Multiple sequence alignment - TraesCS2D01G320900

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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 TraesCS2D01G320900 chr2D 100.000 2886 0 0 1 2886 412282768 412279883 0.000000e+00 5330
1 TraesCS2D01G320900 chr2D 86.716 271 33 3 2493 2762 551139013 551138745 6.050000e-77 298
2 TraesCS2D01G320900 chr2D 83.838 198 18 3 2687 2884 551138788 551138605 2.960000e-40 176
3 TraesCS2D01G320900 chr2A 95.332 2528 71 23 1 2495 579617969 579615456 0.000000e+00 3971
4 TraesCS2D01G320900 chr2A 85.294 170 25 0 2684 2853 755046602 755046771 2.960000e-40 176
5 TraesCS2D01G320900 chr2B 97.560 1803 30 8 580 2377 485871976 485870183 0.000000e+00 3073
6 TraesCS2D01G320900 chr2B 84.685 333 25 14 52 367 485888927 485888604 2.790000e-80 309
7 TraesCS2D01G320900 chr2B 97.917 96 2 0 2374 2469 485869902 485869807 1.780000e-37 167
8 TraesCS2D01G320900 chr3D 89.179 268 26 3 2493 2759 28867072 28867337 5.960000e-87 331
9 TraesCS2D01G320900 chr3D 92.188 128 10 0 2759 2886 28867368 28867495 6.350000e-42 182
10 TraesCS2D01G320900 chr4B 86.232 276 31 2 2492 2762 600518195 600518468 2.810000e-75 292
11 TraesCS2D01G320900 chr4B 91.795 195 16 0 2689 2883 600518427 600518621 3.660000e-69 272
12 TraesCS2D01G320900 chrUn 91.414 198 17 0 2689 2886 37062627 37062430 3.660000e-69 272
13 TraesCS2D01G320900 chrUn 84.838 277 35 2 2491 2762 37062860 37062586 3.660000e-69 272
14 TraesCS2D01G320900 chr1B 79.481 424 50 22 2486 2886 597399771 597400180 1.700000e-67 267
15 TraesCS2D01G320900 chr1B 78.935 413 53 13 2493 2884 314560298 314560697 1.720000e-62 250
16 TraesCS2D01G320900 chr7D 78.457 376 45 16 2533 2886 167835585 167835224 2.250000e-51 213
17 TraesCS2D01G320900 chr5A 78.320 369 42 12 2542 2886 382563189 382562835 1.360000e-48 204
18 TraesCS2D01G320900 chr6D 82.353 204 16 8 2688 2886 409780275 409780087 2.980000e-35 159
19 TraesCS2D01G320900 chr1D 82.941 170 22 4 2684 2853 104032739 104032901 2.320000e-31 147


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 TraesCS2D01G320900 chr2D 412279883 412282768 2885 True 5330 5330 100.0000 1 2886 1 chr2D.!!$R1 2885
1 TraesCS2D01G320900 chr2A 579615456 579617969 2513 True 3971 3971 95.3320 1 2495 1 chr2A.!!$R1 2494
2 TraesCS2D01G320900 chr2B 485869807 485871976 2169 True 1620 3073 97.7385 580 2469 2 chr2B.!!$R2 1889

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
297 302 0.037605 AGGCGTAAGGTCTTCCGTTG 60.038 55.0 0.0 0.0 39.05 4.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1965 1988 1.293498 GCTTCTTCGACCTCCAGCA 59.707 57.895 0.0 0.0 0.0 4.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 74 6.334102 ACTGACACACACAAAAACCTAAAA 57.666 33.333 0.00 0.00 0.00 1.52
76 79 6.262601 ACACACACAAAAACCTAAAAGATCG 58.737 36.000 0.00 0.00 0.00 3.69
89 92 8.293699 ACCTAAAAGATCGCTCCAAAATTTAT 57.706 30.769 0.00 0.00 0.00 1.40
143 148 9.520204 AAATATGGCAATCTAGAATGAAAAACG 57.480 29.630 12.13 0.00 0.00 3.60
237 242 7.439955 TCTGCACGAAACTGAAATTTACTCTAA 59.560 33.333 0.00 0.00 0.00 2.10
292 297 3.490590 GGTTAGCTAGGCGTAAGGTCTTC 60.491 52.174 0.00 0.00 38.28 2.87
297 302 0.037605 AGGCGTAAGGTCTTCCGTTG 60.038 55.000 0.00 0.00 39.05 4.10
301 306 2.157085 GCGTAAGGTCTTCCGTTGAAAG 59.843 50.000 0.00 0.00 39.05 2.62
302 307 3.645884 CGTAAGGTCTTCCGTTGAAAGA 58.354 45.455 0.00 0.00 39.05 2.52
305 310 5.006941 CGTAAGGTCTTCCGTTGAAAGAAAA 59.993 40.000 0.00 0.00 39.05 2.29
306 311 5.500645 AAGGTCTTCCGTTGAAAGAAAAG 57.499 39.130 0.00 0.00 39.05 2.27
308 313 3.881089 GGTCTTCCGTTGAAAGAAAAGGA 59.119 43.478 0.00 0.00 36.14 3.36
462 467 2.618241 TGTGTTGAAGATGCCACTGTTC 59.382 45.455 0.00 0.00 0.00 3.18
464 469 3.058639 GTGTTGAAGATGCCACTGTTCTC 60.059 47.826 0.00 0.00 0.00 2.87
465 470 2.479566 TGAAGATGCCACTGTTCTCC 57.520 50.000 0.00 0.00 0.00 3.71
502 507 2.092291 TCGGTTCGCACGATGAAGC 61.092 57.895 0.00 0.00 39.73 3.86
510 515 4.195744 TCGCACGATGAAGCATATTTTC 57.804 40.909 0.00 0.00 0.00 2.29
522 527 9.807649 ATGAAGCATATTTTCATGGTAGAAAAC 57.192 29.630 10.12 0.00 46.63 2.43
546 551 4.750098 AGTACCATATTGCGTTCTATGTGC 59.250 41.667 0.00 0.00 0.00 4.57
547 552 2.878406 ACCATATTGCGTTCTATGTGCC 59.122 45.455 0.00 0.00 0.00 5.01
550 555 2.401583 ATTGCGTTCTATGTGCCTCA 57.598 45.000 0.00 0.00 0.00 3.86
552 557 2.401583 TGCGTTCTATGTGCCTCAAT 57.598 45.000 0.00 0.00 0.00 2.57
577 582 0.608856 AGTTGCATTCCATGTGCGGA 60.609 50.000 2.73 0.00 45.37 5.54
610 615 0.323629 TCCAAAGGTGACCGTCATCC 59.676 55.000 8.23 9.57 0.00 3.51
703 719 3.499737 CACGGTCCGATTGGCAGC 61.500 66.667 20.51 0.00 34.14 5.25
1849 1871 1.035932 TCTTCTACTTCGAGGCCGGG 61.036 60.000 2.18 0.00 36.24 5.73
1965 1988 1.422781 ACGCATGGATTGATGGGATCT 59.577 47.619 0.00 0.00 39.10 2.75
1992 2015 0.110464 GTCGAAGAAGCAGCAGCAAC 60.110 55.000 3.17 0.00 45.49 4.17
2016 2039 3.093717 TCTGTGTCCGTGACTTCTTTC 57.906 47.619 5.77 0.00 33.15 2.62
2030 2053 0.462937 TCTTTCGGGTGGTGTGTGTG 60.463 55.000 0.00 0.00 0.00 3.82
2083 2106 3.955551 TCTCCAGCGTATGTACCATGTAA 59.044 43.478 0.00 0.00 0.00 2.41
2084 2107 4.587262 TCTCCAGCGTATGTACCATGTAAT 59.413 41.667 0.00 0.00 0.00 1.89
2284 2315 8.889717 GGGTCACGAGATTCATCTAAAAATAAA 58.110 33.333 0.00 0.00 37.25 1.40
2288 2319 9.773328 CACGAGATTCATCTAAAAATAAAGCAA 57.227 29.630 0.00 0.00 37.25 3.91
2325 2356 0.179018 GGAACAGGTGTTGGCTCTGT 60.179 55.000 0.00 0.00 42.77 3.41
2492 2809 8.545229 TCAAAATTGCCATGTATTTACCAAAG 57.455 30.769 0.00 0.00 0.00 2.77
2495 2812 2.425312 TGCCATGTATTTACCAAAGGCG 59.575 45.455 0.00 0.00 43.59 5.52
2496 2813 2.685897 GCCATGTATTTACCAAAGGCGA 59.314 45.455 0.00 0.00 0.00 5.54
2497 2814 3.243068 GCCATGTATTTACCAAAGGCGAG 60.243 47.826 0.00 0.00 0.00 5.03
2498 2815 3.945285 CCATGTATTTACCAAAGGCGAGT 59.055 43.478 0.00 0.00 0.00 4.18
2499 2816 4.201910 CCATGTATTTACCAAAGGCGAGTG 60.202 45.833 0.00 0.00 0.00 3.51
2500 2817 4.274602 TGTATTTACCAAAGGCGAGTGA 57.725 40.909 0.00 0.00 0.00 3.41
2501 2818 4.839121 TGTATTTACCAAAGGCGAGTGAT 58.161 39.130 0.00 0.00 0.00 3.06
2502 2819 4.873827 TGTATTTACCAAAGGCGAGTGATC 59.126 41.667 0.00 0.00 0.00 2.92
2503 2820 3.695830 TTTACCAAAGGCGAGTGATCT 57.304 42.857 0.00 0.00 0.00 2.75
2504 2821 2.672961 TACCAAAGGCGAGTGATCTG 57.327 50.000 0.00 0.00 0.00 2.90
2505 2822 0.674895 ACCAAAGGCGAGTGATCTGC 60.675 55.000 0.00 0.00 0.00 4.26
2506 2823 1.699656 CCAAAGGCGAGTGATCTGCG 61.700 60.000 0.00 0.00 0.00 5.18
2528 2845 3.656045 CGCGCCGGTCCAAAGTTT 61.656 61.111 1.90 0.00 0.00 2.66
2529 2846 2.319096 CGCGCCGGTCCAAAGTTTA 61.319 57.895 1.90 0.00 0.00 2.01
2530 2847 1.500396 GCGCCGGTCCAAAGTTTAG 59.500 57.895 1.90 0.00 0.00 1.85
2531 2848 1.232621 GCGCCGGTCCAAAGTTTAGT 61.233 55.000 1.90 0.00 0.00 2.24
2532 2849 0.794473 CGCCGGTCCAAAGTTTAGTC 59.206 55.000 1.90 0.00 0.00 2.59
2533 2850 1.162698 GCCGGTCCAAAGTTTAGTCC 58.837 55.000 1.90 0.00 0.00 3.85
2534 2851 1.435577 CCGGTCCAAAGTTTAGTCCG 58.564 55.000 11.49 11.49 36.85 4.79
2535 2852 1.435577 CGGTCCAAAGTTTAGTCCGG 58.564 55.000 10.80 0.00 34.05 5.14
2536 2853 1.270465 CGGTCCAAAGTTTAGTCCGGT 60.270 52.381 10.80 0.00 34.05 5.28
2537 2854 2.420642 GGTCCAAAGTTTAGTCCGGTC 58.579 52.381 0.00 0.00 0.00 4.79
2538 2855 2.064014 GTCCAAAGTTTAGTCCGGTCG 58.936 52.381 0.00 0.00 0.00 4.79
2539 2856 0.794473 CCAAAGTTTAGTCCGGTCGC 59.206 55.000 0.00 0.00 0.00 5.19
2540 2857 0.437295 CAAAGTTTAGTCCGGTCGCG 59.563 55.000 0.00 0.00 0.00 5.87
2541 2858 1.287041 AAAGTTTAGTCCGGTCGCGC 61.287 55.000 0.00 0.00 0.00 6.86
2542 2859 3.184003 GTTTAGTCCGGTCGCGCC 61.184 66.667 0.00 5.19 0.00 6.53
2543 2860 4.440127 TTTAGTCCGGTCGCGCCC 62.440 66.667 0.00 0.00 0.00 6.13
2545 2862 3.993614 TTAGTCCGGTCGCGCCCTA 62.994 63.158 4.01 2.65 0.00 3.53
2555 2872 4.247380 GCGCCCTAGCTGCAGGAT 62.247 66.667 17.12 0.00 38.00 3.24
2556 2873 2.280660 CGCCCTAGCTGCAGGATG 60.281 66.667 17.12 7.20 38.00 3.51
2570 2887 3.051081 CAGGATGCCACTATTCCTAGC 57.949 52.381 0.00 0.00 37.80 3.42
2571 2888 1.981495 AGGATGCCACTATTCCTAGCC 59.019 52.381 0.00 0.00 38.11 3.93
2572 2889 1.338200 GGATGCCACTATTCCTAGCCG 60.338 57.143 0.00 0.00 0.00 5.52
2573 2890 1.344763 GATGCCACTATTCCTAGCCGT 59.655 52.381 0.00 0.00 0.00 5.68
2574 2891 1.200519 TGCCACTATTCCTAGCCGTT 58.799 50.000 0.00 0.00 0.00 4.44
2575 2892 1.557832 TGCCACTATTCCTAGCCGTTT 59.442 47.619 0.00 0.00 0.00 3.60
2576 2893 1.940613 GCCACTATTCCTAGCCGTTTG 59.059 52.381 0.00 0.00 0.00 2.93
2577 2894 2.419574 GCCACTATTCCTAGCCGTTTGA 60.420 50.000 0.00 0.00 0.00 2.69
2578 2895 3.744530 GCCACTATTCCTAGCCGTTTGAT 60.745 47.826 0.00 0.00 0.00 2.57
2579 2896 4.058817 CCACTATTCCTAGCCGTTTGATC 58.941 47.826 0.00 0.00 0.00 2.92
2580 2897 4.202264 CCACTATTCCTAGCCGTTTGATCT 60.202 45.833 0.00 0.00 0.00 2.75
2581 2898 5.010719 CCACTATTCCTAGCCGTTTGATCTA 59.989 44.000 0.00 0.00 0.00 1.98
2582 2899 6.153067 CACTATTCCTAGCCGTTTGATCTAG 58.847 44.000 0.00 0.00 0.00 2.43
2583 2900 3.454371 TTCCTAGCCGTTTGATCTAGC 57.546 47.619 0.00 0.00 0.00 3.42
2584 2901 2.384828 TCCTAGCCGTTTGATCTAGCA 58.615 47.619 0.00 0.00 0.00 3.49
2585 2902 2.764010 TCCTAGCCGTTTGATCTAGCAA 59.236 45.455 0.00 0.00 0.00 3.91
2586 2903 3.196901 TCCTAGCCGTTTGATCTAGCAAA 59.803 43.478 0.00 0.00 35.54 3.68
2587 2904 3.938963 CCTAGCCGTTTGATCTAGCAAAA 59.061 43.478 0.00 0.00 39.26 2.44
2588 2905 4.394920 CCTAGCCGTTTGATCTAGCAAAAA 59.605 41.667 0.00 0.00 39.26 1.94
2612 2929 9.533831 AAAAATATATTATTCGCCCCAGATCTT 57.466 29.630 0.00 0.00 0.00 2.40
2613 2930 8.738645 AAATATATTATTCGCCCCAGATCTTC 57.261 34.615 0.00 0.00 0.00 2.87
2614 2931 7.682787 ATATATTATTCGCCCCAGATCTTCT 57.317 36.000 0.00 0.00 0.00 2.85
2615 2932 4.713792 ATTATTCGCCCCAGATCTTCTT 57.286 40.909 0.00 0.00 0.00 2.52
2616 2933 4.503714 TTATTCGCCCCAGATCTTCTTT 57.496 40.909 0.00 0.00 0.00 2.52
2617 2934 2.403252 TTCGCCCCAGATCTTCTTTC 57.597 50.000 0.00 0.00 0.00 2.62
2618 2935 1.573108 TCGCCCCAGATCTTCTTTCT 58.427 50.000 0.00 0.00 0.00 2.52
2619 2936 1.482593 TCGCCCCAGATCTTCTTTCTC 59.517 52.381 0.00 0.00 0.00 2.87
2620 2937 1.474143 CGCCCCAGATCTTCTTTCTCC 60.474 57.143 0.00 0.00 0.00 3.71
2621 2938 1.843206 GCCCCAGATCTTCTTTCTCCT 59.157 52.381 0.00 0.00 0.00 3.69
2622 2939 2.158827 GCCCCAGATCTTCTTTCTCCTC 60.159 54.545 0.00 0.00 0.00 3.71
2623 2940 3.110705 CCCCAGATCTTCTTTCTCCTCA 58.889 50.000 0.00 0.00 0.00 3.86
2624 2941 3.118445 CCCCAGATCTTCTTTCTCCTCAC 60.118 52.174 0.00 0.00 0.00 3.51
2625 2942 3.430098 CCCAGATCTTCTTTCTCCTCACG 60.430 52.174 0.00 0.00 0.00 4.35
2626 2943 3.186119 CAGATCTTCTTTCTCCTCACGC 58.814 50.000 0.00 0.00 0.00 5.34
2627 2944 2.828520 AGATCTTCTTTCTCCTCACGCA 59.171 45.455 0.00 0.00 0.00 5.24
2628 2945 3.450457 AGATCTTCTTTCTCCTCACGCAT 59.550 43.478 0.00 0.00 0.00 4.73
2629 2946 3.238108 TCTTCTTTCTCCTCACGCATC 57.762 47.619 0.00 0.00 0.00 3.91
2630 2947 2.828520 TCTTCTTTCTCCTCACGCATCT 59.171 45.455 0.00 0.00 0.00 2.90
2631 2948 3.259374 TCTTCTTTCTCCTCACGCATCTT 59.741 43.478 0.00 0.00 0.00 2.40
2632 2949 4.462834 TCTTCTTTCTCCTCACGCATCTTA 59.537 41.667 0.00 0.00 0.00 2.10
2633 2950 4.111375 TCTTTCTCCTCACGCATCTTAC 57.889 45.455 0.00 0.00 0.00 2.34
2634 2951 2.561733 TTCTCCTCACGCATCTTACG 57.438 50.000 0.00 0.00 0.00 3.18
2635 2952 0.100682 TCTCCTCACGCATCTTACGC 59.899 55.000 0.00 0.00 0.00 4.42
2636 2953 0.101399 CTCCTCACGCATCTTACGCT 59.899 55.000 0.00 0.00 0.00 5.07
2637 2954 0.100682 TCCTCACGCATCTTACGCTC 59.899 55.000 0.00 0.00 0.00 5.03
2638 2955 1.202973 CCTCACGCATCTTACGCTCG 61.203 60.000 0.00 0.00 0.00 5.03
2639 2956 1.802300 CTCACGCATCTTACGCTCGC 61.802 60.000 0.00 0.00 0.00 5.03
2641 2958 4.327009 CGCATCTTACGCTCGCGC 62.327 66.667 11.65 0.00 44.19 6.86
2642 2959 3.254654 GCATCTTACGCTCGCGCA 61.255 61.111 8.75 0.00 44.19 6.09
2643 2960 2.916423 CATCTTACGCTCGCGCAG 59.084 61.111 8.75 7.90 44.19 5.18
2660 2977 2.590007 GCACCCTGCATCTAGCCG 60.590 66.667 0.00 0.00 44.26 5.52
2661 2978 2.903357 CACCCTGCATCTAGCCGT 59.097 61.111 0.00 0.00 44.83 5.68
2662 2979 1.227380 CACCCTGCATCTAGCCGTC 60.227 63.158 0.00 0.00 44.83 4.79
2663 2980 1.381872 ACCCTGCATCTAGCCGTCT 60.382 57.895 0.00 0.00 44.83 4.18
2664 2981 1.365633 CCCTGCATCTAGCCGTCTC 59.634 63.158 0.00 0.00 44.83 3.36
2665 2982 1.007964 CCTGCATCTAGCCGTCTCG 60.008 63.158 0.00 0.00 44.83 4.04
2666 2983 1.659954 CTGCATCTAGCCGTCTCGC 60.660 63.158 0.00 0.00 44.83 5.03
2667 2984 2.727647 GCATCTAGCCGTCTCGCG 60.728 66.667 0.00 0.00 37.23 5.87
2668 2985 2.727647 CATCTAGCCGTCTCGCGC 60.728 66.667 0.00 0.00 39.71 6.86
2669 2986 2.902846 ATCTAGCCGTCTCGCGCT 60.903 61.111 5.56 0.00 39.71 5.92
2670 2987 3.187699 ATCTAGCCGTCTCGCGCTG 62.188 63.158 5.56 0.00 39.71 5.18
2682 2999 4.400961 GCGCTGCTCCCCTTCAGT 62.401 66.667 0.00 0.00 33.09 3.41
2683 3000 2.435586 CGCTGCTCCCCTTCAGTG 60.436 66.667 0.00 0.00 34.97 3.66
2684 3001 2.045536 GCTGCTCCCCTTCAGTGG 60.046 66.667 0.00 0.00 33.09 4.00
2685 3002 2.596851 GCTGCTCCCCTTCAGTGGA 61.597 63.158 0.00 0.00 33.09 4.02
2686 3003 1.298014 CTGCTCCCCTTCAGTGGAC 59.702 63.158 0.00 0.00 0.00 4.02
2687 3004 2.266055 GCTCCCCTTCAGTGGACG 59.734 66.667 0.00 0.00 0.00 4.79
2688 3005 2.584391 GCTCCCCTTCAGTGGACGT 61.584 63.158 0.00 0.00 0.00 4.34
2689 3006 1.592223 CTCCCCTTCAGTGGACGTC 59.408 63.158 7.13 7.13 0.00 4.34
2690 3007 1.889530 CTCCCCTTCAGTGGACGTCC 61.890 65.000 28.17 28.17 0.00 4.79
2691 3008 1.913762 CCCCTTCAGTGGACGTCCT 60.914 63.158 33.39 13.58 36.82 3.85
2692 3009 1.592223 CCCTTCAGTGGACGTCCTC 59.408 63.158 33.39 29.42 36.82 3.71
2693 3010 1.213013 CCTTCAGTGGACGTCCTCG 59.787 63.158 33.39 23.89 43.34 4.63
2734 3051 4.477975 CCGTCCTCGTCGCCAGTC 62.478 72.222 0.00 0.00 35.01 3.51
2735 3052 4.477975 CGTCCTCGTCGCCAGTCC 62.478 72.222 0.00 0.00 0.00 3.85
2736 3053 3.371063 GTCCTCGTCGCCAGTCCA 61.371 66.667 0.00 0.00 0.00 4.02
2737 3054 2.362503 TCCTCGTCGCCAGTCCAT 60.363 61.111 0.00 0.00 0.00 3.41
2738 3055 1.077285 TCCTCGTCGCCAGTCCATA 60.077 57.895 0.00 0.00 0.00 2.74
2739 3056 1.065928 CCTCGTCGCCAGTCCATAC 59.934 63.158 0.00 0.00 0.00 2.39
2740 3057 1.065928 CTCGTCGCCAGTCCATACC 59.934 63.158 0.00 0.00 0.00 2.73
2741 3058 2.106332 CGTCGCCAGTCCATACCC 59.894 66.667 0.00 0.00 0.00 3.69
2742 3059 2.423898 CGTCGCCAGTCCATACCCT 61.424 63.158 0.00 0.00 0.00 4.34
2743 3060 1.442148 GTCGCCAGTCCATACCCTC 59.558 63.158 0.00 0.00 0.00 4.30
2744 3061 2.125326 TCGCCAGTCCATACCCTCG 61.125 63.158 0.00 0.00 0.00 4.63
2745 3062 2.109181 GCCAGTCCATACCCTCGC 59.891 66.667 0.00 0.00 0.00 5.03
2746 3063 2.822399 CCAGTCCATACCCTCGCC 59.178 66.667 0.00 0.00 0.00 5.54
2747 3064 2.417516 CAGTCCATACCCTCGCCG 59.582 66.667 0.00 0.00 0.00 6.46
2748 3065 2.043248 AGTCCATACCCTCGCCGT 60.043 61.111 0.00 0.00 0.00 5.68
2749 3066 2.125961 AGTCCATACCCTCGCCGTC 61.126 63.158 0.00 0.00 0.00 4.79
2750 3067 2.836360 TCCATACCCTCGCCGTCC 60.836 66.667 0.00 0.00 0.00 4.79
2751 3068 4.280494 CCATACCCTCGCCGTCCG 62.280 72.222 0.00 0.00 38.61 4.79
2752 3069 3.524606 CATACCCTCGCCGTCCGT 61.525 66.667 0.00 0.00 38.35 4.69
2753 3070 3.214845 ATACCCTCGCCGTCCGTC 61.215 66.667 0.00 0.00 38.35 4.79
2763 3080 4.813526 CGTCCGTCCTCGTCGCTG 62.814 72.222 0.00 0.00 35.01 5.18
2767 3084 4.838486 CGTCCTCGTCGCTGCCTC 62.838 72.222 0.00 0.00 0.00 4.70
2768 3085 4.838486 GTCCTCGTCGCTGCCTCG 62.838 72.222 0.00 0.00 0.00 4.63
2775 3092 4.147449 TCGCTGCCTCGACCCATG 62.147 66.667 0.00 0.00 33.02 3.66
2777 3094 4.783621 GCTGCCTCGACCCATGCA 62.784 66.667 0.00 0.00 0.00 3.96
2778 3095 2.046023 CTGCCTCGACCCATGCAA 60.046 61.111 0.00 0.00 32.58 4.08
2779 3096 2.359850 TGCCTCGACCCATGCAAC 60.360 61.111 0.00 0.00 0.00 4.17
2780 3097 2.359850 GCCTCGACCCATGCAACA 60.360 61.111 0.00 0.00 0.00 3.33
2781 3098 2.401766 GCCTCGACCCATGCAACAG 61.402 63.158 0.00 0.00 0.00 3.16
2782 3099 2.401766 CCTCGACCCATGCAACAGC 61.402 63.158 0.00 0.00 0.00 4.40
2783 3100 1.376424 CTCGACCCATGCAACAGCT 60.376 57.895 0.00 0.00 0.00 4.24
2784 3101 1.364626 CTCGACCCATGCAACAGCTC 61.365 60.000 0.00 0.00 0.00 4.09
2785 3102 2.401766 CGACCCATGCAACAGCTCC 61.402 63.158 0.00 0.00 0.00 4.70
2786 3103 1.303561 GACCCATGCAACAGCTCCA 60.304 57.895 0.00 0.00 0.00 3.86
2787 3104 1.589716 GACCCATGCAACAGCTCCAC 61.590 60.000 0.00 0.00 0.00 4.02
2788 3105 2.345760 CCCATGCAACAGCTCCACC 61.346 63.158 0.00 0.00 0.00 4.61
2789 3106 1.303888 CCATGCAACAGCTCCACCT 60.304 57.895 0.00 0.00 0.00 4.00
2790 3107 1.592400 CCATGCAACAGCTCCACCTG 61.592 60.000 0.00 0.00 38.78 4.00
2792 3109 0.892358 ATGCAACAGCTCCACCTGTG 60.892 55.000 0.00 0.00 44.86 3.66
2801 3118 2.203394 CCACCTGTGGTTGCAGCT 60.203 61.111 8.20 0.00 45.53 4.24
2802 3119 2.263741 CCACCTGTGGTTGCAGCTC 61.264 63.158 8.20 0.00 45.53 4.09
2803 3120 1.228063 CACCTGTGGTTGCAGCTCT 60.228 57.895 0.00 0.00 31.02 4.09
2804 3121 1.072159 ACCTGTGGTTGCAGCTCTC 59.928 57.895 0.00 0.00 35.28 3.20
2805 3122 1.071987 CCTGTGGTTGCAGCTCTCA 59.928 57.895 0.00 0.00 35.28 3.27
2806 3123 0.535780 CCTGTGGTTGCAGCTCTCAA 60.536 55.000 0.00 0.00 35.28 3.02
2807 3124 0.590195 CTGTGGTTGCAGCTCTCAAC 59.410 55.000 16.23 16.23 42.13 3.18
2808 3125 1.159713 TGTGGTTGCAGCTCTCAACG 61.160 55.000 17.34 0.00 43.37 4.10
2809 3126 1.597854 TGGTTGCAGCTCTCAACGG 60.598 57.895 17.34 0.00 43.37 4.44
2810 3127 2.558313 GTTGCAGCTCTCAACGGC 59.442 61.111 11.30 0.00 35.14 5.68
2811 3128 3.043713 TTGCAGCTCTCAACGGCG 61.044 61.111 4.80 4.80 0.00 6.46
2812 3129 3.513768 TTGCAGCTCTCAACGGCGA 62.514 57.895 16.62 0.00 0.00 5.54
2813 3130 3.482783 GCAGCTCTCAACGGCGAC 61.483 66.667 16.62 0.00 0.00 5.19
2826 3143 2.582959 GGCGACGATTGTAGCTCTG 58.417 57.895 16.60 0.00 44.97 3.35
2827 3144 0.179134 GGCGACGATTGTAGCTCTGT 60.179 55.000 16.60 0.00 44.97 3.41
2828 3145 1.630148 GCGACGATTGTAGCTCTGTT 58.370 50.000 10.68 0.00 42.66 3.16
2829 3146 1.993370 GCGACGATTGTAGCTCTGTTT 59.007 47.619 10.68 0.00 42.66 2.83
2830 3147 2.222596 GCGACGATTGTAGCTCTGTTTG 60.223 50.000 10.68 0.00 42.66 2.93
2831 3148 2.987149 CGACGATTGTAGCTCTGTTTGT 59.013 45.455 0.00 0.00 0.00 2.83
2832 3149 4.163552 CGACGATTGTAGCTCTGTTTGTA 58.836 43.478 0.00 0.00 0.00 2.41
2833 3150 4.263209 CGACGATTGTAGCTCTGTTTGTAG 59.737 45.833 0.00 0.00 0.00 2.74
2834 3151 3.927142 ACGATTGTAGCTCTGTTTGTAGC 59.073 43.478 0.00 0.00 39.08 3.58
2836 3153 4.266502 CGATTGTAGCTCTGTTTGTAGCTC 59.733 45.833 0.00 0.00 45.92 4.09
2837 3154 3.594603 TGTAGCTCTGTTTGTAGCTCC 57.405 47.619 0.00 0.00 45.92 4.70
2838 3155 2.094700 TGTAGCTCTGTTTGTAGCTCCG 60.095 50.000 0.00 0.00 45.92 4.63
2839 3156 0.390472 AGCTCTGTTTGTAGCTCCGC 60.390 55.000 0.00 0.00 45.92 5.54
2840 3157 1.362406 GCTCTGTTTGTAGCTCCGCC 61.362 60.000 0.00 0.00 35.80 6.13
2841 3158 1.078759 CTCTGTTTGTAGCTCCGCCG 61.079 60.000 0.00 0.00 0.00 6.46
2842 3159 2.740714 CTGTTTGTAGCTCCGCCGC 61.741 63.158 0.00 0.00 0.00 6.53
2843 3160 3.497031 GTTTGTAGCTCCGCCGCC 61.497 66.667 0.00 0.00 0.00 6.13
2859 3176 4.473520 CCGCCCCTCGCTGTTGAT 62.474 66.667 0.00 0.00 36.73 2.57
2860 3177 3.197790 CGCCCCTCGCTGTTGATG 61.198 66.667 0.00 0.00 34.21 3.07
2861 3178 3.512516 GCCCCTCGCTGTTGATGC 61.513 66.667 0.00 0.00 0.00 3.91
2862 3179 2.270205 CCCCTCGCTGTTGATGCT 59.730 61.111 0.00 0.00 0.00 3.79
2863 3180 1.817099 CCCCTCGCTGTTGATGCTC 60.817 63.158 0.00 0.00 0.00 4.26
2864 3181 2.169789 CCCTCGCTGTTGATGCTCG 61.170 63.158 0.00 0.00 0.00 5.03
2865 3182 2.699809 CTCGCTGTTGATGCTCGC 59.300 61.111 0.00 0.00 0.00 5.03
2866 3183 1.808799 CTCGCTGTTGATGCTCGCT 60.809 57.895 0.00 0.00 0.00 4.93
2867 3184 2.021964 CTCGCTGTTGATGCTCGCTG 62.022 60.000 0.00 0.00 0.00 5.18
2868 3185 2.096442 CGCTGTTGATGCTCGCTGA 61.096 57.895 0.00 0.00 0.00 4.26
2869 3186 1.629345 CGCTGTTGATGCTCGCTGAA 61.629 55.000 0.00 0.00 0.00 3.02
2870 3187 0.179205 GCTGTTGATGCTCGCTGAAC 60.179 55.000 0.00 0.00 0.00 3.18
2871 3188 0.094216 CTGTTGATGCTCGCTGAACG 59.906 55.000 0.00 0.00 45.62 3.95
2872 3189 1.291184 TGTTGATGCTCGCTGAACGG 61.291 55.000 0.00 0.00 43.89 4.44
2873 3190 1.014044 GTTGATGCTCGCTGAACGGA 61.014 55.000 0.00 0.00 43.89 4.69
2874 3191 0.320334 TTGATGCTCGCTGAACGGAA 60.320 50.000 0.00 0.00 43.89 4.30
2875 3192 0.108186 TGATGCTCGCTGAACGGAAT 60.108 50.000 0.00 0.00 43.89 3.01
2876 3193 1.009829 GATGCTCGCTGAACGGAATT 58.990 50.000 0.00 0.00 43.89 2.17
2877 3194 0.729116 ATGCTCGCTGAACGGAATTG 59.271 50.000 0.00 0.00 43.89 2.32
2878 3195 1.226128 GCTCGCTGAACGGAATTGC 60.226 57.895 0.00 0.00 43.89 3.56
2879 3196 1.059369 CTCGCTGAACGGAATTGCG 59.941 57.895 18.40 18.40 46.71 4.85
2880 3197 1.626654 CTCGCTGAACGGAATTGCGT 61.627 55.000 19.95 19.95 45.69 5.24
2881 3198 1.225745 CGCTGAACGGAATTGCGTC 60.226 57.895 25.43 17.85 41.45 5.19
2882 3199 1.225745 GCTGAACGGAATTGCGTCG 60.226 57.895 25.43 16.76 0.00 5.12
2883 3200 1.623081 GCTGAACGGAATTGCGTCGA 61.623 55.000 25.43 13.52 0.00 4.20
2884 3201 0.093026 CTGAACGGAATTGCGTCGAC 59.907 55.000 25.43 18.49 0.00 4.20
2885 3202 1.056750 GAACGGAATTGCGTCGACG 59.943 57.895 32.57 32.57 43.27 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 74 8.958119 TTACAGTATAAATTTTGGAGCGATCT 57.042 30.769 0.00 0.00 0.00 2.75
107 112 9.905713 TCTAGATTGCCATATTTAGTCAAAGTT 57.094 29.630 0.00 0.00 0.00 2.66
143 148 6.488817 TGTTTTGACCTTTTAACGCTAGAAC 58.511 36.000 0.00 0.00 0.00 3.01
237 242 5.352016 AGCGCAAAATGCATACAATTTGATT 59.648 32.000 20.55 6.48 45.58 2.57
320 325 3.895998 TGCCATCCAACATAACATGCTA 58.104 40.909 0.00 0.00 0.00 3.49
346 351 3.558505 CTTAACACAAGCTCACACATGC 58.441 45.455 0.00 0.00 0.00 4.06
421 426 4.021104 CACACCAGAGTTCAAGTCCTATGA 60.021 45.833 0.00 0.00 0.00 2.15
462 467 6.425114 CCGATCTGTGGTTAAATGATTAGGAG 59.575 42.308 0.00 0.00 0.00 3.69
464 469 6.055588 ACCGATCTGTGGTTAAATGATTAGG 58.944 40.000 0.00 0.00 35.82 2.69
522 527 5.333339 GCACATAGAACGCAATATGGTACTG 60.333 44.000 0.00 0.00 34.36 2.74
567 572 0.248743 GCATGACATTCCGCACATGG 60.249 55.000 0.00 0.00 39.96 3.66
568 573 0.248743 GGCATGACATTCCGCACATG 60.249 55.000 0.00 0.00 41.72 3.21
577 582 3.028850 CCTTTGGAGATGGCATGACATT 58.971 45.455 17.03 5.69 0.00 2.71
610 615 2.286833 CGTTATAATTGCCCGGTCACAG 59.713 50.000 0.00 0.00 0.00 3.66
703 719 0.692476 TTGTGATCTGTGGGGACTGG 59.308 55.000 0.00 0.00 0.00 4.00
961 979 2.342648 GGTGTGACGGTGAGGTCC 59.657 66.667 0.00 0.00 36.07 4.46
1965 1988 1.293498 GCTTCTTCGACCTCCAGCA 59.707 57.895 0.00 0.00 0.00 4.41
1992 2015 2.161808 AGAAGTCACGGACACAGATACG 59.838 50.000 6.78 0.00 34.60 3.06
2016 2039 1.565156 CGATTCACACACACCACCCG 61.565 60.000 0.00 0.00 0.00 5.28
2030 2053 5.368989 AGTACTTGATTCCCCATTCGATTC 58.631 41.667 0.00 0.00 0.00 2.52
2197 2220 3.575256 TGCTTCCTTCAACTGATGCATTT 59.425 39.130 0.00 0.00 36.92 2.32
2284 2315 2.299013 TGTTCGACTGGTACTCATTGCT 59.701 45.455 0.00 0.00 0.00 3.91
2288 2319 2.803956 TCCTGTTCGACTGGTACTCAT 58.196 47.619 9.52 0.00 38.25 2.90
2410 2727 2.147958 GAACGTGGAATGCAACACCTA 58.852 47.619 12.18 0.00 34.18 3.08
2511 2828 2.235536 CTAAACTTTGGACCGGCGCG 62.236 60.000 0.00 0.00 0.00 6.86
2512 2829 1.232621 ACTAAACTTTGGACCGGCGC 61.233 55.000 0.00 0.00 0.00 6.53
2513 2830 0.794473 GACTAAACTTTGGACCGGCG 59.206 55.000 0.00 0.00 0.00 6.46
2514 2831 1.162698 GGACTAAACTTTGGACCGGC 58.837 55.000 0.00 0.00 0.00 6.13
2515 2832 1.435577 CGGACTAAACTTTGGACCGG 58.564 55.000 17.03 0.00 36.08 5.28
2516 2833 1.270465 ACCGGACTAAACTTTGGACCG 60.270 52.381 9.46 17.61 38.83 4.79
2517 2834 2.420642 GACCGGACTAAACTTTGGACC 58.579 52.381 9.46 0.00 0.00 4.46
2518 2835 2.064014 CGACCGGACTAAACTTTGGAC 58.936 52.381 9.46 0.00 0.00 4.02
2519 2836 1.606224 GCGACCGGACTAAACTTTGGA 60.606 52.381 9.46 0.00 0.00 3.53
2520 2837 0.794473 GCGACCGGACTAAACTTTGG 59.206 55.000 9.46 0.00 0.00 3.28
2521 2838 0.437295 CGCGACCGGACTAAACTTTG 59.563 55.000 9.46 0.00 0.00 2.77
2522 2839 1.287041 GCGCGACCGGACTAAACTTT 61.287 55.000 12.10 0.00 34.32 2.66
2523 2840 1.735559 GCGCGACCGGACTAAACTT 60.736 57.895 12.10 0.00 34.32 2.66
2524 2841 2.126189 GCGCGACCGGACTAAACT 60.126 61.111 12.10 0.00 34.32 2.66
2525 2842 3.184003 GGCGCGACCGGACTAAAC 61.184 66.667 12.10 0.00 34.32 2.01
2526 2843 4.440127 GGGCGCGACCGGACTAAA 62.440 66.667 19.28 0.00 40.62 1.85
2527 2844 3.993614 TAGGGCGCGACCGGACTAA 62.994 63.158 28.55 5.10 40.62 2.24
2528 2845 4.488136 TAGGGCGCGACCGGACTA 62.488 66.667 28.55 9.98 40.62 2.59
2538 2855 4.247380 ATCCTGCAGCTAGGGCGC 62.247 66.667 8.66 0.00 44.37 6.53
2539 2856 2.280660 CATCCTGCAGCTAGGGCG 60.281 66.667 8.66 0.00 44.37 6.13
2540 2857 2.594013 GCATCCTGCAGCTAGGGC 60.594 66.667 8.66 3.21 44.26 5.19
2549 2866 2.873649 GCTAGGAATAGTGGCATCCTGC 60.874 54.545 15.94 13.16 43.34 4.85
2550 2867 2.289945 GGCTAGGAATAGTGGCATCCTG 60.290 54.545 15.94 8.26 43.34 3.86
2551 2868 1.981495 GGCTAGGAATAGTGGCATCCT 59.019 52.381 11.82 11.82 45.39 3.24
2552 2869 1.338200 CGGCTAGGAATAGTGGCATCC 60.338 57.143 0.00 0.00 0.00 3.51
2553 2870 1.344763 ACGGCTAGGAATAGTGGCATC 59.655 52.381 0.00 0.00 0.00 3.91
2554 2871 1.424638 ACGGCTAGGAATAGTGGCAT 58.575 50.000 0.00 0.00 0.00 4.40
2555 2872 1.200519 AACGGCTAGGAATAGTGGCA 58.799 50.000 0.00 0.00 0.00 4.92
2556 2873 1.940613 CAAACGGCTAGGAATAGTGGC 59.059 52.381 0.00 0.00 0.00 5.01
2557 2874 3.536956 TCAAACGGCTAGGAATAGTGG 57.463 47.619 0.00 0.00 0.00 4.00
2558 2875 4.950050 AGATCAAACGGCTAGGAATAGTG 58.050 43.478 0.00 0.00 0.00 2.74
2559 2876 5.279056 GCTAGATCAAACGGCTAGGAATAGT 60.279 44.000 0.00 0.00 33.82 2.12
2560 2877 5.164954 GCTAGATCAAACGGCTAGGAATAG 58.835 45.833 0.00 0.00 33.82 1.73
2561 2878 4.587262 TGCTAGATCAAACGGCTAGGAATA 59.413 41.667 0.00 0.00 33.82 1.75
2562 2879 3.388024 TGCTAGATCAAACGGCTAGGAAT 59.612 43.478 0.00 0.00 33.82 3.01
2563 2880 2.764010 TGCTAGATCAAACGGCTAGGAA 59.236 45.455 0.00 0.00 33.82 3.36
2564 2881 2.384828 TGCTAGATCAAACGGCTAGGA 58.615 47.619 0.00 0.00 33.82 2.94
2565 2882 2.890808 TGCTAGATCAAACGGCTAGG 57.109 50.000 0.00 0.00 33.82 3.02
2566 2883 5.545658 TTTTTGCTAGATCAAACGGCTAG 57.454 39.130 0.00 0.00 35.86 3.42
2586 2903 9.533831 AAGATCTGGGGCGAATAATATATTTTT 57.466 29.630 2.68 1.91 0.00 1.94
2587 2904 9.178758 GAAGATCTGGGGCGAATAATATATTTT 57.821 33.333 2.68 0.00 0.00 1.82
2588 2905 8.552296 AGAAGATCTGGGGCGAATAATATATTT 58.448 33.333 2.68 0.00 0.00 1.40
2589 2906 8.095452 AGAAGATCTGGGGCGAATAATATATT 57.905 34.615 0.00 2.97 0.00 1.28
2590 2907 7.682787 AGAAGATCTGGGGCGAATAATATAT 57.317 36.000 0.00 0.00 0.00 0.86
2591 2908 7.496346 AAGAAGATCTGGGGCGAATAATATA 57.504 36.000 0.00 0.00 0.00 0.86
2592 2909 6.380079 AAGAAGATCTGGGGCGAATAATAT 57.620 37.500 0.00 0.00 0.00 1.28
2593 2910 5.825593 AAGAAGATCTGGGGCGAATAATA 57.174 39.130 0.00 0.00 0.00 0.98
2594 2911 4.713792 AAGAAGATCTGGGGCGAATAAT 57.286 40.909 0.00 0.00 0.00 1.28
2595 2912 4.164221 AGAAAGAAGATCTGGGGCGAATAA 59.836 41.667 0.00 0.00 0.00 1.40
2596 2913 3.711704 AGAAAGAAGATCTGGGGCGAATA 59.288 43.478 0.00 0.00 0.00 1.75
2597 2914 2.507471 AGAAAGAAGATCTGGGGCGAAT 59.493 45.455 0.00 0.00 0.00 3.34
2598 2915 1.909302 AGAAAGAAGATCTGGGGCGAA 59.091 47.619 0.00 0.00 0.00 4.70
2599 2916 1.482593 GAGAAAGAAGATCTGGGGCGA 59.517 52.381 0.00 0.00 0.00 5.54
2600 2917 1.474143 GGAGAAAGAAGATCTGGGGCG 60.474 57.143 0.00 0.00 0.00 6.13
2601 2918 1.843206 AGGAGAAAGAAGATCTGGGGC 59.157 52.381 0.00 0.00 0.00 5.80
2602 2919 3.110705 TGAGGAGAAAGAAGATCTGGGG 58.889 50.000 0.00 0.00 0.00 4.96
2603 2920 3.430098 CGTGAGGAGAAAGAAGATCTGGG 60.430 52.174 0.00 0.00 0.00 4.45
2604 2921 3.779759 CGTGAGGAGAAAGAAGATCTGG 58.220 50.000 0.00 0.00 0.00 3.86
2605 2922 3.186119 GCGTGAGGAGAAAGAAGATCTG 58.814 50.000 0.00 0.00 0.00 2.90
2606 2923 2.828520 TGCGTGAGGAGAAAGAAGATCT 59.171 45.455 0.00 0.00 0.00 2.75
2607 2924 3.238108 TGCGTGAGGAGAAAGAAGATC 57.762 47.619 0.00 0.00 0.00 2.75
2608 2925 3.450457 AGATGCGTGAGGAGAAAGAAGAT 59.550 43.478 0.00 0.00 32.19 2.40
2609 2926 2.828520 AGATGCGTGAGGAGAAAGAAGA 59.171 45.455 0.00 0.00 32.19 2.87
2610 2927 3.244033 AGATGCGTGAGGAGAAAGAAG 57.756 47.619 0.00 0.00 32.19 2.85
2611 2928 3.685139 AAGATGCGTGAGGAGAAAGAA 57.315 42.857 0.00 0.00 32.19 2.52
2612 2929 3.427638 CGTAAGATGCGTGAGGAGAAAGA 60.428 47.826 0.00 0.00 43.02 2.52
2613 2930 2.854777 CGTAAGATGCGTGAGGAGAAAG 59.145 50.000 0.00 0.00 43.02 2.62
2614 2931 2.876091 CGTAAGATGCGTGAGGAGAAA 58.124 47.619 0.00 0.00 43.02 2.52
2615 2932 1.469251 GCGTAAGATGCGTGAGGAGAA 60.469 52.381 0.00 0.00 43.02 2.87
2616 2933 0.100682 GCGTAAGATGCGTGAGGAGA 59.899 55.000 0.00 0.00 43.02 3.71
2617 2934 0.101399 AGCGTAAGATGCGTGAGGAG 59.899 55.000 0.00 0.00 43.02 3.69
2618 2935 0.100682 GAGCGTAAGATGCGTGAGGA 59.899 55.000 0.00 0.00 43.02 3.71
2619 2936 1.202973 CGAGCGTAAGATGCGTGAGG 61.203 60.000 0.00 0.00 43.02 3.86
2620 2937 1.802300 GCGAGCGTAAGATGCGTGAG 61.802 60.000 0.00 0.00 43.02 3.51
2621 2938 1.872234 GCGAGCGTAAGATGCGTGA 60.872 57.895 0.00 0.00 43.02 4.35
2622 2939 2.615618 GCGAGCGTAAGATGCGTG 59.384 61.111 0.00 0.00 43.02 5.34
2623 2940 2.949678 CGCGAGCGTAAGATGCGT 60.950 61.111 0.00 0.00 44.07 5.24
2641 2958 1.525535 GGCTAGATGCAGGGTGCTG 60.526 63.158 0.00 0.00 45.31 4.41
2642 2959 2.914289 GGCTAGATGCAGGGTGCT 59.086 61.111 0.00 0.00 45.31 4.40
2643 2960 2.590007 CGGCTAGATGCAGGGTGC 60.590 66.667 0.00 0.00 45.15 5.01
2644 2961 1.227380 GACGGCTAGATGCAGGGTG 60.227 63.158 0.00 0.00 45.15 4.61
2645 2962 1.381872 AGACGGCTAGATGCAGGGT 60.382 57.895 0.00 0.00 45.15 4.34
2646 2963 1.365633 GAGACGGCTAGATGCAGGG 59.634 63.158 0.00 0.00 45.15 4.45
2647 2964 1.007964 CGAGACGGCTAGATGCAGG 60.008 63.158 0.00 0.00 45.15 4.85
2648 2965 1.659954 GCGAGACGGCTAGATGCAG 60.660 63.158 1.07 0.00 45.15 4.41
2649 2966 2.413351 GCGAGACGGCTAGATGCA 59.587 61.111 1.07 0.00 45.15 3.96
2650 2967 2.727647 CGCGAGACGGCTAGATGC 60.728 66.667 1.07 0.00 38.44 3.91
2651 2968 2.727647 GCGCGAGACGGCTAGATG 60.728 66.667 12.10 0.00 43.93 2.90
2652 2969 2.902846 AGCGCGAGACGGCTAGAT 60.903 61.111 12.10 0.00 43.93 1.98
2653 2970 3.877357 CAGCGCGAGACGGCTAGA 61.877 66.667 12.10 0.00 43.93 2.43
2665 2982 4.400961 ACTGAAGGGGAGCAGCGC 62.401 66.667 0.00 0.00 35.57 5.92
2666 2983 2.435586 CACTGAAGGGGAGCAGCG 60.436 66.667 0.00 0.00 35.57 5.18
2667 2984 2.045536 CCACTGAAGGGGAGCAGC 60.046 66.667 0.00 0.00 35.57 5.25
2668 2985 1.298014 GTCCACTGAAGGGGAGCAG 59.702 63.158 0.18 0.00 38.10 4.24
2669 2986 2.583441 CGTCCACTGAAGGGGAGCA 61.583 63.158 0.18 0.00 32.85 4.26
2670 2987 2.266055 CGTCCACTGAAGGGGAGC 59.734 66.667 0.18 0.00 32.85 4.70
2671 2988 1.592223 GACGTCCACTGAAGGGGAG 59.408 63.158 3.51 0.00 32.85 4.30
2672 2989 1.911766 GGACGTCCACTGAAGGGGA 60.912 63.158 29.75 0.00 35.64 4.81
2673 2990 1.889530 GAGGACGTCCACTGAAGGGG 61.890 65.000 35.00 0.00 38.89 4.79
2674 2991 1.592223 GAGGACGTCCACTGAAGGG 59.408 63.158 35.00 0.00 38.89 3.95
2675 2992 1.213013 CGAGGACGTCCACTGAAGG 59.787 63.158 35.00 12.91 38.89 3.46
2676 2993 4.870305 CGAGGACGTCCACTGAAG 57.130 61.111 35.00 13.28 38.89 3.02
2717 3034 4.477975 GACTGGCGACGAGGACGG 62.478 72.222 0.00 0.00 44.46 4.79
2718 3035 4.477975 GGACTGGCGACGAGGACG 62.478 72.222 0.00 0.00 45.75 4.79
2719 3036 1.381928 TATGGACTGGCGACGAGGAC 61.382 60.000 0.00 0.00 0.00 3.85
2720 3037 1.077285 TATGGACTGGCGACGAGGA 60.077 57.895 0.00 0.00 0.00 3.71
2721 3038 1.065928 GTATGGACTGGCGACGAGG 59.934 63.158 0.00 0.00 0.00 4.63
2722 3039 1.065928 GGTATGGACTGGCGACGAG 59.934 63.158 0.00 0.00 0.00 4.18
2723 3040 2.420568 GGGTATGGACTGGCGACGA 61.421 63.158 0.00 0.00 0.00 4.20
2724 3041 2.106332 GGGTATGGACTGGCGACG 59.894 66.667 0.00 0.00 0.00 5.12
2725 3042 1.442148 GAGGGTATGGACTGGCGAC 59.558 63.158 0.00 0.00 0.00 5.19
2726 3043 2.125326 CGAGGGTATGGACTGGCGA 61.125 63.158 0.00 0.00 0.00 5.54
2727 3044 2.417516 CGAGGGTATGGACTGGCG 59.582 66.667 0.00 0.00 0.00 5.69
2728 3045 2.109181 GCGAGGGTATGGACTGGC 59.891 66.667 0.00 0.00 0.00 4.85
2729 3046 2.822399 GGCGAGGGTATGGACTGG 59.178 66.667 0.00 0.00 0.00 4.00
2730 3047 2.351336 GACGGCGAGGGTATGGACTG 62.351 65.000 16.62 0.00 0.00 3.51
2731 3048 2.043248 ACGGCGAGGGTATGGACT 60.043 61.111 16.62 0.00 0.00 3.85
2732 3049 2.416260 GACGGCGAGGGTATGGAC 59.584 66.667 16.62 0.00 0.00 4.02
2733 3050 2.836360 GGACGGCGAGGGTATGGA 60.836 66.667 16.62 0.00 0.00 3.41
2734 3051 4.280494 CGGACGGCGAGGGTATGG 62.280 72.222 16.62 0.00 0.00 2.74
2735 3052 3.480225 GACGGACGGCGAGGGTATG 62.480 68.421 16.62 0.00 0.00 2.39
2736 3053 3.214845 GACGGACGGCGAGGGTAT 61.215 66.667 16.62 0.00 0.00 2.73
2746 3063 4.813526 CAGCGACGAGGACGGACG 62.814 72.222 0.00 0.00 44.46 4.79
2750 3067 4.838486 GAGGCAGCGACGAGGACG 62.838 72.222 0.00 0.00 45.75 4.79
2751 3068 4.838486 CGAGGCAGCGACGAGGAC 62.838 72.222 0.00 0.00 0.00 3.85
2758 3075 4.147449 CATGGGTCGAGGCAGCGA 62.147 66.667 0.00 0.00 38.07 4.93
2760 3077 4.783621 TGCATGGGTCGAGGCAGC 62.784 66.667 0.00 0.00 0.00 5.25
2761 3078 2.046023 TTGCATGGGTCGAGGCAG 60.046 61.111 0.00 0.00 37.59 4.85
2762 3079 2.359850 GTTGCATGGGTCGAGGCA 60.360 61.111 0.00 0.00 0.00 4.75
2763 3080 2.359850 TGTTGCATGGGTCGAGGC 60.360 61.111 0.00 0.00 0.00 4.70
2764 3081 2.401766 GCTGTTGCATGGGTCGAGG 61.402 63.158 0.00 0.00 39.41 4.63
2765 3082 1.364626 GAGCTGTTGCATGGGTCGAG 61.365 60.000 0.00 0.00 42.74 4.04
2766 3083 1.375908 GAGCTGTTGCATGGGTCGA 60.376 57.895 0.00 0.00 42.74 4.20
2767 3084 2.401766 GGAGCTGTTGCATGGGTCG 61.402 63.158 0.00 0.00 42.74 4.79
2768 3085 1.303561 TGGAGCTGTTGCATGGGTC 60.304 57.895 0.00 0.00 42.74 4.46
2769 3086 1.604593 GTGGAGCTGTTGCATGGGT 60.605 57.895 0.00 0.00 42.74 4.51
2770 3087 2.345760 GGTGGAGCTGTTGCATGGG 61.346 63.158 0.00 0.00 42.74 4.00
2771 3088 1.303888 AGGTGGAGCTGTTGCATGG 60.304 57.895 0.00 0.00 42.74 3.66
2772 3089 0.892358 ACAGGTGGAGCTGTTGCATG 60.892 55.000 5.66 0.00 42.74 4.06
2773 3090 0.892358 CACAGGTGGAGCTGTTGCAT 60.892 55.000 8.75 0.00 42.74 3.96
2774 3091 1.526686 CACAGGTGGAGCTGTTGCA 60.527 57.895 8.75 0.00 42.74 4.08
2775 3092 3.348236 CACAGGTGGAGCTGTTGC 58.652 61.111 8.75 0.00 40.05 4.17
2787 3104 0.535780 TTGAGAGCTGCAACCACAGG 60.536 55.000 1.02 0.00 38.16 4.00
2788 3105 0.590195 GTTGAGAGCTGCAACCACAG 59.410 55.000 14.98 0.00 39.67 3.66
2789 3106 1.159713 CGTTGAGAGCTGCAACCACA 61.160 55.000 18.35 0.00 41.88 4.17
2790 3107 1.571460 CGTTGAGAGCTGCAACCAC 59.429 57.895 18.35 1.46 41.88 4.16
2791 3108 1.597854 CCGTTGAGAGCTGCAACCA 60.598 57.895 18.35 0.00 41.88 3.67
2792 3109 2.970974 GCCGTTGAGAGCTGCAACC 61.971 63.158 18.35 6.54 41.88 3.77
2793 3110 2.558313 GCCGTTGAGAGCTGCAAC 59.442 61.111 15.62 15.62 41.57 4.17
2794 3111 3.043713 CGCCGTTGAGAGCTGCAA 61.044 61.111 1.02 0.00 0.00 4.08
2795 3112 3.989787 TCGCCGTTGAGAGCTGCA 61.990 61.111 1.02 0.00 0.00 4.41
2796 3113 3.482783 GTCGCCGTTGAGAGCTGC 61.483 66.667 0.00 0.00 0.00 5.25
2797 3114 2.874010 ATCGTCGCCGTTGAGAGCTG 62.874 60.000 0.00 0.00 35.01 4.24
2798 3115 2.214181 AATCGTCGCCGTTGAGAGCT 62.214 55.000 0.00 0.00 35.01 4.09
2799 3116 1.805945 AATCGTCGCCGTTGAGAGC 60.806 57.895 0.00 0.00 35.01 4.09
2800 3117 0.732880 ACAATCGTCGCCGTTGAGAG 60.733 55.000 7.86 0.00 32.85 3.20
2801 3118 0.522626 TACAATCGTCGCCGTTGAGA 59.477 50.000 7.86 0.00 32.85 3.27
2802 3119 0.914551 CTACAATCGTCGCCGTTGAG 59.085 55.000 7.86 0.00 32.85 3.02
2803 3120 1.074319 GCTACAATCGTCGCCGTTGA 61.074 55.000 7.86 0.00 32.85 3.18
2804 3121 1.076533 AGCTACAATCGTCGCCGTTG 61.077 55.000 0.00 0.00 34.44 4.10
2805 3122 0.801067 GAGCTACAATCGTCGCCGTT 60.801 55.000 0.00 0.00 34.44 4.44
2806 3123 1.226603 GAGCTACAATCGTCGCCGT 60.227 57.895 0.00 0.00 34.44 5.68
2807 3124 1.064296 AGAGCTACAATCGTCGCCG 59.936 57.895 0.00 0.00 34.44 6.46
2808 3125 0.179134 ACAGAGCTACAATCGTCGCC 60.179 55.000 0.00 0.00 34.44 5.54
2809 3126 1.630148 AACAGAGCTACAATCGTCGC 58.370 50.000 0.00 0.00 34.12 5.19
2810 3127 2.987149 ACAAACAGAGCTACAATCGTCG 59.013 45.455 0.00 0.00 0.00 5.12
2811 3128 4.031878 GCTACAAACAGAGCTACAATCGTC 59.968 45.833 0.00 0.00 35.73 4.20
2812 3129 3.927142 GCTACAAACAGAGCTACAATCGT 59.073 43.478 0.00 0.00 35.73 3.73
2813 3130 4.506838 GCTACAAACAGAGCTACAATCG 57.493 45.455 0.00 0.00 35.73 3.34
2844 3161 3.512516 GCATCAACAGCGAGGGGC 61.513 66.667 0.00 0.00 44.05 5.80
2845 3162 1.817099 GAGCATCAACAGCGAGGGG 60.817 63.158 0.00 0.00 37.01 4.79
2846 3163 2.169789 CGAGCATCAACAGCGAGGG 61.170 63.158 0.00 0.00 37.01 4.30
2847 3164 2.806856 GCGAGCATCAACAGCGAGG 61.807 63.158 0.00 0.00 37.01 4.63
2848 3165 1.808799 AGCGAGCATCAACAGCGAG 60.809 57.895 0.00 0.00 37.01 5.03
2849 3166 2.096442 CAGCGAGCATCAACAGCGA 61.096 57.895 0.00 0.00 37.01 4.93
2850 3167 1.629345 TTCAGCGAGCATCAACAGCG 61.629 55.000 0.00 0.00 37.01 5.18
2851 3168 0.179205 GTTCAGCGAGCATCAACAGC 60.179 55.000 0.00 0.00 33.17 4.40
2852 3169 0.094216 CGTTCAGCGAGCATCAACAG 59.906 55.000 0.00 0.00 44.77 3.16
2853 3170 1.291184 CCGTTCAGCGAGCATCAACA 61.291 55.000 0.00 0.00 44.77 3.33
2854 3171 1.014044 TCCGTTCAGCGAGCATCAAC 61.014 55.000 0.00 0.00 44.77 3.18
2855 3172 0.320334 TTCCGTTCAGCGAGCATCAA 60.320 50.000 0.00 0.00 44.77 2.57
2856 3173 0.108186 ATTCCGTTCAGCGAGCATCA 60.108 50.000 0.00 0.00 44.77 3.07
2857 3174 1.009829 AATTCCGTTCAGCGAGCATC 58.990 50.000 0.00 0.00 44.77 3.91
2858 3175 0.729116 CAATTCCGTTCAGCGAGCAT 59.271 50.000 0.00 0.00 44.77 3.79
2859 3176 1.911293 GCAATTCCGTTCAGCGAGCA 61.911 55.000 0.00 0.00 44.77 4.26
2860 3177 1.226128 GCAATTCCGTTCAGCGAGC 60.226 57.895 0.00 0.00 44.77 5.03
2864 3181 1.225745 CGACGCAATTCCGTTCAGC 60.226 57.895 0.00 0.00 42.24 4.26
2865 3182 0.093026 GTCGACGCAATTCCGTTCAG 59.907 55.000 0.00 0.00 42.24 3.02
2866 3183 1.610715 CGTCGACGCAATTCCGTTCA 61.611 55.000 26.59 0.00 42.24 3.18
2867 3184 1.056750 CGTCGACGCAATTCCGTTC 59.943 57.895 26.59 0.00 42.24 3.95
2868 3185 3.152703 CGTCGACGCAATTCCGTT 58.847 55.556 26.59 0.00 42.24 4.44


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

AutoCloner maintained by Alex Coulton.