Multiple sequence alignment - TraesCS7D01G294100

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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 TraesCS7D01G294100 chr7D 100.000 5624 0 0 1 5624 365323424 365317801 0.000000e+00 10386.0
1 TraesCS7D01G294100 chr7D 78.441 603 120 10 1795 2390 608479282 608478683 8.840000e-103 385.0
2 TraesCS7D01G294100 chr7D 80.645 248 35 8 3530 3769 561513477 561513235 4.480000e-41 180.0
3 TraesCS7D01G294100 chr7B 96.965 3591 78 14 2046 5624 321337773 321341344 0.000000e+00 5999.0
4 TraesCS7D01G294100 chr7B 92.677 1188 69 14 735 1914 321336601 321337778 0.000000e+00 1696.0
5 TraesCS7D01G294100 chr7B 81.232 357 47 9 1 342 321333647 321333998 2.580000e-68 270.0
6 TraesCS7D01G294100 chr7B 81.944 288 49 3 1793 2079 613188860 613189145 2.020000e-59 241.0
7 TraesCS7D01G294100 chr7B 79.167 240 30 8 3534 3771 158367095 158366874 1.260000e-31 148.0
8 TraesCS7D01G294100 chr7A 95.860 2512 64 17 990 3474 403197889 403195391 0.000000e+00 4026.0
9 TraesCS7D01G294100 chr7A 94.692 1526 59 9 4112 5624 403195393 403193877 0.000000e+00 2350.0
10 TraesCS7D01G294100 chr7A 89.136 359 25 5 10 355 403200001 403199644 8.650000e-118 435.0
11 TraesCS7D01G294100 chr4A 91.273 275 19 1 463 732 702293119 702293393 2.470000e-98 370.0
12 TraesCS7D01G294100 chr4A 76.294 599 115 20 1799 2379 67295542 67296131 1.530000e-75 294.0
13 TraesCS7D01G294100 chr4A 79.137 278 39 12 6 277 719903700 719903964 2.080000e-39 174.0
14 TraesCS7D01G294100 chr4B 77.759 607 118 16 1794 2390 95444570 95445169 1.930000e-94 357.0
15 TraesCS7D01G294100 chr6D 88.448 277 27 1 463 734 312621527 312621251 4.200000e-86 329.0
16 TraesCS7D01G294100 chr5B 87.259 259 28 1 481 734 286875804 286876062 1.980000e-74 291.0
17 TraesCS7D01G294100 chr5B 81.041 269 25 13 3528 3774 326916406 326916142 2.070000e-44 191.0
18 TraesCS7D01G294100 chr4D 75.655 534 114 16 1799 2322 40821753 40821226 9.350000e-63 252.0
19 TraesCS7D01G294100 chr2A 78.075 374 76 6 1792 2161 691102463 691102834 1.220000e-56 231.0
20 TraesCS7D01G294100 chr2A 81.569 255 21 13 3527 3762 324633550 324633797 2.680000e-43 187.0
21 TraesCS7D01G294100 chr3B 82.661 248 28 7 3531 3769 434055038 434054797 7.390000e-49 206.0
22 TraesCS7D01G294100 chr3B 78.593 327 51 14 1794 2109 166158882 166158564 1.240000e-46 198.0
23 TraesCS7D01G294100 chr1D 81.679 262 26 9 3528 3767 63609094 63609355 1.240000e-46 198.0
24 TraesCS7D01G294100 chr1D 82.759 174 23 4 3527 3693 39956461 39956634 1.260000e-31 148.0
25 TraesCS7D01G294100 chr1D 89.412 85 5 3 3688 3769 39956545 39956462 2.770000e-18 104.0
26 TraesCS7D01G294100 chr1B 81.538 260 26 8 3527 3767 104349626 104349882 1.600000e-45 195.0
27 TraesCS7D01G294100 chr3A 80.556 252 38 9 3528 3769 186047522 186047772 3.460000e-42 183.0
28 TraesCS7D01G294100 chr3A 80.620 258 30 11 3531 3769 453656396 453656140 1.240000e-41 182.0
29 TraesCS7D01G294100 chr3D 80.620 258 31 10 3531 3769 335667495 335667238 1.240000e-41 182.0
30 TraesCS7D01G294100 chr3D 85.870 92 8 4 3685 3772 178651986 178652076 6.000000e-15 93.5
31 TraesCS7D01G294100 chr2D 79.562 274 28 13 3527 3780 218020932 218020667 2.690000e-38 171.0
32 TraesCS7D01G294100 chr2D 76.863 255 48 10 2133 2380 71583036 71582786 3.530000e-27 134.0
33 TraesCS7D01G294100 chr2D 72.008 493 112 23 1899 2377 37476981 37476501 7.650000e-24 122.0
34 TraesCS7D01G294100 chr5D 78.161 261 38 11 3528 3769 267617696 267617436 1.260000e-31 148.0
35 TraesCS7D01G294100 chr5A 87.912 91 7 2 3687 3774 380222975 380222886 2.770000e-18 104.0
36 TraesCS7D01G294100 chr6A 85.263 95 12 2 2298 2392 529603904 529603812 4.640000e-16 97.1
37 TraesCS7D01G294100 chrUn 77.124 153 28 6 2185 2332 19252807 19252957 1.300000e-11 82.4


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 TraesCS7D01G294100 chr7D 365317801 365323424 5623 True 10386.000000 10386 100.000000 1 5624 1 chr7D.!!$R1 5623
1 TraesCS7D01G294100 chr7D 608478683 608479282 599 True 385.000000 385 78.441000 1795 2390 1 chr7D.!!$R3 595
2 TraesCS7D01G294100 chr7B 321333647 321341344 7697 False 2655.000000 5999 90.291333 1 5624 3 chr7B.!!$F2 5623
3 TraesCS7D01G294100 chr7A 403193877 403200001 6124 True 2270.333333 4026 93.229333 10 5624 3 chr7A.!!$R1 5614
4 TraesCS7D01G294100 chr4A 67295542 67296131 589 False 294.000000 294 76.294000 1799 2379 1 chr4A.!!$F1 580
5 TraesCS7D01G294100 chr4B 95444570 95445169 599 False 357.000000 357 77.759000 1794 2390 1 chr4B.!!$F1 596
6 TraesCS7D01G294100 chr4D 40821226 40821753 527 True 252.000000 252 75.655000 1799 2322 1 chr4D.!!$R1 523

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
636 3603 0.030369 CCGAGTGGATGCCTACGTAC 59.970 60.000 0.00 0.0 37.49 3.67 F
654 3621 0.036306 ACAAAGCGTTGGAGGTAGGG 59.964 55.000 16.80 0.0 39.22 3.53 F
712 3679 0.179056 TTACTATCCAAGCGCCAGGC 60.179 55.000 2.29 0.0 44.05 4.85 F
2214 5560 1.215647 GATCGCCGAACAGACCACT 59.784 57.895 0.00 0.0 0.00 4.00 F
2719 6070 0.393820 CCAAACTGCCACTTGCCATT 59.606 50.000 0.00 0.0 40.16 3.16 F
2952 6303 1.220206 CATCACGGAGGAGCAGCTT 59.780 57.895 0.00 0.0 0.00 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2214 5560 1.900981 CAACGATGGTGGGTGGCAA 60.901 57.895 0.00 0.0 0.00 4.52 R
2415 5765 4.702081 GTCGTCGCAGTGGTCGCT 62.702 66.667 0.00 0.0 0.00 4.93 R
2690 6041 1.529244 GCAGTTTGGTGGTCTGGCT 60.529 57.895 0.00 0.0 0.00 4.75 R
3884 7256 6.235664 TGGGAGAAACCAAAAGTCATACTAC 58.764 40.000 0.00 0.0 41.20 2.73 R
4327 7700 1.548081 TTGGTGGCACCTCATTGATG 58.452 50.000 34.69 0.0 39.58 3.07 R
4651 8026 2.585330 TGCAGCAACTCCAAATTCTGA 58.415 42.857 0.00 0.0 0.00 3.27 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
29 31 4.586841 TCCAAATTTGTTCTCCGTTCCAAT 59.413 37.500 16.73 0.00 0.00 3.16
33 35 7.201688 CCAAATTTGTTCTCCGTTCCAATTTTT 60.202 33.333 16.73 0.00 0.00 1.94
234 245 3.199677 TGTCAAACAGTGTTAAGTCCGG 58.800 45.455 9.37 0.00 0.00 5.14
239 250 4.942761 AACAGTGTTAAGTCCGGAACTA 57.057 40.909 5.23 0.00 37.17 2.24
253 264 7.545489 AGTCCGGAACTATACTTAGTTTCTTG 58.455 38.462 5.23 0.00 46.32 3.02
371 469 4.326278 CGCTACGTGTATTTGTCACAGAAT 59.674 41.667 0.00 0.00 35.79 2.40
373 471 4.404507 ACGTGTATTTGTCACAGAATGC 57.595 40.909 0.00 0.00 42.53 3.56
378 476 0.592637 TTTGTCACAGAATGCGGCAG 59.407 50.000 9.25 0.00 42.53 4.85
390 488 2.189521 CGGCAGCGTCCCCTATTT 59.810 61.111 0.00 0.00 0.00 1.40
391 489 2.180204 CGGCAGCGTCCCCTATTTG 61.180 63.158 0.00 0.00 0.00 2.32
393 491 1.452108 GCAGCGTCCCCTATTTGCT 60.452 57.895 0.00 0.00 36.05 3.91
395 493 1.452108 AGCGTCCCCTATTTGCTGC 60.452 57.895 0.00 0.00 33.99 5.25
396 494 1.748879 GCGTCCCCTATTTGCTGCA 60.749 57.895 0.00 0.00 0.00 4.41
398 496 0.107703 CGTCCCCTATTTGCTGCAGA 60.108 55.000 20.43 0.00 0.00 4.26
399 497 1.678728 CGTCCCCTATTTGCTGCAGAA 60.679 52.381 20.43 2.96 0.00 3.02
437 3404 0.383231 CCGTTAACGAGCTCCCGTAT 59.617 55.000 28.79 0.00 42.54 3.06
481 3448 3.200522 GGCACCTACAATGCAGGC 58.799 61.111 0.00 0.00 45.27 4.85
482 3449 2.764314 GGCACCTACAATGCAGGCG 61.764 63.158 0.00 0.00 45.27 5.52
483 3450 1.745115 GCACCTACAATGCAGGCGA 60.745 57.895 0.00 0.00 42.88 5.54
484 3451 1.097547 GCACCTACAATGCAGGCGAT 61.098 55.000 0.00 0.00 42.88 4.58
485 3452 1.810031 GCACCTACAATGCAGGCGATA 60.810 52.381 0.00 0.00 42.88 2.92
486 3453 2.560504 CACCTACAATGCAGGCGATAA 58.439 47.619 0.00 0.00 36.57 1.75
487 3454 2.545526 CACCTACAATGCAGGCGATAAG 59.454 50.000 0.00 0.00 36.57 1.73
488 3455 2.146342 CCTACAATGCAGGCGATAAGG 58.854 52.381 0.00 0.00 0.00 2.69
489 3456 2.224281 CCTACAATGCAGGCGATAAGGA 60.224 50.000 0.00 0.00 0.00 3.36
490 3457 1.668419 ACAATGCAGGCGATAAGGAC 58.332 50.000 0.00 0.00 0.00 3.85
491 3458 0.947244 CAATGCAGGCGATAAGGACC 59.053 55.000 0.00 0.00 0.00 4.46
492 3459 0.532862 AATGCAGGCGATAAGGACCG 60.533 55.000 0.00 0.00 0.00 4.79
493 3460 1.399744 ATGCAGGCGATAAGGACCGA 61.400 55.000 0.00 0.00 0.00 4.69
494 3461 1.367840 GCAGGCGATAAGGACCGAT 59.632 57.895 0.00 0.00 0.00 4.18
495 3462 0.946221 GCAGGCGATAAGGACCGATG 60.946 60.000 0.00 0.00 0.00 3.84
496 3463 0.946221 CAGGCGATAAGGACCGATGC 60.946 60.000 0.00 0.00 0.00 3.91
497 3464 1.668151 GGCGATAAGGACCGATGCC 60.668 63.158 0.00 1.47 0.00 4.40
498 3465 1.069090 GCGATAAGGACCGATGCCA 59.931 57.895 0.00 0.00 0.00 4.92
499 3466 0.946221 GCGATAAGGACCGATGCCAG 60.946 60.000 0.00 0.00 0.00 4.85
500 3467 0.319900 CGATAAGGACCGATGCCAGG 60.320 60.000 0.00 0.00 0.00 4.45
501 3468 0.035458 GATAAGGACCGATGCCAGGG 59.965 60.000 0.00 0.00 0.00 4.45
502 3469 0.694444 ATAAGGACCGATGCCAGGGT 60.694 55.000 0.00 0.00 39.83 4.34
503 3470 1.622607 TAAGGACCGATGCCAGGGTG 61.623 60.000 0.00 0.00 36.46 4.61
504 3471 4.489771 GGACCGATGCCAGGGTGG 62.490 72.222 0.00 0.00 41.55 4.61
505 3472 4.489771 GACCGATGCCAGGGTGGG 62.490 72.222 0.00 0.00 38.19 4.61
507 3474 3.727258 CCGATGCCAGGGTGGGAA 61.727 66.667 0.00 0.00 42.59 3.97
508 3475 2.597340 CGATGCCAGGGTGGGAAT 59.403 61.111 0.00 0.00 42.59 3.01
509 3476 1.526917 CGATGCCAGGGTGGGAATC 60.527 63.158 0.00 0.00 42.59 2.52
510 3477 1.152673 GATGCCAGGGTGGGAATCC 60.153 63.158 0.00 0.00 42.59 3.01
511 3478 1.623686 ATGCCAGGGTGGGAATCCT 60.624 57.895 0.00 0.00 42.59 3.24
512 3479 1.941403 ATGCCAGGGTGGGAATCCTG 61.941 60.000 0.00 0.00 42.59 3.86
515 3482 4.171186 AGGGTGGGAATCCTGACC 57.829 61.111 11.20 11.20 31.11 4.02
516 3483 1.995626 AGGGTGGGAATCCTGACCG 60.996 63.158 12.71 0.00 30.26 4.79
517 3484 2.298661 GGGTGGGAATCCTGACCGT 61.299 63.158 12.71 0.00 30.26 4.83
518 3485 1.221021 GGTGGGAATCCTGACCGTC 59.779 63.158 0.00 0.00 0.00 4.79
519 3486 1.265454 GGTGGGAATCCTGACCGTCT 61.265 60.000 0.00 0.00 0.00 4.18
520 3487 0.613777 GTGGGAATCCTGACCGTCTT 59.386 55.000 0.00 0.00 0.00 3.01
521 3488 0.613260 TGGGAATCCTGACCGTCTTG 59.387 55.000 0.00 0.00 0.00 3.02
522 3489 0.107654 GGGAATCCTGACCGTCTTGG 60.108 60.000 0.00 2.75 46.41 3.61
523 3490 0.107654 GGAATCCTGACCGTCTTGGG 60.108 60.000 0.00 0.36 44.64 4.12
530 3497 4.415783 ACCGTCTTGGGCAATTCC 57.584 55.556 0.00 0.00 44.64 3.01
539 3506 3.841870 GGCAATTCCCACCCGATC 58.158 61.111 0.00 0.00 0.00 3.69
540 3507 1.828224 GGCAATTCCCACCCGATCC 60.828 63.158 0.00 0.00 0.00 3.36
541 3508 1.227383 GCAATTCCCACCCGATCCT 59.773 57.895 0.00 0.00 0.00 3.24
542 3509 1.103398 GCAATTCCCACCCGATCCTG 61.103 60.000 0.00 0.00 0.00 3.86
543 3510 0.466189 CAATTCCCACCCGATCCTGG 60.466 60.000 0.00 0.00 0.00 4.45
553 3520 1.767759 CCGATCCTGGGAAAATTGCT 58.232 50.000 0.00 0.00 0.00 3.91
554 3521 2.102578 CCGATCCTGGGAAAATTGCTT 58.897 47.619 0.00 0.00 0.00 3.91
555 3522 2.159198 CCGATCCTGGGAAAATTGCTTG 60.159 50.000 0.00 0.00 0.00 4.01
556 3523 2.736400 CGATCCTGGGAAAATTGCTTGC 60.736 50.000 0.00 0.00 0.00 4.01
557 3524 0.602562 TCCTGGGAAAATTGCTTGCG 59.397 50.000 0.00 0.00 0.00 4.85
558 3525 0.318120 CCTGGGAAAATTGCTTGCGT 59.682 50.000 0.00 0.00 0.00 5.24
559 3526 1.669795 CCTGGGAAAATTGCTTGCGTC 60.670 52.381 0.00 0.00 0.00 5.19
560 3527 0.039617 TGGGAAAATTGCTTGCGTCG 60.040 50.000 0.00 0.00 0.00 5.12
561 3528 0.239879 GGGAAAATTGCTTGCGTCGA 59.760 50.000 0.00 0.00 0.00 4.20
562 3529 1.135402 GGGAAAATTGCTTGCGTCGAT 60.135 47.619 0.00 0.00 0.00 3.59
563 3530 1.913403 GGAAAATTGCTTGCGTCGATG 59.087 47.619 0.00 0.00 0.00 3.84
564 3531 1.318491 GAAAATTGCTTGCGTCGATGC 59.682 47.619 22.77 22.77 0.00 3.91
565 3532 0.456653 AAATTGCTTGCGTCGATGCC 60.457 50.000 26.06 11.91 0.00 4.40
566 3533 1.585267 AATTGCTTGCGTCGATGCCA 61.585 50.000 26.06 15.09 0.00 4.92
567 3534 1.985447 ATTGCTTGCGTCGATGCCAG 61.985 55.000 26.06 24.33 0.00 4.85
568 3535 2.815211 GCTTGCGTCGATGCCAGA 60.815 61.111 29.24 14.34 29.50 3.86
569 3536 3.084579 CTTGCGTCGATGCCAGAC 58.915 61.111 26.06 0.00 35.41 3.51
575 3542 3.938653 GTCGATGCCAGACGTATCA 57.061 52.632 0.00 0.00 33.44 2.15
576 3543 2.423926 GTCGATGCCAGACGTATCAT 57.576 50.000 0.00 0.00 33.44 2.45
577 3544 2.320367 GTCGATGCCAGACGTATCATC 58.680 52.381 2.62 2.62 33.44 2.92
579 3546 1.702886 GATGCCAGACGTATCATCGG 58.297 55.000 0.00 0.00 33.99 4.18
580 3547 0.318441 ATGCCAGACGTATCATCGGG 59.682 55.000 0.00 0.00 34.81 5.14
581 3548 4.655527 CCAGACGTATCATCGGGC 57.344 61.111 0.00 0.00 34.94 6.13
582 3549 1.371758 CCAGACGTATCATCGGGCG 60.372 63.158 0.00 0.00 34.94 6.13
583 3550 2.016704 CAGACGTATCATCGGGCGC 61.017 63.158 0.00 0.00 34.94 6.53
584 3551 2.194212 AGACGTATCATCGGGCGCT 61.194 57.895 7.64 0.00 34.94 5.92
585 3552 1.299926 GACGTATCATCGGGCGCTT 60.300 57.895 7.64 0.00 34.94 4.68
586 3553 1.276145 GACGTATCATCGGGCGCTTC 61.276 60.000 7.64 0.00 34.94 3.86
587 3554 1.299850 CGTATCATCGGGCGCTTCA 60.300 57.895 7.64 0.00 0.00 3.02
588 3555 1.278172 CGTATCATCGGGCGCTTCAG 61.278 60.000 7.64 0.00 0.00 3.02
589 3556 0.249489 GTATCATCGGGCGCTTCAGT 60.249 55.000 7.64 0.00 0.00 3.41
590 3557 0.464036 TATCATCGGGCGCTTCAGTT 59.536 50.000 7.64 0.00 0.00 3.16
591 3558 0.392998 ATCATCGGGCGCTTCAGTTT 60.393 50.000 7.64 0.00 0.00 2.66
592 3559 0.605319 TCATCGGGCGCTTCAGTTTT 60.605 50.000 7.64 0.00 0.00 2.43
593 3560 0.240945 CATCGGGCGCTTCAGTTTTT 59.759 50.000 7.64 0.00 0.00 1.94
610 3577 3.322230 TTTTTCGTCGTGTAAACTGGC 57.678 42.857 0.00 0.00 0.00 4.85
611 3578 1.937278 TTTCGTCGTGTAAACTGGCA 58.063 45.000 0.00 0.00 0.00 4.92
612 3579 2.157834 TTCGTCGTGTAAACTGGCAT 57.842 45.000 0.00 0.00 0.00 4.40
613 3580 3.300852 TTCGTCGTGTAAACTGGCATA 57.699 42.857 0.00 0.00 0.00 3.14
614 3581 2.871133 TCGTCGTGTAAACTGGCATAG 58.129 47.619 0.00 0.00 0.00 2.23
615 3582 2.488937 TCGTCGTGTAAACTGGCATAGA 59.511 45.455 0.00 0.00 0.00 1.98
616 3583 2.597305 CGTCGTGTAAACTGGCATAGAC 59.403 50.000 0.00 0.00 0.00 2.59
617 3584 2.928116 GTCGTGTAAACTGGCATAGACC 59.072 50.000 0.00 0.00 0.00 3.85
618 3585 2.093869 TCGTGTAAACTGGCATAGACCC 60.094 50.000 0.00 0.00 0.00 4.46
619 3586 2.277084 GTGTAAACTGGCATAGACCCG 58.723 52.381 0.00 0.00 0.00 5.28
620 3587 2.093869 GTGTAAACTGGCATAGACCCGA 60.094 50.000 0.00 0.00 0.00 5.14
621 3588 2.167693 TGTAAACTGGCATAGACCCGAG 59.832 50.000 0.00 0.00 0.00 4.63
622 3589 1.276622 AAACTGGCATAGACCCGAGT 58.723 50.000 0.00 0.00 0.00 4.18
623 3590 0.537188 AACTGGCATAGACCCGAGTG 59.463 55.000 0.00 0.00 0.00 3.51
624 3591 1.330655 ACTGGCATAGACCCGAGTGG 61.331 60.000 0.00 0.00 41.37 4.00
625 3592 1.001120 TGGCATAGACCCGAGTGGA 59.999 57.895 0.00 0.00 37.49 4.02
626 3593 0.398522 TGGCATAGACCCGAGTGGAT 60.399 55.000 0.00 0.00 37.49 3.41
627 3594 0.034059 GGCATAGACCCGAGTGGATG 59.966 60.000 0.00 0.00 37.49 3.51
628 3595 0.601311 GCATAGACCCGAGTGGATGC 60.601 60.000 0.00 0.00 37.49 3.91
629 3596 0.034059 CATAGACCCGAGTGGATGCC 59.966 60.000 0.00 0.00 37.49 4.40
630 3597 0.105453 ATAGACCCGAGTGGATGCCT 60.105 55.000 0.00 0.00 37.49 4.75
631 3598 0.554305 TAGACCCGAGTGGATGCCTA 59.446 55.000 0.00 0.00 37.49 3.93
632 3599 1.043673 AGACCCGAGTGGATGCCTAC 61.044 60.000 0.00 0.00 37.49 3.18
633 3600 2.351336 GACCCGAGTGGATGCCTACG 62.351 65.000 0.00 0.00 37.49 3.51
634 3601 2.423898 CCCGAGTGGATGCCTACGT 61.424 63.158 0.00 0.00 37.49 3.57
635 3602 1.105167 CCCGAGTGGATGCCTACGTA 61.105 60.000 0.00 0.00 37.49 3.57
636 3603 0.030369 CCGAGTGGATGCCTACGTAC 59.970 60.000 0.00 0.00 37.49 3.67
637 3604 0.736636 CGAGTGGATGCCTACGTACA 59.263 55.000 0.00 0.00 0.00 2.90
638 3605 1.133598 CGAGTGGATGCCTACGTACAA 59.866 52.381 0.00 0.00 0.00 2.41
639 3606 2.416296 CGAGTGGATGCCTACGTACAAA 60.416 50.000 0.00 0.00 0.00 2.83
640 3607 3.187700 GAGTGGATGCCTACGTACAAAG 58.812 50.000 0.00 0.00 0.00 2.77
641 3608 1.664151 GTGGATGCCTACGTACAAAGC 59.336 52.381 0.00 0.00 0.00 3.51
642 3609 0.928229 GGATGCCTACGTACAAAGCG 59.072 55.000 0.00 0.00 0.00 4.68
643 3610 1.636988 GATGCCTACGTACAAAGCGT 58.363 50.000 0.00 0.00 45.11 5.07
644 3611 1.997606 GATGCCTACGTACAAAGCGTT 59.002 47.619 0.00 0.00 42.85 4.84
645 3612 1.141645 TGCCTACGTACAAAGCGTTG 58.858 50.000 11.02 11.02 42.85 4.10
649 3616 1.990563 CTACGTACAAAGCGTTGGAGG 59.009 52.381 16.80 15.65 42.85 4.30
650 3617 0.105408 ACGTACAAAGCGTTGGAGGT 59.895 50.000 15.85 15.85 40.97 3.85
651 3618 1.340889 ACGTACAAAGCGTTGGAGGTA 59.659 47.619 19.32 0.00 43.34 3.08
652 3619 1.990563 CGTACAAAGCGTTGGAGGTAG 59.009 52.381 16.80 0.00 39.22 3.18
653 3620 2.344025 GTACAAAGCGTTGGAGGTAGG 58.656 52.381 16.80 0.00 39.22 3.18
654 3621 0.036306 ACAAAGCGTTGGAGGTAGGG 59.964 55.000 16.80 0.00 39.22 3.53
655 3622 0.323629 CAAAGCGTTGGAGGTAGGGA 59.676 55.000 4.26 0.00 0.00 4.20
656 3623 0.323957 AAAGCGTTGGAGGTAGGGAC 59.676 55.000 0.00 0.00 0.00 4.46
657 3624 1.885163 AAGCGTTGGAGGTAGGGACG 61.885 60.000 0.00 0.00 36.85 4.79
658 3625 2.183555 CGTTGGAGGTAGGGACGC 59.816 66.667 0.00 0.00 0.00 5.19
659 3626 2.348888 CGTTGGAGGTAGGGACGCT 61.349 63.158 0.00 0.00 0.00 5.07
660 3627 1.033746 CGTTGGAGGTAGGGACGCTA 61.034 60.000 0.00 0.00 0.00 4.26
661 3628 1.188863 GTTGGAGGTAGGGACGCTAA 58.811 55.000 0.03 0.00 0.00 3.09
662 3629 1.136500 GTTGGAGGTAGGGACGCTAAG 59.864 57.143 0.03 0.00 0.00 2.18
663 3630 1.041447 TGGAGGTAGGGACGCTAAGC 61.041 60.000 0.03 0.00 0.00 3.09
664 3631 1.041447 GGAGGTAGGGACGCTAAGCA 61.041 60.000 0.03 0.00 0.00 3.91
665 3632 0.386113 GAGGTAGGGACGCTAAGCAG 59.614 60.000 0.03 0.00 0.00 4.24
666 3633 1.043673 AGGTAGGGACGCTAAGCAGG 61.044 60.000 0.03 0.00 0.00 4.85
667 3634 1.227292 GTAGGGACGCTAAGCAGGC 60.227 63.158 0.03 0.00 0.00 4.85
682 3649 3.923017 GCAGGCGCTTATCCATAAATT 57.077 42.857 7.64 0.00 34.30 1.82
683 3650 4.243007 GCAGGCGCTTATCCATAAATTT 57.757 40.909 7.64 0.00 34.30 1.82
684 3651 5.371115 GCAGGCGCTTATCCATAAATTTA 57.629 39.130 7.64 0.00 34.30 1.40
685 3652 5.954335 GCAGGCGCTTATCCATAAATTTAT 58.046 37.500 7.64 4.81 34.30 1.40
686 3653 6.389906 GCAGGCGCTTATCCATAAATTTATT 58.610 36.000 7.64 0.00 34.30 1.40
687 3654 6.868339 GCAGGCGCTTATCCATAAATTTATTT 59.132 34.615 7.64 0.06 34.30 1.40
688 3655 7.384932 GCAGGCGCTTATCCATAAATTTATTTT 59.615 33.333 7.64 0.00 34.30 1.82
689 3656 9.260002 CAGGCGCTTATCCATAAATTTATTTTT 57.740 29.630 7.64 0.00 0.00 1.94
708 3675 9.738832 TTATTTTTAATTTACTATCCAAGCGCC 57.261 29.630 2.29 0.00 0.00 6.53
709 3676 6.761099 TTTTAATTTACTATCCAAGCGCCA 57.239 33.333 2.29 0.00 0.00 5.69
710 3677 6.371809 TTTAATTTACTATCCAAGCGCCAG 57.628 37.500 2.29 0.00 0.00 4.85
711 3678 2.325583 TTTACTATCCAAGCGCCAGG 57.674 50.000 2.29 6.58 0.00 4.45
712 3679 0.179056 TTACTATCCAAGCGCCAGGC 60.179 55.000 2.29 0.00 44.05 4.85
730 3697 4.166011 GCCTCGCGTTGGTGATGC 62.166 66.667 18.60 0.00 37.20 3.91
731 3698 3.499737 CCTCGCGTTGGTGATGCC 61.500 66.667 5.77 0.00 36.93 4.40
732 3699 3.499737 CTCGCGTTGGTGATGCCC 61.500 66.667 5.77 0.00 36.93 5.36
733 3700 3.958147 CTCGCGTTGGTGATGCCCT 62.958 63.158 5.77 0.00 36.93 5.19
734 3701 3.803082 CGCGTTGGTGATGCCCTG 61.803 66.667 0.00 0.00 36.93 4.45
735 3702 2.359850 GCGTTGGTGATGCCCTGA 60.360 61.111 0.00 0.00 36.04 3.86
736 3703 2.690778 GCGTTGGTGATGCCCTGAC 61.691 63.158 0.00 0.00 36.04 3.51
737 3704 1.302431 CGTTGGTGATGCCCTGACA 60.302 57.895 0.00 0.00 36.04 3.58
738 3705 1.577328 CGTTGGTGATGCCCTGACAC 61.577 60.000 0.00 0.00 36.04 3.67
739 3706 1.302431 TTGGTGATGCCCTGACACG 60.302 57.895 0.00 0.00 35.68 4.49
740 3707 1.763546 TTGGTGATGCCCTGACACGA 61.764 55.000 0.00 0.00 35.68 4.35
741 3708 1.741770 GGTGATGCCCTGACACGAC 60.742 63.158 0.00 0.00 35.68 4.34
945 3937 1.694696 AGGGCAAAAGAACTCGTCTCT 59.305 47.619 0.00 0.00 34.56 3.10
967 3959 1.701031 TTGCTCCCAAACTCACCCGA 61.701 55.000 0.00 0.00 0.00 5.14
968 3960 1.376037 GCTCCCAAACTCACCCGAG 60.376 63.158 0.00 0.00 45.49 4.63
1101 4431 2.600769 ACGGAGAAGGCAGTCGGT 60.601 61.111 0.00 0.00 0.00 4.69
1370 4701 5.193728 TCCCCATTTAGCTTAGGTCAATCTT 59.806 40.000 0.00 0.00 0.00 2.40
1425 4757 3.169908 TGCTAGGTGTGTGTCTAATGGA 58.830 45.455 0.00 0.00 0.00 3.41
1673 5006 2.674852 ACAGCTATGAATCTGCACGTTG 59.325 45.455 0.00 0.00 33.80 4.10
1777 5110 4.586884 ACACATGAGCAAGTTGATGAGAT 58.413 39.130 7.16 0.00 0.00 2.75
1795 5128 7.446319 TGATGAGATCAACATTCTGTGAGTTTT 59.554 33.333 0.00 0.00 36.11 2.43
1797 5130 7.642669 TGAGATCAACATTCTGTGAGTTTTTC 58.357 34.615 0.00 0.00 0.00 2.29
2214 5560 1.215647 GATCGCCGAACAGACCACT 59.784 57.895 0.00 0.00 0.00 4.00
2326 5673 1.935327 GAAGAGCCGACTACCGCAGT 61.935 60.000 0.00 0.00 41.47 4.40
2690 6041 2.031012 CTCCGCCTGCACAGAACA 59.969 61.111 0.00 0.00 0.00 3.18
2719 6070 0.393820 CCAAACTGCCACTTGCCATT 59.606 50.000 0.00 0.00 40.16 3.16
2851 6202 4.269523 TTCCGCCTTGCTGCCACT 62.270 61.111 0.00 0.00 0.00 4.00
2952 6303 1.220206 CATCACGGAGGAGCAGCTT 59.780 57.895 0.00 0.00 0.00 3.74
2955 6324 1.220206 CACGGAGGAGCAGCTTCAT 59.780 57.895 2.68 0.00 0.00 2.57
2970 6339 1.888436 TTCATGTCGAAGGAGCCGCT 61.888 55.000 0.00 0.00 0.00 5.52
3545 6917 3.178865 AGATACTCCCTCCGTTCCAAAA 58.821 45.455 0.00 0.00 0.00 2.44
3807 7179 9.777297 TGCAAGTGCTAAAGATGTATGATATAA 57.223 29.630 4.69 0.00 42.66 0.98
3968 7340 2.424956 GGCTTTTCTGGCTATTGGACTG 59.575 50.000 0.00 0.00 0.00 3.51
3978 7350 4.588951 TGGCTATTGGACTGTAGGTAGATG 59.411 45.833 0.00 0.00 0.00 2.90
4327 7700 4.704057 AGCAAGAAATCTCCAATGGAACTC 59.296 41.667 2.61 0.00 0.00 3.01
4471 7846 6.168389 TGCGAATGCTGATATACTCATGATT 58.832 36.000 0.00 0.00 43.34 2.57
4506 7881 4.737352 GCAAAGCTGACTGTTTCCATTTGA 60.737 41.667 0.00 0.00 0.00 2.69
4651 8026 6.617371 AGAGAAGATACCATCCTTTACCACAT 59.383 38.462 0.00 0.00 0.00 3.21
4760 8135 6.861065 TTGACTGTCATCCTACTTTTTGTC 57.139 37.500 11.86 0.00 0.00 3.18
4807 8182 5.062183 TCGAATTGATTTTCTGTAGCTGACG 59.938 40.000 0.00 0.00 0.00 4.35
4878 8253 4.807643 GCACTCTGGATAAAAGGGTTGAGT 60.808 45.833 0.00 0.00 34.38 3.41
4942 8317 6.746745 ACATTTGGCCATTGAAATCAATTC 57.253 33.333 19.96 2.13 43.48 2.17
5038 8413 5.596361 TGTGTTGTCCTGACCATTGTTTATT 59.404 36.000 0.00 0.00 0.00 1.40
5075 8450 3.452990 TGGTTGCGGATATAGGAAGAACA 59.547 43.478 0.00 0.00 0.00 3.18
5178 8555 6.183361 TGGAATCGGAATGGAGGATTTTCTAT 60.183 38.462 0.00 0.00 30.95 1.98
5183 8560 9.813826 ATCGGAATGGAGGATTTTCTATAATTT 57.186 29.630 0.00 0.00 0.00 1.82
5260 8637 4.393062 AGAAGACAAATATGTGAAGCACGG 59.607 41.667 0.00 0.00 40.74 4.94
5279 8656 1.749033 CGGACCTAGGGGCAAGATC 59.251 63.158 14.81 0.00 35.63 2.75
5284 8661 0.394565 CCTAGGGGCAAGATCGGAAG 59.605 60.000 0.00 0.00 0.00 3.46
5326 8711 1.529226 CAACGGCCACCATTAACTGA 58.471 50.000 2.24 0.00 0.00 3.41
5338 8723 7.330946 GCCACCATTAACTGAAAATAACCTTTC 59.669 37.037 0.00 0.00 36.11 2.62
5389 8778 1.380380 CCCATCCCAAAGGCAGACC 60.380 63.158 0.00 0.00 0.00 3.85
5393 8782 1.488705 ATCCCAAAGGCAGACCACGA 61.489 55.000 0.00 0.00 39.06 4.35
5484 8873 0.683412 AATCCTACCGCGGTATTCCC 59.317 55.000 36.37 0.00 0.00 3.97
5506 8895 1.210967 ACTTCCCGTGTTTCTTGGTCA 59.789 47.619 0.00 0.00 0.00 4.02
5521 8910 4.338118 TCTTGGTCATGTTCAGGTTTTGAC 59.662 41.667 0.00 0.00 34.94 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 6.843069 AAATTGGAACGGAGAACAAATTTG 57.157 33.333 16.67 16.67 32.55 2.32
203 214 5.612725 ACACTGTTTGACAAAATCCCAAT 57.387 34.783 1.27 0.00 0.00 3.16
204 215 5.413309 AACACTGTTTGACAAAATCCCAA 57.587 34.783 1.27 0.00 0.00 4.12
205 216 6.153680 ACTTAACACTGTTTGACAAAATCCCA 59.846 34.615 1.27 0.00 0.00 4.37
239 250 6.148976 GCGAAAACCTCCAAGAAACTAAGTAT 59.851 38.462 0.00 0.00 0.00 2.12
253 264 2.095372 CCGAAATACAGCGAAAACCTCC 59.905 50.000 0.00 0.00 0.00 4.30
373 471 2.180204 CAAATAGGGGACGCTGCCG 61.180 63.158 0.00 0.00 41.14 5.69
378 476 1.718757 CTGCAGCAAATAGGGGACGC 61.719 60.000 0.00 0.00 0.00 5.19
381 479 2.658285 CATTCTGCAGCAAATAGGGGA 58.342 47.619 9.47 0.00 0.00 4.81
383 481 1.684983 CCCATTCTGCAGCAAATAGGG 59.315 52.381 9.47 13.36 0.00 3.53
384 482 1.684983 CCCCATTCTGCAGCAAATAGG 59.315 52.381 9.47 7.21 0.00 2.57
387 485 0.905809 TGCCCCATTCTGCAGCAAAT 60.906 50.000 9.47 1.26 32.77 2.32
388 486 1.120184 TTGCCCCATTCTGCAGCAAA 61.120 50.000 9.47 0.00 40.26 3.68
390 488 0.905809 ATTTGCCCCATTCTGCAGCA 60.906 50.000 9.47 0.00 38.95 4.41
391 489 1.068127 CTATTTGCCCCATTCTGCAGC 59.932 52.381 9.47 0.00 38.95 5.25
393 491 1.688942 CCCTATTTGCCCCATTCTGCA 60.689 52.381 0.00 0.00 35.27 4.41
395 493 2.175499 TCTCCCTATTTGCCCCATTCTG 59.825 50.000 0.00 0.00 0.00 3.02
396 494 2.175715 GTCTCCCTATTTGCCCCATTCT 59.824 50.000 0.00 0.00 0.00 2.40
398 496 1.217942 GGTCTCCCTATTTGCCCCATT 59.782 52.381 0.00 0.00 0.00 3.16
399 497 0.853530 GGTCTCCCTATTTGCCCCAT 59.146 55.000 0.00 0.00 0.00 4.00
460 3427 0.035152 CTGCATTGTAGGTGCCCTCA 60.035 55.000 0.00 0.00 41.83 3.86
463 3430 2.418083 GCCTGCATTGTAGGTGCCC 61.418 63.158 20.19 2.04 41.83 5.36
464 3431 2.764314 CGCCTGCATTGTAGGTGCC 61.764 63.158 19.35 4.45 41.83 5.01
465 3432 1.097547 ATCGCCTGCATTGTAGGTGC 61.098 55.000 24.54 10.36 43.79 5.01
466 3433 2.238942 TATCGCCTGCATTGTAGGTG 57.761 50.000 23.69 23.69 45.12 4.00
468 3435 2.146342 CCTTATCGCCTGCATTGTAGG 58.854 52.381 15.78 15.78 38.39 3.18
469 3436 2.802816 GTCCTTATCGCCTGCATTGTAG 59.197 50.000 0.00 0.00 0.00 2.74
470 3437 2.484770 GGTCCTTATCGCCTGCATTGTA 60.485 50.000 0.00 0.00 0.00 2.41
471 3438 1.668419 GTCCTTATCGCCTGCATTGT 58.332 50.000 0.00 0.00 0.00 2.71
472 3439 0.947244 GGTCCTTATCGCCTGCATTG 59.053 55.000 0.00 0.00 0.00 2.82
473 3440 0.532862 CGGTCCTTATCGCCTGCATT 60.533 55.000 0.00 0.00 0.00 3.56
474 3441 1.069765 CGGTCCTTATCGCCTGCAT 59.930 57.895 0.00 0.00 0.00 3.96
475 3442 1.399744 ATCGGTCCTTATCGCCTGCA 61.400 55.000 0.00 0.00 0.00 4.41
476 3443 0.946221 CATCGGTCCTTATCGCCTGC 60.946 60.000 0.00 0.00 0.00 4.85
477 3444 0.946221 GCATCGGTCCTTATCGCCTG 60.946 60.000 0.00 0.00 0.00 4.85
478 3445 1.367840 GCATCGGTCCTTATCGCCT 59.632 57.895 0.00 0.00 0.00 5.52
479 3446 1.668151 GGCATCGGTCCTTATCGCC 60.668 63.158 0.00 0.00 0.00 5.54
480 3447 0.946221 CTGGCATCGGTCCTTATCGC 60.946 60.000 0.00 0.00 0.00 4.58
481 3448 0.319900 CCTGGCATCGGTCCTTATCG 60.320 60.000 0.00 0.00 0.00 2.92
482 3449 0.035458 CCCTGGCATCGGTCCTTATC 59.965 60.000 0.00 0.00 0.00 1.75
483 3450 0.694444 ACCCTGGCATCGGTCCTTAT 60.694 55.000 0.70 0.00 0.00 1.73
484 3451 1.306654 ACCCTGGCATCGGTCCTTA 60.307 57.895 0.70 0.00 0.00 2.69
485 3452 2.610859 ACCCTGGCATCGGTCCTT 60.611 61.111 0.70 0.00 0.00 3.36
486 3453 3.402681 CACCCTGGCATCGGTCCT 61.403 66.667 3.52 0.00 0.00 3.85
487 3454 4.489771 CCACCCTGGCATCGGTCC 62.490 72.222 3.52 0.00 0.00 4.46
488 3455 4.489771 CCCACCCTGGCATCGGTC 62.490 72.222 3.52 0.00 35.79 4.79
490 3457 2.965716 GATTCCCACCCTGGCATCGG 62.966 65.000 0.00 0.00 35.79 4.18
491 3458 1.526917 GATTCCCACCCTGGCATCG 60.527 63.158 0.00 0.00 35.79 3.84
492 3459 1.152673 GGATTCCCACCCTGGCATC 60.153 63.158 0.00 0.00 35.79 3.91
493 3460 1.623686 AGGATTCCCACCCTGGCAT 60.624 57.895 0.00 0.00 35.79 4.40
494 3461 2.204291 AGGATTCCCACCCTGGCA 60.204 61.111 0.00 0.00 35.79 4.92
495 3462 2.276740 CAGGATTCCCACCCTGGC 59.723 66.667 0.00 0.00 44.68 4.85
498 3465 1.995626 CGGTCAGGATTCCCACCCT 60.996 63.158 13.53 0.00 33.88 4.34
499 3466 2.253403 GACGGTCAGGATTCCCACCC 62.253 65.000 13.53 4.48 33.88 4.61
500 3467 1.221021 GACGGTCAGGATTCCCACC 59.779 63.158 10.34 10.34 33.88 4.61
501 3468 0.613777 AAGACGGTCAGGATTCCCAC 59.386 55.000 11.27 0.00 33.88 4.61
502 3469 0.613260 CAAGACGGTCAGGATTCCCA 59.387 55.000 11.27 0.00 33.88 4.37
503 3470 0.107654 CCAAGACGGTCAGGATTCCC 60.108 60.000 11.27 0.00 0.00 3.97
504 3471 0.107654 CCCAAGACGGTCAGGATTCC 60.108 60.000 17.88 0.00 0.00 3.01
505 3472 0.744771 GCCCAAGACGGTCAGGATTC 60.745 60.000 17.88 6.17 0.00 2.52
506 3473 1.299976 GCCCAAGACGGTCAGGATT 59.700 57.895 17.88 0.00 0.00 3.01
507 3474 1.488705 TTGCCCAAGACGGTCAGGAT 61.489 55.000 17.88 0.00 0.00 3.24
508 3475 1.488705 ATTGCCCAAGACGGTCAGGA 61.489 55.000 17.88 2.58 0.00 3.86
509 3476 0.609131 AATTGCCCAAGACGGTCAGG 60.609 55.000 11.27 11.35 0.00 3.86
510 3477 0.804989 GAATTGCCCAAGACGGTCAG 59.195 55.000 11.27 2.30 0.00 3.51
511 3478 0.608035 GGAATTGCCCAAGACGGTCA 60.608 55.000 11.27 0.00 0.00 4.02
512 3479 2.180674 GGAATTGCCCAAGACGGTC 58.819 57.895 0.00 0.00 0.00 4.79
513 3480 4.415783 GGAATTGCCCAAGACGGT 57.584 55.556 0.00 0.00 0.00 4.83
522 3489 1.828224 GGATCGGGTGGGAATTGCC 60.828 63.158 9.44 9.44 0.00 4.52
523 3490 1.103398 CAGGATCGGGTGGGAATTGC 61.103 60.000 0.00 0.00 0.00 3.56
524 3491 0.466189 CCAGGATCGGGTGGGAATTG 60.466 60.000 0.40 0.00 0.00 2.32
525 3492 1.922821 CCAGGATCGGGTGGGAATT 59.077 57.895 0.40 0.00 0.00 2.17
526 3493 3.660724 CCAGGATCGGGTGGGAAT 58.339 61.111 0.40 0.00 0.00 3.01
534 3501 1.767759 AGCAATTTTCCCAGGATCGG 58.232 50.000 0.00 0.00 0.00 4.18
535 3502 2.736400 GCAAGCAATTTTCCCAGGATCG 60.736 50.000 0.00 0.00 0.00 3.69
536 3503 2.736400 CGCAAGCAATTTTCCCAGGATC 60.736 50.000 0.00 0.00 0.00 3.36
537 3504 1.205417 CGCAAGCAATTTTCCCAGGAT 59.795 47.619 0.00 0.00 0.00 3.24
538 3505 0.602562 CGCAAGCAATTTTCCCAGGA 59.397 50.000 0.00 0.00 0.00 3.86
539 3506 0.318120 ACGCAAGCAATTTTCCCAGG 59.682 50.000 0.00 0.00 45.62 4.45
540 3507 1.701704 GACGCAAGCAATTTTCCCAG 58.298 50.000 0.00 0.00 45.62 4.45
541 3508 0.039617 CGACGCAAGCAATTTTCCCA 60.040 50.000 0.00 0.00 45.62 4.37
542 3509 0.239879 TCGACGCAAGCAATTTTCCC 59.760 50.000 0.00 0.00 45.62 3.97
543 3510 1.913403 CATCGACGCAAGCAATTTTCC 59.087 47.619 0.00 0.00 45.62 3.13
544 3511 1.318491 GCATCGACGCAAGCAATTTTC 59.682 47.619 0.00 0.00 45.62 2.29
545 3512 1.339711 GCATCGACGCAAGCAATTTT 58.660 45.000 0.00 0.00 45.62 1.82
546 3513 0.456653 GGCATCGACGCAAGCAATTT 60.457 50.000 5.59 0.00 45.62 1.82
547 3514 1.137404 GGCATCGACGCAAGCAATT 59.863 52.632 5.59 0.00 45.62 2.32
548 3515 1.985447 CTGGCATCGACGCAAGCAAT 61.985 55.000 5.59 0.00 45.62 3.56
549 3516 2.667874 TGGCATCGACGCAAGCAA 60.668 55.556 5.59 0.00 45.62 3.91
550 3517 3.120385 CTGGCATCGACGCAAGCA 61.120 61.111 5.59 0.00 45.62 3.91
551 3518 2.815211 TCTGGCATCGACGCAAGC 60.815 61.111 5.59 0.00 45.62 4.01
552 3519 2.792290 CGTCTGGCATCGACGCAAG 61.792 63.158 14.97 2.87 46.12 4.01
553 3520 2.809174 CGTCTGGCATCGACGCAA 60.809 61.111 14.97 0.00 46.12 4.85
557 3524 2.320367 GATGATACGTCTGGCATCGAC 58.680 52.381 16.62 7.84 0.00 4.20
558 3525 2.706555 GATGATACGTCTGGCATCGA 57.293 50.000 16.62 0.00 0.00 3.59
560 3527 1.670087 CCCGATGATACGTCTGGCATC 60.670 57.143 0.00 0.33 35.10 3.91
561 3528 0.318441 CCCGATGATACGTCTGGCAT 59.682 55.000 0.00 0.00 0.00 4.40
562 3529 1.739667 CCCGATGATACGTCTGGCA 59.260 57.895 0.00 0.00 0.00 4.92
563 3530 1.664965 GCCCGATGATACGTCTGGC 60.665 63.158 9.76 9.76 33.05 4.85
564 3531 1.371758 CGCCCGATGATACGTCTGG 60.372 63.158 0.00 0.00 0.00 3.86
565 3532 2.016704 GCGCCCGATGATACGTCTG 61.017 63.158 0.00 0.00 0.00 3.51
566 3533 1.735376 AAGCGCCCGATGATACGTCT 61.735 55.000 2.29 0.00 0.00 4.18
567 3534 1.276145 GAAGCGCCCGATGATACGTC 61.276 60.000 2.29 0.00 0.00 4.34
568 3535 1.299926 GAAGCGCCCGATGATACGT 60.300 57.895 2.29 0.00 0.00 3.57
569 3536 1.278172 CTGAAGCGCCCGATGATACG 61.278 60.000 2.29 0.00 0.00 3.06
570 3537 0.249489 ACTGAAGCGCCCGATGATAC 60.249 55.000 2.29 0.00 0.00 2.24
571 3538 0.464036 AACTGAAGCGCCCGATGATA 59.536 50.000 2.29 0.00 0.00 2.15
572 3539 0.392998 AAACTGAAGCGCCCGATGAT 60.393 50.000 2.29 0.00 0.00 2.45
573 3540 0.605319 AAAACTGAAGCGCCCGATGA 60.605 50.000 2.29 0.00 0.00 2.92
574 3541 0.240945 AAAAACTGAAGCGCCCGATG 59.759 50.000 2.29 0.00 0.00 3.84
575 3542 2.641197 AAAAACTGAAGCGCCCGAT 58.359 47.368 2.29 0.00 0.00 4.18
576 3543 4.150994 AAAAACTGAAGCGCCCGA 57.849 50.000 2.29 0.00 0.00 5.14
590 3557 2.676839 TGCCAGTTTACACGACGAAAAA 59.323 40.909 0.00 0.00 0.00 1.94
591 3558 2.277969 TGCCAGTTTACACGACGAAAA 58.722 42.857 0.00 0.00 0.00 2.29
592 3559 1.937278 TGCCAGTTTACACGACGAAA 58.063 45.000 0.00 0.00 0.00 3.46
593 3560 2.157834 ATGCCAGTTTACACGACGAA 57.842 45.000 0.00 0.00 0.00 3.85
594 3561 2.488937 TCTATGCCAGTTTACACGACGA 59.511 45.455 0.00 0.00 0.00 4.20
595 3562 2.597305 GTCTATGCCAGTTTACACGACG 59.403 50.000 0.00 0.00 0.00 5.12
596 3563 2.928116 GGTCTATGCCAGTTTACACGAC 59.072 50.000 0.00 0.00 0.00 4.34
597 3564 2.093869 GGGTCTATGCCAGTTTACACGA 60.094 50.000 0.00 0.00 0.00 4.35
598 3565 2.277084 GGGTCTATGCCAGTTTACACG 58.723 52.381 0.00 0.00 0.00 4.49
599 3566 2.093869 TCGGGTCTATGCCAGTTTACAC 60.094 50.000 0.00 0.00 0.00 2.90
600 3567 2.167693 CTCGGGTCTATGCCAGTTTACA 59.832 50.000 0.00 0.00 0.00 2.41
601 3568 2.167900 ACTCGGGTCTATGCCAGTTTAC 59.832 50.000 0.00 0.00 0.00 2.01
602 3569 2.167693 CACTCGGGTCTATGCCAGTTTA 59.832 50.000 0.00 0.00 0.00 2.01
603 3570 1.066143 CACTCGGGTCTATGCCAGTTT 60.066 52.381 0.00 0.00 0.00 2.66
604 3571 0.537188 CACTCGGGTCTATGCCAGTT 59.463 55.000 0.00 0.00 0.00 3.16
605 3572 1.330655 CCACTCGGGTCTATGCCAGT 61.331 60.000 0.00 0.00 0.00 4.00
606 3573 1.043116 TCCACTCGGGTCTATGCCAG 61.043 60.000 0.00 0.00 38.11 4.85
607 3574 0.398522 ATCCACTCGGGTCTATGCCA 60.399 55.000 0.00 0.00 38.11 4.92
608 3575 0.034059 CATCCACTCGGGTCTATGCC 59.966 60.000 0.00 0.00 38.11 4.40
609 3576 0.601311 GCATCCACTCGGGTCTATGC 60.601 60.000 14.02 14.02 38.11 3.14
610 3577 0.034059 GGCATCCACTCGGGTCTATG 59.966 60.000 2.70 2.70 38.11 2.23
611 3578 0.105453 AGGCATCCACTCGGGTCTAT 60.105 55.000 0.00 0.00 38.11 1.98
612 3579 0.554305 TAGGCATCCACTCGGGTCTA 59.446 55.000 0.00 0.00 38.11 2.59
613 3580 1.043673 GTAGGCATCCACTCGGGTCT 61.044 60.000 0.00 0.00 38.11 3.85
614 3581 1.442148 GTAGGCATCCACTCGGGTC 59.558 63.158 0.00 0.00 38.11 4.46
615 3582 2.423898 CGTAGGCATCCACTCGGGT 61.424 63.158 0.00 0.00 38.11 5.28
616 3583 1.105167 TACGTAGGCATCCACTCGGG 61.105 60.000 0.00 0.00 38.37 5.14
617 3584 0.030369 GTACGTAGGCATCCACTCGG 59.970 60.000 0.00 0.00 0.00 4.63
618 3585 0.736636 TGTACGTAGGCATCCACTCG 59.263 55.000 0.00 0.00 0.00 4.18
619 3586 2.953466 TTGTACGTAGGCATCCACTC 57.047 50.000 0.00 0.00 0.00 3.51
620 3587 2.677037 GCTTTGTACGTAGGCATCCACT 60.677 50.000 0.00 0.00 0.00 4.00
621 3588 1.664151 GCTTTGTACGTAGGCATCCAC 59.336 52.381 0.00 0.00 0.00 4.02
622 3589 1.737696 CGCTTTGTACGTAGGCATCCA 60.738 52.381 0.00 0.00 0.00 3.41
623 3590 0.928229 CGCTTTGTACGTAGGCATCC 59.072 55.000 0.00 0.00 0.00 3.51
624 3591 1.636988 ACGCTTTGTACGTAGGCATC 58.363 50.000 0.00 0.00 43.02 3.91
625 3592 1.730064 CAACGCTTTGTACGTAGGCAT 59.270 47.619 0.00 0.00 44.30 4.40
626 3593 1.141645 CAACGCTTTGTACGTAGGCA 58.858 50.000 0.00 0.00 44.30 4.75
627 3594 0.441145 CCAACGCTTTGTACGTAGGC 59.559 55.000 0.00 0.00 44.30 3.93
628 3595 1.990563 CTCCAACGCTTTGTACGTAGG 59.009 52.381 0.00 0.00 44.30 3.18
629 3596 1.990563 CCTCCAACGCTTTGTACGTAG 59.009 52.381 0.00 0.00 44.30 3.51
630 3597 1.340889 ACCTCCAACGCTTTGTACGTA 59.659 47.619 1.95 0.00 44.30 3.57
632 3599 1.990563 CTACCTCCAACGCTTTGTACG 59.009 52.381 1.95 0.00 0.00 3.67
633 3600 2.344025 CCTACCTCCAACGCTTTGTAC 58.656 52.381 1.95 0.00 0.00 2.90
634 3601 1.276989 CCCTACCTCCAACGCTTTGTA 59.723 52.381 1.95 0.00 0.00 2.41
635 3602 0.036306 CCCTACCTCCAACGCTTTGT 59.964 55.000 1.95 0.00 0.00 2.83
636 3603 0.323629 TCCCTACCTCCAACGCTTTG 59.676 55.000 0.00 0.00 0.00 2.77
637 3604 0.323957 GTCCCTACCTCCAACGCTTT 59.676 55.000 0.00 0.00 0.00 3.51
638 3605 1.885163 CGTCCCTACCTCCAACGCTT 61.885 60.000 0.00 0.00 0.00 4.68
639 3606 2.348888 CGTCCCTACCTCCAACGCT 61.349 63.158 0.00 0.00 0.00 5.07
640 3607 2.183555 CGTCCCTACCTCCAACGC 59.816 66.667 0.00 0.00 0.00 4.84
641 3608 1.033746 TAGCGTCCCTACCTCCAACG 61.034 60.000 0.00 0.00 36.48 4.10
642 3609 1.136500 CTTAGCGTCCCTACCTCCAAC 59.864 57.143 0.00 0.00 0.00 3.77
643 3610 1.481871 CTTAGCGTCCCTACCTCCAA 58.518 55.000 0.00 0.00 0.00 3.53
644 3611 1.041447 GCTTAGCGTCCCTACCTCCA 61.041 60.000 0.00 0.00 0.00 3.86
645 3612 1.041447 TGCTTAGCGTCCCTACCTCC 61.041 60.000 0.00 0.00 0.00 4.30
646 3613 0.386113 CTGCTTAGCGTCCCTACCTC 59.614 60.000 0.00 0.00 0.00 3.85
647 3614 1.043673 CCTGCTTAGCGTCCCTACCT 61.044 60.000 0.00 0.00 0.00 3.08
648 3615 1.442148 CCTGCTTAGCGTCCCTACC 59.558 63.158 0.00 0.00 0.00 3.18
649 3616 1.227292 GCCTGCTTAGCGTCCCTAC 60.227 63.158 0.00 0.00 0.00 3.18
650 3617 3.217231 GCCTGCTTAGCGTCCCTA 58.783 61.111 0.00 0.00 0.00 3.53
662 3629 3.923017 AATTTATGGATAAGCGCCTGC 57.077 42.857 2.29 0.00 43.24 4.85
663 3630 8.816640 AAAATAAATTTATGGATAAGCGCCTG 57.183 30.769 11.42 0.00 0.00 4.85
682 3649 9.738832 GGCGCTTGGATAGTAAATTAAAAATAA 57.261 29.630 7.64 0.00 0.00 1.40
683 3650 8.904834 TGGCGCTTGGATAGTAAATTAAAAATA 58.095 29.630 7.64 0.00 0.00 1.40
684 3651 7.777095 TGGCGCTTGGATAGTAAATTAAAAAT 58.223 30.769 7.64 0.00 0.00 1.82
685 3652 7.159322 TGGCGCTTGGATAGTAAATTAAAAA 57.841 32.000 7.64 0.00 0.00 1.94
686 3653 6.183360 CCTGGCGCTTGGATAGTAAATTAAAA 60.183 38.462 7.64 0.00 0.00 1.52
687 3654 5.298276 CCTGGCGCTTGGATAGTAAATTAAA 59.702 40.000 7.64 0.00 0.00 1.52
688 3655 4.819630 CCTGGCGCTTGGATAGTAAATTAA 59.180 41.667 7.64 0.00 0.00 1.40
689 3656 4.385825 CCTGGCGCTTGGATAGTAAATTA 58.614 43.478 7.64 0.00 0.00 1.40
690 3657 3.214328 CCTGGCGCTTGGATAGTAAATT 58.786 45.455 7.64 0.00 0.00 1.82
691 3658 2.851195 CCTGGCGCTTGGATAGTAAAT 58.149 47.619 7.64 0.00 0.00 1.40
692 3659 1.745827 GCCTGGCGCTTGGATAGTAAA 60.746 52.381 20.16 0.00 0.00 2.01
693 3660 0.179056 GCCTGGCGCTTGGATAGTAA 60.179 55.000 20.16 0.00 0.00 2.24
694 3661 1.445942 GCCTGGCGCTTGGATAGTA 59.554 57.895 20.16 0.00 0.00 1.82
695 3662 2.190578 GCCTGGCGCTTGGATAGT 59.809 61.111 20.16 0.00 0.00 2.12
713 3680 4.166011 GCATCACCAACGCGAGGC 62.166 66.667 15.93 0.00 0.00 4.70
714 3681 3.499737 GGCATCACCAACGCGAGG 61.500 66.667 15.93 17.40 38.86 4.63
715 3682 3.499737 GGGCATCACCAACGCGAG 61.500 66.667 15.93 4.40 42.05 5.03
716 3683 4.015406 AGGGCATCACCAACGCGA 62.015 61.111 15.93 0.00 42.05 5.87
717 3684 3.803082 CAGGGCATCACCAACGCG 61.803 66.667 3.53 3.53 42.05 6.01
718 3685 2.359850 TCAGGGCATCACCAACGC 60.360 61.111 0.00 0.00 42.05 4.84
719 3686 1.302431 TGTCAGGGCATCACCAACG 60.302 57.895 0.00 0.00 42.05 4.10
720 3687 1.577328 CGTGTCAGGGCATCACCAAC 61.577 60.000 0.00 0.00 42.05 3.77
721 3688 1.302431 CGTGTCAGGGCATCACCAA 60.302 57.895 0.00 0.00 42.05 3.67
722 3689 2.213513 TCGTGTCAGGGCATCACCA 61.214 57.895 0.00 0.00 42.05 4.17
723 3690 1.741770 GTCGTGTCAGGGCATCACC 60.742 63.158 0.00 0.00 37.93 4.02
724 3691 1.741770 GGTCGTGTCAGGGCATCAC 60.742 63.158 0.00 0.00 0.00 3.06
725 3692 2.662596 GGTCGTGTCAGGGCATCA 59.337 61.111 0.00 0.00 0.00 3.07
726 3693 2.125106 GGGTCGTGTCAGGGCATC 60.125 66.667 0.00 0.00 0.00 3.91
727 3694 3.717294 GGGGTCGTGTCAGGGCAT 61.717 66.667 0.00 0.00 0.00 4.40
729 3696 3.268103 AATGGGGTCGTGTCAGGGC 62.268 63.158 0.00 0.00 0.00 5.19
730 3697 1.078426 GAATGGGGTCGTGTCAGGG 60.078 63.158 0.00 0.00 0.00 4.45
731 3698 0.253044 ATGAATGGGGTCGTGTCAGG 59.747 55.000 0.00 0.00 0.00 3.86
732 3699 2.979814 TATGAATGGGGTCGTGTCAG 57.020 50.000 0.00 0.00 0.00 3.51
733 3700 3.340034 GTTTATGAATGGGGTCGTGTCA 58.660 45.455 0.00 0.00 0.00 3.58
734 3701 2.350498 CGTTTATGAATGGGGTCGTGTC 59.650 50.000 0.00 0.00 0.00 3.67
735 3702 2.352388 CGTTTATGAATGGGGTCGTGT 58.648 47.619 0.00 0.00 0.00 4.49
736 3703 1.668751 CCGTTTATGAATGGGGTCGTG 59.331 52.381 0.39 0.00 38.13 4.35
737 3704 2.032680 CCGTTTATGAATGGGGTCGT 57.967 50.000 0.39 0.00 38.13 4.34
772 3739 0.896923 ATTAACGTGCCTGGTACGGA 59.103 50.000 34.39 22.22 45.17 4.69
945 3937 2.802719 GGGTGAGTTTGGGAGCAAATA 58.197 47.619 0.00 0.00 0.00 1.40
967 3959 0.919710 GGGAAAGGGTATGCAGGTCT 59.080 55.000 0.00 0.00 0.00 3.85
968 3960 0.106669 GGGGAAAGGGTATGCAGGTC 60.107 60.000 0.00 0.00 0.00 3.85
1370 4701 3.644966 AAGTGTCTCAAAGGAACACCA 57.355 42.857 1.52 0.00 32.26 4.17
1425 4757 6.006449 AGATCTACCAACAAAACAGCTGAAT 58.994 36.000 23.35 5.76 0.00 2.57
2214 5560 1.900981 CAACGATGGTGGGTGGCAA 60.901 57.895 0.00 0.00 0.00 4.52
2415 5765 4.702081 GTCGTCGCAGTGGTCGCT 62.702 66.667 0.00 0.00 0.00 4.93
2690 6041 1.529244 GCAGTTTGGTGGTCTGGCT 60.529 57.895 0.00 0.00 0.00 4.75
2952 6303 2.184322 GCGGCTCCTTCGACATGA 59.816 61.111 0.00 0.00 0.00 3.07
2955 6324 4.742201 GCAGCGGCTCCTTCGACA 62.742 66.667 0.00 0.00 36.96 4.35
2970 6339 3.842925 GAGGTGGTTTCCTGCGGCA 62.843 63.158 1.29 1.29 38.02 5.69
3545 6917 8.934023 TTGGACAAACCTAGAACTTCAATTAT 57.066 30.769 0.00 0.00 39.86 1.28
3884 7256 6.235664 TGGGAGAAACCAAAAGTCATACTAC 58.764 40.000 0.00 0.00 41.20 2.73
3935 7307 7.105241 AGCCAGAAAAGCCTCAAAATAATAG 57.895 36.000 0.00 0.00 0.00 1.73
3968 7340 7.553402 TCAACTACAGACTTCTCATCTACCTAC 59.447 40.741 0.00 0.00 0.00 3.18
4327 7700 1.548081 TTGGTGGCACCTCATTGATG 58.452 50.000 34.69 0.00 39.58 3.07
4506 7881 5.589831 AGGGCAGGGTTTTTATCTGTAATT 58.410 37.500 0.00 0.00 0.00 1.40
4651 8026 2.585330 TGCAGCAACTCCAAATTCTGA 58.415 42.857 0.00 0.00 0.00 3.27
4760 8135 9.715123 TCGAAGTTAATGCAACATTATTATGTG 57.285 29.630 0.00 0.00 44.14 3.21
4807 8182 3.575965 ATTCAGGAAATGCCGACAAAC 57.424 42.857 0.00 0.00 43.43 2.93
4878 8253 6.684897 AAATCAATTTCATGTTCCTTCCCA 57.315 33.333 0.00 0.00 0.00 4.37
4942 8317 3.380320 GGAACATCATACGGAAAAAGGGG 59.620 47.826 0.00 0.00 0.00 4.79
5038 8413 4.381398 CCGCAACCAACATATGATTTTCCA 60.381 41.667 10.38 0.00 0.00 3.53
5075 8450 6.654582 CAGCAAGGGGTTATAAAATGCTTTTT 59.345 34.615 14.02 14.02 40.40 1.94
5260 8637 2.384653 GATCTTGCCCCTAGGTCCGC 62.385 65.000 8.29 6.90 34.57 5.54
5279 8656 1.087771 GCACCGGTCAATACCTTCCG 61.088 60.000 2.59 0.00 44.35 4.30
5284 8661 1.029947 CCTTGGCACCGGTCAATACC 61.030 60.000 2.59 1.66 38.10 2.73
5326 8711 6.650390 GTGCATGACCAATGAAAGGTTATTTT 59.350 34.615 0.00 0.00 40.09 1.82
5338 8723 5.375417 TTCTAAGTTGTGCATGACCAATG 57.625 39.130 0.00 0.00 39.49 2.82
5389 8778 3.885297 AGGCATGAATAAATCCCTTCGTG 59.115 43.478 0.00 0.00 40.02 4.35
5393 8782 5.136048 TCCCTAAGGCATGAATAAATCCCTT 59.864 40.000 0.00 0.00 36.68 3.95
5484 8873 0.865769 CCAAGAAACACGGGAAGTCG 59.134 55.000 0.00 0.00 0.00 4.18
5493 8882 3.632145 ACCTGAACATGACCAAGAAACAC 59.368 43.478 0.00 0.00 0.00 3.32
5506 8895 3.804036 TGTCTCGTCAAAACCTGAACAT 58.196 40.909 0.00 0.00 35.22 2.71
5521 8910 3.899734 TGTTTGCAATGGAAATGTCTCG 58.100 40.909 2.74 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.