Multiple sequence alignment - TraesCS3B01G105600

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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 TraesCS3B01G105600 chr3B 100.000 4250 0 0 1 4250 71464052 71468301 0.000000e+00 7849
1 TraesCS3B01G105600 chr3B 100.000 131 0 0 4516 4646 71468567 71468697 4.640000e-60 243
2 TraesCS3B01G105600 chr3B 90.909 77 7 0 3520 3596 126559313 126559389 2.290000e-18 104
3 TraesCS3B01G105600 chr3D 92.837 3169 124 31 1 3141 45802407 45805500 0.000000e+00 4499
4 TraesCS3B01G105600 chr3D 91.865 1094 62 13 3167 4250 45805496 45806572 0.000000e+00 1502
5 TraesCS3B01G105600 chr3A 90.603 1958 126 36 94 2021 57374408 57376337 0.000000e+00 2543
6 TraesCS3B01G105600 chr3A 97.059 578 14 3 2564 3141 57377178 57377752 0.000000e+00 970
7 TraesCS3B01G105600 chr3A 92.368 642 45 4 3254 3892 57377794 57378434 0.000000e+00 911
8 TraesCS3B01G105600 chr3A 91.519 507 26 11 2003 2502 57376693 57377189 0.000000e+00 682
9 TraesCS3B01G105600 chr3A 86.933 551 47 11 53 596 57368442 57368974 3.090000e-166 595
10 TraesCS3B01G105600 chr3A 87.597 258 18 7 715 970 57369056 57369301 2.120000e-73 287
11 TraesCS3B01G105600 chr3A 90.541 74 7 0 3523 3596 238346078 238346005 1.060000e-16 99
12 TraesCS3B01G105600 chr7B 94.444 72 4 0 3523 3594 277980556 277980485 1.370000e-20 111
13 TraesCS3B01G105600 chr7B 90.909 77 7 0 3520 3596 209843704 209843780 2.290000e-18 104
14 TraesCS3B01G105600 chr2B 92.208 77 6 0 3520 3596 197538711 197538787 4.910000e-20 110
15 TraesCS3B01G105600 chr4B 89.610 77 8 0 3520 3596 208680090 208680166 1.060000e-16 99
16 TraesCS3B01G105600 chr2D 90.541 74 7 0 3523 3596 43858806 43858733 1.060000e-16 99


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 TraesCS3B01G105600 chr3B 71464052 71468697 4645 False 4046.0 7849 100.00000 1 4646 2 chr3B.!!$F2 4645
1 TraesCS3B01G105600 chr3D 45802407 45806572 4165 False 3000.5 4499 92.35100 1 4250 2 chr3D.!!$F1 4249
2 TraesCS3B01G105600 chr3A 57374408 57378434 4026 False 1276.5 2543 92.88725 94 3892 4 chr3A.!!$F2 3798
3 TraesCS3B01G105600 chr3A 57368442 57369301 859 False 441.0 595 87.26500 53 970 2 chr3A.!!$F1 917

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
165 169 0.032615 AGGGAGAAGCGGAGATGTCT 60.033 55.000 0.00 0.00 0.00 3.41 F
466 490 0.102481 CCCCGTCCTGATTCAGTACG 59.898 60.000 20.93 20.93 42.06 3.67 F
606 635 0.390472 GGAGAAGGCGGAGTGAACTG 60.390 60.000 0.00 0.00 0.00 3.16 F
2161 2596 1.068434 CGGATTTGGTGTTTGTTGCCT 59.932 47.619 0.00 0.00 0.00 4.75 F
2180 2615 1.270550 CTGCCCCGATTTTGATATGCC 59.729 52.381 0.00 0.00 0.00 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2118 2553 0.545646 TCATCACCATTCATCGGCCA 59.454 50.000 2.24 0.0 0.0 5.36 R
2161 2596 1.133513 AGGCATATCAAAATCGGGGCA 60.134 47.619 0.00 0.0 0.0 5.36 R
2180 2615 4.046462 CACCTGCATTTGTCTGAAAACAG 58.954 43.478 0.00 0.0 0.0 3.16 R
3170 3612 0.179059 TACGTATGTGCCATGCCCAG 60.179 55.000 0.00 0.0 0.0 4.45 R
4025 4471 0.842467 CCCACCTTCCCCTTCTCTGT 60.842 60.000 0.00 0.0 0.0 3.41 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
51 52 1.333347 GCGATTTGTGTGTTACGTGCA 60.333 47.619 0.00 0.00 0.00 4.57
61 62 2.034001 GTGTTACGTGCAGACACTGTTC 60.034 50.000 14.82 0.00 45.10 3.18
65 66 1.595382 GTGCAGACACTGTTCGGCT 60.595 57.895 12.89 0.00 43.85 5.52
101 102 0.458260 GGTGGCAAAGACAAAACGGT 59.542 50.000 0.00 0.00 0.00 4.83
165 169 0.032615 AGGGAGAAGCGGAGATGTCT 60.033 55.000 0.00 0.00 0.00 3.41
448 472 1.664873 GGTAAAGATCGACCCAAGCC 58.335 55.000 0.00 0.00 0.00 4.35
449 473 1.664873 GTAAAGATCGACCCAAGCCC 58.335 55.000 0.00 0.00 0.00 5.19
450 474 0.544697 TAAAGATCGACCCAAGCCCC 59.455 55.000 0.00 0.00 0.00 5.80
451 475 2.536997 AAAGATCGACCCAAGCCCCG 62.537 60.000 0.00 0.00 0.00 5.73
452 476 3.782443 GATCGACCCAAGCCCCGT 61.782 66.667 0.00 0.00 0.00 5.28
453 477 3.735037 GATCGACCCAAGCCCCGTC 62.735 68.421 0.00 0.00 0.00 4.79
456 480 4.410400 GACCCAAGCCCCGTCCTG 62.410 72.222 0.00 0.00 0.00 3.86
457 481 4.974438 ACCCAAGCCCCGTCCTGA 62.974 66.667 0.00 0.00 0.00 3.86
458 482 3.411517 CCCAAGCCCCGTCCTGAT 61.412 66.667 0.00 0.00 0.00 2.90
459 483 2.677228 CCAAGCCCCGTCCTGATT 59.323 61.111 0.00 0.00 0.00 2.57
460 484 1.452108 CCAAGCCCCGTCCTGATTC 60.452 63.158 0.00 0.00 0.00 2.52
461 485 1.299648 CAAGCCCCGTCCTGATTCA 59.700 57.895 0.00 0.00 0.00 2.57
462 486 0.745845 CAAGCCCCGTCCTGATTCAG 60.746 60.000 6.70 6.70 0.00 3.02
463 487 1.201429 AAGCCCCGTCCTGATTCAGT 61.201 55.000 12.54 0.00 0.00 3.41
464 488 0.325296 AGCCCCGTCCTGATTCAGTA 60.325 55.000 12.54 0.00 0.00 2.74
465 489 0.179081 GCCCCGTCCTGATTCAGTAC 60.179 60.000 12.54 6.14 0.00 2.73
466 490 0.102481 CCCCGTCCTGATTCAGTACG 59.898 60.000 20.93 20.93 42.06 3.67
467 491 0.527817 CCCGTCCTGATTCAGTACGC 60.528 60.000 22.07 5.44 41.30 4.42
468 492 0.866061 CCGTCCTGATTCAGTACGCG 60.866 60.000 22.07 13.57 41.30 6.01
469 493 1.472276 CGTCCTGATTCAGTACGCGC 61.472 60.000 17.12 0.00 37.06 6.86
470 494 1.141019 TCCTGATTCAGTACGCGCC 59.859 57.895 5.73 0.00 0.00 6.53
506 532 4.467769 CTGTCCCCAGCATTTATGATTCT 58.532 43.478 0.00 0.00 0.00 2.40
605 634 0.832135 TGGAGAAGGCGGAGTGAACT 60.832 55.000 0.00 0.00 0.00 3.01
606 635 0.390472 GGAGAAGGCGGAGTGAACTG 60.390 60.000 0.00 0.00 0.00 3.16
739 779 2.418368 TCTTGATGCCCGCTGTTTAT 57.582 45.000 0.00 0.00 0.00 1.40
753 793 5.505654 CCGCTGTTTATTGTTCTTGTGTTCT 60.506 40.000 0.00 0.00 0.00 3.01
754 794 6.293190 CCGCTGTTTATTGTTCTTGTGTTCTA 60.293 38.462 0.00 0.00 0.00 2.10
755 795 6.573725 CGCTGTTTATTGTTCTTGTGTTCTAC 59.426 38.462 0.00 0.00 0.00 2.59
756 796 7.518370 CGCTGTTTATTGTTCTTGTGTTCTACT 60.518 37.037 0.00 0.00 0.00 2.57
758 798 9.651718 CTGTTTATTGTTCTTGTGTTCTACTTC 57.348 33.333 0.00 0.00 0.00 3.01
759 799 9.391006 TGTTTATTGTTCTTGTGTTCTACTTCT 57.609 29.630 0.00 0.00 0.00 2.85
849 889 2.381911 CACCTGATTCCATTCCCCTTG 58.618 52.381 0.00 0.00 0.00 3.61
877 917 2.614057 CACTGTTCGGCAAATATCTCCC 59.386 50.000 0.00 0.00 0.00 4.30
878 918 2.222027 CTGTTCGGCAAATATCTCCCC 58.778 52.381 0.00 0.00 0.00 4.81
879 919 1.133915 TGTTCGGCAAATATCTCCCCC 60.134 52.381 0.00 0.00 0.00 5.40
942 982 7.272978 GTCACATCCACAAGTATGGTATTAGT 58.727 38.462 0.00 0.00 40.95 2.24
1020 1078 1.361204 TGGTCATGGACACCACTGAT 58.639 50.000 0.69 0.00 39.11 2.90
1116 1174 1.112113 TGATCTGGAAGTACGAGGGC 58.888 55.000 0.00 0.00 33.76 5.19
1319 1377 5.299949 TGATGTTATTGTCGATGGATGGAG 58.700 41.667 0.00 0.00 0.00 3.86
1366 1424 3.633065 AGCTACTTCATCCTTCCTCGTAC 59.367 47.826 0.00 0.00 0.00 3.67
1384 1442 4.056050 CGTACTACTGCCTGTGAAGTTTT 58.944 43.478 0.00 0.00 0.00 2.43
1397 1455 4.854291 TGTGAAGTTTTGCTAACAACAACG 59.146 37.500 5.33 0.00 34.87 4.10
1530 1588 2.428491 TGGGGTATGTTGTTTGCTACG 58.572 47.619 0.00 0.00 0.00 3.51
1610 1668 6.349243 TCTGCCAGAATTTGAACAAATGAT 57.651 33.333 12.51 3.41 40.57 2.45
1657 1715 8.224389 TGTATAGCATGCAATTTGTTGTATCT 57.776 30.769 21.98 0.00 0.00 1.98
1781 1839 4.503910 TGTTATCAGTACGCTTGCAAGAT 58.496 39.130 30.39 18.52 0.00 2.40
1793 1851 4.036027 CGCTTGCAAGATGGATAAATCTGT 59.964 41.667 30.39 0.00 36.99 3.41
1942 2000 9.308000 TGTTCCAGATTATGTTTCAGGTAATTT 57.692 29.630 0.00 0.00 0.00 1.82
2025 2460 6.219417 AGGTGTGTTGTGATTGATGAAAAA 57.781 33.333 0.00 0.00 0.00 1.94
2118 2553 4.081406 TGAAAGCATTATGAACTGTGGCT 58.919 39.130 0.00 0.00 0.00 4.75
2161 2596 1.068434 CGGATTTGGTGTTTGTTGCCT 59.932 47.619 0.00 0.00 0.00 4.75
2180 2615 1.270550 CTGCCCCGATTTTGATATGCC 59.729 52.381 0.00 0.00 0.00 4.40
2264 2699 1.892474 CCTTTTCTTGCCCGGAATCAA 59.108 47.619 0.73 3.08 0.00 2.57
2309 2744 7.860872 AGTTTTCGATCACAGATTTTACAAACC 59.139 33.333 0.00 0.00 0.00 3.27
2310 2745 7.504924 TTTCGATCACAGATTTTACAAACCT 57.495 32.000 0.00 0.00 0.00 3.50
2312 2747 6.898041 TCGATCACAGATTTTACAAACCTTG 58.102 36.000 0.00 0.00 0.00 3.61
2318 2753 6.918022 CACAGATTTTACAAACCTTGTTCTCC 59.082 38.462 0.00 0.00 42.22 3.71
2320 2755 6.017440 CAGATTTTACAAACCTTGTTCTCCGA 60.017 38.462 0.00 0.00 42.22 4.55
2342 2780 9.558396 TCCGAGACCTTTTAAGTTATTTGTTAA 57.442 29.630 0.00 0.00 0.00 2.01
2588 3029 2.646930 TGGAGCTGTGCTAATGAATGG 58.353 47.619 0.00 0.00 39.88 3.16
2742 3183 5.730568 GCTTTGAATAGCCTGGTAAATGTCG 60.731 44.000 0.00 0.00 35.06 4.35
2840 3281 9.878599 CGTTTTCCATGGTTTAGAATATCATAC 57.121 33.333 12.58 0.00 0.00 2.39
3032 3473 2.034812 CCTAGACTTGACATACCCTCGC 59.965 54.545 0.00 0.00 0.00 5.03
3066 3508 2.533266 AGCTCTGCTTGACGAAAGAA 57.467 45.000 6.77 0.00 38.24 2.52
3067 3509 2.411904 AGCTCTGCTTGACGAAAGAAG 58.588 47.619 6.77 5.72 42.45 2.85
3117 3559 5.005394 GTGCAGCTGCTTCATTAATGAATTG 59.995 40.000 36.61 18.63 44.92 2.32
3119 3561 4.506654 CAGCTGCTTCATTAATGAATTGGC 59.493 41.667 26.83 25.13 44.92 4.52
3123 3565 3.798337 GCTTCATTAATGAATTGGCACCG 59.202 43.478 26.83 15.59 44.92 4.94
3141 3583 4.440103 GCACCGTTGTATACAATCTAGACG 59.560 45.833 20.72 17.68 38.24 4.18
3142 3584 5.575957 CACCGTTGTATACAATCTAGACGT 58.424 41.667 20.72 7.83 38.24 4.34
3143 3585 6.032094 CACCGTTGTATACAATCTAGACGTT 58.968 40.000 20.72 5.73 38.24 3.99
3144 3586 6.529125 CACCGTTGTATACAATCTAGACGTTT 59.471 38.462 20.72 6.37 38.24 3.60
3145 3587 6.529125 ACCGTTGTATACAATCTAGACGTTTG 59.471 38.462 20.72 9.38 38.24 2.93
3146 3588 6.748658 CCGTTGTATACAATCTAGACGTTTGA 59.251 38.462 20.72 0.00 38.24 2.69
3147 3589 7.434307 CCGTTGTATACAATCTAGACGTTTGAT 59.566 37.037 20.72 0.00 38.24 2.57
3148 3590 8.259872 CGTTGTATACAATCTAGACGTTTGATG 58.740 37.037 20.72 0.00 38.24 3.07
3149 3591 9.297586 GTTGTATACAATCTAGACGTTTGATGA 57.702 33.333 20.72 0.00 38.24 2.92
3150 3592 9.863845 TTGTATACAATCTAGACGTTTGATGAA 57.136 29.630 14.35 0.00 0.00 2.57
3151 3593 9.297586 TGTATACAATCTAGACGTTTGATGAAC 57.702 33.333 2.20 5.06 34.82 3.18
3163 3605 5.086888 GTTTGATGAACGTAAAACCGTCT 57.913 39.130 0.00 0.00 40.85 4.18
3164 3606 4.718858 TTGATGAACGTAAAACCGTCTG 57.281 40.909 0.00 0.00 40.85 3.51
3165 3607 3.979948 TGATGAACGTAAAACCGTCTGA 58.020 40.909 0.00 0.00 40.85 3.27
3166 3608 4.562082 TGATGAACGTAAAACCGTCTGAT 58.438 39.130 0.00 0.00 40.85 2.90
3167 3609 5.712004 TGATGAACGTAAAACCGTCTGATA 58.288 37.500 0.00 0.00 40.85 2.15
3168 3610 5.803461 TGATGAACGTAAAACCGTCTGATAG 59.197 40.000 0.00 0.00 40.85 2.08
3169 3611 4.487948 TGAACGTAAAACCGTCTGATAGG 58.512 43.478 0.00 1.33 40.85 2.57
3170 3612 2.884827 ACGTAAAACCGTCTGATAGGC 58.115 47.619 0.00 0.00 35.95 3.93
3180 3622 1.602888 CTGATAGGCTGGGCATGGC 60.603 63.158 11.56 11.56 0.00 4.40
3187 3629 2.837883 GCTGGGCATGGCACATACG 61.838 63.158 22.06 6.39 42.76 3.06
3214 3656 5.448360 GCAGGCATAAGTCAAGAATGAACTC 60.448 44.000 0.00 0.00 37.30 3.01
3216 3658 6.318144 CAGGCATAAGTCAAGAATGAACTCAT 59.682 38.462 0.00 0.00 37.30 2.90
3246 3688 6.097839 ACCGCAGTTGATAGATTTCCTTACTA 59.902 38.462 0.00 0.00 0.00 1.82
3307 3750 3.181406 TGGGGATACATTTTGGGGTCAAA 60.181 43.478 0.00 0.00 38.74 2.69
3354 3797 8.424918 AGAAGAGTAGTCAACAGAATTCTGAAA 58.575 33.333 36.15 20.00 46.59 2.69
3382 3825 7.854916 GCTTCATAATCTGATTACTGTTTCAGC 59.145 37.037 12.04 9.13 39.36 4.26
3400 3843 7.041916 TGTTTCAGCTTCTTGCATAAATTTTGG 60.042 33.333 0.00 0.00 45.94 3.28
3405 3848 8.772705 CAGCTTCTTGCATAAATTTTGGTTAAA 58.227 29.630 0.00 0.00 45.94 1.52
3413 3856 8.499162 TGCATAAATTTTGGTTAAATTGGTTCG 58.501 29.630 0.00 0.00 43.84 3.95
3428 3871 5.432885 TTGGTTCGGAATCTTTTTGAGAC 57.567 39.130 2.24 0.00 37.17 3.36
3486 3930 7.227910 TCCATTACTGTTTGAACTTGTAACCTC 59.772 37.037 11.85 0.00 34.33 3.85
3488 3932 4.761975 ACTGTTTGAACTTGTAACCTCGA 58.238 39.130 0.00 0.00 0.00 4.04
3621 4065 1.675641 CCTGGAAAGCTGGTTCCCG 60.676 63.158 13.51 7.93 45.67 5.14
3836 4281 1.806542 GATGTGTGAATTGCCACGACT 59.193 47.619 0.00 0.00 39.80 4.18
3842 4287 3.188254 TGTGAATTGCCACGACTTATGTG 59.812 43.478 0.00 0.00 39.80 3.21
3924 4370 5.483231 TGGGGAATTTTGTGCAATCTGAATA 59.517 36.000 0.00 0.00 0.00 1.75
3973 4419 5.205759 AGCTGCTTTAGTTGCATTTCTTT 57.794 34.783 0.00 0.00 39.86 2.52
3979 4425 6.183360 TGCTTTAGTTGCATTTCTTTTCCTGA 60.183 34.615 0.00 0.00 35.31 3.86
4000 4446 0.950116 CTGCTATTTGCCTAGCCAGC 59.050 55.000 7.37 0.00 42.85 4.85
4025 4471 9.545105 GCACATCCATGAATTTTGGAATATTTA 57.455 29.630 13.28 0.00 45.99 1.40
4093 4539 2.358003 AGAGAGCAACGCTGGTGC 60.358 61.111 10.05 10.05 39.88 5.01
4152 4606 2.624838 CACTGACACAATCCAAAGGCTT 59.375 45.455 0.00 0.00 0.00 4.35
4153 4607 2.887152 ACTGACACAATCCAAAGGCTTC 59.113 45.455 0.00 0.00 0.00 3.86
4197 4651 1.671742 GTGGTGTCGTGGGACTCAT 59.328 57.895 0.00 0.00 43.79 2.90
4198 4652 0.034896 GTGGTGTCGTGGGACTCATT 59.965 55.000 0.00 0.00 43.79 2.57
4199 4653 0.762418 TGGTGTCGTGGGACTCATTT 59.238 50.000 0.00 0.00 43.79 2.32
4200 4654 1.156736 GGTGTCGTGGGACTCATTTG 58.843 55.000 0.00 0.00 43.79 2.32
4201 4655 1.542547 GGTGTCGTGGGACTCATTTGT 60.543 52.381 0.00 0.00 43.79 2.83
4202 4656 2.289195 GGTGTCGTGGGACTCATTTGTA 60.289 50.000 0.00 0.00 43.79 2.41
4203 4657 2.735134 GTGTCGTGGGACTCATTTGTAC 59.265 50.000 0.00 0.00 43.79 2.90
4204 4658 2.631062 TGTCGTGGGACTCATTTGTACT 59.369 45.455 0.00 0.00 43.79 2.73
4205 4659 3.070446 TGTCGTGGGACTCATTTGTACTT 59.930 43.478 0.00 0.00 43.79 2.24
4225 4679 4.070552 GAAGGGTCACGCGAGGCT 62.071 66.667 15.93 0.00 0.00 4.58
4533 4987 1.816537 TCTCAGCTATGCCGTCACC 59.183 57.895 0.00 0.00 0.00 4.02
4534 4988 0.970427 TCTCAGCTATGCCGTCACCA 60.970 55.000 0.00 0.00 0.00 4.17
4535 4989 0.807667 CTCAGCTATGCCGTCACCAC 60.808 60.000 0.00 0.00 0.00 4.16
4536 4990 1.815421 CAGCTATGCCGTCACCACC 60.815 63.158 0.00 0.00 0.00 4.61
4537 4991 2.267642 GCTATGCCGTCACCACCA 59.732 61.111 0.00 0.00 0.00 4.17
4538 4992 1.153168 GCTATGCCGTCACCACCAT 60.153 57.895 0.00 0.00 0.00 3.55
4539 4993 1.160329 GCTATGCCGTCACCACCATC 61.160 60.000 0.00 0.00 0.00 3.51
4540 4994 0.177836 CTATGCCGTCACCACCATCA 59.822 55.000 0.00 0.00 0.00 3.07
4541 4995 0.615850 TATGCCGTCACCACCATCAA 59.384 50.000 0.00 0.00 0.00 2.57
4542 4996 0.960364 ATGCCGTCACCACCATCAAC 60.960 55.000 0.00 0.00 0.00 3.18
4543 4997 1.599518 GCCGTCACCACCATCAACA 60.600 57.895 0.00 0.00 0.00 3.33
4544 4998 0.960364 GCCGTCACCACCATCAACAT 60.960 55.000 0.00 0.00 0.00 2.71
4545 4999 1.677518 GCCGTCACCACCATCAACATA 60.678 52.381 0.00 0.00 0.00 2.29
4546 5000 2.705730 CCGTCACCACCATCAACATAA 58.294 47.619 0.00 0.00 0.00 1.90
4547 5001 3.278574 CCGTCACCACCATCAACATAAT 58.721 45.455 0.00 0.00 0.00 1.28
4548 5002 3.694072 CCGTCACCACCATCAACATAATT 59.306 43.478 0.00 0.00 0.00 1.40
4549 5003 4.157656 CCGTCACCACCATCAACATAATTT 59.842 41.667 0.00 0.00 0.00 1.82
4550 5004 5.336372 CCGTCACCACCATCAACATAATTTT 60.336 40.000 0.00 0.00 0.00 1.82
4551 5005 6.155827 CGTCACCACCATCAACATAATTTTT 58.844 36.000 0.00 0.00 0.00 1.94
4569 5023 3.336509 TTTTCCCAAGGATTTCACCCA 57.663 42.857 0.00 0.00 0.00 4.51
4570 5024 2.603075 TTCCCAAGGATTTCACCCAG 57.397 50.000 0.00 0.00 0.00 4.45
4571 5025 1.753903 TCCCAAGGATTTCACCCAGA 58.246 50.000 0.00 0.00 0.00 3.86
4572 5026 1.354368 TCCCAAGGATTTCACCCAGAC 59.646 52.381 0.00 0.00 0.00 3.51
4573 5027 1.075374 CCCAAGGATTTCACCCAGACA 59.925 52.381 0.00 0.00 0.00 3.41
4574 5028 2.162681 CCAAGGATTTCACCCAGACAC 58.837 52.381 0.00 0.00 0.00 3.67
4575 5029 1.806542 CAAGGATTTCACCCAGACACG 59.193 52.381 0.00 0.00 0.00 4.49
4576 5030 1.348064 AGGATTTCACCCAGACACGA 58.652 50.000 0.00 0.00 0.00 4.35
4577 5031 1.909302 AGGATTTCACCCAGACACGAT 59.091 47.619 0.00 0.00 0.00 3.73
4578 5032 2.093447 AGGATTTCACCCAGACACGATC 60.093 50.000 0.00 0.00 0.00 3.69
4579 5033 1.927174 GATTTCACCCAGACACGATCG 59.073 52.381 14.88 14.88 0.00 3.69
4580 5034 0.669318 TTTCACCCAGACACGATCGC 60.669 55.000 16.60 0.00 0.00 4.58
4581 5035 1.811645 TTCACCCAGACACGATCGCA 61.812 55.000 16.60 0.00 0.00 5.10
4582 5036 1.153568 CACCCAGACACGATCGCAT 60.154 57.895 16.60 2.60 0.00 4.73
4583 5037 1.141881 ACCCAGACACGATCGCATC 59.858 57.895 16.60 13.02 0.00 3.91
4584 5038 1.141665 CCCAGACACGATCGCATCA 59.858 57.895 16.60 0.00 0.00 3.07
4585 5039 1.148157 CCCAGACACGATCGCATCAC 61.148 60.000 16.60 2.70 0.00 3.06
4586 5040 1.148157 CCAGACACGATCGCATCACC 61.148 60.000 16.60 0.00 0.00 4.02
4587 5041 0.179127 CAGACACGATCGCATCACCT 60.179 55.000 16.60 1.14 0.00 4.00
4588 5042 1.065551 CAGACACGATCGCATCACCTA 59.934 52.381 16.60 0.00 0.00 3.08
4589 5043 1.749063 AGACACGATCGCATCACCTAA 59.251 47.619 16.60 0.00 0.00 2.69
4590 5044 2.165641 AGACACGATCGCATCACCTAAA 59.834 45.455 16.60 0.00 0.00 1.85
4591 5045 2.927477 GACACGATCGCATCACCTAAAA 59.073 45.455 16.60 0.00 0.00 1.52
4592 5046 3.331150 ACACGATCGCATCACCTAAAAA 58.669 40.909 16.60 0.00 0.00 1.94
4593 5047 3.938963 ACACGATCGCATCACCTAAAAAT 59.061 39.130 16.60 0.00 0.00 1.82
4594 5048 4.034048 ACACGATCGCATCACCTAAAAATC 59.966 41.667 16.60 0.00 0.00 2.17
4595 5049 4.271049 CACGATCGCATCACCTAAAAATCT 59.729 41.667 16.60 0.00 0.00 2.40
4596 5050 5.462068 CACGATCGCATCACCTAAAAATCTA 59.538 40.000 16.60 0.00 0.00 1.98
4597 5051 5.692204 ACGATCGCATCACCTAAAAATCTAG 59.308 40.000 16.60 0.00 0.00 2.43
4598 5052 5.388890 CGATCGCATCACCTAAAAATCTAGC 60.389 44.000 0.26 0.00 0.00 3.42
4599 5053 3.802139 TCGCATCACCTAAAAATCTAGCG 59.198 43.478 0.00 0.00 42.42 4.26
4600 5054 3.802139 CGCATCACCTAAAAATCTAGCGA 59.198 43.478 0.00 0.00 43.59 4.93
4601 5055 4.318121 CGCATCACCTAAAAATCTAGCGAC 60.318 45.833 0.00 0.00 43.59 5.19
4602 5056 4.024809 GCATCACCTAAAAATCTAGCGACC 60.025 45.833 0.00 0.00 0.00 4.79
4603 5057 4.133013 TCACCTAAAAATCTAGCGACCC 57.867 45.455 0.00 0.00 0.00 4.46
4604 5058 3.516300 TCACCTAAAAATCTAGCGACCCA 59.484 43.478 0.00 0.00 0.00 4.51
4605 5059 3.871594 CACCTAAAAATCTAGCGACCCAG 59.128 47.826 0.00 0.00 0.00 4.45
4606 5060 2.872858 CCTAAAAATCTAGCGACCCAGC 59.127 50.000 0.00 0.00 37.41 4.85
4607 5061 2.489938 AAAAATCTAGCGACCCAGCA 57.510 45.000 0.00 0.00 40.15 4.41
4608 5062 1.739067 AAAATCTAGCGACCCAGCAC 58.261 50.000 0.00 0.00 40.15 4.40
4609 5063 0.613260 AAATCTAGCGACCCAGCACA 59.387 50.000 0.00 0.00 40.15 4.57
4610 5064 0.108138 AATCTAGCGACCCAGCACAC 60.108 55.000 0.00 0.00 40.15 3.82
4611 5065 2.284798 ATCTAGCGACCCAGCACACG 62.285 60.000 0.00 0.00 40.15 4.49
4612 5066 3.282745 CTAGCGACCCAGCACACGT 62.283 63.158 0.00 0.00 40.15 4.49
4613 5067 3.277211 TAGCGACCCAGCACACGTC 62.277 63.158 0.00 0.00 40.15 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.039357 CGTCCACGAGGTCTGCGT 62.039 66.667 0.00 0.00 43.67 5.24
12 13 0.456312 CTAACGTCCACGAGGTCTGC 60.456 60.000 6.03 0.00 43.02 4.26
15 16 1.513586 CGCTAACGTCCACGAGGTC 60.514 63.158 6.03 0.00 43.02 3.85
17 18 0.179145 AATCGCTAACGTCCACGAGG 60.179 55.000 6.03 0.00 43.02 4.63
19 20 1.336148 ACAAATCGCTAACGTCCACGA 60.336 47.619 6.03 8.83 43.02 4.35
51 52 2.076863 GCAAATAGCCGAACAGTGTCT 58.923 47.619 0.00 0.00 37.23 3.41
61 62 2.709475 GGCAGTCGCAAATAGCCG 59.291 61.111 0.00 0.00 41.38 5.52
65 66 2.124901 CCGGGGCAGTCGCAAATA 60.125 61.111 0.00 0.00 41.24 1.40
101 102 1.508632 GCAGGAGTCGTTTGCTTGTA 58.491 50.000 5.85 0.00 35.05 2.41
165 169 2.838693 TGACGTGGTGGACCCGAA 60.839 61.111 11.98 0.50 34.97 4.30
298 309 4.056125 CTCGCGGCCACAGACAGA 62.056 66.667 6.13 0.00 0.00 3.41
445 469 0.325296 TACTGAATCAGGACGGGGCT 60.325 55.000 15.38 0.00 35.51 5.19
451 475 1.146358 GGCGCGTACTGAATCAGGAC 61.146 60.000 15.46 15.46 41.58 3.85
452 476 1.141019 GGCGCGTACTGAATCAGGA 59.859 57.895 15.38 2.37 35.51 3.86
453 477 1.883084 GGGCGCGTACTGAATCAGG 60.883 63.158 15.38 0.00 35.51 3.86
454 478 1.883084 GGGGCGCGTACTGAATCAG 60.883 63.158 8.98 8.98 37.52 2.90
455 479 2.185867 GGGGCGCGTACTGAATCA 59.814 61.111 8.43 0.00 0.00 2.57
456 480 2.588034 GGGGGCGCGTACTGAATC 60.588 66.667 8.43 0.00 0.00 2.52
470 494 4.354943 ACAGGACCAGGGAGGGGG 62.355 72.222 0.00 0.00 43.89 5.40
475 501 3.537506 TGGGGACAGGACCAGGGA 61.538 66.667 0.00 0.00 35.01 4.20
605 634 1.595993 CCCCGACGAGAAGAAGAGCA 61.596 60.000 0.00 0.00 0.00 4.26
606 635 1.139947 CCCCGACGAGAAGAAGAGC 59.860 63.158 0.00 0.00 0.00 4.09
636 665 2.094659 CAGTAGAACCGCACGCAGG 61.095 63.158 0.00 0.00 0.00 4.85
739 779 4.270084 CGCAGAAGTAGAACACAAGAACAA 59.730 41.667 0.00 0.00 0.00 2.83
753 793 2.048597 CACGCCCACGCAGAAGTA 60.049 61.111 0.00 0.00 45.53 2.24
754 794 4.988598 CCACGCCCACGCAGAAGT 62.989 66.667 0.00 0.00 45.53 3.01
755 795 4.680237 TCCACGCCCACGCAGAAG 62.680 66.667 0.00 0.00 45.53 2.85
756 796 4.980805 GTCCACGCCCACGCAGAA 62.981 66.667 0.00 0.00 45.53 3.02
849 889 3.414549 TTTGCCGAACAGTGAAAGAAC 57.585 42.857 0.00 0.00 0.00 3.01
878 918 3.895025 CTGTTCCATGCCGACAGG 58.105 61.111 11.38 0.00 37.67 4.00
879 919 1.746615 CCCTGTTCCATGCCGACAG 60.747 63.158 11.98 11.98 40.27 3.51
963 1014 1.465187 GCGACCAAATTAACGTCAGGC 60.465 52.381 0.00 0.00 0.00 4.85
965 1016 2.724839 GCTGCGACCAAATTAACGTCAG 60.725 50.000 0.00 0.00 35.18 3.51
968 1019 1.231221 TGCTGCGACCAAATTAACGT 58.769 45.000 0.00 0.00 0.00 3.99
969 1020 2.542766 ATGCTGCGACCAAATTAACG 57.457 45.000 0.00 0.00 0.00 3.18
972 1030 2.276472 GCAATGCTGCGACCAAATTA 57.724 45.000 0.00 0.00 39.20 1.40
1020 1078 2.284331 TTGAGCCAGTAGCCCGGA 60.284 61.111 0.73 0.00 45.47 5.14
1089 1147 4.096532 TCGTACTTCCAGATCAAGTAGCAG 59.903 45.833 4.77 1.76 37.08 4.24
1174 1232 1.526575 TACACAACTCCGGGTCCGAC 61.527 60.000 11.39 0.00 42.83 4.79
1319 1377 4.167268 CTGAGTGTAGTAAAGGAAGACGC 58.833 47.826 0.00 0.00 0.00 5.19
1366 1424 2.880890 AGCAAAACTTCACAGGCAGTAG 59.119 45.455 0.00 0.00 0.00 2.57
1384 1442 4.153475 GCTATCTTTCCGTTGTTGTTAGCA 59.847 41.667 0.00 0.00 32.01 3.49
1397 1455 1.588861 GACACTTCGCGCTATCTTTCC 59.411 52.381 5.56 0.00 0.00 3.13
1530 1588 7.390718 AGAATAAGTGGTCACAATGAGTTTACC 59.609 37.037 3.82 0.00 35.27 2.85
1781 1839 6.301486 CCATGATCTCCAACAGATTTATCCA 58.699 40.000 0.00 0.00 42.48 3.41
1793 1851 6.940430 TGATATAAGAGCCATGATCTCCAA 57.060 37.500 10.18 1.96 0.00 3.53
1958 2016 6.437928 TCAGAAAATCATGTGCACTTTGTAC 58.562 36.000 19.41 5.99 33.42 2.90
2118 2553 0.545646 TCATCACCATTCATCGGCCA 59.454 50.000 2.24 0.00 0.00 5.36
2161 2596 1.133513 AGGCATATCAAAATCGGGGCA 60.134 47.619 0.00 0.00 0.00 5.36
2180 2615 4.046462 CACCTGCATTTGTCTGAAAACAG 58.954 43.478 0.00 0.00 0.00 3.16
2309 2744 5.298347 ACTTAAAAGGTCTCGGAGAACAAG 58.702 41.667 24.02 19.18 33.37 3.16
2310 2745 5.286267 ACTTAAAAGGTCTCGGAGAACAA 57.714 39.130 24.02 9.25 33.37 2.83
2312 2747 7.902387 AATAACTTAAAAGGTCTCGGAGAAC 57.098 36.000 15.26 15.26 34.09 3.01
2342 2780 6.940430 ACAATTCTTCCCATTTCTTTGGAT 57.060 33.333 0.00 0.00 39.25 3.41
2454 2895 9.802039 CTAGAGGAGTCCTATTTAGACTTATGT 57.198 37.037 12.99 0.00 44.55 2.29
2455 2896 9.802039 ACTAGAGGAGTCCTATTTAGACTTATG 57.198 37.037 22.45 8.61 44.55 1.90
2483 2924 4.101741 GGACTAGCTCAATAACCAGGATGT 59.898 45.833 0.00 0.00 0.00 3.06
2742 3183 7.066284 GGTATGGATCAATATATTCTGGCACAC 59.934 40.741 0.00 0.00 0.00 3.82
2840 3281 0.747283 GGCCTGTCCAGAGCATGAAG 60.747 60.000 0.00 0.00 34.01 3.02
3065 3507 8.154856 TGGAAGAATAGCACTACAAAAGTACTT 58.845 33.333 1.12 1.12 35.76 2.24
3066 3508 7.676947 TGGAAGAATAGCACTACAAAAGTACT 58.323 34.615 0.00 0.00 35.76 2.73
3067 3509 7.900782 TGGAAGAATAGCACTACAAAAGTAC 57.099 36.000 0.00 0.00 35.76 2.73
3117 3559 4.743644 GTCTAGATTGTATACAACGGTGCC 59.256 45.833 20.26 4.69 38.86 5.01
3119 3561 5.575957 ACGTCTAGATTGTATACAACGGTG 58.424 41.667 20.26 0.00 38.86 4.94
3123 3565 9.297586 TCATCAAACGTCTAGATTGTATACAAC 57.702 33.333 20.26 13.70 38.86 3.32
3151 3593 2.858344 CAGCCTATCAGACGGTTTTACG 59.142 50.000 0.00 0.00 40.31 3.18
3152 3594 3.195661 CCAGCCTATCAGACGGTTTTAC 58.804 50.000 0.00 0.00 0.00 2.01
3153 3595 2.169769 CCCAGCCTATCAGACGGTTTTA 59.830 50.000 0.00 0.00 0.00 1.52
3154 3596 1.065418 CCCAGCCTATCAGACGGTTTT 60.065 52.381 0.00 0.00 0.00 2.43
3155 3597 0.541863 CCCAGCCTATCAGACGGTTT 59.458 55.000 0.00 0.00 0.00 3.27
3156 3598 1.972660 GCCCAGCCTATCAGACGGTT 61.973 60.000 0.00 0.00 0.00 4.44
3157 3599 2.435693 GCCCAGCCTATCAGACGGT 61.436 63.158 0.00 0.00 0.00 4.83
3158 3600 1.762522 ATGCCCAGCCTATCAGACGG 61.763 60.000 0.00 0.00 0.00 4.79
3159 3601 0.602106 CATGCCCAGCCTATCAGACG 60.602 60.000 0.00 0.00 0.00 4.18
3160 3602 0.250640 CCATGCCCAGCCTATCAGAC 60.251 60.000 0.00 0.00 0.00 3.51
3161 3603 2.060567 GCCATGCCCAGCCTATCAGA 62.061 60.000 0.00 0.00 0.00 3.27
3162 3604 1.602888 GCCATGCCCAGCCTATCAG 60.603 63.158 0.00 0.00 0.00 2.90
3163 3605 2.385266 TGCCATGCCCAGCCTATCA 61.385 57.895 0.00 0.00 0.00 2.15
3164 3606 1.900498 GTGCCATGCCCAGCCTATC 60.900 63.158 0.00 0.00 0.00 2.08
3165 3607 2.015243 ATGTGCCATGCCCAGCCTAT 62.015 55.000 0.00 0.00 0.00 2.57
3166 3608 1.351850 TATGTGCCATGCCCAGCCTA 61.352 55.000 0.00 0.00 0.00 3.93
3167 3609 2.692824 TATGTGCCATGCCCAGCCT 61.693 57.895 0.00 0.00 0.00 4.58
3168 3610 2.123769 TATGTGCCATGCCCAGCC 60.124 61.111 0.00 0.00 0.00 4.85
3169 3611 2.837883 CGTATGTGCCATGCCCAGC 61.838 63.158 0.00 0.00 0.00 4.85
3170 3612 0.179059 TACGTATGTGCCATGCCCAG 60.179 55.000 0.00 0.00 0.00 4.45
3180 3622 3.717707 ACTTATGCCTGCTACGTATGTG 58.282 45.455 0.00 0.00 0.00 3.21
3187 3629 5.118990 TCATTCTTGACTTATGCCTGCTAC 58.881 41.667 0.00 0.00 0.00 3.58
3193 3635 6.690194 ATGAGTTCATTCTTGACTTATGCC 57.310 37.500 0.00 0.00 31.37 4.40
3214 3656 6.791887 AATCTATCAACTGCGGTCAATATG 57.208 37.500 0.00 0.00 0.00 1.78
3216 3658 5.758296 GGAAATCTATCAACTGCGGTCAATA 59.242 40.000 0.00 0.00 0.00 1.90
3246 3688 6.876257 GTCTGGATTGATGTCTAAGACAAACT 59.124 38.462 0.00 0.00 45.96 2.66
3307 3750 9.676861 TCTTCTTGATCATCTATTCACAAATGT 57.323 29.630 0.00 0.00 0.00 2.71
3334 3777 7.195839 AGCTTTTCAGAATTCTGTTGACTAC 57.804 36.000 29.80 16.63 44.12 2.73
3354 3797 9.453572 TGAAACAGTAATCAGATTATGAAGCTT 57.546 29.630 0.00 0.00 42.53 3.74
3400 3843 8.582433 TCAAAAAGATTCCGAACCAATTTAAC 57.418 30.769 0.00 0.00 0.00 2.01
3405 3848 5.534654 TGTCTCAAAAAGATTCCGAACCAAT 59.465 36.000 0.00 0.00 36.11 3.16
3486 3930 6.662414 TTAAGATCACAGTTTAAGGCATCG 57.338 37.500 0.00 0.00 0.00 3.84
3514 3958 3.262420 CCAAGTACCTGCATGAGTACAC 58.738 50.000 18.54 0.00 41.07 2.90
3597 4041 0.980423 ACCAGCTTTCCAGGAGAGAC 59.020 55.000 11.36 2.61 0.00 3.36
3621 4065 7.165483 GTCTACTTCACGTATGTGTAACTATGC 59.835 40.741 14.63 0.00 46.49 3.14
3750 4195 3.157087 ACAAGGAATTACAAGCACCTGG 58.843 45.455 0.00 0.00 0.00 4.45
3751 4196 5.003804 AGTACAAGGAATTACAAGCACCTG 58.996 41.667 0.00 0.00 0.00 4.00
3758 4203 7.422399 GTGCTTTCAAGTACAAGGAATTACAA 58.578 34.615 3.17 0.00 40.73 2.41
3883 4329 1.576421 CACTGGAAAGAACGCCTGC 59.424 57.895 0.00 0.00 0.00 4.85
3924 4370 2.204463 TGGTGGGGTGTCACATATCAT 58.796 47.619 5.12 0.00 39.27 2.45
3973 4419 6.735875 GCTAGGCAAATAGCAGGTCAGGAA 62.736 50.000 9.27 0.00 46.12 3.36
4025 4471 0.842467 CCCACCTTCCCCTTCTCTGT 60.842 60.000 0.00 0.00 0.00 3.41
4026 4472 1.566298 CCCCACCTTCCCCTTCTCTG 61.566 65.000 0.00 0.00 0.00 3.35
4048 4494 3.374058 GTCGATAGGCTGCAAAGCTTTTA 59.626 43.478 9.53 0.59 38.04 1.52
4049 4495 2.162408 GTCGATAGGCTGCAAAGCTTTT 59.838 45.455 9.53 0.00 38.04 2.27
4093 4539 2.730090 GCTGACCGATGCTGTTTGATTG 60.730 50.000 0.00 0.00 0.00 2.67
4197 4651 3.065648 GCGTGACCCTTCAAAAGTACAAA 59.934 43.478 0.00 0.00 31.90 2.83
4198 4652 2.614983 GCGTGACCCTTCAAAAGTACAA 59.385 45.455 0.00 0.00 31.90 2.41
4199 4653 2.215196 GCGTGACCCTTCAAAAGTACA 58.785 47.619 0.00 0.00 31.90 2.90
4200 4654 1.193874 CGCGTGACCCTTCAAAAGTAC 59.806 52.381 0.00 0.00 31.90 2.73
4201 4655 1.068895 TCGCGTGACCCTTCAAAAGTA 59.931 47.619 5.77 0.00 31.90 2.24
4202 4656 0.179067 TCGCGTGACCCTTCAAAAGT 60.179 50.000 5.77 0.00 31.90 2.66
4203 4657 0.512952 CTCGCGTGACCCTTCAAAAG 59.487 55.000 5.77 0.00 31.90 2.27
4204 4658 0.882927 CCTCGCGTGACCCTTCAAAA 60.883 55.000 10.21 0.00 31.90 2.44
4205 4659 1.301401 CCTCGCGTGACCCTTCAAA 60.301 57.895 10.21 0.00 31.90 2.69
4515 4969 0.970427 TGGTGACGGCATAGCTGAGA 60.970 55.000 0.00 0.00 38.46 3.27
4516 4970 0.807667 GTGGTGACGGCATAGCTGAG 60.808 60.000 0.00 0.00 38.46 3.35
4517 4971 1.218047 GTGGTGACGGCATAGCTGA 59.782 57.895 0.00 0.00 38.46 4.26
4518 4972 1.815421 GGTGGTGACGGCATAGCTG 60.815 63.158 0.00 0.00 41.29 4.24
4519 4973 1.626356 ATGGTGGTGACGGCATAGCT 61.626 55.000 0.00 0.00 0.00 3.32
4520 4974 1.153168 ATGGTGGTGACGGCATAGC 60.153 57.895 0.00 0.00 0.00 2.97
4521 4975 0.177836 TGATGGTGGTGACGGCATAG 59.822 55.000 0.00 0.00 0.00 2.23
4522 4976 0.615850 TTGATGGTGGTGACGGCATA 59.384 50.000 0.00 0.00 0.00 3.14
4523 4977 0.960364 GTTGATGGTGGTGACGGCAT 60.960 55.000 0.00 0.00 0.00 4.40
4524 4978 1.599518 GTTGATGGTGGTGACGGCA 60.600 57.895 0.00 0.00 0.00 5.69
4525 4979 0.960364 ATGTTGATGGTGGTGACGGC 60.960 55.000 0.00 0.00 0.00 5.68
4526 4980 2.394930 TATGTTGATGGTGGTGACGG 57.605 50.000 0.00 0.00 0.00 4.79
4527 4981 4.963276 AATTATGTTGATGGTGGTGACG 57.037 40.909 0.00 0.00 0.00 4.35
4548 5002 3.645687 CTGGGTGAAATCCTTGGGAAAAA 59.354 43.478 0.00 0.00 34.34 1.94
4549 5003 3.116939 TCTGGGTGAAATCCTTGGGAAAA 60.117 43.478 0.00 0.00 34.34 2.29
4550 5004 2.448961 TCTGGGTGAAATCCTTGGGAAA 59.551 45.455 0.00 0.00 34.34 3.13
4551 5005 2.069775 TCTGGGTGAAATCCTTGGGAA 58.930 47.619 0.00 0.00 34.34 3.97
4552 5006 1.354368 GTCTGGGTGAAATCCTTGGGA 59.646 52.381 0.00 0.00 35.55 4.37
4553 5007 1.075374 TGTCTGGGTGAAATCCTTGGG 59.925 52.381 0.00 0.00 0.00 4.12
4554 5008 2.162681 GTGTCTGGGTGAAATCCTTGG 58.837 52.381 0.00 0.00 0.00 3.61
4555 5009 1.806542 CGTGTCTGGGTGAAATCCTTG 59.193 52.381 0.00 0.00 0.00 3.61
4556 5010 1.697432 TCGTGTCTGGGTGAAATCCTT 59.303 47.619 0.00 0.00 0.00 3.36
4557 5011 1.348064 TCGTGTCTGGGTGAAATCCT 58.652 50.000 0.00 0.00 0.00 3.24
4558 5012 2.280628 GATCGTGTCTGGGTGAAATCC 58.719 52.381 0.00 0.00 0.00 3.01
4559 5013 1.927174 CGATCGTGTCTGGGTGAAATC 59.073 52.381 7.03 0.00 0.00 2.17
4560 5014 2.007049 GCGATCGTGTCTGGGTGAAAT 61.007 52.381 17.81 0.00 0.00 2.17
4561 5015 0.669318 GCGATCGTGTCTGGGTGAAA 60.669 55.000 17.81 0.00 0.00 2.69
4562 5016 1.080093 GCGATCGTGTCTGGGTGAA 60.080 57.895 17.81 0.00 0.00 3.18
4563 5017 1.604147 ATGCGATCGTGTCTGGGTGA 61.604 55.000 17.81 0.00 0.00 4.02
4564 5018 1.148157 GATGCGATCGTGTCTGGGTG 61.148 60.000 17.81 0.00 0.00 4.61
4565 5019 1.141881 GATGCGATCGTGTCTGGGT 59.858 57.895 17.81 0.00 0.00 4.51
4566 5020 1.141665 TGATGCGATCGTGTCTGGG 59.858 57.895 17.81 0.00 0.00 4.45
4567 5021 1.148157 GGTGATGCGATCGTGTCTGG 61.148 60.000 17.81 0.00 0.00 3.86
4568 5022 0.179127 AGGTGATGCGATCGTGTCTG 60.179 55.000 17.81 0.00 0.00 3.51
4569 5023 1.389555 TAGGTGATGCGATCGTGTCT 58.610 50.000 17.81 8.54 0.00 3.41
4570 5024 2.203800 TTAGGTGATGCGATCGTGTC 57.796 50.000 17.81 14.90 0.00 3.67
4571 5025 2.665649 TTTAGGTGATGCGATCGTGT 57.334 45.000 17.81 5.48 0.00 4.49
4572 5026 4.271049 AGATTTTTAGGTGATGCGATCGTG 59.729 41.667 17.81 0.00 0.00 4.35
4573 5027 4.442706 AGATTTTTAGGTGATGCGATCGT 58.557 39.130 17.81 0.00 0.00 3.73
4574 5028 5.388890 GCTAGATTTTTAGGTGATGCGATCG 60.389 44.000 11.69 11.69 0.00 3.69
4575 5029 5.388890 CGCTAGATTTTTAGGTGATGCGATC 60.389 44.000 0.00 0.00 41.79 3.69
4576 5030 4.449068 CGCTAGATTTTTAGGTGATGCGAT 59.551 41.667 0.00 0.00 41.79 4.58
4577 5031 3.802139 CGCTAGATTTTTAGGTGATGCGA 59.198 43.478 0.00 0.00 41.79 5.10
4578 5032 3.802139 TCGCTAGATTTTTAGGTGATGCG 59.198 43.478 0.00 0.00 40.81 4.73
4579 5033 4.024809 GGTCGCTAGATTTTTAGGTGATGC 60.025 45.833 0.00 0.00 0.00 3.91
4580 5034 4.511826 GGGTCGCTAGATTTTTAGGTGATG 59.488 45.833 0.00 0.00 0.00 3.07
4581 5035 4.163458 TGGGTCGCTAGATTTTTAGGTGAT 59.837 41.667 0.00 0.00 0.00 3.06
4582 5036 3.516300 TGGGTCGCTAGATTTTTAGGTGA 59.484 43.478 0.00 0.00 0.00 4.02
4583 5037 3.869065 TGGGTCGCTAGATTTTTAGGTG 58.131 45.455 0.00 0.00 0.00 4.00
4584 5038 3.681874 GCTGGGTCGCTAGATTTTTAGGT 60.682 47.826 0.00 0.00 0.00 3.08
4585 5039 2.872858 GCTGGGTCGCTAGATTTTTAGG 59.127 50.000 0.00 0.00 0.00 2.69
4586 5040 3.309954 GTGCTGGGTCGCTAGATTTTTAG 59.690 47.826 0.00 0.00 0.00 1.85
4587 5041 3.267483 GTGCTGGGTCGCTAGATTTTTA 58.733 45.455 0.00 0.00 0.00 1.52
4588 5042 2.084546 GTGCTGGGTCGCTAGATTTTT 58.915 47.619 0.00 0.00 0.00 1.94
4589 5043 1.003118 TGTGCTGGGTCGCTAGATTTT 59.997 47.619 0.00 0.00 0.00 1.82
4590 5044 0.613260 TGTGCTGGGTCGCTAGATTT 59.387 50.000 0.00 0.00 0.00 2.17
4591 5045 0.108138 GTGTGCTGGGTCGCTAGATT 60.108 55.000 0.00 0.00 0.00 2.40
4592 5046 1.517832 GTGTGCTGGGTCGCTAGAT 59.482 57.895 0.00 0.00 0.00 1.98
4593 5047 2.970639 GTGTGCTGGGTCGCTAGA 59.029 61.111 0.00 0.00 0.00 2.43
4594 5048 2.507102 CGTGTGCTGGGTCGCTAG 60.507 66.667 0.00 0.00 0.00 3.42
4595 5049 3.277211 GACGTGTGCTGGGTCGCTA 62.277 63.158 0.00 0.00 0.00 4.26
4596 5050 4.664677 GACGTGTGCTGGGTCGCT 62.665 66.667 0.00 0.00 0.00 4.93


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

AutoCloner maintained by Alex Coulton.