Multiple sequence alignment - TraesCS1A01G379900

Loading Multiple Alignment...

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 TraesCS1A01G379900 chr1A 100.000 5137 0 0 1 5137 551610906 551605770 0.000000e+00 9487.0
1 TraesCS1A01G379900 chr1D 97.692 2860 51 12 464 3314 459895405 459892552 0.000000e+00 4902.0
2 TraesCS1A01G379900 chr1D 89.898 782 17 22 3803 4534 459892561 459891792 0.000000e+00 950.0
3 TraesCS1A01G379900 chr1D 85.106 470 28 6 4703 5137 459891555 459891093 4.720000e-120 442.0
4 TraesCS1A01G379900 chr1D 91.373 255 9 3 1 244 459895844 459895592 2.290000e-88 337.0
5 TraesCS1A01G379900 chr7D 89.497 2761 175 57 464 3167 197307941 197305239 0.000000e+00 3386.0
6 TraesCS1A01G379900 chr7D 86.130 1305 105 40 3155 4407 197305082 197303802 0.000000e+00 1338.0
7 TraesCS1A01G379900 chr7A 88.885 2762 180 66 464 3167 206719989 206717297 0.000000e+00 3282.0
8 TraesCS1A01G379900 chr7A 84.267 1017 95 36 3430 4407 206717184 206716194 0.000000e+00 931.0
9 TraesCS1A01G379900 chr7A 88.579 394 26 11 78 461 297786578 297786194 1.300000e-125 460.0
10 TraesCS1A01G379900 chr1B 97.602 1793 33 8 1622 3409 632006320 632004533 0.000000e+00 3064.0
11 TraesCS1A01G379900 chr1B 90.401 1271 54 27 3443 4683 632004534 632003302 0.000000e+00 1609.0
12 TraesCS1A01G379900 chr1B 98.357 426 6 1 1086 1510 632006744 632006319 0.000000e+00 747.0
13 TraesCS1A01G379900 chr1B 94.879 371 12 3 1 371 632007380 632007017 1.600000e-159 573.0
14 TraesCS1A01G379900 chr1B 91.117 394 16 8 78 461 400359168 400359552 2.740000e-142 516.0
15 TraesCS1A01G379900 chr1B 90.102 394 21 7 78 461 240663660 240664045 3.570000e-136 496.0
16 TraesCS1A01G379900 chr1B 85.504 476 24 17 4703 5137 632003057 632002586 6.060000e-124 455.0
17 TraesCS1A01G379900 chr1B 93.989 183 11 0 906 1088 632007019 632006837 1.410000e-70 278.0
18 TraesCS1A01G379900 chr7B 91.150 1661 91 30 1526 3167 161656746 161655123 0.000000e+00 2202.0
19 TraesCS1A01G379900 chr7B 89.061 1545 105 25 464 1967 161658266 161656745 0.000000e+00 1858.0
20 TraesCS1A01G379900 chr7B 85.490 1337 116 37 3155 4437 161654966 161653654 0.000000e+00 1323.0
21 TraesCS1A01G379900 chr2B 91.272 401 15 11 72 461 358756575 358756966 3.520000e-146 529.0
22 TraesCS1A01G379900 chr2B 83.077 65 11 0 4847 4911 767154314 767154378 5.550000e-05 60.2
23 TraesCS1A01G379900 chr3B 91.117 394 15 7 78 461 604141895 604141512 2.740000e-142 516.0
24 TraesCS1A01G379900 chr3B 84.932 73 11 0 4849 4921 686165265 686165193 1.980000e-09 75.0
25 TraesCS1A01G379900 chr4B 90.102 394 18 11 78 461 449517011 449517393 4.620000e-135 492.0
26 TraesCS1A01G379900 chr4B 90.076 393 19 9 78 460 535284553 535284935 4.620000e-135 492.0
27 TraesCS1A01G379900 chr4B 85.417 144 10 8 804 945 180543659 180543793 6.940000e-29 139.0
28 TraesCS1A01G379900 chr5D 88.579 394 27 11 78 461 420017655 420018040 3.620000e-126 462.0
29 TraesCS1A01G379900 chr5A 78.378 296 32 15 480 769 557320727 557320996 4.120000e-36 163.0
30 TraesCS1A01G379900 chr2D 85.714 154 20 2 4027 4178 106999396 106999549 1.480000e-35 161.0
31 TraesCS1A01G379900 chr4A 85.714 140 11 7 804 942 455283642 455283511 6.940000e-29 139.0
32 TraesCS1A01G379900 chr5B 87.059 85 6 2 5 84 694527141 694527057 1.970000e-14 91.6
33 TraesCS1A01G379900 chr2A 88.235 51 6 0 4847 4897 683147495 683147545 1.540000e-05 62.1


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 TraesCS1A01G379900 chr1A 551605770 551610906 5136 True 9487.000000 9487 100.000000 1 5137 1 chr1A.!!$R1 5136
1 TraesCS1A01G379900 chr1D 459891093 459895844 4751 True 1657.750000 4902 91.017250 1 5137 4 chr1D.!!$R1 5136
2 TraesCS1A01G379900 chr7D 197303802 197307941 4139 True 2362.000000 3386 87.813500 464 4407 2 chr7D.!!$R1 3943
3 TraesCS1A01G379900 chr7A 206716194 206719989 3795 True 2106.500000 3282 86.576000 464 4407 2 chr7A.!!$R2 3943
4 TraesCS1A01G379900 chr1B 632002586 632007380 4794 True 1121.000000 3064 93.455333 1 5137 6 chr1B.!!$R1 5136
5 TraesCS1A01G379900 chr7B 161653654 161658266 4612 True 1794.333333 2202 88.567000 464 4437 3 chr7B.!!$R1 3973

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
397 492 0.100503 AGCCGCTGTTTTTGTCACAC 59.899 50.000 0.00 0.0 0.00 3.82 F
2011 2708 1.003718 AAGGACGGCCTGTAGTTGC 60.004 57.895 12.91 0.0 46.28 4.17 F
2534 3240 0.590195 CTGTTGAGCTTCAGGCACAC 59.410 55.000 0.00 0.0 40.94 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2199 2897 0.236449 GTGGCTTACCCGAACAAACG 59.764 55.0 0.0 0.0 35.87 3.60 R
3712 4602 0.893270 CATTCTGGGGAAACGGTGCA 60.893 55.0 0.0 0.0 34.90 4.57 R
4411 5396 1.474330 TGAGATAGTGAGCCGCAGAA 58.526 50.0 0.0 0.0 0.00 3.02 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
72 73 1.014352 GCGTGGACGGCTTATTCATT 58.986 50.000 0.71 0.00 40.23 2.57
85 86 6.294473 GGCTTATTCATTTCATCCTCTCTCA 58.706 40.000 0.00 0.00 0.00 3.27
107 108 1.559682 TCTGCAGGATACAAGGGGAAC 59.440 52.381 15.13 0.00 41.41 3.62
136 137 1.035932 GTCTAGGTGCTACTCCGGCA 61.036 60.000 0.00 0.00 37.36 5.69
240 251 4.337836 TGTGCTCAAATTGCTGTTGTCTAA 59.662 37.500 0.00 0.00 0.00 2.10
241 252 5.009911 TGTGCTCAAATTGCTGTTGTCTAAT 59.990 36.000 0.00 0.00 0.00 1.73
242 253 6.206438 TGTGCTCAAATTGCTGTTGTCTAATA 59.794 34.615 0.00 0.00 0.00 0.98
243 254 6.524586 GTGCTCAAATTGCTGTTGTCTAATAC 59.475 38.462 0.00 0.00 0.00 1.89
244 255 6.206438 TGCTCAAATTGCTGTTGTCTAATACA 59.794 34.615 0.00 0.00 35.88 2.29
296 391 6.658816 TGTCCAGTACATCTTTGCAATATGTT 59.341 34.615 24.61 11.47 35.54 2.71
328 423 8.843733 GTGTAATAATTTTGATAGCATGCATCG 58.156 33.333 21.98 0.00 0.00 3.84
380 475 2.828661 AAAAGGATGGTTAGGGGAGC 57.171 50.000 0.00 0.00 0.00 4.70
381 476 0.927029 AAAGGATGGTTAGGGGAGCC 59.073 55.000 0.00 0.00 0.00 4.70
382 477 1.345715 AAGGATGGTTAGGGGAGCCG 61.346 60.000 0.00 0.00 0.00 5.52
383 478 2.111251 GATGGTTAGGGGAGCCGC 59.889 66.667 0.00 0.00 0.00 6.53
384 479 2.366972 ATGGTTAGGGGAGCCGCT 60.367 61.111 11.06 11.06 42.05 5.52
385 480 2.666596 GATGGTTAGGGGAGCCGCTG 62.667 65.000 15.53 0.00 39.59 5.18
386 481 3.400054 GGTTAGGGGAGCCGCTGT 61.400 66.667 15.53 0.00 39.59 4.40
387 482 2.669240 GTTAGGGGAGCCGCTGTT 59.331 61.111 15.53 0.00 39.59 3.16
388 483 1.002502 GTTAGGGGAGCCGCTGTTT 60.003 57.895 15.53 0.00 39.59 2.83
389 484 0.608308 GTTAGGGGAGCCGCTGTTTT 60.608 55.000 15.53 0.00 39.59 2.43
390 485 0.111639 TTAGGGGAGCCGCTGTTTTT 59.888 50.000 15.53 0.00 39.59 1.94
391 486 0.608035 TAGGGGAGCCGCTGTTTTTG 60.608 55.000 15.53 0.00 39.59 2.44
392 487 2.200337 GGGGAGCCGCTGTTTTTGT 61.200 57.895 0.00 0.00 0.00 2.83
393 488 1.285950 GGGAGCCGCTGTTTTTGTC 59.714 57.895 0.00 0.00 0.00 3.18
394 489 1.452145 GGGAGCCGCTGTTTTTGTCA 61.452 55.000 0.00 0.00 0.00 3.58
395 490 0.317854 GGAGCCGCTGTTTTTGTCAC 60.318 55.000 0.00 0.00 0.00 3.67
396 491 0.380378 GAGCCGCTGTTTTTGTCACA 59.620 50.000 0.00 0.00 0.00 3.58
397 492 0.100503 AGCCGCTGTTTTTGTCACAC 59.899 50.000 0.00 0.00 0.00 3.82
398 493 0.100503 GCCGCTGTTTTTGTCACACT 59.899 50.000 0.00 0.00 0.00 3.55
399 494 1.469079 GCCGCTGTTTTTGTCACACTT 60.469 47.619 0.00 0.00 0.00 3.16
400 495 2.184448 CCGCTGTTTTTGTCACACTTG 58.816 47.619 0.00 0.00 0.00 3.16
401 496 1.583404 CGCTGTTTTTGTCACACTTGC 59.417 47.619 0.00 0.00 0.00 4.01
402 497 2.731968 CGCTGTTTTTGTCACACTTGCT 60.732 45.455 0.00 0.00 0.00 3.91
403 498 2.599973 GCTGTTTTTGTCACACTTGCTG 59.400 45.455 0.00 0.00 0.00 4.41
404 499 2.599973 CTGTTTTTGTCACACTTGCTGC 59.400 45.455 0.00 0.00 0.00 5.25
405 500 2.029560 TGTTTTTGTCACACTTGCTGCA 60.030 40.909 0.00 0.00 0.00 4.41
406 501 2.992543 GTTTTTGTCACACTTGCTGCAA 59.007 40.909 15.16 15.16 0.00 4.08
407 502 3.523606 TTTTGTCACACTTGCTGCAAT 57.476 38.095 16.38 3.60 0.00 3.56
408 503 3.523606 TTTGTCACACTTGCTGCAATT 57.476 38.095 16.38 7.55 0.00 2.32
409 504 2.495409 TGTCACACTTGCTGCAATTG 57.505 45.000 25.26 25.26 31.73 2.32
410 505 1.134226 GTCACACTTGCTGCAATTGC 58.866 50.000 26.35 23.69 42.50 3.56
423 518 2.932498 GCAATTGCAGTCATTGTTCGA 58.068 42.857 25.36 0.00 41.59 3.71
424 519 2.912967 GCAATTGCAGTCATTGTTCGAG 59.087 45.455 25.36 0.00 41.59 4.04
425 520 2.907910 ATTGCAGTCATTGTTCGAGC 57.092 45.000 0.00 0.00 0.00 5.03
426 521 1.882912 TTGCAGTCATTGTTCGAGCT 58.117 45.000 0.00 0.00 0.00 4.09
427 522 2.741759 TGCAGTCATTGTTCGAGCTA 57.258 45.000 0.00 0.00 0.00 3.32
428 523 3.251479 TGCAGTCATTGTTCGAGCTAT 57.749 42.857 0.00 0.00 0.00 2.97
429 524 4.385358 TGCAGTCATTGTTCGAGCTATA 57.615 40.909 0.00 0.00 0.00 1.31
430 525 4.754322 TGCAGTCATTGTTCGAGCTATAA 58.246 39.130 0.00 0.00 0.00 0.98
431 526 5.359756 TGCAGTCATTGTTCGAGCTATAAT 58.640 37.500 0.00 0.00 0.00 1.28
432 527 6.512297 TGCAGTCATTGTTCGAGCTATAATA 58.488 36.000 0.00 0.00 0.00 0.98
433 528 6.983890 TGCAGTCATTGTTCGAGCTATAATAA 59.016 34.615 0.00 0.00 0.00 1.40
434 529 7.169813 TGCAGTCATTGTTCGAGCTATAATAAG 59.830 37.037 0.00 0.00 0.00 1.73
435 530 7.359598 GCAGTCATTGTTCGAGCTATAATAAGG 60.360 40.741 0.00 0.00 0.00 2.69
436 531 7.867909 CAGTCATTGTTCGAGCTATAATAAGGA 59.132 37.037 0.00 0.00 0.00 3.36
437 532 8.421784 AGTCATTGTTCGAGCTATAATAAGGAA 58.578 33.333 0.00 0.00 0.00 3.36
438 533 8.704234 GTCATTGTTCGAGCTATAATAAGGAAG 58.296 37.037 0.00 0.00 0.00 3.46
439 534 8.638873 TCATTGTTCGAGCTATAATAAGGAAGA 58.361 33.333 0.00 0.00 0.00 2.87
440 535 8.920665 CATTGTTCGAGCTATAATAAGGAAGAG 58.079 37.037 0.00 0.00 0.00 2.85
441 536 7.818997 TGTTCGAGCTATAATAAGGAAGAGA 57.181 36.000 0.00 0.00 0.00 3.10
442 537 8.234136 TGTTCGAGCTATAATAAGGAAGAGAA 57.766 34.615 0.00 0.00 0.00 2.87
443 538 8.353684 TGTTCGAGCTATAATAAGGAAGAGAAG 58.646 37.037 0.00 0.00 0.00 2.85
444 539 8.569641 GTTCGAGCTATAATAAGGAAGAGAAGA 58.430 37.037 0.00 0.00 0.00 2.87
445 540 8.101654 TCGAGCTATAATAAGGAAGAGAAGAC 57.898 38.462 0.00 0.00 0.00 3.01
446 541 7.175293 TCGAGCTATAATAAGGAAGAGAAGACC 59.825 40.741 0.00 0.00 0.00 3.85
447 542 7.040340 CGAGCTATAATAAGGAAGAGAAGACCA 60.040 40.741 0.00 0.00 0.00 4.02
448 543 7.958088 AGCTATAATAAGGAAGAGAAGACCAC 58.042 38.462 0.00 0.00 0.00 4.16
449 544 6.864165 GCTATAATAAGGAAGAGAAGACCACG 59.136 42.308 0.00 0.00 0.00 4.94
450 545 6.793505 ATAATAAGGAAGAGAAGACCACGT 57.206 37.500 0.00 0.00 0.00 4.49
451 546 7.893124 ATAATAAGGAAGAGAAGACCACGTA 57.107 36.000 0.00 0.00 0.00 3.57
452 547 6.793505 AATAAGGAAGAGAAGACCACGTAT 57.206 37.500 0.00 0.00 0.00 3.06
453 548 6.793505 ATAAGGAAGAGAAGACCACGTATT 57.206 37.500 0.00 0.00 0.00 1.89
454 549 7.893124 ATAAGGAAGAGAAGACCACGTATTA 57.107 36.000 0.00 0.00 0.00 0.98
455 550 5.579564 AGGAAGAGAAGACCACGTATTAC 57.420 43.478 0.00 0.00 0.00 1.89
456 551 5.014858 AGGAAGAGAAGACCACGTATTACA 58.985 41.667 0.00 0.00 0.00 2.41
457 552 5.657302 AGGAAGAGAAGACCACGTATTACAT 59.343 40.000 0.00 0.00 0.00 2.29
458 553 6.832384 AGGAAGAGAAGACCACGTATTACATA 59.168 38.462 0.00 0.00 0.00 2.29
459 554 7.506261 AGGAAGAGAAGACCACGTATTACATAT 59.494 37.037 0.00 0.00 0.00 1.78
460 555 7.595502 GGAAGAGAAGACCACGTATTACATATG 59.404 40.741 0.00 0.00 0.00 1.78
461 556 7.584122 AGAGAAGACCACGTATTACATATGT 57.416 36.000 13.93 13.93 35.43 2.29
462 557 7.649973 AGAGAAGACCACGTATTACATATGTC 58.350 38.462 12.68 0.00 32.86 3.06
525 620 2.224499 GCTCCTCCTTGAATCTGATCCC 60.224 54.545 0.00 0.00 0.00 3.85
544 639 1.203523 CCCTCGTCTCTCAAACCTCAG 59.796 57.143 0.00 0.00 0.00 3.35
836 937 8.289618 TGCTCACTTCATCTTGTAACAAATAAC 58.710 33.333 0.00 0.00 0.00 1.89
837 938 8.289618 GCTCACTTCATCTTGTAACAAATAACA 58.710 33.333 0.00 0.00 0.00 2.41
874 975 7.831193 GGTATACTGATTAATGCCAATGATCCT 59.169 37.037 2.25 0.00 0.00 3.24
886 997 5.068591 TGCCAATGATCCTGAATTTGATCTG 59.931 40.000 12.13 5.89 38.53 2.90
1043 1165 1.075601 AGGATGGTTTCCCAGCTTCA 58.924 50.000 0.00 0.00 46.66 3.02
1188 1408 7.600752 TGACCCTTTTTATTTTGGAAAATAGCG 59.399 33.333 5.06 0.00 40.70 4.26
1435 1672 6.456988 GGTTCGTGACTATTTCAATTAGGCAG 60.457 42.308 0.00 0.00 35.39 4.85
1586 2272 6.130692 TCCGATATGTAGGGTATGTAGTGA 57.869 41.667 0.00 0.00 0.00 3.41
1773 2464 2.340210 TGTTGCTTGCACTAACTCCA 57.660 45.000 0.00 0.00 0.00 3.86
2011 2708 1.003718 AAGGACGGCCTGTAGTTGC 60.004 57.895 12.91 0.00 46.28 4.17
2033 2730 4.024302 GCGGCCTTTACCATTAAGTATGTC 60.024 45.833 0.00 0.00 31.99 3.06
2047 2744 9.979270 CATTAAGTATGTCAGTCTCATGTTTTC 57.021 33.333 0.00 0.00 0.00 2.29
2199 2897 9.219603 TGCTGCTACATTTTATCCTCATATAAC 57.780 33.333 0.00 0.00 0.00 1.89
2278 2979 8.047310 AGTATTTTCGGGTCACTTAAGATGATT 58.953 33.333 10.09 0.00 0.00 2.57
2309 3012 5.772825 TGAAAACTTTAATGCACTCTGCT 57.227 34.783 0.00 0.00 45.31 4.24
2348 3054 4.558226 TCATGGCTCGCTATTATGGAAT 57.442 40.909 0.00 0.00 0.00 3.01
2534 3240 0.590195 CTGTTGAGCTTCAGGCACAC 59.410 55.000 0.00 0.00 40.94 3.82
2556 3262 3.427503 CGTGTGGAAGCTCTTTGTTTTGT 60.428 43.478 0.00 0.00 0.00 2.83
2597 3303 7.721399 TGATCTTTTCTAGCCTTTTCTTTCACT 59.279 33.333 0.00 0.00 0.00 3.41
3292 4179 5.904362 CCTACTTTGAGGGAAATTCAAGG 57.096 43.478 0.00 0.00 37.57 3.61
3331 4218 1.067821 GCTCTCATGGTCCTCGTAAGG 59.932 57.143 0.00 0.00 44.89 2.69
3355 4244 4.697352 GTGGAAGAGTGAAGCACATATTGT 59.303 41.667 0.00 0.00 36.74 2.71
3423 4312 7.044181 TCCAATATTTGCGCAATTTAATTCCA 58.956 30.769 25.64 5.65 0.00 3.53
3427 4316 5.392767 TTTGCGCAATTTAATTCCAGGTA 57.607 34.783 25.64 0.00 0.00 3.08
3443 4332 3.181471 CCAGGTATACCAGAGAAGCACTG 60.181 52.174 23.87 8.82 38.89 3.66
3447 4336 3.724508 ATACCAGAGAAGCACTGATCG 57.275 47.619 0.00 0.00 37.54 3.69
3449 4338 1.067283 ACCAGAGAAGCACTGATCGTG 60.067 52.381 11.71 11.71 46.58 4.35
3620 4510 4.404073 TGCTCAAGTATGGTTGGTTTGTTT 59.596 37.500 0.00 0.00 0.00 2.83
3694 4584 3.366883 CCGTGGTTAATGTGTTCCCATTG 60.367 47.826 0.00 0.00 35.85 2.82
3712 4602 3.370840 TTGTTTCATGGCTAGGCATCT 57.629 42.857 27.63 7.76 0.00 2.90
3747 4660 6.372381 CCCCAGAATGAATTTGGTTTCAATTC 59.628 38.462 0.00 0.00 39.69 2.17
4150 5106 4.503741 CAAACTAGGTTTGTCATGGTGG 57.496 45.455 13.10 0.00 45.19 4.61
4178 5134 0.972883 AGAGTCAGCCAGTCCAACTC 59.027 55.000 0.00 0.00 37.27 3.01
4179 5135 0.036858 GAGTCAGCCAGTCCAACTCC 60.037 60.000 0.00 0.00 32.13 3.85
4180 5136 0.764369 AGTCAGCCAGTCCAACTCCA 60.764 55.000 0.00 0.00 0.00 3.86
4182 5138 0.108585 TCAGCCAGTCCAACTCCAAC 59.891 55.000 0.00 0.00 0.00 3.77
4183 5139 0.109342 CAGCCAGTCCAACTCCAACT 59.891 55.000 0.00 0.00 0.00 3.16
4184 5140 0.109342 AGCCAGTCCAACTCCAACTG 59.891 55.000 0.00 0.00 40.05 3.16
4385 5370 7.445096 TCTTTGTCAAATCTCTGAACTGCATTA 59.555 33.333 0.00 0.00 0.00 1.90
4487 5501 4.116961 CGGACTTAGTTGACACTCAAACA 58.883 43.478 0.00 0.00 38.22 2.83
4488 5502 4.569162 CGGACTTAGTTGACACTCAAACAA 59.431 41.667 0.00 0.00 38.22 2.83
4489 5503 5.501897 CGGACTTAGTTGACACTCAAACAAC 60.502 44.000 0.00 0.00 38.22 3.32
4640 5654 7.116075 ACTTTCTTAGTGTGTAACTGTACCA 57.884 36.000 0.00 0.00 40.26 3.25
4656 5670 3.521531 TGTACCAATCTGTATCCAAGCCA 59.478 43.478 0.00 0.00 0.00 4.75
4660 5674 3.763360 CCAATCTGTATCCAAGCCAAACA 59.237 43.478 0.00 0.00 0.00 2.83
4674 5688 2.799562 GCCAAACAGCAAACAGTTCCTC 60.800 50.000 0.00 0.00 0.00 3.71
4698 5937 0.036732 AAAAGTGCCATCGGAGCAGA 59.963 50.000 0.00 0.00 41.87 4.26
4701 5940 1.144716 GTGCCATCGGAGCAGATCA 59.855 57.895 0.00 0.00 41.87 2.92
4835 6092 2.755836 TTGTCACTCTTTTCGCTTGC 57.244 45.000 0.00 0.00 0.00 4.01
4902 6159 0.320771 AACGGTTTGAGCTGCGAGAT 60.321 50.000 0.00 0.00 0.00 2.75
4913 6170 2.167281 AGCTGCGAGATGTGTAAGATGT 59.833 45.455 0.00 0.00 0.00 3.06
4929 6187 7.015292 GTGTAAGATGTGGTGAATCCTCCTATA 59.985 40.741 0.00 0.00 37.07 1.31
5000 6284 9.227777 GCTTAATCCTGGACGGTTTATTAATAT 57.772 33.333 0.00 0.00 29.39 1.28
5100 6389 9.853177 AATCTTGTAGAAATAGGGAATCGAAAT 57.147 29.630 0.00 0.00 0.00 2.17
5130 6419 1.300620 TCTCGTTGCCCGTGACTTG 60.301 57.895 0.00 0.00 34.41 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.124819 CGCAGGAGAGGCAGCAAT 60.125 61.111 0.00 0.00 0.00 3.56
72 73 3.134262 CCTGCAGATTGAGAGAGGATGAA 59.866 47.826 17.39 0.00 0.00 2.57
85 86 2.492025 TCCCCTTGTATCCTGCAGATT 58.508 47.619 17.39 4.28 36.33 2.40
107 108 1.604378 CACCTAGACCCCTGCCTTG 59.396 63.158 0.00 0.00 0.00 3.61
140 141 0.615331 GAAGAGAGATGGGTGTGCCA 59.385 55.000 0.00 0.00 36.17 4.92
218 229 3.360249 AGACAACAGCAATTTGAGCAC 57.640 42.857 0.00 0.00 0.00 4.40
241 252 9.243637 GCAATTTGAACAAAAAGATGTACTGTA 57.756 29.630 0.00 0.00 33.56 2.74
242 253 7.981225 AGCAATTTGAACAAAAAGATGTACTGT 59.019 29.630 0.00 0.00 33.56 3.55
243 254 8.356533 AGCAATTTGAACAAAAAGATGTACTG 57.643 30.769 0.00 0.00 33.56 2.74
244 255 8.416329 AGAGCAATTTGAACAAAAAGATGTACT 58.584 29.630 0.00 3.94 33.56 2.73
328 423 7.550551 TGTTCATCTTCTTGACCATCTACAATC 59.449 37.037 0.00 0.00 0.00 2.67
364 459 1.766461 CGGCTCCCCTAACCATCCT 60.766 63.158 0.00 0.00 0.00 3.24
366 461 2.111251 GCGGCTCCCCTAACCATC 59.889 66.667 0.00 0.00 0.00 3.51
367 462 2.366972 AGCGGCTCCCCTAACCAT 60.367 61.111 0.00 0.00 0.00 3.55
368 463 3.399181 CAGCGGCTCCCCTAACCA 61.399 66.667 0.00 0.00 0.00 3.67
369 464 2.479820 AAACAGCGGCTCCCCTAACC 62.480 60.000 0.00 0.00 0.00 2.85
370 465 0.608308 AAAACAGCGGCTCCCCTAAC 60.608 55.000 0.00 0.00 0.00 2.34
371 466 0.111639 AAAAACAGCGGCTCCCCTAA 59.888 50.000 0.00 0.00 0.00 2.69
372 467 0.608035 CAAAAACAGCGGCTCCCCTA 60.608 55.000 0.00 0.00 0.00 3.53
373 468 1.903404 CAAAAACAGCGGCTCCCCT 60.903 57.895 0.00 0.00 0.00 4.79
374 469 2.142357 GACAAAAACAGCGGCTCCCC 62.142 60.000 0.00 0.00 0.00 4.81
375 470 1.285950 GACAAAAACAGCGGCTCCC 59.714 57.895 0.00 0.00 0.00 4.30
376 471 0.317854 GTGACAAAAACAGCGGCTCC 60.318 55.000 0.00 0.00 0.00 4.70
377 472 0.380378 TGTGACAAAAACAGCGGCTC 59.620 50.000 0.00 0.00 0.00 4.70
378 473 0.100503 GTGTGACAAAAACAGCGGCT 59.899 50.000 0.00 0.00 0.00 5.52
379 474 0.100503 AGTGTGACAAAAACAGCGGC 59.899 50.000 0.00 0.00 0.00 6.53
380 475 2.184448 CAAGTGTGACAAAAACAGCGG 58.816 47.619 0.00 0.00 0.00 5.52
381 476 1.583404 GCAAGTGTGACAAAAACAGCG 59.417 47.619 0.00 0.00 0.00 5.18
382 477 2.599973 CAGCAAGTGTGACAAAAACAGC 59.400 45.455 0.00 0.00 0.00 4.40
383 478 2.599973 GCAGCAAGTGTGACAAAAACAG 59.400 45.455 0.00 0.00 0.00 3.16
384 479 2.029560 TGCAGCAAGTGTGACAAAAACA 60.030 40.909 0.00 0.00 0.00 2.83
385 480 2.605030 TGCAGCAAGTGTGACAAAAAC 58.395 42.857 0.00 0.00 0.00 2.43
386 481 3.309961 TTGCAGCAAGTGTGACAAAAA 57.690 38.095 2.83 0.00 0.00 1.94
387 482 3.523606 ATTGCAGCAAGTGTGACAAAA 57.476 38.095 14.47 0.00 0.00 2.44
388 483 3.188492 CAATTGCAGCAAGTGTGACAAA 58.812 40.909 24.34 0.00 35.19 2.83
389 484 2.811855 CAATTGCAGCAAGTGTGACAA 58.188 42.857 24.34 0.00 35.19 3.18
390 485 1.536496 GCAATTGCAGCAAGTGTGACA 60.536 47.619 30.47 0.00 40.81 3.58
391 486 1.134226 GCAATTGCAGCAAGTGTGAC 58.866 50.000 30.47 14.85 40.81 3.67
392 487 3.573569 GCAATTGCAGCAAGTGTGA 57.426 47.368 30.47 0.79 40.81 3.58
403 498 2.912967 CTCGAACAATGACTGCAATTGC 59.087 45.455 23.69 23.69 42.50 3.56
404 499 2.912967 GCTCGAACAATGACTGCAATTG 59.087 45.455 7.84 7.84 0.00 2.32
405 500 2.816087 AGCTCGAACAATGACTGCAATT 59.184 40.909 0.00 0.00 0.00 2.32
406 501 2.430465 AGCTCGAACAATGACTGCAAT 58.570 42.857 0.00 0.00 0.00 3.56
407 502 1.882912 AGCTCGAACAATGACTGCAA 58.117 45.000 0.00 0.00 0.00 4.08
408 503 2.741759 TAGCTCGAACAATGACTGCA 57.258 45.000 0.00 0.00 0.00 4.41
409 504 5.914085 ATTATAGCTCGAACAATGACTGC 57.086 39.130 0.00 0.00 0.00 4.40
410 505 7.867909 TCCTTATTATAGCTCGAACAATGACTG 59.132 37.037 0.00 0.00 0.00 3.51
411 506 7.952671 TCCTTATTATAGCTCGAACAATGACT 58.047 34.615 0.00 0.00 0.00 3.41
412 507 8.589335 TTCCTTATTATAGCTCGAACAATGAC 57.411 34.615 0.00 0.00 0.00 3.06
413 508 8.638873 TCTTCCTTATTATAGCTCGAACAATGA 58.361 33.333 0.00 0.00 0.00 2.57
414 509 8.818141 TCTTCCTTATTATAGCTCGAACAATG 57.182 34.615 0.00 0.00 0.00 2.82
415 510 8.861086 TCTCTTCCTTATTATAGCTCGAACAAT 58.139 33.333 0.00 0.00 0.00 2.71
416 511 8.234136 TCTCTTCCTTATTATAGCTCGAACAA 57.766 34.615 0.00 0.00 0.00 2.83
417 512 7.818997 TCTCTTCCTTATTATAGCTCGAACA 57.181 36.000 0.00 0.00 0.00 3.18
418 513 8.569641 TCTTCTCTTCCTTATTATAGCTCGAAC 58.430 37.037 0.00 0.00 0.00 3.95
419 514 8.569641 GTCTTCTCTTCCTTATTATAGCTCGAA 58.430 37.037 0.00 0.00 0.00 3.71
420 515 7.175293 GGTCTTCTCTTCCTTATTATAGCTCGA 59.825 40.741 0.00 0.00 0.00 4.04
421 516 7.040340 TGGTCTTCTCTTCCTTATTATAGCTCG 60.040 40.741 0.00 0.00 0.00 5.03
422 517 8.085909 GTGGTCTTCTCTTCCTTATTATAGCTC 58.914 40.741 0.00 0.00 0.00 4.09
423 518 7.255660 CGTGGTCTTCTCTTCCTTATTATAGCT 60.256 40.741 0.00 0.00 0.00 3.32
424 519 6.864165 CGTGGTCTTCTCTTCCTTATTATAGC 59.136 42.308 0.00 0.00 0.00 2.97
425 520 7.942990 ACGTGGTCTTCTCTTCCTTATTATAG 58.057 38.462 0.00 0.00 0.00 1.31
426 521 7.893124 ACGTGGTCTTCTCTTCCTTATTATA 57.107 36.000 0.00 0.00 0.00 0.98
427 522 6.793505 ACGTGGTCTTCTCTTCCTTATTAT 57.206 37.500 0.00 0.00 0.00 1.28
428 523 7.893124 ATACGTGGTCTTCTCTTCCTTATTA 57.107 36.000 0.00 0.00 0.00 0.98
429 524 6.793505 ATACGTGGTCTTCTCTTCCTTATT 57.206 37.500 0.00 0.00 0.00 1.40
430 525 6.793505 AATACGTGGTCTTCTCTTCCTTAT 57.206 37.500 0.00 0.00 0.00 1.73
431 526 6.660521 TGTAATACGTGGTCTTCTCTTCCTTA 59.339 38.462 0.00 0.00 0.00 2.69
432 527 5.479375 TGTAATACGTGGTCTTCTCTTCCTT 59.521 40.000 0.00 0.00 0.00 3.36
433 528 5.014858 TGTAATACGTGGTCTTCTCTTCCT 58.985 41.667 0.00 0.00 0.00 3.36
434 529 5.320549 TGTAATACGTGGTCTTCTCTTCC 57.679 43.478 0.00 0.00 0.00 3.46
435 530 8.136165 ACATATGTAATACGTGGTCTTCTCTTC 58.864 37.037 6.56 0.00 0.00 2.87
436 531 8.008513 ACATATGTAATACGTGGTCTTCTCTT 57.991 34.615 6.56 0.00 0.00 2.85
437 532 7.284716 TGACATATGTAATACGTGGTCTTCTCT 59.715 37.037 8.71 0.00 0.00 3.10
438 533 7.378995 GTGACATATGTAATACGTGGTCTTCTC 59.621 40.741 8.71 0.00 0.00 2.87
439 534 7.147966 TGTGACATATGTAATACGTGGTCTTCT 60.148 37.037 8.71 0.00 0.00 2.85
440 535 6.976349 TGTGACATATGTAATACGTGGTCTTC 59.024 38.462 8.71 11.02 0.00 2.87
441 536 6.755141 GTGTGACATATGTAATACGTGGTCTT 59.245 38.462 8.71 0.00 0.00 3.01
442 537 6.270815 GTGTGACATATGTAATACGTGGTCT 58.729 40.000 8.71 0.00 0.00 3.85
443 538 5.172591 CGTGTGACATATGTAATACGTGGTC 59.827 44.000 26.24 5.80 38.64 4.02
444 539 5.038683 CGTGTGACATATGTAATACGTGGT 58.961 41.667 26.24 0.00 38.64 4.16
445 540 4.085261 GCGTGTGACATATGTAATACGTGG 60.085 45.833 31.27 13.83 43.32 4.94
446 541 4.501198 TGCGTGTGACATATGTAATACGTG 59.499 41.667 31.27 14.38 43.32 4.49
447 542 4.674475 TGCGTGTGACATATGTAATACGT 58.326 39.130 31.27 2.29 43.32 3.57
448 543 4.375005 GCTGCGTGTGACATATGTAATACG 60.375 45.833 28.81 28.81 43.95 3.06
449 544 4.745125 AGCTGCGTGTGACATATGTAATAC 59.255 41.667 8.71 9.20 0.00 1.89
450 545 4.944048 AGCTGCGTGTGACATATGTAATA 58.056 39.130 8.71 0.00 0.00 0.98
451 546 3.797039 AGCTGCGTGTGACATATGTAAT 58.203 40.909 8.71 0.00 0.00 1.89
452 547 3.245518 AGCTGCGTGTGACATATGTAA 57.754 42.857 8.71 0.00 0.00 2.41
453 548 2.959507 AGCTGCGTGTGACATATGTA 57.040 45.000 8.71 0.00 0.00 2.29
454 549 2.814269 CTAGCTGCGTGTGACATATGT 58.186 47.619 8.43 8.43 0.00 2.29
455 550 1.524355 GCTAGCTGCGTGTGACATATG 59.476 52.381 7.70 0.00 0.00 1.78
456 551 1.136891 TGCTAGCTGCGTGTGACATAT 59.863 47.619 17.23 0.00 46.63 1.78
457 552 0.530288 TGCTAGCTGCGTGTGACATA 59.470 50.000 17.23 0.00 46.63 2.29
458 553 1.016130 GTGCTAGCTGCGTGTGACAT 61.016 55.000 17.23 0.00 46.63 3.06
459 554 1.664649 GTGCTAGCTGCGTGTGACA 60.665 57.895 17.23 0.00 46.63 3.58
460 555 2.383527 GGTGCTAGCTGCGTGTGAC 61.384 63.158 17.23 2.48 46.63 3.67
461 556 2.048222 GGTGCTAGCTGCGTGTGA 60.048 61.111 17.23 0.00 46.63 3.58
462 557 3.481903 CGGTGCTAGCTGCGTGTG 61.482 66.667 17.23 0.00 46.63 3.82
525 620 1.889829 ACTGAGGTTTGAGAGACGAGG 59.110 52.381 0.00 0.00 0.00 4.63
544 639 7.647715 GCAGTGATTCAGAGTAATTAGAGAGAC 59.352 40.741 0.00 0.00 0.00 3.36
838 939 8.802267 GCATTAATCAGTATACCTTCTCTCTCT 58.198 37.037 0.00 0.00 0.00 3.10
839 940 8.032451 GGCATTAATCAGTATACCTTCTCTCTC 58.968 40.741 0.00 0.00 0.00 3.20
840 941 7.510685 TGGCATTAATCAGTATACCTTCTCTCT 59.489 37.037 0.00 0.00 0.00 3.10
841 942 7.671302 TGGCATTAATCAGTATACCTTCTCTC 58.329 38.462 0.00 0.00 0.00 3.20
842 943 7.618019 TGGCATTAATCAGTATACCTTCTCT 57.382 36.000 0.00 0.00 0.00 3.10
1009 1131 3.197766 ACCATCCTATCACAACATGACGT 59.802 43.478 0.00 0.00 41.24 4.34
1043 1165 1.924731 TCCTCACTTGGATGTCGACT 58.075 50.000 17.92 1.84 0.00 4.18
1188 1408 2.194271 GTACTCGGTCTATGCAAGCAC 58.806 52.381 0.00 0.00 0.00 4.40
1435 1672 7.600752 GCCTACAAGTGACTATAGAATTCATCC 59.399 40.741 6.78 0.00 0.00 3.51
1565 2251 7.337184 ACATCTCACTACATACCCTACATATCG 59.663 40.741 0.00 0.00 0.00 2.92
1586 2272 4.924305 AATGAGTTTGTTGCACACATCT 57.076 36.364 0.00 0.00 34.43 2.90
1658 2344 3.704800 AGTCTCAAGGGAAGGTTTAGC 57.295 47.619 0.00 0.00 0.00 3.09
1773 2464 3.696051 ACAGTGTGCAAACAATGACTTCT 59.304 39.130 10.29 0.00 37.85 2.85
2011 2708 5.120399 TGACATACTTAATGGTAAAGGCCG 58.880 41.667 0.00 0.00 40.16 6.13
2033 2730 6.609237 TTCTGAACAGAAAACATGAGACTG 57.391 37.500 13.78 6.10 43.79 3.51
2047 2744 9.869844 CTTAACTATTCTTGTGTTTCTGAACAG 57.130 33.333 0.00 0.00 45.86 3.16
2199 2897 0.236449 GTGGCTTACCCGAACAAACG 59.764 55.000 0.00 0.00 35.87 3.60
2348 3054 5.830991 AGACAGCAAACCAACCTTTACAATA 59.169 36.000 0.00 0.00 0.00 1.90
2534 3240 3.108144 CAAAACAAAGAGCTTCCACACG 58.892 45.455 0.00 0.00 0.00 4.49
2556 3262 8.063200 AGAAAAGATCATCAAAGATGCATTCA 57.937 30.769 0.00 0.00 0.00 2.57
2597 3303 3.268330 CATAGAGCTGCTTCTCTTGCAA 58.732 45.455 2.53 0.00 42.88 4.08
3288 4174 6.372659 AGCACATAATACAGAAACTGTCCTTG 59.627 38.462 7.68 5.44 41.21 3.61
3289 4175 6.476378 AGCACATAATACAGAAACTGTCCTT 58.524 36.000 7.68 6.34 41.21 3.36
3292 4179 6.813649 TGAGAGCACATAATACAGAAACTGTC 59.186 38.462 7.68 0.00 41.21 3.51
3331 4218 2.191128 ATGTGCTTCACTCTTCCACC 57.809 50.000 0.00 0.00 35.11 4.61
3355 4244 2.618241 GGATGCAAATCAGACCGCAATA 59.382 45.455 0.00 0.00 38.01 1.90
3423 4312 3.982516 TCAGTGCTTCTCTGGTATACCT 58.017 45.455 22.41 0.00 36.82 3.08
3427 4316 3.027412 ACGATCAGTGCTTCTCTGGTAT 58.973 45.455 0.00 0.00 34.15 2.73
3443 4332 1.003233 ACTCTCCCCCAAAACACGATC 59.997 52.381 0.00 0.00 0.00 3.69
3447 4336 2.638363 AGTCTACTCTCCCCCAAAACAC 59.362 50.000 0.00 0.00 0.00 3.32
3449 4338 3.451540 CCTAGTCTACTCTCCCCCAAAAC 59.548 52.174 0.00 0.00 0.00 2.43
3620 4510 1.599171 CGCCATTCACGCTCAACAAAA 60.599 47.619 0.00 0.00 0.00 2.44
3694 4584 1.336125 GCAGATGCCTAGCCATGAAAC 59.664 52.381 0.00 0.00 34.31 2.78
3712 4602 0.893270 CATTCTGGGGAAACGGTGCA 60.893 55.000 0.00 0.00 34.90 4.57
3753 4666 9.349713 TGAGCAAGTAAATAAGGAAGAAAGAAA 57.650 29.630 0.00 0.00 0.00 2.52
3754 4667 8.918202 TGAGCAAGTAAATAAGGAAGAAAGAA 57.082 30.769 0.00 0.00 0.00 2.52
3755 4668 9.167311 GATGAGCAAGTAAATAAGGAAGAAAGA 57.833 33.333 0.00 0.00 0.00 2.52
3756 4669 8.119226 CGATGAGCAAGTAAATAAGGAAGAAAG 58.881 37.037 0.00 0.00 0.00 2.62
3757 4670 7.606456 ACGATGAGCAAGTAAATAAGGAAGAAA 59.394 33.333 0.00 0.00 0.00 2.52
3758 4671 7.064609 CACGATGAGCAAGTAAATAAGGAAGAA 59.935 37.037 0.00 0.00 0.00 2.52
3759 4672 6.535150 CACGATGAGCAAGTAAATAAGGAAGA 59.465 38.462 0.00 0.00 0.00 2.87
3987 4923 3.130516 TGAACCGAACCTCTATACAGCAG 59.869 47.826 0.00 0.00 0.00 4.24
4150 5106 2.125188 GCTGACTCTGCAGGGCTC 60.125 66.667 15.27 11.22 36.41 4.70
4178 5134 6.200854 GCTGAAAGTAAATTCAAACCAGTTGG 59.799 38.462 0.00 0.00 38.75 3.77
4179 5135 6.200854 GGCTGAAAGTAAATTCAAACCAGTTG 59.799 38.462 0.00 0.00 38.75 3.16
4180 5136 6.098266 AGGCTGAAAGTAAATTCAAACCAGTT 59.902 34.615 9.90 0.00 38.75 3.16
4182 5138 5.922544 CAGGCTGAAAGTAAATTCAAACCAG 59.077 40.000 9.42 0.00 38.75 4.00
4183 5139 5.362430 ACAGGCTGAAAGTAAATTCAAACCA 59.638 36.000 23.66 0.00 38.75 3.67
4184 5140 5.842907 ACAGGCTGAAAGTAAATTCAAACC 58.157 37.500 23.66 0.00 38.75 3.27
4185 5141 7.649057 AGTACAGGCTGAAAGTAAATTCAAAC 58.351 34.615 23.66 0.00 38.75 2.93
4408 5393 3.829026 TGAGATAGTGAGCCGCAGAATAT 59.171 43.478 0.00 0.00 0.00 1.28
4409 5394 3.222603 TGAGATAGTGAGCCGCAGAATA 58.777 45.455 0.00 0.00 0.00 1.75
4410 5395 2.034878 TGAGATAGTGAGCCGCAGAAT 58.965 47.619 0.00 0.00 0.00 2.40
4411 5396 1.474330 TGAGATAGTGAGCCGCAGAA 58.526 50.000 0.00 0.00 0.00 3.02
4487 5501 7.094549 GCTACTCTTGATCTAGATACATCCGTT 60.095 40.741 4.89 0.00 0.00 4.44
4488 5502 6.373216 GCTACTCTTGATCTAGATACATCCGT 59.627 42.308 4.89 3.31 0.00 4.69
4489 5503 6.372937 TGCTACTCTTGATCTAGATACATCCG 59.627 42.308 4.89 0.00 0.00 4.18
4571 5585 3.424198 TCTGATTCAAAGTTCGTTCGTCG 59.576 43.478 0.00 0.00 41.41 5.12
4572 5586 4.966850 TCTGATTCAAAGTTCGTTCGTC 57.033 40.909 0.00 0.00 0.00 4.20
4573 5587 5.728351 TTTCTGATTCAAAGTTCGTTCGT 57.272 34.783 0.00 0.00 0.00 3.85
4656 5670 4.799564 TTTGAGGAACTGTTTGCTGTTT 57.200 36.364 0.00 0.00 41.55 2.83
4683 5697 0.462581 TTGATCTGCTCCGATGGCAC 60.463 55.000 0.00 0.00 35.71 5.01
4684 5698 0.471191 ATTGATCTGCTCCGATGGCA 59.529 50.000 0.00 0.00 38.10 4.92
4685 5699 0.873054 CATTGATCTGCTCCGATGGC 59.127 55.000 0.00 0.00 0.00 4.40
4686 5700 2.251409 ACATTGATCTGCTCCGATGG 57.749 50.000 0.00 0.00 0.00 3.51
4687 5701 3.186001 GCTAACATTGATCTGCTCCGATG 59.814 47.826 0.00 0.00 0.00 3.84
4689 5703 2.168313 TGCTAACATTGATCTGCTCCGA 59.832 45.455 0.00 0.00 0.00 4.55
4690 5704 2.554142 TGCTAACATTGATCTGCTCCG 58.446 47.619 0.00 0.00 0.00 4.63
4691 5705 6.814506 ATTATGCTAACATTGATCTGCTCC 57.185 37.500 0.00 0.00 37.74 4.70
4723 5966 3.129988 ACATAAATTGCTCTGCTCCTTGC 59.870 43.478 0.00 0.00 43.25 4.01
4742 5985 8.717717 TGGATATTTCTAGGTCATTCAGAACAT 58.282 33.333 0.00 0.00 35.97 2.71
4749 5992 5.703130 GCTGGTGGATATTTCTAGGTCATTC 59.297 44.000 0.00 0.00 0.00 2.67
4805 6062 7.968405 GCGAAAAGAGTGACAAATAACCAATAT 59.032 33.333 0.00 0.00 0.00 1.28
4806 6063 7.174253 AGCGAAAAGAGTGACAAATAACCAATA 59.826 33.333 0.00 0.00 0.00 1.90
4807 6064 6.016276 AGCGAAAAGAGTGACAAATAACCAAT 60.016 34.615 0.00 0.00 0.00 3.16
4808 6065 5.298276 AGCGAAAAGAGTGACAAATAACCAA 59.702 36.000 0.00 0.00 0.00 3.67
4809 6066 4.819630 AGCGAAAAGAGTGACAAATAACCA 59.180 37.500 0.00 0.00 0.00 3.67
4830 6087 1.477700 TGCCCAAGATTACATGCAAGC 59.522 47.619 0.00 0.00 0.00 4.01
4835 6092 1.600957 CGAGCTGCCCAAGATTACATG 59.399 52.381 0.00 0.00 0.00 3.21
4902 6159 4.323485 GGAGGATTCACCACATCTTACACA 60.323 45.833 0.00 0.00 42.04 3.72
4913 6170 3.605726 TCCGTATAGGAGGATTCACCA 57.394 47.619 0.00 0.00 45.98 4.17
4929 6187 4.341487 TCGTCTATCCATATCCATTCCGT 58.659 43.478 0.00 0.00 0.00 4.69
5000 6284 6.432403 AGTGAATTATTTGGGGAGCAAAAA 57.568 33.333 0.00 0.00 0.00 1.94
5062 6351 8.767478 ATTTCTACAAGATTGAGCCAAATTTG 57.233 30.769 11.40 11.40 31.67 2.32
5100 6389 3.321111 GGGCAACGAGACAGGAGATTATA 59.679 47.826 0.00 0.00 37.60 0.98
5103 6392 0.250513 GGGCAACGAGACAGGAGATT 59.749 55.000 0.00 0.00 37.60 2.40


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

AutoCloner maintained by Alex Coulton.