Multiple sequence alignment - TraesCS6B01G289100

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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 TraesCS6B01G289100 chr6B 100.000 2987 0 0 1 2987 520105934 520102948 0.000000e+00 5517
1 TraesCS6B01G289100 chr6A 91.970 2391 146 23 91 2453 484910661 484908289 0.000000e+00 3310
2 TraesCS6B01G289100 chr6D 95.742 1644 54 12 527 2159 344354711 344353073 0.000000e+00 2634
3 TraesCS6B01G289100 chr6D 85.769 527 47 8 2465 2986 344341392 344340889 1.580000e-147 532
4 TraesCS6B01G289100 chr6D 90.221 317 31 0 2152 2468 344351573 344351257 5.960000e-112 414
5 TraesCS6B01G289100 chr6D 82.128 470 65 15 53 509 117059043 117059506 4.670000e-103 385
6 TraesCS6B01G289100 chr6D 82.068 474 64 14 50 509 215790128 215790594 4.670000e-103 385
7 TraesCS6B01G289100 chr4B 81.590 478 68 15 51 515 348175349 348174879 7.820000e-101 377
8 TraesCS6B01G289100 chr5A 81.381 478 67 15 53 515 248893398 248892928 1.310000e-98 370
9 TraesCS6B01G289100 chr5A 81.013 474 73 14 52 515 63655452 63654986 7.870000e-96 361
10 TraesCS6B01G289100 chr5A 80.932 472 68 15 52 509 252037527 252037990 1.320000e-93 353
11 TraesCS6B01G289100 chrUn 81.013 474 69 14 50 509 117995434 117995900 1.020000e-94 357
12 TraesCS6B01G289100 chrUn 80.892 471 70 13 52 509 309416993 309417456 1.320000e-93 353


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 TraesCS6B01G289100 chr6B 520102948 520105934 2986 True 5517 5517 100.0000 1 2987 1 chr6B.!!$R1 2986
1 TraesCS6B01G289100 chr6A 484908289 484910661 2372 True 3310 3310 91.9700 91 2453 1 chr6A.!!$R1 2362
2 TraesCS6B01G289100 chr6D 344351257 344354711 3454 True 1524 2634 92.9815 527 2468 2 chr6D.!!$R2 1941
3 TraesCS6B01G289100 chr6D 344340889 344341392 503 True 532 532 85.7690 2465 2986 1 chr6D.!!$R1 521

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
219 220 0.320771 AGCACGATCAACCTGTCCAC 60.321 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2077 2114 0.042188 CAACAACTCGTCACAAGCCG 60.042 55.0 0.0 0.0 0.0 5.52 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
22 23 5.528600 TCAATACCCCTTTGATTCAAGGA 57.471 39.130 9.88 0.00 0.00 3.36
23 24 5.261216 TCAATACCCCTTTGATTCAAGGAC 58.739 41.667 9.88 0.00 0.00 3.85
24 25 5.015178 TCAATACCCCTTTGATTCAAGGACT 59.985 40.000 9.88 1.61 0.00 3.85
25 26 3.441500 ACCCCTTTGATTCAAGGACTC 57.558 47.619 9.88 0.00 0.00 3.36
26 27 2.989571 ACCCCTTTGATTCAAGGACTCT 59.010 45.455 9.88 0.00 0.00 3.24
27 28 3.399305 ACCCCTTTGATTCAAGGACTCTT 59.601 43.478 9.88 0.00 0.00 2.85
48 49 1.574263 GGCACCTCTAGAACCTTCCT 58.426 55.000 0.00 0.00 0.00 3.36
49 50 2.748388 GGCACCTCTAGAACCTTCCTA 58.252 52.381 0.00 0.00 0.00 2.94
50 51 2.696187 GGCACCTCTAGAACCTTCCTAG 59.304 54.545 0.00 0.00 35.97 3.02
65 66 6.658188 CCTTCCTAGGTGATAGAGGTAAAG 57.342 45.833 9.08 0.10 36.74 1.85
66 67 5.540719 CCTTCCTAGGTGATAGAGGTAAAGG 59.459 48.000 9.08 5.90 36.74 3.11
67 68 5.745988 TCCTAGGTGATAGAGGTAAAGGT 57.254 43.478 9.08 0.00 32.76 3.50
68 69 5.455872 TCCTAGGTGATAGAGGTAAAGGTG 58.544 45.833 9.08 0.00 32.76 4.00
69 70 5.043582 TCCTAGGTGATAGAGGTAAAGGTGT 60.044 44.000 9.08 0.00 32.76 4.16
70 71 5.302313 CCTAGGTGATAGAGGTAAAGGTGTC 59.698 48.000 0.00 0.00 32.76 3.67
71 72 4.031611 AGGTGATAGAGGTAAAGGTGTCC 58.968 47.826 0.00 0.00 0.00 4.02
72 73 3.134262 GGTGATAGAGGTAAAGGTGTCCC 59.866 52.174 0.00 0.00 0.00 4.46
73 74 3.028850 TGATAGAGGTAAAGGTGTCCCG 58.971 50.000 0.00 0.00 35.12 5.14
74 75 2.905415 TAGAGGTAAAGGTGTCCCGA 57.095 50.000 0.00 0.00 35.12 5.14
75 76 2.249309 AGAGGTAAAGGTGTCCCGAT 57.751 50.000 0.00 0.00 35.12 4.18
76 77 2.547990 AGAGGTAAAGGTGTCCCGATT 58.452 47.619 0.00 0.00 35.12 3.34
77 78 2.910977 AGAGGTAAAGGTGTCCCGATTT 59.089 45.455 0.00 0.00 35.12 2.17
78 79 4.098894 AGAGGTAAAGGTGTCCCGATTTA 58.901 43.478 0.00 0.00 35.12 1.40
79 80 4.720273 AGAGGTAAAGGTGTCCCGATTTAT 59.280 41.667 0.00 0.00 35.12 1.40
80 81 5.032327 AGGTAAAGGTGTCCCGATTTATC 57.968 43.478 0.00 0.00 35.12 1.75
115 116 5.476614 ACTATCGTTTTGGGTGAAGTAGAC 58.523 41.667 0.00 0.00 0.00 2.59
120 121 4.573201 CGTTTTGGGTGAAGTAGACTTTGA 59.427 41.667 0.00 0.00 36.11 2.69
123 124 2.036733 TGGGTGAAGTAGACTTTGACGG 59.963 50.000 0.00 0.00 36.11 4.79
124 125 2.067013 GGTGAAGTAGACTTTGACGGC 58.933 52.381 0.00 0.00 36.11 5.68
145 146 0.433492 CGACTACAAACGTGCGAAGG 59.567 55.000 0.00 0.00 0.00 3.46
180 181 1.892209 ACCGGTAAAGCAACTCCAAG 58.108 50.000 4.49 0.00 0.00 3.61
219 220 0.320771 AGCACGATCAACCTGTCCAC 60.321 55.000 0.00 0.00 0.00 4.02
233 234 3.522553 CTGTCCACGAAGGTCTAATTCC 58.477 50.000 0.00 0.00 39.02 3.01
248 249 0.665835 ATTCCTGCACGCAAACGAAA 59.334 45.000 0.00 0.00 43.93 3.46
251 252 0.570272 CCTGCACGCAAACGAAAAAC 59.430 50.000 0.00 0.00 43.93 2.43
283 285 9.638176 AAACTAAGATTGCAATCTGGATATTCT 57.362 29.630 36.16 22.53 44.67 2.40
284 286 8.618702 ACTAAGATTGCAATCTGGATATTCTG 57.381 34.615 36.16 20.92 44.67 3.02
325 327 8.713708 TTTATTGATGAAAGTTTGGGGTTCTA 57.286 30.769 0.00 0.00 0.00 2.10
330 332 6.208599 TGATGAAAGTTTGGGGTTCTATGAAC 59.791 38.462 0.00 2.16 0.00 3.18
339 341 3.558533 GGGGTTCTATGAACGTCTTGGTT 60.559 47.826 0.00 0.00 0.00 3.67
360 362 2.011222 TGGTCTTTGGACACAAACGAC 58.989 47.619 0.00 0.00 41.42 4.34
365 367 2.582728 TTGGACACAAACGACGTACT 57.417 45.000 0.00 0.00 32.66 2.73
367 369 2.195096 TGGACACAAACGACGTACTTG 58.805 47.619 0.00 5.85 0.00 3.16
368 370 1.071041 GGACACAAACGACGTACTTGC 60.071 52.381 11.37 0.00 0.00 4.01
369 371 1.589320 GACACAAACGACGTACTTGCA 59.411 47.619 11.37 0.00 0.00 4.08
370 372 1.591158 ACACAAACGACGTACTTGCAG 59.409 47.619 11.37 7.75 0.00 4.41
371 373 0.580104 ACAAACGACGTACTTGCAGC 59.420 50.000 11.37 0.00 0.00 5.25
372 374 0.859232 CAAACGACGTACTTGCAGCT 59.141 50.000 0.00 0.00 0.00 4.24
374 376 2.649331 AACGACGTACTTGCAGCTAT 57.351 45.000 0.00 0.00 0.00 2.97
375 377 1.909376 ACGACGTACTTGCAGCTATG 58.091 50.000 0.00 0.00 0.00 2.23
376 378 1.200483 CGACGTACTTGCAGCTATGG 58.800 55.000 0.00 0.00 0.00 2.74
390 396 4.142182 GCAGCTATGGCAAACTTTAATCCA 60.142 41.667 3.10 0.00 41.70 3.41
397 403 7.872113 ATGGCAAACTTTAATCCAAACAAAA 57.128 28.000 0.00 0.00 0.00 2.44
399 405 6.881602 TGGCAAACTTTAATCCAAACAAAACT 59.118 30.769 0.00 0.00 0.00 2.66
402 408 8.611757 GCAAACTTTAATCCAAACAAAACTCAT 58.388 29.630 0.00 0.00 0.00 2.90
417 423 6.128902 ACAAAACTCATAGAAAACGCTACGAG 60.129 38.462 0.00 0.00 36.89 4.18
422 428 5.041287 TCATAGAAAACGCTACGAGATTGG 58.959 41.667 0.00 0.00 0.00 3.16
427 433 4.650754 AAACGCTACGAGATTGGTCTAT 57.349 40.909 0.00 0.00 33.97 1.98
446 452 8.999895 TGGTCTATTTATATAGGATTAAGGGGC 58.000 37.037 1.01 0.00 35.45 5.80
453 459 2.188469 GATTAAGGGGCGACGGCA 59.812 61.111 23.66 1.87 42.47 5.69
456 462 0.395173 ATTAAGGGGCGACGGCAAAT 60.395 50.000 23.66 13.05 42.47 2.32
460 466 2.900337 GGGCGACGGCAAATAGGG 60.900 66.667 23.66 0.00 42.47 3.53
489 495 1.415659 CATCCCAAGGCACCAAAAACA 59.584 47.619 0.00 0.00 0.00 2.83
490 496 1.799933 TCCCAAGGCACCAAAAACAT 58.200 45.000 0.00 0.00 0.00 2.71
491 497 2.964209 TCCCAAGGCACCAAAAACATA 58.036 42.857 0.00 0.00 0.00 2.29
493 499 3.070302 TCCCAAGGCACCAAAAACATAAC 59.930 43.478 0.00 0.00 0.00 1.89
494 500 3.398406 CCAAGGCACCAAAAACATAACC 58.602 45.455 0.00 0.00 0.00 2.85
495 501 3.398406 CAAGGCACCAAAAACATAACCC 58.602 45.455 0.00 0.00 0.00 4.11
496 502 2.970987 AGGCACCAAAAACATAACCCT 58.029 42.857 0.00 0.00 0.00 4.34
499 505 4.083565 GGCACCAAAAACATAACCCTAGA 58.916 43.478 0.00 0.00 0.00 2.43
509 515 4.603131 ACATAACCCTAGACCGTACAAGA 58.397 43.478 0.00 0.00 0.00 3.02
512 518 1.109609 CCCTAGACCGTACAAGACCC 58.890 60.000 0.00 0.00 0.00 4.46
519 526 2.740447 GACCGTACAAGACCCATTTCAC 59.260 50.000 0.00 0.00 0.00 3.18
521 528 2.551287 CCGTACAAGACCCATTTCACCA 60.551 50.000 0.00 0.00 0.00 4.17
524 531 4.938832 CGTACAAGACCCATTTCACCATTA 59.061 41.667 0.00 0.00 0.00 1.90
547 554 6.910536 AGTTCTTCTATATGAACAAAGCGG 57.089 37.500 8.28 0.00 43.38 5.52
548 555 5.294552 AGTTCTTCTATATGAACAAAGCGGC 59.705 40.000 8.28 0.00 43.38 6.53
549 556 4.765273 TCTTCTATATGAACAAAGCGGCA 58.235 39.130 1.45 0.00 0.00 5.69
550 557 5.182487 TCTTCTATATGAACAAAGCGGCAA 58.818 37.500 1.45 0.00 0.00 4.52
552 559 5.484173 TCTATATGAACAAAGCGGCAAAG 57.516 39.130 1.45 0.00 0.00 2.77
553 560 2.346099 TATGAACAAAGCGGCAAAGC 57.654 45.000 1.45 0.00 37.41 3.51
554 561 0.388659 ATGAACAAAGCGGCAAAGCA 59.611 45.000 1.45 0.00 40.15 3.91
569 578 1.160137 AAGCACGCCTTCATGTTCTC 58.840 50.000 0.00 0.00 0.00 2.87
579 588 5.234329 CGCCTTCATGTTCTCGTTTATACAT 59.766 40.000 0.00 0.00 0.00 2.29
637 646 7.124147 CCATTTTCATCCATTACTACCAACCTT 59.876 37.037 0.00 0.00 0.00 3.50
654 663 5.278561 CCAACCTTAGATAACACGGCAAAAA 60.279 40.000 0.00 0.00 0.00 1.94
655 664 5.622770 ACCTTAGATAACACGGCAAAAAG 57.377 39.130 0.00 0.00 0.00 2.27
661 670 2.502213 AACACGGCAAAAAGGCTTAC 57.498 45.000 0.00 0.00 41.46 2.34
786 795 5.552870 AATGGCAGATACTAAACGATCCT 57.447 39.130 0.00 0.00 0.00 3.24
886 902 8.239038 TCCTAGTCCTAGAAACATAGAACATG 57.761 38.462 2.86 0.00 35.21 3.21
891 907 6.926272 GTCCTAGAAACATAGAACATGGCTAG 59.074 42.308 0.00 0.00 0.00 3.42
1329 1345 7.187824 ACATCTTCATGTACAGGTCAACTAT 57.812 36.000 7.49 0.00 41.81 2.12
1435 1454 3.691342 TTCAGAGGGGACACGCCG 61.691 66.667 0.00 0.00 41.60 6.46
1767 1789 5.975693 ATACACATTTTTGAATCACGGGT 57.024 34.783 0.00 0.00 0.00 5.28
1896 1918 9.656323 TTCTACCCTGTGTCTATTGTATCTATT 57.344 33.333 0.00 0.00 0.00 1.73
1897 1919 9.078990 TCTACCCTGTGTCTATTGTATCTATTG 57.921 37.037 0.00 0.00 0.00 1.90
1899 1921 8.090788 ACCCTGTGTCTATTGTATCTATTGTT 57.909 34.615 0.00 0.00 0.00 2.83
1933 1957 3.181774 CGATAAAAACCAGGCGATCTACG 59.818 47.826 0.00 0.00 45.66 3.51
1955 1979 7.200434 ACGCATATCATTAGGATAGGGAAAT 57.800 36.000 0.98 0.00 41.64 2.17
1997 2025 4.215399 TGTTTACATGAGAAAAGGCGGAAG 59.785 41.667 0.00 0.00 0.00 3.46
2013 2042 9.719355 AAAGGCGGAAGAAAATAAAAATTACAT 57.281 25.926 0.00 0.00 0.00 2.29
2077 2114 2.528041 AGGTCTTCCTTGACAACGTC 57.472 50.000 0.00 0.00 42.12 4.34
2078 2115 1.137513 GGTCTTCCTTGACAACGTCG 58.862 55.000 0.00 0.00 38.61 5.12
2104 2141 3.181470 TGTGACGAGTTGTTGAAGATCCA 60.181 43.478 0.00 0.00 0.00 3.41
2150 3694 3.003897 TCCAAAACACAAATGTAGCCGTC 59.996 43.478 0.00 0.00 38.45 4.79
2175 3719 6.913170 TGAAAGAAATAGCATCCTGAACAAC 58.087 36.000 0.00 0.00 0.00 3.32
2230 3774 3.612919 CGTATGCGTCGTCCCATG 58.387 61.111 0.00 0.00 0.00 3.66
2250 3794 4.265856 TGAGGGATAGAGAGCCAAGTTA 57.734 45.455 0.00 0.00 30.17 2.24
2261 3805 9.686683 ATAGAGAGCCAAGTTAAAACAATACAT 57.313 29.630 0.00 0.00 0.00 2.29
2266 3810 7.895759 AGCCAAGTTAAAACAATACATCACAT 58.104 30.769 0.00 0.00 0.00 3.21
2268 3812 7.063308 GCCAAGTTAAAACAATACATCACATGG 59.937 37.037 0.00 0.00 33.60 3.66
2276 3820 4.094887 ACAATACATCACATGGCGAAAGAC 59.905 41.667 0.00 0.00 42.12 3.01
2289 3833 2.857152 GCGAAAGACAAAAACATGCACA 59.143 40.909 0.00 0.00 0.00 4.57
2350 3894 3.064207 AGCTTGCAAATCTCGTCGTAAA 58.936 40.909 0.00 0.00 0.00 2.01
2358 3902 6.417930 TGCAAATCTCGTCGTAAATCTATCTG 59.582 38.462 0.00 0.00 0.00 2.90
2361 3905 6.621316 ATCTCGTCGTAAATCTATCTGTGT 57.379 37.500 0.00 0.00 0.00 3.72
2376 3920 0.463654 TGTGTATGGCAAGCCGATCC 60.464 55.000 6.60 0.00 39.42 3.36
2393 3937 1.040893 TCCGCCATAAGAGCCTTCGA 61.041 55.000 0.00 0.00 0.00 3.71
2418 3962 7.869800 AGTGAAGAAGAAGTCACATGAAATTC 58.130 34.615 0.00 2.27 45.40 2.17
2422 3966 7.211966 AGAAGAAGTCACATGAAATTCTTGG 57.788 36.000 23.01 3.36 39.96 3.61
2435 3979 4.813750 AATTCTTGGATTTGGGCTCAAG 57.186 40.909 0.00 0.00 38.26 3.02
2437 3981 4.380843 TTCTTGGATTTGGGCTCAAGTA 57.619 40.909 0.00 0.00 38.13 2.24
2471 4015 9.169592 CCAAAATTTTCTAATCATCAAAGGCAT 57.830 29.630 0.00 0.00 0.00 4.40
2487 4031 0.460635 GCATCATGGCGCCAACAAAT 60.461 50.000 36.33 20.66 0.00 2.32
2500 4044 4.165779 GCCAACAAATTGAAGATGGTACG 58.834 43.478 0.00 0.00 38.15 3.67
2528 4072 2.043227 GCCAAGTACTAGCCAGAGGAT 58.957 52.381 0.00 0.00 0.00 3.24
2535 4079 1.761784 ACTAGCCAGAGGATGAAGCAG 59.238 52.381 0.00 0.00 0.00 4.24
2542 4086 2.093075 CAGAGGATGAAGCAGACCACAT 60.093 50.000 0.00 0.00 0.00 3.21
2545 4089 2.012673 GGATGAAGCAGACCACATGAC 58.987 52.381 0.00 0.00 0.00 3.06
2549 4093 0.036952 AAGCAGACCACATGACGGAG 60.037 55.000 12.07 4.03 0.00 4.63
2565 4113 2.494870 ACGGAGTCATTAGTTACGGCTT 59.505 45.455 0.00 0.00 29.74 4.35
2577 4125 3.119849 AGTTACGGCTTGCATTGAACATC 60.120 43.478 0.00 0.00 0.00 3.06
2607 4155 2.959516 TGTGCCGAGTAGAATTGACAG 58.040 47.619 0.00 0.00 0.00 3.51
2639 4187 0.737219 GCATCCAGTGGTCATTCAGC 59.263 55.000 9.54 0.65 0.00 4.26
2648 4196 0.178068 GGTCATTCAGCGGCTCCTTA 59.822 55.000 0.00 0.00 0.00 2.69
2652 4200 0.618458 ATTCAGCGGCTCCTTAACCA 59.382 50.000 0.00 0.00 0.00 3.67
2653 4201 0.618458 TTCAGCGGCTCCTTAACCAT 59.382 50.000 0.00 0.00 0.00 3.55
2667 4215 4.142381 CCTTAACCATTGCTTAAGCCTCAC 60.142 45.833 24.30 0.00 41.18 3.51
2668 4216 2.584835 ACCATTGCTTAAGCCTCACA 57.415 45.000 24.30 2.41 41.18 3.58
2683 4231 5.683681 AGCCTCACAAATTGAAAAATTGGT 58.316 33.333 0.00 0.00 32.21 3.67
2684 4232 6.825610 AGCCTCACAAATTGAAAAATTGGTA 58.174 32.000 0.00 0.00 32.21 3.25
2685 4233 6.930722 AGCCTCACAAATTGAAAAATTGGTAG 59.069 34.615 0.00 0.00 32.21 3.18
2686 4234 6.705825 GCCTCACAAATTGAAAAATTGGTAGT 59.294 34.615 0.00 0.00 32.21 2.73
2687 4235 7.307337 GCCTCACAAATTGAAAAATTGGTAGTG 60.307 37.037 0.00 0.00 32.21 2.74
2688 4236 7.307337 CCTCACAAATTGAAAAATTGGTAGTGC 60.307 37.037 0.00 0.00 32.21 4.40
2689 4237 7.271511 TCACAAATTGAAAAATTGGTAGTGCT 58.728 30.769 0.00 0.00 0.00 4.40
2690 4238 8.417106 TCACAAATTGAAAAATTGGTAGTGCTA 58.583 29.630 0.00 0.00 0.00 3.49
2691 4239 9.206870 CACAAATTGAAAAATTGGTAGTGCTAT 57.793 29.630 0.00 0.00 0.00 2.97
2727 4275 1.674817 CCCAATAGTGACGGTGGTGAC 60.675 57.143 0.00 0.00 0.00 3.67
2731 4280 1.416243 TAGTGACGGTGGTGACCTTT 58.584 50.000 2.11 0.00 40.58 3.11
2742 4291 5.501156 GGTGGTGACCTTTTGAATAGATCT 58.499 41.667 2.11 0.00 39.47 2.75
2759 4308 9.661954 GAATAGATCTATATCATTAGGACCCCA 57.338 37.037 15.64 0.00 34.28 4.96
2783 4332 1.152419 TGTCCGGAGTGGTCCAAGA 60.152 57.895 3.06 0.00 44.18 3.02
2790 4339 1.617322 GAGTGGTCCAAGAAAACCCC 58.383 55.000 0.00 0.00 34.47 4.95
2791 4340 0.930726 AGTGGTCCAAGAAAACCCCA 59.069 50.000 0.00 0.00 34.47 4.96
2796 4345 1.411246 GTCCAAGAAAACCCCACCAAC 59.589 52.381 0.00 0.00 0.00 3.77
2803 4352 2.976494 AAACCCCACCAACAGAGGCG 62.976 60.000 0.00 0.00 0.00 5.52
2823 4372 2.607635 CGCAACACGCTACCAAATCTAT 59.392 45.455 0.00 0.00 39.08 1.98
2825 4374 3.002348 GCAACACGCTACCAAATCTATCC 59.998 47.826 0.00 0.00 37.77 2.59
2827 4376 4.060038 ACACGCTACCAAATCTATCCAG 57.940 45.455 0.00 0.00 0.00 3.86
2831 4380 3.069586 CGCTACCAAATCTATCCAGACCA 59.930 47.826 0.00 0.00 32.25 4.02
2833 4382 5.059833 GCTACCAAATCTATCCAGACCAAG 58.940 45.833 0.00 0.00 32.25 3.61
2834 4383 4.510167 ACCAAATCTATCCAGACCAAGG 57.490 45.455 0.00 0.00 32.25 3.61
2835 4384 4.111577 ACCAAATCTATCCAGACCAAGGA 58.888 43.478 0.00 0.00 39.97 3.36
2837 4386 5.911178 ACCAAATCTATCCAGACCAAGGATA 59.089 40.000 0.00 0.00 43.90 2.59
2838 4387 6.183361 ACCAAATCTATCCAGACCAAGGATAC 60.183 42.308 0.00 0.00 43.90 2.24
2839 4388 6.043706 CCAAATCTATCCAGACCAAGGATACT 59.956 42.308 0.00 0.00 43.90 2.12
2860 4409 1.625818 GAGACCTTCAAGCTCCTTGGA 59.374 52.381 5.25 0.00 41.33 3.53
2883 4432 0.404040 ACAAACCATGTCCCCGTCAT 59.596 50.000 0.00 0.00 37.96 3.06
2884 4433 1.631388 ACAAACCATGTCCCCGTCATA 59.369 47.619 0.00 0.00 37.96 2.15
2905 4454 2.111972 AGAGTTGGGTAGGAAGAGGACA 59.888 50.000 0.00 0.00 0.00 4.02
2906 4455 3.108376 GAGTTGGGTAGGAAGAGGACAT 58.892 50.000 0.00 0.00 0.00 3.06
2907 4456 2.840651 AGTTGGGTAGGAAGAGGACATG 59.159 50.000 0.00 0.00 0.00 3.21
2955 4504 6.886459 ACAAGGACATATTGTGCAAGAGTAAT 59.114 34.615 2.02 0.00 41.46 1.89
2964 4513 3.748048 TGTGCAAGAGTAATTCTGTCAGC 59.252 43.478 0.00 0.00 35.91 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.015178 AGTCCTTGAATCAAAGGGGTATTGA 59.985 40.000 0.00 0.00 45.85 2.57
1 2 5.264395 AGTCCTTGAATCAAAGGGGTATTG 58.736 41.667 0.00 0.00 45.85 1.90
2 3 5.254032 AGAGTCCTTGAATCAAAGGGGTATT 59.746 40.000 0.00 0.00 45.85 1.89
3 4 4.790790 AGAGTCCTTGAATCAAAGGGGTAT 59.209 41.667 0.00 0.00 45.85 2.73
4 5 4.175962 AGAGTCCTTGAATCAAAGGGGTA 58.824 43.478 0.00 0.00 45.85 3.69
5 6 2.989571 AGAGTCCTTGAATCAAAGGGGT 59.010 45.455 0.00 0.00 45.85 4.95
6 7 3.728385 AGAGTCCTTGAATCAAAGGGG 57.272 47.619 0.00 0.00 45.85 4.79
18 19 0.474660 AGAGGTGCCCAAGAGTCCTT 60.475 55.000 0.00 0.00 0.00 3.36
19 20 0.413832 TAGAGGTGCCCAAGAGTCCT 59.586 55.000 0.00 0.00 0.00 3.85
20 21 0.827368 CTAGAGGTGCCCAAGAGTCC 59.173 60.000 0.00 0.00 0.00 3.85
21 22 1.853963 TCTAGAGGTGCCCAAGAGTC 58.146 55.000 0.00 0.00 0.00 3.36
22 23 1.903183 GTTCTAGAGGTGCCCAAGAGT 59.097 52.381 0.00 0.00 0.00 3.24
23 24 1.208293 GGTTCTAGAGGTGCCCAAGAG 59.792 57.143 0.00 0.00 0.00 2.85
24 25 1.203313 AGGTTCTAGAGGTGCCCAAGA 60.203 52.381 0.00 0.00 0.00 3.02
25 26 1.280457 AGGTTCTAGAGGTGCCCAAG 58.720 55.000 0.00 0.00 0.00 3.61
26 27 1.628846 GAAGGTTCTAGAGGTGCCCAA 59.371 52.381 0.00 0.00 0.00 4.12
27 28 1.276622 GAAGGTTCTAGAGGTGCCCA 58.723 55.000 0.00 0.00 0.00 5.36
28 29 0.542333 GGAAGGTTCTAGAGGTGCCC 59.458 60.000 0.00 0.00 0.00 5.36
29 30 1.574263 AGGAAGGTTCTAGAGGTGCC 58.426 55.000 0.00 0.00 0.00 5.01
30 31 2.696187 CCTAGGAAGGTTCTAGAGGTGC 59.304 54.545 1.05 0.00 38.19 5.01
43 44 6.041069 CACCTTTACCTCTATCACCTAGGAAG 59.959 46.154 17.98 7.77 34.34 3.46
44 45 5.897824 CACCTTTACCTCTATCACCTAGGAA 59.102 44.000 17.98 3.06 34.34 3.36
45 46 5.043582 ACACCTTTACCTCTATCACCTAGGA 60.044 44.000 17.98 0.00 34.34 2.94
46 47 5.209659 ACACCTTTACCTCTATCACCTAGG 58.790 45.833 7.41 7.41 36.42 3.02
47 48 5.302313 GGACACCTTTACCTCTATCACCTAG 59.698 48.000 0.00 0.00 0.00 3.02
48 49 5.206587 GGACACCTTTACCTCTATCACCTA 58.793 45.833 0.00 0.00 0.00 3.08
49 50 4.031611 GGACACCTTTACCTCTATCACCT 58.968 47.826 0.00 0.00 0.00 4.00
50 51 3.134262 GGGACACCTTTACCTCTATCACC 59.866 52.174 0.00 0.00 0.00 4.02
51 52 3.181478 CGGGACACCTTTACCTCTATCAC 60.181 52.174 0.00 0.00 33.28 3.06
52 53 3.028850 CGGGACACCTTTACCTCTATCA 58.971 50.000 0.00 0.00 33.28 2.15
53 54 3.294214 TCGGGACACCTTTACCTCTATC 58.706 50.000 0.00 0.00 33.28 2.08
54 55 3.393426 TCGGGACACCTTTACCTCTAT 57.607 47.619 0.00 0.00 33.28 1.98
55 56 2.905415 TCGGGACACCTTTACCTCTA 57.095 50.000 0.00 0.00 33.28 2.43
56 57 2.249309 ATCGGGACACCTTTACCTCT 57.751 50.000 0.00 0.00 33.28 3.69
57 58 3.345508 AAATCGGGACACCTTTACCTC 57.654 47.619 0.00 0.00 33.28 3.85
58 59 4.442472 CGATAAATCGGGACACCTTTACCT 60.442 45.833 4.43 0.00 45.93 3.08
59 60 3.805971 CGATAAATCGGGACACCTTTACC 59.194 47.826 4.43 0.00 45.93 2.85
98 99 5.503520 CGTCAAAGTCTACTTCACCCAAAAC 60.504 44.000 0.00 0.00 34.61 2.43
115 116 0.320073 TTGTAGTCGGGCCGTCAAAG 60.320 55.000 27.32 0.00 0.00 2.77
120 121 2.048877 CGTTTGTAGTCGGGCCGT 60.049 61.111 27.32 10.46 0.00 5.68
124 125 0.940519 TTCGCACGTTTGTAGTCGGG 60.941 55.000 0.00 0.00 0.00 5.14
149 150 2.451928 TTACCGGTTGCTAAGGCGCA 62.452 55.000 15.04 0.00 42.25 6.09
152 153 0.450583 GCTTTACCGGTTGCTAAGGC 59.549 55.000 15.04 9.59 39.26 4.35
162 163 2.076863 CTCTTGGAGTTGCTTTACCGG 58.923 52.381 0.00 0.00 0.00 5.28
164 165 3.141767 ACCTCTTGGAGTTGCTTTACC 57.858 47.619 0.00 0.00 37.04 2.85
199 200 0.037326 TGGACAGGTTGATCGTGCTC 60.037 55.000 0.00 0.00 35.61 4.26
214 215 3.522553 CAGGAATTAGACCTTCGTGGAC 58.477 50.000 4.38 0.00 39.71 4.02
215 216 2.093658 GCAGGAATTAGACCTTCGTGGA 60.094 50.000 4.38 0.00 38.37 4.02
219 220 1.927174 CGTGCAGGAATTAGACCTTCG 59.073 52.381 0.00 0.00 35.35 3.79
233 234 1.263776 TGTTTTTCGTTTGCGTGCAG 58.736 45.000 0.00 0.00 39.49 4.41
248 249 7.712205 AGATTGCAATCTTAGTTTTGCTTGTTT 59.288 29.630 31.78 7.93 46.50 2.83
251 252 6.090358 CCAGATTGCAATCTTAGTTTTGCTTG 59.910 38.462 34.17 20.40 46.50 4.01
299 301 8.206126 AGAACCCCAAACTTTCATCAATAAAT 57.794 30.769 0.00 0.00 0.00 1.40
300 302 7.610580 AGAACCCCAAACTTTCATCAATAAA 57.389 32.000 0.00 0.00 0.00 1.40
317 319 2.027469 ACCAAGACGTTCATAGAACCCC 60.027 50.000 4.47 0.00 0.00 4.95
325 327 3.208747 AGACCAAACCAAGACGTTCAT 57.791 42.857 0.00 0.00 0.00 2.57
330 332 2.032924 GTCCAAAGACCAAACCAAGACG 59.967 50.000 0.00 0.00 37.00 4.18
339 341 2.420722 GTCGTTTGTGTCCAAAGACCAA 59.579 45.455 0.00 0.00 42.81 3.67
357 359 1.200483 CCATAGCTGCAAGTACGTCG 58.800 55.000 1.02 0.00 35.30 5.12
360 362 1.368641 TTGCCATAGCTGCAAGTACG 58.631 50.000 5.88 0.00 43.36 3.67
365 367 4.862902 TTAAAGTTTGCCATAGCTGCAA 57.137 36.364 5.88 5.88 46.30 4.08
367 369 4.142182 TGGATTAAAGTTTGCCATAGCTGC 60.142 41.667 0.00 0.00 40.80 5.25
368 370 5.581126 TGGATTAAAGTTTGCCATAGCTG 57.419 39.130 0.00 0.00 40.80 4.24
369 371 6.014669 TGTTTGGATTAAAGTTTGCCATAGCT 60.015 34.615 0.00 0.00 40.80 3.32
370 372 6.162777 TGTTTGGATTAAAGTTTGCCATAGC 58.837 36.000 0.00 0.00 40.48 2.97
371 373 8.600449 TTTGTTTGGATTAAAGTTTGCCATAG 57.400 30.769 0.00 0.00 0.00 2.23
372 374 8.831550 GTTTTGTTTGGATTAAAGTTTGCCATA 58.168 29.630 0.00 0.00 0.00 2.74
374 376 6.881602 AGTTTTGTTTGGATTAAAGTTTGCCA 59.118 30.769 0.00 0.64 0.00 4.92
375 377 7.065204 TGAGTTTTGTTTGGATTAAAGTTTGCC 59.935 33.333 0.00 0.00 0.00 4.52
376 378 7.969314 TGAGTTTTGTTTGGATTAAAGTTTGC 58.031 30.769 0.00 0.00 0.00 3.68
390 396 6.849305 CGTAGCGTTTTCTATGAGTTTTGTTT 59.151 34.615 0.00 0.00 0.00 2.83
397 403 4.959596 TCTCGTAGCGTTTTCTATGAGT 57.040 40.909 15.53 0.00 45.87 3.41
399 405 5.041287 CCAATCTCGTAGCGTTTTCTATGA 58.959 41.667 0.00 0.00 34.45 2.15
402 408 4.157289 AGACCAATCTCGTAGCGTTTTCTA 59.843 41.667 0.00 0.00 0.00 2.10
409 415 9.653067 CTATATAAATAGACCAATCTCGTAGCG 57.347 37.037 0.00 0.00 37.84 4.26
422 428 8.921205 TCGCCCCTTAATCCTATATAAATAGAC 58.079 37.037 0.00 0.00 37.84 2.59
427 433 5.105228 CCGTCGCCCCTTAATCCTATATAAA 60.105 44.000 0.00 0.00 0.00 1.40
446 452 2.470821 CTTCTACCCTATTTGCCGTCG 58.529 52.381 0.00 0.00 0.00 5.12
453 459 3.785887 TGGGATGTGCTTCTACCCTATTT 59.214 43.478 0.00 0.00 40.98 1.40
456 462 2.561209 TGGGATGTGCTTCTACCCTA 57.439 50.000 0.00 0.00 40.98 3.53
460 466 1.340017 TGCCTTGGGATGTGCTTCTAC 60.340 52.381 0.00 0.00 0.00 2.59
489 495 3.956848 GGTCTTGTACGGTCTAGGGTTAT 59.043 47.826 0.00 0.00 0.00 1.89
490 496 3.356290 GGTCTTGTACGGTCTAGGGTTA 58.644 50.000 0.00 0.00 0.00 2.85
491 497 2.174360 GGTCTTGTACGGTCTAGGGTT 58.826 52.381 0.00 0.00 0.00 4.11
493 499 1.109609 GGGTCTTGTACGGTCTAGGG 58.890 60.000 0.00 0.00 0.00 3.53
494 500 1.843368 TGGGTCTTGTACGGTCTAGG 58.157 55.000 0.00 0.00 0.00 3.02
495 501 4.081862 TGAAATGGGTCTTGTACGGTCTAG 60.082 45.833 0.00 0.00 0.00 2.43
496 502 3.833650 TGAAATGGGTCTTGTACGGTCTA 59.166 43.478 0.00 0.00 0.00 2.59
499 505 2.551504 GGTGAAATGGGTCTTGTACGGT 60.552 50.000 0.00 0.00 0.00 4.83
509 515 5.892348 AGAAGAACTAATGGTGAAATGGGT 58.108 37.500 0.00 0.00 0.00 4.51
521 528 9.046296 CCGCTTTGTTCATATAGAAGAACTAAT 57.954 33.333 6.97 0.00 43.38 1.73
524 531 5.294552 GCCGCTTTGTTCATATAGAAGAACT 59.705 40.000 6.97 0.00 43.38 3.01
541 548 4.645921 GGCGTGCTTTGCCGCTTT 62.646 61.111 18.73 0.00 43.70 3.51
547 554 0.318955 AACATGAAGGCGTGCTTTGC 60.319 50.000 0.00 0.00 34.29 3.68
548 555 1.267806 AGAACATGAAGGCGTGCTTTG 59.732 47.619 0.00 0.00 34.29 2.77
549 556 1.537202 GAGAACATGAAGGCGTGCTTT 59.463 47.619 0.00 0.00 34.29 3.51
550 557 1.160137 GAGAACATGAAGGCGTGCTT 58.840 50.000 0.00 0.00 34.29 3.91
552 559 1.291877 ACGAGAACATGAAGGCGTGC 61.292 55.000 0.00 0.00 34.29 5.34
553 560 1.148310 AACGAGAACATGAAGGCGTG 58.852 50.000 0.00 0.00 37.07 5.34
554 561 1.878953 AAACGAGAACATGAAGGCGT 58.121 45.000 0.00 0.88 0.00 5.68
569 578 8.576281 CGCTAGTTAGCTCATAATGTATAAACG 58.424 37.037 9.28 0.00 46.85 3.60
579 588 5.006153 TCTTTGCGCTAGTTAGCTCATAA 57.994 39.130 9.73 4.77 46.85 1.90
595 604 0.248289 ATGGCATGTGGCTTCTTTGC 59.752 50.000 0.00 0.00 44.01 3.68
637 646 3.681593 AGCCTTTTTGCCGTGTTATCTA 58.318 40.909 0.00 0.00 0.00 1.98
654 663 0.174845 TGCGCGAGTTATGTAAGCCT 59.825 50.000 12.10 0.00 0.00 4.58
655 664 1.192534 GATGCGCGAGTTATGTAAGCC 59.807 52.381 12.10 0.00 0.00 4.35
661 670 1.135046 CAGGAGATGCGCGAGTTATG 58.865 55.000 12.10 0.00 0.00 1.90
786 795 4.076394 GGTAAAGTTGTGTCCTGGCATAA 58.924 43.478 0.00 0.00 0.00 1.90
886 902 5.007430 GGTTTTAACCGATTTAGCTCTAGCC 59.993 44.000 0.00 0.00 39.74 3.93
940 956 2.029828 TCGAGAGAGACAAGAAGCCAAC 60.030 50.000 0.00 0.00 34.84 3.77
1329 1345 0.738389 TCTATCATGACGTGCGAGCA 59.262 50.000 0.00 0.00 0.00 4.26
1435 1454 0.243907 TACACTCCTCGCTGCAGAAC 59.756 55.000 20.43 0.00 0.00 3.01
1591 1610 1.918800 GGTGGAGCCCTACTGTGGT 60.919 63.158 0.00 0.00 0.00 4.16
1767 1789 8.429237 AAATTACAAACAAGTGGGAATATGGA 57.571 30.769 0.00 0.00 0.00 3.41
1907 1931 4.809426 AGATCGCCTGGTTTTTATCGTAAG 59.191 41.667 0.00 0.00 0.00 2.34
1933 1957 9.466497 TTTCATTTCCCTATCCTAATGATATGC 57.534 33.333 0.00 0.00 37.00 3.14
1975 2003 4.454504 TCTTCCGCCTTTTCTCATGTAAAC 59.545 41.667 0.00 0.00 0.00 2.01
2013 2042 2.477245 TGCTGGAGATGTAGCCCTTTA 58.523 47.619 0.00 0.00 39.15 1.85
2017 2046 2.128771 TTTTGCTGGAGATGTAGCCC 57.871 50.000 0.00 0.00 39.15 5.19
2038 2067 1.980772 GAGCAGGTTTGGCTGGCAT 60.981 57.895 4.22 0.00 42.78 4.40
2075 2112 0.874607 ACAACTCGTCACAAGCCGAC 60.875 55.000 0.00 0.00 0.00 4.79
2076 2113 0.179094 AACAACTCGTCACAAGCCGA 60.179 50.000 0.00 0.00 0.00 5.54
2077 2114 0.042188 CAACAACTCGTCACAAGCCG 60.042 55.000 0.00 0.00 0.00 5.52
2078 2115 1.295792 TCAACAACTCGTCACAAGCC 58.704 50.000 0.00 0.00 0.00 4.35
2120 2157 9.202273 GCTACATTTGTGTTTTGGAATATTTGA 57.798 29.630 0.00 0.00 0.00 2.69
2145 2182 3.002759 GGATGCTATTTCTTTCAGACGGC 59.997 47.826 0.00 0.00 0.00 5.68
2150 3694 6.748333 TGTTCAGGATGCTATTTCTTTCAG 57.252 37.500 0.00 0.00 34.76 3.02
2168 3712 5.814705 GGTGGAACATGAAAATTGTTGTTCA 59.185 36.000 12.95 4.57 46.12 3.18
2175 3719 7.675962 AATGATTGGTGGAACATGAAAATTG 57.324 32.000 0.00 0.00 44.52 2.32
2230 3774 5.615925 TTTAACTTGGCTCTCTATCCCTC 57.384 43.478 0.00 0.00 0.00 4.30
2250 3794 5.384063 TTCGCCATGTGATGTATTGTTTT 57.616 34.783 0.00 0.00 0.00 2.43
2261 3805 3.129462 TGTTTTTGTCTTTCGCCATGTGA 59.871 39.130 0.00 0.00 0.00 3.58
2266 3810 2.159184 TGCATGTTTTTGTCTTTCGCCA 60.159 40.909 0.00 0.00 0.00 5.69
2268 3812 2.857152 TGTGCATGTTTTTGTCTTTCGC 59.143 40.909 0.00 0.00 0.00 4.70
2276 3820 1.198883 GCGCGTGTGCATGTTTTTG 59.801 52.632 8.43 0.00 42.97 2.44
2350 3894 3.555795 CGGCTTGCCATACACAGATAGAT 60.556 47.826 12.45 0.00 0.00 1.98
2358 3902 1.498865 CGGATCGGCTTGCCATACAC 61.499 60.000 12.45 0.00 0.00 2.90
2361 3905 2.280797 GCGGATCGGCTTGCCATA 60.281 61.111 17.31 0.00 0.00 2.74
2376 3920 0.103208 ACTCGAAGGCTCTTATGGCG 59.897 55.000 0.00 0.00 37.59 5.69
2393 3937 7.718753 AGAATTTCATGTGACTTCTTCTTCACT 59.281 33.333 0.00 0.00 42.31 3.41
2406 3950 5.569227 GCCCAAATCCAAGAATTTCATGTGA 60.569 40.000 0.00 0.00 0.00 3.58
2418 3962 4.019174 ACATACTTGAGCCCAAATCCAAG 58.981 43.478 0.00 0.00 41.12 3.61
2422 3966 5.297029 GGAACTACATACTTGAGCCCAAATC 59.703 44.000 0.00 0.00 0.00 2.17
2459 4003 1.026584 CGCCATGATGCCTTTGATGA 58.973 50.000 0.00 0.00 0.00 2.92
2471 4015 0.964700 TCAATTTGTTGGCGCCATGA 59.035 45.000 33.25 26.28 0.00 3.07
2487 4031 3.435327 GCATCAACACGTACCATCTTCAA 59.565 43.478 0.00 0.00 0.00 2.69
2500 4044 2.678336 GGCTAGTACTTGGCATCAACAC 59.322 50.000 22.57 1.73 0.00 3.32
2528 4072 0.320683 CCGTCATGTGGTCTGCTTCA 60.321 55.000 0.00 0.00 0.00 3.02
2542 4086 2.159338 GCCGTAACTAATGACTCCGTCA 60.159 50.000 0.00 0.00 46.90 4.35
2545 4089 2.858344 CAAGCCGTAACTAATGACTCCG 59.142 50.000 0.00 0.00 0.00 4.63
2549 4093 4.094294 TCAATGCAAGCCGTAACTAATGAC 59.906 41.667 0.00 0.00 0.00 3.06
2559 4107 1.538047 AGATGTTCAATGCAAGCCGT 58.462 45.000 0.00 0.00 0.00 5.68
2560 4108 2.256174 CAAGATGTTCAATGCAAGCCG 58.744 47.619 0.00 0.00 0.00 5.52
2565 4113 2.799017 AGCTCCAAGATGTTCAATGCA 58.201 42.857 0.00 0.00 0.00 3.96
2577 4125 0.886490 ACTCGGCACAAAGCTCCAAG 60.886 55.000 0.00 0.00 44.79 3.61
2619 4167 1.012086 CTGAATGACCACTGGATGCG 58.988 55.000 0.71 0.00 0.00 4.73
2624 4172 2.401766 GCCGCTGAATGACCACTGG 61.402 63.158 0.00 0.00 0.00 4.00
2639 4187 1.463674 AAGCAATGGTTAAGGAGCCG 58.536 50.000 0.00 0.00 0.00 5.52
2648 4196 2.875296 TGTGAGGCTTAAGCAATGGTT 58.125 42.857 27.83 2.45 44.36 3.67
2652 4200 5.726980 TCAATTTGTGAGGCTTAAGCAAT 57.273 34.783 27.83 16.28 44.36 3.56
2653 4201 5.528043 TTCAATTTGTGAGGCTTAAGCAA 57.472 34.783 27.83 13.30 44.36 3.91
2683 4231 9.422681 GGGGATAGTATGAAAGATATAGCACTA 57.577 37.037 0.00 0.00 0.00 2.74
2684 4232 7.901322 TGGGGATAGTATGAAAGATATAGCACT 59.099 37.037 0.00 0.00 0.00 4.40
2685 4233 8.079211 TGGGGATAGTATGAAAGATATAGCAC 57.921 38.462 0.00 0.00 0.00 4.40
2686 4234 8.679344 TTGGGGATAGTATGAAAGATATAGCA 57.321 34.615 0.00 0.00 0.00 3.49
2742 4291 5.726308 CAGGTCATGGGGTCCTAATGATATA 59.274 44.000 9.39 0.00 33.19 0.86
2759 4308 1.229209 ACCACTCCGGACAGGTCAT 60.229 57.895 15.67 0.00 41.99 3.06
2783 4332 0.759060 GCCTCTGTTGGTGGGGTTTT 60.759 55.000 0.00 0.00 0.00 2.43
2790 4339 2.186160 TGTTGCGCCTCTGTTGGTG 61.186 57.895 4.18 0.00 40.36 4.17
2791 4340 2.186826 GTGTTGCGCCTCTGTTGGT 61.187 57.895 4.18 0.00 0.00 3.67
2803 4352 3.002348 GGATAGATTTGGTAGCGTGTTGC 59.998 47.826 0.00 0.00 46.98 4.17
2810 4359 4.689612 TGGTCTGGATAGATTTGGTAGC 57.310 45.455 0.00 0.00 34.94 3.58
2813 4362 4.111577 TCCTTGGTCTGGATAGATTTGGT 58.888 43.478 0.00 0.00 34.94 3.67
2823 4372 3.366396 GTCTCAGTATCCTTGGTCTGGA 58.634 50.000 0.00 0.00 38.06 3.86
2825 4374 3.370104 AGGTCTCAGTATCCTTGGTCTG 58.630 50.000 0.00 0.00 0.00 3.51
2827 4376 3.769844 TGAAGGTCTCAGTATCCTTGGTC 59.230 47.826 0.26 0.00 41.00 4.02
2831 4380 4.100373 AGCTTGAAGGTCTCAGTATCCTT 58.900 43.478 0.00 0.00 43.20 3.36
2833 4382 3.181470 GGAGCTTGAAGGTCTCAGTATCC 60.181 52.174 21.90 1.86 42.10 2.59
2834 4383 3.704061 AGGAGCTTGAAGGTCTCAGTATC 59.296 47.826 21.90 5.55 42.10 2.24
2835 4384 3.718723 AGGAGCTTGAAGGTCTCAGTAT 58.281 45.455 21.90 1.69 42.10 2.12
2836 4385 3.176924 AGGAGCTTGAAGGTCTCAGTA 57.823 47.619 21.90 0.00 42.10 2.74
2837 4386 2.022718 AGGAGCTTGAAGGTCTCAGT 57.977 50.000 21.90 4.24 42.10 3.41
2838 4387 2.614987 CCAAGGAGCTTGAAGGTCTCAG 60.615 54.545 21.90 12.28 43.42 3.35
2839 4388 1.349026 CCAAGGAGCTTGAAGGTCTCA 59.651 52.381 21.90 0.00 43.42 3.27
2846 4395 1.768275 TGTCACTCCAAGGAGCTTGAA 59.232 47.619 15.87 2.82 43.42 2.69
2875 4424 1.687123 CTACCCAACTCTATGACGGGG 59.313 57.143 0.00 0.00 41.55 5.73
2877 4426 2.662866 TCCTACCCAACTCTATGACGG 58.337 52.381 0.00 0.00 0.00 4.79
2883 4432 3.335786 TGTCCTCTTCCTACCCAACTCTA 59.664 47.826 0.00 0.00 0.00 2.43
2884 4433 2.111972 TGTCCTCTTCCTACCCAACTCT 59.888 50.000 0.00 0.00 0.00 3.24
2905 4454 4.259356 CCATCGACATCTTCCATATGCAT 58.741 43.478 3.79 3.79 0.00 3.96
2906 4455 3.667360 CCATCGACATCTTCCATATGCA 58.333 45.455 0.00 0.00 0.00 3.96
2907 4456 2.417933 GCCATCGACATCTTCCATATGC 59.582 50.000 0.00 0.00 0.00 3.14
2935 4484 7.978982 ACAGAATTACTCTTGCACAATATGTC 58.021 34.615 0.00 0.00 29.07 3.06
2955 4504 1.069090 GTCACCCGTGCTGACAGAA 59.931 57.895 6.65 0.00 38.36 3.02


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

AutoCloner maintained by Alex Coulton.