Multiple sequence alignment - TraesCS6A01G258200

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 TraesCS6A01G258200 chr6A 100.000 3122 0 0 1 3122 480617741 480614620 0.000000e+00 5766.0
1 TraesCS6A01G258200 chr3A 94.592 2478 121 11 649 3120 429245290 429247760 0.000000e+00 3821.0
2 TraesCS6A01G258200 chr2B 92.531 2517 147 21 631 3119 529093208 529095711 0.000000e+00 3568.0
3 TraesCS6A01G258200 chr2B 85.908 1398 145 29 1308 2681 510736769 510738138 0.000000e+00 1443.0
4 TraesCS6A01G258200 chr2B 94.068 118 7 0 3003 3120 510751724 510751841 2.470000e-41 180.0
5 TraesCS6A01G258200 chr2B 82.673 202 33 2 623 823 741437371 741437171 8.900000e-41 178.0
6 TraesCS6A01G258200 chr2B 100.000 29 0 0 1057 1085 706977699 706977671 2.000000e-03 54.7
7 TraesCS6A01G258200 chr6B 91.992 2510 148 31 630 3122 363934075 363931602 0.000000e+00 3472.0
8 TraesCS6A01G258200 chr6B 87.419 922 86 17 2098 3001 279659701 279660610 0.000000e+00 1033.0
9 TraesCS6A01G258200 chr6B 92.570 646 40 3 2476 3120 77659161 77658523 0.000000e+00 920.0
10 TraesCS6A01G258200 chr6B 87.755 784 70 12 1091 1857 77659918 77659144 0.000000e+00 893.0
11 TraesCS6A01G258200 chr6B 91.284 631 41 6 1 626 480387618 480388239 0.000000e+00 848.0
12 TraesCS6A01G258200 chr6B 84.837 798 86 14 1308 2090 279658891 279659668 0.000000e+00 771.0
13 TraesCS6A01G258200 chr6B 88.889 486 33 11 624 1089 77660478 77659994 2.090000e-161 579.0
14 TraesCS6A01G258200 chr6B 96.587 293 10 0 2827 3119 603812288 603812580 1.300000e-133 486.0
15 TraesCS6A01G258200 chr6B 78.555 429 46 18 666 1051 279658039 279658464 1.120000e-59 241.0
16 TraesCS6A01G258200 chr6B 92.174 115 9 0 3003 3117 279660660 279660774 2.490000e-36 163.0
17 TraesCS6A01G258200 chr6B 100.000 29 0 0 1057 1085 381191475 381191503 2.000000e-03 54.7
18 TraesCS6A01G258200 chr6D 94.489 1361 59 7 963 2307 145005111 145003751 0.000000e+00 2084.0
19 TraesCS6A01G258200 chr6D 95.614 684 27 3 2441 3122 144999029 144998347 0.000000e+00 1094.0
20 TraesCS6A01G258200 chr6D 92.429 634 31 8 1 626 340438540 340437916 0.000000e+00 889.0
21 TraesCS6A01G258200 chr6D 92.550 349 22 3 631 977 145006316 145005970 6.010000e-137 497.0
22 TraesCS6A01G258200 chr4A 94.564 1159 54 9 1971 3122 715605914 715604758 0.000000e+00 1783.0
23 TraesCS6A01G258200 chr4A 92.099 886 58 4 632 1505 715607152 715606267 0.000000e+00 1238.0
24 TraesCS6A01G258200 chr4A 93.443 183 12 0 1793 1975 715606275 715606093 3.970000e-69 272.0
25 TraesCS6A01G258200 chr4A 75.084 297 41 17 2059 2349 520952572 520952841 1.180000e-19 108.0
26 TraesCS6A01G258200 chr1B 80.478 502 84 9 1918 2407 641210386 641210885 3.800000e-99 372.0
27 TraesCS6A01G258200 chr5D 80.977 389 56 8 667 1051 492612391 492612765 3.050000e-75 292.0
28 TraesCS6A01G258200 chr5A 91.333 150 12 1 632 781 29062537 29062685 1.470000e-48 204.0
29 TraesCS6A01G258200 chr5A 78.049 164 30 5 623 784 704458209 704458050 7.130000e-17 99.0
30 TraesCS6A01G258200 chr5B 86.842 114 15 0 1989 2102 503874766 503874653 9.090000e-26 128.0
31 TraesCS6A01G258200 chr5B 92.453 53 3 1 1989 2041 503875792 503875741 1.200000e-09 75.0


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 TraesCS6A01G258200 chr6A 480614620 480617741 3121 True 5766.000000 5766 100.000000 1 3122 1 chr6A.!!$R1 3121
1 TraesCS6A01G258200 chr3A 429245290 429247760 2470 False 3821.000000 3821 94.592000 649 3120 1 chr3A.!!$F1 2471
2 TraesCS6A01G258200 chr2B 529093208 529095711 2503 False 3568.000000 3568 92.531000 631 3119 1 chr2B.!!$F3 2488
3 TraesCS6A01G258200 chr2B 510736769 510738138 1369 False 1443.000000 1443 85.908000 1308 2681 1 chr2B.!!$F1 1373
4 TraesCS6A01G258200 chr6B 363931602 363934075 2473 True 3472.000000 3472 91.992000 630 3122 1 chr6B.!!$R1 2492
5 TraesCS6A01G258200 chr6B 480387618 480388239 621 False 848.000000 848 91.284000 1 626 1 chr6B.!!$F2 625
6 TraesCS6A01G258200 chr6B 77658523 77660478 1955 True 797.333333 920 89.738000 624 3120 3 chr6B.!!$R2 2496
7 TraesCS6A01G258200 chr6B 279658039 279660774 2735 False 552.000000 1033 85.746250 666 3117 4 chr6B.!!$F4 2451
8 TraesCS6A01G258200 chr6D 145003751 145006316 2565 True 1290.500000 2084 93.519500 631 2307 2 chr6D.!!$R3 1676
9 TraesCS6A01G258200 chr6D 144998347 144999029 682 True 1094.000000 1094 95.614000 2441 3122 1 chr6D.!!$R1 681
10 TraesCS6A01G258200 chr6D 340437916 340438540 624 True 889.000000 889 92.429000 1 626 1 chr6D.!!$R2 625
11 TraesCS6A01G258200 chr4A 715604758 715607152 2394 True 1097.666667 1783 93.368667 632 3122 3 chr4A.!!$R1 2490

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
561 566 0.037046 CAAAGGGCTTTGGATGTGGC 60.037 55.000 0.0 0.0 44.47 5.01 F
562 567 0.178924 AAAGGGCTTTGGATGTGGCT 60.179 50.000 0.0 0.0 0.00 4.75 F
563 568 0.901580 AAGGGCTTTGGATGTGGCTG 60.902 55.000 0.0 0.0 0.00 4.85 F
582 587 1.066430 TGTCGCCTAGCCGAATTTTCT 60.066 47.619 0.0 0.0 39.17 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1634 2776 0.459063 CGACTGCTACTGCTGCATGA 60.459 55.000 1.31 0.00 41.07 3.07 R
1750 2911 0.970640 AGCCATGAAAATGTGCAGCA 59.029 45.000 0.00 0.00 0.00 4.41 R
2025 3381 3.426292 GCCCGTAGAAGCTGAAAATCAAC 60.426 47.826 0.00 0.00 0.00 3.18 R
2166 3549 4.557205 AGCATAAAGAAGACGACGACTTT 58.443 39.130 13.52 13.86 36.68 2.66 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
18 19 2.509422 GATAACCCCTCGCACCCC 59.491 66.667 0.00 0.00 0.00 4.95
21 22 3.954740 TAACCCCTCGCACCCCCAT 62.955 63.158 0.00 0.00 0.00 4.00
29 30 2.436646 GCACCCCCATGACTCACG 60.437 66.667 0.00 0.00 0.00 4.35
74 75 5.488341 GGCTACACCAGAGAAATCAAACTA 58.512 41.667 0.00 0.00 38.86 2.24
82 83 5.513094 CCAGAGAAATCAAACTACCCAGACA 60.513 44.000 0.00 0.00 0.00 3.41
83 84 5.409826 CAGAGAAATCAAACTACCCAGACAC 59.590 44.000 0.00 0.00 0.00 3.67
84 85 5.071788 AGAGAAATCAAACTACCCAGACACA 59.928 40.000 0.00 0.00 0.00 3.72
85 86 5.063880 AGAAATCAAACTACCCAGACACAC 58.936 41.667 0.00 0.00 0.00 3.82
86 87 4.431416 AATCAAACTACCCAGACACACA 57.569 40.909 0.00 0.00 0.00 3.72
88 89 4.223556 TCAAACTACCCAGACACACAAA 57.776 40.909 0.00 0.00 0.00 2.83
90 91 2.234300 ACTACCCAGACACACAAACG 57.766 50.000 0.00 0.00 0.00 3.60
91 92 1.202604 ACTACCCAGACACACAAACGG 60.203 52.381 0.00 0.00 0.00 4.44
92 93 0.533308 TACCCAGACACACAAACGGC 60.533 55.000 0.00 0.00 0.00 5.68
97 102 3.236618 GACACACAAACGGCTCCGC 62.237 63.158 8.41 0.00 44.19 5.54
147 152 1.298667 CGAACCCCACTAACCCCTG 59.701 63.158 0.00 0.00 0.00 4.45
217 222 2.775856 GGGATCGAGCGAGCAGACA 61.776 63.158 10.40 0.00 31.28 3.41
223 228 2.431601 AGCGAGCAGACAAGCGAC 60.432 61.111 0.00 0.00 40.15 5.19
226 231 1.406970 GCGAGCAGACAAGCGACTAC 61.407 60.000 0.00 0.00 40.15 2.73
227 232 0.798771 CGAGCAGACAAGCGACTACC 60.799 60.000 0.00 0.00 40.15 3.18
234 239 0.108329 ACAAGCGACTACCGGGAATG 60.108 55.000 6.32 0.00 39.04 2.67
244 249 2.587194 CGGGAATGAGCAGCGGAG 60.587 66.667 0.00 0.00 0.00 4.63
313 318 3.729698 CGGGGGCGTTTCGGAAAC 61.730 66.667 20.87 20.87 38.02 2.78
346 351 3.782244 GCTTGTGTGCCGAGCGAG 61.782 66.667 0.00 0.00 40.72 5.03
347 352 3.114616 CTTGTGTGCCGAGCGAGG 61.115 66.667 0.00 0.00 0.00 4.63
348 353 4.680237 TTGTGTGCCGAGCGAGGG 62.680 66.667 2.78 0.00 0.00 4.30
385 390 3.188786 GCCGAGCGCAAAGACGAT 61.189 61.111 11.47 0.00 37.47 3.73
386 391 2.697425 CCGAGCGCAAAGACGATG 59.303 61.111 11.47 0.00 34.06 3.84
387 392 2.697425 CGAGCGCAAAGACGATGG 59.303 61.111 11.47 0.00 34.06 3.51
388 393 1.805539 CGAGCGCAAAGACGATGGA 60.806 57.895 11.47 0.00 34.06 3.41
389 394 1.351430 CGAGCGCAAAGACGATGGAA 61.351 55.000 11.47 0.00 34.06 3.53
390 395 0.095417 GAGCGCAAAGACGATGGAAC 59.905 55.000 11.47 0.00 34.06 3.62
403 408 3.569827 TGGAACAGTGGGAAGAGGA 57.430 52.632 0.00 0.00 0.00 3.71
404 409 1.352083 TGGAACAGTGGGAAGAGGAG 58.648 55.000 0.00 0.00 0.00 3.69
405 410 0.615850 GGAACAGTGGGAAGAGGAGG 59.384 60.000 0.00 0.00 0.00 4.30
406 411 1.645710 GAACAGTGGGAAGAGGAGGA 58.354 55.000 0.00 0.00 0.00 3.71
407 412 1.552792 GAACAGTGGGAAGAGGAGGAG 59.447 57.143 0.00 0.00 0.00 3.69
408 413 0.252467 ACAGTGGGAAGAGGAGGAGG 60.252 60.000 0.00 0.00 0.00 4.30
409 414 0.252467 CAGTGGGAAGAGGAGGAGGT 60.252 60.000 0.00 0.00 0.00 3.85
410 415 0.252467 AGTGGGAAGAGGAGGAGGTG 60.252 60.000 0.00 0.00 0.00 4.00
411 416 1.081092 TGGGAAGAGGAGGAGGTGG 59.919 63.158 0.00 0.00 0.00 4.61
412 417 1.690985 GGGAAGAGGAGGAGGTGGG 60.691 68.421 0.00 0.00 0.00 4.61
413 418 1.081277 GGAAGAGGAGGAGGTGGGT 59.919 63.158 0.00 0.00 0.00 4.51
414 419 1.268283 GGAAGAGGAGGAGGTGGGTG 61.268 65.000 0.00 0.00 0.00 4.61
415 420 1.229658 AAGAGGAGGAGGTGGGTGG 60.230 63.158 0.00 0.00 0.00 4.61
416 421 2.689034 GAGGAGGAGGTGGGTGGG 60.689 72.222 0.00 0.00 0.00 4.61
417 422 3.542602 AGGAGGAGGTGGGTGGGT 61.543 66.667 0.00 0.00 0.00 4.51
418 423 3.330720 GGAGGAGGTGGGTGGGTG 61.331 72.222 0.00 0.00 0.00 4.61
419 424 3.330720 GAGGAGGTGGGTGGGTGG 61.331 72.222 0.00 0.00 0.00 4.61
422 427 3.966543 GAGGTGGGTGGGTGGGTG 61.967 72.222 0.00 0.00 0.00 4.61
443 448 3.053291 GGCGGCGTGATGTGGAAA 61.053 61.111 9.37 0.00 0.00 3.13
444 449 2.622011 GGCGGCGTGATGTGGAAAA 61.622 57.895 9.37 0.00 0.00 2.29
445 450 1.154225 GCGGCGTGATGTGGAAAAG 60.154 57.895 9.37 0.00 0.00 2.27
446 451 1.501741 CGGCGTGATGTGGAAAAGG 59.498 57.895 0.00 0.00 0.00 3.11
447 452 1.883021 GGCGTGATGTGGAAAAGGG 59.117 57.895 0.00 0.00 0.00 3.95
448 453 0.608035 GGCGTGATGTGGAAAAGGGA 60.608 55.000 0.00 0.00 0.00 4.20
449 454 0.521735 GCGTGATGTGGAAAAGGGAC 59.478 55.000 0.00 0.00 0.00 4.46
450 455 0.796312 CGTGATGTGGAAAAGGGACG 59.204 55.000 0.00 0.00 0.00 4.79
451 456 1.165270 GTGATGTGGAAAAGGGACGG 58.835 55.000 0.00 0.00 0.00 4.79
452 457 1.060729 TGATGTGGAAAAGGGACGGA 58.939 50.000 0.00 0.00 0.00 4.69
453 458 1.633432 TGATGTGGAAAAGGGACGGAT 59.367 47.619 0.00 0.00 0.00 4.18
454 459 2.841266 TGATGTGGAAAAGGGACGGATA 59.159 45.455 0.00 0.00 0.00 2.59
455 460 2.773993 TGTGGAAAAGGGACGGATAC 57.226 50.000 0.00 0.00 0.00 2.24
456 461 2.262637 TGTGGAAAAGGGACGGATACT 58.737 47.619 0.00 0.00 0.00 2.12
457 462 2.640826 TGTGGAAAAGGGACGGATACTT 59.359 45.455 0.00 0.00 0.00 2.24
458 463 3.073356 TGTGGAAAAGGGACGGATACTTT 59.927 43.478 0.00 0.00 36.09 2.66
459 464 3.439129 GTGGAAAAGGGACGGATACTTTG 59.561 47.826 0.00 0.00 34.89 2.77
460 465 2.422479 GGAAAAGGGACGGATACTTTGC 59.578 50.000 0.00 0.00 34.89 3.68
461 466 3.344515 GAAAAGGGACGGATACTTTGCT 58.655 45.455 0.00 0.00 34.89 3.91
462 467 2.693267 AAGGGACGGATACTTTGCTC 57.307 50.000 0.00 0.00 0.00 4.26
463 468 0.460311 AGGGACGGATACTTTGCTCG 59.540 55.000 0.00 0.00 0.00 5.03
464 469 0.529992 GGGACGGATACTTTGCTCGG 60.530 60.000 0.00 0.00 0.00 4.63
465 470 0.529992 GGACGGATACTTTGCTCGGG 60.530 60.000 0.00 0.00 0.00 5.14
466 471 1.152383 GACGGATACTTTGCTCGGGC 61.152 60.000 0.00 0.00 39.26 6.13
467 472 1.887707 CGGATACTTTGCTCGGGCC 60.888 63.158 3.94 0.00 37.74 5.80
468 473 1.223487 GGATACTTTGCTCGGGCCA 59.777 57.895 3.94 0.00 37.74 5.36
469 474 0.815615 GGATACTTTGCTCGGGCCAG 60.816 60.000 3.94 2.80 37.74 4.85
470 475 0.107654 GATACTTTGCTCGGGCCAGT 60.108 55.000 13.36 13.36 37.74 4.00
471 476 0.328258 ATACTTTGCTCGGGCCAGTT 59.672 50.000 13.99 1.08 37.74 3.16
472 477 0.605319 TACTTTGCTCGGGCCAGTTG 60.605 55.000 13.99 0.00 37.74 3.16
473 478 3.273080 CTTTGCTCGGGCCAGTTGC 62.273 63.158 3.94 10.80 37.74 4.17
474 479 3.790416 TTTGCTCGGGCCAGTTGCT 62.790 57.895 3.94 0.00 40.92 3.91
475 480 4.704833 TGCTCGGGCCAGTTGCTC 62.705 66.667 3.94 0.00 40.92 4.26
480 485 4.021925 GGGCCAGTTGCTCGGAGT 62.022 66.667 4.39 0.00 40.92 3.85
481 486 2.032681 GGCCAGTTGCTCGGAGTT 59.967 61.111 6.90 0.00 40.92 3.01
482 487 2.328099 GGCCAGTTGCTCGGAGTTG 61.328 63.158 6.90 1.13 40.92 3.16
483 488 2.328099 GCCAGTTGCTCGGAGTTGG 61.328 63.158 6.90 10.41 36.87 3.77
484 489 1.672356 CCAGTTGCTCGGAGTTGGG 60.672 63.158 6.90 0.00 0.00 4.12
485 490 1.672356 CAGTTGCTCGGAGTTGGGG 60.672 63.158 6.90 0.00 0.00 4.96
486 491 2.359975 GTTGCTCGGAGTTGGGGG 60.360 66.667 6.90 0.00 0.00 5.40
487 492 2.528127 TTGCTCGGAGTTGGGGGA 60.528 61.111 6.90 0.00 0.00 4.81
488 493 2.592993 TTGCTCGGAGTTGGGGGAG 61.593 63.158 6.90 0.00 0.00 4.30
489 494 3.787001 GCTCGGAGTTGGGGGAGG 61.787 72.222 6.90 0.00 0.00 4.30
490 495 2.038975 CTCGGAGTTGGGGGAGGA 59.961 66.667 0.00 0.00 0.00 3.71
491 496 1.612442 CTCGGAGTTGGGGGAGGAA 60.612 63.158 0.00 0.00 0.00 3.36
492 497 1.612442 TCGGAGTTGGGGGAGGAAG 60.612 63.158 0.00 0.00 0.00 3.46
493 498 2.670148 CGGAGTTGGGGGAGGAAGG 61.670 68.421 0.00 0.00 0.00 3.46
494 499 1.229853 GGAGTTGGGGGAGGAAGGA 60.230 63.158 0.00 0.00 0.00 3.36
495 500 0.845102 GGAGTTGGGGGAGGAAGGAA 60.845 60.000 0.00 0.00 0.00 3.36
496 501 0.328592 GAGTTGGGGGAGGAAGGAAC 59.671 60.000 0.00 0.00 0.00 3.62
497 502 1.140772 AGTTGGGGGAGGAAGGAACC 61.141 60.000 0.00 0.00 0.00 3.62
498 503 2.228480 TTGGGGGAGGAAGGAACCG 61.228 63.158 0.00 0.00 34.73 4.44
499 504 4.111053 GGGGGAGGAAGGAACCGC 62.111 72.222 0.00 0.00 36.19 5.68
500 505 4.468689 GGGGAGGAAGGAACCGCG 62.469 72.222 0.00 0.00 34.73 6.46
501 506 4.468689 GGGAGGAAGGAACCGCGG 62.469 72.222 26.86 26.86 34.73 6.46
503 508 4.083862 GAGGAAGGAACCGCGGCT 62.084 66.667 28.58 15.08 34.73 5.52
504 509 4.394712 AGGAAGGAACCGCGGCTG 62.395 66.667 28.58 1.05 34.73 4.85
540 545 3.974293 GGGAAACCGGCCTGGGAA 61.974 66.667 16.44 0.00 44.64 3.97
541 546 2.361230 GGAAACCGGCCTGGGAAG 60.361 66.667 16.44 0.00 44.64 3.46
542 547 3.062466 GAAACCGGCCTGGGAAGC 61.062 66.667 16.44 1.71 44.64 3.86
543 548 3.860930 GAAACCGGCCTGGGAAGCA 62.861 63.158 16.44 0.00 44.64 3.91
544 549 3.444818 AAACCGGCCTGGGAAGCAA 62.445 57.895 16.44 0.00 44.64 3.91
545 550 2.937959 AAACCGGCCTGGGAAGCAAA 62.938 55.000 16.44 0.00 44.64 3.68
546 551 3.064324 CCGGCCTGGGAAGCAAAG 61.064 66.667 0.00 0.00 0.00 2.77
547 552 3.064324 CGGCCTGGGAAGCAAAGG 61.064 66.667 0.00 0.00 0.00 3.11
548 553 2.681421 GGCCTGGGAAGCAAAGGG 60.681 66.667 0.00 0.00 0.00 3.95
549 554 3.385384 GCCTGGGAAGCAAAGGGC 61.385 66.667 0.00 0.00 45.30 5.19
561 566 0.037046 CAAAGGGCTTTGGATGTGGC 60.037 55.000 0.00 0.00 44.47 5.01
562 567 0.178924 AAAGGGCTTTGGATGTGGCT 60.179 50.000 0.00 0.00 0.00 4.75
563 568 0.901580 AAGGGCTTTGGATGTGGCTG 60.902 55.000 0.00 0.00 0.00 4.85
564 569 1.607467 GGGCTTTGGATGTGGCTGT 60.607 57.895 0.00 0.00 0.00 4.40
565 570 1.598701 GGGCTTTGGATGTGGCTGTC 61.599 60.000 0.00 0.00 0.00 3.51
566 571 1.503542 GCTTTGGATGTGGCTGTCG 59.496 57.895 0.00 0.00 0.00 4.35
567 572 1.503542 CTTTGGATGTGGCTGTCGC 59.496 57.895 0.00 0.00 0.00 5.19
577 582 2.107141 GCTGTCGCCTAGCCGAAT 59.893 61.111 0.00 0.00 39.17 3.34
578 583 1.521681 GCTGTCGCCTAGCCGAATT 60.522 57.895 0.00 0.00 39.17 2.17
579 584 1.090052 GCTGTCGCCTAGCCGAATTT 61.090 55.000 0.00 0.00 39.17 1.82
580 585 1.369625 CTGTCGCCTAGCCGAATTTT 58.630 50.000 0.00 0.00 39.17 1.82
581 586 1.327764 CTGTCGCCTAGCCGAATTTTC 59.672 52.381 0.00 0.00 39.17 2.29
582 587 1.066430 TGTCGCCTAGCCGAATTTTCT 60.066 47.619 0.00 0.00 39.17 2.52
583 588 2.007608 GTCGCCTAGCCGAATTTTCTT 58.992 47.619 0.00 0.00 39.17 2.52
584 589 2.006888 TCGCCTAGCCGAATTTTCTTG 58.993 47.619 0.00 0.00 33.77 3.02
585 590 2.006888 CGCCTAGCCGAATTTTCTTGA 58.993 47.619 0.00 0.00 0.00 3.02
586 591 2.418628 CGCCTAGCCGAATTTTCTTGAA 59.581 45.455 0.00 0.00 0.00 2.69
587 592 3.727970 CGCCTAGCCGAATTTTCTTGAAC 60.728 47.826 0.00 0.00 0.00 3.18
588 593 3.440522 GCCTAGCCGAATTTTCTTGAACT 59.559 43.478 0.00 0.00 0.00 3.01
589 594 4.082733 GCCTAGCCGAATTTTCTTGAACTT 60.083 41.667 0.00 0.00 0.00 2.66
590 595 5.564848 GCCTAGCCGAATTTTCTTGAACTTT 60.565 40.000 0.00 0.00 0.00 2.66
591 596 6.349033 GCCTAGCCGAATTTTCTTGAACTTTA 60.349 38.462 0.00 0.00 0.00 1.85
592 597 7.021790 CCTAGCCGAATTTTCTTGAACTTTAC 58.978 38.462 0.00 0.00 0.00 2.01
593 598 6.635030 AGCCGAATTTTCTTGAACTTTACT 57.365 33.333 0.00 0.00 0.00 2.24
594 599 6.438763 AGCCGAATTTTCTTGAACTTTACTG 58.561 36.000 0.00 0.00 0.00 2.74
595 600 6.039382 AGCCGAATTTTCTTGAACTTTACTGT 59.961 34.615 0.00 0.00 0.00 3.55
596 601 6.695713 GCCGAATTTTCTTGAACTTTACTGTT 59.304 34.615 0.00 0.00 0.00 3.16
597 602 7.222031 GCCGAATTTTCTTGAACTTTACTGTTT 59.778 33.333 0.00 0.00 0.00 2.83
598 603 9.083080 CCGAATTTTCTTGAACTTTACTGTTTT 57.917 29.630 0.00 0.00 0.00 2.43
690 696 7.995488 ACTATTTCTCTTAACATGCAGCCTATT 59.005 33.333 0.00 0.00 0.00 1.73
707 713 4.579869 CCTATTCACCTAAGCACACTTGT 58.420 43.478 0.00 0.00 36.57 3.16
810 818 3.525800 AGGCCCAATACAATATGTCCC 57.474 47.619 0.00 0.00 0.00 4.46
979 1908 3.788708 TCCTGAGACCTCCTAATCTCTCA 59.211 47.826 3.17 0.00 41.69 3.27
993 1924 1.938657 CTCTCACATCCAGTCGCCGT 61.939 60.000 0.00 0.00 0.00 5.68
1010 1941 2.417651 GCCGTTAGCACATGTACCTACA 60.418 50.000 0.00 0.00 42.97 2.74
1018 1949 3.745799 CACATGTACCTACACCCAACAA 58.254 45.455 0.00 0.00 39.30 2.83
1243 2292 2.622977 GGGCGATAGATCCATCTCCTCT 60.623 54.545 9.58 0.00 38.32 3.69
1399 2508 6.223852 TGATTAGACAGACTCTTGGTGTTTC 58.776 40.000 0.00 0.00 0.00 2.78
1413 2522 3.704566 TGGTGTTTCTGATAGCGGATAGT 59.295 43.478 0.00 0.00 0.00 2.12
1425 2534 6.992123 TGATAGCGGATAGTTGTTTTGATGAT 59.008 34.615 0.00 0.00 0.00 2.45
1541 2677 7.617329 TGTCTTGAGGATATGAGAGAGAAGAAA 59.383 37.037 0.00 0.00 0.00 2.52
1621 2763 9.578576 TTTCAGGTACGATACTAGGTATACATT 57.421 33.333 5.01 0.00 0.00 2.71
1634 2776 8.759782 ACTAGGTATACATTGAAAAGTAGCTGT 58.240 33.333 5.01 0.00 0.00 4.40
1681 2842 2.025605 AGCATGGCCTTTCTCATCTTGA 60.026 45.455 3.32 0.00 0.00 3.02
1707 2868 5.295431 TCTGAACGAATATGTTTGCTTGG 57.705 39.130 0.00 0.00 30.75 3.61
1810 2971 3.628008 TCTCCTATTTCACGTGGCTAGA 58.372 45.455 17.00 6.63 0.00 2.43
1825 2986 4.568760 GTGGCTAGATGAGTTGCTAAAGTC 59.431 45.833 0.00 0.00 36.44 3.01
2025 3381 4.766404 AACAAGAAGCAAGTTATTCCCG 57.234 40.909 0.00 0.00 0.00 5.14
2095 3454 6.979817 GTGCCATATCTATCTATCTCAAGCTG 59.020 42.308 0.00 0.00 0.00 4.24
2166 3549 6.182507 TGCTTCTTTCCTGAAAAGGTACTA 57.817 37.500 0.00 0.00 43.88 1.82
2624 4022 6.531594 GCTCCCTAAATTATGAAGTTTTGTGC 59.468 38.462 0.00 0.00 0.00 4.57
2684 4090 6.457355 TGAACATTCTGCATTACATTTGCTT 58.543 32.000 0.00 0.00 40.77 3.91
2706 4112 2.489938 TTTATCTGGTCAGCCACACC 57.510 50.000 0.00 0.00 40.46 4.16
2728 4134 6.018262 CACCGAAAGAGTTTCACAAAGATACA 60.018 38.462 0.68 0.00 39.63 2.29
2753 4159 7.693969 AGTGTAACGACTATTTAGGTACACT 57.306 36.000 16.78 16.78 45.86 3.55
2755 4161 6.684555 GTGTAACGACTATTTAGGTACACTCG 59.315 42.308 13.70 0.00 34.30 4.18
2816 4223 9.893634 TGTTATCGTTTGATCTAATTTTCCCTA 57.106 29.630 0.00 0.00 35.99 3.53
2851 4260 5.588246 TGCGCAAAATCCTAGATGTTATCAA 59.412 36.000 8.16 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.391665 GAGTCATGGGGGTGCGAGG 62.392 68.421 0.00 0.00 0.00 4.63
29 30 2.097825 AGTGATCTTGATGGCTTTGGC 58.902 47.619 0.00 0.00 37.82 4.52
74 75 1.822186 GCCGTTTGTGTGTCTGGGT 60.822 57.895 0.00 0.00 0.00 4.51
97 102 3.814268 CTGGATTTGCCCGTGCCG 61.814 66.667 0.00 0.00 36.33 5.69
132 137 2.127685 TAGCCAGGGGTTAGTGGGGT 62.128 60.000 0.00 0.00 34.06 4.95
147 152 1.812507 CCGCGTGTAAACCCTAGCC 60.813 63.158 4.92 0.00 0.00 3.93
198 203 2.124109 TCTGCTCGCTCGATCCCT 60.124 61.111 0.00 0.00 0.00 4.20
217 222 0.460311 CTCATTCCCGGTAGTCGCTT 59.540 55.000 0.00 0.00 37.59 4.68
223 228 1.592669 CGCTGCTCATTCCCGGTAG 60.593 63.158 0.00 0.00 0.00 3.18
226 231 4.161295 TCCGCTGCTCATTCCCGG 62.161 66.667 0.00 0.00 40.25 5.73
227 232 2.587194 CTCCGCTGCTCATTCCCG 60.587 66.667 0.00 0.00 0.00 5.14
244 249 1.480954 TCCTGTGTAAGATTCCGCCTC 59.519 52.381 0.00 0.00 0.00 4.70
368 373 3.188786 ATCGTCTTTGCGCTCGGC 61.189 61.111 9.73 0.00 43.96 5.54
369 374 2.697425 CATCGTCTTTGCGCTCGG 59.303 61.111 9.73 0.00 0.00 4.63
370 375 1.351430 TTCCATCGTCTTTGCGCTCG 61.351 55.000 9.73 6.08 0.00 5.03
371 376 0.095417 GTTCCATCGTCTTTGCGCTC 59.905 55.000 9.73 0.00 0.00 5.03
372 377 0.602638 TGTTCCATCGTCTTTGCGCT 60.603 50.000 9.73 0.00 0.00 5.92
373 378 0.179215 CTGTTCCATCGTCTTTGCGC 60.179 55.000 0.00 0.00 0.00 6.09
374 379 1.136252 CACTGTTCCATCGTCTTTGCG 60.136 52.381 0.00 0.00 0.00 4.85
375 380 1.197721 CCACTGTTCCATCGTCTTTGC 59.802 52.381 0.00 0.00 0.00 3.68
376 381 1.806542 CCCACTGTTCCATCGTCTTTG 59.193 52.381 0.00 0.00 0.00 2.77
377 382 1.697432 TCCCACTGTTCCATCGTCTTT 59.303 47.619 0.00 0.00 0.00 2.52
378 383 1.348064 TCCCACTGTTCCATCGTCTT 58.652 50.000 0.00 0.00 0.00 3.01
379 384 1.276421 CTTCCCACTGTTCCATCGTCT 59.724 52.381 0.00 0.00 0.00 4.18
380 385 1.275291 TCTTCCCACTGTTCCATCGTC 59.725 52.381 0.00 0.00 0.00 4.20
381 386 1.276421 CTCTTCCCACTGTTCCATCGT 59.724 52.381 0.00 0.00 0.00 3.73
382 387 1.406069 CCTCTTCCCACTGTTCCATCG 60.406 57.143 0.00 0.00 0.00 3.84
383 388 1.909302 TCCTCTTCCCACTGTTCCATC 59.091 52.381 0.00 0.00 0.00 3.51
384 389 1.912043 CTCCTCTTCCCACTGTTCCAT 59.088 52.381 0.00 0.00 0.00 3.41
385 390 1.352083 CTCCTCTTCCCACTGTTCCA 58.648 55.000 0.00 0.00 0.00 3.53
386 391 0.615850 CCTCCTCTTCCCACTGTTCC 59.384 60.000 0.00 0.00 0.00 3.62
387 392 1.552792 CTCCTCCTCTTCCCACTGTTC 59.447 57.143 0.00 0.00 0.00 3.18
388 393 1.650528 CTCCTCCTCTTCCCACTGTT 58.349 55.000 0.00 0.00 0.00 3.16
389 394 0.252467 CCTCCTCCTCTTCCCACTGT 60.252 60.000 0.00 0.00 0.00 3.55
390 395 0.252467 ACCTCCTCCTCTTCCCACTG 60.252 60.000 0.00 0.00 0.00 3.66
391 396 0.252467 CACCTCCTCCTCTTCCCACT 60.252 60.000 0.00 0.00 0.00 4.00
392 397 1.268283 CCACCTCCTCCTCTTCCCAC 61.268 65.000 0.00 0.00 0.00 4.61
393 398 1.081092 CCACCTCCTCCTCTTCCCA 59.919 63.158 0.00 0.00 0.00 4.37
394 399 1.690985 CCCACCTCCTCCTCTTCCC 60.691 68.421 0.00 0.00 0.00 3.97
395 400 1.081277 ACCCACCTCCTCCTCTTCC 59.919 63.158 0.00 0.00 0.00 3.46
396 401 1.268283 CCACCCACCTCCTCCTCTTC 61.268 65.000 0.00 0.00 0.00 2.87
397 402 1.229658 CCACCCACCTCCTCCTCTT 60.230 63.158 0.00 0.00 0.00 2.85
398 403 2.452114 CCACCCACCTCCTCCTCT 59.548 66.667 0.00 0.00 0.00 3.69
399 404 2.689034 CCCACCCACCTCCTCCTC 60.689 72.222 0.00 0.00 0.00 3.71
400 405 3.542602 ACCCACCCACCTCCTCCT 61.543 66.667 0.00 0.00 0.00 3.69
401 406 3.330720 CACCCACCCACCTCCTCC 61.331 72.222 0.00 0.00 0.00 4.30
402 407 3.330720 CCACCCACCCACCTCCTC 61.331 72.222 0.00 0.00 0.00 3.71
405 410 3.966543 CACCCACCCACCCACCTC 61.967 72.222 0.00 0.00 0.00 3.85
426 431 2.527547 CTTTTCCACATCACGCCGCC 62.528 60.000 0.00 0.00 0.00 6.13
427 432 1.154225 CTTTTCCACATCACGCCGC 60.154 57.895 0.00 0.00 0.00 6.53
428 433 1.501741 CCTTTTCCACATCACGCCG 59.498 57.895 0.00 0.00 0.00 6.46
429 434 0.608035 TCCCTTTTCCACATCACGCC 60.608 55.000 0.00 0.00 0.00 5.68
430 435 0.521735 GTCCCTTTTCCACATCACGC 59.478 55.000 0.00 0.00 0.00 5.34
431 436 0.796312 CGTCCCTTTTCCACATCACG 59.204 55.000 0.00 0.00 0.00 4.35
432 437 1.165270 CCGTCCCTTTTCCACATCAC 58.835 55.000 0.00 0.00 0.00 3.06
433 438 1.060729 TCCGTCCCTTTTCCACATCA 58.939 50.000 0.00 0.00 0.00 3.07
434 439 2.420058 ATCCGTCCCTTTTCCACATC 57.580 50.000 0.00 0.00 0.00 3.06
435 440 2.844348 AGTATCCGTCCCTTTTCCACAT 59.156 45.455 0.00 0.00 0.00 3.21
436 441 2.262637 AGTATCCGTCCCTTTTCCACA 58.737 47.619 0.00 0.00 0.00 4.17
437 442 3.345508 AAGTATCCGTCCCTTTTCCAC 57.654 47.619 0.00 0.00 0.00 4.02
438 443 3.681593 CAAAGTATCCGTCCCTTTTCCA 58.318 45.455 0.00 0.00 0.00 3.53
439 444 2.422479 GCAAAGTATCCGTCCCTTTTCC 59.578 50.000 0.00 0.00 0.00 3.13
440 445 3.344515 AGCAAAGTATCCGTCCCTTTTC 58.655 45.455 0.00 0.00 0.00 2.29
441 446 3.344515 GAGCAAAGTATCCGTCCCTTTT 58.655 45.455 0.00 0.00 0.00 2.27
442 447 2.677037 CGAGCAAAGTATCCGTCCCTTT 60.677 50.000 0.00 0.00 0.00 3.11
443 448 1.134788 CGAGCAAAGTATCCGTCCCTT 60.135 52.381 0.00 0.00 0.00 3.95
444 449 0.460311 CGAGCAAAGTATCCGTCCCT 59.540 55.000 0.00 0.00 0.00 4.20
445 450 0.529992 CCGAGCAAAGTATCCGTCCC 60.530 60.000 0.00 0.00 0.00 4.46
446 451 0.529992 CCCGAGCAAAGTATCCGTCC 60.530 60.000 0.00 0.00 0.00 4.79
447 452 1.152383 GCCCGAGCAAAGTATCCGTC 61.152 60.000 0.00 0.00 39.53 4.79
448 453 1.153429 GCCCGAGCAAAGTATCCGT 60.153 57.895 0.00 0.00 39.53 4.69
449 454 1.887707 GGCCCGAGCAAAGTATCCG 60.888 63.158 0.00 0.00 42.56 4.18
450 455 0.815615 CTGGCCCGAGCAAAGTATCC 60.816 60.000 0.00 0.00 42.56 2.59
451 456 0.107654 ACTGGCCCGAGCAAAGTATC 60.108 55.000 0.00 0.00 42.56 2.24
452 457 0.328258 AACTGGCCCGAGCAAAGTAT 59.672 50.000 0.00 0.00 42.56 2.12
453 458 0.605319 CAACTGGCCCGAGCAAAGTA 60.605 55.000 0.00 0.00 42.56 2.24
454 459 1.898574 CAACTGGCCCGAGCAAAGT 60.899 57.895 0.00 0.00 42.56 2.66
455 460 2.956987 CAACTGGCCCGAGCAAAG 59.043 61.111 0.00 0.00 42.56 2.77
456 461 3.294493 GCAACTGGCCCGAGCAAA 61.294 61.111 0.00 0.00 42.56 3.68
457 462 4.269523 AGCAACTGGCCCGAGCAA 62.270 61.111 15.73 0.00 46.50 3.91
458 463 4.704833 GAGCAACTGGCCCGAGCA 62.705 66.667 15.73 0.00 46.50 4.26
463 468 3.553095 AACTCCGAGCAACTGGCCC 62.553 63.158 0.00 0.00 46.50 5.80
464 469 2.032681 AACTCCGAGCAACTGGCC 59.967 61.111 0.00 0.00 46.50 5.36
465 470 2.328099 CCAACTCCGAGCAACTGGC 61.328 63.158 0.00 0.00 45.30 4.85
466 471 1.672356 CCCAACTCCGAGCAACTGG 60.672 63.158 0.00 0.00 0.00 4.00
467 472 1.672356 CCCCAACTCCGAGCAACTG 60.672 63.158 0.00 0.00 0.00 3.16
468 473 2.750350 CCCCAACTCCGAGCAACT 59.250 61.111 0.00 0.00 0.00 3.16
469 474 2.359975 CCCCCAACTCCGAGCAAC 60.360 66.667 0.00 0.00 0.00 4.17
470 475 2.528127 TCCCCCAACTCCGAGCAA 60.528 61.111 0.00 0.00 0.00 3.91
471 476 3.003173 CTCCCCCAACTCCGAGCA 61.003 66.667 0.00 0.00 0.00 4.26
472 477 3.787001 CCTCCCCCAACTCCGAGC 61.787 72.222 0.00 0.00 0.00 5.03
473 478 1.612442 TTCCTCCCCCAACTCCGAG 60.612 63.158 0.00 0.00 0.00 4.63
474 479 1.612442 CTTCCTCCCCCAACTCCGA 60.612 63.158 0.00 0.00 0.00 4.55
475 480 2.670148 CCTTCCTCCCCCAACTCCG 61.670 68.421 0.00 0.00 0.00 4.63
476 481 0.845102 TTCCTTCCTCCCCCAACTCC 60.845 60.000 0.00 0.00 0.00 3.85
477 482 0.328592 GTTCCTTCCTCCCCCAACTC 59.671 60.000 0.00 0.00 0.00 3.01
478 483 1.140772 GGTTCCTTCCTCCCCCAACT 61.141 60.000 0.00 0.00 0.00 3.16
479 484 1.383019 GGTTCCTTCCTCCCCCAAC 59.617 63.158 0.00 0.00 0.00 3.77
480 485 2.228480 CGGTTCCTTCCTCCCCCAA 61.228 63.158 0.00 0.00 0.00 4.12
481 486 2.609610 CGGTTCCTTCCTCCCCCA 60.610 66.667 0.00 0.00 0.00 4.96
482 487 4.111053 GCGGTTCCTTCCTCCCCC 62.111 72.222 0.00 0.00 0.00 5.40
483 488 4.468689 CGCGGTTCCTTCCTCCCC 62.469 72.222 0.00 0.00 0.00 4.81
484 489 4.468689 CCGCGGTTCCTTCCTCCC 62.469 72.222 19.50 0.00 0.00 4.30
486 491 4.083862 AGCCGCGGTTCCTTCCTC 62.084 66.667 28.70 6.22 0.00 3.71
487 492 4.394712 CAGCCGCGGTTCCTTCCT 62.395 66.667 28.70 10.48 0.00 3.36
523 528 3.938637 CTTCCCAGGCCGGTTTCCC 62.939 68.421 1.90 0.00 0.00 3.97
524 529 2.361230 CTTCCCAGGCCGGTTTCC 60.361 66.667 1.90 0.00 0.00 3.13
525 530 3.062466 GCTTCCCAGGCCGGTTTC 61.062 66.667 1.90 0.00 0.00 2.78
526 531 2.937959 TTTGCTTCCCAGGCCGGTTT 62.938 55.000 1.90 0.00 0.00 3.27
527 532 3.444818 TTTGCTTCCCAGGCCGGTT 62.445 57.895 1.90 0.00 0.00 4.44
528 533 3.868200 CTTTGCTTCCCAGGCCGGT 62.868 63.158 1.90 0.00 0.00 5.28
529 534 3.064324 CTTTGCTTCCCAGGCCGG 61.064 66.667 0.00 0.00 0.00 6.13
530 535 3.064324 CCTTTGCTTCCCAGGCCG 61.064 66.667 0.00 0.00 0.00 6.13
531 536 2.681421 CCCTTTGCTTCCCAGGCC 60.681 66.667 0.00 0.00 0.00 5.19
532 537 3.385384 GCCCTTTGCTTCCCAGGC 61.385 66.667 0.00 0.00 36.87 4.85
541 546 0.037046 CCACATCCAAAGCCCTTTGC 60.037 55.000 13.83 0.00 46.25 3.68
542 547 0.037046 GCCACATCCAAAGCCCTTTG 60.037 55.000 12.61 12.61 46.93 2.77
543 548 0.178924 AGCCACATCCAAAGCCCTTT 60.179 50.000 0.00 0.00 0.00 3.11
544 549 0.901580 CAGCCACATCCAAAGCCCTT 60.902 55.000 0.00 0.00 0.00 3.95
545 550 1.304713 CAGCCACATCCAAAGCCCT 60.305 57.895 0.00 0.00 0.00 5.19
546 551 1.598701 GACAGCCACATCCAAAGCCC 61.599 60.000 0.00 0.00 0.00 5.19
547 552 1.885871 GACAGCCACATCCAAAGCC 59.114 57.895 0.00 0.00 0.00 4.35
548 553 1.503542 CGACAGCCACATCCAAAGC 59.496 57.895 0.00 0.00 0.00 3.51
549 554 1.503542 GCGACAGCCACATCCAAAG 59.496 57.895 0.00 0.00 37.42 2.77
550 555 3.667087 GCGACAGCCACATCCAAA 58.333 55.556 0.00 0.00 37.42 3.28
560 565 1.090052 AAATTCGGCTAGGCGACAGC 61.090 55.000 37.41 0.94 44.18 4.40
561 566 1.327764 GAAAATTCGGCTAGGCGACAG 59.672 52.381 37.41 11.67 0.00 3.51
562 567 1.066430 AGAAAATTCGGCTAGGCGACA 60.066 47.619 37.41 27.43 0.00 4.35
563 568 1.653151 AGAAAATTCGGCTAGGCGAC 58.347 50.000 37.41 25.76 0.00 5.19
564 569 2.006888 CAAGAAAATTCGGCTAGGCGA 58.993 47.619 34.54 34.54 0.00 5.54
565 570 2.006888 TCAAGAAAATTCGGCTAGGCG 58.993 47.619 31.00 31.00 0.00 5.52
566 571 3.440522 AGTTCAAGAAAATTCGGCTAGGC 59.559 43.478 6.15 6.15 0.00 3.93
567 572 5.629079 AAGTTCAAGAAAATTCGGCTAGG 57.371 39.130 0.00 0.00 0.00 3.02
568 573 7.746475 CAGTAAAGTTCAAGAAAATTCGGCTAG 59.254 37.037 0.00 0.00 0.00 3.42
569 574 7.227910 ACAGTAAAGTTCAAGAAAATTCGGCTA 59.772 33.333 0.00 0.00 0.00 3.93
570 575 6.039382 ACAGTAAAGTTCAAGAAAATTCGGCT 59.961 34.615 0.00 0.00 0.00 5.52
571 576 6.206498 ACAGTAAAGTTCAAGAAAATTCGGC 58.794 36.000 0.00 0.00 0.00 5.54
572 577 8.628882 AAACAGTAAAGTTCAAGAAAATTCGG 57.371 30.769 0.00 0.00 0.00 4.30
608 613 9.799106 AGATTATAGATTCGACCCATTCATTTT 57.201 29.630 0.00 0.00 0.00 1.82
660 666 8.458843 GGCTGCATGTTAAGAGAAATAGTTTAA 58.541 33.333 0.50 0.00 0.00 1.52
664 670 5.749462 AGGCTGCATGTTAAGAGAAATAGT 58.251 37.500 0.50 0.00 0.00 2.12
690 696 2.169561 TGTGACAAGTGTGCTTAGGTGA 59.830 45.455 0.00 0.00 32.87 4.02
707 713 4.273969 GTCCCTAACAAAACGTTGATGTGA 59.726 41.667 17.61 11.24 38.63 3.58
810 818 0.535102 AAGTGAAAGGGTGCTCGTGG 60.535 55.000 0.00 0.00 0.00 4.94
979 1908 1.153628 GCTAACGGCGACTGGATGT 60.154 57.895 16.62 0.00 0.00 3.06
993 1924 3.174779 TGGGTGTAGGTACATGTGCTAA 58.825 45.455 13.86 0.00 38.63 3.09
1399 2508 6.479990 TCATCAAAACAACTATCCGCTATCAG 59.520 38.462 0.00 0.00 0.00 2.90
1413 2522 7.384660 CCAAAATTCGGAGAATCATCAAAACAA 59.615 33.333 0.00 0.00 45.90 2.83
1425 2534 7.131907 TCTATACCATCCAAAATTCGGAGAA 57.868 36.000 3.24 0.00 45.90 2.87
1515 2646 6.667661 TCTTCTCTCTCATATCCTCAAGACA 58.332 40.000 0.00 0.00 0.00 3.41
1534 2670 3.489355 TGCACACCATCATGTTTCTTCT 58.511 40.909 0.00 0.00 0.00 2.85
1541 2677 3.720949 GCATAATGCACACCATCATGT 57.279 42.857 0.00 0.00 44.26 3.21
1634 2776 0.459063 CGACTGCTACTGCTGCATGA 60.459 55.000 1.31 0.00 41.07 3.07
1681 2842 6.932356 AGCAAACATATTCGTTCAGATCAT 57.068 33.333 0.00 0.00 0.00 2.45
1750 2911 0.970640 AGCCATGAAAATGTGCAGCA 59.029 45.000 0.00 0.00 0.00 4.41
1810 2971 8.854614 AGTAAATGAAGACTTTAGCAACTCAT 57.145 30.769 0.00 0.00 0.00 2.90
2025 3381 3.426292 GCCCGTAGAAGCTGAAAATCAAC 60.426 47.826 0.00 0.00 0.00 3.18
2166 3549 4.557205 AGCATAAAGAAGACGACGACTTT 58.443 39.130 13.52 13.86 36.68 2.66
2315 3703 7.667219 ACCTTCAGAAAGAGAATGCAAATTAGA 59.333 33.333 0.00 0.00 34.14 2.10
2323 3711 6.809630 AAGTAACCTTCAGAAAGAGAATGC 57.190 37.500 0.00 0.00 34.14 3.56
2624 4022 7.930217 ACCATAATGTTCATAATTCCTGTTCG 58.070 34.615 0.00 0.00 0.00 3.95
2706 4112 7.584123 CACTTGTATCTTTGTGAAACTCTTTCG 59.416 37.037 0.00 0.00 42.55 3.46
2728 4134 8.115490 AGTGTACCTAAATAGTCGTTACACTT 57.885 34.615 5.82 0.00 41.64 3.16
2824 4231 4.782019 ACATCTAGGATTTTGCGCAAAA 57.218 36.364 40.76 40.76 43.48 2.44
2851 4260 1.610624 CCAATGGCTCAGTAACACGGT 60.611 52.381 0.00 0.00 0.00 4.83


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

AutoCloner maintained by Alex Coulton.