Multiple sequence alignment - TraesCS7B01G141100

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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 TraesCS7B01G141100 chr7B 100.000 3594 0 0 1 3594 179249652 179253245 0.000000e+00 6637.0
1 TraesCS7B01G141100 chr7A 91.997 2599 146 28 721 3296 232594052 232591493 0.000000e+00 3591.0
2 TraesCS7B01G141100 chr7A 96.078 714 23 3 1 710 232594853 232594141 0.000000e+00 1158.0
3 TraesCS7B01G141100 chr7D 94.385 2048 89 16 721 2756 220286592 220284559 0.000000e+00 3121.0
4 TraesCS7B01G141100 chr7D 96.774 713 19 2 1 710 220287385 220286674 0.000000e+00 1186.0
5 TraesCS7B01G141100 chr7D 81.450 593 53 29 2748 3296 220280553 220279974 1.980000e-117 433.0
6 TraesCS7B01G141100 chr4B 91.197 284 25 0 1 284 605162714 605162997 1.570000e-103 387.0
7 TraesCS7B01G141100 chr4A 91.371 197 16 1 1 197 564740379 564740574 5.910000e-68 268.0
8 TraesCS7B01G141100 chr1D 86.486 74 9 1 2900 2973 453270292 453270364 2.970000e-11 80.5


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 TraesCS7B01G141100 chr7B 179249652 179253245 3593 False 6637.0 6637 100.0000 1 3594 1 chr7B.!!$F1 3593
1 TraesCS7B01G141100 chr7A 232591493 232594853 3360 True 2374.5 3591 94.0375 1 3296 2 chr7A.!!$R1 3295
2 TraesCS7B01G141100 chr7D 220284559 220287385 2826 True 2153.5 3121 95.5795 1 2756 2 chr7D.!!$R2 2755
3 TraesCS7B01G141100 chr7D 220279974 220280553 579 True 433.0 433 81.4500 2748 3296 1 chr7D.!!$R1 548

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
651 656 0.456221 AGCGACGGGTTATCAGTCAG 59.544 55.0 0.00 0.00 34.80 3.51 F
1127 1210 0.610687 GTCAGAGACCCAGGTCCTTG 59.389 60.0 13.27 11.64 45.59 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2098 2183 0.976641 TAGGGCCTTGAGTGTGTGAG 59.023 55.0 13.45 0.0 0.0 3.51 R
2938 3038 0.106149 CAAGGTATGGTCTACGGGGC 59.894 60.0 0.00 0.0 0.0 5.80 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
84 85 3.137533 GCTCAAAGAACAAGAGTCAGCT 58.862 45.455 0.00 0.00 0.00 4.24
108 109 1.068541 GCAAGTTACAAAAGGCTCCGG 60.069 52.381 0.00 0.00 0.00 5.14
165 166 1.400242 GCAACTGAAACAGATGACGGC 60.400 52.381 11.94 0.00 36.57 5.68
185 186 3.321111 GGCGAGGAAGTGGAGATATTACA 59.679 47.826 0.00 0.00 0.00 2.41
204 205 0.536006 ACAAAGAAGCTGAAGCCGCT 60.536 50.000 0.00 0.00 43.38 5.52
249 250 6.778069 TCAAAACATTGTATAACCTCCAACCA 59.222 34.615 0.00 0.00 0.00 3.67
335 336 1.471119 CACTTGGCAGAGATGGCATT 58.529 50.000 0.00 0.00 43.87 3.56
442 443 0.684805 CGTAGCAGAACCCTCCTCCT 60.685 60.000 0.00 0.00 0.00 3.69
454 455 0.668706 CTCCTCCTGGCGAATATGCG 60.669 60.000 0.00 0.00 35.06 4.73
462 463 1.137513 GGCGAATATGCGTACCTCAC 58.862 55.000 4.71 0.00 35.06 3.51
537 541 5.554437 TGAGTGTATACCACCTGTTTTGA 57.446 39.130 0.00 0.00 45.74 2.69
551 555 6.708054 CACCTGTTTTGAATACTCTGAACTCT 59.292 38.462 0.00 0.00 0.00 3.24
627 631 5.021033 TGTTGTGCTGGTTTTTGATTGAT 57.979 34.783 0.00 0.00 0.00 2.57
628 632 6.154203 TGTTGTGCTGGTTTTTGATTGATA 57.846 33.333 0.00 0.00 0.00 2.15
651 656 0.456221 AGCGACGGGTTATCAGTCAG 59.544 55.000 0.00 0.00 34.80 3.51
670 675 9.551734 TCAGTCAGAATGTAATCAGAATAATGG 57.448 33.333 0.00 0.00 37.40 3.16
671 676 8.781196 CAGTCAGAATGTAATCAGAATAATGGG 58.219 37.037 0.00 0.00 37.40 4.00
677 682 9.082313 GAATGTAATCAGAATAATGGGTCCATT 57.918 33.333 17.97 17.97 46.85 3.16
710 715 3.632643 TCTGCTTTGCCATCACATCTA 57.367 42.857 0.00 0.00 0.00 1.98
712 717 3.198417 TCTGCTTTGCCATCACATCTAGA 59.802 43.478 0.00 0.00 0.00 2.43
713 718 3.273434 TGCTTTGCCATCACATCTAGAC 58.727 45.455 0.00 0.00 0.00 2.59
714 719 3.054875 TGCTTTGCCATCACATCTAGACT 60.055 43.478 0.00 0.00 0.00 3.24
715 720 3.311871 GCTTTGCCATCACATCTAGACTG 59.688 47.826 0.00 0.00 0.00 3.51
716 721 3.548745 TTGCCATCACATCTAGACTGG 57.451 47.619 0.00 0.00 0.00 4.00
717 722 2.470990 TGCCATCACATCTAGACTGGT 58.529 47.619 0.00 0.00 0.00 4.00
746 829 2.332063 AGACTGGTTTCTGGTGTGTG 57.668 50.000 0.00 0.00 0.00 3.82
812 895 7.700322 AATGCGATCTTGTGTAATGTACTAG 57.300 36.000 0.00 0.00 0.00 2.57
813 896 6.203808 TGCGATCTTGTGTAATGTACTAGT 57.796 37.500 0.00 0.00 0.00 2.57
814 897 7.324354 TGCGATCTTGTGTAATGTACTAGTA 57.676 36.000 0.00 0.00 0.00 1.82
931 1014 5.238650 GCCTTTCTGCTTGTTCTACTTGTAA 59.761 40.000 0.00 0.00 0.00 2.41
1127 1210 0.610687 GTCAGAGACCCAGGTCCTTG 59.389 60.000 13.27 11.64 45.59 3.61
1157 1240 7.500892 TCTCACTCTAATGATCCACTCTCTTAC 59.499 40.741 0.00 0.00 0.00 2.34
1171 1254 4.193090 CTCTCTTACTCCTCTCGTTGCTA 58.807 47.826 0.00 0.00 0.00 3.49
1211 1294 7.077605 CGTTCTTGTTTCTTCTTGATAATGCA 58.922 34.615 0.00 0.00 0.00 3.96
1240 1323 5.530543 TGTTGAAAGTGATAGCAATGTGACA 59.469 36.000 0.00 0.00 0.00 3.58
1373 1456 1.608717 AAGGGAGCTTCGACGATGCT 61.609 55.000 31.18 31.18 43.95 3.79
1435 1518 3.284617 TCATCACCAATGCTGATTCCAG 58.715 45.455 0.00 0.00 43.22 3.86
1508 1593 7.037586 TCCTATGTTGGAAGGTAAAAGATGTCT 60.038 37.037 0.00 0.00 34.30 3.41
1512 1597 7.284074 TGTTGGAAGGTAAAAGATGTCTTGTA 58.716 34.615 0.00 0.00 36.12 2.41
1544 1629 6.372659 GGTCTTAATTGACAGACATGTGATGT 59.627 38.462 1.15 8.18 41.19 3.06
1654 1739 1.361271 GGTTGTCCTCACGTCGTCA 59.639 57.895 0.00 0.00 0.00 4.35
1802 1887 5.998454 ATGCTGATGTATCTTTCTTTCCG 57.002 39.130 0.00 0.00 0.00 4.30
2098 2183 1.677217 GCTATGCTGCTACCCTATGCC 60.677 57.143 0.00 0.00 0.00 4.40
2373 2465 4.025396 CCGAAGCATATATTCATCATCGCC 60.025 45.833 0.00 0.00 0.00 5.54
2378 2470 4.581493 CATATATTCATCATCGCCGTTGC 58.419 43.478 0.00 0.00 0.00 4.17
2387 2479 0.529337 ATCGCCGTTGCTCATCTGAG 60.529 55.000 2.75 2.75 44.75 3.35
2400 2492 2.254737 ATCTGAGCACAGCCAGCCTC 62.255 60.000 6.24 0.00 43.17 4.70
2423 2515 7.041780 CCTCAGTTTGTTAGCATATATCACCAC 60.042 40.741 0.00 0.00 0.00 4.16
2539 2631 0.103208 GCGTGGAGGAGATGTTCGAT 59.897 55.000 0.00 0.00 0.00 3.59
2652 2745 2.045926 AAGATGAGGCCGTGGTGC 60.046 61.111 0.00 0.00 0.00 5.01
2708 2807 4.836125 AACACATGAGAAGAATGCGTTT 57.164 36.364 0.00 0.00 28.45 3.60
2765 2864 0.948141 GCCACTCTGCAGACAGTCAC 60.948 60.000 13.74 0.89 44.77 3.67
2873 2973 0.889186 ACTTCGCTTCCACCGCAATT 60.889 50.000 0.00 0.00 0.00 2.32
2935 3035 4.722700 TGCTCGGGGAAGCCTTGC 62.723 66.667 0.00 0.00 41.77 4.01
2957 3057 0.106149 GCCCCGTAGACCATACCTTG 59.894 60.000 0.00 0.00 0.00 3.61
3006 3114 0.958382 TGGTGGTCGCTGCCATTAAC 60.958 55.000 0.00 0.00 41.08 2.01
3008 3116 1.017177 GTGGTCGCTGCCATTAACGA 61.017 55.000 0.00 0.00 41.08 3.85
3009 3117 0.320858 TGGTCGCTGCCATTAACGAA 60.321 50.000 0.00 0.00 36.14 3.85
3010 3118 0.096454 GGTCGCTGCCATTAACGAAC 59.904 55.000 0.00 0.00 36.14 3.95
3014 3122 0.247145 GCTGCCATTAACGAACGTCG 60.247 55.000 0.00 5.97 46.93 5.12
3028 3136 2.488079 CGTCGTCGTTGTTTCTCGT 58.512 52.632 0.00 0.00 0.00 4.18
3030 3138 2.036217 CGTCGTCGTTGTTTCTCGTTA 58.964 47.619 0.00 0.00 0.00 3.18
3066 3174 3.622514 CCTGAAGGGGAGGAGTCG 58.377 66.667 0.00 0.00 31.48 4.18
3067 3175 2.060980 CCTGAAGGGGAGGAGTCGG 61.061 68.421 0.00 0.00 31.48 4.79
3068 3176 1.000486 CTGAAGGGGAGGAGTCGGA 60.000 63.158 0.00 0.00 0.00 4.55
3069 3177 1.000486 TGAAGGGGAGGAGTCGGAG 60.000 63.158 0.00 0.00 0.00 4.63
3083 3191 2.368875 AGTCGGAGGACATCAAAACACT 59.631 45.455 0.00 0.00 45.92 3.55
3084 3192 3.576982 AGTCGGAGGACATCAAAACACTA 59.423 43.478 0.00 0.00 45.92 2.74
3118 3228 1.874872 CGTCGGAGCAAACCCTAAAAA 59.125 47.619 0.00 0.00 0.00 1.94
3136 3246 0.754472 AAATGGTGTTGCTGCTTGCT 59.246 45.000 0.00 0.00 43.37 3.91
3149 3259 3.064545 GCTGCTTGCTAGAAATCATCGTT 59.935 43.478 0.00 0.00 38.95 3.85
3155 3291 5.282055 TGCTAGAAATCATCGTTGGAGAT 57.718 39.130 0.00 0.00 0.00 2.75
3165 3301 7.721286 ATCATCGTTGGAGATTGAGAAATAC 57.279 36.000 0.00 0.00 0.00 1.89
3182 3354 0.759959 TACCGCTGTCAGGGACAAAA 59.240 50.000 18.00 0.00 42.26 2.44
3183 3355 0.110486 ACCGCTGTCAGGGACAAAAT 59.890 50.000 18.00 0.00 42.26 1.82
3184 3356 0.804989 CCGCTGTCAGGGACAAAATC 59.195 55.000 18.00 0.00 42.26 2.17
3186 3358 2.354704 CCGCTGTCAGGGACAAAATCTA 60.355 50.000 18.00 0.00 42.26 1.98
3189 3361 3.864921 GCTGTCAGGGACAAAATCTACGT 60.865 47.826 1.14 0.00 42.26 3.57
3190 3362 3.659786 TGTCAGGGACAAAATCTACGTG 58.340 45.455 0.00 0.00 39.78 4.49
3191 3363 3.000727 GTCAGGGACAAAATCTACGTGG 58.999 50.000 0.00 0.00 32.09 4.94
3192 3364 2.635915 TCAGGGACAAAATCTACGTGGT 59.364 45.455 0.00 0.00 0.00 4.16
3193 3365 2.742053 CAGGGACAAAATCTACGTGGTG 59.258 50.000 0.00 0.00 0.00 4.17
3194 3366 2.370849 AGGGACAAAATCTACGTGGTGT 59.629 45.455 0.00 0.00 0.00 4.16
3195 3367 3.143728 GGGACAAAATCTACGTGGTGTT 58.856 45.455 0.00 0.00 0.00 3.32
3196 3368 4.040706 AGGGACAAAATCTACGTGGTGTTA 59.959 41.667 0.00 0.00 0.00 2.41
3197 3369 4.756135 GGGACAAAATCTACGTGGTGTTAA 59.244 41.667 0.00 0.00 0.00 2.01
3198 3370 5.106830 GGGACAAAATCTACGTGGTGTTAAG 60.107 44.000 0.00 0.00 0.00 1.85
3199 3371 5.697633 GGACAAAATCTACGTGGTGTTAAGA 59.302 40.000 0.00 0.00 0.00 2.10
3200 3372 6.128634 GGACAAAATCTACGTGGTGTTAAGAG 60.129 42.308 0.00 0.00 0.00 2.85
3201 3373 5.178809 ACAAAATCTACGTGGTGTTAAGAGC 59.821 40.000 0.00 0.00 0.00 4.09
3202 3374 3.521947 ATCTACGTGGTGTTAAGAGCC 57.478 47.619 0.00 0.00 0.00 4.70
3203 3375 2.522185 TCTACGTGGTGTTAAGAGCCT 58.478 47.619 0.00 0.00 0.00 4.58
3204 3376 2.230508 TCTACGTGGTGTTAAGAGCCTG 59.769 50.000 0.00 0.00 0.00 4.85
3205 3377 0.034896 ACGTGGTGTTAAGAGCCTGG 59.965 55.000 0.00 0.00 0.00 4.45
3206 3378 0.673644 CGTGGTGTTAAGAGCCTGGG 60.674 60.000 0.00 0.00 0.00 4.45
3207 3379 0.322546 GTGGTGTTAAGAGCCTGGGG 60.323 60.000 0.00 0.00 0.00 4.96
3208 3380 0.474854 TGGTGTTAAGAGCCTGGGGA 60.475 55.000 0.00 0.00 0.00 4.81
3209 3381 0.035343 GGTGTTAAGAGCCTGGGGAC 60.035 60.000 0.00 0.00 0.00 4.46
3210 3382 0.690762 GTGTTAAGAGCCTGGGGACA 59.309 55.000 0.00 0.00 39.59 4.02
3211 3383 1.073284 GTGTTAAGAGCCTGGGGACAA 59.927 52.381 0.00 0.00 42.06 3.18
3212 3384 1.777878 TGTTAAGAGCCTGGGGACAAA 59.222 47.619 0.00 0.00 42.06 2.83
3213 3385 2.378547 TGTTAAGAGCCTGGGGACAAAT 59.621 45.455 0.00 0.00 42.06 2.32
3214 3386 2.755103 GTTAAGAGCCTGGGGACAAATG 59.245 50.000 0.00 0.00 42.06 2.32
3215 3387 0.779997 AAGAGCCTGGGGACAAATGT 59.220 50.000 0.00 0.00 42.06 2.71
3216 3388 0.329596 AGAGCCTGGGGACAAATGTC 59.670 55.000 4.96 4.96 42.06 3.06
3217 3389 1.002134 AGCCTGGGGACAAATGTCG 60.002 57.895 7.42 0.00 45.65 4.35
3224 3396 1.602323 GGACAAATGTCGCACCCCA 60.602 57.895 7.42 0.00 45.65 4.96
3228 3400 1.068434 ACAAATGTCGCACCCCAAAAG 59.932 47.619 0.00 0.00 0.00 2.27
3239 3411 1.145119 ACCCCAAAAGAGTTGAGGGAC 59.855 52.381 15.37 0.00 42.25 4.46
3256 3428 1.295792 GACGAAAGCCACACTTCACA 58.704 50.000 0.00 0.00 37.75 3.58
3258 3430 2.290641 GACGAAAGCCACACTTCACAAT 59.709 45.455 0.00 0.00 37.75 2.71
3267 3439 4.320494 GCCACACTTCACAATAAGTTGAGG 60.320 45.833 0.00 0.00 37.61 3.86
3270 3442 5.049405 CACACTTCACAATAAGTTGAGGGAC 60.049 44.000 0.00 0.00 37.61 4.46
3278 3450 7.662258 TCACAATAAGTTGAGGGACGAAAAATA 59.338 33.333 0.00 0.00 38.71 1.40
3286 3458 7.664318 AGTTGAGGGACGAAAAATACACTTTAT 59.336 33.333 0.00 0.00 0.00 1.40
3287 3459 7.605410 TGAGGGACGAAAAATACACTTTATC 57.395 36.000 0.00 0.00 0.00 1.75
3319 3491 8.841444 AATGTTCAAATAATATTCACAGACGC 57.159 30.769 0.00 0.00 0.00 5.19
3320 3492 7.609760 TGTTCAAATAATATTCACAGACGCT 57.390 32.000 0.00 0.00 0.00 5.07
3321 3493 8.039603 TGTTCAAATAATATTCACAGACGCTT 57.960 30.769 0.00 0.00 0.00 4.68
3322 3494 8.511321 TGTTCAAATAATATTCACAGACGCTTT 58.489 29.630 0.00 0.00 0.00 3.51
3323 3495 9.982291 GTTCAAATAATATTCACAGACGCTTTA 57.018 29.630 0.00 0.00 0.00 1.85
3332 3504 9.769093 ATATTCACAGACGCTTTAAAAATGTAC 57.231 29.630 0.00 0.00 0.00 2.90
3333 3505 6.606234 TCACAGACGCTTTAAAAATGTACA 57.394 33.333 0.00 0.00 0.00 2.90
3334 3506 6.423862 TCACAGACGCTTTAAAAATGTACAC 58.576 36.000 0.00 0.00 0.00 2.90
3335 3507 5.335949 CACAGACGCTTTAAAAATGTACACG 59.664 40.000 0.00 0.00 0.00 4.49
3336 3508 5.006941 ACAGACGCTTTAAAAATGTACACGT 59.993 36.000 0.00 0.00 0.00 4.49
3337 3509 5.905181 CAGACGCTTTAAAAATGTACACGTT 59.095 36.000 0.00 0.00 0.00 3.99
3338 3510 6.412653 CAGACGCTTTAAAAATGTACACGTTT 59.587 34.615 0.00 4.24 36.70 3.60
3339 3511 6.968335 AGACGCTTTAAAAATGTACACGTTTT 59.032 30.769 18.22 18.22 44.33 2.43
3380 3552 9.981114 TCAAAATTTAAAAAGACATCTTCTCCC 57.019 29.630 0.00 0.00 34.61 4.30
3381 3553 9.762933 CAAAATTTAAAAAGACATCTTCTCCCA 57.237 29.630 0.00 0.00 34.61 4.37
3383 3555 9.933723 AAATTTAAAAAGACATCTTCTCCCATG 57.066 29.630 0.00 0.00 34.61 3.66
3384 3556 8.655935 ATTTAAAAAGACATCTTCTCCCATGT 57.344 30.769 0.00 0.00 35.88 3.21
3385 3557 8.477419 TTTAAAAAGACATCTTCTCCCATGTT 57.523 30.769 0.00 0.00 33.22 2.71
3386 3558 6.581171 AAAAAGACATCTTCTCCCATGTTC 57.419 37.500 0.00 0.00 33.22 3.18
3387 3559 4.916041 AAGACATCTTCTCCCATGTTCA 57.084 40.909 0.00 0.00 33.22 3.18
3388 3560 5.447778 AAGACATCTTCTCCCATGTTCAT 57.552 39.130 0.00 0.00 33.22 2.57
3389 3561 5.447778 AGACATCTTCTCCCATGTTCATT 57.552 39.130 0.00 0.00 33.22 2.57
3390 3562 5.824421 AGACATCTTCTCCCATGTTCATTT 58.176 37.500 0.00 0.00 33.22 2.32
3391 3563 6.251471 AGACATCTTCTCCCATGTTCATTTT 58.749 36.000 0.00 0.00 33.22 1.82
3392 3564 6.723052 AGACATCTTCTCCCATGTTCATTTTT 59.277 34.615 0.00 0.00 33.22 1.94
3393 3565 6.694447 ACATCTTCTCCCATGTTCATTTTTG 58.306 36.000 0.00 0.00 28.27 2.44
3394 3566 6.494491 ACATCTTCTCCCATGTTCATTTTTGA 59.506 34.615 0.00 0.00 28.27 2.69
3395 3567 6.975196 TCTTCTCCCATGTTCATTTTTGAA 57.025 33.333 0.00 0.00 0.00 2.69
3396 3568 7.358770 TCTTCTCCCATGTTCATTTTTGAAA 57.641 32.000 0.00 0.00 0.00 2.69
3397 3569 7.436118 TCTTCTCCCATGTTCATTTTTGAAAG 58.564 34.615 0.00 0.00 0.00 2.62
3398 3570 6.975196 TCTCCCATGTTCATTTTTGAAAGA 57.025 33.333 0.00 0.00 0.00 2.52
3399 3571 7.358770 TCTCCCATGTTCATTTTTGAAAGAA 57.641 32.000 0.00 0.00 0.00 2.52
3400 3572 7.209475 TCTCCCATGTTCATTTTTGAAAGAAC 58.791 34.615 0.00 0.00 40.45 3.01
3401 3573 5.982516 TCCCATGTTCATTTTTGAAAGAACG 59.017 36.000 0.00 0.00 42.35 3.95
3402 3574 5.982516 CCCATGTTCATTTTTGAAAGAACGA 59.017 36.000 0.00 0.00 42.35 3.85
3403 3575 6.478344 CCCATGTTCATTTTTGAAAGAACGAA 59.522 34.615 0.00 0.00 42.35 3.85
3404 3576 7.171337 CCCATGTTCATTTTTGAAAGAACGAAT 59.829 33.333 0.00 0.00 42.35 3.34
3405 3577 9.190858 CCATGTTCATTTTTGAAAGAACGAATA 57.809 29.630 0.00 0.00 42.35 1.75
3434 3606 5.954296 AAAACTCGCTACAGTAGACTACA 57.046 39.130 12.15 0.00 0.00 2.74
3435 3607 5.548706 AAACTCGCTACAGTAGACTACAG 57.451 43.478 12.15 9.30 0.00 2.74
3436 3608 4.468765 ACTCGCTACAGTAGACTACAGA 57.531 45.455 12.15 3.81 0.00 3.41
3437 3609 4.829968 ACTCGCTACAGTAGACTACAGAA 58.170 43.478 12.15 0.00 0.00 3.02
3438 3610 5.243981 ACTCGCTACAGTAGACTACAGAAA 58.756 41.667 12.15 1.02 0.00 2.52
3439 3611 5.122082 ACTCGCTACAGTAGACTACAGAAAC 59.878 44.000 12.15 0.92 0.00 2.78
3440 3612 4.394300 TCGCTACAGTAGACTACAGAAACC 59.606 45.833 12.15 0.00 0.00 3.27
3441 3613 4.395542 CGCTACAGTAGACTACAGAAACCT 59.604 45.833 12.15 0.00 0.00 3.50
3442 3614 5.447548 CGCTACAGTAGACTACAGAAACCTC 60.448 48.000 12.15 0.00 0.00 3.85
3443 3615 5.447548 GCTACAGTAGACTACAGAAACCTCG 60.448 48.000 12.15 0.00 0.00 4.63
3444 3616 3.190953 ACAGTAGACTACAGAAACCTCGC 59.809 47.826 14.95 0.00 0.00 5.03
3445 3617 2.754002 AGTAGACTACAGAAACCTCGCC 59.246 50.000 14.95 0.00 0.00 5.54
3446 3618 1.629043 AGACTACAGAAACCTCGCCA 58.371 50.000 0.00 0.00 0.00 5.69
3447 3619 2.180276 AGACTACAGAAACCTCGCCAT 58.820 47.619 0.00 0.00 0.00 4.40
3448 3620 2.567615 AGACTACAGAAACCTCGCCATT 59.432 45.455 0.00 0.00 0.00 3.16
3449 3621 2.673368 GACTACAGAAACCTCGCCATTG 59.327 50.000 0.00 0.00 0.00 2.82
3450 3622 2.009774 CTACAGAAACCTCGCCATTGG 58.990 52.381 0.00 0.00 0.00 3.16
3451 3623 0.609131 ACAGAAACCTCGCCATTGGG 60.609 55.000 4.53 0.00 37.18 4.12
3473 3645 2.672996 CCCAGTTGAAGGGTGGCG 60.673 66.667 0.00 0.00 41.61 5.69
3474 3646 2.429930 CCAGTTGAAGGGTGGCGA 59.570 61.111 0.00 0.00 0.00 5.54
3475 3647 1.228124 CCAGTTGAAGGGTGGCGAA 60.228 57.895 0.00 0.00 0.00 4.70
3476 3648 0.821711 CCAGTTGAAGGGTGGCGAAA 60.822 55.000 0.00 0.00 0.00 3.46
3477 3649 0.310854 CAGTTGAAGGGTGGCGAAAC 59.689 55.000 0.00 0.00 0.00 2.78
3478 3650 1.164041 AGTTGAAGGGTGGCGAAACG 61.164 55.000 0.00 0.00 0.00 3.60
3479 3651 1.153127 TTGAAGGGTGGCGAAACGT 60.153 52.632 0.00 0.00 0.00 3.99
3480 3652 1.440938 TTGAAGGGTGGCGAAACGTG 61.441 55.000 0.00 0.00 0.00 4.49
3481 3653 2.593436 AAGGGTGGCGAAACGTGG 60.593 61.111 0.00 0.00 0.00 4.94
3482 3654 3.409605 AAGGGTGGCGAAACGTGGT 62.410 57.895 0.00 0.00 0.00 4.16
3483 3655 3.351416 GGGTGGCGAAACGTGGTC 61.351 66.667 0.00 0.00 0.00 4.02
3484 3656 3.351416 GGTGGCGAAACGTGGTCC 61.351 66.667 0.00 0.00 0.00 4.46
3485 3657 2.589442 GTGGCGAAACGTGGTCCA 60.589 61.111 0.00 0.00 0.00 4.02
3486 3658 2.181521 GTGGCGAAACGTGGTCCAA 61.182 57.895 0.00 0.00 0.00 3.53
3487 3659 1.451567 TGGCGAAACGTGGTCCAAA 60.452 52.632 0.00 0.00 0.00 3.28
3488 3660 1.009335 GGCGAAACGTGGTCCAAAC 60.009 57.895 0.00 0.00 0.00 2.93
3489 3661 1.441732 GGCGAAACGTGGTCCAAACT 61.442 55.000 0.00 0.00 0.00 2.66
3490 3662 0.316689 GCGAAACGTGGTCCAAACTG 60.317 55.000 0.00 0.00 0.00 3.16
3491 3663 1.292061 CGAAACGTGGTCCAAACTGA 58.708 50.000 0.00 0.00 0.00 3.41
3492 3664 1.871039 CGAAACGTGGTCCAAACTGAT 59.129 47.619 0.00 0.00 0.00 2.90
3493 3665 3.061322 CGAAACGTGGTCCAAACTGATA 58.939 45.455 0.00 0.00 0.00 2.15
3494 3666 3.122948 CGAAACGTGGTCCAAACTGATAG 59.877 47.826 0.00 0.00 0.00 2.08
3495 3667 2.094762 ACGTGGTCCAAACTGATAGC 57.905 50.000 0.00 0.00 0.00 2.97
3496 3668 1.338769 ACGTGGTCCAAACTGATAGCC 60.339 52.381 0.00 0.00 0.00 3.93
3497 3669 1.066143 CGTGGTCCAAACTGATAGCCT 60.066 52.381 0.00 0.00 0.00 4.58
3498 3670 2.359900 GTGGTCCAAACTGATAGCCTG 58.640 52.381 0.00 0.00 0.00 4.85
3499 3671 1.281867 TGGTCCAAACTGATAGCCTGG 59.718 52.381 0.00 0.00 0.00 4.45
3500 3672 1.383523 GTCCAAACTGATAGCCTGGC 58.616 55.000 11.65 11.65 0.00 4.85
3501 3673 0.991146 TCCAAACTGATAGCCTGGCA 59.009 50.000 22.65 7.39 0.00 4.92
3502 3674 1.565759 TCCAAACTGATAGCCTGGCAT 59.434 47.619 22.65 12.20 0.00 4.40
3503 3675 2.025037 TCCAAACTGATAGCCTGGCATT 60.025 45.455 22.65 7.33 0.00 3.56
3504 3676 2.100252 CCAAACTGATAGCCTGGCATTG 59.900 50.000 22.65 12.60 0.00 2.82
3505 3677 2.062971 AACTGATAGCCTGGCATTGG 57.937 50.000 22.65 9.09 0.00 3.16
3506 3678 0.184451 ACTGATAGCCTGGCATTGGG 59.816 55.000 22.65 10.16 0.00 4.12
3507 3679 0.538977 CTGATAGCCTGGCATTGGGG 60.539 60.000 22.65 2.37 0.00 4.96
3508 3680 1.228675 GATAGCCTGGCATTGGGGG 60.229 63.158 22.65 0.00 0.00 5.40
3526 3698 4.751431 GCTTCTCAGCCCATGGTT 57.249 55.556 11.73 0.00 40.61 3.67
3527 3699 2.967270 GCTTCTCAGCCCATGGTTT 58.033 52.632 11.73 0.00 40.61 3.27
3528 3700 2.128771 GCTTCTCAGCCCATGGTTTA 57.871 50.000 11.73 0.00 40.61 2.01
3529 3701 2.659428 GCTTCTCAGCCCATGGTTTAT 58.341 47.619 11.73 0.00 40.61 1.40
3530 3702 3.820557 GCTTCTCAGCCCATGGTTTATA 58.179 45.455 11.73 0.00 40.61 0.98
3531 3703 3.817647 GCTTCTCAGCCCATGGTTTATAG 59.182 47.826 11.73 1.60 40.61 1.31
3532 3704 4.687219 GCTTCTCAGCCCATGGTTTATAGT 60.687 45.833 11.73 0.00 40.61 2.12
3533 3705 4.689612 TCTCAGCCCATGGTTTATAGTC 57.310 45.455 11.73 0.00 0.00 2.59
3534 3706 3.391296 TCTCAGCCCATGGTTTATAGTCC 59.609 47.826 11.73 0.00 0.00 3.85
3535 3707 2.441750 TCAGCCCATGGTTTATAGTCCC 59.558 50.000 11.73 0.00 0.00 4.46
3536 3708 2.174639 CAGCCCATGGTTTATAGTCCCA 59.825 50.000 11.73 0.00 0.00 4.37
3537 3709 2.174854 AGCCCATGGTTTATAGTCCCAC 59.825 50.000 11.73 0.00 0.00 4.61
3538 3710 2.846193 CCCATGGTTTATAGTCCCACG 58.154 52.381 11.73 0.00 0.00 4.94
3539 3711 2.436542 CCCATGGTTTATAGTCCCACGA 59.563 50.000 11.73 0.00 0.00 4.35
3540 3712 3.072476 CCCATGGTTTATAGTCCCACGAT 59.928 47.826 11.73 0.00 0.00 3.73
3541 3713 4.285003 CCCATGGTTTATAGTCCCACGATA 59.715 45.833 11.73 0.00 0.00 2.92
3542 3714 5.045869 CCCATGGTTTATAGTCCCACGATAT 60.046 44.000 11.73 0.00 0.00 1.63
3543 3715 6.106673 CCATGGTTTATAGTCCCACGATATC 58.893 44.000 2.57 0.00 0.00 1.63
3544 3716 5.733620 TGGTTTATAGTCCCACGATATCC 57.266 43.478 0.00 0.00 0.00 2.59
3545 3717 4.529377 TGGTTTATAGTCCCACGATATCCC 59.471 45.833 0.00 0.00 0.00 3.85
3546 3718 4.381292 GGTTTATAGTCCCACGATATCCCG 60.381 50.000 0.00 0.00 0.00 5.14
3547 3719 2.893215 ATAGTCCCACGATATCCCGA 57.107 50.000 0.00 0.00 0.00 5.14
3548 3720 2.195741 TAGTCCCACGATATCCCGAG 57.804 55.000 0.00 0.00 0.00 4.63
3549 3721 1.179814 AGTCCCACGATATCCCGAGC 61.180 60.000 0.00 0.00 0.00 5.03
3550 3722 1.906824 TCCCACGATATCCCGAGCC 60.907 63.158 0.00 0.00 0.00 4.70
3551 3723 2.657237 CCACGATATCCCGAGCCC 59.343 66.667 0.00 0.00 0.00 5.19
3552 3724 1.908793 CCACGATATCCCGAGCCCT 60.909 63.158 0.00 0.00 0.00 5.19
3553 3725 1.587054 CACGATATCCCGAGCCCTC 59.413 63.158 0.00 0.00 0.00 4.30
3574 3746 4.659172 CCAGCCCGGCCAACAAGA 62.659 66.667 5.55 0.00 0.00 3.02
3575 3747 2.597217 CAGCCCGGCCAACAAGAA 60.597 61.111 5.55 0.00 0.00 2.52
3576 3748 2.597510 AGCCCGGCCAACAAGAAC 60.598 61.111 5.55 0.00 0.00 3.01
3577 3749 4.038080 GCCCGGCCAACAAGAACG 62.038 66.667 2.24 0.00 0.00 3.95
3578 3750 4.038080 CCCGGCCAACAAGAACGC 62.038 66.667 2.24 0.00 0.00 4.84
3579 3751 4.038080 CCGGCCAACAAGAACGCC 62.038 66.667 2.24 0.00 38.07 5.68
3580 3752 3.283684 CGGCCAACAAGAACGCCA 61.284 61.111 2.24 0.00 41.71 5.69
3581 3753 2.335011 GGCCAACAAGAACGCCAC 59.665 61.111 0.00 0.00 41.25 5.01
3582 3754 2.335011 GCCAACAAGAACGCCACC 59.665 61.111 0.00 0.00 0.00 4.61
3583 3755 2.637025 CCAACAAGAACGCCACCG 59.363 61.111 0.00 0.00 41.14 4.94
3584 3756 2.637025 CAACAAGAACGCCACCGG 59.363 61.111 0.00 0.00 39.22 5.28
3585 3757 3.284449 AACAAGAACGCCACCGGC 61.284 61.111 0.00 0.00 46.75 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.645838 ATCTTGTCAGTGGTTGCTGT 57.354 45.000 0.00 0.00 37.70 4.40
84 85 3.761752 GGAGCCTTTTGTAACTTGCCATA 59.238 43.478 0.00 0.00 0.00 2.74
108 109 1.326213 TAGCAGCAGAGGAGTCCAGC 61.326 60.000 12.86 12.32 0.00 4.85
165 166 5.515797 TGTGTAATATCTCCACTTCCTCG 57.484 43.478 0.00 0.00 0.00 4.63
185 186 0.536006 AGCGGCTTCAGCTTCTTTGT 60.536 50.000 0.00 0.00 43.24 2.83
204 205 3.262420 GAGTTCCAGCGCTTTAGATTCA 58.738 45.455 7.50 0.00 0.00 2.57
249 250 7.863375 GGCTGAAATATATATTCGTCGCTATCT 59.137 37.037 8.42 0.00 0.00 1.98
335 336 1.158007 AGGGGAGAGGCCAAAAGAAA 58.842 50.000 5.01 0.00 38.95 2.52
442 443 0.747852 TGAGGTACGCATATTCGCCA 59.252 50.000 0.00 0.00 29.59 5.69
454 455 3.764972 AGCTTAGAGGAACAGTGAGGTAC 59.235 47.826 0.00 0.00 0.00 3.34
462 463 2.362397 TGCCGATAGCTTAGAGGAACAG 59.638 50.000 0.00 0.00 44.23 3.16
537 541 9.225436 GAAAATTCCTCAAGAGTTCAGAGTATT 57.775 33.333 0.00 0.00 0.00 1.89
627 631 3.216800 ACTGATAACCCGTCGCTGTATA 58.783 45.455 0.00 0.00 0.00 1.47
628 632 2.029623 ACTGATAACCCGTCGCTGTAT 58.970 47.619 0.00 0.00 0.00 2.29
651 656 8.641498 ATGGACCCATTATTCTGATTACATTC 57.359 34.615 0.00 0.00 31.82 2.67
669 674 6.460261 GCAGAAGAAGCTTTATTAATGGACCC 60.460 42.308 0.00 0.00 0.00 4.46
670 675 6.319911 AGCAGAAGAAGCTTTATTAATGGACC 59.680 38.462 0.00 0.00 39.87 4.46
671 676 7.326968 AGCAGAAGAAGCTTTATTAATGGAC 57.673 36.000 0.00 0.00 39.87 4.02
710 715 3.829601 CAGTCTACTGAGGAAACCAGTCT 59.170 47.826 3.99 0.00 46.59 3.24
712 717 2.900546 CCAGTCTACTGAGGAAACCAGT 59.099 50.000 11.69 0.00 46.59 4.00
713 718 2.900546 ACCAGTCTACTGAGGAAACCAG 59.099 50.000 11.69 0.00 46.59 4.00
714 719 2.972348 ACCAGTCTACTGAGGAAACCA 58.028 47.619 11.69 0.00 46.59 3.67
715 720 4.040584 AGAAACCAGTCTACTGAGGAAACC 59.959 45.833 11.69 0.00 46.59 3.27
716 721 4.991687 CAGAAACCAGTCTACTGAGGAAAC 59.008 45.833 11.69 0.00 46.59 2.78
717 722 4.040461 CCAGAAACCAGTCTACTGAGGAAA 59.960 45.833 11.69 0.00 46.59 3.13
776 859 5.111293 CAAGATCGCATTTTAAAAGCCCAT 58.889 37.500 6.79 4.60 0.00 4.00
845 928 3.138839 AGGTAGAGAGTAGGTTAGGAGGC 59.861 52.174 0.00 0.00 0.00 4.70
1029 1112 2.575993 CCAGAGGCTCCAGTGACG 59.424 66.667 11.71 0.00 0.00 4.35
1080 1163 4.895889 CCTAGAACATGATACCCTGACTCA 59.104 45.833 0.00 0.00 0.00 3.41
1127 1210 4.892934 AGTGGATCATTAGAGTGAGAGGAC 59.107 45.833 0.00 0.00 0.00 3.85
1157 1240 4.902443 TCATTAGTAGCAACGAGAGGAG 57.098 45.455 0.00 0.00 0.00 3.69
1171 1254 4.261801 CAAGAACGGGTTCCATCATTAGT 58.738 43.478 7.88 0.00 40.33 2.24
1211 1294 7.383029 CACATTGCTATCACTTTCAACAATTGT 59.617 33.333 4.92 4.92 0.00 2.71
1252 1335 5.655974 TGATTGCCTGTCCAATTAGCAAATA 59.344 36.000 0.00 0.00 38.69 1.40
1253 1336 4.467082 TGATTGCCTGTCCAATTAGCAAAT 59.533 37.500 0.00 0.00 38.69 2.32
1267 1350 2.941720 GCTACCTTCTTCTGATTGCCTG 59.058 50.000 0.00 0.00 0.00 4.85
1373 1456 4.100084 CCCTCGCAGGCCATCACA 62.100 66.667 5.01 0.00 32.73 3.58
1435 1518 6.758886 GTGATCATAGTTAGTATAGCATGCCC 59.241 42.308 15.66 0.00 0.00 5.36
1485 1570 7.942341 ACAAGACATCTTTTACCTTCCAACATA 59.058 33.333 0.00 0.00 33.11 2.29
1508 1593 5.163184 TGTCAATTAAGACCCACCACTACAA 60.163 40.000 0.00 0.00 37.73 2.41
1512 1597 3.650942 TCTGTCAATTAAGACCCACCACT 59.349 43.478 0.00 0.00 37.73 4.00
1544 1629 5.775686 CATTTCTTCCTGCAATTGAAGTGA 58.224 37.500 12.62 6.60 39.19 3.41
1579 1664 4.657075 CACGTTTAGAGTGCCGTTTATT 57.343 40.909 0.00 0.00 32.52 1.40
1705 1790 4.543689 AGCTCCATGATGTTTCATCCAAT 58.456 39.130 0.00 0.00 40.70 3.16
1706 1791 3.949754 GAGCTCCATGATGTTTCATCCAA 59.050 43.478 0.87 0.00 40.70 3.53
1802 1887 4.513318 CACTCTTTCTTCAGGGAAGTGTTC 59.487 45.833 5.94 0.00 40.24 3.18
2079 2164 1.905215 AGGCATAGGGTAGCAGCATAG 59.095 52.381 0.00 0.00 0.00 2.23
2098 2183 0.976641 TAGGGCCTTGAGTGTGTGAG 59.023 55.000 13.45 0.00 0.00 3.51
2351 2440 4.317628 CGGCGATGATGAATATATGCTTCG 60.318 45.833 0.00 0.00 0.00 3.79
2378 2470 1.090625 GCTGGCTGTGCTCAGATGAG 61.091 60.000 19.61 11.32 43.76 2.90
2387 2479 1.900498 AAACTGAGGCTGGCTGTGC 60.900 57.895 9.06 0.00 0.00 4.57
2391 2483 1.884067 GCTAACAAACTGAGGCTGGCT 60.884 52.381 2.24 2.24 0.00 4.75
2400 2492 7.712639 AGAGTGGTGATATATGCTAACAAACTG 59.287 37.037 0.00 0.00 0.00 3.16
2423 2515 6.198966 GGTAAACTGCACACAAATTTTCAGAG 59.801 38.462 0.00 0.00 0.00 3.35
2590 2682 1.953138 GTCCGCTCATCCGCATCAG 60.953 63.158 0.00 0.00 0.00 2.90
2652 2745 3.056628 CTTCTAGAGCAGGCAACGG 57.943 57.895 0.00 0.00 46.39 4.44
2708 2807 7.823745 AAGCAGAAATAAAGACAAGAAAGGA 57.176 32.000 0.00 0.00 0.00 3.36
2765 2864 4.404507 ACATTCATTTCCTTGTCGTTCG 57.595 40.909 0.00 0.00 0.00 3.95
2873 2973 2.277969 TGGTGTCGTCGTTTGCTAAAA 58.722 42.857 0.00 0.00 0.00 1.52
2935 3035 3.598715 TATGGTCTACGGGGCGCG 61.599 66.667 23.00 23.00 0.00 6.86
2937 3037 1.397390 AAGGTATGGTCTACGGGGCG 61.397 60.000 0.00 0.00 0.00 6.13
2938 3038 0.106149 CAAGGTATGGTCTACGGGGC 59.894 60.000 0.00 0.00 0.00 5.80
2973 3073 3.213402 ACCACCACCGGCAAAACG 61.213 61.111 0.00 0.00 0.00 3.60
2987 3087 0.958382 GTTAATGGCAGCGACCACCA 60.958 55.000 2.59 0.00 44.17 4.17
3010 3118 0.841984 AACGAGAAACAACGACGACG 59.158 50.000 5.58 5.58 45.75 5.12
3014 3122 5.667156 GCCTACATTAACGAGAAACAACGAC 60.667 44.000 0.00 0.00 0.00 4.34
3017 3125 4.435121 CGGCCTACATTAACGAGAAACAAC 60.435 45.833 0.00 0.00 0.00 3.32
3018 3126 3.680937 CGGCCTACATTAACGAGAAACAA 59.319 43.478 0.00 0.00 0.00 2.83
3019 3127 3.056678 TCGGCCTACATTAACGAGAAACA 60.057 43.478 0.00 0.00 0.00 2.83
3022 3130 2.756760 AGTCGGCCTACATTAACGAGAA 59.243 45.455 10.45 0.00 33.92 2.87
3028 3136 1.742411 GCTGCAGTCGGCCTACATTAA 60.742 52.381 16.64 0.00 43.89 1.40
3030 3138 1.450312 GCTGCAGTCGGCCTACATT 60.450 57.895 16.64 0.00 43.89 2.71
3051 3159 1.000486 CTCCGACTCCTCCCCTTCA 60.000 63.158 0.00 0.00 0.00 3.02
3060 3168 2.289444 TGTTTTGATGTCCTCCGACTCC 60.289 50.000 0.00 0.00 39.94 3.85
3061 3169 2.737252 GTGTTTTGATGTCCTCCGACTC 59.263 50.000 0.00 0.00 39.94 3.36
3062 3170 2.368875 AGTGTTTTGATGTCCTCCGACT 59.631 45.455 0.00 0.00 39.94 4.18
3063 3171 2.767505 AGTGTTTTGATGTCCTCCGAC 58.232 47.619 0.00 0.00 39.66 4.79
3064 3172 3.576982 ACTAGTGTTTTGATGTCCTCCGA 59.423 43.478 0.00 0.00 0.00 4.55
3065 3173 3.679980 CACTAGTGTTTTGATGTCCTCCG 59.320 47.826 15.06 0.00 0.00 4.63
3066 3174 4.003648 CCACTAGTGTTTTGATGTCCTCC 58.996 47.826 21.18 0.00 0.00 4.30
3067 3175 4.894784 TCCACTAGTGTTTTGATGTCCTC 58.105 43.478 21.18 0.00 0.00 3.71
3068 3176 4.348168 ACTCCACTAGTGTTTTGATGTCCT 59.652 41.667 21.18 0.00 36.93 3.85
3069 3177 4.642429 ACTCCACTAGTGTTTTGATGTCC 58.358 43.478 21.18 0.00 36.93 4.02
3083 3191 1.004595 CGACGACGATCACTCCACTA 58.995 55.000 0.00 0.00 42.66 2.74
3084 3192 1.645704 CCGACGACGATCACTCCACT 61.646 60.000 9.28 0.00 42.66 4.00
3092 3202 1.411493 GGTTTGCTCCGACGACGATC 61.411 60.000 9.28 0.00 42.66 3.69
3095 3205 2.203972 TAGGGTTTGCTCCGACGACG 62.204 60.000 0.00 0.00 39.43 5.12
3127 3237 2.611292 ACGATGATTTCTAGCAAGCAGC 59.389 45.455 0.00 0.00 46.19 5.25
3128 3238 4.495349 CCAACGATGATTTCTAGCAAGCAG 60.495 45.833 0.00 0.00 0.00 4.24
3131 3241 5.111989 TCTCCAACGATGATTTCTAGCAAG 58.888 41.667 0.00 0.00 0.00 4.01
3136 3246 7.112452 TCTCAATCTCCAACGATGATTTCTA 57.888 36.000 0.00 0.00 0.00 2.10
3149 3259 3.197766 ACAGCGGTATTTCTCAATCTCCA 59.802 43.478 0.00 0.00 0.00 3.86
3155 3291 2.354704 CCCTGACAGCGGTATTTCTCAA 60.355 50.000 0.00 0.00 0.00 3.02
3165 3301 0.804989 GATTTTGTCCCTGACAGCGG 59.195 55.000 0.00 0.12 43.69 5.52
3182 3354 3.097614 AGGCTCTTAACACCACGTAGAT 58.902 45.455 0.00 0.00 0.00 1.98
3183 3355 2.230508 CAGGCTCTTAACACCACGTAGA 59.769 50.000 0.00 0.00 0.00 2.59
3184 3356 2.607187 CAGGCTCTTAACACCACGTAG 58.393 52.381 0.00 0.00 0.00 3.51
3186 3358 0.034896 CCAGGCTCTTAACACCACGT 59.965 55.000 0.00 0.00 0.00 4.49
3189 3361 0.474854 TCCCCAGGCTCTTAACACCA 60.475 55.000 0.00 0.00 0.00 4.17
3190 3362 0.035343 GTCCCCAGGCTCTTAACACC 60.035 60.000 0.00 0.00 0.00 4.16
3191 3363 0.690762 TGTCCCCAGGCTCTTAACAC 59.309 55.000 0.00 0.00 0.00 3.32
3192 3364 1.440618 TTGTCCCCAGGCTCTTAACA 58.559 50.000 0.00 0.00 0.00 2.41
3193 3365 2.579410 TTTGTCCCCAGGCTCTTAAC 57.421 50.000 0.00 0.00 0.00 2.01
3194 3366 2.378547 ACATTTGTCCCCAGGCTCTTAA 59.621 45.455 0.00 0.00 0.00 1.85
3195 3367 1.992557 ACATTTGTCCCCAGGCTCTTA 59.007 47.619 0.00 0.00 0.00 2.10
3196 3368 0.779997 ACATTTGTCCCCAGGCTCTT 59.220 50.000 0.00 0.00 0.00 2.85
3197 3369 0.329596 GACATTTGTCCCCAGGCTCT 59.670 55.000 0.00 0.00 39.07 4.09
3198 3370 1.026718 CGACATTTGTCCCCAGGCTC 61.027 60.000 5.17 0.00 41.86 4.70
3199 3371 1.002134 CGACATTTGTCCCCAGGCT 60.002 57.895 5.17 0.00 41.86 4.58
3200 3372 2.700773 GCGACATTTGTCCCCAGGC 61.701 63.158 5.17 0.00 41.86 4.85
3201 3373 1.303236 TGCGACATTTGTCCCCAGG 60.303 57.895 5.17 0.00 41.86 4.45
3202 3374 1.586154 GGTGCGACATTTGTCCCCAG 61.586 60.000 5.17 0.00 41.86 4.45
3203 3375 1.602323 GGTGCGACATTTGTCCCCA 60.602 57.895 5.17 0.70 41.86 4.96
3204 3376 2.340328 GGGTGCGACATTTGTCCCC 61.340 63.158 5.17 6.47 41.86 4.81
3205 3377 2.340328 GGGGTGCGACATTTGTCCC 61.340 63.158 5.17 1.38 41.86 4.46
3206 3378 1.175983 TTGGGGTGCGACATTTGTCC 61.176 55.000 5.17 0.00 41.86 4.02
3207 3379 0.671251 TTTGGGGTGCGACATTTGTC 59.329 50.000 0.46 0.46 41.47 3.18
3208 3380 1.068434 CTTTTGGGGTGCGACATTTGT 59.932 47.619 0.00 0.00 0.00 2.83
3209 3381 1.339610 TCTTTTGGGGTGCGACATTTG 59.660 47.619 0.00 0.00 0.00 2.32
3210 3382 1.613437 CTCTTTTGGGGTGCGACATTT 59.387 47.619 0.00 0.00 0.00 2.32
3211 3383 1.247567 CTCTTTTGGGGTGCGACATT 58.752 50.000 0.00 0.00 0.00 2.71
3212 3384 0.110486 ACTCTTTTGGGGTGCGACAT 59.890 50.000 0.00 0.00 0.00 3.06
3213 3385 0.106918 AACTCTTTTGGGGTGCGACA 60.107 50.000 0.00 0.00 0.00 4.35
3214 3386 0.310854 CAACTCTTTTGGGGTGCGAC 59.689 55.000 0.00 0.00 26.79 5.19
3215 3387 0.181587 TCAACTCTTTTGGGGTGCGA 59.818 50.000 0.00 0.00 37.58 5.10
3216 3388 0.593128 CTCAACTCTTTTGGGGTGCG 59.407 55.000 0.00 0.00 37.58 5.34
3217 3389 0.961753 CCTCAACTCTTTTGGGGTGC 59.038 55.000 0.00 0.00 37.58 5.01
3218 3390 1.144913 TCCCTCAACTCTTTTGGGGTG 59.855 52.381 2.29 0.00 38.39 4.61
3219 3391 1.145119 GTCCCTCAACTCTTTTGGGGT 59.855 52.381 2.29 0.00 38.39 4.95
3220 3392 1.882352 CGTCCCTCAACTCTTTTGGGG 60.882 57.143 0.00 0.00 39.77 4.96
3224 3396 2.879026 GCTTTCGTCCCTCAACTCTTTT 59.121 45.455 0.00 0.00 0.00 2.27
3228 3400 0.034896 TGGCTTTCGTCCCTCAACTC 59.965 55.000 0.00 0.00 0.00 3.01
3239 3411 4.024048 ACTTATTGTGAAGTGTGGCTTTCG 60.024 41.667 0.00 0.00 38.25 3.46
3256 3428 7.664318 AGTGTATTTTTCGTCCCTCAACTTATT 59.336 33.333 0.00 0.00 0.00 1.40
3258 3430 6.527423 AGTGTATTTTTCGTCCCTCAACTTA 58.473 36.000 0.00 0.00 0.00 2.24
3296 3468 7.609760 AGCGTCTGTGAATATTATTTGAACA 57.390 32.000 0.00 0.00 0.00 3.18
3297 3469 8.895932 AAAGCGTCTGTGAATATTATTTGAAC 57.104 30.769 0.00 0.00 0.00 3.18
3306 3478 9.769093 GTACATTTTTAAAGCGTCTGTGAATAT 57.231 29.630 0.00 0.00 0.00 1.28
3307 3479 8.775527 TGTACATTTTTAAAGCGTCTGTGAATA 58.224 29.630 0.00 0.00 0.00 1.75
3308 3480 7.589954 GTGTACATTTTTAAAGCGTCTGTGAAT 59.410 33.333 0.00 0.00 0.00 2.57
3309 3481 6.908284 GTGTACATTTTTAAAGCGTCTGTGAA 59.092 34.615 0.00 0.00 0.00 3.18
3310 3482 6.423862 GTGTACATTTTTAAAGCGTCTGTGA 58.576 36.000 0.00 0.00 0.00 3.58
3311 3483 5.335949 CGTGTACATTTTTAAAGCGTCTGTG 59.664 40.000 0.00 0.00 0.00 3.66
3312 3484 5.006941 ACGTGTACATTTTTAAAGCGTCTGT 59.993 36.000 0.00 0.00 0.00 3.41
3313 3485 5.437263 ACGTGTACATTTTTAAAGCGTCTG 58.563 37.500 0.00 0.00 0.00 3.51
3314 3486 5.662211 ACGTGTACATTTTTAAAGCGTCT 57.338 34.783 0.00 0.00 0.00 4.18
3315 3487 6.721442 AAACGTGTACATTTTTAAAGCGTC 57.279 33.333 0.00 0.00 0.00 5.19
3316 3488 7.509050 AAAAACGTGTACATTTTTAAAGCGT 57.491 28.000 15.11 7.21 36.49 5.07
3354 3526 9.981114 GGGAGAAGATGTCTTTTTAAATTTTGA 57.019 29.630 0.00 0.00 36.41 2.69
3355 3527 9.762933 TGGGAGAAGATGTCTTTTTAAATTTTG 57.237 29.630 0.00 0.00 36.41 2.44
3357 3529 9.933723 CATGGGAGAAGATGTCTTTTTAAATTT 57.066 29.630 0.00 0.00 36.41 1.82
3358 3530 9.093458 ACATGGGAGAAGATGTCTTTTTAAATT 57.907 29.630 0.00 0.00 36.41 1.82
3359 3531 8.655935 ACATGGGAGAAGATGTCTTTTTAAAT 57.344 30.769 0.00 0.00 36.41 1.40
3360 3532 8.477419 AACATGGGAGAAGATGTCTTTTTAAA 57.523 30.769 0.00 0.00 36.41 1.52
3361 3533 7.723616 TGAACATGGGAGAAGATGTCTTTTTAA 59.276 33.333 0.00 0.00 36.41 1.52
3362 3534 7.230747 TGAACATGGGAGAAGATGTCTTTTTA 58.769 34.615 0.00 0.00 36.41 1.52
3363 3535 6.070656 TGAACATGGGAGAAGATGTCTTTTT 58.929 36.000 0.00 0.00 36.41 1.94
3364 3536 5.634118 TGAACATGGGAGAAGATGTCTTTT 58.366 37.500 0.00 0.00 36.41 2.27
3365 3537 5.246981 TGAACATGGGAGAAGATGTCTTT 57.753 39.130 0.00 0.00 36.41 2.52
3366 3538 4.916041 TGAACATGGGAGAAGATGTCTT 57.084 40.909 0.00 0.00 36.41 3.01
3367 3539 5.447778 AATGAACATGGGAGAAGATGTCT 57.552 39.130 0.00 0.00 40.25 3.41
3368 3540 6.521151 AAAATGAACATGGGAGAAGATGTC 57.479 37.500 0.00 0.00 31.43 3.06
3369 3541 6.494491 TCAAAAATGAACATGGGAGAAGATGT 59.506 34.615 0.00 0.00 34.16 3.06
3370 3542 6.927416 TCAAAAATGAACATGGGAGAAGATG 58.073 36.000 0.00 0.00 0.00 2.90
3371 3543 7.543359 TTCAAAAATGAACATGGGAGAAGAT 57.457 32.000 0.00 0.00 0.00 2.40
3372 3544 6.975196 TTCAAAAATGAACATGGGAGAAGA 57.025 33.333 0.00 0.00 0.00 2.87
3373 3545 7.436118 TCTTTCAAAAATGAACATGGGAGAAG 58.564 34.615 0.00 0.00 0.00 2.85
3374 3546 7.358770 TCTTTCAAAAATGAACATGGGAGAA 57.641 32.000 0.00 0.00 0.00 2.87
3375 3547 6.975196 TCTTTCAAAAATGAACATGGGAGA 57.025 33.333 0.00 0.00 0.00 3.71
3376 3548 6.144402 CGTTCTTTCAAAAATGAACATGGGAG 59.856 38.462 13.77 0.00 44.09 4.30
3377 3549 5.982516 CGTTCTTTCAAAAATGAACATGGGA 59.017 36.000 13.77 0.00 44.09 4.37
3378 3550 5.982516 TCGTTCTTTCAAAAATGAACATGGG 59.017 36.000 13.77 2.58 44.09 4.00
3379 3551 7.462109 TTCGTTCTTTCAAAAATGAACATGG 57.538 32.000 13.77 2.83 44.09 3.66
3411 3583 6.206243 TCTGTAGTCTACTGTAGCGAGTTTTT 59.794 38.462 9.98 0.00 0.00 1.94
3412 3584 5.704515 TCTGTAGTCTACTGTAGCGAGTTTT 59.295 40.000 9.98 0.00 0.00 2.43
3413 3585 5.243981 TCTGTAGTCTACTGTAGCGAGTTT 58.756 41.667 9.98 0.00 0.00 2.66
3414 3586 4.829968 TCTGTAGTCTACTGTAGCGAGTT 58.170 43.478 9.98 0.00 0.00 3.01
3415 3587 4.468765 TCTGTAGTCTACTGTAGCGAGT 57.531 45.455 9.98 0.38 0.00 4.18
3416 3588 5.447548 GGTTTCTGTAGTCTACTGTAGCGAG 60.448 48.000 9.98 0.00 0.00 5.03
3417 3589 4.394300 GGTTTCTGTAGTCTACTGTAGCGA 59.606 45.833 9.98 0.00 0.00 4.93
3418 3590 4.395542 AGGTTTCTGTAGTCTACTGTAGCG 59.604 45.833 9.98 0.00 0.00 4.26
3419 3591 5.447548 CGAGGTTTCTGTAGTCTACTGTAGC 60.448 48.000 9.98 11.66 0.00 3.58
3420 3592 5.447548 GCGAGGTTTCTGTAGTCTACTGTAG 60.448 48.000 11.28 8.55 0.00 2.74
3421 3593 4.394300 GCGAGGTTTCTGTAGTCTACTGTA 59.606 45.833 11.28 2.24 0.00 2.74
3422 3594 3.190953 GCGAGGTTTCTGTAGTCTACTGT 59.809 47.826 11.28 0.00 0.00 3.55
3423 3595 3.427773 GGCGAGGTTTCTGTAGTCTACTG 60.428 52.174 11.28 10.58 0.00 2.74
3424 3596 2.754002 GGCGAGGTTTCTGTAGTCTACT 59.246 50.000 11.28 0.00 0.00 2.57
3425 3597 2.490903 TGGCGAGGTTTCTGTAGTCTAC 59.509 50.000 2.81 2.81 0.00 2.59
3426 3598 2.799017 TGGCGAGGTTTCTGTAGTCTA 58.201 47.619 0.00 0.00 0.00 2.59
3427 3599 1.629043 TGGCGAGGTTTCTGTAGTCT 58.371 50.000 0.00 0.00 0.00 3.24
3428 3600 2.673368 CAATGGCGAGGTTTCTGTAGTC 59.327 50.000 0.00 0.00 0.00 2.59
3429 3601 2.615493 CCAATGGCGAGGTTTCTGTAGT 60.615 50.000 0.00 0.00 0.00 2.73
3430 3602 2.009774 CCAATGGCGAGGTTTCTGTAG 58.990 52.381 0.00 0.00 0.00 2.74
3431 3603 1.339631 CCCAATGGCGAGGTTTCTGTA 60.340 52.381 0.00 0.00 0.00 2.74
3432 3604 0.609131 CCCAATGGCGAGGTTTCTGT 60.609 55.000 0.00 0.00 0.00 3.41
3433 3605 2.183409 CCCAATGGCGAGGTTTCTG 58.817 57.895 0.00 0.00 0.00 3.02
3434 3606 4.743018 CCCAATGGCGAGGTTTCT 57.257 55.556 0.00 0.00 0.00 2.52
3457 3629 0.821711 TTTCGCCACCCTTCAACTGG 60.822 55.000 0.00 0.00 0.00 4.00
3458 3630 0.310854 GTTTCGCCACCCTTCAACTG 59.689 55.000 0.00 0.00 0.00 3.16
3459 3631 1.164041 CGTTTCGCCACCCTTCAACT 61.164 55.000 0.00 0.00 0.00 3.16
3460 3632 1.281656 CGTTTCGCCACCCTTCAAC 59.718 57.895 0.00 0.00 0.00 3.18
3461 3633 1.153127 ACGTTTCGCCACCCTTCAA 60.153 52.632 0.00 0.00 0.00 2.69
3462 3634 1.890041 CACGTTTCGCCACCCTTCA 60.890 57.895 0.00 0.00 0.00 3.02
3463 3635 2.613506 CCACGTTTCGCCACCCTTC 61.614 63.158 0.00 0.00 0.00 3.46
3464 3636 2.593436 CCACGTTTCGCCACCCTT 60.593 61.111 0.00 0.00 0.00 3.95
3465 3637 3.819877 GACCACGTTTCGCCACCCT 62.820 63.158 0.00 0.00 0.00 4.34
3466 3638 3.351416 GACCACGTTTCGCCACCC 61.351 66.667 0.00 0.00 0.00 4.61
3467 3639 3.351416 GGACCACGTTTCGCCACC 61.351 66.667 0.00 0.00 0.00 4.61
3468 3640 1.716826 TTTGGACCACGTTTCGCCAC 61.717 55.000 0.00 0.00 0.00 5.01
3469 3641 1.451567 TTTGGACCACGTTTCGCCA 60.452 52.632 0.00 0.00 0.00 5.69
3470 3642 1.009335 GTTTGGACCACGTTTCGCC 60.009 57.895 0.00 0.00 0.00 5.54
3471 3643 0.316689 CAGTTTGGACCACGTTTCGC 60.317 55.000 0.00 0.00 0.00 4.70
3472 3644 1.292061 TCAGTTTGGACCACGTTTCG 58.708 50.000 0.00 0.00 0.00 3.46
3473 3645 3.120304 GCTATCAGTTTGGACCACGTTTC 60.120 47.826 0.00 0.00 0.00 2.78
3474 3646 2.812011 GCTATCAGTTTGGACCACGTTT 59.188 45.455 0.00 0.00 0.00 3.60
3475 3647 2.423577 GCTATCAGTTTGGACCACGTT 58.576 47.619 0.00 0.00 0.00 3.99
3476 3648 1.338769 GGCTATCAGTTTGGACCACGT 60.339 52.381 0.00 0.00 0.00 4.49
3477 3649 1.066143 AGGCTATCAGTTTGGACCACG 60.066 52.381 0.00 0.00 0.00 4.94
3478 3650 2.359900 CAGGCTATCAGTTTGGACCAC 58.640 52.381 0.00 0.00 0.00 4.16
3479 3651 1.281867 CCAGGCTATCAGTTTGGACCA 59.718 52.381 0.00 0.00 0.00 4.02
3480 3652 2.019156 GCCAGGCTATCAGTTTGGACC 61.019 57.143 3.29 0.00 0.00 4.46
3481 3653 1.340017 TGCCAGGCTATCAGTTTGGAC 60.340 52.381 14.15 0.00 0.00 4.02
3482 3654 0.991146 TGCCAGGCTATCAGTTTGGA 59.009 50.000 14.15 0.00 0.00 3.53
3483 3655 2.062971 ATGCCAGGCTATCAGTTTGG 57.937 50.000 14.15 0.00 0.00 3.28
3484 3656 2.100252 CCAATGCCAGGCTATCAGTTTG 59.900 50.000 14.15 5.23 0.00 2.93
3485 3657 2.381911 CCAATGCCAGGCTATCAGTTT 58.618 47.619 14.15 0.00 0.00 2.66
3486 3658 1.410648 CCCAATGCCAGGCTATCAGTT 60.411 52.381 14.15 0.00 0.00 3.16
3487 3659 0.184451 CCCAATGCCAGGCTATCAGT 59.816 55.000 14.15 0.00 0.00 3.41
3488 3660 0.538977 CCCCAATGCCAGGCTATCAG 60.539 60.000 14.15 0.00 0.00 2.90
3489 3661 1.538167 CCCCAATGCCAGGCTATCA 59.462 57.895 14.15 0.00 0.00 2.15
3490 3662 1.228675 CCCCCAATGCCAGGCTATC 60.229 63.158 14.15 0.00 0.00 2.08
3491 3663 2.937650 CCCCCAATGCCAGGCTAT 59.062 61.111 14.15 1.45 0.00 2.97
3509 3681 2.128771 TAAACCATGGGCTGAGAAGC 57.871 50.000 18.09 0.00 0.00 3.86
3510 3682 5.041191 ACTATAAACCATGGGCTGAGAAG 57.959 43.478 18.09 6.94 0.00 2.85
3511 3683 4.141482 GGACTATAAACCATGGGCTGAGAA 60.141 45.833 18.09 0.00 0.00 2.87
3512 3684 3.391296 GGACTATAAACCATGGGCTGAGA 59.609 47.826 18.09 0.00 0.00 3.27
3513 3685 3.496870 GGGACTATAAACCATGGGCTGAG 60.497 52.174 18.09 8.89 0.00 3.35
3514 3686 2.441750 GGGACTATAAACCATGGGCTGA 59.558 50.000 18.09 0.00 0.00 4.26
3515 3687 2.174639 TGGGACTATAAACCATGGGCTG 59.825 50.000 18.09 2.43 0.00 4.85
3516 3688 2.174854 GTGGGACTATAAACCATGGGCT 59.825 50.000 18.09 4.76 36.54 5.19
3517 3689 2.583143 GTGGGACTATAAACCATGGGC 58.417 52.381 18.09 0.00 36.54 5.36
3518 3690 2.436542 TCGTGGGACTATAAACCATGGG 59.563 50.000 18.09 0.00 40.77 4.00
3519 3691 3.830744 TCGTGGGACTATAAACCATGG 57.169 47.619 11.19 11.19 40.77 3.66
3520 3692 6.106673 GGATATCGTGGGACTATAAACCATG 58.893 44.000 0.00 0.00 41.55 3.66
3521 3693 5.189145 GGGATATCGTGGGACTATAAACCAT 59.811 44.000 0.00 0.00 36.54 3.55
3522 3694 4.529377 GGGATATCGTGGGACTATAAACCA 59.471 45.833 0.00 0.00 0.00 3.67
3523 3695 4.381292 CGGGATATCGTGGGACTATAAACC 60.381 50.000 0.00 0.00 0.00 3.27
3524 3696 4.460382 TCGGGATATCGTGGGACTATAAAC 59.540 45.833 0.00 0.00 0.00 2.01
3525 3697 4.665451 TCGGGATATCGTGGGACTATAAA 58.335 43.478 0.00 0.00 0.00 1.40
3526 3698 4.267536 CTCGGGATATCGTGGGACTATAA 58.732 47.826 0.00 0.00 0.00 0.98
3527 3699 3.882444 CTCGGGATATCGTGGGACTATA 58.118 50.000 0.00 0.00 0.00 1.31
3528 3700 2.724454 CTCGGGATATCGTGGGACTAT 58.276 52.381 0.00 0.00 0.00 2.12
3529 3701 1.885359 GCTCGGGATATCGTGGGACTA 60.885 57.143 0.00 0.00 0.00 2.59
3530 3702 1.179814 GCTCGGGATATCGTGGGACT 61.180 60.000 0.00 0.00 0.00 3.85
3531 3703 1.289380 GCTCGGGATATCGTGGGAC 59.711 63.158 0.00 0.00 0.00 4.46
3532 3704 1.906824 GGCTCGGGATATCGTGGGA 60.907 63.158 0.00 0.00 0.00 4.37
3533 3705 2.657237 GGCTCGGGATATCGTGGG 59.343 66.667 0.00 0.00 0.00 4.61
3534 3706 1.878656 GAGGGCTCGGGATATCGTGG 61.879 65.000 0.00 0.00 0.00 4.94
3535 3707 1.587054 GAGGGCTCGGGATATCGTG 59.413 63.158 0.00 0.00 0.00 4.35
3536 3708 4.098847 GAGGGCTCGGGATATCGT 57.901 61.111 0.00 0.00 0.00 3.73
3557 3729 4.659172 TCTTGTTGGCCGGGCTGG 62.659 66.667 29.87 8.39 42.50 4.85
3558 3730 2.597217 TTCTTGTTGGCCGGGCTG 60.597 61.111 29.87 13.47 0.00 4.85
3559 3731 2.597510 GTTCTTGTTGGCCGGGCT 60.598 61.111 29.87 0.00 0.00 5.19
3560 3732 4.038080 CGTTCTTGTTGGCCGGGC 62.038 66.667 23.42 23.42 0.00 6.13
3561 3733 4.038080 GCGTTCTTGTTGGCCGGG 62.038 66.667 2.18 0.00 0.00 5.73
3562 3734 4.038080 GGCGTTCTTGTTGGCCGG 62.038 66.667 0.00 0.00 35.59 6.13
3564 3736 2.335011 GTGGCGTTCTTGTTGGCC 59.665 61.111 0.00 0.00 45.76 5.36
3565 3737 2.335011 GGTGGCGTTCTTGTTGGC 59.665 61.111 0.00 0.00 0.00 4.52
3566 3738 2.637025 CGGTGGCGTTCTTGTTGG 59.363 61.111 0.00 0.00 0.00 3.77
3567 3739 2.637025 CCGGTGGCGTTCTTGTTG 59.363 61.111 0.00 0.00 0.00 3.33
3568 3740 3.284449 GCCGGTGGCGTTCTTGTT 61.284 61.111 1.90 0.00 39.62 2.83


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

AutoCloner maintained by Alex Coulton.