562 590 6.422100 CAGAGACGATATGTTTAATCCACTGG 59.578 42.308 0.00 0.00 0.00 4.00
563 591 5.057149 AGACGATATGTTTAATCCACTGGC 58.943 41.667 0.00 0.00 0.00 4.85
564 592 5.036117 ACGATATGTTTAATCCACTGGCT 57.964 39.130 0.00 0.00 0.00 4.75
565 593 4.816385 ACGATATGTTTAATCCACTGGCTG 59.184 41.667 0.00 0.00 0.00 4.85
566 594 4.816385 CGATATGTTTAATCCACTGGCTGT 59.184 41.667 0.00 0.00 0.00 4.40
567 595 5.277490 CGATATGTTTAATCCACTGGCTGTG 60.277 44.000 16.66 16.66 45.80 3.66
568 596 3.222173 TGTTTAATCCACTGGCTGTGT 57.778 42.857 20.92 7.43 44.81 3.72
569 597 3.561143 TGTTTAATCCACTGGCTGTGTT 58.439 40.909 20.92 13.04 44.81 3.32
570 598 3.317711 TGTTTAATCCACTGGCTGTGTTG 59.682 43.478 20.92 8.73 44.81 3.33
571 599 1.533625 TAATCCACTGGCTGTGTTGC 58.466 50.000 20.92 0.00 44.81 4.17
572 600 0.467844 AATCCACTGGCTGTGTTGCA 60.468 50.000 20.92 4.82 44.81 4.08
573 601 1.174712 ATCCACTGGCTGTGTTGCAC 61.175 55.000 20.92 0.00 44.81 4.57
574 602 2.723746 CACTGGCTGTGTTGCACC 59.276 61.111 15.53 0.00 41.53 5.01
575 603 1.825191 CACTGGCTGTGTTGCACCT 60.825 57.895 15.53 0.00 41.53 4.00
576 604 0.534877 CACTGGCTGTGTTGCACCTA 60.535 55.000 15.53 0.00 41.53 3.08
577 605 0.250467 ACTGGCTGTGTTGCACCTAG 60.250 55.000 0.00 0.00 32.73 3.02
578 606 0.250467 CTGGCTGTGTTGCACCTAGT 60.250 55.000 0.00 0.00 32.73 2.57
579 607 0.250295 TGGCTGTGTTGCACCTAGTC 60.250 55.000 0.00 0.00 32.73 2.59
580 608 0.955919 GGCTGTGTTGCACCTAGTCC 60.956 60.000 0.00 0.00 32.73 3.85
581 609 0.035458 GCTGTGTTGCACCTAGTCCT 59.965 55.000 0.00 0.00 32.73 3.85
582 610 1.543429 GCTGTGTTGCACCTAGTCCTT 60.543 52.381 0.00 0.00 32.73 3.36
583 611 2.851195 CTGTGTTGCACCTAGTCCTTT 58.149 47.619 0.00 0.00 32.73 3.11
584 612 3.805807 GCTGTGTTGCACCTAGTCCTTTA 60.806 47.826 0.00 0.00 32.73 1.85
585 613 4.579869 CTGTGTTGCACCTAGTCCTTTAT 58.420 43.478 0.00 0.00 32.73 1.40
586 614 5.730550 CTGTGTTGCACCTAGTCCTTTATA 58.269 41.667 0.00 0.00 32.73 0.98
587 615 6.308015 TGTGTTGCACCTAGTCCTTTATAT 57.692 37.500 0.00 0.00 32.73 0.86
588 616 7.426606 TGTGTTGCACCTAGTCCTTTATATA 57.573 36.000 0.00 0.00 32.73 0.86
589 617 7.497595 TGTGTTGCACCTAGTCCTTTATATAG 58.502 38.462 0.00 0.00 32.73 1.31
590 618 7.343574 TGTGTTGCACCTAGTCCTTTATATAGA 59.656 37.037 0.00 0.00 32.73 1.98
591 619 8.368668 GTGTTGCACCTAGTCCTTTATATAGAT 58.631 37.037 0.00 0.00 0.00 1.98
592 620 8.367911 TGTTGCACCTAGTCCTTTATATAGATG 58.632 37.037 0.00 0.00 0.00 2.90
593 621 7.482169 TGCACCTAGTCCTTTATATAGATGG 57.518 40.000 0.00 0.00 0.00 3.51
594 622 7.016914 TGCACCTAGTCCTTTATATAGATGGT 58.983 38.462 0.00 0.00 0.00 3.55
595 623 7.178628 TGCACCTAGTCCTTTATATAGATGGTC 59.821 40.741 0.00 0.00 0.00 4.02
596 624 7.397761 GCACCTAGTCCTTTATATAGATGGTCT 59.602 40.741 0.00 0.00 0.00 3.85
597 625 8.744652 CACCTAGTCCTTTATATAGATGGTCTG 58.255 40.741 0.00 0.00 0.00 3.51
598 626 8.679725 ACCTAGTCCTTTATATAGATGGTCTGA 58.320 37.037 0.00 0.00 0.00 3.27
599 627 9.707957 CCTAGTCCTTTATATAGATGGTCTGAT 57.292 37.037 0.00 0.00 0.00 2.90
603 631 8.940952 GTCCTTTATATAGATGGTCTGATTTGC 58.059 37.037 0.00 0.00 0.00 3.68
604 632 8.659527 TCCTTTATATAGATGGTCTGATTTGCA 58.340 33.333 0.00 0.00 0.00 4.08
605 633 9.458727 CCTTTATATAGATGGTCTGATTTGCAT 57.541 33.333 0.00 0.00 0.00 3.96
610 638 5.936686 AGATGGTCTGATTTGCATTATCG 57.063 39.130 0.00 0.00 0.00 2.92
611 639 5.371526 AGATGGTCTGATTTGCATTATCGT 58.628 37.500 0.00 0.00 0.00 3.73
612 640 5.468072 AGATGGTCTGATTTGCATTATCGTC 59.532 40.000 0.00 0.00 0.00 4.20
613 641 3.876914 TGGTCTGATTTGCATTATCGTCC 59.123 43.478 0.00 0.00 0.00 4.79
614 642 3.876914 GGTCTGATTTGCATTATCGTCCA 59.123 43.478 0.00 0.00 0.00 4.02
615 643 4.335315 GGTCTGATTTGCATTATCGTCCAA 59.665 41.667 0.00 0.00 0.00 3.53
616 644 5.504665 GGTCTGATTTGCATTATCGTCCAAG 60.505 44.000 0.00 0.00 0.00 3.61
617 645 5.294306 GTCTGATTTGCATTATCGTCCAAGA 59.706 40.000 0.00 0.00 0.00 3.02
618 646 5.879777 TCTGATTTGCATTATCGTCCAAGAA 59.120 36.000 0.00 0.00 0.00 2.52
619 647 6.543465 TCTGATTTGCATTATCGTCCAAGAAT 59.457 34.615 0.00 0.00 0.00 2.40
620 648 6.728200 TGATTTGCATTATCGTCCAAGAATC 58.272 36.000 0.00 0.00 0.00 2.52
621 649 4.794248 TTGCATTATCGTCCAAGAATCG 57.206 40.909 0.00 0.00 0.00 3.34
622 650 3.792401 TGCATTATCGTCCAAGAATCGT 58.208 40.909 0.00 0.00 0.00 3.73
623 651 4.188462 TGCATTATCGTCCAAGAATCGTT 58.812 39.130 0.00 0.00 0.00 3.85
624 652 4.270084 TGCATTATCGTCCAAGAATCGTTC 59.730 41.667 0.00 0.00 0.00 3.95
625 653 4.270084 GCATTATCGTCCAAGAATCGTTCA 59.730 41.667 1.58 0.00 0.00 3.18
626 654 5.220586 GCATTATCGTCCAAGAATCGTTCAA 60.221 40.000 1.58 0.00 0.00 2.69
627 655 6.414079 CATTATCGTCCAAGAATCGTTCAAG 58.586 40.000 1.58 0.00 0.00 3.02
628 656 3.653539 TCGTCCAAGAATCGTTCAAGA 57.346 42.857 1.58 0.00 0.00 3.02
629 657 3.575630 TCGTCCAAGAATCGTTCAAGAG 58.424 45.455 1.58 0.00 0.00 2.85
630 658 3.005472 TCGTCCAAGAATCGTTCAAGAGT 59.995 43.478 1.58 0.00 0.00 3.24
631 659 4.216902 TCGTCCAAGAATCGTTCAAGAGTA 59.783 41.667 1.58 0.00 0.00 2.59
632 660 5.103000 CGTCCAAGAATCGTTCAAGAGTAT 58.897 41.667 1.58 0.00 0.00 2.12
633 661 5.230306 CGTCCAAGAATCGTTCAAGAGTATC 59.770 44.000 1.58 0.00 0.00 2.24
634 662 5.230306 GTCCAAGAATCGTTCAAGAGTATCG 59.770 44.000 1.58 0.00 42.67 2.92
635 663 5.103000 CCAAGAATCGTTCAAGAGTATCGT 58.897 41.667 1.58 0.00 42.67 3.73
636 664 5.004821 CCAAGAATCGTTCAAGAGTATCGTG 59.995 44.000 1.58 0.00 46.28 4.35
637 665 5.312120 AGAATCGTTCAAGAGTATCGTGT 57.688 39.130 1.58 0.00 45.12 4.49
638 666 5.096169 AGAATCGTTCAAGAGTATCGTGTG 58.904 41.667 1.58 0.00 45.12 3.82
639 667 2.592194 TCGTTCAAGAGTATCGTGTGC 58.408 47.619 0.00 0.00 45.12 4.57
640 668 2.030628 TCGTTCAAGAGTATCGTGTGCA 60.031 45.455 0.00 0.00 45.12 4.57
641 669 2.923655 CGTTCAAGAGTATCGTGTGCAT 59.076 45.455 0.00 0.00 45.12 3.96
642 670 4.102649 CGTTCAAGAGTATCGTGTGCATA 58.897 43.478 0.00 0.00 45.12 3.14
643 671 4.205181 CGTTCAAGAGTATCGTGTGCATAG 59.795 45.833 0.00 0.00 45.12 2.23
644 672 3.706698 TCAAGAGTATCGTGTGCATAGC 58.293 45.455 0.00 0.00 45.12 2.97
645 673 3.130340 TCAAGAGTATCGTGTGCATAGCA 59.870 43.478 0.00 0.00 45.12 3.49
646 674 3.361794 AGAGTATCGTGTGCATAGCAG 57.638 47.619 0.00 0.00 39.09 4.24
647 675 1.789464 GAGTATCGTGTGCATAGCAGC 59.211 52.381 0.00 0.00 40.08 5.25
648 676 1.136891 AGTATCGTGTGCATAGCAGCA 59.863 47.619 0.00 0.00 40.08 4.41
655 683 3.942351 TGCATAGCAGCACTCTTGT 57.058 47.368 0.00 0.00 40.11 3.16
656 684 1.445871 TGCATAGCAGCACTCTTGTG 58.554 50.000 0.00 0.00 40.11 3.33
684 712 8.429493 AGTACTACTAGAAAACAAACCAACAC 57.571 34.615 0.00 0.00 0.00 3.32
688 716 8.241367 ACTACTAGAAAACAAACCAACACAAAG 58.759 33.333 0.00 0.00 0.00 2.77
698 726 1.798813 CCAACACAAAGGACGCTACTC 59.201 52.381 0.00 0.00 0.00 2.59
742 1006 0.469144 AATCCACGGTGGCCAAAACT 60.469 50.000 22.42 0.00 37.47 2.66
755 1038 3.807622 GGCCAAAACTAAAACCAAGAAGC 59.192 43.478 0.00 0.00 0.00 3.86
814 1097 3.236618 GAAAACGACAAGCGCCGCT 62.237 57.895 5.39 5.39 46.04 5.52
830 1119 1.672854 CGCTGGTAGGATTGGACCGA 61.673 60.000 0.00 0.00 38.69 4.69
1088 1407 0.246086 CCAGCTAGCCAGATCGATCC 59.754 60.000 21.66 6.91 0.00 3.36
1262 1581 3.497115 TGCAACCAGCTGTCCCCA 61.497 61.111 13.81 1.57 45.94 4.96
1265 1584 3.971702 AACCAGCTGTCCCCAGGC 61.972 66.667 13.81 0.00 39.22 4.85
1496 1875 1.380403 CGGAGAGCACGTCTGGATCT 61.380 60.000 0.00 0.00 34.71 2.75
1508 1887 3.162154 GGATCTGGGTCGGGGTCC 61.162 72.222 0.00 0.00 0.00 4.46
1544 1923 3.381983 AGCGACGTCAGCCATGGA 61.382 61.111 18.40 0.00 34.64 3.41
1545 1924 2.434185 GCGACGTCAGCCATGGAA 60.434 61.111 18.40 0.00 0.00 3.53
1647 2038 2.765807 ATGAGGTGGAGCGGGAGG 60.766 66.667 0.00 0.00 0.00 4.30
1650 2041 4.787280 AGGTGGAGCGGGAGGAGG 62.787 72.222 0.00 0.00 0.00 4.30
1718 2115 0.916358 CAGAGGTCCAGGGGTTCCAT 60.916 60.000 0.00 0.00 34.83 3.41
1757 2154 2.525629 TTCCACCAGCCGTCTCCA 60.526 61.111 0.00 0.00 0.00 3.86
1761 2158 3.083997 ACCAGCCGTCTCCATCCC 61.084 66.667 0.00 0.00 0.00 3.85
1762 2159 3.866582 CCAGCCGTCTCCATCCCC 61.867 72.222 0.00 0.00 0.00 4.81
1763 2160 4.227134 CAGCCGTCTCCATCCCCG 62.227 72.222 0.00 0.00 0.00 5.73
1983 2399 1.667724 CGCAGTGACCAAGATCAATCC 59.332 52.381 0.00 0.00 0.00 3.01
2004 2474 1.408969 TCCATCCGGTCGATCAATCA 58.591 50.000 0.00 0.00 0.00 2.57
2005 2475 1.341209 TCCATCCGGTCGATCAATCAG 59.659 52.381 0.00 0.00 0.00 2.90
2006 2476 1.143305 CATCCGGTCGATCAATCAGC 58.857 55.000 0.00 0.00 0.00 4.26
2022 2492 2.190578 GCTAGGACAGCCGCCATT 59.809 61.111 0.00 0.00 45.23 3.16
2024 2494 1.032114 GCTAGGACAGCCGCCATTTT 61.032 55.000 0.00 0.00 45.23 1.82
2035 2505 1.522668 CGCCATTTTCTCAGTGGTCA 58.477 50.000 0.00 0.00 35.44 4.02
2045 2515 4.025040 TCTCAGTGGTCATGCTTCATTT 57.975 40.909 0.00 0.00 0.00 2.32
2058 2528 4.832248 TGCTTCATTTCGTTAGGATCTGT 58.168 39.130 0.00 0.00 0.00 3.41
2224 2712 5.867174 CACTCGTGTCACATTTGTATTCCTA 59.133 40.000 3.42 0.00 0.00 2.94
2292 5480 3.967467 ATCCCTCCTTTTGCATCTGAT 57.033 42.857 0.00 0.00 0.00 2.90
2414 5614 4.898829 AACAAATTTTCAGCAAAAGGCC 57.101 36.364 0.00 0.00 46.50 5.19
2425 5625 2.102578 GCAAAAGGCCCTCATGTATGT 58.897 47.619 0.00 0.00 36.11 2.29
2426 5626 3.053693 AGCAAAAGGCCCTCATGTATGTA 60.054 43.478 0.00 0.00 46.50 2.29
2427 5627 3.891366 GCAAAAGGCCCTCATGTATGTAT 59.109 43.478 0.00 0.00 36.11 2.29
2428 5628 4.261741 GCAAAAGGCCCTCATGTATGTATG 60.262 45.833 0.00 0.00 36.11 2.39
2434 5634 6.376248 AGGCCCTCATGTATGTATGAAAAAT 58.624 36.000 0.00 0.00 36.69 1.82
2481 5682 7.112122 ACATCATGTTGGATTCAGCTAAACTA 58.888 34.615 8.58 0.00 0.00 2.24
2484 5685 9.851686 ATCATGTTGGATTCAGCTAAACTATTA 57.148 29.630 0.00 0.00 0.00 0.98
2557 5758 1.761449 TACCCGTGCATTGCAATGAT 58.239 45.000 37.36 18.76 41.47 2.45
2896 6113 8.233190 CACAGATTTGGTCTTAAAAGAGTGATC 58.767 37.037 0.00 0.00 35.32 2.92
3030 6249 7.201911 GGGAATAGAAAATAAATCAGTGGGTGG 60.202 40.741 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.294449 TCTGGGATCGGATAGGTCAG 57.706 55.000 0.00 0.00 0.00 3.51
35 36 4.397919 TTATCTGGGATCGGATAGGTCA 57.602 45.455 0.00 0.00 40.97 4.02
45 46 6.543831 AGCACTGTATTTGTTTATCTGGGATC 59.456 38.462 0.00 0.00 0.00 3.36
66 67 2.691409 TGCTCACATTAGGGTAGCAC 57.309 50.000 0.00 0.00 38.22 4.40
122 124 7.910441 AACACCATGATTTTGAATTGGAATC 57.090 32.000 0.00 0.00 0.00 2.52
202 204 3.724508 TGAAATTGCAATGTGTTCGGT 57.275 38.095 13.82 0.00 0.00 4.69
230 232 3.705051 TGGTAGGAGGACAACGTCTATT 58.295 45.455 0.00 0.00 32.47 1.73
250 252 6.063640 TGAATGCATAAGATCGTGGATTTG 57.936 37.500 0.00 0.00 36.67 2.32
251 253 6.698008 TTGAATGCATAAGATCGTGGATTT 57.302 33.333 0.00 0.00 36.67 2.17
252 254 6.698008 TTTGAATGCATAAGATCGTGGATT 57.302 33.333 0.00 12.66 38.78 3.01
253 255 6.889301 ATTTGAATGCATAAGATCGTGGAT 57.111 33.333 0.00 0.00 0.00 3.41
254 256 6.698008 AATTTGAATGCATAAGATCGTGGA 57.302 33.333 0.00 0.00 0.00 4.02
255 257 7.642669 AGTAATTTGAATGCATAAGATCGTGG 58.357 34.615 0.00 0.00 0.00 4.94
256 258 7.528516 CGAGTAATTTGAATGCATAAGATCGTG 59.471 37.037 0.00 0.00 0.00 4.35
257 259 7.224753 ACGAGTAATTTGAATGCATAAGATCGT 59.775 33.333 0.00 4.35 0.00 3.73
360 362 5.869753 AGTCACTGATGATTTGTAAGTGC 57.130 39.130 0.00 0.00 38.48 4.40
426 450 8.848182 AGCTTAGGAAATCATCAAAAGATGATC 58.152 33.333 18.19 9.93 45.91 2.92
459 487 2.420722 GCCATAAAAACGACGATGGGAA 59.579 45.455 12.78 0.00 39.45 3.97
476 504 2.078665 AATGCCCCTACGGAGCCAT 61.079 57.895 0.00 0.00 0.00 4.40
488 516 0.179163 GTTTCGCTAGCACAATGCCC 60.179 55.000 16.45 0.00 46.52 5.36
495 523 3.314553 TGTGAAGTAGTTTCGCTAGCAC 58.685 45.455 16.45 5.49 44.75 4.40
496 524 3.254903 TCTGTGAAGTAGTTTCGCTAGCA 59.745 43.478 16.45 0.00 44.75 3.49
497 525 3.608939 GTCTGTGAAGTAGTTTCGCTAGC 59.391 47.826 4.06 4.06 44.75 3.42
498 526 3.846896 CGTCTGTGAAGTAGTTTCGCTAG 59.153 47.826 2.65 0.00 44.75 3.42
499 527 3.499537 TCGTCTGTGAAGTAGTTTCGCTA 59.500 43.478 2.65 0.00 44.75 4.26
500 528 2.292569 TCGTCTGTGAAGTAGTTTCGCT 59.707 45.455 2.65 0.00 44.75 4.93
501 529 2.658285 TCGTCTGTGAAGTAGTTTCGC 58.342 47.619 0.00 0.00 44.72 4.70
502 530 5.508573 CAGTATCGTCTGTGAAGTAGTTTCG 59.491 44.000 0.00 0.00 38.71 3.46
503 531 5.286558 GCAGTATCGTCTGTGAAGTAGTTTC 59.713 44.000 0.00 0.00 37.70 2.78
504 532 5.047943 AGCAGTATCGTCTGTGAAGTAGTTT 60.048 40.000 0.00 0.00 37.70 2.66
505 533 4.459685 AGCAGTATCGTCTGTGAAGTAGTT 59.540 41.667 0.00 0.00 37.70 2.24
506 534 4.011023 AGCAGTATCGTCTGTGAAGTAGT 58.989 43.478 0.00 0.00 37.70 2.73
507 535 4.346970 CAGCAGTATCGTCTGTGAAGTAG 58.653 47.826 0.00 0.00 37.70 2.57
508 536 3.128764 CCAGCAGTATCGTCTGTGAAGTA 59.871 47.826 0.00 0.00 37.70 2.24
509 537 2.094494 CCAGCAGTATCGTCTGTGAAGT 60.094 50.000 0.00 0.00 37.70 3.01
510 538 2.164422 TCCAGCAGTATCGTCTGTGAAG 59.836 50.000 0.00 0.00 37.70 3.02
511 539 2.094700 GTCCAGCAGTATCGTCTGTGAA 60.095 50.000 0.00 0.00 37.70 3.18
512 540 1.472878 GTCCAGCAGTATCGTCTGTGA 59.527 52.381 0.00 0.00 37.70 3.58
513 541 1.795525 CGTCCAGCAGTATCGTCTGTG 60.796 57.143 0.00 0.00 37.70 3.66
514 542 0.452184 CGTCCAGCAGTATCGTCTGT 59.548 55.000 0.00 0.00 37.70 3.41
515 543 0.733150 TCGTCCAGCAGTATCGTCTG 59.267 55.000 0.00 0.00 38.35 3.51
516 544 1.681538 ATCGTCCAGCAGTATCGTCT 58.318 50.000 0.00 0.00 0.00 4.18
517 545 2.223502 TGAATCGTCCAGCAGTATCGTC 60.224 50.000 0.00 0.00 0.00 4.20
518 546 1.749063 TGAATCGTCCAGCAGTATCGT 59.251 47.619 0.00 0.00 0.00 3.73
519 547 2.033424 TCTGAATCGTCCAGCAGTATCG 59.967 50.000 0.00 0.00 0.00 2.92
520 548 3.316588 TCTCTGAATCGTCCAGCAGTATC 59.683 47.826 0.00 0.00 0.00 2.24
521 549 3.067461 GTCTCTGAATCGTCCAGCAGTAT 59.933 47.826 0.00 0.00 0.00 2.12
522 550 2.423892 GTCTCTGAATCGTCCAGCAGTA 59.576 50.000 0.00 0.00 0.00 2.74
523 551 1.203523 GTCTCTGAATCGTCCAGCAGT 59.796 52.381 0.00 0.00 0.00 4.40
524 552 1.796982 CGTCTCTGAATCGTCCAGCAG 60.797 57.143 0.00 0.00 0.00 4.24
525 553 0.171231 CGTCTCTGAATCGTCCAGCA 59.829 55.000 0.00 0.00 0.00 4.41
526 554 0.452184 TCGTCTCTGAATCGTCCAGC 59.548 55.000 0.00 0.00 0.00 4.85
527 555 4.023622 ACATATCGTCTCTGAATCGTCCAG 60.024 45.833 0.00 0.00 0.00 3.86
528 556 3.883489 ACATATCGTCTCTGAATCGTCCA 59.117 43.478 2.21 0.00 0.00 4.02
529 557 4.491234 ACATATCGTCTCTGAATCGTCC 57.509 45.455 2.21 0.00 0.00 4.79
530 558 7.909777 TTAAACATATCGTCTCTGAATCGTC 57.090 36.000 2.21 0.00 0.00 4.20
531 559 7.595502 GGATTAAACATATCGTCTCTGAATCGT 59.404 37.037 2.21 0.00 0.00 3.73
532 560 7.595130 TGGATTAAACATATCGTCTCTGAATCG 59.405 37.037 0.00 0.00 0.00 3.34
533 561 8.704234 GTGGATTAAACATATCGTCTCTGAATC 58.296 37.037 0.00 0.00 0.00 2.52
534 562 8.424918 AGTGGATTAAACATATCGTCTCTGAAT 58.575 33.333 0.00 0.00 0.00 2.57
535 563 7.706607 CAGTGGATTAAACATATCGTCTCTGAA 59.293 37.037 0.00 0.00 0.00 3.02
536 564 7.203218 CAGTGGATTAAACATATCGTCTCTGA 58.797 38.462 0.00 0.00 0.00 3.27
537 565 6.422100 CCAGTGGATTAAACATATCGTCTCTG 59.578 42.308 1.68 0.00 0.00 3.35
538 566 6.516718 CCAGTGGATTAAACATATCGTCTCT 58.483 40.000 1.68 0.00 0.00 3.10
539 567 5.177696 GCCAGTGGATTAAACATATCGTCTC 59.822 44.000 15.20 0.00 0.00 3.36
540 568 5.057149 GCCAGTGGATTAAACATATCGTCT 58.943 41.667 15.20 0.00 0.00 4.18
541 569 5.050091 CAGCCAGTGGATTAAACATATCGTC 60.050 44.000 15.20 0.00 0.00 4.20
542 570 4.816385 CAGCCAGTGGATTAAACATATCGT 59.184 41.667 15.20 0.00 0.00 3.73
543 571 4.816385 ACAGCCAGTGGATTAAACATATCG 59.184 41.667 15.20 0.00 0.00 2.92
544 572 6.064846 CACAGCCAGTGGATTAAACATATC 57.935 41.667 15.20 0.00 44.69 1.63
563 591 2.550830 AAGGACTAGGTGCAACACAG 57.449 50.000 3.64 2.70 39.98 3.66
564 592 4.634012 ATAAAGGACTAGGTGCAACACA 57.366 40.909 3.64 0.00 39.98 3.72
565 593 7.723324 TCTATATAAAGGACTAGGTGCAACAC 58.277 38.462 3.64 0.00 39.98 3.32
566 594 7.907841 TCTATATAAAGGACTAGGTGCAACA 57.092 36.000 3.64 0.00 39.98 3.33
567 595 7.819900 CCATCTATATAAAGGACTAGGTGCAAC 59.180 40.741 0.00 0.00 0.00 4.17
568 596 7.512746 ACCATCTATATAAAGGACTAGGTGCAA 59.487 37.037 0.00 0.00 0.00 4.08
569 597 7.016914 ACCATCTATATAAAGGACTAGGTGCA 58.983 38.462 0.00 0.00 0.00 4.57
570 598 7.397761 AGACCATCTATATAAAGGACTAGGTGC 59.602 40.741 0.00 0.00 0.00 5.01
571 599 8.744652 CAGACCATCTATATAAAGGACTAGGTG 58.255 40.741 0.00 0.00 0.00 4.00
572 600 8.679725 TCAGACCATCTATATAAAGGACTAGGT 58.320 37.037 0.00 0.00 0.00 3.08
573 601 9.707957 ATCAGACCATCTATATAAAGGACTAGG 57.292 37.037 0.00 0.00 0.00 3.02
577 605 8.940952 GCAAATCAGACCATCTATATAAAGGAC 58.059 37.037 0.00 0.00 0.00 3.85
578 606 8.659527 TGCAAATCAGACCATCTATATAAAGGA 58.340 33.333 0.00 0.00 0.00 3.36
579 607 8.853077 TGCAAATCAGACCATCTATATAAAGG 57.147 34.615 0.00 0.00 0.00 3.11
584 612 9.322773 CGATAATGCAAATCAGACCATCTATAT 57.677 33.333 11.64 0.00 0.00 0.86
585 613 8.314021 ACGATAATGCAAATCAGACCATCTATA 58.686 33.333 11.64 0.00 0.00 1.31
586 614 7.164122 ACGATAATGCAAATCAGACCATCTAT 58.836 34.615 11.64 0.00 0.00 1.98
587 615 6.524734 ACGATAATGCAAATCAGACCATCTA 58.475 36.000 11.64 0.00 0.00 1.98
588 616 5.371526 ACGATAATGCAAATCAGACCATCT 58.628 37.500 11.64 0.00 0.00 2.90
589 617 5.334414 GGACGATAATGCAAATCAGACCATC 60.334 44.000 11.64 1.57 0.00 3.51
590 618 4.516698 GGACGATAATGCAAATCAGACCAT 59.483 41.667 11.64 0.00 0.00 3.55
591 619 3.876914 GGACGATAATGCAAATCAGACCA 59.123 43.478 11.64 0.00 0.00 4.02
592 620 3.876914 TGGACGATAATGCAAATCAGACC 59.123 43.478 11.64 12.49 0.00 3.85
593 621 5.294306 TCTTGGACGATAATGCAAATCAGAC 59.706 40.000 11.64 6.00 28.69 3.51
594 622 5.427378 TCTTGGACGATAATGCAAATCAGA 58.573 37.500 11.64 4.90 28.69 3.27
595 623 5.739752 TCTTGGACGATAATGCAAATCAG 57.260 39.130 11.64 7.55 28.69 2.90
596 624 6.511605 CGATTCTTGGACGATAATGCAAATCA 60.512 38.462 11.64 0.00 28.69 2.57
597 625 5.848036 CGATTCTTGGACGATAATGCAAATC 59.152 40.000 0.00 0.00 28.69 2.17
598 626 5.296780 ACGATTCTTGGACGATAATGCAAAT 59.703 36.000 0.00 0.00 28.69 2.32
599 627 4.634004 ACGATTCTTGGACGATAATGCAAA 59.366 37.500 0.00 0.00 28.69 3.68
600 628 4.188462 ACGATTCTTGGACGATAATGCAA 58.812 39.130 0.00 0.00 0.00 4.08
601 629 3.792401 ACGATTCTTGGACGATAATGCA 58.208 40.909 0.00 0.00 0.00 3.96
602 630 4.270084 TGAACGATTCTTGGACGATAATGC 59.730 41.667 0.00 0.00 0.00 3.56
603 631 5.966636 TGAACGATTCTTGGACGATAATG 57.033 39.130 0.00 0.00 0.00 1.90
604 632 6.338146 TCTTGAACGATTCTTGGACGATAAT 58.662 36.000 0.00 0.00 0.00 1.28
605 633 5.716094 TCTTGAACGATTCTTGGACGATAA 58.284 37.500 0.00 0.00 0.00 1.75
606 634 5.105877 ACTCTTGAACGATTCTTGGACGATA 60.106 40.000 0.00 0.00 0.00 2.92
607 635 4.177026 CTCTTGAACGATTCTTGGACGAT 58.823 43.478 0.00 0.00 0.00 3.73
608 636 3.005472 ACTCTTGAACGATTCTTGGACGA 59.995 43.478 0.00 0.00 0.00 4.20
609 637 3.318017 ACTCTTGAACGATTCTTGGACG 58.682 45.455 0.00 0.00 0.00 4.79
610 638 5.230306 CGATACTCTTGAACGATTCTTGGAC 59.770 44.000 0.00 0.00 0.00 4.02
611 639 5.105877 ACGATACTCTTGAACGATTCTTGGA 60.106 40.000 0.00 0.00 0.00 3.53
612 640 5.004821 CACGATACTCTTGAACGATTCTTGG 59.995 44.000 0.00 0.00 0.00 3.61
613 641 5.573282 ACACGATACTCTTGAACGATTCTTG 59.427 40.000 0.00 0.00 0.00 3.02
614 642 5.573282 CACACGATACTCTTGAACGATTCTT 59.427 40.000 0.00 0.00 0.00 2.52
615 643 5.096169 CACACGATACTCTTGAACGATTCT 58.904 41.667 0.00 0.00 0.00 2.40
616 644 4.259451 GCACACGATACTCTTGAACGATTC 60.259 45.833 0.00 0.00 0.00 2.52
617 645 3.612860 GCACACGATACTCTTGAACGATT 59.387 43.478 0.00 0.00 0.00 3.34
618 646 3.179830 GCACACGATACTCTTGAACGAT 58.820 45.455 0.00 0.00 0.00 3.73
619 647 2.030628 TGCACACGATACTCTTGAACGA 60.031 45.455 0.00 0.00 0.00 3.85
620 648 2.324860 TGCACACGATACTCTTGAACG 58.675 47.619 0.00 0.00 0.00 3.95
621 649 4.026475 GCTATGCACACGATACTCTTGAAC 60.026 45.833 0.00 0.00 0.00 3.18
622 650 4.112634 GCTATGCACACGATACTCTTGAA 58.887 43.478 0.00 0.00 0.00 2.69
623 651 3.130340 TGCTATGCACACGATACTCTTGA 59.870 43.478 0.00 0.00 31.71 3.02
624 652 3.447742 TGCTATGCACACGATACTCTTG 58.552 45.455 0.00 0.00 31.71 3.02
625 653 3.711086 CTGCTATGCACACGATACTCTT 58.289 45.455 0.00 0.00 33.79 2.85
626 654 2.544694 GCTGCTATGCACACGATACTCT 60.545 50.000 0.00 0.00 33.79 3.24
627 655 1.789464 GCTGCTATGCACACGATACTC 59.211 52.381 0.00 0.00 33.79 2.59
628 656 1.136891 TGCTGCTATGCACACGATACT 59.863 47.619 0.00 0.00 38.12 2.12
629 657 1.570813 TGCTGCTATGCACACGATAC 58.429 50.000 0.00 0.00 38.12 2.24
631 659 4.939399 TGCTGCTATGCACACGAT 57.061 50.000 0.00 0.00 38.12 3.73
637 665 1.445871 CACAAGAGTGCTGCTATGCA 58.554 50.000 0.00 0.00 39.21 3.96
647 675 7.612668 TTCTAGTAGTACTAGCACAAGAGTG 57.387 40.000 26.35 6.12 45.93 3.51
648 676 8.513774 GTTTTCTAGTAGTACTAGCACAAGAGT 58.486 37.037 26.35 0.00 45.93 3.24
649 677 8.512956 TGTTTTCTAGTAGTACTAGCACAAGAG 58.487 37.037 26.35 8.84 45.93 2.85
650 678 8.400184 TGTTTTCTAGTAGTACTAGCACAAGA 57.600 34.615 26.35 16.11 45.93 3.02
651 679 9.472361 TTTGTTTTCTAGTAGTACTAGCACAAG 57.528 33.333 27.27 14.69 45.93 3.16
652 680 9.252962 GTTTGTTTTCTAGTAGTACTAGCACAA 57.747 33.333 26.35 26.35 45.93 3.33
653 681 7.869429 GGTTTGTTTTCTAGTAGTACTAGCACA 59.131 37.037 26.35 23.46 45.93 4.57
654 682 7.869429 TGGTTTGTTTTCTAGTAGTACTAGCAC 59.131 37.037 26.35 21.77 45.93 4.40
655 683 7.954835 TGGTTTGTTTTCTAGTAGTACTAGCA 58.045 34.615 26.35 16.95 45.93 3.49
656 684 8.706936 GTTGGTTTGTTTTCTAGTAGTACTAGC 58.293 37.037 26.35 15.81 45.93 3.42
658 686 9.533253 GTGTTGGTTTGTTTTCTAGTAGTACTA 57.467 33.333 9.66 9.66 0.00 1.82
659 687 8.042515 TGTGTTGGTTTGTTTTCTAGTAGTACT 58.957 33.333 8.14 8.14 0.00 2.73
660 688 8.200364 TGTGTTGGTTTGTTTTCTAGTAGTAC 57.800 34.615 0.00 0.00 0.00 2.73
661 689 8.789825 TTGTGTTGGTTTGTTTTCTAGTAGTA 57.210 30.769 0.00 0.00 0.00 1.82
662 690 7.690952 TTGTGTTGGTTTGTTTTCTAGTAGT 57.309 32.000 0.00 0.00 0.00 2.73
663 691 7.700656 CCTTTGTGTTGGTTTGTTTTCTAGTAG 59.299 37.037 0.00 0.00 0.00 2.57
664 692 7.393796 TCCTTTGTGTTGGTTTGTTTTCTAGTA 59.606 33.333 0.00 0.00 0.00 1.82
665 693 6.209788 TCCTTTGTGTTGGTTTGTTTTCTAGT 59.790 34.615 0.00 0.00 0.00 2.57
666 694 6.530181 GTCCTTTGTGTTGGTTTGTTTTCTAG 59.470 38.462 0.00 0.00 0.00 2.43
667 695 6.391537 GTCCTTTGTGTTGGTTTGTTTTCTA 58.608 36.000 0.00 0.00 0.00 2.10
668 696 5.234752 GTCCTTTGTGTTGGTTTGTTTTCT 58.765 37.500 0.00 0.00 0.00 2.52
669 697 4.090786 CGTCCTTTGTGTTGGTTTGTTTTC 59.909 41.667 0.00 0.00 0.00 2.29
670 698 3.991121 CGTCCTTTGTGTTGGTTTGTTTT 59.009 39.130 0.00 0.00 0.00 2.43
671 699 3.580731 CGTCCTTTGTGTTGGTTTGTTT 58.419 40.909 0.00 0.00 0.00 2.83
672 700 2.672760 GCGTCCTTTGTGTTGGTTTGTT 60.673 45.455 0.00 0.00 0.00 2.83
673 701 1.135228 GCGTCCTTTGTGTTGGTTTGT 60.135 47.619 0.00 0.00 0.00 2.83
674 702 1.134175 AGCGTCCTTTGTGTTGGTTTG 59.866 47.619 0.00 0.00 0.00 2.93
675 703 1.470051 AGCGTCCTTTGTGTTGGTTT 58.530 45.000 0.00 0.00 0.00 3.27
676 704 1.944709 GTAGCGTCCTTTGTGTTGGTT 59.055 47.619 0.00 0.00 0.00 3.67
677 705 1.140252 AGTAGCGTCCTTTGTGTTGGT 59.860 47.619 0.00 0.00 0.00 3.67
678 706 1.798813 GAGTAGCGTCCTTTGTGTTGG 59.201 52.381 0.00 0.00 0.00 3.77
679 707 2.755650 AGAGTAGCGTCCTTTGTGTTG 58.244 47.619 0.00 0.00 0.00 3.33
680 708 3.305881 GGTAGAGTAGCGTCCTTTGTGTT 60.306 47.826 0.00 0.00 0.00 3.32
684 712 2.731341 CGTGGTAGAGTAGCGTCCTTTG 60.731 54.545 0.00 0.00 0.00 2.77
688 716 1.028868 ACCGTGGTAGAGTAGCGTCC 61.029 60.000 0.00 0.00 0.00 4.79
742 1006 0.896479 GGGCCCGCTTCTTGGTTTTA 60.896 55.000 5.69 0.00 0.00 1.52
793 1076 2.052590 GCGCTTGTCGTTTTCGCA 60.053 55.556 0.00 0.00 44.50 5.10
814 1097 0.906775 GGTTCGGTCCAATCCTACCA 59.093 55.000 0.00 0.00 35.35 3.25
935 1227 0.542805 GGTATTTGTAGCCGGGGACA 59.457 55.000 2.18 0.00 0.00 4.02
1088 1407 2.280389 CACCCCTCCATCGCGATG 60.280 66.667 36.28 36.28 38.51 3.84
1490 1851 2.365105 GACCCCGACCCAGATCCA 60.365 66.667 0.00 0.00 0.00 3.41
1533 1912 1.537202 GAACACACTTCCATGGCTGAC 59.463 52.381 6.96 0.00 0.00 3.51
1544 1923 2.030562 CCGAGCCCGAACACACTT 59.969 61.111 0.00 0.00 38.22 3.16
1545 1924 4.681978 GCCGAGCCCGAACACACT 62.682 66.667 0.00 0.00 38.22 3.55
1631 2013 3.965026 CTCCTCCCGCTCCACCTCA 62.965 68.421 0.00 0.00 0.00 3.86
1692 2083 3.314331 CTGGACCTCTGTGGCCGT 61.314 66.667 0.00 0.00 40.22 5.68
1693 2084 4.087892 CCTGGACCTCTGTGGCCG 62.088 72.222 0.00 0.00 40.22 6.13
1694 2085 3.721706 CCCTGGACCTCTGTGGCC 61.722 72.222 0.00 0.00 40.22 5.36
1695 2086 3.721706 CCCCTGGACCTCTGTGGC 61.722 72.222 0.00 0.00 40.22 5.01
1696 2087 1.842381 GAACCCCTGGACCTCTGTGG 61.842 65.000 0.00 0.00 42.93 4.17
1697 2088 1.679898 GAACCCCTGGACCTCTGTG 59.320 63.158 0.00 0.00 0.00 3.66
1703 2094 1.303282 GTGATGGAACCCCTGGACC 59.697 63.158 0.00 0.00 0.00 4.46
1718 2115 3.051210 CTGTGGGAGCTGTCGTGA 58.949 61.111 0.00 0.00 0.00 4.35
1739 2136 1.903877 ATGGAGACGGCTGGTGGAAG 61.904 60.000 0.00 0.00 0.00 3.46
1796 2193 1.067582 CTCGGGGCTGAACGGATAC 59.932 63.158 0.00 0.00 0.00 2.24
1799 2214 2.920912 AACTCGGGGCTGAACGGA 60.921 61.111 0.00 0.00 0.00 4.69
1856 2271 1.359475 GACGCCGGAGATGTACCTC 59.641 63.158 13.83 0.00 0.00 3.85
1883 2298 3.965258 ATGGACGGCAGGTTGGCA 61.965 61.111 0.00 0.00 43.94 4.92
1983 2399 2.289010 TGATTGATCGACCGGATGGATG 60.289 50.000 9.46 0.00 39.21 3.51
2006 2476 1.017387 GAAAATGGCGGCTGTCCTAG 58.983 55.000 11.43 0.00 0.00 3.02
2022 2492 3.490439 TGAAGCATGACCACTGAGAAA 57.510 42.857 0.00 0.00 0.00 2.52
2024 2494 3.708403 AATGAAGCATGACCACTGAGA 57.292 42.857 0.00 0.00 0.00 3.27
2035 2505 5.431765 ACAGATCCTAACGAAATGAAGCAT 58.568 37.500 0.00 0.00 0.00 3.79
2045 2515 5.498393 ACTTCAGACTACAGATCCTAACGA 58.502 41.667 0.00 0.00 0.00 3.85
2058 2528 7.039714 TGCTAATTCAGTTCAGACTTCAGACTA 60.040 37.037 0.00 0.00 32.54 2.59
2128 2606 4.276926 ACAGAAAGAAAGAAGCAAAGCGAT 59.723 37.500 0.00 0.00 0.00 4.58
2129 2607 3.627577 ACAGAAAGAAAGAAGCAAAGCGA 59.372 39.130 0.00 0.00 0.00 4.93
2205 2693 6.715344 TTCGTAGGAATACAAATGTGACAC 57.285 37.500 0.00 0.00 0.00 3.67
2224 2712 2.032030 CGTACGGGTATTCGGTATTCGT 60.032 50.000 7.57 0.00 40.32 3.85
2268 5448 4.840115 TCAGATGCAAAAGGAGGGATTTTT 59.160 37.500 0.00 0.00 0.00 1.94
2271 5451 3.744940 TCAGATGCAAAAGGAGGGATT 57.255 42.857 0.00 0.00 0.00 3.01
2306 5494 2.270923 CTTGCACGCTTGATGCTACTA 58.729 47.619 0.00 0.00 43.77 1.82
2311 5499 2.180017 CCCTTGCACGCTTGATGC 59.820 61.111 0.00 0.00 43.68 3.91
2326 5516 3.938019 TAGGTTTTCGTCGCGCCCC 62.938 63.158 0.00 0.00 0.00 5.80
2327 5517 1.812507 ATAGGTTTTCGTCGCGCCC 60.813 57.895 0.00 0.00 0.00 6.13
2451 5651 5.067413 AGCTGAATCCAACATGATGTTCATC 59.933 40.000 8.03 5.24 38.77 2.92
2484 5685 8.255206 TGAAGTGTCAGTATTATGTTTCGGTAT 58.745 33.333 0.00 0.00 0.00 2.73
2614 5816 0.102844 GCAGCCTGTTGTGCAAGAAA 59.897 50.000 0.00 0.00 39.62 2.52
2718 5933 7.523293 TGGTTGCCAATATATCCATTTACAG 57.477 36.000 0.00 0.00 0.00 2.74
2866 6083 3.449746 TTAAGACCAAATCTGTGGGGG 57.550 47.619 0.00 0.00 43.56 5.40
2867 6084 5.076873 TCTTTTAAGACCAAATCTGTGGGG 58.923 41.667 0.00 0.00 43.56 4.96
2868 6085 5.770162 ACTCTTTTAAGACCAAATCTGTGGG 59.230 40.000 0.00 0.00 43.56 4.61
3001 6220 7.069344 CCACTGATTTATTTTCTATTCCCCCT 58.931 38.462 0.00 0.00 0.00 4.79
3030 6249 2.100197 GCCTCCATTCCAGTTAAACCC 58.900 52.381 0.00 0.00 0.00 4.11
3124 6362 9.546428 CTATGTTTCATTTTCTTGGTTTCCTTT 57.454 29.630 0.00 0.00 0.00 3.11
3125 6363 8.923270 TCTATGTTTCATTTTCTTGGTTTCCTT 58.077 29.630 0.00 0.00 0.00 3.36
3127 6365 9.541143 TTTCTATGTTTCATTTTCTTGGTTTCC 57.459 29.630 0.00 0.00 0.00 3.13


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

AutoCloner maintained by Alex Coulton.