Multiple sequence alignment - TraesCS1A01G342200

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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 TraesCS1A01G342200 chr1A 100.000 2548 0 0 1 2548 531500576 531498029 0.000000e+00 4706
1 TraesCS1A01G342200 chr1A 96.952 1936 55 3 616 2548 22791572 22793506 0.000000e+00 3245
2 TraesCS1A01G342200 chr1A 88.962 453 46 3 1 453 531508888 531508440 7.960000e-155 556
3 TraesCS1A01G342200 chr1A 89.924 397 35 4 58 453 531560740 531560348 8.130000e-140 507
4 TraesCS1A01G342200 chr1A 91.946 149 11 1 453 601 531508351 531508204 9.240000e-50 207
5 TraesCS1A01G342200 chr3A 97.468 1935 47 2 616 2548 735555384 735557318 0.000000e+00 3301
6 TraesCS1A01G342200 chr6B 97.109 1937 51 4 616 2548 660437700 660435765 0.000000e+00 3262
7 TraesCS1A01G342200 chr6A 97.247 1925 47 5 616 2535 617222826 617220903 0.000000e+00 3256
8 TraesCS1A01G342200 chr3B 97.140 1923 51 4 616 2535 702857611 702855690 0.000000e+00 3243
9 TraesCS1A01G342200 chr3B 96.902 1937 55 4 616 2548 379294136 379296071 0.000000e+00 3240
10 TraesCS1A01G342200 chr2B 97.141 1924 50 5 616 2535 776223005 776224927 0.000000e+00 3243
11 TraesCS1A01G342200 chr7A 96.904 1938 55 4 616 2548 701581984 701583921 0.000000e+00 3241
12 TraesCS1A01G342200 chr7B 96.849 1936 58 3 616 2548 552850641 552852576 0.000000e+00 3234
13 TraesCS1A01G342200 chr1B 88.521 453 47 5 1 453 584874448 584874001 6.200000e-151 544
14 TraesCS1A01G342200 chr1B 88.521 453 47 5 1 453 584900851 584900404 6.200000e-151 544
15 TraesCS1A01G342200 chr1B 86.784 454 58 2 1 454 584573772 584573321 2.930000e-139 505
16 TraesCS1A01G342200 chr1B 86.564 454 59 2 1 454 584619133 584618682 1.360000e-137 499
17 TraesCS1A01G342200 chr1B 83.778 450 65 5 4 453 584751829 584751388 1.090000e-113 420
18 TraesCS1A01G342200 chr1D 89.211 380 39 2 74 453 433091657 433091280 8.250000e-130 473
19 TraesCS1A01G342200 chr3D 76.987 239 52 2 101 337 339272236 339271999 1.590000e-27 134


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 TraesCS1A01G342200 chr1A 531498029 531500576 2547 True 4706.0 4706 100.000 1 2548 1 chr1A.!!$R1 2547
1 TraesCS1A01G342200 chr1A 22791572 22793506 1934 False 3245.0 3245 96.952 616 2548 1 chr1A.!!$F1 1932
2 TraesCS1A01G342200 chr1A 531508204 531508888 684 True 381.5 556 90.454 1 601 2 chr1A.!!$R3 600
3 TraesCS1A01G342200 chr3A 735555384 735557318 1934 False 3301.0 3301 97.468 616 2548 1 chr3A.!!$F1 1932
4 TraesCS1A01G342200 chr6B 660435765 660437700 1935 True 3262.0 3262 97.109 616 2548 1 chr6B.!!$R1 1932
5 TraesCS1A01G342200 chr6A 617220903 617222826 1923 True 3256.0 3256 97.247 616 2535 1 chr6A.!!$R1 1919
6 TraesCS1A01G342200 chr3B 702855690 702857611 1921 True 3243.0 3243 97.140 616 2535 1 chr3B.!!$R1 1919
7 TraesCS1A01G342200 chr3B 379294136 379296071 1935 False 3240.0 3240 96.902 616 2548 1 chr3B.!!$F1 1932
8 TraesCS1A01G342200 chr2B 776223005 776224927 1922 False 3243.0 3243 97.141 616 2535 1 chr2B.!!$F1 1919
9 TraesCS1A01G342200 chr7A 701581984 701583921 1937 False 3241.0 3241 96.904 616 2548 1 chr7A.!!$F1 1932
10 TraesCS1A01G342200 chr7B 552850641 552852576 1935 False 3234.0 3234 96.849 616 2548 1 chr7B.!!$F1 1932

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
579 580 0.178301 TGTGCCTCGGTTGTGTTGTA 59.822 50.0 0.0 0.0 0.0 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1798 1829 0.544833 TGGATGCAGTTGGCCCATTT 60.545 50.0 0.0 0.0 43.89 2.32 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
24 25 7.484035 TTGTTTAAATTTGTATGTGGTTGGC 57.516 32.000 0.00 0.00 0.00 4.52
37 38 0.458669 GGTTGGCTGCAAGATGATGG 59.541 55.000 0.50 0.00 34.07 3.51
41 42 1.820519 TGGCTGCAAGATGATGGTTTC 59.179 47.619 0.50 0.00 34.07 2.78
42 43 1.202222 GGCTGCAAGATGATGGTTTCG 60.202 52.381 0.50 0.00 34.07 3.46
43 44 1.796617 GCTGCAAGATGATGGTTTCGC 60.797 52.381 0.00 0.00 34.07 4.70
48 49 2.743664 CAAGATGATGGTTTCGCTGACA 59.256 45.455 0.00 0.00 0.00 3.58
55 56 0.951558 GGTTTCGCTGACATGGTGTT 59.048 50.000 0.00 0.00 0.00 3.32
56 57 1.334960 GGTTTCGCTGACATGGTGTTG 60.335 52.381 0.00 0.00 0.00 3.33
66 67 3.214328 GACATGGTGTTGAAAGAGTGGT 58.786 45.455 0.00 0.00 0.00 4.16
72 73 4.137543 GGTGTTGAAAGAGTGGTGAGATT 58.862 43.478 0.00 0.00 0.00 2.40
79 80 3.238108 AGAGTGGTGAGATTAGCAACG 57.762 47.619 0.00 0.00 0.00 4.10
82 83 2.093973 AGTGGTGAGATTAGCAACGAGG 60.094 50.000 0.00 0.00 0.00 4.63
126 127 1.228894 TGAGGTCGTCTTGGAGGCT 60.229 57.895 0.00 0.00 0.00 4.58
144 145 1.944709 GCTTAATCGGCCAAACGGTAT 59.055 47.619 2.24 0.00 0.00 2.73
146 147 3.181494 GCTTAATCGGCCAAACGGTATTT 60.181 43.478 2.24 0.00 0.00 1.40
163 164 5.745294 CGGTATTTTGAATGCCAAATCTCAG 59.255 40.000 8.22 0.00 43.59 3.35
164 165 5.521372 GGTATTTTGAATGCCAAATCTCAGC 59.479 40.000 3.35 0.00 43.59 4.26
199 200 0.829602 TCGGCCCCAGAGATGAGATC 60.830 60.000 0.00 0.00 0.00 2.75
205 206 2.246469 CCCAGAGATGAGATCGGATGT 58.754 52.381 0.00 0.00 0.00 3.06
220 221 3.055591 CGGATGTCGATGATCCAAAGAG 58.944 50.000 20.55 5.86 39.65 2.85
225 226 3.686241 TGTCGATGATCCAAAGAGCAAAG 59.314 43.478 0.00 0.00 42.75 2.77
226 227 2.679837 TCGATGATCCAAAGAGCAAAGC 59.320 45.455 0.00 0.00 42.75 3.51
246 247 5.490139 AGCTGTTCATTTTGATCATACGG 57.510 39.130 0.00 0.00 0.00 4.02
247 248 5.185454 AGCTGTTCATTTTGATCATACGGA 58.815 37.500 0.00 0.00 0.00 4.69
262 263 9.777297 TGATCATACGGAGATTTTTCATATTGA 57.223 29.630 0.00 0.00 0.00 2.57
285 286 5.841957 ACAATTATTCAGTTGAGGCCATC 57.158 39.130 5.01 0.00 0.00 3.51
286 287 5.513233 ACAATTATTCAGTTGAGGCCATCT 58.487 37.500 5.01 0.00 0.00 2.90
294 295 3.310774 CAGTTGAGGCCATCTTGATTACG 59.689 47.826 5.01 0.00 0.00 3.18
304 305 6.260050 GGCCATCTTGATTACGTTTTCTATCA 59.740 38.462 0.00 0.00 0.00 2.15
306 307 7.800380 GCCATCTTGATTACGTTTTCTATCATG 59.200 37.037 0.00 0.00 0.00 3.07
316 317 9.658475 TTACGTTTTCTATCATGTCAAAAACTG 57.342 29.630 17.60 14.82 37.56 3.16
319 320 7.647715 CGTTTTCTATCATGTCAAAAACTGGTT 59.352 33.333 17.60 0.00 37.56 3.67
325 326 5.406649 TCATGTCAAAAACTGGTTGTCAAC 58.593 37.500 7.20 7.20 29.96 3.18
332 333 2.038387 ACTGGTTGTCAACACACTCC 57.962 50.000 17.29 0.00 29.76 3.85
333 334 1.308998 CTGGTTGTCAACACACTCCC 58.691 55.000 17.29 0.00 29.76 4.30
337 338 0.182537 TTGTCAACACACTCCCCTGG 59.817 55.000 0.00 0.00 29.76 4.45
345 346 0.188342 ACACTCCCCTGGCACAATTT 59.812 50.000 0.00 0.00 38.70 1.82
393 394 1.768684 TATGAGGGCGAGCAATCCCC 61.769 60.000 3.86 0.00 43.67 4.81
403 404 4.265073 GCGAGCAATCCCCTTATATTCAT 58.735 43.478 0.00 0.00 0.00 2.57
410 411 7.015584 AGCAATCCCCTTATATTCATTGTTTCC 59.984 37.037 0.00 0.00 0.00 3.13
430 431 2.288702 CCGCATGTTCCATCCAAAAACA 60.289 45.455 0.00 0.00 37.32 2.83
453 454 2.614734 GCGCCCCACCCTTAGTATATTC 60.615 54.545 0.00 0.00 0.00 1.75
454 455 2.635915 CGCCCCACCCTTAGTATATTCA 59.364 50.000 0.00 0.00 0.00 2.57
455 456 3.263425 CGCCCCACCCTTAGTATATTCAT 59.737 47.826 0.00 0.00 0.00 2.57
456 457 4.263331 CGCCCCACCCTTAGTATATTCATT 60.263 45.833 0.00 0.00 0.00 2.57
457 458 5.046159 CGCCCCACCCTTAGTATATTCATTA 60.046 44.000 0.00 0.00 0.00 1.90
458 459 6.415573 GCCCCACCCTTAGTATATTCATTAG 58.584 44.000 0.00 0.00 0.00 1.73
459 460 6.214819 GCCCCACCCTTAGTATATTCATTAGA 59.785 42.308 0.00 0.00 0.00 2.10
460 461 7.256908 GCCCCACCCTTAGTATATTCATTAGAA 60.257 40.741 0.00 0.00 38.31 2.10
461 462 8.836735 CCCCACCCTTAGTATATTCATTAGAAT 58.163 37.037 0.00 0.00 45.98 2.40
462 463 9.892130 CCCACCCTTAGTATATTCATTAGAATC 57.108 37.037 0.00 0.00 43.26 2.52
463 464 9.892130 CCACCCTTAGTATATTCATTAGAATCC 57.108 37.037 0.00 0.00 43.26 3.01
464 465 9.587772 CACCCTTAGTATATTCATTAGAATCCG 57.412 37.037 0.00 0.00 43.26 4.18
465 466 8.258708 ACCCTTAGTATATTCATTAGAATCCGC 58.741 37.037 0.00 0.00 43.26 5.54
466 467 8.258007 CCCTTAGTATATTCATTAGAATCCGCA 58.742 37.037 0.00 0.00 43.26 5.69
467 468 9.823647 CCTTAGTATATTCATTAGAATCCGCAT 57.176 33.333 0.00 0.00 43.26 4.73
469 470 9.599866 TTAGTATATTCATTAGAATCCGCATGG 57.400 33.333 0.00 0.00 43.26 3.66
470 471 5.824904 ATATTCATTAGAATCCGCATGGC 57.175 39.130 0.00 0.00 43.26 4.40
471 472 1.896220 TCATTAGAATCCGCATGGCC 58.104 50.000 0.00 0.00 34.14 5.36
472 473 1.142667 TCATTAGAATCCGCATGGCCA 59.857 47.619 8.56 8.56 34.14 5.36
473 474 1.955778 CATTAGAATCCGCATGGCCAA 59.044 47.619 10.96 0.00 34.14 4.52
474 475 1.388547 TTAGAATCCGCATGGCCAAC 58.611 50.000 10.96 3.81 34.14 3.77
475 476 0.465460 TAGAATCCGCATGGCCAACC 60.465 55.000 10.96 2.01 34.14 3.77
476 477 2.759560 AATCCGCATGGCCAACCC 60.760 61.111 10.96 0.00 33.59 4.11
477 478 3.301222 AATCCGCATGGCCAACCCT 62.301 57.895 10.96 0.00 33.59 4.34
478 479 1.932156 AATCCGCATGGCCAACCCTA 61.932 55.000 10.96 0.00 33.59 3.53
479 480 1.719063 ATCCGCATGGCCAACCCTAT 61.719 55.000 10.96 0.00 33.59 2.57
480 481 1.455587 CCGCATGGCCAACCCTATT 60.456 57.895 10.96 0.00 33.59 1.73
481 482 1.042559 CCGCATGGCCAACCCTATTT 61.043 55.000 10.96 0.00 33.59 1.40
482 483 1.686355 CGCATGGCCAACCCTATTTA 58.314 50.000 10.96 0.00 33.59 1.40
483 484 1.608590 CGCATGGCCAACCCTATTTAG 59.391 52.381 10.96 0.00 33.59 1.85
484 485 1.341209 GCATGGCCAACCCTATTTAGC 59.659 52.381 10.96 0.00 33.59 3.09
485 486 1.963515 CATGGCCAACCCTATTTAGCC 59.036 52.381 10.96 0.00 40.87 3.93
486 487 3.915993 GGCCAACCCTATTTAGCCA 57.084 52.632 0.00 0.00 40.20 4.75
487 488 1.359474 TGGCCAACCCTATTTAGCCAA 59.641 47.619 0.61 0.00 46.83 4.52
488 489 2.225394 TGGCCAACCCTATTTAGCCAAA 60.225 45.455 0.61 0.00 46.83 3.28
489 490 2.167693 GGCCAACCCTATTTAGCCAAAC 59.832 50.000 0.00 0.00 40.20 2.93
490 491 3.096852 GCCAACCCTATTTAGCCAAACT 58.903 45.455 0.00 0.00 0.00 2.66
491 492 4.274978 GCCAACCCTATTTAGCCAAACTA 58.725 43.478 0.00 0.00 0.00 2.24
492 493 4.893524 GCCAACCCTATTTAGCCAAACTAT 59.106 41.667 0.00 0.00 0.00 2.12
493 494 5.362717 GCCAACCCTATTTAGCCAAACTATT 59.637 40.000 0.00 0.00 0.00 1.73
494 495 6.127168 GCCAACCCTATTTAGCCAAACTATTT 60.127 38.462 0.00 0.00 0.00 1.40
495 496 7.580688 GCCAACCCTATTTAGCCAAACTATTTT 60.581 37.037 0.00 0.00 0.00 1.82
496 497 8.318412 CCAACCCTATTTAGCCAAACTATTTTT 58.682 33.333 0.00 0.00 0.00 1.94
497 498 9.366216 CAACCCTATTTAGCCAAACTATTTTTC 57.634 33.333 0.00 0.00 0.00 2.29
498 499 8.895141 ACCCTATTTAGCCAAACTATTTTTCT 57.105 30.769 0.00 0.00 0.00 2.52
499 500 9.984590 ACCCTATTTAGCCAAACTATTTTTCTA 57.015 29.630 0.00 0.00 0.00 2.10
508 509 9.127277 AGCCAAACTATTTTTCTAACACTTACA 57.873 29.630 0.00 0.00 0.00 2.41
509 510 9.908152 GCCAAACTATTTTTCTAACACTTACAT 57.092 29.630 0.00 0.00 0.00 2.29
524 525 8.691661 AACACTTACATGGACTAAGAAATTGT 57.308 30.769 8.20 1.02 0.00 2.71
525 526 9.787435 AACACTTACATGGACTAAGAAATTGTA 57.213 29.630 8.20 0.00 0.00 2.41
526 527 9.787435 ACACTTACATGGACTAAGAAATTGTAA 57.213 29.630 8.20 0.00 0.00 2.41
531 532 8.635765 ACATGGACTAAGAAATTGTAATGTGT 57.364 30.769 0.00 0.00 29.36 3.72
532 533 8.514594 ACATGGACTAAGAAATTGTAATGTGTG 58.485 33.333 0.00 0.00 29.36 3.82
533 534 8.514594 CATGGACTAAGAAATTGTAATGTGTGT 58.485 33.333 0.00 0.00 0.00 3.72
534 535 8.094798 TGGACTAAGAAATTGTAATGTGTGTC 57.905 34.615 0.00 0.00 0.00 3.67
535 536 7.936847 TGGACTAAGAAATTGTAATGTGTGTCT 59.063 33.333 0.00 0.00 0.00 3.41
536 537 8.230486 GGACTAAGAAATTGTAATGTGTGTCTG 58.770 37.037 0.00 0.00 0.00 3.51
537 538 8.902540 ACTAAGAAATTGTAATGTGTGTCTGA 57.097 30.769 0.00 0.00 0.00 3.27
538 539 8.993121 ACTAAGAAATTGTAATGTGTGTCTGAG 58.007 33.333 0.00 0.00 0.00 3.35
539 540 9.208022 CTAAGAAATTGTAATGTGTGTCTGAGA 57.792 33.333 0.00 0.00 0.00 3.27
540 541 8.627208 AAGAAATTGTAATGTGTGTCTGAGAT 57.373 30.769 0.00 0.00 0.00 2.75
541 542 8.627208 AGAAATTGTAATGTGTGTCTGAGATT 57.373 30.769 0.00 0.00 0.00 2.40
542 543 8.509690 AGAAATTGTAATGTGTGTCTGAGATTG 58.490 33.333 0.00 0.00 0.00 2.67
543 544 7.750229 AATTGTAATGTGTGTCTGAGATTGT 57.250 32.000 0.00 0.00 0.00 2.71
544 545 7.750229 ATTGTAATGTGTGTCTGAGATTGTT 57.250 32.000 0.00 0.00 0.00 2.83
545 546 7.566760 TTGTAATGTGTGTCTGAGATTGTTT 57.433 32.000 0.00 0.00 0.00 2.83
546 547 7.566760 TGTAATGTGTGTCTGAGATTGTTTT 57.433 32.000 0.00 0.00 0.00 2.43
547 548 7.995289 TGTAATGTGTGTCTGAGATTGTTTTT 58.005 30.769 0.00 0.00 0.00 1.94
548 549 7.914871 TGTAATGTGTGTCTGAGATTGTTTTTG 59.085 33.333 0.00 0.00 0.00 2.44
549 550 5.895636 TGTGTGTCTGAGATTGTTTTTGT 57.104 34.783 0.00 0.00 0.00 2.83
550 551 5.639757 TGTGTGTCTGAGATTGTTTTTGTG 58.360 37.500 0.00 0.00 0.00 3.33
551 552 5.414144 TGTGTGTCTGAGATTGTTTTTGTGA 59.586 36.000 0.00 0.00 0.00 3.58
552 553 5.967674 GTGTGTCTGAGATTGTTTTTGTGAG 59.032 40.000 0.00 0.00 0.00 3.51
553 554 5.066375 TGTGTCTGAGATTGTTTTTGTGAGG 59.934 40.000 0.00 0.00 0.00 3.86
554 555 4.580167 TGTCTGAGATTGTTTTTGTGAGGG 59.420 41.667 0.00 0.00 0.00 4.30
555 556 4.821805 GTCTGAGATTGTTTTTGTGAGGGA 59.178 41.667 0.00 0.00 0.00 4.20
556 557 5.299279 GTCTGAGATTGTTTTTGTGAGGGAA 59.701 40.000 0.00 0.00 0.00 3.97
557 558 5.890985 TCTGAGATTGTTTTTGTGAGGGAAA 59.109 36.000 0.00 0.00 0.00 3.13
558 559 6.550854 TCTGAGATTGTTTTTGTGAGGGAAAT 59.449 34.615 0.00 0.00 0.00 2.17
559 560 7.723616 TCTGAGATTGTTTTTGTGAGGGAAATA 59.276 33.333 0.00 0.00 0.00 1.40
560 561 8.421249 TGAGATTGTTTTTGTGAGGGAAATAT 57.579 30.769 0.00 0.00 0.00 1.28
561 562 8.306038 TGAGATTGTTTTTGTGAGGGAAATATG 58.694 33.333 0.00 0.00 0.00 1.78
562 563 8.193953 AGATTGTTTTTGTGAGGGAAATATGT 57.806 30.769 0.00 0.00 0.00 2.29
563 564 8.090214 AGATTGTTTTTGTGAGGGAAATATGTG 58.910 33.333 0.00 0.00 0.00 3.21
564 565 5.537188 TGTTTTTGTGAGGGAAATATGTGC 58.463 37.500 0.00 0.00 0.00 4.57
565 566 4.799564 TTTTGTGAGGGAAATATGTGCC 57.200 40.909 0.00 0.00 0.00 5.01
566 567 3.737559 TTGTGAGGGAAATATGTGCCT 57.262 42.857 5.47 5.47 43.01 4.75
569 570 1.884235 GAGGGAAATATGTGCCTCGG 58.116 55.000 16.95 0.00 44.95 4.63
570 571 1.141053 GAGGGAAATATGTGCCTCGGT 59.859 52.381 16.95 0.00 44.95 4.69
571 572 1.564348 AGGGAAATATGTGCCTCGGTT 59.436 47.619 0.00 0.00 33.25 4.44
572 573 1.676006 GGGAAATATGTGCCTCGGTTG 59.324 52.381 0.00 0.00 0.00 3.77
573 574 2.365582 GGAAATATGTGCCTCGGTTGT 58.634 47.619 0.00 0.00 0.00 3.32
574 575 2.097466 GGAAATATGTGCCTCGGTTGTG 59.903 50.000 0.00 0.00 0.00 3.33
575 576 2.489938 AATATGTGCCTCGGTTGTGT 57.510 45.000 0.00 0.00 0.00 3.72
576 577 2.489938 ATATGTGCCTCGGTTGTGTT 57.510 45.000 0.00 0.00 0.00 3.32
577 578 1.518325 TATGTGCCTCGGTTGTGTTG 58.482 50.000 0.00 0.00 0.00 3.33
578 579 0.465460 ATGTGCCTCGGTTGTGTTGT 60.465 50.000 0.00 0.00 0.00 3.32
579 580 0.178301 TGTGCCTCGGTTGTGTTGTA 59.822 50.000 0.00 0.00 0.00 2.41
580 581 0.584876 GTGCCTCGGTTGTGTTGTAC 59.415 55.000 0.00 0.00 0.00 2.90
581 582 0.466543 TGCCTCGGTTGTGTTGTACT 59.533 50.000 0.00 0.00 0.00 2.73
582 583 0.865769 GCCTCGGTTGTGTTGTACTG 59.134 55.000 0.00 0.00 0.00 2.74
583 584 0.865769 CCTCGGTTGTGTTGTACTGC 59.134 55.000 0.00 0.00 0.00 4.40
584 585 1.540363 CCTCGGTTGTGTTGTACTGCT 60.540 52.381 0.00 0.00 0.00 4.24
585 586 2.210116 CTCGGTTGTGTTGTACTGCTT 58.790 47.619 0.00 0.00 0.00 3.91
586 587 2.612212 CTCGGTTGTGTTGTACTGCTTT 59.388 45.455 0.00 0.00 0.00 3.51
587 588 2.610374 TCGGTTGTGTTGTACTGCTTTC 59.390 45.455 0.00 0.00 0.00 2.62
588 589 2.612212 CGGTTGTGTTGTACTGCTTTCT 59.388 45.455 0.00 0.00 0.00 2.52
589 590 3.805422 CGGTTGTGTTGTACTGCTTTCTA 59.195 43.478 0.00 0.00 0.00 2.10
590 591 4.318546 CGGTTGTGTTGTACTGCTTTCTAC 60.319 45.833 0.00 0.00 0.00 2.59
591 592 4.573201 GGTTGTGTTGTACTGCTTTCTACA 59.427 41.667 0.00 0.00 0.00 2.74
592 593 5.065474 GGTTGTGTTGTACTGCTTTCTACAA 59.935 40.000 0.00 0.00 31.77 2.41
593 594 6.403855 GGTTGTGTTGTACTGCTTTCTACAAA 60.404 38.462 0.00 0.00 35.22 2.83
594 595 6.745159 TGTGTTGTACTGCTTTCTACAAAA 57.255 33.333 0.00 0.00 35.22 2.44
595 596 6.548171 TGTGTTGTACTGCTTTCTACAAAAC 58.452 36.000 4.55 4.55 39.83 2.43
596 597 6.149640 TGTGTTGTACTGCTTTCTACAAAACA 59.850 34.615 8.75 8.75 43.87 2.83
597 598 7.024768 GTGTTGTACTGCTTTCTACAAAACAA 58.975 34.615 6.14 0.00 39.45 2.83
598 599 7.218204 GTGTTGTACTGCTTTCTACAAAACAAG 59.782 37.037 6.14 0.00 39.45 3.16
599 600 6.995511 TGTACTGCTTTCTACAAAACAAGT 57.004 33.333 0.00 0.00 0.00 3.16
600 601 7.385778 TGTACTGCTTTCTACAAAACAAGTT 57.614 32.000 0.00 0.00 0.00 2.66
601 602 8.495361 TGTACTGCTTTCTACAAAACAAGTTA 57.505 30.769 0.00 0.00 0.00 2.24
602 603 8.392612 TGTACTGCTTTCTACAAAACAAGTTAC 58.607 33.333 0.00 0.00 0.00 2.50
603 604 6.483687 ACTGCTTTCTACAAAACAAGTTACG 58.516 36.000 0.00 0.00 0.00 3.18
604 605 5.812652 TGCTTTCTACAAAACAAGTTACGG 58.187 37.500 0.00 0.00 0.00 4.02
605 606 5.354792 TGCTTTCTACAAAACAAGTTACGGT 59.645 36.000 0.00 0.00 0.00 4.83
606 607 6.127952 TGCTTTCTACAAAACAAGTTACGGTT 60.128 34.615 0.00 0.00 0.00 4.44
607 608 7.065563 TGCTTTCTACAAAACAAGTTACGGTTA 59.934 33.333 0.00 0.00 0.00 2.85
608 609 7.909641 GCTTTCTACAAAACAAGTTACGGTTAA 59.090 33.333 0.00 0.00 0.00 2.01
609 610 9.940166 CTTTCTACAAAACAAGTTACGGTTAAT 57.060 29.630 0.00 0.00 0.00 1.40
626 627 5.301805 CGGTTAATTATCCTTTTGCCCTCAT 59.698 40.000 10.22 0.00 0.00 2.90
878 879 2.182791 CACGGCGACAGAGAGCAT 59.817 61.111 16.62 0.00 34.54 3.79
1048 1049 4.101448 GGATGCAGAGCCGGGTGT 62.101 66.667 12.94 3.04 0.00 4.16
1063 1064 0.036164 GGTGTGTGTGGACATGCCTA 59.964 55.000 7.54 0.00 37.63 3.93
1170 1172 2.771943 AGCGAGAATGGGGTAAGAATCA 59.228 45.455 0.00 0.00 0.00 2.57
1254 1256 1.610038 TGCAGGTGACATGCTTCTTTG 59.390 47.619 23.05 0.00 44.17 2.77
1269 1271 2.582052 TCTTTGTTTGGGTCGATGCTT 58.418 42.857 0.00 0.00 0.00 3.91
1309 1311 2.156917 TGAACTGCAAGAAGAGCATGG 58.843 47.619 0.00 0.00 41.82 3.66
1339 1341 2.741985 CATGCTGCCACGAACGGA 60.742 61.111 0.00 0.00 0.00 4.69
1557 1584 5.128033 TGGAAAGGCATGAATTATGGAGA 57.872 39.130 0.00 0.00 37.26 3.71
1830 1861 2.701951 CTGCATCCAATTAGGCCCATTT 59.298 45.455 0.00 0.00 37.29 2.32
2112 2144 8.034804 AGGGCATTACATTGAGAAAAACATAAC 58.965 33.333 0.00 0.00 0.00 1.89
2232 2266 2.355412 GGTAACCGCTAGGACAAATGGT 60.355 50.000 0.00 0.00 41.02 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 0.458669 CCATCATCTTGCAGCCAACC 59.541 55.000 0.00 0.00 0.00 3.77
24 25 1.741706 AGCGAAACCATCATCTTGCAG 59.258 47.619 0.00 0.00 0.00 4.41
37 38 1.601903 TCAACACCATGTCAGCGAAAC 59.398 47.619 0.00 0.00 0.00 2.78
41 42 1.872952 TCTTTCAACACCATGTCAGCG 59.127 47.619 0.00 0.00 0.00 5.18
42 43 2.880890 ACTCTTTCAACACCATGTCAGC 59.119 45.455 0.00 0.00 0.00 4.26
43 44 3.251729 CCACTCTTTCAACACCATGTCAG 59.748 47.826 0.00 0.00 0.00 3.51
48 49 3.136443 TCTCACCACTCTTTCAACACCAT 59.864 43.478 0.00 0.00 0.00 3.55
55 56 4.890158 TGCTAATCTCACCACTCTTTCA 57.110 40.909 0.00 0.00 0.00 2.69
56 57 4.092091 CGTTGCTAATCTCACCACTCTTTC 59.908 45.833 0.00 0.00 0.00 2.62
66 67 3.031013 TGGATCCTCGTTGCTAATCTCA 58.969 45.455 14.23 0.00 0.00 3.27
72 73 2.950781 AGAGATGGATCCTCGTTGCTA 58.049 47.619 14.23 0.00 35.88 3.49
79 80 5.680594 AATCTGCATAGAGATGGATCCTC 57.319 43.478 14.23 8.14 36.14 3.71
82 83 8.259411 AGATGTAAATCTGCATAGAGATGGATC 58.741 37.037 0.00 0.00 36.14 3.36
126 127 4.458295 TCAAAATACCGTTTGGCCGATTAA 59.542 37.500 0.00 0.00 38.72 1.40
140 141 5.521372 GCTGAGATTTGGCATTCAAAATACC 59.479 40.000 0.00 0.00 46.93 2.73
144 145 4.039488 AGTGCTGAGATTTGGCATTCAAAA 59.961 37.500 0.00 0.00 46.93 2.44
146 147 3.159472 AGTGCTGAGATTTGGCATTCAA 58.841 40.909 0.00 0.00 38.27 2.69
164 165 2.658538 CGAAGATGTGCTCGGAGTG 58.341 57.895 6.90 0.00 0.00 3.51
199 200 3.055591 CTCTTTGGATCATCGACATCCG 58.944 50.000 16.81 6.53 42.69 4.18
205 206 2.679837 GCTTTGCTCTTTGGATCATCGA 59.320 45.455 0.00 0.00 0.00 3.59
220 221 6.237384 CGTATGATCAAAATGAACAGCTTTGC 60.237 38.462 0.00 0.00 32.69 3.68
225 226 5.294306 TCTCCGTATGATCAAAATGAACAGC 59.706 40.000 0.00 0.00 32.69 4.40
226 227 6.908870 TCTCCGTATGATCAAAATGAACAG 57.091 37.500 0.00 0.00 32.69 3.16
262 263 5.954150 AGATGGCCTCAACTGAATAATTGTT 59.046 36.000 3.32 0.00 0.00 2.83
267 268 5.178096 TCAAGATGGCCTCAACTGAATAA 57.822 39.130 3.32 0.00 0.00 1.40
269 270 3.726557 TCAAGATGGCCTCAACTGAAT 57.273 42.857 3.32 0.00 0.00 2.57
294 295 8.755018 CAACCAGTTTTTGACATGATAGAAAAC 58.245 33.333 0.00 10.75 39.33 2.43
304 305 5.167845 GTGTTGACAACCAGTTTTTGACAT 58.832 37.500 15.59 0.00 30.57 3.06
306 307 4.384547 GTGTGTTGACAACCAGTTTTTGAC 59.615 41.667 15.59 4.54 32.49 3.18
316 317 0.182775 AGGGGAGTGTGTTGACAACC 59.817 55.000 15.59 7.71 32.49 3.77
319 320 1.836391 CCAGGGGAGTGTGTTGACA 59.164 57.895 0.00 0.00 0.00 3.58
325 326 0.540365 AATTGTGCCAGGGGAGTGTG 60.540 55.000 0.00 0.00 0.00 3.82
332 333 3.629398 GTGAGATAGAAATTGTGCCAGGG 59.371 47.826 0.00 0.00 0.00 4.45
333 334 4.264253 TGTGAGATAGAAATTGTGCCAGG 58.736 43.478 0.00 0.00 0.00 4.45
337 338 9.608617 CAATCATATGTGAGATAGAAATTGTGC 57.391 33.333 1.90 0.00 37.87 4.57
367 368 0.528684 GCTCGCCCTCATACTGACAC 60.529 60.000 0.00 0.00 0.00 3.67
383 384 7.530426 AACAATGAATATAAGGGGATTGCTC 57.470 36.000 0.00 0.00 0.00 4.26
386 387 7.370383 CGGAAACAATGAATATAAGGGGATTG 58.630 38.462 0.00 0.00 0.00 2.67
393 394 7.379529 GGAACATGCGGAAACAATGAATATAAG 59.620 37.037 0.00 0.00 0.00 1.73
430 431 1.060163 ATACTAAGGGTGGGGCGCAT 61.060 55.000 10.83 0.00 0.00 4.73
432 433 0.981943 ATATACTAAGGGTGGGGCGC 59.018 55.000 0.00 0.00 0.00 6.53
433 434 2.635915 TGAATATACTAAGGGTGGGGCG 59.364 50.000 0.00 0.00 0.00 6.13
453 454 1.608055 TGGCCATGCGGATTCTAATG 58.392 50.000 0.00 0.00 0.00 1.90
454 455 1.956477 GTTGGCCATGCGGATTCTAAT 59.044 47.619 6.09 0.00 0.00 1.73
455 456 1.388547 GTTGGCCATGCGGATTCTAA 58.611 50.000 6.09 0.00 0.00 2.10
456 457 0.465460 GGTTGGCCATGCGGATTCTA 60.465 55.000 6.09 0.00 34.09 2.10
457 458 1.754234 GGTTGGCCATGCGGATTCT 60.754 57.895 6.09 0.00 34.09 2.40
458 459 2.785425 GGGTTGGCCATGCGGATTC 61.785 63.158 6.09 0.00 36.17 2.52
459 460 1.932156 TAGGGTTGGCCATGCGGATT 61.932 55.000 6.09 0.00 36.17 3.01
460 461 1.719063 ATAGGGTTGGCCATGCGGAT 61.719 55.000 6.09 0.00 36.17 4.18
461 462 1.932156 AATAGGGTTGGCCATGCGGA 61.932 55.000 6.09 0.00 36.17 5.54
462 463 1.042559 AAATAGGGTTGGCCATGCGG 61.043 55.000 6.09 0.00 36.17 5.69
463 464 1.608590 CTAAATAGGGTTGGCCATGCG 59.391 52.381 6.09 0.00 36.17 4.73
464 465 1.341209 GCTAAATAGGGTTGGCCATGC 59.659 52.381 6.09 2.08 36.17 4.06
469 470 3.096852 AGTTTGGCTAAATAGGGTTGGC 58.903 45.455 0.00 0.00 34.47 4.52
470 471 7.418337 AAATAGTTTGGCTAAATAGGGTTGG 57.582 36.000 0.00 0.00 32.72 3.77
471 472 9.366216 GAAAAATAGTTTGGCTAAATAGGGTTG 57.634 33.333 0.00 0.00 32.72 3.77
472 473 9.321532 AGAAAAATAGTTTGGCTAAATAGGGTT 57.678 29.630 0.00 0.00 32.72 4.11
473 474 8.895141 AGAAAAATAGTTTGGCTAAATAGGGT 57.105 30.769 0.00 0.00 32.72 4.34
482 483 9.127277 TGTAAGTGTTAGAAAAATAGTTTGGCT 57.873 29.630 0.00 0.00 0.00 4.75
483 484 9.908152 ATGTAAGTGTTAGAAAAATAGTTTGGC 57.092 29.630 0.00 0.00 0.00 4.52
498 499 9.787435 ACAATTTCTTAGTCCATGTAAGTGTTA 57.213 29.630 0.00 0.00 0.00 2.41
499 500 8.691661 ACAATTTCTTAGTCCATGTAAGTGTT 57.308 30.769 0.00 0.00 0.00 3.32
500 501 9.787435 TTACAATTTCTTAGTCCATGTAAGTGT 57.213 29.630 0.00 0.00 30.72 3.55
505 506 9.733556 ACACATTACAATTTCTTAGTCCATGTA 57.266 29.630 0.00 0.00 0.00 2.29
506 507 8.514594 CACACATTACAATTTCTTAGTCCATGT 58.485 33.333 0.00 0.00 0.00 3.21
507 508 8.514594 ACACACATTACAATTTCTTAGTCCATG 58.485 33.333 0.00 0.00 0.00 3.66
508 509 8.635765 ACACACATTACAATTTCTTAGTCCAT 57.364 30.769 0.00 0.00 0.00 3.41
509 510 7.936847 AGACACACATTACAATTTCTTAGTCCA 59.063 33.333 0.00 0.00 0.00 4.02
510 511 8.230486 CAGACACACATTACAATTTCTTAGTCC 58.770 37.037 0.00 0.00 0.00 3.85
511 512 8.988934 TCAGACACACATTACAATTTCTTAGTC 58.011 33.333 0.00 0.00 0.00 2.59
512 513 8.902540 TCAGACACACATTACAATTTCTTAGT 57.097 30.769 0.00 0.00 0.00 2.24
513 514 9.208022 TCTCAGACACACATTACAATTTCTTAG 57.792 33.333 0.00 0.00 0.00 2.18
514 515 9.725019 ATCTCAGACACACATTACAATTTCTTA 57.275 29.630 0.00 0.00 0.00 2.10
515 516 8.627208 ATCTCAGACACACATTACAATTTCTT 57.373 30.769 0.00 0.00 0.00 2.52
516 517 8.509690 CAATCTCAGACACACATTACAATTTCT 58.490 33.333 0.00 0.00 0.00 2.52
517 518 8.292448 ACAATCTCAGACACACATTACAATTTC 58.708 33.333 0.00 0.00 0.00 2.17
518 519 8.169977 ACAATCTCAGACACACATTACAATTT 57.830 30.769 0.00 0.00 0.00 1.82
519 520 7.750229 ACAATCTCAGACACACATTACAATT 57.250 32.000 0.00 0.00 0.00 2.32
520 521 7.750229 AACAATCTCAGACACACATTACAAT 57.250 32.000 0.00 0.00 0.00 2.71
521 522 7.566760 AAACAATCTCAGACACACATTACAA 57.433 32.000 0.00 0.00 0.00 2.41
522 523 7.566760 AAAACAATCTCAGACACACATTACA 57.433 32.000 0.00 0.00 0.00 2.41
523 524 7.915397 ACAAAAACAATCTCAGACACACATTAC 59.085 33.333 0.00 0.00 0.00 1.89
524 525 7.914871 CACAAAAACAATCTCAGACACACATTA 59.085 33.333 0.00 0.00 0.00 1.90
525 526 6.753279 CACAAAAACAATCTCAGACACACATT 59.247 34.615 0.00 0.00 0.00 2.71
526 527 6.095300 TCACAAAAACAATCTCAGACACACAT 59.905 34.615 0.00 0.00 0.00 3.21
527 528 5.414144 TCACAAAAACAATCTCAGACACACA 59.586 36.000 0.00 0.00 0.00 3.72
528 529 5.879237 TCACAAAAACAATCTCAGACACAC 58.121 37.500 0.00 0.00 0.00 3.82
529 530 5.066375 CCTCACAAAAACAATCTCAGACACA 59.934 40.000 0.00 0.00 0.00 3.72
530 531 5.506317 CCCTCACAAAAACAATCTCAGACAC 60.506 44.000 0.00 0.00 0.00 3.67
531 532 4.580167 CCCTCACAAAAACAATCTCAGACA 59.420 41.667 0.00 0.00 0.00 3.41
532 533 4.821805 TCCCTCACAAAAACAATCTCAGAC 59.178 41.667 0.00 0.00 0.00 3.51
533 534 5.047566 TCCCTCACAAAAACAATCTCAGA 57.952 39.130 0.00 0.00 0.00 3.27
534 535 5.772825 TTCCCTCACAAAAACAATCTCAG 57.227 39.130 0.00 0.00 0.00 3.35
535 536 6.729690 ATTTCCCTCACAAAAACAATCTCA 57.270 33.333 0.00 0.00 0.00 3.27
536 537 8.306761 ACATATTTCCCTCACAAAAACAATCTC 58.693 33.333 0.00 0.00 0.00 2.75
537 538 8.090214 CACATATTTCCCTCACAAAAACAATCT 58.910 33.333 0.00 0.00 0.00 2.40
538 539 7.148590 GCACATATTTCCCTCACAAAAACAATC 60.149 37.037 0.00 0.00 0.00 2.67
539 540 6.650390 GCACATATTTCCCTCACAAAAACAAT 59.350 34.615 0.00 0.00 0.00 2.71
540 541 5.988561 GCACATATTTCCCTCACAAAAACAA 59.011 36.000 0.00 0.00 0.00 2.83
541 542 5.510520 GGCACATATTTCCCTCACAAAAACA 60.511 40.000 0.00 0.00 0.00 2.83
542 543 4.929211 GGCACATATTTCCCTCACAAAAAC 59.071 41.667 0.00 0.00 0.00 2.43
543 544 4.837860 AGGCACATATTTCCCTCACAAAAA 59.162 37.500 0.00 0.00 0.00 1.94
544 545 4.415596 AGGCACATATTTCCCTCACAAAA 58.584 39.130 0.00 0.00 0.00 2.44
545 546 4.016444 GAGGCACATATTTCCCTCACAAA 58.984 43.478 0.00 0.00 42.66 2.83
546 547 3.620488 GAGGCACATATTTCCCTCACAA 58.380 45.455 0.00 0.00 42.66 3.33
547 548 2.419990 CGAGGCACATATTTCCCTCACA 60.420 50.000 0.00 0.00 43.15 3.58
548 549 2.213499 CGAGGCACATATTTCCCTCAC 58.787 52.381 0.00 0.00 43.15 3.51
549 550 1.140852 CCGAGGCACATATTTCCCTCA 59.859 52.381 0.00 0.00 43.15 3.86
550 551 1.141053 ACCGAGGCACATATTTCCCTC 59.859 52.381 0.00 0.00 40.33 4.30
551 552 1.213296 ACCGAGGCACATATTTCCCT 58.787 50.000 0.00 0.00 0.00 4.20
552 553 1.676006 CAACCGAGGCACATATTTCCC 59.324 52.381 0.00 0.00 0.00 3.97
553 554 2.097466 CACAACCGAGGCACATATTTCC 59.903 50.000 0.00 0.00 0.00 3.13
554 555 2.747446 ACACAACCGAGGCACATATTTC 59.253 45.455 0.00 0.00 0.00 2.17
555 556 2.790433 ACACAACCGAGGCACATATTT 58.210 42.857 0.00 0.00 0.00 1.40
556 557 2.487762 CAACACAACCGAGGCACATATT 59.512 45.455 0.00 0.00 0.00 1.28
557 558 2.083774 CAACACAACCGAGGCACATAT 58.916 47.619 0.00 0.00 0.00 1.78
558 559 1.202710 ACAACACAACCGAGGCACATA 60.203 47.619 0.00 0.00 0.00 2.29
559 560 0.465460 ACAACACAACCGAGGCACAT 60.465 50.000 0.00 0.00 0.00 3.21
560 561 0.178301 TACAACACAACCGAGGCACA 59.822 50.000 0.00 0.00 0.00 4.57
561 562 0.584876 GTACAACACAACCGAGGCAC 59.415 55.000 0.00 0.00 0.00 5.01
562 563 0.466543 AGTACAACACAACCGAGGCA 59.533 50.000 0.00 0.00 0.00 4.75
563 564 0.865769 CAGTACAACACAACCGAGGC 59.134 55.000 0.00 0.00 0.00 4.70
564 565 0.865769 GCAGTACAACACAACCGAGG 59.134 55.000 0.00 0.00 0.00 4.63
565 566 1.865865 AGCAGTACAACACAACCGAG 58.134 50.000 0.00 0.00 0.00 4.63
566 567 2.319136 AAGCAGTACAACACAACCGA 57.681 45.000 0.00 0.00 0.00 4.69
567 568 2.612212 AGAAAGCAGTACAACACAACCG 59.388 45.455 0.00 0.00 0.00 4.44
568 569 4.573201 TGTAGAAAGCAGTACAACACAACC 59.427 41.667 0.00 0.00 0.00 3.77
569 570 5.728351 TGTAGAAAGCAGTACAACACAAC 57.272 39.130 0.00 0.00 0.00 3.32
570 571 6.745159 TTTGTAGAAAGCAGTACAACACAA 57.255 33.333 0.00 0.00 38.55 3.33
571 572 6.149640 TGTTTTGTAGAAAGCAGTACAACACA 59.850 34.615 9.15 9.15 42.92 3.72
572 573 6.548171 TGTTTTGTAGAAAGCAGTACAACAC 58.452 36.000 0.00 5.11 38.55 3.32
573 574 6.745159 TGTTTTGTAGAAAGCAGTACAACA 57.255 33.333 0.00 0.00 38.55 3.33
574 575 7.248437 ACTTGTTTTGTAGAAAGCAGTACAAC 58.752 34.615 2.29 0.00 38.55 3.32
575 576 7.385778 ACTTGTTTTGTAGAAAGCAGTACAA 57.614 32.000 2.29 1.67 37.36 2.41
576 577 6.995511 ACTTGTTTTGTAGAAAGCAGTACA 57.004 33.333 2.29 0.00 34.25 2.90
577 578 7.581600 CGTAACTTGTTTTGTAGAAAGCAGTAC 59.418 37.037 2.29 6.06 34.25 2.73
578 579 7.254522 CCGTAACTTGTTTTGTAGAAAGCAGTA 60.255 37.037 2.29 0.00 34.25 2.74
579 580 6.457799 CCGTAACTTGTTTTGTAGAAAGCAGT 60.458 38.462 2.29 1.53 34.25 4.40
580 581 5.907391 CCGTAACTTGTTTTGTAGAAAGCAG 59.093 40.000 2.29 1.01 34.25 4.24
581 582 5.354792 ACCGTAACTTGTTTTGTAGAAAGCA 59.645 36.000 0.00 0.00 31.13 3.91
582 583 5.813717 ACCGTAACTTGTTTTGTAGAAAGC 58.186 37.500 0.00 0.00 0.00 3.51
583 584 9.940166 ATTAACCGTAACTTGTTTTGTAGAAAG 57.060 29.630 0.00 0.00 0.00 2.62
589 590 9.070179 AGGATAATTAACCGTAACTTGTTTTGT 57.930 29.630 6.16 0.00 0.00 2.83
590 591 9.902196 AAGGATAATTAACCGTAACTTGTTTTG 57.098 29.630 6.16 0.00 0.00 2.44
593 594 9.902196 CAAAAGGATAATTAACCGTAACTTGTT 57.098 29.630 6.16 0.00 0.00 2.83
594 595 8.024865 GCAAAAGGATAATTAACCGTAACTTGT 58.975 33.333 6.16 0.00 0.00 3.16
595 596 7.486870 GGCAAAAGGATAATTAACCGTAACTTG 59.513 37.037 6.16 6.28 0.00 3.16
596 597 7.363181 GGGCAAAAGGATAATTAACCGTAACTT 60.363 37.037 6.16 0.00 0.00 2.66
597 598 6.095860 GGGCAAAAGGATAATTAACCGTAACT 59.904 38.462 6.16 0.00 0.00 2.24
598 599 6.095860 AGGGCAAAAGGATAATTAACCGTAAC 59.904 38.462 6.16 0.00 0.00 2.50
599 600 6.189133 AGGGCAAAAGGATAATTAACCGTAA 58.811 36.000 6.16 0.00 0.00 3.18
600 601 5.757988 AGGGCAAAAGGATAATTAACCGTA 58.242 37.500 6.16 0.00 0.00 4.02
601 602 4.606210 AGGGCAAAAGGATAATTAACCGT 58.394 39.130 6.16 0.39 0.00 4.83
602 603 4.642885 TGAGGGCAAAAGGATAATTAACCG 59.357 41.667 6.16 0.00 0.00 4.44
603 604 6.731292 ATGAGGGCAAAAGGATAATTAACC 57.269 37.500 3.60 3.60 0.00 2.85
604 605 7.814587 GCATATGAGGGCAAAAGGATAATTAAC 59.185 37.037 6.97 0.00 0.00 2.01
605 606 7.309133 CGCATATGAGGGCAAAAGGATAATTAA 60.309 37.037 6.97 0.00 0.00 1.40
606 607 6.150976 CGCATATGAGGGCAAAAGGATAATTA 59.849 38.462 6.97 0.00 0.00 1.40
607 608 5.047802 CGCATATGAGGGCAAAAGGATAATT 60.048 40.000 6.97 0.00 0.00 1.40
608 609 4.460382 CGCATATGAGGGCAAAAGGATAAT 59.540 41.667 6.97 0.00 0.00 1.28
609 610 3.820467 CGCATATGAGGGCAAAAGGATAA 59.180 43.478 6.97 0.00 0.00 1.75
610 611 3.072330 TCGCATATGAGGGCAAAAGGATA 59.928 43.478 6.97 0.00 0.00 2.59
611 612 2.158623 TCGCATATGAGGGCAAAAGGAT 60.159 45.455 6.97 0.00 0.00 3.24
612 613 1.211703 TCGCATATGAGGGCAAAAGGA 59.788 47.619 6.97 0.00 0.00 3.36
613 614 1.679139 TCGCATATGAGGGCAAAAGG 58.321 50.000 6.97 0.00 0.00 3.11
614 615 3.996150 ATTCGCATATGAGGGCAAAAG 57.004 42.857 6.97 0.00 0.00 2.27
626 627 4.475028 CAAAACTGAGCACAATTCGCATA 58.525 39.130 0.00 0.00 0.00 3.14
804 805 0.392193 CCAACGGCTCTCTGCTCAAT 60.392 55.000 0.00 0.00 42.39 2.57
892 893 2.403378 GCCGTGCTCTCTCTCTCGT 61.403 63.158 0.00 0.00 0.00 4.18
1046 1047 1.908619 AGATAGGCATGTCCACACACA 59.091 47.619 8.58 0.00 34.48 3.72
1048 1049 2.418609 CGAAGATAGGCATGTCCACACA 60.419 50.000 8.58 0.00 37.29 3.72
1063 1064 2.341101 ACCGCGGACAGACGAAGAT 61.341 57.895 35.90 0.00 35.47 2.40
1170 1172 1.338011 CGAAAATGGTGCAATTGCCCT 60.338 47.619 26.94 11.63 41.18 5.19
1254 1256 0.388520 GCCAAAGCATCGACCCAAAC 60.389 55.000 0.00 0.00 39.53 2.93
1269 1271 3.009363 TCATTCATCAGAGTCTTGGCCAA 59.991 43.478 19.25 19.25 0.00 4.52
1309 1311 0.524816 CAGCATGCGCAACCATTCTC 60.525 55.000 17.11 0.00 42.27 2.87
1424 1426 5.941788 TCAAGCTTCCTAACCTTCTTCTTT 58.058 37.500 0.00 0.00 0.00 2.52
1798 1829 0.544833 TGGATGCAGTTGGCCCATTT 60.545 50.000 0.00 0.00 43.89 2.32
1830 1861 4.563140 AAAATACGCAAGAGAACCCCTA 57.437 40.909 0.00 0.00 43.62 3.53
1907 1939 6.831353 TCCGGAATAATTCAATTAGCTTCCAA 59.169 34.615 17.30 6.81 35.25 3.53
2232 2266 4.431378 TCCCTACCCATGTCAAAGTCTTA 58.569 43.478 0.00 0.00 0.00 2.10
2298 2335 3.684788 GCAAACATTCACGGTCTCACTAT 59.315 43.478 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.