Multiple sequence alignment - TraesCS7D01G154300

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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 TraesCS7D01G154300 chr7D 100.000 3299 0 0 1 3299 101805635 101808933 0.000000e+00 6093
1 TraesCS7D01G154300 chr7D 81.319 273 44 3 1242 1509 147411711 147411981 7.170000e-52 215
2 TraesCS7D01G154300 chr7B 91.573 2658 112 53 507 3117 59310948 59313540 0.000000e+00 3565
3 TraesCS7D01G154300 chr7B 85.487 503 45 23 1 479 59310320 59310818 1.770000e-137 499
4 TraesCS7D01G154300 chr7B 82.051 273 42 3 1242 1509 110308814 110309084 3.310000e-55 226
5 TraesCS7D01G154300 chr7A 90.864 2605 115 51 572 3094 105862808 105865371 0.000000e+00 3378
6 TraesCS7D01G154300 chr7A 83.461 393 33 15 42 407 105861832 105862219 1.470000e-88 337
7 TraesCS7D01G154300 chr7A 82.288 271 45 1 1242 1509 148657205 148657475 7.120000e-57 231
8 TraesCS7D01G154300 chr6D 80.198 505 77 14 1077 1574 436716922 436716434 1.130000e-94 357
9 TraesCS7D01G154300 chr6D 88.559 236 21 1 1246 1475 151600631 151600396 6.970000e-72 281
10 TraesCS7D01G154300 chr6A 79.528 508 75 21 1077 1574 584912080 584911592 5.270000e-88 335
11 TraesCS7D01G154300 chr6A 83.835 266 29 10 1465 1720 607849917 607850178 1.180000e-59 241
12 TraesCS7D01G154300 chr6B 79.637 496 64 24 1077 1552 659936584 659936106 4.110000e-84 322


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 TraesCS7D01G154300 chr7D 101805635 101808933 3298 False 6093.0 6093 100.0000 1 3299 1 chr7D.!!$F1 3298
1 TraesCS7D01G154300 chr7B 59310320 59313540 3220 False 2032.0 3565 88.5300 1 3117 2 chr7B.!!$F2 3116
2 TraesCS7D01G154300 chr7A 105861832 105865371 3539 False 1857.5 3378 87.1625 42 3094 2 chr7A.!!$F2 3052

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
865 1328 0.391927 CCCATTTACCTTCCGTCGCA 60.392 55.0 0.0 0.0 0.0 5.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2751 3289 0.750249 TGACAGCGAGACAGAAACCA 59.25 50.0 0.0 0.0 0.0 3.67 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
34 35 2.279517 GTACATCCGCGCCTCCAG 60.280 66.667 0.00 0.00 0.00 3.86
64 65 6.144854 GTGGTTTATCCGTTTTGTACCTTTC 58.855 40.000 0.00 0.00 39.52 2.62
65 66 5.826737 TGGTTTATCCGTTTTGTACCTTTCA 59.173 36.000 0.00 0.00 39.52 2.69
106 107 5.163913 GCTAGCTGGTTGATATTGCTTATCG 60.164 44.000 7.70 0.00 39.77 2.92
113 114 8.138365 TGGTTGATATTGCTTATCGTTAGTTC 57.862 34.615 0.00 0.00 39.77 3.01
114 115 7.766738 TGGTTGATATTGCTTATCGTTAGTTCA 59.233 33.333 0.00 0.00 39.77 3.18
139 140 9.599866 CACTTGTCATATAGGTTATTCTTGTCA 57.400 33.333 0.00 0.00 0.00 3.58
225 227 9.582431 GCTAAAAATTTGTAGTTTTCTATCCCC 57.418 33.333 15.37 0.00 33.92 4.81
289 303 6.429692 TGTTCCATACATGTTTGACAACTAGG 59.570 38.462 16.77 0.00 33.58 3.02
290 304 5.496556 TCCATACATGTTTGACAACTAGGG 58.503 41.667 16.77 1.06 33.58 3.53
291 305 4.096382 CCATACATGTTTGACAACTAGGGC 59.904 45.833 16.77 0.00 33.58 5.19
292 306 2.151202 ACATGTTTGACAACTAGGGCG 58.849 47.619 0.00 0.00 33.58 6.13
294 308 0.470766 TGTTTGACAACTAGGGCGGT 59.529 50.000 0.00 0.00 33.58 5.68
295 309 1.693062 TGTTTGACAACTAGGGCGGTA 59.307 47.619 0.00 0.00 33.58 4.02
296 310 2.303600 TGTTTGACAACTAGGGCGGTAT 59.696 45.455 0.00 0.00 33.58 2.73
297 311 3.514706 TGTTTGACAACTAGGGCGGTATA 59.485 43.478 0.00 0.00 33.58 1.47
299 313 4.395959 TTGACAACTAGGGCGGTATAAG 57.604 45.455 0.00 0.00 0.00 1.73
300 314 3.634504 TGACAACTAGGGCGGTATAAGA 58.365 45.455 0.00 0.00 0.00 2.10
301 315 3.635373 TGACAACTAGGGCGGTATAAGAG 59.365 47.826 0.00 0.00 0.00 2.85
302 316 2.364647 ACAACTAGGGCGGTATAAGAGC 59.635 50.000 0.00 0.00 0.00 4.09
320 336 5.443230 AGAGCCTTAAGTTCCATAGCTTT 57.557 39.130 0.97 0.00 0.00 3.51
331 359 1.396653 CATAGCTTTGGGGGCAGAAG 58.603 55.000 0.00 0.00 0.00 2.85
333 361 1.298953 TAGCTTTGGGGGCAGAAGAT 58.701 50.000 0.00 0.00 0.00 2.40
348 376 5.879223 GGCAGAAGATCATTTTTCTCTCTCA 59.121 40.000 0.00 0.00 31.53 3.27
431 460 5.642063 CCTTAAGACTAAGCCGAAACAATCA 59.358 40.000 3.36 0.00 34.29 2.57
452 481 1.837439 ACCACTCAAGACAAGACCACA 59.163 47.619 0.00 0.00 0.00 4.17
455 484 3.499918 CCACTCAAGACAAGACCACAATC 59.500 47.826 0.00 0.00 0.00 2.67
462 491 3.650942 AGACAAGACCACAATCAACCCTA 59.349 43.478 0.00 0.00 0.00 3.53
492 552 1.331756 GCATTAAGCCATCCACACTCG 59.668 52.381 0.00 0.00 37.23 4.18
497 557 0.904649 AGCCATCCACACTCGATCAA 59.095 50.000 0.00 0.00 0.00 2.57
503 563 5.359756 CCATCCACACTCGATCAAAGATAA 58.640 41.667 0.00 0.00 0.00 1.75
504 564 5.817296 CCATCCACACTCGATCAAAGATAAA 59.183 40.000 0.00 0.00 0.00 1.40
505 565 6.238211 CCATCCACACTCGATCAAAGATAAAC 60.238 42.308 0.00 0.00 0.00 2.01
513 644 1.828979 TCAAAGATAAACCCACCCGC 58.171 50.000 0.00 0.00 0.00 6.13
517 648 2.437716 ATAAACCCACCCGCTGCG 60.438 61.111 16.34 16.34 0.00 5.18
569 986 3.868757 TTGAACGTCCGAGATTCTGAT 57.131 42.857 0.00 0.00 0.00 2.90
570 987 4.976224 TTGAACGTCCGAGATTCTGATA 57.024 40.909 0.00 0.00 0.00 2.15
620 1073 1.231221 TTCACGGGTTCAAATCACGG 58.769 50.000 0.00 0.00 35.91 4.94
640 1093 5.865013 CACGGTAAACTTGAAACAAAAAGGT 59.135 36.000 0.00 0.00 0.00 3.50
662 1117 1.627864 AAACAGGATTTTGGTCCCCG 58.372 50.000 0.00 0.00 39.17 5.73
699 1159 1.298157 CCGATGCAGCTTTGGTCGAA 61.298 55.000 0.00 0.00 34.46 3.71
718 1181 3.309682 CGAAAAATAGCAAGCGATCTCCA 59.690 43.478 0.00 0.00 0.00 3.86
734 1197 2.773661 TCTCCATATCACTGTGGCACAT 59.226 45.455 22.35 8.86 44.52 3.21
764 1227 3.264947 GCAAATTCAGAATGGCTTTCCC 58.735 45.455 9.29 0.00 36.16 3.97
832 1295 4.330944 ACGAGGCAATAAATACCGATCA 57.669 40.909 0.00 0.00 0.00 2.92
847 1310 1.988982 GATCACCTCTCCCTTGCCCC 61.989 65.000 0.00 0.00 0.00 5.80
865 1328 0.391927 CCCATTTACCTTCCGTCGCA 60.392 55.000 0.00 0.00 0.00 5.10
878 1341 1.069090 GTCGCAGTGACTTCCACCA 59.931 57.895 6.88 0.00 46.87 4.17
1618 2094 2.926242 TGGGTGGAAGGGACGACC 60.926 66.667 0.00 0.00 37.81 4.79
1635 2111 1.137872 GACCATGAGAATGAGGCGTCT 59.862 52.381 8.06 0.00 0.00 4.18
2124 2600 2.202676 GAGGCGAGCAGGAACGAG 60.203 66.667 0.00 0.00 0.00 4.18
2295 2771 3.406200 AGCGCTGGGAGCCATTCT 61.406 61.111 10.39 0.00 38.18 2.40
2383 2879 5.860941 TGGATTTGTTTTTCCTTGTGCTA 57.139 34.783 0.00 0.00 32.95 3.49
2449 2946 2.468777 ACTGCGTTGTTTTACGACTACG 59.531 45.455 7.44 7.44 46.41 3.51
2479 2976 0.179127 TGACGCACAGATAGCAGAGC 60.179 55.000 0.00 0.00 0.00 4.09
2510 3007 5.242171 ACATTCTTGCATGATTGTGACTTGA 59.758 36.000 22.17 0.00 31.80 3.02
2601 3139 8.800370 TGCATTACAAGTACAATAGAATTGGA 57.200 30.769 0.00 0.00 0.00 3.53
2625 3163 4.269844 GCAACTTAGAAGCTACTCATGAGC 59.730 45.833 22.83 10.02 40.42 4.26
2631 3169 4.260170 AGAAGCTACTCATGAGCAAAAGG 58.740 43.478 22.83 7.56 42.69 3.11
2633 3171 4.292186 AGCTACTCATGAGCAAAAGGAA 57.708 40.909 22.83 0.00 42.69 3.36
2634 3172 4.260170 AGCTACTCATGAGCAAAAGGAAG 58.740 43.478 22.83 8.24 42.69 3.46
2635 3173 3.181502 GCTACTCATGAGCAAAAGGAAGC 60.182 47.826 22.83 13.54 39.84 3.86
2636 3174 2.867624 ACTCATGAGCAAAAGGAAGCA 58.132 42.857 22.83 0.00 0.00 3.91
2637 3175 2.555757 ACTCATGAGCAAAAGGAAGCAC 59.444 45.455 22.83 0.00 0.00 4.40
2639 3177 0.883833 ATGAGCAAAAGGAAGCACGG 59.116 50.000 0.00 0.00 0.00 4.94
2640 3178 0.465460 TGAGCAAAAGGAAGCACGGT 60.465 50.000 0.00 0.00 0.00 4.83
2641 3179 0.668535 GAGCAAAAGGAAGCACGGTT 59.331 50.000 0.00 0.00 0.00 4.44
2642 3180 0.668535 AGCAAAAGGAAGCACGGTTC 59.331 50.000 0.30 0.30 0.00 3.62
2645 3183 1.946768 CAAAAGGAAGCACGGTTCTGA 59.053 47.619 8.71 0.00 0.00 3.27
2655 3193 2.032808 GCACGGTTCTGAACTTTCTGAC 60.033 50.000 19.05 1.17 35.32 3.51
2666 3204 6.420903 TCTGAACTTTCTGACGATACAGTTTG 59.579 38.462 0.00 0.00 38.79 2.93
2673 3211 3.472652 TGACGATACAGTTTGCCAGTTT 58.527 40.909 0.00 0.00 0.00 2.66
2685 3223 7.147312 CAGTTTGCCAGTTTAATCAGATTTGA 58.853 34.615 0.00 0.00 37.81 2.69
2701 3239 7.453393 TCAGATTTGACAGGTAAACTTCTGAT 58.547 34.615 7.04 0.00 32.49 2.90
2703 3241 6.656693 AGATTTGACAGGTAAACTTCTGATGG 59.343 38.462 0.00 0.00 35.20 3.51
2705 3243 5.304686 TGACAGGTAAACTTCTGATGGTT 57.695 39.130 0.00 0.00 35.20 3.67
2706 3244 6.428083 TGACAGGTAAACTTCTGATGGTTA 57.572 37.500 0.00 0.00 35.20 2.85
2739 3277 2.158900 CGAGATTTGCCATGTCCCTACT 60.159 50.000 0.00 0.00 0.00 2.57
2746 3284 4.150897 TGCCATGTCCCTACTGATTAAC 57.849 45.455 0.00 0.00 0.00 2.01
2747 3285 3.521531 TGCCATGTCCCTACTGATTAACA 59.478 43.478 0.00 0.00 0.00 2.41
2749 3287 4.947388 GCCATGTCCCTACTGATTAACAAA 59.053 41.667 0.00 0.00 0.00 2.83
2750 3288 5.417580 GCCATGTCCCTACTGATTAACAAAA 59.582 40.000 0.00 0.00 0.00 2.44
2751 3289 6.096846 GCCATGTCCCTACTGATTAACAAAAT 59.903 38.462 0.00 0.00 0.00 1.82
2752 3290 7.483307 CCATGTCCCTACTGATTAACAAAATG 58.517 38.462 0.00 0.00 0.00 2.32
2754 3292 6.548321 TGTCCCTACTGATTAACAAAATGGT 58.452 36.000 0.00 0.00 0.00 3.55
2755 3293 7.007723 TGTCCCTACTGATTAACAAAATGGTT 58.992 34.615 0.00 0.00 34.81 3.67
2756 3294 7.507616 TGTCCCTACTGATTAACAAAATGGTTT 59.492 33.333 0.00 0.00 32.29 3.27
2760 3298 8.576442 CCTACTGATTAACAAAATGGTTTCTGT 58.424 33.333 0.00 0.00 32.29 3.41
2761 3299 9.612620 CTACTGATTAACAAAATGGTTTCTGTC 57.387 33.333 0.00 0.00 32.29 3.51
2762 3300 8.237811 ACTGATTAACAAAATGGTTTCTGTCT 57.762 30.769 0.00 0.00 32.29 3.41
2869 3417 2.124403 GCCTGCATGTGGGGAGAG 60.124 66.667 8.56 0.00 0.00 3.20
2886 3434 1.614824 AGGGTGAGAGGAAGCTGGG 60.615 63.158 0.00 0.00 0.00 4.45
2919 3467 9.471084 GTTTCGAATTCTTTTCTTAATTCCCAA 57.529 29.630 0.00 0.00 38.36 4.12
2922 3470 8.856103 TCGAATTCTTTTCTTAATTCCCAAAGT 58.144 29.630 3.52 0.00 38.36 2.66
2938 3486 1.106944 AAGTTCGGTTGGCCTTGGTG 61.107 55.000 3.32 0.00 0.00 4.17
2939 3487 1.826487 GTTCGGTTGGCCTTGGTGT 60.826 57.895 3.32 0.00 0.00 4.16
3022 3580 1.527736 GTGTTCCGTATCACGTTGCAA 59.472 47.619 0.00 0.00 40.58 4.08
3095 3663 6.256539 CACTAGATGATGTTTGCGACAGTAAT 59.743 38.462 0.00 0.00 42.62 1.89
3096 3664 7.435192 CACTAGATGATGTTTGCGACAGTAATA 59.565 37.037 0.00 0.00 42.62 0.98
3097 3665 7.979537 ACTAGATGATGTTTGCGACAGTAATAA 59.020 33.333 0.00 0.00 42.62 1.40
3098 3666 7.609760 AGATGATGTTTGCGACAGTAATAAA 57.390 32.000 0.00 0.00 42.62 1.40
3099 3667 7.464358 AGATGATGTTTGCGACAGTAATAAAC 58.536 34.615 0.00 0.00 42.62 2.01
3101 3669 4.392619 TGTTTGCGACAGTAATAAACGG 57.607 40.909 0.00 0.00 34.80 4.44
3102 3670 3.158268 GTTTGCGACAGTAATAAACGGC 58.842 45.455 0.00 0.00 0.00 5.68
3103 3671 0.993532 TGCGACAGTAATAAACGGCG 59.006 50.000 4.80 4.80 36.58 6.46
3104 3672 1.270971 GCGACAGTAATAAACGGCGA 58.729 50.000 16.62 0.00 35.88 5.54
3105 3673 1.254570 GCGACAGTAATAAACGGCGAG 59.745 52.381 16.62 0.00 35.88 5.03
3106 3674 2.789208 CGACAGTAATAAACGGCGAGA 58.211 47.619 16.62 0.00 35.88 4.04
3107 3675 2.529090 CGACAGTAATAAACGGCGAGAC 59.471 50.000 16.62 1.59 35.88 3.36
3108 3676 3.730061 CGACAGTAATAAACGGCGAGACT 60.730 47.826 16.62 4.09 35.88 3.24
3109 3677 3.508762 ACAGTAATAAACGGCGAGACTG 58.491 45.455 16.62 17.75 38.96 3.51
3115 3683 8.232513 CAGTAATAAACGGCGAGACTGTATATA 58.767 37.037 16.62 0.00 36.64 0.86
3116 3684 8.954350 AGTAATAAACGGCGAGACTGTATATAT 58.046 33.333 16.62 0.00 36.64 0.86
3117 3685 9.007252 GTAATAAACGGCGAGACTGTATATATG 57.993 37.037 16.62 0.00 36.64 1.78
3118 3686 5.449107 AAACGGCGAGACTGTATATATGT 57.551 39.130 16.62 0.00 36.64 2.29
3119 3687 4.421033 ACGGCGAGACTGTATATATGTG 57.579 45.455 16.62 0.00 35.54 3.21
3120 3688 3.172050 CGGCGAGACTGTATATATGTGC 58.828 50.000 0.00 0.00 0.00 4.57
3121 3689 3.172050 GGCGAGACTGTATATATGTGCG 58.828 50.000 0.00 0.00 0.00 5.34
3122 3690 2.594654 GCGAGACTGTATATATGTGCGC 59.405 50.000 0.00 0.00 0.00 6.09
3123 3691 2.840752 CGAGACTGTATATATGTGCGCG 59.159 50.000 0.00 0.00 0.00 6.86
3124 3692 3.667166 CGAGACTGTATATATGTGCGCGT 60.667 47.826 8.43 0.00 0.00 6.01
3125 3693 3.565516 AGACTGTATATATGTGCGCGTG 58.434 45.455 8.43 0.00 0.00 5.34
3126 3694 3.004419 AGACTGTATATATGTGCGCGTGT 59.996 43.478 8.43 0.00 0.00 4.49
3127 3695 4.214758 AGACTGTATATATGTGCGCGTGTA 59.785 41.667 8.43 0.00 0.00 2.90
3128 3696 4.862350 ACTGTATATATGTGCGCGTGTAA 58.138 39.130 8.43 0.00 0.00 2.41
3129 3697 4.678287 ACTGTATATATGTGCGCGTGTAAC 59.322 41.667 8.43 1.98 0.00 2.50
3140 3708 4.164252 GTGTAACGGGCGTCTCTG 57.836 61.111 0.00 0.00 0.00 3.35
3141 3709 1.288127 GTGTAACGGGCGTCTCTGT 59.712 57.895 0.00 0.00 0.00 3.41
3142 3710 0.523072 GTGTAACGGGCGTCTCTGTA 59.477 55.000 0.00 0.00 0.00 2.74
3143 3711 0.806868 TGTAACGGGCGTCTCTGTAG 59.193 55.000 0.00 0.00 0.00 2.74
3144 3712 0.525029 GTAACGGGCGTCTCTGTAGC 60.525 60.000 0.00 0.00 0.00 3.58
3148 3716 3.221222 GGCGTCTCTGTAGCCCAT 58.779 61.111 0.00 0.00 44.80 4.00
3149 3717 2.426651 GGCGTCTCTGTAGCCCATA 58.573 57.895 0.00 0.00 44.80 2.74
3150 3718 0.315568 GGCGTCTCTGTAGCCCATAG 59.684 60.000 0.00 0.00 44.80 2.23
3151 3719 0.319125 GCGTCTCTGTAGCCCATAGC 60.319 60.000 0.00 0.00 44.25 2.97
3161 3729 3.314083 GCCCATAGCTGGTAAGAGC 57.686 57.895 0.00 0.00 41.37 4.09
3162 3730 0.601311 GCCCATAGCTGGTAAGAGCG 60.601 60.000 0.00 0.00 44.24 5.03
3163 3731 0.753262 CCCATAGCTGGTAAGAGCGT 59.247 55.000 0.00 0.00 44.24 5.07
3164 3732 1.269831 CCCATAGCTGGTAAGAGCGTC 60.270 57.143 0.00 0.00 44.24 5.19
3165 3733 1.683917 CCATAGCTGGTAAGAGCGTCT 59.316 52.381 0.00 0.00 44.24 4.18
3166 3734 2.885266 CCATAGCTGGTAAGAGCGTCTA 59.115 50.000 0.00 0.00 44.24 2.59
3167 3735 3.304794 CCATAGCTGGTAAGAGCGTCTAC 60.305 52.174 0.00 0.00 44.24 2.59
3168 3736 1.835494 AGCTGGTAAGAGCGTCTACA 58.165 50.000 0.00 0.00 44.24 2.74
3169 3737 2.168496 AGCTGGTAAGAGCGTCTACAA 58.832 47.619 0.00 0.00 44.24 2.41
3170 3738 2.094649 AGCTGGTAAGAGCGTCTACAAC 60.095 50.000 0.00 0.00 44.24 3.32
3171 3739 2.094649 GCTGGTAAGAGCGTCTACAACT 60.095 50.000 0.00 0.00 0.00 3.16
3172 3740 3.502920 CTGGTAAGAGCGTCTACAACTG 58.497 50.000 0.00 0.00 0.00 3.16
3173 3741 2.230508 TGGTAAGAGCGTCTACAACTGG 59.769 50.000 0.00 0.00 0.00 4.00
3174 3742 2.490903 GGTAAGAGCGTCTACAACTGGA 59.509 50.000 0.00 0.00 0.00 3.86
3175 3743 2.726832 AAGAGCGTCTACAACTGGAC 57.273 50.000 0.00 0.00 0.00 4.02
3176 3744 1.912417 AGAGCGTCTACAACTGGACT 58.088 50.000 0.00 0.00 0.00 3.85
3177 3745 1.813786 AGAGCGTCTACAACTGGACTC 59.186 52.381 0.00 0.00 0.00 3.36
3178 3746 0.522180 AGCGTCTACAACTGGACTCG 59.478 55.000 0.00 0.00 0.00 4.18
3179 3747 0.456312 GCGTCTACAACTGGACTCGG 60.456 60.000 0.00 0.00 0.00 4.63
3180 3748 0.879765 CGTCTACAACTGGACTCGGT 59.120 55.000 0.00 0.00 0.00 4.69
3181 3749 2.079158 CGTCTACAACTGGACTCGGTA 58.921 52.381 0.00 0.00 0.00 4.02
3182 3750 2.485426 CGTCTACAACTGGACTCGGTAA 59.515 50.000 0.00 0.00 0.00 2.85
3183 3751 3.058016 CGTCTACAACTGGACTCGGTAAA 60.058 47.826 0.00 0.00 0.00 2.01
3184 3752 4.380233 CGTCTACAACTGGACTCGGTAAAT 60.380 45.833 0.00 0.00 0.00 1.40
3185 3753 5.100943 GTCTACAACTGGACTCGGTAAATC 58.899 45.833 0.00 0.00 0.00 2.17
3186 3754 3.329929 ACAACTGGACTCGGTAAATCC 57.670 47.619 0.00 0.00 0.00 3.01
3200 3768 3.867493 GGTAAATCCGTCCCTTCTAAACG 59.133 47.826 0.00 0.00 36.22 3.60
3201 3769 3.690475 AAATCCGTCCCTTCTAAACGT 57.310 42.857 0.00 0.00 34.71 3.99
3202 3770 2.955477 ATCCGTCCCTTCTAAACGTC 57.045 50.000 0.00 0.00 34.71 4.34
3203 3771 0.890683 TCCGTCCCTTCTAAACGTCC 59.109 55.000 0.00 0.00 34.71 4.79
3204 3772 0.457337 CCGTCCCTTCTAAACGTCCG 60.457 60.000 0.00 0.00 34.71 4.79
3205 3773 1.074872 CGTCCCTTCTAAACGTCCGC 61.075 60.000 0.00 0.00 0.00 5.54
3206 3774 0.037975 GTCCCTTCTAAACGTCCGCA 60.038 55.000 0.00 0.00 0.00 5.69
3207 3775 0.680618 TCCCTTCTAAACGTCCGCAA 59.319 50.000 0.00 0.00 0.00 4.85
3208 3776 1.070445 TCCCTTCTAAACGTCCGCAAA 59.930 47.619 0.00 0.00 0.00 3.68
3209 3777 1.196127 CCCTTCTAAACGTCCGCAAAC 59.804 52.381 0.00 0.00 0.00 2.93
3221 3789 2.804856 GCAAACGTGCCCAAGTGT 59.195 55.556 0.00 0.00 45.68 3.55
3222 3790 1.588667 GCAAACGTGCCCAAGTGTG 60.589 57.895 0.00 0.89 45.68 3.82
3223 3791 1.999071 GCAAACGTGCCCAAGTGTGA 61.999 55.000 8.41 0.00 45.68 3.58
3224 3792 0.248458 CAAACGTGCCCAAGTGTGAC 60.248 55.000 0.00 0.00 30.96 3.67
3225 3793 1.381165 AAACGTGCCCAAGTGTGACC 61.381 55.000 0.00 0.00 0.00 4.02
3226 3794 2.203139 CGTGCCCAAGTGTGACCA 60.203 61.111 0.00 0.00 0.00 4.02
3227 3795 2.542907 CGTGCCCAAGTGTGACCAC 61.543 63.158 0.00 0.00 42.17 4.16
3228 3796 2.203139 TGCCCAAGTGTGACCACG 60.203 61.111 0.00 0.00 46.56 4.94
3229 3797 2.978010 GCCCAAGTGTGACCACGG 60.978 66.667 0.00 0.00 46.56 4.94
3230 3798 2.825982 CCCAAGTGTGACCACGGA 59.174 61.111 0.00 0.00 46.56 4.69
3231 3799 1.597027 CCCAAGTGTGACCACGGAC 60.597 63.158 0.00 0.00 46.56 4.79
3232 3800 1.145156 CCAAGTGTGACCACGGACA 59.855 57.895 0.00 0.00 46.56 4.02
3233 3801 0.462937 CCAAGTGTGACCACGGACAA 60.463 55.000 0.00 0.00 46.56 3.18
3234 3802 0.655733 CAAGTGTGACCACGGACAAC 59.344 55.000 0.00 0.00 46.56 3.32
3235 3803 0.808453 AAGTGTGACCACGGACAACG 60.808 55.000 0.00 0.00 46.56 4.10
3253 3821 3.354678 CCGAACAGGCCCTTGTTG 58.645 61.111 14.64 0.95 41.15 3.33
3254 3822 1.228124 CCGAACAGGCCCTTGTTGA 60.228 57.895 14.64 0.00 41.15 3.18
3255 3823 1.515521 CCGAACAGGCCCTTGTTGAC 61.516 60.000 14.64 1.46 41.15 3.18
3256 3824 0.535102 CGAACAGGCCCTTGTTGACT 60.535 55.000 14.64 0.00 41.15 3.41
3257 3825 0.954452 GAACAGGCCCTTGTTGACTG 59.046 55.000 14.64 0.00 41.15 3.51
3258 3826 1.109323 AACAGGCCCTTGTTGACTGC 61.109 55.000 9.45 0.00 39.68 4.40
3259 3827 2.281761 AGGCCCTTGTTGACTGCG 60.282 61.111 0.00 0.00 0.00 5.18
3260 3828 3.365265 GGCCCTTGTTGACTGCGG 61.365 66.667 0.00 0.00 0.00 5.69
3261 3829 3.365265 GCCCTTGTTGACTGCGGG 61.365 66.667 0.00 0.00 37.97 6.13
3262 3830 3.365265 CCCTTGTTGACTGCGGGC 61.365 66.667 0.00 0.00 0.00 6.13
3263 3831 3.726517 CCTTGTTGACTGCGGGCG 61.727 66.667 0.00 0.00 0.00 6.13
3264 3832 2.664851 CTTGTTGACTGCGGGCGA 60.665 61.111 0.00 0.00 0.00 5.54
3265 3833 2.031919 TTGTTGACTGCGGGCGAT 59.968 55.556 0.00 0.00 0.00 4.58
3266 3834 1.970917 CTTGTTGACTGCGGGCGATC 61.971 60.000 0.00 0.00 0.00 3.69
3267 3835 2.434185 GTTGACTGCGGGCGATCA 60.434 61.111 0.00 0.00 0.00 2.92
3268 3836 2.434185 TTGACTGCGGGCGATCAC 60.434 61.111 0.00 0.00 0.00 3.06
3269 3837 3.233259 TTGACTGCGGGCGATCACA 62.233 57.895 0.00 0.00 0.00 3.58
3270 3838 3.188786 GACTGCGGGCGATCACAC 61.189 66.667 0.00 0.00 0.00 3.82
3271 3839 3.649277 GACTGCGGGCGATCACACT 62.649 63.158 0.00 0.00 0.00 3.55
3272 3840 2.279502 GACTGCGGGCGATCACACTA 62.280 60.000 0.00 0.00 0.00 2.74
3273 3841 1.878522 CTGCGGGCGATCACACTAC 60.879 63.158 0.00 0.00 0.00 2.73
3274 3842 2.284798 CTGCGGGCGATCACACTACT 62.285 60.000 0.00 0.00 0.00 2.57
3275 3843 1.589196 GCGGGCGATCACACTACTC 60.589 63.158 0.00 0.00 0.00 2.59
3276 3844 1.807226 CGGGCGATCACACTACTCA 59.193 57.895 0.00 0.00 0.00 3.41
3277 3845 0.172578 CGGGCGATCACACTACTCAA 59.827 55.000 0.00 0.00 0.00 3.02
3278 3846 1.403647 CGGGCGATCACACTACTCAAA 60.404 52.381 0.00 0.00 0.00 2.69
3279 3847 2.738643 CGGGCGATCACACTACTCAAAT 60.739 50.000 0.00 0.00 0.00 2.32
3280 3848 3.270877 GGGCGATCACACTACTCAAATT 58.729 45.455 0.00 0.00 0.00 1.82
3281 3849 3.063997 GGGCGATCACACTACTCAAATTG 59.936 47.826 0.00 0.00 0.00 2.32
3282 3850 3.932710 GGCGATCACACTACTCAAATTGA 59.067 43.478 0.00 0.00 0.00 2.57
3283 3851 4.391830 GGCGATCACACTACTCAAATTGAA 59.608 41.667 0.00 0.00 0.00 2.69
3284 3852 5.106712 GGCGATCACACTACTCAAATTGAAA 60.107 40.000 0.00 0.00 0.00 2.69
3285 3853 5.790495 GCGATCACACTACTCAAATTGAAAC 59.210 40.000 0.00 0.00 0.00 2.78
3286 3854 6.307155 CGATCACACTACTCAAATTGAAACC 58.693 40.000 0.00 0.00 0.00 3.27
3287 3855 6.575162 ATCACACTACTCAAATTGAAACCC 57.425 37.500 0.00 0.00 0.00 4.11
3288 3856 5.690865 TCACACTACTCAAATTGAAACCCT 58.309 37.500 0.00 0.00 0.00 4.34
3289 3857 5.763204 TCACACTACTCAAATTGAAACCCTC 59.237 40.000 0.00 0.00 0.00 4.30
3290 3858 4.755123 ACACTACTCAAATTGAAACCCTCG 59.245 41.667 0.00 0.00 0.00 4.63
3291 3859 4.994852 CACTACTCAAATTGAAACCCTCGA 59.005 41.667 0.00 0.00 0.00 4.04
3292 3860 5.468746 CACTACTCAAATTGAAACCCTCGAA 59.531 40.000 0.00 0.00 0.00 3.71
3293 3861 6.149474 CACTACTCAAATTGAAACCCTCGAAT 59.851 38.462 0.00 0.00 0.00 3.34
3294 3862 6.715264 ACTACTCAAATTGAAACCCTCGAATT 59.285 34.615 0.00 0.00 0.00 2.17
3295 3863 6.013842 ACTCAAATTGAAACCCTCGAATTC 57.986 37.500 0.00 0.00 0.00 2.17
3296 3864 5.534654 ACTCAAATTGAAACCCTCGAATTCA 59.465 36.000 6.22 0.00 0.00 2.57
3297 3865 6.209391 ACTCAAATTGAAACCCTCGAATTCAT 59.791 34.615 6.22 0.00 33.45 2.57
3298 3866 6.389091 TCAAATTGAAACCCTCGAATTCATG 58.611 36.000 6.22 0.00 33.45 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 3.792053 CTGGAGGCGCGGATGTACC 62.792 68.421 8.83 0.00 0.00 3.34
17 18 2.279517 CTGGAGGCGCGGATGTAC 60.280 66.667 8.83 0.00 0.00 2.90
34 35 3.636282 AAACGGATAAACCACACAAGC 57.364 42.857 0.00 0.00 38.90 4.01
113 114 9.599866 TGACAAGAATAACCTATATGACAAGTG 57.400 33.333 0.00 0.00 0.00 3.16
235 237 7.733773 TGAAAGGATCTAATGGTTGACTAGA 57.266 36.000 0.00 0.00 0.00 2.43
238 240 8.552296 ACTTATGAAAGGATCTAATGGTTGACT 58.448 33.333 0.00 0.00 37.01 3.41
239 241 8.616076 CACTTATGAAAGGATCTAATGGTTGAC 58.384 37.037 0.00 0.00 37.01 3.18
240 242 8.328758 ACACTTATGAAAGGATCTAATGGTTGA 58.671 33.333 0.00 0.00 37.01 3.18
241 243 8.511604 ACACTTATGAAAGGATCTAATGGTTG 57.488 34.615 0.00 0.00 37.01 3.77
242 244 9.178758 GAACACTTATGAAAGGATCTAATGGTT 57.821 33.333 0.00 0.00 37.01 3.67
289 303 3.747854 ACTTAAGGCTCTTATACCGCC 57.252 47.619 7.53 0.00 44.09 6.13
290 304 4.056740 GGAACTTAAGGCTCTTATACCGC 58.943 47.826 7.53 0.00 0.00 5.68
291 305 5.272283 TGGAACTTAAGGCTCTTATACCG 57.728 43.478 7.53 0.00 0.00 4.02
292 306 6.874664 GCTATGGAACTTAAGGCTCTTATACC 59.125 42.308 7.53 0.00 0.00 2.73
294 308 7.857404 AGCTATGGAACTTAAGGCTCTTATA 57.143 36.000 7.53 6.02 0.00 0.98
295 309 6.755542 AGCTATGGAACTTAAGGCTCTTAT 57.244 37.500 7.53 5.29 0.00 1.73
296 310 6.561519 AAGCTATGGAACTTAAGGCTCTTA 57.438 37.500 7.53 0.00 0.00 2.10
297 311 5.443230 AAGCTATGGAACTTAAGGCTCTT 57.557 39.130 7.53 0.00 0.00 2.85
299 313 4.336713 CCAAAGCTATGGAACTTAAGGCTC 59.663 45.833 7.53 2.96 43.54 4.70
300 314 4.273318 CCAAAGCTATGGAACTTAAGGCT 58.727 43.478 7.53 0.81 43.54 4.58
301 315 3.381590 CCCAAAGCTATGGAACTTAAGGC 59.618 47.826 7.53 0.00 43.54 4.35
302 316 3.954258 CCCCAAAGCTATGGAACTTAAGG 59.046 47.826 7.53 0.00 43.54 2.69
303 317 3.954258 CCCCCAAAGCTATGGAACTTAAG 59.046 47.826 0.00 0.00 43.54 1.85
304 318 3.880117 GCCCCCAAAGCTATGGAACTTAA 60.880 47.826 0.00 0.00 43.54 1.85
307 321 0.033109 GCCCCCAAAGCTATGGAACT 60.033 55.000 0.00 0.00 43.54 3.01
320 336 2.925966 AAAATGATCTTCTGCCCCCA 57.074 45.000 0.00 0.00 0.00 4.96
331 359 9.520204 TTGTGTTTTTGAGAGAGAAAAATGATC 57.480 29.630 0.00 0.00 35.37 2.92
333 361 9.357652 CTTTGTGTTTTTGAGAGAGAAAAATGA 57.642 29.630 0.00 0.00 35.37 2.57
348 376 5.437289 TCGAGATGCATCTTTGTGTTTTT 57.563 34.783 29.26 3.98 37.25 1.94
407 436 5.642063 TGATTGTTTCGGCTTAGTCTTAAGG 59.358 40.000 1.85 0.00 37.37 2.69
431 460 2.238646 TGTGGTCTTGTCTTGAGTGGTT 59.761 45.455 0.00 0.00 0.00 3.67
452 481 4.406456 TGCTTGTCATGTTAGGGTTGATT 58.594 39.130 0.00 0.00 0.00 2.57
455 484 4.789012 AATGCTTGTCATGTTAGGGTTG 57.211 40.909 0.00 0.00 35.13 3.77
462 491 4.142093 GGATGGCTTAATGCTTGTCATGTT 60.142 41.667 0.00 0.00 42.39 2.71
488 548 4.514401 GGTGGGTTTATCTTTGATCGAGT 58.486 43.478 0.00 0.00 0.00 4.18
490 550 3.680475 CGGGTGGGTTTATCTTTGATCGA 60.680 47.826 0.00 0.00 0.00 3.59
492 552 2.357952 GCGGGTGGGTTTATCTTTGATC 59.642 50.000 0.00 0.00 0.00 2.92
497 557 0.679960 GCAGCGGGTGGGTTTATCTT 60.680 55.000 9.49 0.00 0.00 2.40
620 1073 9.588774 GTTTTGACCTTTTTGTTTCAAGTTTAC 57.411 29.630 0.00 0.00 29.96 2.01
662 1117 4.460948 TCGGTACTGAAACCTGAATACC 57.539 45.455 0.63 0.00 37.39 2.73
699 1159 6.148480 GTGATATGGAGATCGCTTGCTATTTT 59.852 38.462 0.00 0.00 34.20 1.82
718 1181 3.459598 AGGGTAATGTGCCACAGTGATAT 59.540 43.478 8.24 0.00 0.00 1.63
734 1197 4.706476 CCATTCTGAATTTGCAGAGGGTAA 59.294 41.667 0.00 0.00 44.93 2.85
764 1227 6.712095 TGGAGATCGGATCCATTTTTATCTTG 59.288 38.462 13.41 0.00 41.96 3.02
832 1295 3.603330 ATGGGGGCAAGGGAGAGGT 62.603 63.158 0.00 0.00 0.00 3.85
847 1310 1.006832 CTGCGACGGAAGGTAAATGG 58.993 55.000 0.00 0.00 0.00 3.16
865 1328 2.426023 GCGGTGGTGGAAGTCACT 59.574 61.111 0.00 0.00 45.38 3.41
1290 1754 1.153349 GATGAAGGCCTGGTCGACC 60.153 63.158 28.17 28.17 0.00 4.79
1618 2094 1.863267 GGAGACGCCTCATTCTCATG 58.137 55.000 0.00 0.00 40.17 3.07
1635 2111 1.682684 GACCTCCTCTGCCTTCGGA 60.683 63.158 0.00 0.00 0.00 4.55
1875 2351 2.995872 GCTCCCGAAGTCGCACTCT 61.996 63.158 0.00 0.00 38.18 3.24
2283 2759 1.304282 GGCTCAAGAATGGCTCCCA 59.696 57.895 0.00 0.00 38.19 4.37
2295 2771 2.479656 GCAAAAATCAAATGCGGCTCAA 59.520 40.909 0.00 0.00 0.00 3.02
2449 2946 1.590238 CTGTGCGTCAATTCCTCGATC 59.410 52.381 0.00 0.00 0.00 3.69
2479 2976 6.848800 CACAATCATGCAAGAATGTGTTTTTG 59.151 34.615 24.97 12.29 41.97 2.44
2510 3007 5.449553 ACTTTTTGGACCTCTCTCACAATT 58.550 37.500 0.00 0.00 0.00 2.32
2582 3081 6.942576 AGTTGCTCCAATTCTATTGTACTTGT 59.057 34.615 0.00 0.00 0.00 3.16
2601 3139 5.659463 CTCATGAGTAGCTTCTAAGTTGCT 58.341 41.667 14.95 0.00 40.43 3.91
2625 3163 1.946768 TCAGAACCGTGCTTCCTTTTG 59.053 47.619 0.00 0.00 0.00 2.44
2631 3169 2.872858 AGAAAGTTCAGAACCGTGCTTC 59.127 45.455 9.85 5.81 0.00 3.86
2633 3171 2.158957 TCAGAAAGTTCAGAACCGTGCT 60.159 45.455 9.85 0.00 0.00 4.40
2634 3172 2.032808 GTCAGAAAGTTCAGAACCGTGC 60.033 50.000 9.85 0.00 0.00 5.34
2635 3173 2.218759 CGTCAGAAAGTTCAGAACCGTG 59.781 50.000 9.85 3.01 0.00 4.94
2636 3174 2.100252 TCGTCAGAAAGTTCAGAACCGT 59.900 45.455 9.85 0.00 0.00 4.83
2637 3175 2.739292 TCGTCAGAAAGTTCAGAACCG 58.261 47.619 9.85 4.76 0.00 4.44
2639 3177 5.921408 ACTGTATCGTCAGAAAGTTCAGAAC 59.079 40.000 5.00 5.00 38.63 3.01
2640 3178 6.085555 ACTGTATCGTCAGAAAGTTCAGAA 57.914 37.500 10.67 0.00 38.63 3.02
2641 3179 5.707242 ACTGTATCGTCAGAAAGTTCAGA 57.293 39.130 10.67 0.00 38.63 3.27
2642 3180 6.584954 CAAACTGTATCGTCAGAAAGTTCAG 58.415 40.000 10.67 0.00 38.63 3.02
2645 3183 4.213482 GGCAAACTGTATCGTCAGAAAGTT 59.787 41.667 10.67 0.00 38.63 2.66
2655 3193 6.092122 TCTGATTAAACTGGCAAACTGTATCG 59.908 38.462 0.00 0.00 0.00 2.92
2666 3204 5.183904 ACCTGTCAAATCTGATTAAACTGGC 59.816 40.000 24.80 14.77 33.27 4.85
2673 3211 9.219603 CAGAAGTTTACCTGTCAAATCTGATTA 57.780 33.333 2.85 0.00 35.05 1.75
2685 3223 6.002082 GGTTAACCATCAGAAGTTTACCTGT 58.998 40.000 20.12 0.00 40.70 4.00
2703 3241 7.757624 TGGCAAATCTCGAAAATAATGGTTAAC 59.242 33.333 0.00 0.00 0.00 2.01
2705 3243 7.397892 TGGCAAATCTCGAAAATAATGGTTA 57.602 32.000 0.00 0.00 0.00 2.85
2706 3244 6.279513 TGGCAAATCTCGAAAATAATGGTT 57.720 33.333 0.00 0.00 0.00 3.67
2713 3251 3.131046 GGGACATGGCAAATCTCGAAAAT 59.869 43.478 0.00 0.00 0.00 1.82
2718 3256 2.158900 AGTAGGGACATGGCAAATCTCG 60.159 50.000 0.00 0.00 0.00 4.04
2739 3277 7.359595 CGAGACAGAAACCATTTTGTTAATCA 58.640 34.615 0.00 0.00 0.00 2.57
2746 3284 3.003689 ACAGCGAGACAGAAACCATTTTG 59.996 43.478 0.00 0.00 0.00 2.44
2747 3285 3.214328 ACAGCGAGACAGAAACCATTTT 58.786 40.909 0.00 0.00 0.00 1.82
2749 3287 2.224281 TGACAGCGAGACAGAAACCATT 60.224 45.455 0.00 0.00 0.00 3.16
2750 3288 1.344438 TGACAGCGAGACAGAAACCAT 59.656 47.619 0.00 0.00 0.00 3.55
2751 3289 0.750249 TGACAGCGAGACAGAAACCA 59.250 50.000 0.00 0.00 0.00 3.67
2752 3290 2.086054 ATGACAGCGAGACAGAAACC 57.914 50.000 0.00 0.00 0.00 3.27
2754 3292 5.520288 GCTAATTATGACAGCGAGACAGAAA 59.480 40.000 0.00 0.00 27.94 2.52
2755 3293 5.043903 GCTAATTATGACAGCGAGACAGAA 58.956 41.667 0.00 0.00 0.00 3.02
2756 3294 4.097892 TGCTAATTATGACAGCGAGACAGA 59.902 41.667 0.00 0.00 38.15 3.41
2760 3298 5.600696 TGAATGCTAATTATGACAGCGAGA 58.399 37.500 0.00 0.00 38.15 4.04
2761 3299 5.912360 TGAATGCTAATTATGACAGCGAG 57.088 39.130 0.00 0.00 38.15 5.03
2762 3300 6.293571 CCATTGAATGCTAATTATGACAGCGA 60.294 38.462 0.00 0.00 38.15 4.93
2869 3417 0.985490 ATCCCAGCTTCCTCTCACCC 60.985 60.000 0.00 0.00 0.00 4.61
2886 3434 5.928153 AGAAAAGAATTCGAAACGTCCATC 58.072 37.500 0.00 0.00 0.00 3.51
2919 3467 1.106944 CACCAAGGCCAACCGAACTT 61.107 55.000 5.01 0.00 42.76 2.66
2920 3468 1.528309 CACCAAGGCCAACCGAACT 60.528 57.895 5.01 0.00 42.76 3.01
2922 3470 0.684805 AAACACCAAGGCCAACCGAA 60.685 50.000 5.01 0.00 42.76 4.30
2938 3486 1.604278 GAACAGCTCACCTCCACAAAC 59.396 52.381 0.00 0.00 0.00 2.93
2939 3487 1.476833 GGAACAGCTCACCTCCACAAA 60.477 52.381 0.00 0.00 0.00 2.83
3095 3663 6.376177 CACATATATACAGTCTCGCCGTTTA 58.624 40.000 0.00 0.00 0.00 2.01
3096 3664 5.220381 CACATATATACAGTCTCGCCGTTT 58.780 41.667 0.00 0.00 0.00 3.60
3097 3665 4.795268 CACATATATACAGTCTCGCCGTT 58.205 43.478 0.00 0.00 0.00 4.44
3098 3666 3.366070 GCACATATATACAGTCTCGCCGT 60.366 47.826 0.00 0.00 0.00 5.68
3099 3667 3.172050 GCACATATATACAGTCTCGCCG 58.828 50.000 0.00 0.00 0.00 6.46
3101 3669 2.594654 GCGCACATATATACAGTCTCGC 59.405 50.000 0.30 12.94 0.00 5.03
3102 3670 2.840752 CGCGCACATATATACAGTCTCG 59.159 50.000 8.75 0.00 0.00 4.04
3103 3671 3.604198 CACGCGCACATATATACAGTCTC 59.396 47.826 5.73 0.00 0.00 3.36
3104 3672 3.004419 ACACGCGCACATATATACAGTCT 59.996 43.478 5.73 0.00 0.00 3.24
3105 3673 3.305964 ACACGCGCACATATATACAGTC 58.694 45.455 5.73 0.00 0.00 3.51
3106 3674 3.364889 ACACGCGCACATATATACAGT 57.635 42.857 5.73 0.00 0.00 3.55
3107 3675 4.201363 CGTTACACGCGCACATATATACAG 60.201 45.833 5.73 0.00 33.65 2.74
3108 3676 3.664947 CGTTACACGCGCACATATATACA 59.335 43.478 5.73 0.00 33.65 2.29
3109 3677 3.058520 CCGTTACACGCGCACATATATAC 59.941 47.826 5.73 0.00 40.91 1.47
3115 3683 3.115892 CCCGTTACACGCGCACAT 61.116 61.111 5.73 0.00 40.91 3.21
3121 3689 3.177249 GAGACGCCCGTTACACGC 61.177 66.667 0.00 0.00 40.91 5.34
3122 3690 1.800315 CAGAGACGCCCGTTACACG 60.800 63.158 0.00 0.00 42.11 4.49
3123 3691 0.523072 TACAGAGACGCCCGTTACAC 59.477 55.000 0.00 0.00 0.00 2.90
3124 3692 0.806868 CTACAGAGACGCCCGTTACA 59.193 55.000 0.00 0.00 0.00 2.41
3125 3693 0.525029 GCTACAGAGACGCCCGTTAC 60.525 60.000 0.00 0.00 0.00 2.50
3126 3694 1.660560 GGCTACAGAGACGCCCGTTA 61.661 60.000 0.00 0.00 37.86 3.18
3127 3695 2.572284 GCTACAGAGACGCCCGTT 59.428 61.111 0.00 0.00 0.00 4.44
3128 3696 3.450115 GGCTACAGAGACGCCCGT 61.450 66.667 0.00 0.00 37.86 5.28
3131 3699 0.315568 CTATGGGCTACAGAGACGCC 59.684 60.000 0.00 0.00 40.90 5.68
3132 3700 0.319125 GCTATGGGCTACAGAGACGC 60.319 60.000 7.58 0.00 40.90 5.19
3133 3701 3.875838 GCTATGGGCTACAGAGACG 57.124 57.895 7.58 0.00 40.90 4.18
3146 3714 3.315470 TGTAGACGCTCTTACCAGCTATG 59.685 47.826 0.00 0.00 37.25 2.23
3147 3715 3.552875 TGTAGACGCTCTTACCAGCTAT 58.447 45.455 0.00 0.00 37.25 2.97
3148 3716 2.995283 TGTAGACGCTCTTACCAGCTA 58.005 47.619 0.00 0.00 37.25 3.32
3149 3717 1.835494 TGTAGACGCTCTTACCAGCT 58.165 50.000 0.00 0.00 37.25 4.24
3150 3718 2.094649 AGTTGTAGACGCTCTTACCAGC 60.095 50.000 0.00 0.00 35.90 4.85
3151 3719 3.502920 CAGTTGTAGACGCTCTTACCAG 58.497 50.000 0.00 0.00 0.00 4.00
3152 3720 2.230508 CCAGTTGTAGACGCTCTTACCA 59.769 50.000 0.00 0.00 0.00 3.25
3153 3721 2.490903 TCCAGTTGTAGACGCTCTTACC 59.509 50.000 0.00 0.00 0.00 2.85
3154 3722 3.190953 AGTCCAGTTGTAGACGCTCTTAC 59.809 47.826 0.00 0.00 38.08 2.34
3155 3723 3.418995 AGTCCAGTTGTAGACGCTCTTA 58.581 45.455 0.00 0.00 38.08 2.10
3156 3724 2.229302 GAGTCCAGTTGTAGACGCTCTT 59.771 50.000 0.00 0.00 38.08 2.85
3157 3725 1.813786 GAGTCCAGTTGTAGACGCTCT 59.186 52.381 0.00 0.00 38.08 4.09
3158 3726 1.466024 CGAGTCCAGTTGTAGACGCTC 60.466 57.143 0.00 0.00 38.08 5.03
3159 3727 0.522180 CGAGTCCAGTTGTAGACGCT 59.478 55.000 0.00 0.00 38.08 5.07
3160 3728 0.456312 CCGAGTCCAGTTGTAGACGC 60.456 60.000 0.00 0.00 38.08 5.19
3161 3729 0.879765 ACCGAGTCCAGTTGTAGACG 59.120 55.000 0.00 0.00 38.08 4.18
3162 3730 4.510038 TTTACCGAGTCCAGTTGTAGAC 57.490 45.455 0.00 0.00 0.00 2.59
3163 3731 4.159135 GGATTTACCGAGTCCAGTTGTAGA 59.841 45.833 0.00 0.00 32.23 2.59
3164 3732 4.430908 GGATTTACCGAGTCCAGTTGTAG 58.569 47.826 0.00 0.00 32.23 2.74
3165 3733 4.460948 GGATTTACCGAGTCCAGTTGTA 57.539 45.455 0.00 0.00 32.23 2.41
3166 3734 3.329929 GGATTTACCGAGTCCAGTTGT 57.670 47.619 0.00 0.00 32.23 3.32
3178 3746 3.867493 CGTTTAGAAGGGACGGATTTACC 59.133 47.826 0.00 0.00 33.45 2.85
3179 3747 4.498241 ACGTTTAGAAGGGACGGATTTAC 58.502 43.478 0.00 0.00 40.82 2.01
3180 3748 4.381932 GGACGTTTAGAAGGGACGGATTTA 60.382 45.833 0.00 0.00 40.82 1.40
3181 3749 3.593096 GACGTTTAGAAGGGACGGATTT 58.407 45.455 0.00 0.00 40.82 2.17
3182 3750 2.093816 GGACGTTTAGAAGGGACGGATT 60.094 50.000 0.00 0.00 40.82 3.01
3183 3751 1.479730 GGACGTTTAGAAGGGACGGAT 59.520 52.381 0.00 0.00 40.82 4.18
3184 3752 0.890683 GGACGTTTAGAAGGGACGGA 59.109 55.000 0.00 0.00 40.82 4.69
3185 3753 0.457337 CGGACGTTTAGAAGGGACGG 60.457 60.000 0.00 0.00 40.82 4.79
3186 3754 1.074872 GCGGACGTTTAGAAGGGACG 61.075 60.000 0.00 0.00 42.13 4.79
3187 3755 0.037975 TGCGGACGTTTAGAAGGGAC 60.038 55.000 0.00 0.00 0.00 4.46
3188 3756 0.680618 TTGCGGACGTTTAGAAGGGA 59.319 50.000 0.00 0.00 0.00 4.20
3189 3757 1.196127 GTTTGCGGACGTTTAGAAGGG 59.804 52.381 0.00 0.00 0.00 3.95
3190 3758 1.136446 CGTTTGCGGACGTTTAGAAGG 60.136 52.381 3.76 0.00 38.19 3.46
3191 3759 2.207041 CGTTTGCGGACGTTTAGAAG 57.793 50.000 3.76 0.00 38.19 2.85
3205 3773 0.248458 GTCACACTTGGGCACGTTTG 60.248 55.000 0.00 0.00 0.00 2.93
3206 3774 1.381165 GGTCACACTTGGGCACGTTT 61.381 55.000 0.00 0.00 0.00 3.60
3207 3775 1.822186 GGTCACACTTGGGCACGTT 60.822 57.895 0.00 0.00 0.00 3.99
3208 3776 2.203153 GGTCACACTTGGGCACGT 60.203 61.111 0.00 0.00 0.00 4.49
3209 3777 2.203139 TGGTCACACTTGGGCACG 60.203 61.111 0.00 0.00 0.00 5.34
3210 3778 2.542907 CGTGGTCACACTTGGGCAC 61.543 63.158 1.90 0.00 45.50 5.01
3211 3779 2.203139 CGTGGTCACACTTGGGCA 60.203 61.111 1.90 0.00 45.50 5.36
3212 3780 2.978010 CCGTGGTCACACTTGGGC 60.978 66.667 1.90 0.00 45.50 5.36
3213 3781 1.597027 GTCCGTGGTCACACTTGGG 60.597 63.158 1.90 0.00 45.50 4.12
3214 3782 0.462937 TTGTCCGTGGTCACACTTGG 60.463 55.000 1.90 0.00 45.50 3.61
3215 3783 0.655733 GTTGTCCGTGGTCACACTTG 59.344 55.000 1.90 0.00 45.50 3.16
3216 3784 0.808453 CGTTGTCCGTGGTCACACTT 60.808 55.000 1.90 0.00 45.50 3.16
3217 3785 1.227147 CGTTGTCCGTGGTCACACT 60.227 57.895 1.90 0.00 45.50 3.55
3218 3786 2.877974 GCGTTGTCCGTGGTCACAC 61.878 63.158 1.90 0.00 44.23 3.82
3219 3787 2.586635 GCGTTGTCCGTGGTCACA 60.587 61.111 1.90 0.00 39.32 3.58
3220 3788 3.343421 GGCGTTGTCCGTGGTCAC 61.343 66.667 0.00 0.00 39.32 3.67
3221 3789 4.953868 CGGCGTTGTCCGTGGTCA 62.954 66.667 0.00 0.00 44.18 4.02
3236 3804 1.228124 TCAACAAGGGCCTGTTCGG 60.228 57.895 6.92 3.56 37.43 4.30
3237 3805 0.535102 AGTCAACAAGGGCCTGTTCG 60.535 55.000 6.92 8.90 37.43 3.95
3238 3806 0.954452 CAGTCAACAAGGGCCTGTTC 59.046 55.000 6.92 3.36 37.43 3.18
3239 3807 1.109323 GCAGTCAACAAGGGCCTGTT 61.109 55.000 6.92 11.24 40.17 3.16
3240 3808 1.529244 GCAGTCAACAAGGGCCTGT 60.529 57.895 6.92 4.59 0.00 4.00
3241 3809 2.620112 CGCAGTCAACAAGGGCCTG 61.620 63.158 6.92 3.83 0.00 4.85
3242 3810 2.281761 CGCAGTCAACAAGGGCCT 60.282 61.111 0.00 0.00 0.00 5.19
3243 3811 3.365265 CCGCAGTCAACAAGGGCC 61.365 66.667 0.00 0.00 0.00 5.80
3244 3812 3.365265 CCCGCAGTCAACAAGGGC 61.365 66.667 0.00 0.00 35.09 5.19
3245 3813 3.365265 GCCCGCAGTCAACAAGGG 61.365 66.667 0.00 0.00 44.72 3.95
3246 3814 3.726517 CGCCCGCAGTCAACAAGG 61.727 66.667 0.00 0.00 0.00 3.61
3247 3815 1.970917 GATCGCCCGCAGTCAACAAG 61.971 60.000 0.00 0.00 0.00 3.16
3248 3816 2.031919 ATCGCCCGCAGTCAACAA 59.968 55.556 0.00 0.00 0.00 2.83
3249 3817 2.434185 GATCGCCCGCAGTCAACA 60.434 61.111 0.00 0.00 0.00 3.33
3250 3818 2.434185 TGATCGCCCGCAGTCAAC 60.434 61.111 0.00 0.00 0.00 3.18
3251 3819 2.434185 GTGATCGCCCGCAGTCAA 60.434 61.111 0.00 0.00 0.00 3.18
3252 3820 3.690280 TGTGATCGCCCGCAGTCA 61.690 61.111 3.31 0.00 0.00 3.41
3253 3821 2.279502 TAGTGTGATCGCCCGCAGTC 62.280 60.000 3.31 0.00 32.93 3.51
3254 3822 2.348104 TAGTGTGATCGCCCGCAGT 61.348 57.895 3.31 0.00 34.84 4.40
3255 3823 1.878522 GTAGTGTGATCGCCCGCAG 60.879 63.158 3.31 0.00 0.00 5.18
3256 3824 2.183300 GTAGTGTGATCGCCCGCA 59.817 61.111 3.31 0.00 0.00 5.69
3257 3825 1.589196 GAGTAGTGTGATCGCCCGC 60.589 63.158 3.31 0.00 0.00 6.13
3258 3826 0.172578 TTGAGTAGTGTGATCGCCCG 59.827 55.000 3.31 0.00 0.00 6.13
3259 3827 2.380084 TTTGAGTAGTGTGATCGCCC 57.620 50.000 3.31 0.00 0.00 6.13
3260 3828 3.932710 TCAATTTGAGTAGTGTGATCGCC 59.067 43.478 3.31 0.00 0.00 5.54
3261 3829 5.530519 TTCAATTTGAGTAGTGTGATCGC 57.469 39.130 0.00 0.00 0.00 4.58
3262 3830 6.307155 GGTTTCAATTTGAGTAGTGTGATCG 58.693 40.000 0.00 0.00 0.00 3.69
3263 3831 6.431234 AGGGTTTCAATTTGAGTAGTGTGATC 59.569 38.462 0.00 0.00 0.00 2.92
3264 3832 6.306987 AGGGTTTCAATTTGAGTAGTGTGAT 58.693 36.000 0.00 0.00 0.00 3.06
3265 3833 5.690865 AGGGTTTCAATTTGAGTAGTGTGA 58.309 37.500 0.00 0.00 0.00 3.58
3266 3834 5.334105 CGAGGGTTTCAATTTGAGTAGTGTG 60.334 44.000 0.00 0.00 0.00 3.82
3267 3835 4.755123 CGAGGGTTTCAATTTGAGTAGTGT 59.245 41.667 0.00 0.00 0.00 3.55
3268 3836 4.994852 TCGAGGGTTTCAATTTGAGTAGTG 59.005 41.667 0.00 0.00 0.00 2.74
3269 3837 5.223449 TCGAGGGTTTCAATTTGAGTAGT 57.777 39.130 0.00 0.00 0.00 2.73
3270 3838 6.743575 ATTCGAGGGTTTCAATTTGAGTAG 57.256 37.500 0.00 0.00 0.00 2.57
3271 3839 6.712998 TGAATTCGAGGGTTTCAATTTGAGTA 59.287 34.615 0.04 0.00 0.00 2.59
3272 3840 5.534654 TGAATTCGAGGGTTTCAATTTGAGT 59.465 36.000 0.04 0.00 0.00 3.41
3273 3841 6.012658 TGAATTCGAGGGTTTCAATTTGAG 57.987 37.500 0.04 0.00 0.00 3.02
3274 3842 6.389091 CATGAATTCGAGGGTTTCAATTTGA 58.611 36.000 0.04 0.00 33.45 2.69
3275 3843 6.636666 CATGAATTCGAGGGTTTCAATTTG 57.363 37.500 0.04 0.00 33.45 2.32


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

AutoCloner maintained by Alex Coulton.