Multiple sequence alignment - TraesCS7B01G136100

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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 TraesCS7B01G136100 chr7B 100.000 3183 0 0 1 3183 167751697 167748515 0.000000e+00 5879.0
1 TraesCS7B01G136100 chr7A 90.641 1357 71 20 1045 2381 215889585 215888265 0.000000e+00 1751.0
2 TraesCS7B01G136100 chr7A 83.848 972 72 37 126 1028 215890525 215889570 0.000000e+00 846.0
3 TraesCS7B01G136100 chr7D 92.029 828 40 13 1577 2381 204093251 204092427 0.000000e+00 1140.0
4 TraesCS7B01G136100 chr7D 86.787 719 50 27 1 690 204095103 204094401 0.000000e+00 760.0
5 TraesCS7B01G136100 chr7D 87.188 601 36 13 1045 1641 204093828 204093265 0.000000e+00 645.0
6 TraesCS7B01G136100 chr7D 89.865 148 10 3 873 1020 204093959 204093817 5.420000e-43 185.0
7 TraesCS7B01G136100 chr7D 93.182 88 6 0 2388 2475 204092381 204092294 2.580000e-26 130.0
8 TraesCS7B01G136100 chr5B 85.487 503 51 11 2594 3085 694026286 694026777 3.660000e-139 505.0
9 TraesCS7B01G136100 chr3B 85.569 492 56 11 2702 3183 670546824 670547310 4.740000e-138 501.0
10 TraesCS7B01G136100 chr3B 90.566 106 9 1 3059 3163 708309193 708309298 4.280000e-29 139.0
11 TraesCS7B01G136100 chr3A 77.624 724 117 23 2477 3181 230095504 230094807 6.400000e-107 398.0
12 TraesCS7B01G136100 chr4A 91.429 245 20 1 2940 3183 13652651 13652895 5.090000e-88 335.0
13 TraesCS7B01G136100 chr1D 91.346 104 9 0 2970 3073 410473885 410473988 3.310000e-30 143.0
14 TraesCS7B01G136100 chr1D 91.346 104 9 0 2970 3073 410484538 410484641 3.310000e-30 143.0
15 TraesCS7B01G136100 chr6A 82.353 85 8 2 2837 2920 430869290 430869212 2.050000e-07 67.6


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 TraesCS7B01G136100 chr7B 167748515 167751697 3182 True 5879.0 5879 100.0000 1 3183 1 chr7B.!!$R1 3182
1 TraesCS7B01G136100 chr7A 215888265 215890525 2260 True 1298.5 1751 87.2445 126 2381 2 chr7A.!!$R1 2255
2 TraesCS7B01G136100 chr7D 204092294 204095103 2809 True 572.0 1140 89.8102 1 2475 5 chr7D.!!$R1 2474
3 TraesCS7B01G136100 chr3A 230094807 230095504 697 True 398.0 398 77.6240 2477 3181 1 chr3A.!!$R1 704

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
508 554 0.11358 ATAACCGGCAAACCCAAGGT 59.886 50.0 0.0 0.0 37.65 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2506 2983 0.034896 ATCAAAGTGACCCTTCGCGT 59.965 50.0 5.77 0.0 37.33 6.01 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
45 46 5.336744 CAAGGTTTTCTTGCTCACGTTTTA 58.663 37.500 0.00 0.00 45.24 1.52
54 55 5.585445 TCTTGCTCACGTTTTACTTTTGGTA 59.415 36.000 0.00 0.00 0.00 3.25
55 56 6.261381 TCTTGCTCACGTTTTACTTTTGGTAT 59.739 34.615 0.00 0.00 0.00 2.73
56 57 5.753744 TGCTCACGTTTTACTTTTGGTATG 58.246 37.500 0.00 0.00 0.00 2.39
57 58 5.297278 TGCTCACGTTTTACTTTTGGTATGT 59.703 36.000 0.00 0.00 0.00 2.29
58 59 6.482641 TGCTCACGTTTTACTTTTGGTATGTA 59.517 34.615 0.00 0.00 0.00 2.29
59 60 7.012138 TGCTCACGTTTTACTTTTGGTATGTAA 59.988 33.333 0.00 0.00 0.00 2.41
63 64 7.006742 CACGTTTTACTTTTGGTATGTAATCGC 59.993 37.037 0.00 0.00 33.22 4.58
120 121 7.649533 TGAGAGTAATAATACGGTGGAAAGA 57.350 36.000 0.00 0.00 37.11 2.52
141 146 1.046472 ATCGGCAATGTCGGGGTCTA 61.046 55.000 7.59 0.00 0.00 2.59
142 147 1.520787 CGGCAATGTCGGGGTCTAC 60.521 63.158 0.00 0.00 0.00 2.59
164 170 4.389576 ACGTACGGTGGCGACGTC 62.390 66.667 21.06 5.18 46.19 4.34
165 171 4.388080 CGTACGGTGGCGACGTCA 62.388 66.667 17.16 0.00 44.37 4.35
224 243 1.141881 CTCCAACGACTCCATCCGG 59.858 63.158 0.00 0.00 0.00 5.14
246 265 3.110178 GGGCCGTCGAACGAACAG 61.110 66.667 0.00 0.00 46.05 3.16
381 405 1.607801 CTCCTCATGACCAGACGGCA 61.608 60.000 0.00 0.00 34.57 5.69
386 410 0.179076 CATGACCAGACGGCAGCATA 60.179 55.000 0.00 0.00 34.57 3.14
387 411 0.761187 ATGACCAGACGGCAGCATAT 59.239 50.000 0.00 0.00 34.57 1.78
388 412 0.179076 TGACCAGACGGCAGCATATG 60.179 55.000 0.00 0.00 34.57 1.78
389 413 0.882042 GACCAGACGGCAGCATATGG 60.882 60.000 4.56 7.80 34.57 2.74
390 414 1.146930 CCAGACGGCAGCATATGGT 59.853 57.895 0.40 0.40 0.00 3.55
391 415 0.882042 CCAGACGGCAGCATATGGTC 60.882 60.000 3.96 2.76 0.00 4.02
443 485 0.609131 AACCCCGAGAATGCCACTTG 60.609 55.000 0.00 0.00 0.00 3.16
444 486 1.750399 CCCCGAGAATGCCACTTGG 60.750 63.158 0.00 0.00 38.33 3.61
447 489 1.656652 CCGAGAATGCCACTTGGTAG 58.343 55.000 0.00 0.00 37.57 3.18
448 490 1.009829 CGAGAATGCCACTTGGTAGC 58.990 55.000 0.00 0.00 37.57 3.58
453 495 1.019278 ATGCCACTTGGTAGCGAACG 61.019 55.000 0.00 0.00 37.57 3.95
468 511 2.786700 GCGAACGGCTAAGCAATGTTAC 60.787 50.000 0.00 0.00 39.11 2.50
508 554 0.113580 ATAACCGGCAAACCCAAGGT 59.886 50.000 0.00 0.00 37.65 3.50
625 675 3.350219 AGGTCCGTAGCATCACAATTT 57.650 42.857 0.00 0.00 0.00 1.82
626 676 3.009723 AGGTCCGTAGCATCACAATTTG 58.990 45.455 0.00 0.00 0.00 2.32
627 677 2.477863 GGTCCGTAGCATCACAATTTGC 60.478 50.000 0.00 0.00 39.17 3.68
628 678 1.742831 TCCGTAGCATCACAATTTGCC 59.257 47.619 0.00 0.00 39.72 4.52
629 679 1.531677 CCGTAGCATCACAATTTGCCG 60.532 52.381 0.00 0.00 39.72 5.69
630 680 1.396648 CGTAGCATCACAATTTGCCGA 59.603 47.619 0.00 0.00 39.72 5.54
631 681 2.032054 CGTAGCATCACAATTTGCCGAT 59.968 45.455 0.00 0.00 39.72 4.18
633 683 1.406539 AGCATCACAATTTGCCGATCC 59.593 47.619 0.00 0.00 39.72 3.36
666 719 2.839486 ACCATTCTGCTGACTCGAAA 57.161 45.000 0.00 0.00 0.00 3.46
700 759 1.535204 CCGGCAGCCACTTCCATTTT 61.535 55.000 13.30 0.00 0.00 1.82
713 797 7.151308 CCACTTCCATTTTGTACTTAATTGCA 58.849 34.615 0.00 0.00 0.00 4.08
741 846 0.683412 TCAGCCATGATCGGATCCTG 59.317 55.000 15.06 14.59 0.00 3.86
784 892 1.439679 CCCGGCGCTAATCTTAATCC 58.560 55.000 7.64 0.00 0.00 3.01
795 903 6.494842 GCTAATCTTAATCCGCAACAAATCA 58.505 36.000 0.00 0.00 0.00 2.57
796 904 7.141363 GCTAATCTTAATCCGCAACAAATCAT 58.859 34.615 0.00 0.00 0.00 2.45
798 906 6.949352 ATCTTAATCCGCAACAAATCATCT 57.051 33.333 0.00 0.00 0.00 2.90
799 907 6.122850 TCTTAATCCGCAACAAATCATCTG 57.877 37.500 0.00 0.00 0.00 2.90
800 908 5.879777 TCTTAATCCGCAACAAATCATCTGA 59.120 36.000 0.00 0.00 0.00 3.27
801 909 6.374053 TCTTAATCCGCAACAAATCATCTGAA 59.626 34.615 0.00 0.00 0.00 3.02
806 920 4.171005 CGCAACAAATCATCTGAAGCAAT 58.829 39.130 0.00 0.00 0.00 3.56
826 940 5.355596 CAATTCAAGCTAGAATCGAGGAGT 58.644 41.667 0.00 0.00 37.24 3.85
858 972 2.222227 ATCTTTCCAAGAACCCAGGC 57.778 50.000 0.00 0.00 41.63 4.85
920 1253 1.970917 GATTTGGCAGCCTGTCGTCG 61.971 60.000 14.15 0.00 0.00 5.12
932 1265 3.096461 CCTGTCGTCGTTAAGATACGTG 58.904 50.000 0.00 0.00 42.01 4.49
935 1268 4.581493 TGTCGTCGTTAAGATACGTGATC 58.419 43.478 0.00 0.00 42.01 2.92
951 1284 3.042887 GTGATCGTTTGCAGACAAAACC 58.957 45.455 8.25 0.00 46.94 3.27
994 1327 1.598130 GCTGCGTGTGGAGGAACTT 60.598 57.895 0.00 0.00 41.55 2.66
1032 1365 7.896383 AGATAGATAGATAGATTGCTCACCC 57.104 40.000 0.00 0.00 0.00 4.61
1033 1366 6.545666 AGATAGATAGATAGATTGCTCACCCG 59.454 42.308 0.00 0.00 0.00 5.28
1034 1367 3.194542 AGATAGATAGATTGCTCACCCGC 59.805 47.826 0.00 0.00 0.00 6.13
1035 1368 1.123077 AGATAGATTGCTCACCCGCA 58.877 50.000 0.00 0.00 38.31 5.69
1141 1474 2.273449 CTGCGGGAGAAGGCCAAT 59.727 61.111 5.01 0.00 0.00 3.16
1198 1531 3.102972 CATCCTCTCCAACTCCAAGAGA 58.897 50.000 0.00 0.00 39.09 3.10
1285 1618 4.200283 GTCGAGCAGAGCCCGGAG 62.200 72.222 0.73 0.00 0.00 4.63
1360 1693 1.599576 GCTGGAGGAGGAGAACACC 59.400 63.158 0.00 0.00 0.00 4.16
1361 1694 1.893786 CTGGAGGAGGAGAACACCG 59.106 63.158 0.00 0.00 34.73 4.94
1422 1755 2.935955 CGGCAAAACTTCGTCGCT 59.064 55.556 0.00 0.00 0.00 4.93
1428 1761 1.788308 CAAAACTTCGTCGCTTCGGTA 59.212 47.619 0.00 0.00 0.00 4.02
1440 1773 2.404215 GCTTCGGTATGCATACGATGT 58.596 47.619 26.38 0.00 34.11 3.06
1442 1775 3.638484 CTTCGGTATGCATACGATGTCA 58.362 45.455 26.38 13.03 34.11 3.58
1561 1894 2.805353 CCTGAACCAGACGCGTCG 60.805 66.667 31.56 24.83 32.44 5.12
1568 1901 4.778415 CAGACGCGTCGGTGGAGG 62.778 72.222 31.56 13.41 34.09 4.30
1810 2218 2.047655 CCCAAGTTCGGCAGCGTA 60.048 61.111 0.00 0.00 0.00 4.42
1811 2219 2.388232 CCCAAGTTCGGCAGCGTAC 61.388 63.158 0.00 0.00 0.00 3.67
1843 2251 2.649034 GAGTCGGCAGAACACGGA 59.351 61.111 0.00 0.00 0.00 4.69
2025 2442 1.153369 TGCAGGATTAGGCGTCAGC 60.153 57.895 0.00 0.00 44.18 4.26
2059 2477 1.335496 TGGTAGCTTTTGTTGCCGTTC 59.665 47.619 0.00 0.00 38.18 3.95
2093 2518 6.680810 TGTGATGTGATTTGTGAATCCTTTC 58.319 36.000 0.00 0.00 40.79 2.62
2121 2546 7.955918 AGGAGAAATGTACAGCAAAGATTTTT 58.044 30.769 0.33 0.00 0.00 1.94
2165 2591 1.980765 TCTCCAACATGTCCAGAAGCT 59.019 47.619 0.00 0.00 0.00 3.74
2173 2601 4.147321 ACATGTCCAGAAGCTTGTCATTT 58.853 39.130 2.10 0.00 0.00 2.32
2246 2679 4.458397 TGATAGAGTCCGTGTAAGTAGGG 58.542 47.826 0.00 0.00 0.00 3.53
2313 2748 6.803154 ACTACAAAATAGAACAACAGAGGC 57.197 37.500 0.00 0.00 0.00 4.70
2369 2807 4.776837 TGCCTCATTTTCATACCACCATTT 59.223 37.500 0.00 0.00 0.00 2.32
2381 2819 6.772233 TCATACCACCATTTTCCATGTCATAG 59.228 38.462 0.00 0.00 0.00 2.23
2382 2820 4.934356 ACCACCATTTTCCATGTCATAGT 58.066 39.130 0.00 0.00 0.00 2.12
2383 2821 6.073447 ACCACCATTTTCCATGTCATAGTA 57.927 37.500 0.00 0.00 0.00 1.82
2384 2822 6.672593 ACCACCATTTTCCATGTCATAGTAT 58.327 36.000 0.00 0.00 0.00 2.12
2385 2823 6.547141 ACCACCATTTTCCATGTCATAGTATG 59.453 38.462 3.55 3.55 0.00 2.39
2404 2881 9.959721 ATAGTATGTTACCTTCTTTGTTGTCAT 57.040 29.630 0.00 0.00 0.00 3.06
2420 2897 7.439157 TGTTGTCATAATTCTGTTCCAAGAG 57.561 36.000 0.00 0.00 0.00 2.85
2422 2899 5.500234 TGTCATAATTCTGTTCCAAGAGGG 58.500 41.667 0.00 0.00 34.83 4.30
2423 2900 4.336713 GTCATAATTCTGTTCCAAGAGGGC 59.663 45.833 0.00 0.00 36.21 5.19
2428 2905 1.001633 TCTGTTCCAAGAGGGCGTTAC 59.998 52.381 0.00 0.00 36.21 2.50
2440 2917 7.929785 CCAAGAGGGCGTTACTCTATTTTATTA 59.070 37.037 6.18 0.00 44.17 0.98
2489 2966 8.712363 CAATTAGATATCCAGTCAATTACACCG 58.288 37.037 0.00 0.00 0.00 4.94
2490 2967 5.871396 AGATATCCAGTCAATTACACCGT 57.129 39.130 0.00 0.00 0.00 4.83
2506 2983 0.817634 CCGTTGGTGCTTGACCTTGA 60.818 55.000 0.00 0.00 46.32 3.02
2509 2986 1.444119 TTGGTGCTTGACCTTGACGC 61.444 55.000 0.00 0.00 46.32 5.19
2513 2990 1.221466 TGCTTGACCTTGACGCGAAG 61.221 55.000 15.93 6.88 0.00 3.79
2533 3010 3.944087 AGGGTCACTTTGATGCTAGAAC 58.056 45.455 0.00 0.00 0.00 3.01
2535 3012 3.935828 GGGTCACTTTGATGCTAGAACTC 59.064 47.826 0.00 0.00 0.00 3.01
2537 3014 4.238514 GTCACTTTGATGCTAGAACTCGT 58.761 43.478 0.00 0.00 0.00 4.18
2540 3017 2.010145 TTGATGCTAGAACTCGTGGC 57.990 50.000 0.00 0.00 0.00 5.01
2551 3028 2.890808 ACTCGTGGCATACATCGAAT 57.109 45.000 0.00 0.00 34.14 3.34
2567 3044 7.915293 ACATCGAATTGGTGTAATAACTTGA 57.085 32.000 0.00 0.00 0.00 3.02
2571 3048 7.383687 TCGAATTGGTGTAATAACTTGACTCT 58.616 34.615 0.00 0.00 0.00 3.24
2573 3050 7.330946 CGAATTGGTGTAATAACTTGACTCTGA 59.669 37.037 0.00 0.00 0.00 3.27
2575 3052 6.413783 TGGTGTAATAACTTGACTCTGACA 57.586 37.500 0.00 0.00 0.00 3.58
2586 3063 4.186856 TGACTCTGACATGCAAATACGA 57.813 40.909 0.00 0.00 0.00 3.43
2608 3085 1.796459 GCAAATCTCGGTTGTGTACGT 59.204 47.619 0.00 0.00 0.00 3.57
2610 3087 2.358939 AATCTCGGTTGTGTACGTCC 57.641 50.000 0.00 0.00 0.00 4.79
2615 3092 1.288127 GGTTGTGTACGTCCGAGCT 59.712 57.895 0.00 0.00 0.00 4.09
2616 3093 1.007336 GGTTGTGTACGTCCGAGCTG 61.007 60.000 0.00 0.00 0.00 4.24
2619 3096 0.956902 TGTGTACGTCCGAGCTGCTA 60.957 55.000 0.15 0.00 0.00 3.49
2627 3104 0.683179 TCCGAGCTGCTAACTAGGCA 60.683 55.000 0.15 0.00 38.10 4.75
2634 3111 0.251916 TGCTAACTAGGCACGCCAAT 59.748 50.000 11.35 0.00 38.92 3.16
2638 3115 1.967319 AACTAGGCACGCCAATATGG 58.033 50.000 11.35 0.00 41.55 2.74
2648 3125 3.056213 CCAATATGGCATGGGTCCC 57.944 57.895 10.98 0.00 32.87 4.46
2649 3126 0.895100 CCAATATGGCATGGGTCCCG 60.895 60.000 10.98 0.00 32.87 5.14
2650 3127 1.228552 AATATGGCATGGGTCCCGC 60.229 57.895 10.98 0.73 0.00 6.13
2651 3128 2.713531 AATATGGCATGGGTCCCGCC 62.714 60.000 17.78 17.78 46.43 6.13
2656 3133 4.402528 CATGGGTCCCGCCGTCAA 62.403 66.667 2.65 0.00 38.44 3.18
2657 3134 4.404098 ATGGGTCCCGCCGTCAAC 62.404 66.667 2.65 0.00 38.44 3.18
2678 3155 0.040204 ACCCAATGGCAAAGAGAGGG 59.960 55.000 0.00 0.00 40.66 4.30
2679 3156 1.325476 CCCAATGGCAAAGAGAGGGC 61.325 60.000 0.00 0.00 0.00 5.19
2685 3162 2.328099 GCAAAGAGAGGGCGTGTGG 61.328 63.158 0.00 0.00 0.00 4.17
2718 3195 2.045561 TTTTTGCGAAGACACCCTCA 57.954 45.000 0.00 0.00 0.00 3.86
2720 3197 2.270352 TTTGCGAAGACACCCTCAAT 57.730 45.000 0.00 0.00 0.00 2.57
2722 3199 2.270352 TGCGAAGACACCCTCAATTT 57.730 45.000 0.00 0.00 0.00 1.82
2744 3221 4.654091 TTTTTCTCACAAAAGAGCCCTG 57.346 40.909 0.00 0.00 35.59 4.45
2749 3226 3.152341 CTCACAAAAGAGCCCTGTTGAT 58.848 45.455 4.97 0.00 39.48 2.57
2752 3229 2.887152 ACAAAAGAGCCCTGTTGATGTC 59.113 45.455 4.97 0.00 39.48 3.06
2759 3236 1.610624 GCCCTGTTGATGTCGGAAAGA 60.611 52.381 0.00 0.00 0.00 2.52
2768 3245 3.378112 TGATGTCGGAAAGATGGCATTTC 59.622 43.478 0.00 2.99 36.20 2.17
2770 3247 3.355378 TGTCGGAAAGATGGCATTTCAT 58.645 40.909 13.80 0.00 38.21 2.57
2774 3251 5.062558 GTCGGAAAGATGGCATTTCATTTTG 59.937 40.000 13.80 5.92 38.21 2.44
2784 3263 5.471797 TGGCATTTCATTTTGTTCGACTCTA 59.528 36.000 0.00 0.00 0.00 2.43
2785 3264 5.795441 GGCATTTCATTTTGTTCGACTCTAC 59.205 40.000 0.00 0.00 0.00 2.59
2786 3265 6.370593 GCATTTCATTTTGTTCGACTCTACA 58.629 36.000 0.00 0.00 0.00 2.74
2817 3296 5.237048 GGTCCCGTGTGTACATACTAAAAA 58.763 41.667 18.99 0.00 0.00 1.94
2841 3320 7.924103 AATTAACAAAACAAATGGACTCGTC 57.076 32.000 0.00 0.00 0.00 4.20
2842 3321 6.687081 TTAACAAAACAAATGGACTCGTCT 57.313 33.333 0.00 0.00 0.00 4.18
2844 3323 3.247648 ACAAAACAAATGGACTCGTCTCG 59.752 43.478 0.00 0.00 0.00 4.04
2845 3324 3.380479 AAACAAATGGACTCGTCTCGA 57.620 42.857 0.00 0.00 0.00 4.04
2846 3325 3.380479 AACAAATGGACTCGTCTCGAA 57.620 42.857 0.00 0.00 34.74 3.71
2850 3335 2.577378 GGACTCGTCTCGAAGCGC 60.577 66.667 0.00 0.00 34.74 5.92
2855 3340 4.753877 CGTCTCGAAGCGCGACCA 62.754 66.667 12.10 0.00 45.59 4.02
2862 3347 1.134694 GAAGCGCGACCATTGGTTC 59.865 57.895 12.10 4.49 35.25 3.62
2863 3348 1.298859 GAAGCGCGACCATTGGTTCT 61.299 55.000 12.10 2.73 35.25 3.01
2864 3349 0.036765 AAGCGCGACCATTGGTTCTA 60.037 50.000 12.10 0.00 35.25 2.10
2868 3353 2.276201 CGCGACCATTGGTTCTATCAA 58.724 47.619 10.29 0.00 35.25 2.57
2869 3354 2.285220 CGCGACCATTGGTTCTATCAAG 59.715 50.000 10.29 0.00 35.25 3.02
2872 3357 3.871594 CGACCATTGGTTCTATCAAGGTC 59.128 47.826 10.29 0.00 35.25 3.85
2873 3358 4.200092 GACCATTGGTTCTATCAAGGTCC 58.800 47.826 10.29 0.00 36.97 4.46
2886 3371 1.908793 AGGTCCGTCCTGACACCTG 60.909 63.158 8.15 0.00 46.19 4.00
2887 3372 2.048127 GTCCGTCCTGACACCTGC 60.048 66.667 0.00 0.00 35.29 4.85
2897 3382 0.884259 TGACACCTGCACCATTCACG 60.884 55.000 0.00 0.00 0.00 4.35
2899 3384 0.884704 ACACCTGCACCATTCACGTC 60.885 55.000 0.00 0.00 0.00 4.34
2902 3387 0.518636 CCTGCACCATTCACGTCTTG 59.481 55.000 0.00 0.00 0.00 3.02
2906 3391 1.806542 GCACCATTCACGTCTTGACAT 59.193 47.619 1.59 0.00 32.26 3.06
2910 3395 3.748048 ACCATTCACGTCTTGACATCTTG 59.252 43.478 1.59 0.00 32.26 3.02
2912 3397 4.452114 CCATTCACGTCTTGACATCTTGAA 59.548 41.667 1.59 4.62 32.26 2.69
2913 3398 5.390251 CCATTCACGTCTTGACATCTTGAAG 60.390 44.000 1.59 0.00 32.26 3.02
2920 3442 5.289675 CGTCTTGACATCTTGAAGTGGATAC 59.710 44.000 1.59 0.00 0.00 2.24
2923 3445 6.875726 TCTTGACATCTTGAAGTGGATACTTG 59.124 38.462 0.00 0.00 46.79 3.16
2924 3446 6.114187 TGACATCTTGAAGTGGATACTTGT 57.886 37.500 0.00 0.00 46.79 3.16
2929 3451 7.387948 ACATCTTGAAGTGGATACTTGTGTTAC 59.612 37.037 0.00 0.00 46.79 2.50
2948 3470 1.948145 ACTGTAGTCGAATAGAGGCGG 59.052 52.381 19.45 4.09 0.00 6.13
2949 3471 1.267261 CTGTAGTCGAATAGAGGCGGG 59.733 57.143 9.02 0.00 0.00 6.13
2951 3473 1.680207 GTAGTCGAATAGAGGCGGGTT 59.320 52.381 0.00 0.00 0.00 4.11
2953 3475 1.553704 AGTCGAATAGAGGCGGGTTTT 59.446 47.619 0.00 0.00 0.00 2.43
2954 3476 2.027469 AGTCGAATAGAGGCGGGTTTTT 60.027 45.455 0.00 0.00 0.00 1.94
2979 3501 8.554490 TTTTAGAATAGTGGAATAGAGGAGCT 57.446 34.615 0.00 0.00 0.00 4.09
2980 3502 8.554490 TTTAGAATAGTGGAATAGAGGAGCTT 57.446 34.615 0.00 0.00 0.00 3.74
2981 3503 6.418057 AGAATAGTGGAATAGAGGAGCTTG 57.582 41.667 0.00 0.00 0.00 4.01
2982 3504 2.998316 AGTGGAATAGAGGAGCTTGC 57.002 50.000 0.00 0.00 0.00 4.01
2983 3505 2.191400 AGTGGAATAGAGGAGCTTGCA 58.809 47.619 0.00 0.00 0.00 4.08
2984 3506 2.170187 AGTGGAATAGAGGAGCTTGCAG 59.830 50.000 0.00 0.00 0.00 4.41
2985 3507 1.134280 TGGAATAGAGGAGCTTGCAGC 60.134 52.381 0.00 0.47 42.84 5.25
3028 3550 0.679640 CGCCCCATTTGCTCCTGTTA 60.680 55.000 0.00 0.00 0.00 2.41
3029 3551 1.106285 GCCCCATTTGCTCCTGTTAG 58.894 55.000 0.00 0.00 0.00 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 88 9.530633 ACCGTATTATTACTCTCAATCTTGTTC 57.469 33.333 0.00 0.00 0.00 3.18
90 91 8.141909 TCCACCGTATTATTACTCTCAATCTTG 58.858 37.037 0.00 0.00 0.00 3.02
91 92 8.246430 TCCACCGTATTATTACTCTCAATCTT 57.754 34.615 0.00 0.00 0.00 2.40
93 94 8.882415 TTTCCACCGTATTATTACTCTCAATC 57.118 34.615 0.00 0.00 0.00 2.67
120 121 0.034896 GACCCCGACATTGCCGATAT 59.965 55.000 0.00 0.00 0.00 1.63
141 146 2.180017 GCCACCGTACGTCGATGT 59.820 61.111 15.78 15.78 42.86 3.06
142 147 2.947621 CGCCACCGTACGTCGATG 60.948 66.667 15.21 2.26 42.86 3.84
164 170 2.848858 GCCAGGCCGCCACATATTG 61.849 63.158 13.15 0.00 0.00 1.90
165 171 2.519302 GCCAGGCCGCCACATATT 60.519 61.111 13.15 0.00 0.00 1.28
246 265 2.430921 CGGATATCTGCCGTCCGC 60.431 66.667 2.05 0.00 46.90 5.54
289 308 1.644786 GGCATGGGGAAAAGTCGTCG 61.645 60.000 0.00 0.00 0.00 5.12
331 355 0.969409 AGGAGAAAAGCTGGGCATGC 60.969 55.000 9.90 9.90 0.00 4.06
332 356 0.815734 CAGGAGAAAAGCTGGGCATG 59.184 55.000 0.00 0.00 0.00 4.06
334 358 1.075482 CCAGGAGAAAAGCTGGGCA 59.925 57.895 0.00 0.00 33.61 5.36
335 359 2.346541 GCCAGGAGAAAAGCTGGGC 61.347 63.158 0.00 0.00 37.45 5.36
336 360 2.042831 CGCCAGGAGAAAAGCTGGG 61.043 63.158 0.00 0.00 37.45 4.45
337 361 2.042831 CCGCCAGGAGAAAAGCTGG 61.043 63.158 0.00 0.00 41.02 4.85
338 362 1.003355 TCCGCCAGGAGAAAAGCTG 60.003 57.895 0.00 0.00 42.75 4.24
339 363 3.483587 TCCGCCAGGAGAAAAGCT 58.516 55.556 0.00 0.00 42.75 3.74
381 405 1.064537 TGCACACCATGACCATATGCT 60.065 47.619 0.00 0.00 32.81 3.79
386 410 2.644887 GTGTGCACACCATGACCAT 58.355 52.632 34.94 0.00 40.85 3.55
387 411 4.155950 GTGTGCACACCATGACCA 57.844 55.556 34.94 0.69 40.85 4.02
417 459 1.947456 GCATTCTCGGGGTTTATGTCC 59.053 52.381 0.00 0.00 0.00 4.02
432 474 1.130561 GTTCGCTACCAAGTGGCATTC 59.869 52.381 3.96 0.00 40.02 2.67
447 489 0.168128 AACATTGCTTAGCCGTTCGC 59.832 50.000 0.29 0.00 37.98 4.70
448 490 2.534150 CGTAACATTGCTTAGCCGTTCG 60.534 50.000 0.29 5.52 0.00 3.95
453 495 4.545823 TTATGCGTAACATTGCTTAGCC 57.454 40.909 0.29 0.00 40.38 3.93
456 498 4.336713 TGCCATTATGCGTAACATTGCTTA 59.663 37.500 0.00 0.00 40.38 3.09
487 530 1.621317 CCTTGGGTTTGCCGGTTATTT 59.379 47.619 1.90 0.00 34.97 1.40
501 547 0.527565 CCGCAGAAATCAACCTTGGG 59.472 55.000 0.00 0.00 0.00 4.12
569 619 0.383949 CAACCCCAGTTTGAACACCG 59.616 55.000 0.00 0.00 32.45 4.94
625 675 5.355910 GGTTTCTTAGTTTAATGGATCGGCA 59.644 40.000 0.00 0.00 0.00 5.69
626 676 5.355910 TGGTTTCTTAGTTTAATGGATCGGC 59.644 40.000 0.00 0.00 0.00 5.54
627 677 6.995511 TGGTTTCTTAGTTTAATGGATCGG 57.004 37.500 0.00 0.00 0.00 4.18
628 678 8.893727 AGAATGGTTTCTTAGTTTAATGGATCG 58.106 33.333 0.00 0.00 39.18 3.69
630 680 8.470002 GCAGAATGGTTTCTTAGTTTAATGGAT 58.530 33.333 0.00 0.00 40.28 3.41
631 681 7.826690 GCAGAATGGTTTCTTAGTTTAATGGA 58.173 34.615 0.00 0.00 40.28 3.41
690 749 6.868339 GCTGCAATTAAGTACAAAATGGAAGT 59.132 34.615 0.00 0.00 0.00 3.01
700 759 6.176896 TGACTAATGGCTGCAATTAAGTACA 58.823 36.000 10.51 6.03 0.00 2.90
713 797 2.549563 CGATCATGGCTGACTAATGGCT 60.550 50.000 0.00 0.00 33.22 4.75
784 892 3.206034 TGCTTCAGATGATTTGTTGCG 57.794 42.857 0.00 0.00 0.00 4.85
795 903 6.018098 CGATTCTAGCTTGAATTGCTTCAGAT 60.018 38.462 21.68 0.00 42.19 2.90
796 904 5.292834 CGATTCTAGCTTGAATTGCTTCAGA 59.707 40.000 21.68 0.00 42.19 3.27
798 906 5.178061 TCGATTCTAGCTTGAATTGCTTCA 58.822 37.500 24.99 11.39 41.46 3.02
799 907 5.277250 CCTCGATTCTAGCTTGAATTGCTTC 60.277 44.000 24.99 13.36 41.46 3.86
800 908 4.574013 CCTCGATTCTAGCTTGAATTGCTT 59.426 41.667 24.99 6.90 41.46 3.91
801 909 4.125703 CCTCGATTCTAGCTTGAATTGCT 58.874 43.478 24.99 7.23 43.79 3.91
806 920 3.429547 GCACTCCTCGATTCTAGCTTGAA 60.430 47.826 12.98 12.98 0.00 2.69
826 940 1.613255 GGAAAGATTCTCCCCGTTGCA 60.613 52.381 0.00 0.00 0.00 4.08
889 1222 3.317149 GCTGCCAAATCATCTGAAGCATA 59.683 43.478 0.00 0.00 0.00 3.14
932 1265 3.347958 TGGTTTTGTCTGCAAACGATC 57.652 42.857 0.00 0.00 43.47 3.69
935 1268 2.598192 CAGTTGGTTTTGTCTGCAAACG 59.402 45.455 0.00 0.00 43.47 3.60
951 1284 2.233186 TCCACAGATGCTCTCTCAGTTG 59.767 50.000 0.00 0.00 29.16 3.16
1007 1340 7.717436 CGGGTGAGCAATCTATCTATCTATCTA 59.283 40.741 0.00 0.00 0.00 1.98
1009 1342 6.734137 CGGGTGAGCAATCTATCTATCTATC 58.266 44.000 0.00 0.00 0.00 2.08
1010 1343 5.068460 GCGGGTGAGCAATCTATCTATCTAT 59.932 44.000 0.00 0.00 37.05 1.98
1011 1344 4.399618 GCGGGTGAGCAATCTATCTATCTA 59.600 45.833 0.00 0.00 37.05 1.98
1012 1345 3.194542 GCGGGTGAGCAATCTATCTATCT 59.805 47.826 0.00 0.00 37.05 1.98
1013 1346 3.056536 TGCGGGTGAGCAATCTATCTATC 60.057 47.826 0.00 0.00 45.06 2.08
1014 1347 2.899900 TGCGGGTGAGCAATCTATCTAT 59.100 45.455 0.00 0.00 45.06 1.98
1015 1348 2.316108 TGCGGGTGAGCAATCTATCTA 58.684 47.619 0.00 0.00 45.06 1.98
1016 1349 1.123077 TGCGGGTGAGCAATCTATCT 58.877 50.000 0.00 0.00 45.06 1.98
1017 1350 3.686622 TGCGGGTGAGCAATCTATC 57.313 52.632 0.00 0.00 45.06 2.08
1040 1373 6.714356 GCTCCCAGCAATCTATCTATCTTTTT 59.286 38.462 0.00 0.00 41.89 1.94
1041 1374 6.237154 GCTCCCAGCAATCTATCTATCTTTT 58.763 40.000 0.00 0.00 41.89 2.27
1042 1375 5.568423 CGCTCCCAGCAATCTATCTATCTTT 60.568 44.000 0.00 0.00 42.58 2.52
1043 1376 4.081752 CGCTCCCAGCAATCTATCTATCTT 60.082 45.833 0.00 0.00 42.58 2.40
1131 1464 2.685999 GCCCCTGATTGGCCTTCT 59.314 61.111 3.32 0.00 43.33 2.85
1141 1474 2.366167 CTCCTCTGGAGCCCCTGA 59.634 66.667 0.27 0.00 43.29 3.86
1198 1531 1.301479 GAGGAACTGGTCGCCGTTT 60.301 57.895 0.00 0.00 41.55 3.60
1296 1629 4.207281 TCTCGATCTTGGCCGCCG 62.207 66.667 4.58 0.00 0.00 6.46
1297 1630 2.586357 GTCTCGATCTTGGCCGCC 60.586 66.667 1.04 1.04 0.00 6.13
1298 1631 2.685387 ATCGTCTCGATCTTGGCCGC 62.685 60.000 0.00 0.00 43.45 6.53
1299 1632 1.360551 ATCGTCTCGATCTTGGCCG 59.639 57.895 0.00 0.00 43.45 6.13
1383 1716 2.543861 CCGTCTGATTTCCGATCATCGT 60.544 50.000 6.25 0.00 38.40 3.73
1397 1730 1.503818 GAAGTTTTGCCGCCGTCTGA 61.504 55.000 0.00 0.00 0.00 3.27
1422 1755 3.377439 GTGACATCGTATGCATACCGAA 58.623 45.455 27.08 15.40 0.00 4.30
1428 1761 0.880278 GGCGGTGACATCGTATGCAT 60.880 55.000 10.29 3.79 0.00 3.96
1543 1876 3.112709 GACGCGTCTGGTTCAGGC 61.113 66.667 31.12 1.26 32.08 4.85
1621 2029 3.356639 TAGTTCCGGAGCGCTGCTG 62.357 63.158 26.78 20.56 39.88 4.41
1831 2239 2.811317 CGCTCTCCGTGTTCTGCC 60.811 66.667 0.00 0.00 0.00 4.85
1843 2251 4.961511 TCAAACACCGCGCGCTCT 62.962 61.111 30.48 10.90 0.00 4.09
2025 2442 7.816031 ACAAAAGCTACCAAAATCATCATCAAG 59.184 33.333 0.00 0.00 0.00 3.02
2059 2477 5.410746 ACAAATCACATCACAAGCACTCTAG 59.589 40.000 0.00 0.00 0.00 2.43
2093 2518 7.856145 ATCTTTGCTGTACATTTCTCCTTAG 57.144 36.000 0.00 0.00 0.00 2.18
2203 2635 6.519679 TCAGCGAGGTAATTCACTAGTTTA 57.480 37.500 0.00 0.00 0.00 2.01
2246 2679 5.424121 AGCGAATGAAACTATGCCAATAC 57.576 39.130 0.00 0.00 0.00 1.89
2301 2734 1.070786 TCCACCGCCTCTGTTGTTC 59.929 57.895 0.00 0.00 0.00 3.18
2307 2742 1.622607 TATTGGGTCCACCGCCTCTG 61.623 60.000 0.00 0.00 44.64 3.35
2313 2748 6.605995 TCATAGTATATCTATTGGGTCCACCG 59.394 42.308 0.00 0.00 38.52 4.94
2369 2807 8.319057 AGAAGGTAACATACTATGACATGGAA 57.681 34.615 5.72 0.00 41.41 3.53
2384 2822 9.349713 AGAATTATGACAACAAAGAAGGTAACA 57.650 29.630 0.00 0.00 41.41 2.41
2385 2823 9.612620 CAGAATTATGACAACAAAGAAGGTAAC 57.387 33.333 0.00 0.00 0.00 2.50
2404 2881 2.304761 ACGCCCTCTTGGAACAGAATTA 59.695 45.455 0.00 0.00 42.39 1.40
2440 2917 5.530915 TGAGCAACTAGTTTTGTGCAACTAT 59.469 36.000 17.27 0.00 38.34 2.12
2501 2978 2.027625 GTGACCCTTCGCGTCAAGG 61.028 63.158 17.40 17.40 41.70 3.61
2506 2983 0.034896 ATCAAAGTGACCCTTCGCGT 59.965 50.000 5.77 0.00 37.33 6.01
2509 2986 1.813513 AGCATCAAAGTGACCCTTCG 58.186 50.000 0.00 0.00 31.27 3.79
2513 2990 3.935828 GAGTTCTAGCATCAAAGTGACCC 59.064 47.826 0.00 0.00 0.00 4.46
2533 3010 2.221749 CCAATTCGATGTATGCCACGAG 59.778 50.000 0.00 0.00 36.22 4.18
2535 3012 1.939934 ACCAATTCGATGTATGCCACG 59.060 47.619 0.00 0.00 0.00 4.94
2537 3014 2.997980 ACACCAATTCGATGTATGCCA 58.002 42.857 0.00 0.00 0.00 4.92
2540 3017 9.650371 CAAGTTATTACACCAATTCGATGTATG 57.350 33.333 0.00 0.00 0.00 2.39
2551 3028 6.822442 TGTCAGAGTCAAGTTATTACACCAA 58.178 36.000 0.00 0.00 0.00 3.67
2567 3044 3.310774 GCATCGTATTTGCATGTCAGAGT 59.689 43.478 0.00 0.00 39.90 3.24
2586 3063 2.415168 CGTACACAACCGAGATTTGCAT 59.585 45.455 0.00 0.00 0.00 3.96
2608 3085 0.683179 TGCCTAGTTAGCAGCTCGGA 60.683 55.000 0.00 0.00 34.69 4.55
2610 3087 0.867753 CGTGCCTAGTTAGCAGCTCG 60.868 60.000 0.00 0.00 41.87 5.03
2615 3092 0.251916 ATTGGCGTGCCTAGTTAGCA 59.748 50.000 12.84 0.00 38.08 3.49
2616 3093 2.234300 TATTGGCGTGCCTAGTTAGC 57.766 50.000 12.84 0.00 36.94 3.09
2619 3096 1.967319 CCATATTGGCGTGCCTAGTT 58.033 50.000 12.84 0.00 36.94 2.24
2648 3125 2.740826 ATTGGGTCGTTGACGGCG 60.741 61.111 4.80 4.80 46.26 6.46
2649 3126 2.686816 CCATTGGGTCGTTGACGGC 61.687 63.158 3.48 1.05 44.28 5.68
2650 3127 2.686816 GCCATTGGGTCGTTGACGG 61.687 63.158 4.53 0.00 35.67 4.79
2651 3128 1.511318 TTGCCATTGGGTCGTTGACG 61.511 55.000 4.53 0.00 36.17 4.35
2652 3129 0.671251 TTTGCCATTGGGTCGTTGAC 59.329 50.000 4.53 0.00 36.17 3.18
2653 3130 0.958091 CTTTGCCATTGGGTCGTTGA 59.042 50.000 4.53 0.00 36.17 3.18
2654 3131 0.958091 TCTTTGCCATTGGGTCGTTG 59.042 50.000 4.53 0.00 36.17 4.10
2655 3132 1.202879 TCTCTTTGCCATTGGGTCGTT 60.203 47.619 4.53 0.00 36.17 3.85
2656 3133 0.400213 TCTCTTTGCCATTGGGTCGT 59.600 50.000 4.53 0.00 36.17 4.34
2657 3134 1.089920 CTCTCTTTGCCATTGGGTCG 58.910 55.000 4.53 0.00 36.17 4.79
2658 3135 1.467920 CCTCTCTTTGCCATTGGGTC 58.532 55.000 4.53 0.00 36.17 4.46
2659 3136 0.040204 CCCTCTCTTTGCCATTGGGT 59.960 55.000 4.53 0.00 36.17 4.51
2660 3137 1.325476 GCCCTCTCTTTGCCATTGGG 61.325 60.000 4.53 0.00 36.41 4.12
2661 3138 1.660560 CGCCCTCTCTTTGCCATTGG 61.661 60.000 0.00 0.00 0.00 3.16
2662 3139 0.962356 ACGCCCTCTCTTTGCCATTG 60.962 55.000 0.00 0.00 0.00 2.82
2663 3140 0.962356 CACGCCCTCTCTTTGCCATT 60.962 55.000 0.00 0.00 0.00 3.16
2699 3176 2.045561 TGAGGGTGTCTTCGCAAAAA 57.954 45.000 0.00 0.00 0.00 1.94
2700 3177 2.045561 TTGAGGGTGTCTTCGCAAAA 57.954 45.000 0.00 0.00 0.00 2.44
2701 3178 2.270352 ATTGAGGGTGTCTTCGCAAA 57.730 45.000 0.00 0.00 0.00 3.68
2702 3179 2.270352 AATTGAGGGTGTCTTCGCAA 57.730 45.000 0.00 0.00 0.00 4.85
2703 3180 2.270352 AAATTGAGGGTGTCTTCGCA 57.730 45.000 0.00 0.00 0.00 5.10
2704 3181 3.643159 AAAAATTGAGGGTGTCTTCGC 57.357 42.857 0.00 0.00 0.00 4.70
2732 3209 2.095567 CGACATCAACAGGGCTCTTTTG 60.096 50.000 6.11 6.11 33.29 2.44
2737 3214 0.036388 TTCCGACATCAACAGGGCTC 60.036 55.000 0.00 0.00 0.00 4.70
2739 3216 0.804989 CTTTCCGACATCAACAGGGC 59.195 55.000 0.00 0.00 0.00 5.19
2742 3219 2.096496 GCCATCTTTCCGACATCAACAG 59.904 50.000 0.00 0.00 0.00 3.16
2744 3221 2.083774 TGCCATCTTTCCGACATCAAC 58.916 47.619 0.00 0.00 0.00 3.18
2749 3226 2.789213 TGAAATGCCATCTTTCCGACA 58.211 42.857 0.00 0.00 32.75 4.35
2752 3229 4.931002 ACAAAATGAAATGCCATCTTTCCG 59.069 37.500 0.00 0.00 32.75 4.30
2759 3236 5.047802 AGAGTCGAACAAAATGAAATGCCAT 60.048 36.000 0.00 0.00 0.00 4.40
2768 3245 5.864474 ACTAGCTGTAGAGTCGAACAAAATG 59.136 40.000 0.00 0.00 0.00 2.32
2770 3247 5.220381 CACTAGCTGTAGAGTCGAACAAAA 58.780 41.667 0.00 0.00 0.00 2.44
2774 3251 2.097791 CCCACTAGCTGTAGAGTCGAAC 59.902 54.545 0.00 0.00 0.00 3.95
2784 3263 2.119832 ACGGGACCCACTAGCTGT 59.880 61.111 12.15 0.00 0.00 4.40
2785 3264 2.283529 ACACGGGACCCACTAGCTG 61.284 63.158 12.15 0.00 0.00 4.24
2786 3265 2.119832 ACACGGGACCCACTAGCT 59.880 61.111 12.15 0.00 0.00 3.32
2817 3296 7.712797 AGACGAGTCCATTTGTTTTGTTAATT 58.287 30.769 0.00 0.00 0.00 1.40
2818 3297 7.272037 AGACGAGTCCATTTGTTTTGTTAAT 57.728 32.000 0.00 0.00 0.00 1.40
2826 3305 3.318017 CTTCGAGACGAGTCCATTTGTT 58.682 45.455 0.00 0.00 37.14 2.83
2828 3307 1.656095 GCTTCGAGACGAGTCCATTTG 59.344 52.381 0.00 0.00 37.14 2.32
2832 3311 2.868196 CGCTTCGAGACGAGTCCA 59.132 61.111 3.30 0.00 37.14 4.02
2842 3321 2.813474 CCAATGGTCGCGCTTCGA 60.813 61.111 5.56 0.00 46.29 3.71
2844 3323 1.134694 GAACCAATGGTCGCGCTTC 59.865 57.895 4.95 0.00 33.12 3.86
2845 3324 0.036765 TAGAACCAATGGTCGCGCTT 60.037 50.000 4.95 0.00 33.12 4.68
2846 3325 0.178068 ATAGAACCAATGGTCGCGCT 59.822 50.000 4.95 3.91 33.12 5.92
2850 3335 3.871594 GACCTTGATAGAACCAATGGTCG 59.128 47.826 4.95 0.00 33.12 4.79
2855 3340 3.118371 GGACGGACCTTGATAGAACCAAT 60.118 47.826 0.00 0.00 35.41 3.16
2869 3354 2.657237 CAGGTGTCAGGACGGACC 59.343 66.667 0.34 1.71 36.97 4.46
2872 3357 2.357517 GTGCAGGTGTCAGGACGG 60.358 66.667 0.00 0.00 0.00 4.79
2873 3358 2.357517 GGTGCAGGTGTCAGGACG 60.358 66.667 0.00 0.00 0.00 4.79
2880 3365 0.884704 GACGTGAATGGTGCAGGTGT 60.885 55.000 0.00 0.00 34.84 4.16
2882 3367 0.108585 AAGACGTGAATGGTGCAGGT 59.891 50.000 0.00 0.00 37.10 4.00
2883 3368 0.518636 CAAGACGTGAATGGTGCAGG 59.481 55.000 0.00 0.00 0.00 4.85
2886 3371 1.225855 TGTCAAGACGTGAATGGTGC 58.774 50.000 0.00 0.00 38.23 5.01
2887 3372 3.329386 AGATGTCAAGACGTGAATGGTG 58.671 45.455 0.00 0.00 38.23 4.17
2897 3382 6.402222 AGTATCCACTTCAAGATGTCAAGAC 58.598 40.000 0.00 0.00 0.00 3.01
2899 3384 6.652481 ACAAGTATCCACTTCAAGATGTCAAG 59.348 38.462 0.00 0.00 43.30 3.02
2902 3387 5.934625 ACACAAGTATCCACTTCAAGATGTC 59.065 40.000 0.00 0.00 43.30 3.06
2906 3391 6.929049 CAGTAACACAAGTATCCACTTCAAGA 59.071 38.462 0.00 0.00 43.30 3.02
2910 3395 7.376615 ACTACAGTAACACAAGTATCCACTTC 58.623 38.462 0.00 0.00 43.30 3.01
2912 3397 6.349115 CGACTACAGTAACACAAGTATCCACT 60.349 42.308 0.00 0.00 36.19 4.00
2913 3398 5.798934 CGACTACAGTAACACAAGTATCCAC 59.201 44.000 0.00 0.00 0.00 4.02
2920 3442 6.967767 CCTCTATTCGACTACAGTAACACAAG 59.032 42.308 0.00 0.00 0.00 3.16
2923 3445 5.272397 GCCTCTATTCGACTACAGTAACAC 58.728 45.833 0.00 0.00 0.00 3.32
2924 3446 4.034858 CGCCTCTATTCGACTACAGTAACA 59.965 45.833 0.00 0.00 0.00 2.41
2929 3451 1.267261 CCCGCCTCTATTCGACTACAG 59.733 57.143 0.00 0.00 0.00 2.74
2953 3475 8.993424 AGCTCCTCTATTCCACTATTCTAAAAA 58.007 33.333 0.00 0.00 0.00 1.94
2954 3476 8.554490 AGCTCCTCTATTCCACTATTCTAAAA 57.446 34.615 0.00 0.00 0.00 1.52
2955 3477 8.424918 CAAGCTCCTCTATTCCACTATTCTAAA 58.575 37.037 0.00 0.00 0.00 1.85
2956 3478 7.472100 GCAAGCTCCTCTATTCCACTATTCTAA 60.472 40.741 0.00 0.00 0.00 2.10
2957 3479 6.015010 GCAAGCTCCTCTATTCCACTATTCTA 60.015 42.308 0.00 0.00 0.00 2.10
2958 3480 5.221621 GCAAGCTCCTCTATTCCACTATTCT 60.222 44.000 0.00 0.00 0.00 2.40
2959 3481 4.994217 GCAAGCTCCTCTATTCCACTATTC 59.006 45.833 0.00 0.00 0.00 1.75
2960 3482 4.410228 TGCAAGCTCCTCTATTCCACTATT 59.590 41.667 0.00 0.00 0.00 1.73
2961 3483 3.969976 TGCAAGCTCCTCTATTCCACTAT 59.030 43.478 0.00 0.00 0.00 2.12
2962 3484 3.374764 TGCAAGCTCCTCTATTCCACTA 58.625 45.455 0.00 0.00 0.00 2.74
2963 3485 2.170187 CTGCAAGCTCCTCTATTCCACT 59.830 50.000 0.00 0.00 0.00 4.00
2964 3486 2.559440 CTGCAAGCTCCTCTATTCCAC 58.441 52.381 0.00 0.00 0.00 4.02
2965 3487 2.996249 CTGCAAGCTCCTCTATTCCA 57.004 50.000 0.00 0.00 0.00 3.53
2978 3500 1.153901 CCCATTTCAGCGCTGCAAG 60.154 57.895 32.44 19.55 0.00 4.01
2979 3501 2.964174 CCCATTTCAGCGCTGCAA 59.036 55.556 32.44 28.23 0.00 4.08
2980 3502 3.751246 GCCCATTTCAGCGCTGCA 61.751 61.111 32.44 20.57 0.00 4.41
2981 3503 3.446570 AGCCCATTTCAGCGCTGC 61.447 61.111 32.44 18.78 0.00 5.25
2982 3504 2.488355 CAGCCCATTTCAGCGCTG 59.512 61.111 31.53 31.53 42.42 5.18
2983 3505 3.446570 GCAGCCCATTTCAGCGCT 61.447 61.111 2.64 2.64 0.00 5.92
2984 3506 4.503314 GGCAGCCCATTTCAGCGC 62.503 66.667 0.00 0.00 0.00 5.92
2985 3507 4.183686 CGGCAGCCCATTTCAGCG 62.184 66.667 5.63 0.00 0.00 5.18
3011 3533 2.514458 ACTAACAGGAGCAAATGGGG 57.486 50.000 0.00 0.00 0.00 4.96
3139 3662 9.760077 AAGAATACGAGAACAGTTTAGAAAAGA 57.240 29.630 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.