Multiple sequence alignment - TraesCS7B01G050900

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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 TraesCS7B01G050900 chr7B 100.000 3032 0 0 1 3032 52912356 52909325 0.000000e+00 5600.0
1 TraesCS7B01G050900 chr7B 96.779 1366 40 3 1068 2431 615162050 615163413 0.000000e+00 2276.0
2 TraesCS7B01G050900 chr7B 92.388 289 22 0 2743 3031 615163591 615163879 2.180000e-111 412.0
3 TraesCS7B01G050900 chr7B 91.506 259 10 3 832 1078 615161691 615161949 2.240000e-91 346.0
4 TraesCS7B01G050900 chr7B 93.578 218 14 0 2526 2743 615163413 615163630 2.920000e-85 326.0
5 TraesCS7B01G050900 chr7D 96.154 2314 64 10 731 3032 98293892 98291592 0.000000e+00 3757.0
6 TraesCS7B01G050900 chr4D 86.170 94 12 1 2465 2558 63223226 63223318 1.920000e-17 100.0
7 TraesCS7B01G050900 chr4B 84.314 102 13 3 2460 2559 93734356 93734456 2.490000e-16 97.1


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 TraesCS7B01G050900 chr7B 52909325 52912356 3031 True 5600 5600 100.00000 1 3032 1 chr7B.!!$R1 3031
1 TraesCS7B01G050900 chr7B 615161691 615163879 2188 False 840 2276 93.56275 832 3031 4 chr7B.!!$F1 2199
2 TraesCS7B01G050900 chr7D 98291592 98293892 2300 True 3757 3757 96.15400 731 3032 1 chr7D.!!$R1 2301

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
703 704 0.034089 AGCTAATGGACTGGCCCAAC 60.034 55.0 0.0 0.0 40.04 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2050 2177 0.889186 GTTCACCTCCACGCCATTGT 60.889 55.0 0.0 0.0 0.0 2.71 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
110 111 8.519492 ACCGAATGTTCATGAATTAAAAACTG 57.481 30.769 12.12 0.00 0.00 3.16
111 112 8.356657 ACCGAATGTTCATGAATTAAAAACTGA 58.643 29.630 12.12 0.00 0.00 3.41
112 113 8.638565 CCGAATGTTCATGAATTAAAAACTGAC 58.361 33.333 12.12 0.00 0.00 3.51
113 114 9.179552 CGAATGTTCATGAATTAAAAACTGACA 57.820 29.630 12.12 1.00 0.00 3.58
132 133 9.683069 AACTGACAATGAATTCACTAAATGTTC 57.317 29.630 11.07 6.51 0.00 3.18
133 134 8.849168 ACTGACAATGAATTCACTAAATGTTCA 58.151 29.630 11.07 9.80 33.82 3.18
134 135 9.850628 CTGACAATGAATTCACTAAATGTTCAT 57.149 29.630 11.07 0.00 40.22 2.57
135 136 9.628746 TGACAATGAATTCACTAAATGTTCATG 57.371 29.630 11.07 0.00 38.93 3.07
136 137 9.844790 GACAATGAATTCACTAAATGTTCATGA 57.155 29.630 11.07 0.00 38.93 3.07
154 155 9.689976 TGTTCATGAAATCATAAAAATGTTCGT 57.310 25.926 10.35 0.00 34.26 3.85
155 156 9.941991 GTTCATGAAATCATAAAAATGTTCGTG 57.058 29.630 10.35 0.00 34.26 4.35
156 157 9.905171 TTCATGAAATCATAAAAATGTTCGTGA 57.095 25.926 5.45 8.44 38.55 4.35
157 158 9.905171 TCATGAAATCATAAAAATGTTCGTGAA 57.095 25.926 0.00 0.00 37.81 3.18
213 214 9.750125 ATTAGGAGAATTCAAAAACTTGTTCAC 57.250 29.630 8.44 0.00 0.00 3.18
214 215 6.573434 AGGAGAATTCAAAAACTTGTTCACC 58.427 36.000 8.44 0.00 0.00 4.02
215 216 6.154363 AGGAGAATTCAAAAACTTGTTCACCA 59.846 34.615 8.44 0.00 31.50 4.17
216 217 6.816140 GGAGAATTCAAAAACTTGTTCACCAA 59.184 34.615 8.44 0.00 0.00 3.67
217 218 7.495606 GGAGAATTCAAAAACTTGTTCACCAAT 59.504 33.333 8.44 0.00 31.20 3.16
218 219 8.791327 AGAATTCAAAAACTTGTTCACCAATT 57.209 26.923 8.44 0.00 31.20 2.32
219 220 8.882736 AGAATTCAAAAACTTGTTCACCAATTC 58.117 29.630 8.44 0.00 31.20 2.17
220 221 8.558973 AATTCAAAAACTTGTTCACCAATTCA 57.441 26.923 0.00 0.00 31.20 2.57
221 222 7.969536 TTCAAAAACTTGTTCACCAATTCAA 57.030 28.000 0.00 0.00 31.20 2.69
222 223 7.969536 TCAAAAACTTGTTCACCAATTCAAA 57.030 28.000 0.00 0.00 31.20 2.69
223 224 8.383318 TCAAAAACTTGTTCACCAATTCAAAA 57.617 26.923 0.00 0.00 31.20 2.44
224 225 8.840321 TCAAAAACTTGTTCACCAATTCAAAAA 58.160 25.926 0.00 0.00 31.20 1.94
266 267 7.769272 AAAATGTTCATGATTTCAAACACGT 57.231 28.000 0.00 0.00 31.73 4.49
267 268 7.769272 AAATGTTCATGATTTCAAACACGTT 57.231 28.000 0.00 0.00 31.73 3.99
268 269 6.991485 ATGTTCATGATTTCAAACACGTTC 57.009 33.333 0.00 0.00 31.73 3.95
269 270 5.884771 TGTTCATGATTTCAAACACGTTCA 58.115 33.333 0.00 0.00 0.00 3.18
270 271 6.502652 TGTTCATGATTTCAAACACGTTCAT 58.497 32.000 0.00 0.00 0.00 2.57
271 272 6.417339 TGTTCATGATTTCAAACACGTTCATG 59.583 34.615 13.77 13.77 40.98 3.07
272 273 6.311055 TCATGATTTCAAACACGTTCATGA 57.689 33.333 17.11 17.11 44.16 3.07
273 274 6.733145 TCATGATTTCAAACACGTTCATGAA 58.267 32.000 18.20 3.38 43.69 2.57
274 275 7.369607 TCATGATTTCAAACACGTTCATGAAT 58.630 30.769 18.20 0.00 43.69 2.57
275 276 7.866898 TCATGATTTCAAACACGTTCATGAATT 59.133 29.630 18.20 10.39 43.69 2.17
276 277 8.489559 CATGATTTCAAACACGTTCATGAATTT 58.510 29.630 12.12 5.20 41.74 1.82
277 278 8.060020 TGATTTCAAACACGTTCATGAATTTC 57.940 30.769 12.12 0.00 32.35 2.17
278 279 7.704047 TGATTTCAAACACGTTCATGAATTTCA 59.296 29.630 12.12 0.75 32.35 2.69
279 280 6.804534 TTCAAACACGTTCATGAATTTCAC 57.195 33.333 12.12 0.00 0.00 3.18
280 281 5.884771 TCAAACACGTTCATGAATTTCACA 58.115 33.333 12.12 0.00 0.00 3.58
281 282 6.325596 TCAAACACGTTCATGAATTTCACAA 58.674 32.000 12.12 0.00 0.00 3.33
282 283 6.808704 TCAAACACGTTCATGAATTTCACAAA 59.191 30.769 12.12 0.00 0.00 2.83
283 284 7.329471 TCAAACACGTTCATGAATTTCACAAAA 59.671 29.630 12.12 0.00 0.00 2.44
284 285 7.588143 AACACGTTCATGAATTTCACAAAAA 57.412 28.000 12.12 0.00 0.00 1.94
344 345 9.519191 AATATTCATGAATTCGAATATGGTCCA 57.481 29.630 25.26 3.41 41.66 4.02
345 346 7.822161 ATTCATGAATTCGAATATGGTCCAA 57.178 32.000 15.36 3.59 30.12 3.53
346 347 6.866010 TCATGAATTCGAATATGGTCCAAG 57.134 37.500 11.83 1.28 0.00 3.61
347 348 6.591001 TCATGAATTCGAATATGGTCCAAGA 58.409 36.000 11.83 3.41 0.00 3.02
348 349 7.053498 TCATGAATTCGAATATGGTCCAAGAA 58.947 34.615 11.83 0.00 0.00 2.52
349 350 7.720957 TCATGAATTCGAATATGGTCCAAGAAT 59.279 33.333 11.83 0.26 0.00 2.40
350 351 7.880160 TGAATTCGAATATGGTCCAAGAATT 57.120 32.000 11.83 15.89 38.87 2.17
351 352 8.292444 TGAATTCGAATATGGTCCAAGAATTT 57.708 30.769 11.83 0.00 37.09 1.82
352 353 9.402320 TGAATTCGAATATGGTCCAAGAATTTA 57.598 29.630 11.83 12.69 37.09 1.40
358 359 9.855021 CGAATATGGTCCAAGAATTTAAAAAGT 57.145 29.630 0.00 0.00 0.00 2.66
363 364 9.898152 ATGGTCCAAGAATTTAAAAAGTTTGAA 57.102 25.926 0.00 0.00 0.00 2.69
364 365 9.726438 TGGTCCAAGAATTTAAAAAGTTTGAAA 57.274 25.926 0.00 0.00 0.00 2.69
438 439 7.684062 AAAATGTTCACGAGTTTGAGAATTG 57.316 32.000 0.00 0.00 0.00 2.32
439 440 6.377327 AATGTTCACGAGTTTGAGAATTGT 57.623 33.333 0.00 0.00 0.00 2.71
440 441 5.155509 TGTTCACGAGTTTGAGAATTGTG 57.844 39.130 0.00 0.00 0.00 3.33
441 442 3.878086 TCACGAGTTTGAGAATTGTGC 57.122 42.857 0.00 0.00 0.00 4.57
442 443 3.202097 TCACGAGTTTGAGAATTGTGCA 58.798 40.909 0.00 0.00 0.00 4.57
443 444 3.002246 TCACGAGTTTGAGAATTGTGCAC 59.998 43.478 10.75 10.75 0.00 4.57
444 445 3.002656 CACGAGTTTGAGAATTGTGCACT 59.997 43.478 19.41 0.00 0.00 4.40
445 446 4.211164 CACGAGTTTGAGAATTGTGCACTA 59.789 41.667 19.41 11.52 0.00 2.74
446 447 4.814234 ACGAGTTTGAGAATTGTGCACTAA 59.186 37.500 19.41 11.06 0.00 2.24
447 448 5.470098 ACGAGTTTGAGAATTGTGCACTAAT 59.530 36.000 19.41 12.86 0.00 1.73
448 449 6.017109 ACGAGTTTGAGAATTGTGCACTAATT 60.017 34.615 19.41 19.86 0.00 1.40
449 450 6.857964 CGAGTTTGAGAATTGTGCACTAATTT 59.142 34.615 19.41 2.34 0.00 1.82
450 451 7.149080 CGAGTTTGAGAATTGTGCACTAATTTG 60.149 37.037 19.41 0.04 0.00 2.32
451 452 6.925165 AGTTTGAGAATTGTGCACTAATTTGG 59.075 34.615 19.41 0.00 0.00 3.28
452 453 6.647334 TTGAGAATTGTGCACTAATTTGGA 57.353 33.333 19.41 7.22 0.00 3.53
453 454 6.647334 TGAGAATTGTGCACTAATTTGGAA 57.353 33.333 19.41 1.00 0.00 3.53
454 455 7.048629 TGAGAATTGTGCACTAATTTGGAAA 57.951 32.000 19.41 0.20 0.00 3.13
455 456 7.669427 TGAGAATTGTGCACTAATTTGGAAAT 58.331 30.769 19.41 2.86 0.00 2.17
456 457 8.801299 TGAGAATTGTGCACTAATTTGGAAATA 58.199 29.630 19.41 4.38 0.00 1.40
457 458 9.807649 GAGAATTGTGCACTAATTTGGAAATAT 57.192 29.630 19.41 0.00 0.00 1.28
460 461 8.633075 ATTGTGCACTAATTTGGAAATATTCG 57.367 30.769 19.41 0.00 0.00 3.34
461 462 7.384439 TGTGCACTAATTTGGAAATATTCGA 57.616 32.000 19.41 0.00 0.00 3.71
462 463 7.821652 TGTGCACTAATTTGGAAATATTCGAA 58.178 30.769 19.41 0.00 0.00 3.71
463 464 8.465999 TGTGCACTAATTTGGAAATATTCGAAT 58.534 29.630 19.41 16.15 0.00 3.34
464 465 9.944663 GTGCACTAATTTGGAAATATTCGAATA 57.055 29.630 19.63 19.63 0.00 1.75
519 520 9.672086 ATTCTCAATTTTCGTAAATGTTTCGAA 57.328 25.926 0.41 0.00 40.84 3.71
520 521 9.672086 TTCTCAATTTTCGTAAATGTTTCGAAT 57.328 25.926 0.00 0.00 41.83 3.34
521 522 9.672086 TCTCAATTTTCGTAAATGTTTCGAATT 57.328 25.926 0.00 0.00 41.83 2.17
568 569 9.982651 AAAGAGGGAAAAGTTAAATAAGAAAGC 57.017 29.630 0.00 0.00 0.00 3.51
569 570 8.706322 AGAGGGAAAAGTTAAATAAGAAAGCA 57.294 30.769 0.00 0.00 0.00 3.91
570 571 9.143155 AGAGGGAAAAGTTAAATAAGAAAGCAA 57.857 29.630 0.00 0.00 0.00 3.91
571 572 9.411801 GAGGGAAAAGTTAAATAAGAAAGCAAG 57.588 33.333 0.00 0.00 0.00 4.01
572 573 9.143155 AGGGAAAAGTTAAATAAGAAAGCAAGA 57.857 29.630 0.00 0.00 0.00 3.02
573 574 9.411801 GGGAAAAGTTAAATAAGAAAGCAAGAG 57.588 33.333 0.00 0.00 0.00 2.85
577 578 9.574516 AAAGTTAAATAAGAAAGCAAGAGAGGA 57.425 29.630 0.00 0.00 0.00 3.71
578 579 8.554835 AGTTAAATAAGAAAGCAAGAGAGGAC 57.445 34.615 0.00 0.00 0.00 3.85
579 580 8.157476 AGTTAAATAAGAAAGCAAGAGAGGACA 58.843 33.333 0.00 0.00 0.00 4.02
580 581 8.784043 GTTAAATAAGAAAGCAAGAGAGGACAA 58.216 33.333 0.00 0.00 0.00 3.18
581 582 7.823745 AAATAAGAAAGCAAGAGAGGACAAA 57.176 32.000 0.00 0.00 0.00 2.83
582 583 7.446001 AATAAGAAAGCAAGAGAGGACAAAG 57.554 36.000 0.00 0.00 0.00 2.77
583 584 4.696479 AGAAAGCAAGAGAGGACAAAGA 57.304 40.909 0.00 0.00 0.00 2.52
584 585 5.041191 AGAAAGCAAGAGAGGACAAAGAA 57.959 39.130 0.00 0.00 0.00 2.52
585 586 5.440610 AGAAAGCAAGAGAGGACAAAGAAA 58.559 37.500 0.00 0.00 0.00 2.52
586 587 6.067350 AGAAAGCAAGAGAGGACAAAGAAAT 58.933 36.000 0.00 0.00 0.00 2.17
587 588 5.956068 AAGCAAGAGAGGACAAAGAAATC 57.044 39.130 0.00 0.00 0.00 2.17
588 589 4.331108 AGCAAGAGAGGACAAAGAAATCC 58.669 43.478 0.00 0.00 34.98 3.01
589 590 4.074970 GCAAGAGAGGACAAAGAAATCCA 58.925 43.478 0.00 0.00 37.47 3.41
590 591 4.520492 GCAAGAGAGGACAAAGAAATCCAA 59.480 41.667 0.00 0.00 37.47 3.53
591 592 5.010012 GCAAGAGAGGACAAAGAAATCCAAA 59.990 40.000 0.00 0.00 37.47 3.28
592 593 6.461509 GCAAGAGAGGACAAAGAAATCCAAAA 60.462 38.462 0.00 0.00 37.47 2.44
593 594 6.641169 AGAGAGGACAAAGAAATCCAAAAC 57.359 37.500 0.00 0.00 37.47 2.43
594 595 5.239525 AGAGAGGACAAAGAAATCCAAAACG 59.760 40.000 0.00 0.00 37.47 3.60
595 596 5.130350 AGAGGACAAAGAAATCCAAAACGA 58.870 37.500 0.00 0.00 37.47 3.85
596 597 5.592688 AGAGGACAAAGAAATCCAAAACGAA 59.407 36.000 0.00 0.00 37.47 3.85
597 598 6.096282 AGAGGACAAAGAAATCCAAAACGAAA 59.904 34.615 0.00 0.00 37.47 3.46
598 599 6.635755 AGGACAAAGAAATCCAAAACGAAAA 58.364 32.000 0.00 0.00 37.47 2.29
599 600 7.100409 AGGACAAAGAAATCCAAAACGAAAAA 58.900 30.769 0.00 0.00 37.47 1.94
642 643 5.934935 AAACACAGAAACATACTAACGGG 57.065 39.130 0.00 0.00 0.00 5.28
643 644 3.332034 ACACAGAAACATACTAACGGGC 58.668 45.455 0.00 0.00 0.00 6.13
644 645 2.676342 CACAGAAACATACTAACGGGCC 59.324 50.000 0.00 0.00 0.00 5.80
645 646 2.303600 ACAGAAACATACTAACGGGCCA 59.696 45.455 4.39 0.00 0.00 5.36
646 647 2.936498 CAGAAACATACTAACGGGCCAG 59.064 50.000 4.39 1.85 0.00 4.85
647 648 1.669265 GAAACATACTAACGGGCCAGC 59.331 52.381 4.39 0.00 0.00 4.85
648 649 0.107361 AACATACTAACGGGCCAGCC 60.107 55.000 4.39 0.00 0.00 4.85
649 650 0.981277 ACATACTAACGGGCCAGCCT 60.981 55.000 4.39 0.00 36.10 4.58
650 651 1.045407 CATACTAACGGGCCAGCCTA 58.955 55.000 4.39 0.00 36.10 3.93
651 652 1.414919 CATACTAACGGGCCAGCCTAA 59.585 52.381 4.39 0.00 36.10 2.69
652 653 1.117150 TACTAACGGGCCAGCCTAAG 58.883 55.000 4.39 3.39 36.10 2.18
653 654 1.523938 CTAACGGGCCAGCCTAAGC 60.524 63.158 4.39 0.00 40.32 3.09
665 666 1.598882 GCCTAAGCTAATGGACTGGC 58.401 55.000 4.04 0.00 35.50 4.85
666 667 1.815795 GCCTAAGCTAATGGACTGGCC 60.816 57.143 0.00 0.00 35.50 5.36
667 668 1.541233 CCTAAGCTAATGGACTGGCCG 60.541 57.143 0.00 0.00 40.66 6.13
668 669 1.412710 CTAAGCTAATGGACTGGCCGA 59.587 52.381 0.00 0.00 40.66 5.54
669 670 0.839946 AAGCTAATGGACTGGCCGAT 59.160 50.000 0.00 0.00 40.66 4.18
670 671 0.839946 AGCTAATGGACTGGCCGATT 59.160 50.000 0.00 0.00 40.66 3.34
671 672 1.202698 AGCTAATGGACTGGCCGATTC 60.203 52.381 0.00 0.00 40.66 2.52
672 673 1.202698 GCTAATGGACTGGCCGATTCT 60.203 52.381 0.00 0.00 40.66 2.40
673 674 2.760374 CTAATGGACTGGCCGATTCTC 58.240 52.381 0.00 0.00 40.66 2.87
674 675 0.911769 AATGGACTGGCCGATTCTCA 59.088 50.000 0.00 0.00 40.66 3.27
675 676 0.911769 ATGGACTGGCCGATTCTCAA 59.088 50.000 0.00 0.00 40.66 3.02
676 677 0.690192 TGGACTGGCCGATTCTCAAA 59.310 50.000 0.00 0.00 40.66 2.69
677 678 1.073125 TGGACTGGCCGATTCTCAAAA 59.927 47.619 0.00 0.00 40.66 2.44
678 679 1.740025 GGACTGGCCGATTCTCAAAAG 59.260 52.381 0.00 0.00 0.00 2.27
679 680 2.615493 GGACTGGCCGATTCTCAAAAGA 60.615 50.000 0.00 0.00 0.00 2.52
680 681 3.074412 GACTGGCCGATTCTCAAAAGAA 58.926 45.455 0.00 0.00 45.36 2.52
681 682 3.486383 ACTGGCCGATTCTCAAAAGAAA 58.514 40.909 0.00 0.00 44.49 2.52
682 683 3.888930 ACTGGCCGATTCTCAAAAGAAAA 59.111 39.130 0.00 0.00 44.49 2.29
683 684 4.340950 ACTGGCCGATTCTCAAAAGAAAAA 59.659 37.500 0.00 0.00 44.49 1.94
700 701 1.852633 AAAAGCTAATGGACTGGCCC 58.147 50.000 0.00 0.00 34.97 5.80
701 702 0.704076 AAAGCTAATGGACTGGCCCA 59.296 50.000 0.00 0.00 41.05 5.36
702 703 0.704076 AAGCTAATGGACTGGCCCAA 59.296 50.000 0.00 0.00 40.04 4.12
703 704 0.034089 AGCTAATGGACTGGCCCAAC 60.034 55.000 0.00 0.00 40.04 3.77
704 705 1.037579 GCTAATGGACTGGCCCAACC 61.038 60.000 0.00 0.57 40.04 3.77
705 706 0.395724 CTAATGGACTGGCCCAACCC 60.396 60.000 0.00 0.00 40.04 4.11
706 707 1.143329 TAATGGACTGGCCCAACCCA 61.143 55.000 0.00 6.26 40.04 4.51
712 713 2.776526 TGGCCCAACCCAGACTGT 60.777 61.111 0.00 0.00 37.83 3.55
713 714 2.282462 GGCCCAACCCAGACTGTG 60.282 66.667 0.93 0.00 0.00 3.66
714 715 2.829384 GGCCCAACCCAGACTGTGA 61.829 63.158 0.93 0.00 0.00 3.58
715 716 1.150536 GCCCAACCCAGACTGTGAA 59.849 57.895 0.93 0.00 0.00 3.18
716 717 1.172812 GCCCAACCCAGACTGTGAAC 61.173 60.000 0.93 0.00 0.00 3.18
717 718 0.182537 CCCAACCCAGACTGTGAACA 59.817 55.000 0.93 0.00 0.00 3.18
718 719 1.202927 CCCAACCCAGACTGTGAACAT 60.203 52.381 0.93 0.00 0.00 2.71
719 720 2.154462 CCAACCCAGACTGTGAACATC 58.846 52.381 0.93 0.00 0.00 3.06
720 721 2.487086 CCAACCCAGACTGTGAACATCA 60.487 50.000 0.93 0.00 0.00 3.07
721 722 3.213506 CAACCCAGACTGTGAACATCAA 58.786 45.455 0.93 0.00 0.00 2.57
722 723 2.851195 ACCCAGACTGTGAACATCAAC 58.149 47.619 0.93 0.00 0.00 3.18
723 724 2.439507 ACCCAGACTGTGAACATCAACT 59.560 45.455 0.93 0.00 0.00 3.16
724 725 3.646162 ACCCAGACTGTGAACATCAACTA 59.354 43.478 0.93 0.00 0.00 2.24
725 726 4.248859 CCCAGACTGTGAACATCAACTAG 58.751 47.826 0.93 0.00 0.00 2.57
726 727 4.262635 CCCAGACTGTGAACATCAACTAGT 60.263 45.833 0.93 0.00 0.00 2.57
727 728 4.687948 CCAGACTGTGAACATCAACTAGTG 59.312 45.833 0.00 0.00 0.00 2.74
728 729 5.509670 CCAGACTGTGAACATCAACTAGTGA 60.510 44.000 0.00 0.00 41.67 3.41
729 730 5.632764 CAGACTGTGAACATCAACTAGTGAG 59.367 44.000 0.00 0.00 40.43 3.51
772 773 1.433534 GAGCTCAGTCCAAAACTCCG 58.566 55.000 9.40 0.00 35.45 4.63
784 785 2.708593 AAACTCCGAACCCAAGGCCC 62.709 60.000 0.00 0.00 0.00 5.80
803 804 1.071471 CAGACAAACCGAGCCCACT 59.929 57.895 0.00 0.00 0.00 4.00
861 862 2.673862 TCAGAGTTGACGTCTCTCGATC 59.326 50.000 24.14 12.70 39.84 3.69
914 915 3.799755 GCACCGCACCGAACCATC 61.800 66.667 0.00 0.00 0.00 3.51
918 919 4.444838 CGCACCGAACCATCCCGA 62.445 66.667 0.00 0.00 0.00 5.14
919 920 2.189521 GCACCGAACCATCCCGAT 59.810 61.111 0.00 0.00 0.00 4.18
970 983 3.969250 AATCCGGCGCACCATCGTT 62.969 57.895 10.83 0.00 34.57 3.85
980 993 1.737793 GCACCATCGTTGAAACCCTAG 59.262 52.381 0.00 0.00 0.00 3.02
1104 1228 2.442272 CACCTCCCCGTCTCCGAT 60.442 66.667 0.00 0.00 35.63 4.18
1108 1232 1.152943 CTCCCCGTCTCCGATCTCA 60.153 63.158 0.00 0.00 35.63 3.27
1410 1534 2.887568 GCTGTCGTGGATCGCCTG 60.888 66.667 0.00 0.00 39.67 4.85
1607 1731 1.371558 GCAAGTCCCAGTTCCTCGT 59.628 57.895 0.00 0.00 0.00 4.18
1700 1824 5.131642 TCTGCCATAAGGAGTTTGATGAGAT 59.868 40.000 0.00 0.00 36.89 2.75
2037 2164 3.883489 CCCTGGGAAGGAATTAAATCGAC 59.117 47.826 7.01 0.00 0.00 4.20
2050 2177 3.899052 AAATCGACGTTGGGGAGATTA 57.101 42.857 2.20 0.00 32.05 1.75
2058 2185 1.676006 GTTGGGGAGATTACAATGGCG 59.324 52.381 0.00 0.00 0.00 5.69
2111 2238 0.833287 AGCTTCATACCATGGCTCGT 59.167 50.000 13.04 0.00 0.00 4.18
2129 2256 5.221382 GGCTCGTCCATAAGTTCTGGTATTA 60.221 44.000 7.14 0.00 35.19 0.98
2162 2289 5.447818 GCTGTTGGTGTTATCTATGCTTGAC 60.448 44.000 0.00 0.00 0.00 3.18
2368 2496 7.775053 ATATGTAATGGTTGAAACAGTTGGT 57.225 32.000 0.00 0.00 0.00 3.67
2451 2580 9.515020 TCACTTTGTTTCAAATTACTTCACATC 57.485 29.630 0.00 0.00 0.00 3.06
2491 2620 5.221244 ACAAGCCTTTGACCAACAATTACTC 60.221 40.000 0.00 0.00 38.36 2.59
2592 2721 2.158943 AGGCTTATCCTAACAAGACCGC 60.159 50.000 0.00 0.00 45.41 5.68
2709 2838 2.271800 GCAACTTCCACTGTATCTCGG 58.728 52.381 0.00 0.00 0.00 4.63
2712 2841 1.478510 ACTTCCACTGTATCTCGGCTG 59.521 52.381 0.00 0.00 0.00 4.85
2782 2911 9.614792 ATCCTACATAGAACCTGTTTGAATAAC 57.385 33.333 0.00 0.00 0.00 1.89
2783 2912 8.598916 TCCTACATAGAACCTGTTTGAATAACA 58.401 33.333 0.00 0.00 0.00 2.41
2908 3037 2.222007 TTTGCATTGCGCTTGTTTCT 57.778 40.000 9.73 0.00 43.06 2.52
2933 3062 3.394674 TTAGTTGTCCATGAAGCACGA 57.605 42.857 0.00 0.00 0.00 4.35
2995 3124 6.127925 CGGCCACATTAATATTAGCATGACAT 60.128 38.462 2.24 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
84 85 9.619316 CAGTTTTTAATTCATGAACATTCGGTA 57.381 29.630 11.07 0.00 0.00 4.02
85 86 8.356657 TCAGTTTTTAATTCATGAACATTCGGT 58.643 29.630 11.07 0.00 0.00 4.69
86 87 8.638565 GTCAGTTTTTAATTCATGAACATTCGG 58.361 33.333 11.07 0.00 0.00 4.30
87 88 9.179552 TGTCAGTTTTTAATTCATGAACATTCG 57.820 29.630 11.07 0.00 0.00 3.34
106 107 9.683069 GAACATTTAGTGAATTCATTGTCAGTT 57.317 29.630 12.12 12.54 0.00 3.16
107 108 8.849168 TGAACATTTAGTGAATTCATTGTCAGT 58.151 29.630 12.12 4.72 0.00 3.41
108 109 9.850628 ATGAACATTTAGTGAATTCATTGTCAG 57.149 29.630 12.12 4.10 26.17 3.51
109 110 9.628746 CATGAACATTTAGTGAATTCATTGTCA 57.371 29.630 12.12 7.51 27.66 3.58
110 111 9.844790 TCATGAACATTTAGTGAATTCATTGTC 57.155 29.630 12.12 0.00 27.66 3.18
128 129 9.689976 ACGAACATTTTTATGATTTCATGAACA 57.310 25.926 7.89 4.30 37.15 3.18
129 130 9.941991 CACGAACATTTTTATGATTTCATGAAC 57.058 29.630 7.89 0.00 37.15 3.18
130 131 9.905171 TCACGAACATTTTTATGATTTCATGAA 57.095 25.926 3.38 3.38 37.15 2.57
131 132 9.905171 TTCACGAACATTTTTATGATTTCATGA 57.095 25.926 3.30 0.00 37.15 3.07
187 188 9.750125 GTGAACAAGTTTTTGAATTCTCCTAAT 57.250 29.630 7.05 0.00 37.73 1.73
188 189 8.194769 GGTGAACAAGTTTTTGAATTCTCCTAA 58.805 33.333 7.05 0.00 37.73 2.69
189 190 7.340743 TGGTGAACAAGTTTTTGAATTCTCCTA 59.659 33.333 7.05 0.00 35.77 2.94
190 191 6.154363 TGGTGAACAAGTTTTTGAATTCTCCT 59.846 34.615 7.05 0.00 35.77 3.69
191 192 6.337356 TGGTGAACAAGTTTTTGAATTCTCC 58.663 36.000 7.05 0.00 35.56 3.71
192 193 7.826260 TTGGTGAACAAGTTTTTGAATTCTC 57.174 32.000 7.05 0.00 37.73 2.87
193 194 8.791327 AATTGGTGAACAAGTTTTTGAATTCT 57.209 26.923 7.05 0.00 43.48 2.40
194 195 8.663911 TGAATTGGTGAACAAGTTTTTGAATTC 58.336 29.630 0.00 0.00 43.48 2.17
195 196 8.558973 TGAATTGGTGAACAAGTTTTTGAATT 57.441 26.923 0.00 0.00 43.48 2.17
196 197 8.558973 TTGAATTGGTGAACAAGTTTTTGAAT 57.441 26.923 0.00 0.00 43.48 2.57
197 198 7.969536 TTGAATTGGTGAACAAGTTTTTGAA 57.030 28.000 0.00 0.00 43.48 2.69
198 199 7.969536 TTTGAATTGGTGAACAAGTTTTTGA 57.030 28.000 0.00 0.00 43.48 2.69
240 241 9.474920 ACGTGTTTGAAATCATGAACATTTTAT 57.525 25.926 0.00 0.00 34.86 1.40
241 242 8.864069 ACGTGTTTGAAATCATGAACATTTTA 57.136 26.923 0.00 0.00 34.86 1.52
242 243 7.769272 ACGTGTTTGAAATCATGAACATTTT 57.231 28.000 0.00 0.00 34.86 1.82
243 244 7.490725 TGAACGTGTTTGAAATCATGAACATTT 59.509 29.630 0.00 0.00 34.86 2.32
244 245 6.977502 TGAACGTGTTTGAAATCATGAACATT 59.022 30.769 0.00 0.00 34.86 2.71
245 246 6.502652 TGAACGTGTTTGAAATCATGAACAT 58.497 32.000 0.00 0.00 34.86 2.71
246 247 5.884771 TGAACGTGTTTGAAATCATGAACA 58.115 33.333 0.00 0.00 0.00 3.18
247 248 6.636447 TCATGAACGTGTTTGAAATCATGAAC 59.364 34.615 18.20 0.00 45.88 3.18
248 249 6.733145 TCATGAACGTGTTTGAAATCATGAA 58.267 32.000 18.20 6.69 45.88 2.57
249 250 6.311055 TCATGAACGTGTTTGAAATCATGA 57.689 33.333 17.11 17.11 46.37 3.07
250 251 6.989796 TTCATGAACGTGTTTGAAATCATG 57.010 33.333 13.77 13.77 43.31 3.07
251 252 8.592105 AAATTCATGAACGTGTTTGAAATCAT 57.408 26.923 11.07 1.20 32.35 2.45
252 253 7.704047 TGAAATTCATGAACGTGTTTGAAATCA 59.296 29.630 11.07 13.04 32.35 2.57
253 254 7.998212 GTGAAATTCATGAACGTGTTTGAAATC 59.002 33.333 11.07 11.34 32.35 2.17
254 255 7.490725 TGTGAAATTCATGAACGTGTTTGAAAT 59.509 29.630 11.07 1.72 32.35 2.17
255 256 6.808704 TGTGAAATTCATGAACGTGTTTGAAA 59.191 30.769 11.07 0.00 32.35 2.69
256 257 6.325596 TGTGAAATTCATGAACGTGTTTGAA 58.674 32.000 11.07 9.02 33.06 2.69
257 258 5.884771 TGTGAAATTCATGAACGTGTTTGA 58.115 33.333 11.07 0.00 0.00 2.69
258 259 6.566310 TTGTGAAATTCATGAACGTGTTTG 57.434 33.333 11.07 0.00 0.00 2.93
259 260 7.588143 TTTTGTGAAATTCATGAACGTGTTT 57.412 28.000 11.07 7.38 0.00 2.83
260 261 7.588143 TTTTTGTGAAATTCATGAACGTGTT 57.412 28.000 11.07 2.82 0.00 3.32
318 319 9.519191 TGGACCATATTCGAATTCATGAATATT 57.481 29.630 21.00 7.69 42.31 1.28
319 320 9.519191 TTGGACCATATTCGAATTCATGAATAT 57.481 29.630 21.00 16.64 44.52 1.28
320 321 8.916628 TTGGACCATATTCGAATTCATGAATA 57.083 30.769 21.00 14.39 40.31 1.75
321 322 7.720957 TCTTGGACCATATTCGAATTCATGAAT 59.279 33.333 17.19 15.36 38.34 2.57
322 323 7.053498 TCTTGGACCATATTCGAATTCATGAA 58.947 34.615 17.19 11.26 0.00 2.57
323 324 6.591001 TCTTGGACCATATTCGAATTCATGA 58.409 36.000 17.19 2.37 0.00 3.07
324 325 6.866010 TCTTGGACCATATTCGAATTCATG 57.134 37.500 17.19 14.20 0.00 3.07
325 326 8.469309 AATTCTTGGACCATATTCGAATTCAT 57.531 30.769 17.19 1.34 0.00 2.57
326 327 7.880160 AATTCTTGGACCATATTCGAATTCA 57.120 32.000 17.19 0.00 0.00 2.57
332 333 9.855021 ACTTTTTAAATTCTTGGACCATATTCG 57.145 29.630 0.00 0.00 0.00 3.34
337 338 9.898152 TTCAAACTTTTTAAATTCTTGGACCAT 57.102 25.926 0.00 0.00 0.00 3.55
338 339 9.726438 TTTCAAACTTTTTAAATTCTTGGACCA 57.274 25.926 0.00 0.00 0.00 4.02
413 414 7.759433 ACAATTCTCAAACTCGTGAACATTTTT 59.241 29.630 0.00 0.00 0.00 1.94
414 415 7.220683 CACAATTCTCAAACTCGTGAACATTTT 59.779 33.333 0.00 0.00 0.00 1.82
415 416 6.692681 CACAATTCTCAAACTCGTGAACATTT 59.307 34.615 0.00 0.00 0.00 2.32
416 417 6.201517 CACAATTCTCAAACTCGTGAACATT 58.798 36.000 0.00 0.00 0.00 2.71
417 418 5.751680 CACAATTCTCAAACTCGTGAACAT 58.248 37.500 0.00 0.00 0.00 2.71
418 419 4.495679 GCACAATTCTCAAACTCGTGAACA 60.496 41.667 0.00 0.00 0.00 3.18
419 420 3.968724 GCACAATTCTCAAACTCGTGAAC 59.031 43.478 0.00 0.00 0.00 3.18
420 421 3.625313 TGCACAATTCTCAAACTCGTGAA 59.375 39.130 0.00 0.00 0.00 3.18
421 422 3.002246 GTGCACAATTCTCAAACTCGTGA 59.998 43.478 13.17 0.00 0.00 4.35
422 423 3.002656 AGTGCACAATTCTCAAACTCGTG 59.997 43.478 21.04 0.00 0.00 4.35
423 424 3.206150 AGTGCACAATTCTCAAACTCGT 58.794 40.909 21.04 0.00 0.00 4.18
424 425 3.885484 AGTGCACAATTCTCAAACTCG 57.115 42.857 21.04 0.00 0.00 4.18
425 426 7.115378 CCAAATTAGTGCACAATTCTCAAACTC 59.885 37.037 21.04 0.00 0.00 3.01
426 427 6.925165 CCAAATTAGTGCACAATTCTCAAACT 59.075 34.615 21.04 3.85 0.00 2.66
427 428 6.922957 TCCAAATTAGTGCACAATTCTCAAAC 59.077 34.615 21.04 0.00 0.00 2.93
428 429 7.048629 TCCAAATTAGTGCACAATTCTCAAA 57.951 32.000 21.04 0.36 0.00 2.69
429 430 6.647334 TCCAAATTAGTGCACAATTCTCAA 57.353 33.333 21.04 7.13 0.00 3.02
430 431 6.647334 TTCCAAATTAGTGCACAATTCTCA 57.353 33.333 21.04 7.29 0.00 3.27
431 432 9.807649 ATATTTCCAAATTAGTGCACAATTCTC 57.192 29.630 21.04 0.00 0.00 2.87
434 435 9.086336 CGAATATTTCCAAATTAGTGCACAATT 57.914 29.630 21.04 18.24 0.00 2.32
435 436 8.465999 TCGAATATTTCCAAATTAGTGCACAAT 58.534 29.630 21.04 13.47 0.00 2.71
436 437 7.821652 TCGAATATTTCCAAATTAGTGCACAA 58.178 30.769 21.04 11.68 0.00 3.33
437 438 7.384439 TCGAATATTTCCAAATTAGTGCACA 57.616 32.000 21.04 0.00 0.00 4.57
438 439 8.856490 ATTCGAATATTTCCAAATTAGTGCAC 57.144 30.769 9.39 9.40 0.00 4.57
493 494 9.672086 TTCGAAACATTTACGAAAATTGAGAAT 57.328 25.926 0.00 0.00 41.74 2.40
494 495 9.672086 ATTCGAAACATTTACGAAAATTGAGAA 57.328 25.926 0.00 0.00 46.14 2.87
495 496 9.672086 AATTCGAAACATTTACGAAAATTGAGA 57.328 25.926 0.00 0.00 46.14 3.27
542 543 9.982651 GCTTTCTTATTTAACTTTTCCCTCTTT 57.017 29.630 0.00 0.00 0.00 2.52
543 544 9.143155 TGCTTTCTTATTTAACTTTTCCCTCTT 57.857 29.630 0.00 0.00 0.00 2.85
544 545 8.706322 TGCTTTCTTATTTAACTTTTCCCTCT 57.294 30.769 0.00 0.00 0.00 3.69
545 546 9.411801 CTTGCTTTCTTATTTAACTTTTCCCTC 57.588 33.333 0.00 0.00 0.00 4.30
546 547 9.143155 TCTTGCTTTCTTATTTAACTTTTCCCT 57.857 29.630 0.00 0.00 0.00 4.20
547 548 9.411801 CTCTTGCTTTCTTATTTAACTTTTCCC 57.588 33.333 0.00 0.00 0.00 3.97
551 552 9.574516 TCCTCTCTTGCTTTCTTATTTAACTTT 57.425 29.630 0.00 0.00 0.00 2.66
552 553 9.004717 GTCCTCTCTTGCTTTCTTATTTAACTT 57.995 33.333 0.00 0.00 0.00 2.66
553 554 8.157476 TGTCCTCTCTTGCTTTCTTATTTAACT 58.843 33.333 0.00 0.00 0.00 2.24
554 555 8.324163 TGTCCTCTCTTGCTTTCTTATTTAAC 57.676 34.615 0.00 0.00 0.00 2.01
555 556 8.918202 TTGTCCTCTCTTGCTTTCTTATTTAA 57.082 30.769 0.00 0.00 0.00 1.52
556 557 8.918202 TTTGTCCTCTCTTGCTTTCTTATTTA 57.082 30.769 0.00 0.00 0.00 1.40
557 558 7.721399 TCTTTGTCCTCTCTTGCTTTCTTATTT 59.279 33.333 0.00 0.00 0.00 1.40
558 559 7.227156 TCTTTGTCCTCTCTTGCTTTCTTATT 58.773 34.615 0.00 0.00 0.00 1.40
559 560 6.773638 TCTTTGTCCTCTCTTGCTTTCTTAT 58.226 36.000 0.00 0.00 0.00 1.73
560 561 6.174720 TCTTTGTCCTCTCTTGCTTTCTTA 57.825 37.500 0.00 0.00 0.00 2.10
561 562 5.041191 TCTTTGTCCTCTCTTGCTTTCTT 57.959 39.130 0.00 0.00 0.00 2.52
562 563 4.696479 TCTTTGTCCTCTCTTGCTTTCT 57.304 40.909 0.00 0.00 0.00 2.52
563 564 5.757850 TTTCTTTGTCCTCTCTTGCTTTC 57.242 39.130 0.00 0.00 0.00 2.62
564 565 5.242615 GGATTTCTTTGTCCTCTCTTGCTTT 59.757 40.000 0.00 0.00 0.00 3.51
565 566 4.764308 GGATTTCTTTGTCCTCTCTTGCTT 59.236 41.667 0.00 0.00 0.00 3.91
566 567 4.202503 TGGATTTCTTTGTCCTCTCTTGCT 60.203 41.667 0.00 0.00 35.49 3.91
567 568 4.074970 TGGATTTCTTTGTCCTCTCTTGC 58.925 43.478 0.00 0.00 35.49 4.01
568 569 6.639632 TTTGGATTTCTTTGTCCTCTCTTG 57.360 37.500 0.00 0.00 35.49 3.02
569 570 6.238759 CGTTTTGGATTTCTTTGTCCTCTCTT 60.239 38.462 0.00 0.00 35.49 2.85
570 571 5.239525 CGTTTTGGATTTCTTTGTCCTCTCT 59.760 40.000 0.00 0.00 35.49 3.10
571 572 5.238650 TCGTTTTGGATTTCTTTGTCCTCTC 59.761 40.000 0.00 0.00 35.49 3.20
572 573 5.130350 TCGTTTTGGATTTCTTTGTCCTCT 58.870 37.500 0.00 0.00 35.49 3.69
573 574 5.432885 TCGTTTTGGATTTCTTTGTCCTC 57.567 39.130 0.00 0.00 35.49 3.71
574 575 5.845391 TTCGTTTTGGATTTCTTTGTCCT 57.155 34.783 0.00 0.00 35.49 3.85
575 576 6.895607 TTTTCGTTTTGGATTTCTTTGTCC 57.104 33.333 0.00 0.00 35.02 4.02
618 619 6.731164 CCCGTTAGTATGTTTCTGTGTTTTT 58.269 36.000 0.00 0.00 0.00 1.94
619 620 5.278120 GCCCGTTAGTATGTTTCTGTGTTTT 60.278 40.000 0.00 0.00 0.00 2.43
620 621 4.214758 GCCCGTTAGTATGTTTCTGTGTTT 59.785 41.667 0.00 0.00 0.00 2.83
621 622 3.749609 GCCCGTTAGTATGTTTCTGTGTT 59.250 43.478 0.00 0.00 0.00 3.32
622 623 3.332034 GCCCGTTAGTATGTTTCTGTGT 58.668 45.455 0.00 0.00 0.00 3.72
623 624 2.676342 GGCCCGTTAGTATGTTTCTGTG 59.324 50.000 0.00 0.00 0.00 3.66
624 625 2.303600 TGGCCCGTTAGTATGTTTCTGT 59.696 45.455 0.00 0.00 0.00 3.41
625 626 2.936498 CTGGCCCGTTAGTATGTTTCTG 59.064 50.000 0.00 0.00 0.00 3.02
626 627 2.679930 GCTGGCCCGTTAGTATGTTTCT 60.680 50.000 0.00 0.00 0.00 2.52
627 628 1.669265 GCTGGCCCGTTAGTATGTTTC 59.331 52.381 0.00 0.00 0.00 2.78
628 629 1.680860 GGCTGGCCCGTTAGTATGTTT 60.681 52.381 0.00 0.00 0.00 2.83
629 630 0.107361 GGCTGGCCCGTTAGTATGTT 60.107 55.000 0.00 0.00 0.00 2.71
630 631 0.981277 AGGCTGGCCCGTTAGTATGT 60.981 55.000 8.11 0.00 39.21 2.29
631 632 1.045407 TAGGCTGGCCCGTTAGTATG 58.955 55.000 8.11 0.00 39.21 2.39
632 633 1.692519 CTTAGGCTGGCCCGTTAGTAT 59.307 52.381 8.11 0.00 39.21 2.12
633 634 1.117150 CTTAGGCTGGCCCGTTAGTA 58.883 55.000 8.11 0.00 39.21 1.82
634 635 1.905512 CTTAGGCTGGCCCGTTAGT 59.094 57.895 8.11 0.00 39.21 2.24
635 636 1.523938 GCTTAGGCTGGCCCGTTAG 60.524 63.158 8.11 0.00 39.21 2.34
636 637 2.587889 GCTTAGGCTGGCCCGTTA 59.412 61.111 8.11 0.00 39.21 3.18
645 646 4.142632 GGCCAGTCCATTAGCTTAGGCT 62.143 54.545 4.21 4.21 42.71 4.58
646 647 1.598882 GCCAGTCCATTAGCTTAGGC 58.401 55.000 0.00 0.00 39.06 3.93
647 648 1.541233 CGGCCAGTCCATTAGCTTAGG 60.541 57.143 2.24 0.00 34.01 2.69
648 649 1.412710 TCGGCCAGTCCATTAGCTTAG 59.587 52.381 2.24 0.00 34.01 2.18
649 650 1.491668 TCGGCCAGTCCATTAGCTTA 58.508 50.000 2.24 0.00 34.01 3.09
650 651 0.839946 ATCGGCCAGTCCATTAGCTT 59.160 50.000 2.24 0.00 34.01 3.74
651 652 0.839946 AATCGGCCAGTCCATTAGCT 59.160 50.000 2.24 0.00 34.01 3.32
652 653 1.202698 AGAATCGGCCAGTCCATTAGC 60.203 52.381 2.24 0.00 34.01 3.09
653 654 2.103094 TGAGAATCGGCCAGTCCATTAG 59.897 50.000 2.24 0.00 38.61 1.73
654 655 2.115427 TGAGAATCGGCCAGTCCATTA 58.885 47.619 2.24 0.00 38.61 1.90
655 656 0.911769 TGAGAATCGGCCAGTCCATT 59.088 50.000 2.24 0.00 38.61 3.16
656 657 0.911769 TTGAGAATCGGCCAGTCCAT 59.088 50.000 2.24 0.00 38.61 3.41
657 658 0.690192 TTTGAGAATCGGCCAGTCCA 59.310 50.000 2.24 0.00 38.61 4.02
658 659 1.740025 CTTTTGAGAATCGGCCAGTCC 59.260 52.381 2.24 0.00 38.61 3.85
659 660 2.699954 TCTTTTGAGAATCGGCCAGTC 58.300 47.619 2.24 0.00 38.61 3.51
660 661 2.859165 TCTTTTGAGAATCGGCCAGT 57.141 45.000 2.24 0.00 38.61 4.00
661 662 4.503741 TTTTCTTTTGAGAATCGGCCAG 57.496 40.909 2.24 0.00 38.61 4.85
662 663 4.927978 TTTTTCTTTTGAGAATCGGCCA 57.072 36.364 2.24 0.00 38.61 5.36
680 681 2.179427 GGGCCAGTCCATTAGCTTTTT 58.821 47.619 4.39 0.00 36.21 1.94
681 682 1.077005 TGGGCCAGTCCATTAGCTTTT 59.923 47.619 0.00 0.00 36.21 2.27
682 683 0.704076 TGGGCCAGTCCATTAGCTTT 59.296 50.000 0.00 0.00 36.21 3.51
683 684 0.704076 TTGGGCCAGTCCATTAGCTT 59.296 50.000 6.23 0.00 36.58 3.74
684 685 0.034089 GTTGGGCCAGTCCATTAGCT 60.034 55.000 6.23 0.00 36.58 3.32
685 686 1.037579 GGTTGGGCCAGTCCATTAGC 61.038 60.000 20.15 5.41 36.58 3.09
686 687 0.395724 GGGTTGGGCCAGTCCATTAG 60.396 60.000 24.27 0.00 39.65 1.73
687 688 1.143329 TGGGTTGGGCCAGTCCATTA 61.143 55.000 24.27 11.97 39.65 1.90
688 689 2.445155 GGGTTGGGCCAGTCCATT 59.555 61.111 24.27 0.00 39.65 3.16
689 690 2.863484 TGGGTTGGGCCAGTCCAT 60.863 61.111 24.27 0.00 39.65 3.41
690 691 3.579302 CTGGGTTGGGCCAGTCCA 61.579 66.667 22.87 22.87 39.65 4.02
691 692 3.256960 TCTGGGTTGGGCCAGTCC 61.257 66.667 17.83 17.83 39.65 3.85
692 693 2.034221 GTCTGGGTTGGGCCAGTC 59.966 66.667 6.23 4.13 39.65 3.51
693 694 2.450502 AGTCTGGGTTGGGCCAGT 60.451 61.111 6.23 0.00 39.65 4.00
694 695 2.034687 CAGTCTGGGTTGGGCCAG 59.965 66.667 6.23 0.00 39.65 4.85
695 696 2.776526 ACAGTCTGGGTTGGGCCA 60.777 61.111 0.00 0.00 39.65 5.36
696 697 2.282462 CACAGTCTGGGTTGGGCC 60.282 66.667 4.53 0.00 0.00 5.80
697 698 1.150536 TTCACAGTCTGGGTTGGGC 59.849 57.895 1.07 0.00 0.00 5.36
698 699 0.182537 TGTTCACAGTCTGGGTTGGG 59.817 55.000 1.07 0.00 0.00 4.12
699 700 2.154462 GATGTTCACAGTCTGGGTTGG 58.846 52.381 1.07 0.00 0.00 3.77
700 701 2.849942 TGATGTTCACAGTCTGGGTTG 58.150 47.619 1.07 0.00 0.00 3.77
701 702 3.117888 AGTTGATGTTCACAGTCTGGGTT 60.118 43.478 1.07 0.00 0.00 4.11
702 703 2.439507 AGTTGATGTTCACAGTCTGGGT 59.560 45.455 1.07 0.00 0.00 4.51
703 704 3.131709 AGTTGATGTTCACAGTCTGGG 57.868 47.619 4.53 0.00 0.00 4.45
704 705 4.687948 CACTAGTTGATGTTCACAGTCTGG 59.312 45.833 4.53 0.00 0.00 3.86
705 706 5.532557 TCACTAGTTGATGTTCACAGTCTG 58.467 41.667 0.00 0.00 0.00 3.51
706 707 5.536538 TCTCACTAGTTGATGTTCACAGTCT 59.463 40.000 0.00 0.00 32.17 3.24
707 708 5.773575 TCTCACTAGTTGATGTTCACAGTC 58.226 41.667 0.00 0.00 32.17 3.51
708 709 5.303078 ACTCTCACTAGTTGATGTTCACAGT 59.697 40.000 0.00 0.00 32.17 3.55
709 710 5.777802 ACTCTCACTAGTTGATGTTCACAG 58.222 41.667 0.00 0.00 32.17 3.66
710 711 5.301805 TGACTCTCACTAGTTGATGTTCACA 59.698 40.000 0.00 0.00 32.17 3.58
711 712 5.773575 TGACTCTCACTAGTTGATGTTCAC 58.226 41.667 0.00 0.00 32.17 3.18
712 713 6.040955 AGTTGACTCTCACTAGTTGATGTTCA 59.959 38.462 0.00 0.00 32.17 3.18
713 714 6.451393 AGTTGACTCTCACTAGTTGATGTTC 58.549 40.000 0.00 0.00 32.17 3.18
714 715 6.412362 AGTTGACTCTCACTAGTTGATGTT 57.588 37.500 0.00 0.00 32.17 2.71
715 716 6.412362 AAGTTGACTCTCACTAGTTGATGT 57.588 37.500 0.00 0.00 32.17 3.06
716 717 6.529829 GCTAAGTTGACTCTCACTAGTTGATG 59.470 42.308 0.00 0.00 32.17 3.07
717 718 6.350612 GGCTAAGTTGACTCTCACTAGTTGAT 60.351 42.308 0.00 0.00 32.17 2.57
718 719 5.047943 GGCTAAGTTGACTCTCACTAGTTGA 60.048 44.000 0.00 0.00 0.00 3.18
719 720 5.164954 GGCTAAGTTGACTCTCACTAGTTG 58.835 45.833 0.00 0.00 0.00 3.16
720 721 4.082679 CGGCTAAGTTGACTCTCACTAGTT 60.083 45.833 0.00 0.00 0.00 2.24
721 722 3.440872 CGGCTAAGTTGACTCTCACTAGT 59.559 47.826 0.00 0.00 0.00 2.57
722 723 3.181495 CCGGCTAAGTTGACTCTCACTAG 60.181 52.174 0.00 0.00 0.00 2.57
723 724 2.753452 CCGGCTAAGTTGACTCTCACTA 59.247 50.000 0.00 0.00 0.00 2.74
724 725 1.546476 CCGGCTAAGTTGACTCTCACT 59.454 52.381 0.00 0.00 0.00 3.41
725 726 1.997669 CCGGCTAAGTTGACTCTCAC 58.002 55.000 0.00 0.00 0.00 3.51
726 727 0.246635 GCCGGCTAAGTTGACTCTCA 59.753 55.000 22.15 0.00 0.00 3.27
727 728 0.460459 GGCCGGCTAAGTTGACTCTC 60.460 60.000 28.56 0.00 0.00 3.20
728 729 1.597461 GGCCGGCTAAGTTGACTCT 59.403 57.895 28.56 0.00 0.00 3.24
729 730 1.449778 GGGCCGGCTAAGTTGACTC 60.450 63.158 28.56 4.74 0.00 3.36
772 773 2.035783 GTCTGGGGCCTTGGGTTC 59.964 66.667 0.84 0.00 0.00 3.62
784 785 1.966451 GTGGGCTCGGTTTGTCTGG 60.966 63.158 0.00 0.00 0.00 3.86
817 818 1.930908 CTGTACCGACGGTGAGGTCC 61.931 65.000 29.55 10.16 41.63 4.46
818 819 0.957395 TCTGTACCGACGGTGAGGTC 60.957 60.000 29.55 13.88 41.63 3.85
917 918 1.606737 GCTAACTGAGGCGATGGGATC 60.607 57.143 0.00 0.00 0.00 3.36
918 919 0.394565 GCTAACTGAGGCGATGGGAT 59.605 55.000 0.00 0.00 0.00 3.85
919 920 1.686325 GGCTAACTGAGGCGATGGGA 61.686 60.000 0.00 0.00 41.55 4.37
927 935 2.998949 GGGGGTGGCTAACTGAGG 59.001 66.667 0.00 0.00 0.00 3.86
931 939 3.400054 GAGCGGGGGTGGCTAACT 61.400 66.667 0.00 0.00 41.72 2.24
951 964 3.202001 CGATGGTGCGCCGGATTT 61.202 61.111 12.58 0.00 37.67 2.17
1104 1228 1.762460 GGGGAGGAAGCCGATGAGA 60.762 63.158 0.00 0.00 0.00 3.27
1108 1232 2.446802 GAGGGGGAGGAAGCCGAT 60.447 66.667 0.00 0.00 0.00 4.18
1410 1534 0.389025 CCTTGTTGAACAGGTTGCCC 59.611 55.000 6.69 0.00 0.00 5.36
1852 1979 3.251484 TCCCATTCTCCAACTTCTCAGT 58.749 45.455 0.00 0.00 33.11 3.41
2037 2164 1.676006 GCCATTGTAATCTCCCCAACG 59.324 52.381 0.00 0.00 0.00 4.10
2050 2177 0.889186 GTTCACCTCCACGCCATTGT 60.889 55.000 0.00 0.00 0.00 2.71
2129 2256 7.524717 AGATAACACCAACAGCTAAAACAAT 57.475 32.000 0.00 0.00 0.00 2.71
2162 2289 2.289320 ACTAGAAAGCTCCACACAGCAG 60.289 50.000 0.00 0.00 42.40 4.24
2368 2496 1.565759 AGACTGGCCCAATGATAAGCA 59.434 47.619 0.00 0.00 0.00 3.91
2448 2577 5.599732 CTTGTCCTGATGAGACCTAAGATG 58.400 45.833 0.00 0.00 33.09 2.90
2451 2580 3.431486 GGCTTGTCCTGATGAGACCTAAG 60.431 52.174 0.00 0.00 33.09 2.18
2592 2721 5.924254 TCCGCTTCAAATTACCTCGTATATG 59.076 40.000 0.00 0.00 0.00 1.78
2709 2838 3.370978 AGTTGTATGTACGATTGCACAGC 59.629 43.478 0.00 0.00 0.00 4.40
2712 2841 5.277601 ACAAGTTGTATGTACGATTGCAC 57.722 39.130 6.75 0.00 0.00 4.57
2782 2911 3.534889 CGCATGCGTATAAATCACAGTG 58.465 45.455 31.33 0.00 34.35 3.66
2783 2912 2.032894 GCGCATGCGTATAAATCACAGT 60.033 45.455 37.54 0.00 42.09 3.55
2908 3037 5.121611 CGTGCTTCATGGACAACTAAACATA 59.878 40.000 0.00 0.00 36.78 2.29
2933 3062 2.124011 CACTGTCTTTGTGCGCATTT 57.876 45.000 15.91 0.00 0.00 2.32
2941 3070 0.944311 CTACCGCGCACTGTCTTTGT 60.944 55.000 8.75 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.