Multiple sequence alignment - TraesCS6A01G207200

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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 TraesCS6A01G207200 chr6A 100.000 2827 0 0 1 2827 367764823 367761997 0.000000e+00 5221
1 TraesCS6A01G207200 chr5A 97.426 2137 52 3 351 2486 115995526 115993392 0.000000e+00 3639
2 TraesCS6A01G207200 chr5A 97.183 355 10 0 1 355 115996135 115995781 4.030000e-168 601
3 TraesCS6A01G207200 chr4B 96.544 2141 52 7 350 2486 595722797 595720675 0.000000e+00 3524
4 TraesCS6A01G207200 chr4B 98.310 355 6 0 1 355 595723405 595723051 8.600000e-175 623
5 TraesCS6A01G207200 chr3B 96.262 2140 57 6 351 2484 7320722 7322844 0.000000e+00 3487
6 TraesCS6A01G207200 chr3B 98.584 353 5 0 1 353 7320113 7320465 2.390000e-175 625
7 TraesCS6A01G207200 chr3D 96.630 2107 49 7 351 2456 376076259 376074174 0.000000e+00 3478
8 TraesCS6A01G207200 chr3D 97.753 356 7 1 1 356 376076867 376076513 1.860000e-171 612
9 TraesCS6A01G207200 chr5D 96.337 1829 44 7 663 2488 431175482 431173674 0.000000e+00 2985
10 TraesCS6A01G207200 chr5D 97.472 356 9 0 1 356 431176347 431175992 2.410000e-170 608
11 TraesCS6A01G207200 chr2B 97.076 1744 50 1 351 2094 33471873 33470131 0.000000e+00 2937
12 TraesCS6A01G207200 chr2B 93.664 1531 69 11 351 1856 796753315 796751788 0.000000e+00 2265
13 TraesCS6A01G207200 chr2B 97.753 356 8 0 1 356 33472482 33472127 5.180000e-172 614
14 TraesCS6A01G207200 chr2B 97.472 356 9 0 1 356 796753921 796753566 2.410000e-170 608
15 TraesCS6A01G207200 chr2B 96.629 356 11 1 2129 2484 33470132 33469778 8.720000e-165 590
16 TraesCS6A01G207200 chr2B 93.717 382 17 4 2121 2495 193831244 193831625 1.470000e-157 566
17 TraesCS6A01G207200 chr5B 96.210 1768 47 6 724 2491 322285927 322284180 0.000000e+00 2876
18 TraesCS6A01G207200 chr5B 92.008 1589 100 15 439 2013 698015141 698013566 0.000000e+00 2206
19 TraesCS6A01G207200 chr2D 93.860 570 16 6 1917 2486 13511108 13510558 0.000000e+00 841
20 TraesCS6A01G207200 chr2D 97.753 356 8 0 1 356 13521139 13520784 5.180000e-172 614
21 TraesCS6A01G207200 chr2A 94.475 543 21 5 1402 1938 175031944 175032483 0.000000e+00 828
22 TraesCS6A01G207200 chr2A 96.884 353 11 0 1 353 613240139 613239787 2.430000e-165 592
23 TraesCS6A01G207200 chr7B 93.834 373 19 3 2121 2489 33412024 33412396 2.460000e-155 558
24 TraesCS6A01G207200 chr6D 90.270 185 15 3 2540 2722 262014450 262014267 3.640000e-59 239
25 TraesCS6A01G207200 chr6B 87.736 106 13 0 2722 2827 374313449 374313344 1.060000e-24 124


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 TraesCS6A01G207200 chr6A 367761997 367764823 2826 True 5221.000000 5221 100.000000 1 2827 1 chr6A.!!$R1 2826
1 TraesCS6A01G207200 chr5A 115993392 115996135 2743 True 2120.000000 3639 97.304500 1 2486 2 chr5A.!!$R1 2485
2 TraesCS6A01G207200 chr4B 595720675 595723405 2730 True 2073.500000 3524 97.427000 1 2486 2 chr4B.!!$R1 2485
3 TraesCS6A01G207200 chr3B 7320113 7322844 2731 False 2056.000000 3487 97.423000 1 2484 2 chr3B.!!$F1 2483
4 TraesCS6A01G207200 chr3D 376074174 376076867 2693 True 2045.000000 3478 97.191500 1 2456 2 chr3D.!!$R1 2455
5 TraesCS6A01G207200 chr5D 431173674 431176347 2673 True 1796.500000 2985 96.904500 1 2488 2 chr5D.!!$R1 2487
6 TraesCS6A01G207200 chr2B 796751788 796753921 2133 True 1436.500000 2265 95.568000 1 1856 2 chr2B.!!$R2 1855
7 TraesCS6A01G207200 chr2B 33469778 33472482 2704 True 1380.333333 2937 97.152667 1 2484 3 chr2B.!!$R1 2483
8 TraesCS6A01G207200 chr5B 322284180 322285927 1747 True 2876.000000 2876 96.210000 724 2491 1 chr5B.!!$R1 1767
9 TraesCS6A01G207200 chr5B 698013566 698015141 1575 True 2206.000000 2206 92.008000 439 2013 1 chr5B.!!$R2 1574
10 TraesCS6A01G207200 chr2D 13510558 13511108 550 True 841.000000 841 93.860000 1917 2486 1 chr2D.!!$R1 569
11 TraesCS6A01G207200 chr2A 175031944 175032483 539 False 828.000000 828 94.475000 1402 1938 1 chr2A.!!$F1 536

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
433 693 2.185004 AGACATAGCAAAGCCAACGT 57.815 45.000 0.0 0.0 0.0 3.99 F
728 988 2.310538 CTTGGAGGTGGTTGAAAGCTT 58.689 47.619 0.0 0.0 0.0 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1311 1578 0.109597 CCTCGCAAGGCACAATTGAC 60.110 55.0 13.59 3.47 35.37 3.18 R
2619 2958 0.032130 TAGATCGGACGGCTGATTGC 59.968 55.0 15.33 1.86 40.21 3.56 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
42 43 3.609807 GCATTGCGAAAGAAGCTTAAAGG 59.390 43.478 0.00 0.00 35.28 3.11
141 142 6.618287 TTGGGATACAAGCTTTGATAATCG 57.382 37.500 0.00 0.00 33.18 3.34
146 147 7.148407 GGGATACAAGCTTTGATAATCGGTATG 60.148 40.741 0.00 0.00 39.74 2.39
356 357 2.363795 TGGCTAGTGCTACCGCCT 60.364 61.111 9.80 0.00 42.90 5.52
357 358 2.356818 CTGGCTAGTGCTACCGCCTC 62.357 65.000 9.80 0.00 42.90 4.70
414 674 9.784531 TTATTTGAGAAAAATTGGGTTGCAATA 57.215 25.926 0.59 0.00 0.00 1.90
433 693 2.185004 AGACATAGCAAAGCCAACGT 57.815 45.000 0.00 0.00 0.00 3.99
437 697 2.819608 ACATAGCAAAGCCAACGTCAAT 59.180 40.909 0.00 0.00 0.00 2.57
623 883 7.684913 GCAATTGATTATGATCATGTGGAACCA 60.685 37.037 18.72 0.00 41.71 3.67
645 905 5.301805 CCAAAGGAGAAAGGTAGCAAGAAAA 59.698 40.000 0.00 0.00 0.00 2.29
728 988 2.310538 CTTGGAGGTGGTTGAAAGCTT 58.689 47.619 0.00 0.00 0.00 3.74
822 1082 5.248640 ACATGTTCTTGTAGACAATGGGAG 58.751 41.667 0.00 0.00 35.02 4.30
880 1140 8.573885 CATTTATCACATCTCTTACCAATGCAT 58.426 33.333 0.00 0.00 0.00 3.96
952 1214 5.454755 GCAGCTTATGACCAACTAATCCCTA 60.455 44.000 0.00 0.00 0.00 3.53
985 1247 5.690865 ACAAGAACCAGTGACCTAAATCAA 58.309 37.500 0.00 0.00 0.00 2.57
1086 1348 4.640647 AGTGAGAAGAAAAGAAAAAGCGGT 59.359 37.500 0.00 0.00 0.00 5.68
1311 1578 2.086869 ACCACCAAATCAGCTCAATCG 58.913 47.619 0.00 0.00 0.00 3.34
1358 1625 0.813184 CCATCAGCCATGCGTTTTCT 59.187 50.000 0.00 0.00 0.00 2.52
1714 2009 6.566197 CAAAGAGGTTGCTGAAATTACTCT 57.434 37.500 0.00 0.00 35.52 3.24
1973 2271 0.531974 TGCGACCTGTTGTGAACCTC 60.532 55.000 0.00 0.00 0.00 3.85
2041 2342 7.717436 TCACTTTTATGTGAACCTGAATGTGTA 59.283 33.333 0.00 0.00 43.08 2.90
2082 2383 5.008514 TGGGATGTTTGCATATATGTGAACG 59.991 40.000 14.14 0.00 35.07 3.95
2085 2386 5.228579 TGTTTGCATATATGTGAACGTGG 57.771 39.130 14.14 0.00 31.78 4.94
2086 2387 4.938226 TGTTTGCATATATGTGAACGTGGA 59.062 37.500 14.14 2.09 31.78 4.02
2087 2388 5.064579 TGTTTGCATATATGTGAACGTGGAG 59.935 40.000 14.14 0.00 31.78 3.86
2088 2389 3.130633 TGCATATATGTGAACGTGGAGC 58.869 45.455 14.14 0.00 0.00 4.70
2089 2390 3.130633 GCATATATGTGAACGTGGAGCA 58.869 45.455 14.14 0.00 0.00 4.26
2090 2391 3.559655 GCATATATGTGAACGTGGAGCAA 59.440 43.478 14.14 0.00 0.00 3.91
2091 2392 4.214119 GCATATATGTGAACGTGGAGCAAT 59.786 41.667 14.14 0.00 0.00 3.56
2092 2393 5.277974 GCATATATGTGAACGTGGAGCAATT 60.278 40.000 14.14 0.00 0.00 2.32
2093 2394 6.073276 GCATATATGTGAACGTGGAGCAATTA 60.073 38.462 14.14 0.00 0.00 1.40
2094 2395 5.991328 ATATGTGAACGTGGAGCAATTAG 57.009 39.130 0.00 0.00 0.00 1.73
2095 2396 3.394674 TGTGAACGTGGAGCAATTAGA 57.605 42.857 0.00 0.00 0.00 2.10
2096 2397 3.325870 TGTGAACGTGGAGCAATTAGAG 58.674 45.455 0.00 0.00 0.00 2.43
2097 2398 3.006430 TGTGAACGTGGAGCAATTAGAGA 59.994 43.478 0.00 0.00 0.00 3.10
2098 2399 4.184629 GTGAACGTGGAGCAATTAGAGAT 58.815 43.478 0.00 0.00 0.00 2.75
2099 2400 4.268884 GTGAACGTGGAGCAATTAGAGATC 59.731 45.833 0.00 0.00 0.00 2.75
2100 2401 4.160439 TGAACGTGGAGCAATTAGAGATCT 59.840 41.667 0.00 0.00 0.00 2.75
2101 2402 4.314740 ACGTGGAGCAATTAGAGATCTC 57.685 45.455 15.29 15.29 0.00 2.75
2290 2627 7.062605 CAGTTCATATTGCCATTGTTTTGACTC 59.937 37.037 0.00 0.00 0.00 3.36
2318 2655 2.443632 TGGTCACAAAATACACCAGGGA 59.556 45.455 0.00 0.00 33.83 4.20
2365 2702 3.430333 AACGGTGTTAGTTGGCAAAAG 57.570 42.857 0.00 0.00 0.00 2.27
2493 2832 8.470657 AATAAGGAATTCTCTCTTTATTGGGC 57.529 34.615 5.23 0.00 36.66 5.36
2494 2833 4.455606 AGGAATTCTCTCTTTATTGGGCG 58.544 43.478 5.23 0.00 0.00 6.13
2495 2834 3.565902 GGAATTCTCTCTTTATTGGGCGG 59.434 47.826 5.23 0.00 0.00 6.13
2496 2835 2.710096 TTCTCTCTTTATTGGGCGGG 57.290 50.000 0.00 0.00 0.00 6.13
2497 2836 0.180406 TCTCTCTTTATTGGGCGGGC 59.820 55.000 0.00 0.00 0.00 6.13
2498 2837 1.153249 TCTCTTTATTGGGCGGGCG 60.153 57.895 0.00 0.00 0.00 6.13
2499 2838 2.124487 TCTTTATTGGGCGGGCGG 60.124 61.111 0.00 0.00 0.00 6.13
2500 2839 3.216292 CTTTATTGGGCGGGCGGG 61.216 66.667 0.00 0.00 0.00 6.13
2513 2852 4.162690 GCGGGCTGGAGACGGAAT 62.163 66.667 0.00 0.00 39.98 3.01
2514 2853 2.107141 CGGGCTGGAGACGGAATC 59.893 66.667 0.00 0.00 39.98 2.52
2515 2854 2.107141 GGGCTGGAGACGGAATCG 59.893 66.667 0.00 0.00 39.98 3.34
2516 2855 2.423898 GGGCTGGAGACGGAATCGA 61.424 63.158 0.00 0.00 39.98 3.59
2517 2856 1.515954 GGCTGGAGACGGAATCGAA 59.484 57.895 0.00 0.00 39.98 3.71
2518 2857 0.528684 GGCTGGAGACGGAATCGAAG 60.529 60.000 0.00 0.00 39.98 3.79
2519 2858 0.173708 GCTGGAGACGGAATCGAAGT 59.826 55.000 0.00 0.00 39.98 3.01
2520 2859 1.914634 CTGGAGACGGAATCGAAGTG 58.085 55.000 0.00 0.00 39.98 3.16
2521 2860 1.472878 CTGGAGACGGAATCGAAGTGA 59.527 52.381 0.00 0.00 39.98 3.41
2522 2861 2.099921 CTGGAGACGGAATCGAAGTGAT 59.900 50.000 0.00 0.00 39.98 3.06
2523 2862 2.159240 TGGAGACGGAATCGAAGTGATG 60.159 50.000 0.00 0.00 37.39 3.07
2524 2863 2.159226 GGAGACGGAATCGAAGTGATGT 60.159 50.000 0.00 0.00 37.39 3.06
2525 2864 3.109619 GAGACGGAATCGAAGTGATGTC 58.890 50.000 0.00 0.00 37.39 3.06
2526 2865 2.492088 AGACGGAATCGAAGTGATGTCA 59.508 45.455 0.00 0.00 37.39 3.58
2527 2866 2.854777 GACGGAATCGAAGTGATGTCAG 59.145 50.000 0.00 0.00 37.39 3.51
2528 2867 2.492088 ACGGAATCGAAGTGATGTCAGA 59.508 45.455 0.00 0.00 37.39 3.27
2529 2868 3.111838 CGGAATCGAAGTGATGTCAGAG 58.888 50.000 0.00 0.00 37.39 3.35
2530 2869 3.452474 GGAATCGAAGTGATGTCAGAGG 58.548 50.000 0.00 0.00 37.39 3.69
2531 2870 3.118956 GGAATCGAAGTGATGTCAGAGGT 60.119 47.826 0.00 0.00 37.39 3.85
2532 2871 3.516981 ATCGAAGTGATGTCAGAGGTG 57.483 47.619 0.00 0.00 35.45 4.00
2533 2872 2.514803 TCGAAGTGATGTCAGAGGTGA 58.485 47.619 0.00 0.00 0.00 4.02
2542 2881 3.450282 TCAGAGGTGACTTCCGGAA 57.550 52.632 17.73 17.73 44.43 4.30
2543 2882 1.712056 TCAGAGGTGACTTCCGGAAA 58.288 50.000 19.39 0.00 44.43 3.13
2544 2883 1.618837 TCAGAGGTGACTTCCGGAAAG 59.381 52.381 19.39 14.39 44.43 2.62
2545 2884 0.321996 AGAGGTGACTTCCGGAAAGC 59.678 55.000 19.39 13.22 44.43 3.51
2546 2885 0.034896 GAGGTGACTTCCGGAAAGCA 59.965 55.000 19.39 15.77 44.43 3.91
2547 2886 0.693049 AGGTGACTTCCGGAAAGCAT 59.307 50.000 19.39 3.90 37.44 3.79
2548 2887 0.804989 GGTGACTTCCGGAAAGCATG 59.195 55.000 19.39 8.63 38.67 4.06
2549 2888 1.610624 GGTGACTTCCGGAAAGCATGA 60.611 52.381 19.39 0.00 38.67 3.07
2550 2889 2.151202 GTGACTTCCGGAAAGCATGAA 58.849 47.619 19.39 0.00 38.67 2.57
2551 2890 2.160417 GTGACTTCCGGAAAGCATGAAG 59.840 50.000 19.39 6.14 38.67 3.02
2552 2891 1.740025 GACTTCCGGAAAGCATGAAGG 59.260 52.381 19.39 5.53 38.78 3.46
2553 2892 1.351017 ACTTCCGGAAAGCATGAAGGA 59.649 47.619 19.39 0.00 38.78 3.36
2554 2893 2.224769 ACTTCCGGAAAGCATGAAGGAA 60.225 45.455 19.39 0.62 38.78 3.36
2555 2894 2.577606 TCCGGAAAGCATGAAGGAAA 57.422 45.000 0.00 0.00 0.00 3.13
2556 2895 2.870175 TCCGGAAAGCATGAAGGAAAA 58.130 42.857 0.00 0.00 0.00 2.29
2557 2896 2.819608 TCCGGAAAGCATGAAGGAAAAG 59.180 45.455 0.00 0.00 0.00 2.27
2558 2897 2.094545 CCGGAAAGCATGAAGGAAAAGG 60.095 50.000 0.00 0.00 0.00 3.11
2559 2898 2.094545 CGGAAAGCATGAAGGAAAAGGG 60.095 50.000 0.00 0.00 0.00 3.95
2560 2899 2.234661 GGAAAGCATGAAGGAAAAGGGG 59.765 50.000 0.00 0.00 0.00 4.79
2561 2900 1.269958 AAGCATGAAGGAAAAGGGGC 58.730 50.000 0.00 0.00 0.00 5.80
2562 2901 0.114954 AGCATGAAGGAAAAGGGGCA 59.885 50.000 0.00 0.00 0.00 5.36
2563 2902 0.533951 GCATGAAGGAAAAGGGGCAG 59.466 55.000 0.00 0.00 0.00 4.85
2564 2903 1.892329 GCATGAAGGAAAAGGGGCAGA 60.892 52.381 0.00 0.00 0.00 4.26
2565 2904 2.097825 CATGAAGGAAAAGGGGCAGAG 58.902 52.381 0.00 0.00 0.00 3.35
2566 2905 0.251341 TGAAGGAAAAGGGGCAGAGC 60.251 55.000 0.00 0.00 0.00 4.09
2586 2925 3.676216 GTCGGCCGACCCAAATTT 58.324 55.556 41.88 0.00 39.08 1.82
2587 2926 1.211709 GTCGGCCGACCCAAATTTG 59.788 57.895 41.88 11.40 39.08 2.32
2596 2935 2.571231 CCAAATTTGGGCCGGTCG 59.429 61.111 26.87 1.10 44.70 4.79
2597 2936 2.571231 CAAATTTGGGCCGGTCGG 59.429 61.111 10.49 4.85 38.57 4.79
2598 2937 1.974343 CAAATTTGGGCCGGTCGGA 60.974 57.895 14.15 0.00 37.50 4.55
2599 2938 1.677633 AAATTTGGGCCGGTCGGAG 60.678 57.895 14.15 0.00 37.50 4.63
2600 2939 4.796495 ATTTGGGCCGGTCGGAGC 62.796 66.667 14.15 0.00 37.50 4.70
2625 2964 2.350899 CAACTGATTTGGCGCAATCA 57.649 45.000 18.74 18.74 0.00 2.57
2626 2965 2.256174 CAACTGATTTGGCGCAATCAG 58.744 47.619 32.62 32.62 44.33 2.90
2627 2966 0.171903 ACTGATTTGGCGCAATCAGC 59.828 50.000 33.50 10.73 43.02 4.26
2635 2974 2.586079 CGCAATCAGCCGTCCGAT 60.586 61.111 0.00 0.00 41.38 4.18
2636 2975 2.589492 CGCAATCAGCCGTCCGATC 61.589 63.158 0.00 0.00 41.38 3.69
2637 2976 1.227380 GCAATCAGCCGTCCGATCT 60.227 57.895 0.00 0.00 37.23 2.75
2638 2977 0.032130 GCAATCAGCCGTCCGATCTA 59.968 55.000 0.00 0.00 37.23 1.98
2639 2978 1.932604 GCAATCAGCCGTCCGATCTAG 60.933 57.143 0.00 0.00 37.23 2.43
2640 2979 0.315568 AATCAGCCGTCCGATCTAGC 59.684 55.000 0.00 0.00 0.00 3.42
2641 2980 1.528292 ATCAGCCGTCCGATCTAGCC 61.528 60.000 0.00 0.00 0.00 3.93
2642 2981 2.913060 AGCCGTCCGATCTAGCCC 60.913 66.667 0.00 0.00 0.00 5.19
2643 2982 4.344474 GCCGTCCGATCTAGCCCG 62.344 72.222 0.00 0.00 0.00 6.13
2644 2983 2.905880 CCGTCCGATCTAGCCCGT 60.906 66.667 0.00 0.00 0.00 5.28
2645 2984 2.331805 CGTCCGATCTAGCCCGTG 59.668 66.667 0.00 0.00 0.00 4.94
2646 2985 2.478890 CGTCCGATCTAGCCCGTGT 61.479 63.158 0.00 0.00 0.00 4.49
2647 2986 1.065928 GTCCGATCTAGCCCGTGTG 59.934 63.158 0.00 0.00 0.00 3.82
2648 2987 2.279517 CCGATCTAGCCCGTGTGC 60.280 66.667 0.00 0.00 0.00 4.57
2649 2988 2.786495 CCGATCTAGCCCGTGTGCT 61.786 63.158 0.00 0.00 45.38 4.40
2650 2989 1.141881 CGATCTAGCCCGTGTGCTT 59.858 57.895 0.00 0.00 42.75 3.91
2651 2990 0.872021 CGATCTAGCCCGTGTGCTTC 60.872 60.000 0.00 0.00 42.75 3.86
2652 2991 0.461961 GATCTAGCCCGTGTGCTTCT 59.538 55.000 0.00 0.00 42.75 2.85
2653 2992 0.905357 ATCTAGCCCGTGTGCTTCTT 59.095 50.000 0.00 0.00 42.75 2.52
2654 2993 0.037326 TCTAGCCCGTGTGCTTCTTG 60.037 55.000 0.00 0.00 42.75 3.02
2655 2994 0.320771 CTAGCCCGTGTGCTTCTTGT 60.321 55.000 0.00 0.00 42.75 3.16
2656 2995 0.320421 TAGCCCGTGTGCTTCTTGTC 60.320 55.000 0.00 0.00 42.75 3.18
2657 2996 1.598130 GCCCGTGTGCTTCTTGTCT 60.598 57.895 0.00 0.00 0.00 3.41
2658 2997 1.166531 GCCCGTGTGCTTCTTGTCTT 61.167 55.000 0.00 0.00 0.00 3.01
2659 2998 0.868406 CCCGTGTGCTTCTTGTCTTC 59.132 55.000 0.00 0.00 0.00 2.87
2660 2999 0.868406 CCGTGTGCTTCTTGTCTTCC 59.132 55.000 0.00 0.00 0.00 3.46
2661 3000 0.508641 CGTGTGCTTCTTGTCTTCCG 59.491 55.000 0.00 0.00 0.00 4.30
2662 3001 0.235926 GTGTGCTTCTTGTCTTCCGC 59.764 55.000 0.00 0.00 0.00 5.54
2663 3002 0.179059 TGTGCTTCTTGTCTTCCGCA 60.179 50.000 0.00 0.00 0.00 5.69
2664 3003 0.944386 GTGCTTCTTGTCTTCCGCAA 59.056 50.000 0.00 0.00 0.00 4.85
2665 3004 0.944386 TGCTTCTTGTCTTCCGCAAC 59.056 50.000 0.00 0.00 0.00 4.17
2666 3005 0.944386 GCTTCTTGTCTTCCGCAACA 59.056 50.000 0.00 0.00 0.00 3.33
2667 3006 1.333619 GCTTCTTGTCTTCCGCAACAA 59.666 47.619 0.00 0.00 34.41 2.83
2668 3007 2.854805 GCTTCTTGTCTTCCGCAACAAC 60.855 50.000 0.00 0.00 32.28 3.32
2669 3008 0.934496 TCTTGTCTTCCGCAACAACG 59.066 50.000 0.00 0.00 32.28 4.10
2670 3009 0.655733 CTTGTCTTCCGCAACAACGT 59.344 50.000 0.00 0.00 32.28 3.99
2671 3010 1.862201 CTTGTCTTCCGCAACAACGTA 59.138 47.619 0.00 0.00 32.28 3.57
2672 3011 1.493772 TGTCTTCCGCAACAACGTAG 58.506 50.000 0.00 0.00 0.00 3.51
2673 3012 0.163146 GTCTTCCGCAACAACGTAGC 59.837 55.000 0.00 0.00 0.00 3.58
2674 3013 0.032952 TCTTCCGCAACAACGTAGCT 59.967 50.000 0.00 0.00 0.00 3.32
2675 3014 0.865769 CTTCCGCAACAACGTAGCTT 59.134 50.000 0.00 0.00 0.00 3.74
2676 3015 0.863144 TTCCGCAACAACGTAGCTTC 59.137 50.000 0.00 0.00 0.00 3.86
2677 3016 0.947180 TCCGCAACAACGTAGCTTCC 60.947 55.000 0.00 0.00 0.00 3.46
2678 3017 0.949105 CCGCAACAACGTAGCTTCCT 60.949 55.000 0.00 0.00 0.00 3.36
2679 3018 0.163788 CGCAACAACGTAGCTTCCTG 59.836 55.000 0.00 0.00 0.00 3.86
2680 3019 0.110192 GCAACAACGTAGCTTCCTGC 60.110 55.000 0.00 0.00 43.29 4.85
2681 3020 0.517316 CAACAACGTAGCTTCCTGCC 59.483 55.000 0.00 0.00 44.23 4.85
2682 3021 0.949105 AACAACGTAGCTTCCTGCCG 60.949 55.000 0.00 0.00 44.23 5.69
2683 3022 2.100631 CAACGTAGCTTCCTGCCGG 61.101 63.158 0.00 0.00 44.23 6.13
2684 3023 2.580601 AACGTAGCTTCCTGCCGGT 61.581 57.895 1.90 0.00 44.23 5.28
2685 3024 2.202756 CGTAGCTTCCTGCCGGTC 60.203 66.667 1.90 0.00 44.23 4.79
2686 3025 2.978824 GTAGCTTCCTGCCGGTCA 59.021 61.111 1.90 0.00 44.23 4.02
2687 3026 1.295423 GTAGCTTCCTGCCGGTCAA 59.705 57.895 1.90 0.00 44.23 3.18
2688 3027 0.321298 GTAGCTTCCTGCCGGTCAAA 60.321 55.000 1.90 0.00 44.23 2.69
2689 3028 0.036388 TAGCTTCCTGCCGGTCAAAG 60.036 55.000 1.90 4.77 44.23 2.77
2690 3029 1.302511 GCTTCCTGCCGGTCAAAGA 60.303 57.895 1.90 0.00 35.15 2.52
2691 3030 0.889186 GCTTCCTGCCGGTCAAAGAA 60.889 55.000 1.90 7.01 35.15 2.52
2692 3031 1.604604 CTTCCTGCCGGTCAAAGAAA 58.395 50.000 1.90 0.00 0.00 2.52
2693 3032 1.953686 CTTCCTGCCGGTCAAAGAAAA 59.046 47.619 1.90 0.00 0.00 2.29
2694 3033 2.060050 TCCTGCCGGTCAAAGAAAAA 57.940 45.000 1.90 0.00 0.00 1.94
2713 3052 3.317603 AAACAATGCAATTTCCCCTCG 57.682 42.857 0.00 0.00 31.22 4.63
2714 3053 2.214376 ACAATGCAATTTCCCCTCGA 57.786 45.000 0.00 0.00 31.22 4.04
2715 3054 2.094675 ACAATGCAATTTCCCCTCGAG 58.905 47.619 5.13 5.13 31.22 4.04
2716 3055 2.290896 ACAATGCAATTTCCCCTCGAGA 60.291 45.455 15.71 0.00 31.22 4.04
2717 3056 2.754552 CAATGCAATTTCCCCTCGAGAA 59.245 45.455 15.71 0.00 31.22 2.87
2718 3057 1.821216 TGCAATTTCCCCTCGAGAAC 58.179 50.000 15.71 0.00 0.00 3.01
2719 3058 0.727398 GCAATTTCCCCTCGAGAACG 59.273 55.000 15.71 0.06 41.26 3.95
2720 3059 0.727398 CAATTTCCCCTCGAGAACGC 59.273 55.000 15.71 0.00 39.58 4.84
2721 3060 0.392595 AATTTCCCCTCGAGAACGCC 60.393 55.000 15.71 0.00 39.58 5.68
2722 3061 1.550130 ATTTCCCCTCGAGAACGCCA 61.550 55.000 15.71 0.00 39.58 5.69
2723 3062 2.444700 TTTCCCCTCGAGAACGCCAC 62.445 60.000 15.71 0.00 39.58 5.01
2724 3063 3.691342 CCCCTCGAGAACGCCACA 61.691 66.667 15.71 0.00 39.58 4.17
2725 3064 2.432628 CCCTCGAGAACGCCACAC 60.433 66.667 15.71 0.00 39.58 3.82
2726 3065 2.651361 CCTCGAGAACGCCACACT 59.349 61.111 15.71 0.00 39.58 3.55
2727 3066 1.444553 CCTCGAGAACGCCACACTC 60.445 63.158 15.71 0.00 39.58 3.51
2729 3068 3.470567 CGAGAACGCCACACTCGC 61.471 66.667 0.00 0.00 44.67 5.03
2730 3069 2.049063 GAGAACGCCACACTCGCT 60.049 61.111 0.00 0.00 0.00 4.93
2731 3070 2.356313 AGAACGCCACACTCGCTG 60.356 61.111 0.00 0.00 0.00 5.18
2732 3071 3.414700 GAACGCCACACTCGCTGG 61.415 66.667 0.00 0.00 0.00 4.85
2733 3072 4.988598 AACGCCACACTCGCTGGG 62.989 66.667 0.00 0.00 0.00 4.45
2737 3076 3.636231 CCACACTCGCTGGGGGAA 61.636 66.667 0.00 0.00 40.31 3.97
2738 3077 2.429930 CACACTCGCTGGGGGAAA 59.570 61.111 0.00 0.00 0.00 3.13
2739 3078 1.002134 CACACTCGCTGGGGGAAAT 60.002 57.895 0.00 0.00 0.00 2.17
2740 3079 0.609131 CACACTCGCTGGGGGAAATT 60.609 55.000 0.00 0.00 0.00 1.82
2741 3080 0.609131 ACACTCGCTGGGGGAAATTG 60.609 55.000 0.00 0.00 0.00 2.32
2742 3081 1.000896 ACTCGCTGGGGGAAATTGG 60.001 57.895 0.00 0.00 0.00 3.16
2743 3082 1.754234 CTCGCTGGGGGAAATTGGG 60.754 63.158 0.00 0.00 0.00 4.12
2744 3083 2.210144 CTCGCTGGGGGAAATTGGGA 62.210 60.000 0.00 0.00 0.00 4.37
2745 3084 1.754234 CGCTGGGGGAAATTGGGAG 60.754 63.158 0.00 0.00 0.00 4.30
2746 3085 2.060383 GCTGGGGGAAATTGGGAGC 61.060 63.158 0.00 0.00 0.00 4.70
2747 3086 1.754234 CTGGGGGAAATTGGGAGCG 60.754 63.158 0.00 0.00 0.00 5.03
2748 3087 2.442087 GGGGGAAATTGGGAGCGG 60.442 66.667 0.00 0.00 0.00 5.52
2749 3088 2.442087 GGGGAAATTGGGAGCGGG 60.442 66.667 0.00 0.00 0.00 6.13
2750 3089 2.442087 GGGAAATTGGGAGCGGGG 60.442 66.667 0.00 0.00 0.00 5.73
2751 3090 2.359011 GGAAATTGGGAGCGGGGT 59.641 61.111 0.00 0.00 0.00 4.95
2752 3091 2.052104 GGAAATTGGGAGCGGGGTG 61.052 63.158 0.00 0.00 0.00 4.61
2753 3092 2.037208 AAATTGGGAGCGGGGTGG 59.963 61.111 0.00 0.00 0.00 4.61
2754 3093 4.759205 AATTGGGAGCGGGGTGGC 62.759 66.667 0.00 0.00 0.00 5.01
2766 3105 2.282180 GGTGGCCACCGACAATGT 60.282 61.111 38.35 0.00 42.29 2.71
2767 3106 2.625823 GGTGGCCACCGACAATGTG 61.626 63.158 38.35 0.00 42.29 3.21
2785 3124 3.637273 GGGGGAGAACGGCTGTGT 61.637 66.667 0.00 0.00 0.00 3.72
2786 3125 2.358737 GGGGAGAACGGCTGTGTG 60.359 66.667 0.00 0.00 0.00 3.82
2787 3126 2.358737 GGGAGAACGGCTGTGTGG 60.359 66.667 0.00 0.00 0.00 4.17
2788 3127 2.358737 GGAGAACGGCTGTGTGGG 60.359 66.667 0.00 0.00 0.00 4.61
2789 3128 2.741092 GAGAACGGCTGTGTGGGA 59.259 61.111 0.00 0.00 0.00 4.37
2790 3129 1.374758 GAGAACGGCTGTGTGGGAG 60.375 63.158 0.00 0.00 0.00 4.30
2791 3130 2.358737 GAACGGCTGTGTGGGAGG 60.359 66.667 0.00 0.00 0.00 4.30
2792 3131 2.847234 AACGGCTGTGTGGGAGGA 60.847 61.111 0.00 0.00 0.00 3.71
2793 3132 2.788191 GAACGGCTGTGTGGGAGGAG 62.788 65.000 0.00 0.00 0.00 3.69
2794 3133 4.087892 CGGCTGTGTGGGAGGAGG 62.088 72.222 0.00 0.00 0.00 4.30
2795 3134 2.607750 GGCTGTGTGGGAGGAGGA 60.608 66.667 0.00 0.00 0.00 3.71
2796 3135 2.664081 GGCTGTGTGGGAGGAGGAG 61.664 68.421 0.00 0.00 0.00 3.69
2797 3136 1.915769 GCTGTGTGGGAGGAGGAGT 60.916 63.158 0.00 0.00 0.00 3.85
2798 3137 1.978473 CTGTGTGGGAGGAGGAGTG 59.022 63.158 0.00 0.00 0.00 3.51
2799 3138 1.536418 TGTGTGGGAGGAGGAGTGG 60.536 63.158 0.00 0.00 0.00 4.00
2800 3139 2.122729 TGTGGGAGGAGGAGTGGG 59.877 66.667 0.00 0.00 0.00 4.61
2801 3140 2.689034 GTGGGAGGAGGAGTGGGG 60.689 72.222 0.00 0.00 0.00 4.96
2802 3141 2.874245 TGGGAGGAGGAGTGGGGA 60.874 66.667 0.00 0.00 0.00 4.81
2803 3142 2.454941 GGGAGGAGGAGTGGGGAA 59.545 66.667 0.00 0.00 0.00 3.97
2804 3143 1.690985 GGGAGGAGGAGTGGGGAAG 60.691 68.421 0.00 0.00 0.00 3.46
2805 3144 1.392534 GGAGGAGGAGTGGGGAAGA 59.607 63.158 0.00 0.00 0.00 2.87
2806 3145 0.689412 GGAGGAGGAGTGGGGAAGAG 60.689 65.000 0.00 0.00 0.00 2.85
2807 3146 0.689412 GAGGAGGAGTGGGGAAGAGG 60.689 65.000 0.00 0.00 0.00 3.69
2808 3147 1.690985 GGAGGAGTGGGGAAGAGGG 60.691 68.421 0.00 0.00 0.00 4.30
2809 3148 1.690985 GAGGAGTGGGGAAGAGGGG 60.691 68.421 0.00 0.00 0.00 4.79
2810 3149 2.182858 GAGGAGTGGGGAAGAGGGGA 62.183 65.000 0.00 0.00 0.00 4.81
2811 3150 1.004891 GGAGTGGGGAAGAGGGGAT 59.995 63.158 0.00 0.00 0.00 3.85
2812 3151 0.267960 GGAGTGGGGAAGAGGGGATA 59.732 60.000 0.00 0.00 0.00 2.59
2813 3152 1.345112 GGAGTGGGGAAGAGGGGATAA 60.345 57.143 0.00 0.00 0.00 1.75
2814 3153 2.050918 GAGTGGGGAAGAGGGGATAAG 58.949 57.143 0.00 0.00 0.00 1.73
2815 3154 1.141185 GTGGGGAAGAGGGGATAAGG 58.859 60.000 0.00 0.00 0.00 2.69
2816 3155 0.029059 TGGGGAAGAGGGGATAAGGG 60.029 60.000 0.00 0.00 0.00 3.95
2817 3156 1.427895 GGGGAAGAGGGGATAAGGGC 61.428 65.000 0.00 0.00 0.00 5.19
2818 3157 1.755384 GGAAGAGGGGATAAGGGCG 59.245 63.158 0.00 0.00 0.00 6.13
2819 3158 1.054978 GGAAGAGGGGATAAGGGCGT 61.055 60.000 0.00 0.00 0.00 5.68
2820 3159 0.393448 GAAGAGGGGATAAGGGCGTC 59.607 60.000 0.00 0.00 0.00 5.19
2821 3160 0.031010 AAGAGGGGATAAGGGCGTCT 60.031 55.000 0.00 0.00 0.00 4.18
2822 3161 0.760945 AGAGGGGATAAGGGCGTCTG 60.761 60.000 0.00 0.00 0.00 3.51
2823 3162 2.111251 GGGGATAAGGGCGTCTGC 59.889 66.667 0.00 0.00 41.71 4.26
2824 3163 2.280186 GGGATAAGGGCGTCTGCG 60.280 66.667 0.00 0.00 44.10 5.18
2825 3164 2.280186 GGATAAGGGCGTCTGCGG 60.280 66.667 0.00 0.00 44.10 5.69
2826 3165 2.280186 GATAAGGGCGTCTGCGGG 60.280 66.667 0.00 0.00 44.10 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 2.101783 TGATGTTGATTCCATGGTGCC 58.898 47.619 12.58 2.40 0.00 5.01
141 142 6.459923 TCAATTTGTGCCTTAAAACCATACC 58.540 36.000 0.00 0.00 0.00 2.73
146 147 5.820423 ACCTTTCAATTTGTGCCTTAAAACC 59.180 36.000 0.00 0.00 0.00 3.27
356 357 1.194121 TGAGTAAGCAGCAGCCCAGA 61.194 55.000 0.00 0.00 43.56 3.86
357 358 0.107312 ATGAGTAAGCAGCAGCCCAG 60.107 55.000 0.00 0.00 43.56 4.45
414 674 2.076863 GACGTTGGCTTTGCTATGTCT 58.923 47.619 0.00 0.00 31.64 3.41
433 693 5.532406 GCCACTTCCTAAGATATGCAATTGA 59.468 40.000 10.34 0.00 0.00 2.57
437 697 4.199310 GTGCCACTTCCTAAGATATGCAA 58.801 43.478 0.00 0.00 0.00 4.08
623 883 7.603180 AATTTTCTTGCTACCTTTCTCCTTT 57.397 32.000 0.00 0.00 0.00 3.11
645 905 4.610333 GGGGAAGAATCAACCCAACTAAT 58.390 43.478 14.52 0.00 44.87 1.73
728 988 5.227908 CGGTTACTTCAGCAACTTCTTCTA 58.772 41.667 0.00 0.00 0.00 2.10
798 1058 5.630121 TCCCATTGTCTACAAGAACATGTT 58.370 37.500 11.78 11.78 39.47 2.71
822 1082 0.827507 TGCAAGGAAGGCCAGAAACC 60.828 55.000 5.01 0.01 36.29 3.27
975 1237 6.953520 TGAAGAATCCATGGTTTGATTTAGGT 59.046 34.615 12.87 0.00 31.56 3.08
1086 1348 4.339748 TGCAAATAGGGCATAAGTGTTGA 58.660 39.130 0.00 0.00 36.11 3.18
1311 1578 0.109597 CCTCGCAAGGCACAATTGAC 60.110 55.000 13.59 3.47 35.37 3.18
1358 1625 1.036707 GGTTGTTGCTAACCTTGGCA 58.963 50.000 9.81 0.00 45.29 4.92
1465 1732 6.267699 CAGATTTACCACCTTTCCCTTTTTCT 59.732 38.462 0.00 0.00 0.00 2.52
1802 2097 5.296780 TCACAAACTAAGTCTCCTTTTGCTG 59.703 40.000 0.00 0.00 31.89 4.41
1973 2271 7.889589 TCACATAAAGATGACATAATAGCCG 57.110 36.000 0.00 0.00 36.48 5.52
2041 2342 3.861846 TCCCACATAGCTGGTCATCTAT 58.138 45.455 0.00 0.00 0.00 1.98
2082 2383 4.545610 CTCGAGATCTCTAATTGCTCCAC 58.454 47.826 20.26 0.00 0.00 4.02
2085 2386 4.235939 TGCTCGAGATCTCTAATTGCTC 57.764 45.455 18.75 0.00 0.00 4.26
2086 2387 4.662468 TTGCTCGAGATCTCTAATTGCT 57.338 40.909 18.75 0.00 0.00 3.91
2087 2388 5.921004 AATTGCTCGAGATCTCTAATTGC 57.079 39.130 18.75 15.49 0.00 3.56
2088 2389 8.433893 CACATAATTGCTCGAGATCTCTAATTG 58.566 37.037 18.75 12.45 0.00 2.32
2089 2390 8.147058 ACACATAATTGCTCGAGATCTCTAATT 58.853 33.333 18.75 19.47 0.00 1.40
2090 2391 7.598118 CACACATAATTGCTCGAGATCTCTAAT 59.402 37.037 18.75 11.93 0.00 1.73
2091 2392 6.920210 CACACATAATTGCTCGAGATCTCTAA 59.080 38.462 18.75 10.32 0.00 2.10
2092 2393 6.039829 ACACACATAATTGCTCGAGATCTCTA 59.960 38.462 18.75 8.96 0.00 2.43
2093 2394 5.163468 ACACACATAATTGCTCGAGATCTCT 60.163 40.000 18.75 2.52 0.00 3.10
2094 2395 5.046529 ACACACATAATTGCTCGAGATCTC 58.953 41.667 18.75 13.05 0.00 2.75
2095 2396 5.016051 ACACACATAATTGCTCGAGATCT 57.984 39.130 18.75 0.00 0.00 2.75
2096 2397 5.725110 AACACACATAATTGCTCGAGATC 57.275 39.130 18.75 0.00 0.00 2.75
2097 2398 6.500684 AAAACACACATAATTGCTCGAGAT 57.499 33.333 18.75 0.00 0.00 2.75
2098 2399 5.940192 AAAACACACATAATTGCTCGAGA 57.060 34.783 18.75 0.00 0.00 4.04
2496 2835 4.162690 ATTCCGTCTCCAGCCCGC 62.163 66.667 0.00 0.00 0.00 6.13
2497 2836 2.107141 GATTCCGTCTCCAGCCCG 59.893 66.667 0.00 0.00 0.00 6.13
2498 2837 1.956629 TTCGATTCCGTCTCCAGCCC 61.957 60.000 0.00 0.00 37.05 5.19
2499 2838 0.528684 CTTCGATTCCGTCTCCAGCC 60.529 60.000 0.00 0.00 37.05 4.85
2500 2839 0.173708 ACTTCGATTCCGTCTCCAGC 59.826 55.000 0.00 0.00 37.05 4.85
2501 2840 1.472878 TCACTTCGATTCCGTCTCCAG 59.527 52.381 0.00 0.00 37.05 3.86
2502 2841 1.541379 TCACTTCGATTCCGTCTCCA 58.459 50.000 0.00 0.00 37.05 3.86
2503 2842 2.159226 ACATCACTTCGATTCCGTCTCC 60.159 50.000 0.00 0.00 37.05 3.71
2504 2843 3.109619 GACATCACTTCGATTCCGTCTC 58.890 50.000 0.00 0.00 37.05 3.36
2505 2844 2.492088 TGACATCACTTCGATTCCGTCT 59.508 45.455 0.00 0.00 37.05 4.18
2506 2845 2.854777 CTGACATCACTTCGATTCCGTC 59.145 50.000 0.00 0.00 37.05 4.79
2507 2846 2.492088 TCTGACATCACTTCGATTCCGT 59.508 45.455 0.00 0.00 37.05 4.69
2508 2847 3.111838 CTCTGACATCACTTCGATTCCG 58.888 50.000 0.00 0.00 29.21 4.30
2509 2848 3.118956 ACCTCTGACATCACTTCGATTCC 60.119 47.826 0.00 0.00 29.21 3.01
2510 2849 3.862267 CACCTCTGACATCACTTCGATTC 59.138 47.826 0.00 0.00 29.21 2.52
2511 2850 3.511540 TCACCTCTGACATCACTTCGATT 59.488 43.478 0.00 0.00 29.21 3.34
2512 2851 3.092301 TCACCTCTGACATCACTTCGAT 58.908 45.455 0.00 0.00 33.27 3.59
2513 2852 2.229062 GTCACCTCTGACATCACTTCGA 59.771 50.000 0.00 0.00 45.57 3.71
2514 2853 2.600731 GTCACCTCTGACATCACTTCG 58.399 52.381 0.00 0.00 45.57 3.79
2523 2862 0.966920 TTCCGGAAGTCACCTCTGAC 59.033 55.000 14.35 0.00 46.50 3.51
2524 2863 1.618837 CTTTCCGGAAGTCACCTCTGA 59.381 52.381 17.97 0.00 0.00 3.27
2525 2864 1.941668 GCTTTCCGGAAGTCACCTCTG 60.942 57.143 17.97 2.13 37.69 3.35
2526 2865 0.321996 GCTTTCCGGAAGTCACCTCT 59.678 55.000 17.97 0.00 37.69 3.69
2527 2866 0.034896 TGCTTTCCGGAAGTCACCTC 59.965 55.000 17.97 3.59 37.69 3.85
2528 2867 0.693049 ATGCTTTCCGGAAGTCACCT 59.307 50.000 17.97 2.84 37.69 4.00
2529 2868 0.804989 CATGCTTTCCGGAAGTCACC 59.195 55.000 17.97 5.91 37.69 4.02
2530 2869 1.808411 TCATGCTTTCCGGAAGTCAC 58.192 50.000 17.97 8.76 37.69 3.67
2531 2870 2.426522 CTTCATGCTTTCCGGAAGTCA 58.573 47.619 17.97 18.38 37.69 3.41
2532 2871 1.740025 CCTTCATGCTTTCCGGAAGTC 59.260 52.381 17.97 13.30 37.69 3.01
2533 2872 1.351017 TCCTTCATGCTTTCCGGAAGT 59.649 47.619 17.97 2.33 37.69 3.01
2534 2873 2.113860 TCCTTCATGCTTTCCGGAAG 57.886 50.000 17.97 12.59 37.18 3.46
2535 2874 2.577606 TTCCTTCATGCTTTCCGGAA 57.422 45.000 14.35 14.35 0.00 4.30
2536 2875 2.577606 TTTCCTTCATGCTTTCCGGA 57.422 45.000 0.00 0.00 0.00 5.14
2537 2876 2.094545 CCTTTTCCTTCATGCTTTCCGG 60.095 50.000 0.00 0.00 0.00 5.14
2538 2877 2.094545 CCCTTTTCCTTCATGCTTTCCG 60.095 50.000 0.00 0.00 0.00 4.30
2539 2878 2.234661 CCCCTTTTCCTTCATGCTTTCC 59.765 50.000 0.00 0.00 0.00 3.13
2540 2879 2.354103 GCCCCTTTTCCTTCATGCTTTC 60.354 50.000 0.00 0.00 0.00 2.62
2541 2880 1.625315 GCCCCTTTTCCTTCATGCTTT 59.375 47.619 0.00 0.00 0.00 3.51
2542 2881 1.269958 GCCCCTTTTCCTTCATGCTT 58.730 50.000 0.00 0.00 0.00 3.91
2543 2882 0.114954 TGCCCCTTTTCCTTCATGCT 59.885 50.000 0.00 0.00 0.00 3.79
2544 2883 0.533951 CTGCCCCTTTTCCTTCATGC 59.466 55.000 0.00 0.00 0.00 4.06
2545 2884 2.097825 CTCTGCCCCTTTTCCTTCATG 58.902 52.381 0.00 0.00 0.00 3.07
2546 2885 1.618074 GCTCTGCCCCTTTTCCTTCAT 60.618 52.381 0.00 0.00 0.00 2.57
2547 2886 0.251341 GCTCTGCCCCTTTTCCTTCA 60.251 55.000 0.00 0.00 0.00 3.02
2548 2887 0.967887 GGCTCTGCCCCTTTTCCTTC 60.968 60.000 0.00 0.00 44.06 3.46
2549 2888 1.077445 GGCTCTGCCCCTTTTCCTT 59.923 57.895 0.00 0.00 44.06 3.36
2550 2889 2.766660 GGCTCTGCCCCTTTTCCT 59.233 61.111 0.00 0.00 44.06 3.36
2569 2908 1.211709 CAAATTTGGGTCGGCCGAC 59.788 57.895 43.30 43.30 43.87 4.79
2570 2909 1.974343 CCAAATTTGGGTCGGCCGA 60.974 57.895 27.28 27.28 44.70 5.54
2571 2910 2.571231 CCAAATTTGGGTCGGCCG 59.429 61.111 26.87 22.12 44.70 6.13
2580 2919 1.933115 CTCCGACCGGCCCAAATTTG 61.933 60.000 11.40 11.40 34.68 2.32
2581 2920 1.677633 CTCCGACCGGCCCAAATTT 60.678 57.895 0.00 0.00 34.68 1.82
2582 2921 2.045340 CTCCGACCGGCCCAAATT 60.045 61.111 0.00 0.00 34.68 1.82
2583 2922 4.796495 GCTCCGACCGGCCCAAAT 62.796 66.667 0.00 0.00 34.68 2.32
2596 2935 1.589716 AAATCAGTTGGCTGCGCTCC 61.590 55.000 9.73 10.83 42.29 4.70
2597 2936 0.455633 CAAATCAGTTGGCTGCGCTC 60.456 55.000 9.73 0.00 42.29 5.03
2598 2937 1.582968 CAAATCAGTTGGCTGCGCT 59.417 52.632 9.73 0.00 42.29 5.92
2599 2938 4.157817 CAAATCAGTTGGCTGCGC 57.842 55.556 0.00 0.00 42.29 6.09
2606 2945 2.350899 TGATTGCGCCAAATCAGTTG 57.649 45.000 16.65 0.00 40.72 3.16
2610 2949 1.512230 GGCTGATTGCGCCAAATCA 59.488 52.632 18.74 18.74 46.77 2.57
2611 2950 4.407551 GGCTGATTGCGCCAAATC 57.592 55.556 4.18 9.36 46.77 2.17
2618 2957 2.586079 ATCGGACGGCTGATTGCG 60.586 61.111 6.81 0.00 44.05 4.85
2619 2958 0.032130 TAGATCGGACGGCTGATTGC 59.968 55.000 15.33 1.86 40.21 3.56
2620 2959 1.932604 GCTAGATCGGACGGCTGATTG 60.933 57.143 15.33 9.00 40.21 2.67
2621 2960 0.315568 GCTAGATCGGACGGCTGATT 59.684 55.000 15.33 7.00 40.21 2.57
2622 2961 1.528292 GGCTAGATCGGACGGCTGAT 61.528 60.000 13.87 13.87 42.79 2.90
2623 2962 2.194212 GGCTAGATCGGACGGCTGA 61.194 63.158 0.00 0.00 0.00 4.26
2624 2963 2.336809 GGCTAGATCGGACGGCTG 59.663 66.667 0.00 0.00 0.00 4.85
2625 2964 2.913060 GGGCTAGATCGGACGGCT 60.913 66.667 0.00 0.00 0.00 5.52
2626 2965 4.344474 CGGGCTAGATCGGACGGC 62.344 72.222 0.00 0.00 0.00 5.68
2627 2966 2.905880 ACGGGCTAGATCGGACGG 60.906 66.667 0.00 1.79 0.00 4.79
2628 2967 2.331805 CACGGGCTAGATCGGACG 59.668 66.667 0.00 0.00 0.00 4.79
2629 2968 1.065928 CACACGGGCTAGATCGGAC 59.934 63.158 0.00 0.00 0.00 4.79
2630 2969 2.782222 GCACACGGGCTAGATCGGA 61.782 63.158 0.00 0.00 0.00 4.55
2631 2970 2.279517 GCACACGGGCTAGATCGG 60.280 66.667 0.00 0.00 0.00 4.18
2632 2971 0.872021 GAAGCACACGGGCTAGATCG 60.872 60.000 0.00 0.00 45.07 3.69
2633 2972 0.461961 AGAAGCACACGGGCTAGATC 59.538 55.000 0.00 0.00 45.07 2.75
2634 2973 0.905357 AAGAAGCACACGGGCTAGAT 59.095 50.000 0.00 0.00 45.07 1.98
2635 2974 0.037326 CAAGAAGCACACGGGCTAGA 60.037 55.000 0.00 0.00 45.07 2.43
2636 2975 0.320771 ACAAGAAGCACACGGGCTAG 60.321 55.000 0.00 0.00 45.07 3.42
2637 2976 0.320421 GACAAGAAGCACACGGGCTA 60.320 55.000 0.00 0.00 45.07 3.93
2639 2978 1.166531 AAGACAAGAAGCACACGGGC 61.167 55.000 0.00 0.00 0.00 6.13
2640 2979 0.868406 GAAGACAAGAAGCACACGGG 59.132 55.000 0.00 0.00 0.00 5.28
2641 2980 0.868406 GGAAGACAAGAAGCACACGG 59.132 55.000 0.00 0.00 0.00 4.94
2642 2981 0.508641 CGGAAGACAAGAAGCACACG 59.491 55.000 0.00 0.00 0.00 4.49
2643 2982 0.235926 GCGGAAGACAAGAAGCACAC 59.764 55.000 0.00 0.00 0.00 3.82
2644 2983 0.179059 TGCGGAAGACAAGAAGCACA 60.179 50.000 0.00 0.00 0.00 4.57
2645 2984 0.944386 TTGCGGAAGACAAGAAGCAC 59.056 50.000 0.00 0.00 34.13 4.40
2646 2985 0.944386 GTTGCGGAAGACAAGAAGCA 59.056 50.000 0.00 0.00 0.00 3.91
2647 2986 0.944386 TGTTGCGGAAGACAAGAAGC 59.056 50.000 0.00 0.00 0.00 3.86
2648 2987 2.599848 CGTTGTTGCGGAAGACAAGAAG 60.600 50.000 0.00 0.00 36.52 2.85
2649 2988 1.329292 CGTTGTTGCGGAAGACAAGAA 59.671 47.619 0.00 0.00 36.52 2.52
2650 2989 0.934496 CGTTGTTGCGGAAGACAAGA 59.066 50.000 0.00 0.00 36.52 3.02
2651 2990 0.655733 ACGTTGTTGCGGAAGACAAG 59.344 50.000 0.00 0.00 36.52 3.16
2652 2991 1.862201 CTACGTTGTTGCGGAAGACAA 59.138 47.619 0.00 0.00 35.98 3.18
2653 2992 1.493772 CTACGTTGTTGCGGAAGACA 58.506 50.000 0.00 0.00 35.98 3.41
2654 2993 0.163146 GCTACGTTGTTGCGGAAGAC 59.837 55.000 0.00 0.00 35.98 3.01
2655 2994 0.032952 AGCTACGTTGTTGCGGAAGA 59.967 50.000 0.00 0.00 39.09 2.87
2656 2995 0.865769 AAGCTACGTTGTTGCGGAAG 59.134 50.000 0.00 0.00 39.09 3.46
2657 2996 0.863144 GAAGCTACGTTGTTGCGGAA 59.137 50.000 0.00 0.00 39.09 4.30
2658 2997 0.947180 GGAAGCTACGTTGTTGCGGA 60.947 55.000 0.00 0.00 39.09 5.54
2659 2998 0.949105 AGGAAGCTACGTTGTTGCGG 60.949 55.000 0.00 0.00 39.09 5.69
2660 2999 0.163788 CAGGAAGCTACGTTGTTGCG 59.836 55.000 0.00 0.00 39.09 4.85
2661 3000 0.110192 GCAGGAAGCTACGTTGTTGC 60.110 55.000 0.00 0.00 41.15 4.17
2662 3001 0.517316 GGCAGGAAGCTACGTTGTTG 59.483 55.000 0.00 0.00 44.79 3.33
2663 3002 0.949105 CGGCAGGAAGCTACGTTGTT 60.949 55.000 0.00 0.00 44.79 2.83
2664 3003 1.374252 CGGCAGGAAGCTACGTTGT 60.374 57.895 0.00 0.00 44.79 3.32
2665 3004 2.100631 CCGGCAGGAAGCTACGTTG 61.101 63.158 0.00 0.00 44.79 4.10
2666 3005 2.264794 CCGGCAGGAAGCTACGTT 59.735 61.111 0.00 0.00 44.79 3.99
2667 3006 2.995574 ACCGGCAGGAAGCTACGT 60.996 61.111 10.86 0.00 44.79 3.57
2668 3007 2.202756 GACCGGCAGGAAGCTACG 60.203 66.667 10.86 0.00 44.79 3.51
2669 3008 0.321298 TTTGACCGGCAGGAAGCTAC 60.321 55.000 10.86 0.00 44.79 3.58
2670 3009 0.036388 CTTTGACCGGCAGGAAGCTA 60.036 55.000 10.86 0.00 44.79 3.32
2671 3010 1.302832 CTTTGACCGGCAGGAAGCT 60.303 57.895 10.86 0.00 44.79 3.74
2672 3011 0.889186 TTCTTTGACCGGCAGGAAGC 60.889 55.000 10.86 0.00 41.02 3.86
2673 3012 1.604604 TTTCTTTGACCGGCAGGAAG 58.395 50.000 10.86 2.94 41.02 3.46
2674 3013 2.060050 TTTTCTTTGACCGGCAGGAA 57.940 45.000 10.86 6.79 41.02 3.36
2675 3014 2.060050 TTTTTCTTTGACCGGCAGGA 57.940 45.000 10.86 0.67 41.02 3.86
2691 3030 4.064388 CGAGGGGAAATTGCATTGTTTTT 58.936 39.130 0.00 0.00 0.00 1.94
2692 3031 3.323403 TCGAGGGGAAATTGCATTGTTTT 59.677 39.130 0.00 0.00 0.00 2.43
2693 3032 2.896685 TCGAGGGGAAATTGCATTGTTT 59.103 40.909 0.00 0.00 0.00 2.83
2694 3033 2.493278 CTCGAGGGGAAATTGCATTGTT 59.507 45.455 3.91 0.00 0.00 2.83
2695 3034 2.094675 CTCGAGGGGAAATTGCATTGT 58.905 47.619 3.91 0.00 0.00 2.71
2696 3035 2.368439 TCTCGAGGGGAAATTGCATTG 58.632 47.619 13.56 0.00 0.00 2.82
2697 3036 2.755103 GTTCTCGAGGGGAAATTGCATT 59.245 45.455 13.56 0.00 0.00 3.56
2698 3037 2.369394 GTTCTCGAGGGGAAATTGCAT 58.631 47.619 13.56 0.00 0.00 3.96
2699 3038 1.821216 GTTCTCGAGGGGAAATTGCA 58.179 50.000 13.56 0.00 0.00 4.08
2700 3039 0.727398 CGTTCTCGAGGGGAAATTGC 59.273 55.000 13.56 0.00 39.71 3.56
2701 3040 0.727398 GCGTTCTCGAGGGGAAATTG 59.273 55.000 13.56 0.00 39.71 2.32
2702 3041 0.392595 GGCGTTCTCGAGGGGAAATT 60.393 55.000 13.56 0.00 39.71 1.82
2703 3042 1.221021 GGCGTTCTCGAGGGGAAAT 59.779 57.895 13.56 0.00 39.71 2.17
2704 3043 2.211410 TGGCGTTCTCGAGGGGAAA 61.211 57.895 13.56 0.00 39.71 3.13
2705 3044 2.602267 TGGCGTTCTCGAGGGGAA 60.602 61.111 13.56 0.00 39.71 3.97
2706 3045 3.379445 GTGGCGTTCTCGAGGGGA 61.379 66.667 13.56 0.00 39.71 4.81
2707 3046 3.691342 TGTGGCGTTCTCGAGGGG 61.691 66.667 13.56 3.24 39.71 4.79
2708 3047 2.432628 GTGTGGCGTTCTCGAGGG 60.433 66.667 13.56 3.62 39.71 4.30
2709 3048 1.444553 GAGTGTGGCGTTCTCGAGG 60.445 63.158 13.56 0.00 39.71 4.63
2710 3049 4.154613 GAGTGTGGCGTTCTCGAG 57.845 61.111 5.93 5.93 39.71 4.04
2713 3052 2.049063 AGCGAGTGTGGCGTTCTC 60.049 61.111 0.00 0.00 35.00 2.87
2714 3053 2.356313 CAGCGAGTGTGGCGTTCT 60.356 61.111 0.00 0.00 35.00 3.01
2715 3054 3.414700 CCAGCGAGTGTGGCGTTC 61.415 66.667 0.00 0.00 35.00 3.95
2716 3055 4.988598 CCCAGCGAGTGTGGCGTT 62.989 66.667 0.00 0.00 33.24 4.84
2720 3059 2.484287 ATTTCCCCCAGCGAGTGTGG 62.484 60.000 0.00 0.00 34.52 4.17
2721 3060 0.609131 AATTTCCCCCAGCGAGTGTG 60.609 55.000 0.00 0.00 0.00 3.82
2722 3061 0.609131 CAATTTCCCCCAGCGAGTGT 60.609 55.000 0.00 0.00 0.00 3.55
2723 3062 1.315257 CCAATTTCCCCCAGCGAGTG 61.315 60.000 0.00 0.00 0.00 3.51
2724 3063 1.000896 CCAATTTCCCCCAGCGAGT 60.001 57.895 0.00 0.00 0.00 4.18
2725 3064 1.754234 CCCAATTTCCCCCAGCGAG 60.754 63.158 0.00 0.00 0.00 5.03
2726 3065 2.210144 CTCCCAATTTCCCCCAGCGA 62.210 60.000 0.00 0.00 0.00 4.93
2727 3066 1.754234 CTCCCAATTTCCCCCAGCG 60.754 63.158 0.00 0.00 0.00 5.18
2728 3067 2.060383 GCTCCCAATTTCCCCCAGC 61.060 63.158 0.00 0.00 0.00 4.85
2729 3068 1.754234 CGCTCCCAATTTCCCCCAG 60.754 63.158 0.00 0.00 0.00 4.45
2730 3069 2.358619 CGCTCCCAATTTCCCCCA 59.641 61.111 0.00 0.00 0.00 4.96
2731 3070 2.442087 CCGCTCCCAATTTCCCCC 60.442 66.667 0.00 0.00 0.00 5.40
2732 3071 2.442087 CCCGCTCCCAATTTCCCC 60.442 66.667 0.00 0.00 0.00 4.81
2733 3072 2.442087 CCCCGCTCCCAATTTCCC 60.442 66.667 0.00 0.00 0.00 3.97
2734 3073 2.052104 CACCCCGCTCCCAATTTCC 61.052 63.158 0.00 0.00 0.00 3.13
2735 3074 2.052104 CCACCCCGCTCCCAATTTC 61.052 63.158 0.00 0.00 0.00 2.17
2736 3075 2.037208 CCACCCCGCTCCCAATTT 59.963 61.111 0.00 0.00 0.00 1.82
2737 3076 4.759205 GCCACCCCGCTCCCAATT 62.759 66.667 0.00 0.00 0.00 2.32
2750 3089 2.953821 CACATTGTCGGTGGCCAC 59.046 61.111 28.57 28.57 32.65 5.01
2768 3107 3.637273 ACACAGCCGTTCTCCCCC 61.637 66.667 0.00 0.00 0.00 5.40
2769 3108 2.358737 CACACAGCCGTTCTCCCC 60.359 66.667 0.00 0.00 0.00 4.81
2770 3109 2.358737 CCACACAGCCGTTCTCCC 60.359 66.667 0.00 0.00 0.00 4.30
2771 3110 2.358737 CCCACACAGCCGTTCTCC 60.359 66.667 0.00 0.00 0.00 3.71
2772 3111 1.374758 CTCCCACACAGCCGTTCTC 60.375 63.158 0.00 0.00 0.00 2.87
2773 3112 2.743718 CTCCCACACAGCCGTTCT 59.256 61.111 0.00 0.00 0.00 3.01
2774 3113 2.358737 CCTCCCACACAGCCGTTC 60.359 66.667 0.00 0.00 0.00 3.95
2775 3114 2.847234 TCCTCCCACACAGCCGTT 60.847 61.111 0.00 0.00 0.00 4.44
2776 3115 3.314331 CTCCTCCCACACAGCCGT 61.314 66.667 0.00 0.00 0.00 5.68
2777 3116 4.087892 CCTCCTCCCACACAGCCG 62.088 72.222 0.00 0.00 0.00 5.52
2778 3117 2.607750 TCCTCCTCCCACACAGCC 60.608 66.667 0.00 0.00 0.00 4.85
2779 3118 1.915769 ACTCCTCCTCCCACACAGC 60.916 63.158 0.00 0.00 0.00 4.40
2780 3119 1.548357 CCACTCCTCCTCCCACACAG 61.548 65.000 0.00 0.00 0.00 3.66
2781 3120 1.536418 CCACTCCTCCTCCCACACA 60.536 63.158 0.00 0.00 0.00 3.72
2782 3121 2.294078 CCCACTCCTCCTCCCACAC 61.294 68.421 0.00 0.00 0.00 3.82
2783 3122 2.122729 CCCACTCCTCCTCCCACA 59.877 66.667 0.00 0.00 0.00 4.17
2784 3123 2.689034 CCCCACTCCTCCTCCCAC 60.689 72.222 0.00 0.00 0.00 4.61
2785 3124 2.477190 CTTCCCCACTCCTCCTCCCA 62.477 65.000 0.00 0.00 0.00 4.37
2786 3125 1.690985 CTTCCCCACTCCTCCTCCC 60.691 68.421 0.00 0.00 0.00 4.30
2787 3126 0.689412 CTCTTCCCCACTCCTCCTCC 60.689 65.000 0.00 0.00 0.00 4.30
2788 3127 0.689412 CCTCTTCCCCACTCCTCCTC 60.689 65.000 0.00 0.00 0.00 3.71
2789 3128 1.394151 CCTCTTCCCCACTCCTCCT 59.606 63.158 0.00 0.00 0.00 3.69
2790 3129 1.690985 CCCTCTTCCCCACTCCTCC 60.691 68.421 0.00 0.00 0.00 4.30
2791 3130 1.690985 CCCCTCTTCCCCACTCCTC 60.691 68.421 0.00 0.00 0.00 3.71
2792 3131 1.541168 ATCCCCTCTTCCCCACTCCT 61.541 60.000 0.00 0.00 0.00 3.69
2793 3132 0.267960 TATCCCCTCTTCCCCACTCC 59.732 60.000 0.00 0.00 0.00 3.85
2794 3133 2.050918 CTTATCCCCTCTTCCCCACTC 58.949 57.143 0.00 0.00 0.00 3.51
2795 3134 1.345526 CCTTATCCCCTCTTCCCCACT 60.346 57.143 0.00 0.00 0.00 4.00
2796 3135 1.141185 CCTTATCCCCTCTTCCCCAC 58.859 60.000 0.00 0.00 0.00 4.61
2797 3136 0.029059 CCCTTATCCCCTCTTCCCCA 60.029 60.000 0.00 0.00 0.00 4.96
2798 3137 1.427895 GCCCTTATCCCCTCTTCCCC 61.428 65.000 0.00 0.00 0.00 4.81
2799 3138 1.769716 CGCCCTTATCCCCTCTTCCC 61.770 65.000 0.00 0.00 0.00 3.97
2800 3139 1.054978 ACGCCCTTATCCCCTCTTCC 61.055 60.000 0.00 0.00 0.00 3.46
2801 3140 0.393448 GACGCCCTTATCCCCTCTTC 59.607 60.000 0.00 0.00 0.00 2.87
2802 3141 0.031010 AGACGCCCTTATCCCCTCTT 60.031 55.000 0.00 0.00 0.00 2.85
2803 3142 0.760945 CAGACGCCCTTATCCCCTCT 60.761 60.000 0.00 0.00 0.00 3.69
2804 3143 1.749033 CAGACGCCCTTATCCCCTC 59.251 63.158 0.00 0.00 0.00 4.30
2805 3144 2.444256 GCAGACGCCCTTATCCCCT 61.444 63.158 0.00 0.00 0.00 4.79
2806 3145 2.111251 GCAGACGCCCTTATCCCC 59.889 66.667 0.00 0.00 0.00 4.81
2807 3146 2.280186 CGCAGACGCCCTTATCCC 60.280 66.667 0.00 0.00 33.11 3.85
2808 3147 2.280186 CCGCAGACGCCCTTATCC 60.280 66.667 0.00 0.00 38.22 2.59
2809 3148 2.280186 CCCGCAGACGCCCTTATC 60.280 66.667 0.00 0.00 38.22 1.75


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

AutoCloner maintained by Alex Coulton.