Multiple sequence alignment - TraesCS4B01G188700

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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 TraesCS4B01G188700 chr4B 100.000 2871 0 0 1 2871 411180455 411177585 0.000000e+00 5302
1 TraesCS4B01G188700 chr4B 93.421 760 49 1 1 760 38607768 38608526 0.000000e+00 1125
2 TraesCS4B01G188700 chr4B 96.310 271 10 0 2601 2871 77770374 77770104 2.030000e-121 446
3 TraesCS4B01G188700 chr4B 96.310 271 10 0 2601 2871 78290499 78290769 2.030000e-121 446
4 TraesCS4B01G188700 chr4B 91.810 232 16 3 2367 2595 534718837 534719068 1.280000e-83 320
5 TraesCS4B01G188700 chr1B 96.395 2635 57 18 1 2601 7321351 7318721 0.000000e+00 4305
6 TraesCS4B01G188700 chr1B 96.679 271 9 0 2601 2871 499323774 499323504 4.360000e-123 451
7 TraesCS4B01G188700 chr1B 96.679 271 9 0 2601 2871 646295699 646295429 4.360000e-123 451
8 TraesCS4B01G188700 chr2B 96.313 2604 65 11 1 2601 600080155 600082730 0.000000e+00 4248
9 TraesCS4B01G188700 chr2B 87.026 871 84 19 1304 2148 171100955 171101822 0.000000e+00 955
10 TraesCS4B01G188700 chr2B 96.679 271 9 0 2601 2871 656484122 656484392 4.360000e-123 451
11 TraesCS4B01G188700 chr2B 91.915 235 16 3 2367 2598 776823662 776823896 2.760000e-85 326
12 TraesCS4B01G188700 chr2D 95.856 2220 70 18 1 2213 621361661 621363865 0.000000e+00 3570
13 TraesCS4B01G188700 chr2D 89.634 1939 177 17 1 1930 226333103 226335026 0.000000e+00 2446
14 TraesCS4B01G188700 chr2D 90.286 525 37 13 2080 2599 621363671 621364186 0.000000e+00 675
15 TraesCS4B01G188700 chr5B 85.886 2664 259 90 1 2599 567869163 567866552 0.000000e+00 2728
16 TraesCS4B01G188700 chr5B 96.310 271 10 0 2601 2871 495294237 495293967 2.030000e-121 446
17 TraesCS4B01G188700 chr7A 90.779 1963 164 15 1 1954 683625613 683627567 0.000000e+00 2606
18 TraesCS4B01G188700 chr7A 90.413 1961 170 15 1 1954 683510221 683508272 0.000000e+00 2564
19 TraesCS4B01G188700 chr3D 87.733 2201 208 46 1 2178 535143500 535145661 0.000000e+00 2512
20 TraesCS4B01G188700 chr3D 95.528 246 11 0 2354 2599 49967053 49967298 7.460000e-106 394
21 TraesCS4B01G188700 chr6D 90.226 1944 161 18 1 1936 61814074 61812152 0.000000e+00 2510
22 TraesCS4B01G188700 chr6B 94.993 1478 37 22 1155 2599 127848619 127847146 0.000000e+00 2285
23 TraesCS4B01G188700 chr6B 96.310 271 10 0 2601 2871 648975086 648975356 2.030000e-121 446
24 TraesCS4B01G188700 chr2A 92.902 634 43 2 4 637 480692626 480691995 0.000000e+00 920
25 TraesCS4B01G188700 chr2A 91.379 232 17 3 2367 2595 719359120 719359351 5.970000e-82 315
26 TraesCS4B01G188700 chr4A 91.433 642 54 1 1 642 645736841 645736201 0.000000e+00 880
27 TraesCS4B01G188700 chr4A 91.277 642 55 1 1 642 645769382 645768742 0.000000e+00 874
28 TraesCS4B01G188700 chr3B 90.891 494 27 15 2131 2610 652789356 652788867 0.000000e+00 647
29 TraesCS4B01G188700 chr3B 97.048 271 8 0 2601 2871 697372155 697371885 9.380000e-125 457
30 TraesCS4B01G188700 chr7B 96.310 271 10 0 2601 2871 60892988 60892718 2.030000e-121 446


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 TraesCS4B01G188700 chr4B 411177585 411180455 2870 True 5302.0 5302 100.000 1 2871 1 chr4B.!!$R2 2870
1 TraesCS4B01G188700 chr4B 38607768 38608526 758 False 1125.0 1125 93.421 1 760 1 chr4B.!!$F1 759
2 TraesCS4B01G188700 chr1B 7318721 7321351 2630 True 4305.0 4305 96.395 1 2601 1 chr1B.!!$R1 2600
3 TraesCS4B01G188700 chr2B 600080155 600082730 2575 False 4248.0 4248 96.313 1 2601 1 chr2B.!!$F2 2600
4 TraesCS4B01G188700 chr2B 171100955 171101822 867 False 955.0 955 87.026 1304 2148 1 chr2B.!!$F1 844
5 TraesCS4B01G188700 chr2D 226333103 226335026 1923 False 2446.0 2446 89.634 1 1930 1 chr2D.!!$F1 1929
6 TraesCS4B01G188700 chr2D 621361661 621364186 2525 False 2122.5 3570 93.071 1 2599 2 chr2D.!!$F2 2598
7 TraesCS4B01G188700 chr5B 567866552 567869163 2611 True 2728.0 2728 85.886 1 2599 1 chr5B.!!$R2 2598
8 TraesCS4B01G188700 chr7A 683625613 683627567 1954 False 2606.0 2606 90.779 1 1954 1 chr7A.!!$F1 1953
9 TraesCS4B01G188700 chr7A 683508272 683510221 1949 True 2564.0 2564 90.413 1 1954 1 chr7A.!!$R1 1953
10 TraesCS4B01G188700 chr3D 535143500 535145661 2161 False 2512.0 2512 87.733 1 2178 1 chr3D.!!$F2 2177
11 TraesCS4B01G188700 chr6D 61812152 61814074 1922 True 2510.0 2510 90.226 1 1936 1 chr6D.!!$R1 1935
12 TraesCS4B01G188700 chr6B 127847146 127848619 1473 True 2285.0 2285 94.993 1155 2599 1 chr6B.!!$R1 1444
13 TraesCS4B01G188700 chr2A 480691995 480692626 631 True 920.0 920 92.902 4 637 1 chr2A.!!$R1 633
14 TraesCS4B01G188700 chr4A 645736201 645736841 640 True 880.0 880 91.433 1 642 1 chr4A.!!$R1 641
15 TraesCS4B01G188700 chr4A 645768742 645769382 640 True 874.0 874 91.277 1 642 1 chr4A.!!$R2 641

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
286 287 4.03451 CCACTCGGTATCAATTGAAAGAGC 59.965 45.833 21.85 15.29 0.0 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2046 2142 0.249955 TATACAGCAGCAGCAGCACA 59.75 50.0 12.92 0.0 45.49 4.57 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
162 163 7.495901 TGGCATTTTGTTCTCTTTAATTGTGA 58.504 30.769 0.00 0.00 0.00 3.58
276 277 4.202253 CCATTCAGATCCACTCGGTATCAA 60.202 45.833 0.00 0.00 0.00 2.57
286 287 4.034510 CCACTCGGTATCAATTGAAAGAGC 59.965 45.833 21.85 15.29 0.00 4.09
432 433 9.559958 CGCACTCAAAGTTTCTTTGATATAAAT 57.440 29.630 20.24 5.12 37.72 1.40
449 451 8.271458 TGATATAAATGACCAGGTACATGTGTT 58.729 33.333 9.11 0.00 0.00 3.32
598 604 6.238842 GCAGCATATGATGGACAACTTATTGT 60.239 38.462 21.71 0.00 40.81 2.71
841 847 6.894682 TGGGTTAGCAAGATGATGTATGTTA 58.105 36.000 0.00 0.00 0.00 2.41
1490 1505 7.734924 TGCACAATATACTCCAAAGATCATC 57.265 36.000 0.00 0.00 0.00 2.92
1538 1553 0.380378 TGAAACTGAAGCGCAACCAC 59.620 50.000 11.47 0.00 0.00 4.16
1562 1577 2.082140 ACCCGATGTAGTAGCCATCA 57.918 50.000 0.00 0.00 38.90 3.07
1570 1585 5.450550 CGATGTAGTAGCCATCAAAGACTCA 60.451 44.000 0.00 0.00 38.90 3.41
1571 1586 5.939764 TGTAGTAGCCATCAAAGACTCAT 57.060 39.130 0.00 0.00 0.00 2.90
1574 1589 3.776969 AGTAGCCATCAAAGACTCATCCA 59.223 43.478 0.00 0.00 0.00 3.41
2036 2102 0.662619 TGTTGTACAAGTGCTGCTGC 59.337 50.000 8.98 8.89 40.20 5.25
2046 2142 1.002888 AGTGCTGCTGCTGTTGTAGAT 59.997 47.619 17.00 0.00 40.48 1.98
2101 2262 3.942829 AGTGCTGCTGTTGTATATGTGT 58.057 40.909 0.00 0.00 0.00 3.72
2115 2283 1.830279 ATGTGTTGCTGCTGCTGTAT 58.170 45.000 17.00 2.01 40.48 2.29
2119 2287 2.938451 GTGTTGCTGCTGCTGTATATGA 59.062 45.455 17.00 0.00 40.48 2.15
2180 2350 1.263484 GCTGTATATGTGCTGCTGCTG 59.737 52.381 17.00 0.77 40.48 4.41
2181 2351 1.263484 CTGTATATGTGCTGCTGCTGC 59.737 52.381 22.51 22.51 40.48 5.25
2182 2352 1.134310 TGTATATGTGCTGCTGCTGCT 60.134 47.619 27.67 13.59 40.48 4.24
2219 2389 2.414481 CTGTGTATGTGCTGCTGTTCTC 59.586 50.000 0.00 0.00 0.00 2.87
2231 2401 3.282021 TGCTGTTCTCAGAAAGTGCTTT 58.718 40.909 8.42 0.00 43.76 3.51
2232 2402 3.313526 TGCTGTTCTCAGAAAGTGCTTTC 59.686 43.478 14.80 14.80 46.85 2.62
2245 2415 3.480470 AGTGCTTTCTGTATGTGTGCTT 58.520 40.909 0.00 0.00 0.00 3.91
2266 2436 6.710295 TGCTTTTCTAAGAAAGTGCTGATGTA 59.290 34.615 12.08 0.00 38.56 2.29
2601 2797 8.747471 TCAATATCAACATCCAAACAAAGCATA 58.253 29.630 0.00 0.00 0.00 3.14
2602 2798 9.537192 CAATATCAACATCCAAACAAAGCATAT 57.463 29.630 0.00 0.00 0.00 1.78
2603 2799 9.537192 AATATCAACATCCAAACAAAGCATATG 57.463 29.630 0.00 0.00 0.00 1.78
2604 2800 6.343716 TCAACATCCAAACAAAGCATATGT 57.656 33.333 4.29 0.00 0.00 2.29
2605 2801 6.157904 TCAACATCCAAACAAAGCATATGTG 58.842 36.000 4.29 0.00 0.00 3.21
2606 2802 5.981088 ACATCCAAACAAAGCATATGTGA 57.019 34.783 4.29 0.00 0.00 3.58
2607 2803 6.534475 ACATCCAAACAAAGCATATGTGAT 57.466 33.333 4.29 0.00 0.00 3.06
2608 2804 7.643569 ACATCCAAACAAAGCATATGTGATA 57.356 32.000 4.29 0.00 0.00 2.15
2609 2805 8.241497 ACATCCAAACAAAGCATATGTGATAT 57.759 30.769 4.29 0.00 0.00 1.63
2610 2806 8.698210 ACATCCAAACAAAGCATATGTGATATT 58.302 29.630 4.29 0.00 0.00 1.28
2611 2807 9.188588 CATCCAAACAAAGCATATGTGATATTC 57.811 33.333 4.29 0.00 0.00 1.75
2612 2808 8.523915 TCCAAACAAAGCATATGTGATATTCT 57.476 30.769 4.29 0.00 0.00 2.40
2613 2809 9.625747 TCCAAACAAAGCATATGTGATATTCTA 57.374 29.630 4.29 0.00 0.00 2.10
2614 2810 9.888878 CCAAACAAAGCATATGTGATATTCTAG 57.111 33.333 4.29 0.00 0.00 2.43
2615 2811 9.888878 CAAACAAAGCATATGTGATATTCTAGG 57.111 33.333 4.29 0.00 0.00 3.02
2616 2812 9.632638 AAACAAAGCATATGTGATATTCTAGGT 57.367 29.630 4.29 0.00 0.00 3.08
2617 2813 9.632638 AACAAAGCATATGTGATATTCTAGGTT 57.367 29.630 4.29 0.00 0.00 3.50
2618 2814 9.632638 ACAAAGCATATGTGATATTCTAGGTTT 57.367 29.630 4.29 0.00 0.00 3.27
2620 2816 8.854614 AAGCATATGTGATATTCTAGGTTTCC 57.145 34.615 4.29 0.00 0.00 3.13
2621 2817 7.977818 AGCATATGTGATATTCTAGGTTTCCA 58.022 34.615 4.29 0.00 0.00 3.53
2622 2818 8.609483 AGCATATGTGATATTCTAGGTTTCCAT 58.391 33.333 4.29 0.00 0.00 3.41
2623 2819 8.671921 GCATATGTGATATTCTAGGTTTCCATG 58.328 37.037 4.29 0.00 0.00 3.66
2624 2820 9.948964 CATATGTGATATTCTAGGTTTCCATGA 57.051 33.333 0.00 0.00 0.00 3.07
2627 2823 8.267620 TGTGATATTCTAGGTTTCCATGATCT 57.732 34.615 0.00 0.00 0.00 2.75
2628 2824 8.717717 TGTGATATTCTAGGTTTCCATGATCTT 58.282 33.333 0.00 0.00 0.00 2.40
2629 2825 8.997323 GTGATATTCTAGGTTTCCATGATCTTG 58.003 37.037 0.00 1.60 0.00 3.02
2630 2826 8.937835 TGATATTCTAGGTTTCCATGATCTTGA 58.062 33.333 10.07 0.00 0.00 3.02
2631 2827 9.956640 GATATTCTAGGTTTCCATGATCTTGAT 57.043 33.333 10.07 0.00 0.00 2.57
2632 2828 9.736414 ATATTCTAGGTTTCCATGATCTTGATG 57.264 33.333 10.07 0.00 0.00 3.07
2633 2829 6.813293 TCTAGGTTTCCATGATCTTGATGA 57.187 37.500 10.07 0.00 0.00 2.92
2634 2830 7.384524 TCTAGGTTTCCATGATCTTGATGAT 57.615 36.000 10.07 0.00 38.27 2.45
2635 2831 7.809238 TCTAGGTTTCCATGATCTTGATGATT 58.191 34.615 10.07 0.00 35.14 2.57
2636 2832 6.710597 AGGTTTCCATGATCTTGATGATTG 57.289 37.500 10.07 0.00 35.14 2.67
2637 2833 5.068723 AGGTTTCCATGATCTTGATGATTGC 59.931 40.000 10.07 0.00 35.14 3.56
2638 2834 5.068723 GGTTTCCATGATCTTGATGATTGCT 59.931 40.000 10.07 0.00 35.14 3.91
2639 2835 6.207213 GTTTCCATGATCTTGATGATTGCTC 58.793 40.000 10.07 0.00 35.14 4.26
2640 2836 5.306114 TCCATGATCTTGATGATTGCTCT 57.694 39.130 10.07 0.00 35.14 4.09
2641 2837 5.691896 TCCATGATCTTGATGATTGCTCTT 58.308 37.500 10.07 0.00 35.14 2.85
2642 2838 6.127101 TCCATGATCTTGATGATTGCTCTTT 58.873 36.000 10.07 0.00 35.14 2.52
2643 2839 7.284820 TCCATGATCTTGATGATTGCTCTTTA 58.715 34.615 10.07 0.00 35.14 1.85
2644 2840 7.776500 TCCATGATCTTGATGATTGCTCTTTAA 59.224 33.333 10.07 0.00 35.14 1.52
2645 2841 8.410912 CCATGATCTTGATGATTGCTCTTTAAA 58.589 33.333 10.07 0.00 35.14 1.52
2646 2842 9.967346 CATGATCTTGATGATTGCTCTTTAAAT 57.033 29.630 2.43 0.00 35.14 1.40
2650 2846 8.470040 TCTTGATGATTGCTCTTTAAATTTGC 57.530 30.769 0.00 0.00 0.00 3.68
2651 2847 8.089597 TCTTGATGATTGCTCTTTAAATTTGCA 58.910 29.630 0.00 0.00 0.00 4.08
2652 2848 7.585286 TGATGATTGCTCTTTAAATTTGCAC 57.415 32.000 0.00 0.00 33.13 4.57
2653 2849 6.591062 TGATGATTGCTCTTTAAATTTGCACC 59.409 34.615 0.00 0.00 33.13 5.01
2654 2850 6.100404 TGATTGCTCTTTAAATTTGCACCT 57.900 33.333 0.00 0.00 33.13 4.00
2655 2851 6.523840 TGATTGCTCTTTAAATTTGCACCTT 58.476 32.000 0.00 0.00 33.13 3.50
2656 2852 6.424509 TGATTGCTCTTTAAATTTGCACCTTG 59.575 34.615 0.00 0.00 33.13 3.61
2657 2853 4.057432 TGCTCTTTAAATTTGCACCTTGC 58.943 39.130 0.00 0.00 45.29 4.01
2666 2862 2.877691 GCACCTTGCGGATTCCAC 59.122 61.111 3.09 0.00 31.71 4.02
2667 2863 2.700773 GCACCTTGCGGATTCCACC 61.701 63.158 3.09 0.00 31.71 4.61
2668 2864 1.303236 CACCTTGCGGATTCCACCA 60.303 57.895 3.09 0.00 0.00 4.17
2669 2865 0.680921 CACCTTGCGGATTCCACCAT 60.681 55.000 3.09 0.00 0.00 3.55
2670 2866 0.039618 ACCTTGCGGATTCCACCATT 59.960 50.000 3.09 0.00 0.00 3.16
2671 2867 1.283613 ACCTTGCGGATTCCACCATTA 59.716 47.619 3.09 0.00 0.00 1.90
2672 2868 2.291282 ACCTTGCGGATTCCACCATTAA 60.291 45.455 3.09 0.00 0.00 1.40
2673 2869 2.757868 CCTTGCGGATTCCACCATTAAA 59.242 45.455 3.09 0.00 0.00 1.52
2674 2870 3.194542 CCTTGCGGATTCCACCATTAAAA 59.805 43.478 3.09 0.00 0.00 1.52
2675 2871 4.322349 CCTTGCGGATTCCACCATTAAAAA 60.322 41.667 3.09 0.00 0.00 1.94
2676 2872 4.448537 TGCGGATTCCACCATTAAAAAG 57.551 40.909 3.09 0.00 0.00 2.27
2677 2873 3.186909 GCGGATTCCACCATTAAAAAGC 58.813 45.455 3.09 0.00 0.00 3.51
2678 2874 3.780902 CGGATTCCACCATTAAAAAGCC 58.219 45.455 3.09 0.00 0.00 4.35
2679 2875 3.194542 CGGATTCCACCATTAAAAAGCCA 59.805 43.478 3.09 0.00 0.00 4.75
2680 2876 4.322349 CGGATTCCACCATTAAAAAGCCAA 60.322 41.667 3.09 0.00 0.00 4.52
2681 2877 5.626578 CGGATTCCACCATTAAAAAGCCAAT 60.627 40.000 3.09 0.00 0.00 3.16
2682 2878 5.585844 GGATTCCACCATTAAAAAGCCAATG 59.414 40.000 0.00 0.00 32.94 2.82
2688 2884 4.516323 CCATTAAAAAGCCAATGGGAAGG 58.484 43.478 0.00 0.00 44.97 3.46
2689 2885 4.224818 CCATTAAAAAGCCAATGGGAAGGA 59.775 41.667 0.00 0.00 44.97 3.36
2690 2886 5.104402 CCATTAAAAAGCCAATGGGAAGGAT 60.104 40.000 0.00 0.00 44.97 3.24
2691 2887 5.675684 TTAAAAAGCCAATGGGAAGGATC 57.324 39.130 0.00 0.00 35.59 3.36
2692 2888 2.925966 AAAGCCAATGGGAAGGATCA 57.074 45.000 0.00 0.00 35.59 2.92
2693 2889 2.925966 AAGCCAATGGGAAGGATCAA 57.074 45.000 0.00 0.00 35.59 2.57
2694 2890 3.409804 AAGCCAATGGGAAGGATCAAT 57.590 42.857 0.00 0.00 35.59 2.57
2695 2891 2.674420 AGCCAATGGGAAGGATCAATG 58.326 47.619 0.00 0.00 35.59 2.82
2696 2892 2.245546 AGCCAATGGGAAGGATCAATGA 59.754 45.455 0.00 0.00 35.59 2.57
2697 2893 3.116862 AGCCAATGGGAAGGATCAATGAT 60.117 43.478 0.00 0.00 35.59 2.45
2698 2894 3.006537 GCCAATGGGAAGGATCAATGATG 59.993 47.826 0.00 0.00 35.59 3.07
2699 2895 4.220724 CCAATGGGAAGGATCAATGATGT 58.779 43.478 0.00 0.00 35.59 3.06
2700 2896 4.652421 CCAATGGGAAGGATCAATGATGTT 59.348 41.667 0.00 0.00 35.59 2.71
2701 2897 5.221382 CCAATGGGAAGGATCAATGATGTTC 60.221 44.000 0.00 3.55 35.59 3.18
2702 2898 4.868172 TGGGAAGGATCAATGATGTTCT 57.132 40.909 0.00 0.00 0.00 3.01
2703 2899 5.974156 TGGGAAGGATCAATGATGTTCTA 57.026 39.130 0.00 0.00 0.00 2.10
2704 2900 6.325993 TGGGAAGGATCAATGATGTTCTAA 57.674 37.500 0.00 0.00 0.00 2.10
2705 2901 6.914665 TGGGAAGGATCAATGATGTTCTAAT 58.085 36.000 0.00 0.00 0.00 1.73
2706 2902 7.356680 TGGGAAGGATCAATGATGTTCTAATT 58.643 34.615 0.00 0.00 0.00 1.40
2707 2903 7.286087 TGGGAAGGATCAATGATGTTCTAATTG 59.714 37.037 0.00 0.00 33.50 2.32
2708 2904 7.286316 GGGAAGGATCAATGATGTTCTAATTGT 59.714 37.037 0.00 0.00 33.84 2.71
2709 2905 8.689972 GGAAGGATCAATGATGTTCTAATTGTT 58.310 33.333 0.00 0.00 33.84 2.83
2710 2906 9.512435 GAAGGATCAATGATGTTCTAATTGTTG 57.488 33.333 0.00 0.00 33.84 3.33
2711 2907 7.486647 AGGATCAATGATGTTCTAATTGTTGC 58.513 34.615 0.00 0.00 33.84 4.17
2712 2908 7.341256 AGGATCAATGATGTTCTAATTGTTGCT 59.659 33.333 0.00 0.00 33.84 3.91
2713 2909 8.623903 GGATCAATGATGTTCTAATTGTTGCTA 58.376 33.333 0.00 0.00 33.84 3.49
2715 2911 9.793252 ATCAATGATGTTCTAATTGTTGCTAAC 57.207 29.630 0.00 0.00 33.84 2.34
2716 2912 8.791675 TCAATGATGTTCTAATTGTTGCTAACA 58.208 29.630 0.00 0.00 40.21 2.41
2717 2913 9.069078 CAATGATGTTCTAATTGTTGCTAACAG 57.931 33.333 0.00 0.00 43.27 3.16
2718 2914 7.977789 TGATGTTCTAATTGTTGCTAACAGA 57.022 32.000 0.00 0.00 43.27 3.41
2719 2915 8.389779 TGATGTTCTAATTGTTGCTAACAGAA 57.610 30.769 0.00 0.00 43.27 3.02
2720 2916 8.845227 TGATGTTCTAATTGTTGCTAACAGAAA 58.155 29.630 0.00 0.00 43.27 2.52
2721 2917 9.118236 GATGTTCTAATTGTTGCTAACAGAAAC 57.882 33.333 0.00 0.00 43.27 2.78
2722 2918 8.220755 TGTTCTAATTGTTGCTAACAGAAACT 57.779 30.769 0.00 0.00 43.27 2.66
2723 2919 8.682710 TGTTCTAATTGTTGCTAACAGAAACTT 58.317 29.630 0.00 0.00 43.27 2.66
2724 2920 8.958043 GTTCTAATTGTTGCTAACAGAAACTTG 58.042 33.333 0.00 0.00 43.27 3.16
2725 2921 7.648142 TCTAATTGTTGCTAACAGAAACTTGG 58.352 34.615 0.00 0.00 43.27 3.61
2726 2922 3.708563 TGTTGCTAACAGAAACTTGGC 57.291 42.857 0.00 0.00 34.75 4.52
2727 2923 2.032799 TGTTGCTAACAGAAACTTGGCG 59.967 45.455 0.00 0.00 34.75 5.69
2728 2924 0.591170 TGCTAACAGAAACTTGGCGC 59.409 50.000 0.00 0.00 0.00 6.53
2729 2925 0.109735 GCTAACAGAAACTTGGCGCC 60.110 55.000 22.73 22.73 0.00 6.53
2730 2926 0.521735 CTAACAGAAACTTGGCGCCC 59.478 55.000 26.77 7.06 0.00 6.13
2731 2927 1.231958 TAACAGAAACTTGGCGCCCG 61.232 55.000 26.77 17.93 0.00 6.13
2732 2928 2.978010 CAGAAACTTGGCGCCCGT 60.978 61.111 26.77 18.68 0.00 5.28
2733 2929 2.203294 AGAAACTTGGCGCCCGTT 60.203 55.556 26.77 23.56 0.00 4.44
2734 2930 2.050442 GAAACTTGGCGCCCGTTG 60.050 61.111 26.77 13.61 0.00 4.10
2735 2931 2.517402 AAACTTGGCGCCCGTTGA 60.517 55.556 26.77 0.09 0.00 3.18
2736 2932 1.862602 GAAACTTGGCGCCCGTTGAT 61.863 55.000 26.77 12.93 0.00 2.57
2737 2933 1.460273 AAACTTGGCGCCCGTTGATT 61.460 50.000 26.77 9.61 0.00 2.57
2738 2934 1.460273 AACTTGGCGCCCGTTGATTT 61.460 50.000 26.77 4.26 0.00 2.17
2739 2935 1.288752 CTTGGCGCCCGTTGATTTT 59.711 52.632 26.77 0.00 0.00 1.82
2740 2936 0.523966 CTTGGCGCCCGTTGATTTTA 59.476 50.000 26.77 0.00 0.00 1.52
2741 2937 1.134175 CTTGGCGCCCGTTGATTTTAT 59.866 47.619 26.77 0.00 0.00 1.40
2742 2938 0.736053 TGGCGCCCGTTGATTTTATC 59.264 50.000 26.77 0.00 0.00 1.75
2743 2939 0.316689 GGCGCCCGTTGATTTTATCG 60.317 55.000 18.11 0.00 0.00 2.92
2744 2940 0.375803 GCGCCCGTTGATTTTATCGT 59.624 50.000 0.00 0.00 0.00 3.73
2745 2941 1.202098 GCGCCCGTTGATTTTATCGTT 60.202 47.619 0.00 0.00 0.00 3.85
2746 2942 2.700694 CGCCCGTTGATTTTATCGTTC 58.299 47.619 0.00 0.00 0.00 3.95
2747 2943 2.350498 CGCCCGTTGATTTTATCGTTCT 59.650 45.455 0.00 0.00 0.00 3.01
2748 2944 3.181514 CGCCCGTTGATTTTATCGTTCTT 60.182 43.478 0.00 0.00 0.00 2.52
2749 2945 4.095610 GCCCGTTGATTTTATCGTTCTTG 58.904 43.478 0.00 0.00 0.00 3.02
2750 2946 4.142773 GCCCGTTGATTTTATCGTTCTTGA 60.143 41.667 0.00 0.00 0.00 3.02
2751 2947 5.448632 GCCCGTTGATTTTATCGTTCTTGAT 60.449 40.000 0.00 0.00 0.00 2.57
2752 2948 6.238266 GCCCGTTGATTTTATCGTTCTTGATA 60.238 38.462 0.00 0.00 0.00 2.15
2753 2949 7.519970 GCCCGTTGATTTTATCGTTCTTGATAT 60.520 37.037 0.00 0.00 31.24 1.63
2754 2950 8.984764 CCCGTTGATTTTATCGTTCTTGATATA 58.015 33.333 0.00 0.00 31.24 0.86
2766 2962 8.893219 TCGTTCTTGATATAGATTGCAATCTT 57.107 30.769 39.03 28.48 42.96 2.40
2767 2963 9.330063 TCGTTCTTGATATAGATTGCAATCTTT 57.670 29.630 39.03 33.10 42.96 2.52
2768 2964 9.591404 CGTTCTTGATATAGATTGCAATCTTTC 57.409 33.333 39.03 30.84 42.96 2.62
2783 2979 7.282332 GCAATCTTTCTTGCCCTATTATTCT 57.718 36.000 0.00 0.00 44.56 2.40
2784 2980 7.720442 GCAATCTTTCTTGCCCTATTATTCTT 58.280 34.615 0.00 0.00 44.56 2.52
2785 2981 7.650903 GCAATCTTTCTTGCCCTATTATTCTTG 59.349 37.037 0.00 0.00 44.56 3.02
2786 2982 7.830099 ATCTTTCTTGCCCTATTATTCTTGG 57.170 36.000 0.00 0.00 0.00 3.61
2787 2983 6.731467 TCTTTCTTGCCCTATTATTCTTGGT 58.269 36.000 0.00 0.00 0.00 3.67
2788 2984 7.182060 TCTTTCTTGCCCTATTATTCTTGGTT 58.818 34.615 0.00 0.00 0.00 3.67
2789 2985 6.773976 TTCTTGCCCTATTATTCTTGGTTG 57.226 37.500 0.00 0.00 0.00 3.77
2790 2986 6.073447 TCTTGCCCTATTATTCTTGGTTGA 57.927 37.500 0.00 0.00 0.00 3.18
2791 2987 5.885912 TCTTGCCCTATTATTCTTGGTTGAC 59.114 40.000 0.00 0.00 0.00 3.18
2792 2988 4.532834 TGCCCTATTATTCTTGGTTGACC 58.467 43.478 0.00 0.00 0.00 4.02
2793 2989 4.229582 TGCCCTATTATTCTTGGTTGACCT 59.770 41.667 1.34 0.00 36.82 3.85
2794 2990 5.201243 GCCCTATTATTCTTGGTTGACCTT 58.799 41.667 1.34 0.00 36.82 3.50
2795 2991 5.656859 GCCCTATTATTCTTGGTTGACCTTT 59.343 40.000 1.34 0.00 36.82 3.11
2796 2992 6.183360 GCCCTATTATTCTTGGTTGACCTTTC 60.183 42.308 1.34 0.00 36.82 2.62
2797 2993 6.321435 CCCTATTATTCTTGGTTGACCTTTCC 59.679 42.308 1.34 0.00 36.82 3.13
2798 2994 7.119387 CCTATTATTCTTGGTTGACCTTTCCT 58.881 38.462 1.34 0.00 36.82 3.36
2799 2995 7.615757 CCTATTATTCTTGGTTGACCTTTCCTT 59.384 37.037 1.34 0.00 36.82 3.36
2800 2996 9.681062 CTATTATTCTTGGTTGACCTTTCCTTA 57.319 33.333 1.34 0.00 36.82 2.69
2801 2997 7.996098 TTATTCTTGGTTGACCTTTCCTTAG 57.004 36.000 1.34 0.00 36.82 2.18
2802 2998 5.640158 TTCTTGGTTGACCTTTCCTTAGA 57.360 39.130 1.34 0.00 36.82 2.10
2803 2999 5.640158 TCTTGGTTGACCTTTCCTTAGAA 57.360 39.130 1.34 0.00 36.82 2.10
2804 3000 6.200878 TCTTGGTTGACCTTTCCTTAGAAT 57.799 37.500 1.34 0.00 36.82 2.40
2805 3001 6.003950 TCTTGGTTGACCTTTCCTTAGAATG 58.996 40.000 1.34 0.00 36.82 2.67
2806 3002 5.576563 TGGTTGACCTTTCCTTAGAATGA 57.423 39.130 1.34 0.00 36.82 2.57
2807 3003 6.139679 TGGTTGACCTTTCCTTAGAATGAT 57.860 37.500 1.34 0.00 36.82 2.45
2808 3004 6.552008 TGGTTGACCTTTCCTTAGAATGATT 58.448 36.000 1.34 0.00 36.82 2.57
2809 3005 6.434028 TGGTTGACCTTTCCTTAGAATGATTG 59.566 38.462 1.34 0.00 36.82 2.67
2810 3006 6.127619 GGTTGACCTTTCCTTAGAATGATTGG 60.128 42.308 0.00 0.00 30.53 3.16
2811 3007 6.139679 TGACCTTTCCTTAGAATGATTGGT 57.860 37.500 0.00 0.00 30.53 3.67
2812 3008 5.945784 TGACCTTTCCTTAGAATGATTGGTG 59.054 40.000 0.00 0.00 30.53 4.17
2813 3009 4.706962 ACCTTTCCTTAGAATGATTGGTGC 59.293 41.667 0.00 0.00 30.53 5.01
2814 3010 4.201950 CCTTTCCTTAGAATGATTGGTGCG 60.202 45.833 0.00 0.00 30.53 5.34
2815 3011 3.904800 TCCTTAGAATGATTGGTGCGA 57.095 42.857 0.00 0.00 0.00 5.10
2816 3012 4.422073 TCCTTAGAATGATTGGTGCGAT 57.578 40.909 0.00 0.00 0.00 4.58
2817 3013 4.780815 TCCTTAGAATGATTGGTGCGATT 58.219 39.130 0.00 0.00 0.00 3.34
2818 3014 5.924356 TCCTTAGAATGATTGGTGCGATTA 58.076 37.500 0.00 0.00 0.00 1.75
2819 3015 6.533730 TCCTTAGAATGATTGGTGCGATTAT 58.466 36.000 0.00 0.00 0.00 1.28
2820 3016 6.998074 TCCTTAGAATGATTGGTGCGATTATT 59.002 34.615 0.00 0.00 0.00 1.40
2821 3017 7.041167 TCCTTAGAATGATTGGTGCGATTATTG 60.041 37.037 0.00 0.00 0.00 1.90
2822 3018 7.041167 CCTTAGAATGATTGGTGCGATTATTGA 60.041 37.037 0.00 0.00 0.00 2.57
2823 3019 6.889301 AGAATGATTGGTGCGATTATTGAT 57.111 33.333 0.00 0.00 0.00 2.57
2824 3020 7.984422 AGAATGATTGGTGCGATTATTGATA 57.016 32.000 0.00 0.00 0.00 2.15
2825 3021 8.571461 AGAATGATTGGTGCGATTATTGATAT 57.429 30.769 0.00 0.00 0.00 1.63
2826 3022 8.456471 AGAATGATTGGTGCGATTATTGATATG 58.544 33.333 0.00 0.00 0.00 1.78
2827 3023 7.926674 ATGATTGGTGCGATTATTGATATGA 57.073 32.000 0.00 0.00 0.00 2.15
2828 3024 7.742556 TGATTGGTGCGATTATTGATATGAA 57.257 32.000 0.00 0.00 0.00 2.57
2829 3025 7.809665 TGATTGGTGCGATTATTGATATGAAG 58.190 34.615 0.00 0.00 0.00 3.02
2830 3026 7.661027 TGATTGGTGCGATTATTGATATGAAGA 59.339 33.333 0.00 0.00 0.00 2.87
2831 3027 7.800155 TTGGTGCGATTATTGATATGAAGAA 57.200 32.000 0.00 0.00 0.00 2.52
2832 3028 7.800155 TGGTGCGATTATTGATATGAAGAAA 57.200 32.000 0.00 0.00 0.00 2.52
2833 3029 7.864686 TGGTGCGATTATTGATATGAAGAAAG 58.135 34.615 0.00 0.00 0.00 2.62
2834 3030 7.041167 TGGTGCGATTATTGATATGAAGAAAGG 60.041 37.037 0.00 0.00 0.00 3.11
2835 3031 7.301054 GTGCGATTATTGATATGAAGAAAGGG 58.699 38.462 0.00 0.00 0.00 3.95
2836 3032 7.173218 GTGCGATTATTGATATGAAGAAAGGGA 59.827 37.037 0.00 0.00 0.00 4.20
2837 3033 7.719193 TGCGATTATTGATATGAAGAAAGGGAA 59.281 33.333 0.00 0.00 0.00 3.97
2838 3034 8.734386 GCGATTATTGATATGAAGAAAGGGAAT 58.266 33.333 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
162 163 5.833131 AGTCAATTAGGTTGGTTGTGACATT 59.167 36.000 0.00 0.00 38.39 2.71
276 277 1.747355 CTTGATGCCCGCTCTTTCAAT 59.253 47.619 0.00 0.00 0.00 2.57
286 287 1.236616 TGTTGCTGACTTGATGCCCG 61.237 55.000 0.00 0.00 0.00 6.13
432 433 4.071423 CAATGAACACATGTACCTGGTCA 58.929 43.478 0.63 0.33 0.00 4.02
449 451 5.662208 AGGCATCATATTGAAAACCCAATGA 59.338 36.000 0.00 0.00 37.34 2.57
516 522 6.978338 AGCATTAATGATTCGAATCTGCAAT 58.022 32.000 32.94 25.56 35.36 3.56
616 622 5.420725 TCAATTGGCTGAGAAGCTAGTTA 57.579 39.130 5.42 0.00 34.73 2.24
841 847 5.491982 CCAACATCTAGCTAGACCAAAAGT 58.508 41.667 25.52 13.64 34.72 2.66
1490 1505 1.178534 ATTGCACCTTCACCGGTTGG 61.179 55.000 2.97 10.68 42.84 3.77
1538 1553 1.068741 GGCTACTACATCGGGTTCTGG 59.931 57.143 0.00 0.00 0.00 3.86
1562 1577 3.896888 TGTGGCATTTTGGATGAGTCTTT 59.103 39.130 0.00 0.00 0.00 2.52
1798 1816 2.709475 GGCAACTCCATAAGCGCG 59.291 61.111 0.00 0.00 34.01 6.86
1998 2054 9.431887 GTACAACAGGAACACTTATAAATCAGA 57.568 33.333 0.00 0.00 0.00 3.27
2036 2102 1.129998 GCAGCAGCACATCTACAACAG 59.870 52.381 0.00 0.00 41.58 3.16
2046 2142 0.249955 TATACAGCAGCAGCAGCACA 59.750 50.000 12.92 0.00 45.49 4.57
2101 2262 2.158856 AGCTCATATACAGCAGCAGCAA 60.159 45.455 3.17 0.00 45.49 3.91
2180 2350 1.135746 CAGCAGCACTTTCTTAGCAGC 60.136 52.381 0.00 0.00 40.51 5.25
2181 2351 2.095869 CACAGCAGCACTTTCTTAGCAG 60.096 50.000 0.00 0.00 0.00 4.24
2182 2352 1.875514 CACAGCAGCACTTTCTTAGCA 59.124 47.619 0.00 0.00 0.00 3.49
2231 2401 7.715249 ACTTTCTTAGAAAAGCACACATACAGA 59.285 33.333 8.82 0.00 39.39 3.41
2232 2402 7.800380 CACTTTCTTAGAAAAGCACACATACAG 59.200 37.037 8.82 0.00 39.39 2.74
2233 2403 7.639039 CACTTTCTTAGAAAAGCACACATACA 58.361 34.615 8.82 0.00 39.39 2.29
2234 2404 6.578919 GCACTTTCTTAGAAAAGCACACATAC 59.421 38.462 19.84 0.00 39.39 2.39
2235 2405 6.486657 AGCACTTTCTTAGAAAAGCACACATA 59.513 34.615 23.87 0.00 39.39 2.29
2236 2406 5.300286 AGCACTTTCTTAGAAAAGCACACAT 59.700 36.000 23.87 8.62 39.39 3.21
2237 2407 4.640201 AGCACTTTCTTAGAAAAGCACACA 59.360 37.500 23.87 0.00 39.39 3.72
2238 2408 4.972440 CAGCACTTTCTTAGAAAAGCACAC 59.028 41.667 23.87 7.66 39.39 3.82
2239 2409 4.881273 TCAGCACTTTCTTAGAAAAGCACA 59.119 37.500 23.87 12.92 39.39 4.57
2240 2410 5.424121 TCAGCACTTTCTTAGAAAAGCAC 57.576 39.130 23.87 10.04 39.39 4.40
2245 2415 9.890629 ACATATACATCAGCACTTTCTTAGAAA 57.109 29.630 7.22 7.22 0.00 2.52
2266 2436 0.393944 ACAGCAGCTGCAGCACATAT 60.394 50.000 38.24 19.08 45.16 1.78
2322 2492 4.894784 TGCACTTAACCAAAACCAACAAA 58.105 34.783 0.00 0.00 0.00 2.83
2359 2529 7.984617 ACTTTGTTGTAATGTTTAAATGGCAGT 59.015 29.630 0.00 0.00 0.00 4.40
2601 2797 8.888419 AGATCATGGAAACCTAGAATATCACAT 58.112 33.333 0.00 0.00 0.00 3.21
2602 2798 8.267620 AGATCATGGAAACCTAGAATATCACA 57.732 34.615 0.00 0.00 0.00 3.58
2603 2799 8.997323 CAAGATCATGGAAACCTAGAATATCAC 58.003 37.037 0.00 0.00 0.00 3.06
2604 2800 8.937835 TCAAGATCATGGAAACCTAGAATATCA 58.062 33.333 0.00 0.00 0.00 2.15
2605 2801 9.956640 ATCAAGATCATGGAAACCTAGAATATC 57.043 33.333 0.00 0.00 0.00 1.63
2606 2802 9.736414 CATCAAGATCATGGAAACCTAGAATAT 57.264 33.333 0.00 0.00 0.00 1.28
2607 2803 8.937835 TCATCAAGATCATGGAAACCTAGAATA 58.062 33.333 0.00 0.00 0.00 1.75
2608 2804 7.809238 TCATCAAGATCATGGAAACCTAGAAT 58.191 34.615 0.00 0.00 0.00 2.40
2609 2805 7.199167 TCATCAAGATCATGGAAACCTAGAA 57.801 36.000 0.00 0.00 0.00 2.10
2610 2806 6.813293 TCATCAAGATCATGGAAACCTAGA 57.187 37.500 0.00 0.00 0.00 2.43
2611 2807 7.521748 GCAATCATCAAGATCATGGAAACCTAG 60.522 40.741 0.00 0.00 35.39 3.02
2612 2808 6.263842 GCAATCATCAAGATCATGGAAACCTA 59.736 38.462 0.00 0.00 35.39 3.08
2613 2809 5.068723 GCAATCATCAAGATCATGGAAACCT 59.931 40.000 0.00 0.00 35.39 3.50
2614 2810 5.068723 AGCAATCATCAAGATCATGGAAACC 59.931 40.000 0.00 0.00 35.39 3.27
2615 2811 6.039493 AGAGCAATCATCAAGATCATGGAAAC 59.961 38.462 0.00 0.00 35.39 2.78
2616 2812 6.127101 AGAGCAATCATCAAGATCATGGAAA 58.873 36.000 0.00 0.00 35.39 3.13
2617 2813 5.691896 AGAGCAATCATCAAGATCATGGAA 58.308 37.500 0.00 0.00 35.39 3.53
2618 2814 5.306114 AGAGCAATCATCAAGATCATGGA 57.694 39.130 0.00 0.00 35.39 3.41
2619 2815 6.392625 AAAGAGCAATCATCAAGATCATGG 57.607 37.500 0.00 0.00 35.39 3.66
2620 2816 9.967346 ATTTAAAGAGCAATCATCAAGATCATG 57.033 29.630 0.00 0.00 35.39 3.07
2624 2820 9.095065 GCAAATTTAAAGAGCAATCATCAAGAT 57.905 29.630 0.00 0.00 39.09 2.40
2625 2821 8.089597 TGCAAATTTAAAGAGCAATCATCAAGA 58.910 29.630 8.89 0.00 31.42 3.02
2626 2822 8.166706 GTGCAAATTTAAAGAGCAATCATCAAG 58.833 33.333 11.92 0.00 36.91 3.02
2627 2823 7.118101 GGTGCAAATTTAAAGAGCAATCATCAA 59.882 33.333 11.92 0.00 36.91 2.57
2628 2824 6.591062 GGTGCAAATTTAAAGAGCAATCATCA 59.409 34.615 11.92 0.00 36.91 3.07
2629 2825 6.815142 AGGTGCAAATTTAAAGAGCAATCATC 59.185 34.615 11.92 2.52 36.91 2.92
2630 2826 6.704310 AGGTGCAAATTTAAAGAGCAATCAT 58.296 32.000 11.92 0.00 36.91 2.45
2631 2827 6.100404 AGGTGCAAATTTAAAGAGCAATCA 57.900 33.333 11.92 0.00 36.91 2.57
2632 2828 6.619232 GCAAGGTGCAAATTTAAAGAGCAATC 60.619 38.462 11.92 8.66 44.26 2.67
2633 2829 5.179929 GCAAGGTGCAAATTTAAAGAGCAAT 59.820 36.000 11.92 4.02 44.26 3.56
2634 2830 4.511082 GCAAGGTGCAAATTTAAAGAGCAA 59.489 37.500 11.92 0.00 44.26 3.91
2635 2831 4.057432 GCAAGGTGCAAATTTAAAGAGCA 58.943 39.130 7.62 7.62 44.26 4.26
2636 2832 3.121778 CGCAAGGTGCAAATTTAAAGAGC 59.878 43.478 0.61 0.00 45.36 4.09
2637 2833 4.891277 CGCAAGGTGCAAATTTAAAGAG 57.109 40.909 0.61 0.00 45.36 2.85
2653 2849 4.448537 TTTTAATGGTGGAATCCGCAAG 57.551 40.909 15.39 0.00 35.42 4.01
2654 2850 4.815269 CTTTTTAATGGTGGAATCCGCAA 58.185 39.130 15.39 3.25 35.42 4.85
2655 2851 3.367910 GCTTTTTAATGGTGGAATCCGCA 60.368 43.478 15.39 1.39 35.42 5.69
2656 2852 3.186909 GCTTTTTAATGGTGGAATCCGC 58.813 45.455 3.84 3.84 0.00 5.54
2657 2853 3.194542 TGGCTTTTTAATGGTGGAATCCG 59.805 43.478 0.00 0.00 0.00 4.18
2658 2854 4.817318 TGGCTTTTTAATGGTGGAATCC 57.183 40.909 0.00 0.00 0.00 3.01
2659 2855 5.585844 CCATTGGCTTTTTAATGGTGGAATC 59.414 40.000 7.62 0.00 45.23 2.52
2660 2856 5.499313 CCATTGGCTTTTTAATGGTGGAAT 58.501 37.500 7.62 0.00 45.23 3.01
2661 2857 4.904241 CCATTGGCTTTTTAATGGTGGAA 58.096 39.130 7.62 0.00 45.23 3.53
2662 2858 4.550076 CCATTGGCTTTTTAATGGTGGA 57.450 40.909 7.62 0.00 45.23 4.02
2667 2863 5.419239 TCCTTCCCATTGGCTTTTTAATG 57.581 39.130 0.00 0.00 34.79 1.90
2668 2864 5.725822 TGATCCTTCCCATTGGCTTTTTAAT 59.274 36.000 0.00 0.00 0.00 1.40
2669 2865 5.090139 TGATCCTTCCCATTGGCTTTTTAA 58.910 37.500 0.00 0.00 0.00 1.52
2670 2866 4.682563 TGATCCTTCCCATTGGCTTTTTA 58.317 39.130 0.00 0.00 0.00 1.52
2671 2867 3.519667 TGATCCTTCCCATTGGCTTTTT 58.480 40.909 0.00 0.00 0.00 1.94
2672 2868 3.188880 TGATCCTTCCCATTGGCTTTT 57.811 42.857 0.00 0.00 0.00 2.27
2673 2869 2.925966 TGATCCTTCCCATTGGCTTT 57.074 45.000 0.00 0.00 0.00 3.51
2674 2870 2.925966 TTGATCCTTCCCATTGGCTT 57.074 45.000 0.00 0.00 0.00 4.35
2675 2871 2.245546 TCATTGATCCTTCCCATTGGCT 59.754 45.455 0.00 0.00 0.00 4.75
2676 2872 2.669781 TCATTGATCCTTCCCATTGGC 58.330 47.619 0.00 0.00 0.00 4.52
2677 2873 4.220724 ACATCATTGATCCTTCCCATTGG 58.779 43.478 0.00 0.00 0.00 3.16
2678 2874 5.597182 AGAACATCATTGATCCTTCCCATTG 59.403 40.000 0.00 0.00 0.00 2.82
2679 2875 5.774179 AGAACATCATTGATCCTTCCCATT 58.226 37.500 0.00 0.00 0.00 3.16
2680 2876 5.399052 AGAACATCATTGATCCTTCCCAT 57.601 39.130 0.00 0.00 0.00 4.00
2681 2877 4.868172 AGAACATCATTGATCCTTCCCA 57.132 40.909 0.00 0.00 0.00 4.37
2682 2878 7.286316 ACAATTAGAACATCATTGATCCTTCCC 59.714 37.037 0.00 0.00 33.02 3.97
2683 2879 8.230472 ACAATTAGAACATCATTGATCCTTCC 57.770 34.615 0.00 0.00 33.02 3.46
2684 2880 9.512435 CAACAATTAGAACATCATTGATCCTTC 57.488 33.333 0.00 1.42 33.02 3.46
2685 2881 7.977853 GCAACAATTAGAACATCATTGATCCTT 59.022 33.333 0.00 0.00 33.02 3.36
2686 2882 7.341256 AGCAACAATTAGAACATCATTGATCCT 59.659 33.333 0.00 0.00 33.02 3.24
2687 2883 7.486647 AGCAACAATTAGAACATCATTGATCC 58.513 34.615 0.00 0.00 33.02 3.36
2689 2885 9.793252 GTTAGCAACAATTAGAACATCATTGAT 57.207 29.630 0.00 0.00 33.02 2.57
2690 2886 8.791675 TGTTAGCAACAATTAGAACATCATTGA 58.208 29.630 0.00 0.00 38.72 2.57
2691 2887 8.969121 TGTTAGCAACAATTAGAACATCATTG 57.031 30.769 0.09 0.00 38.72 2.82
2692 2888 9.013229 TCTGTTAGCAACAATTAGAACATCATT 57.987 29.630 3.84 0.00 41.61 2.57
2693 2889 8.565896 TCTGTTAGCAACAATTAGAACATCAT 57.434 30.769 3.84 0.00 41.61 2.45
2694 2890 7.977789 TCTGTTAGCAACAATTAGAACATCA 57.022 32.000 3.84 0.00 41.61 3.07
2695 2891 9.118236 GTTTCTGTTAGCAACAATTAGAACATC 57.882 33.333 3.84 0.00 41.61 3.06
2696 2892 8.850156 AGTTTCTGTTAGCAACAATTAGAACAT 58.150 29.630 3.84 0.00 41.61 2.71
2697 2893 8.220755 AGTTTCTGTTAGCAACAATTAGAACA 57.779 30.769 3.84 0.00 41.61 3.18
2698 2894 8.958043 CAAGTTTCTGTTAGCAACAATTAGAAC 58.042 33.333 3.84 4.86 41.61 3.01
2699 2895 8.134895 CCAAGTTTCTGTTAGCAACAATTAGAA 58.865 33.333 3.84 0.00 41.61 2.10
2700 2896 7.648142 CCAAGTTTCTGTTAGCAACAATTAGA 58.352 34.615 3.84 0.00 41.61 2.10
2701 2897 6.363357 GCCAAGTTTCTGTTAGCAACAATTAG 59.637 38.462 3.84 0.00 41.61 1.73
2702 2898 6.212955 GCCAAGTTTCTGTTAGCAACAATTA 58.787 36.000 3.84 0.00 41.61 1.40
2703 2899 5.049828 GCCAAGTTTCTGTTAGCAACAATT 58.950 37.500 3.84 0.00 41.61 2.32
2704 2900 4.620982 GCCAAGTTTCTGTTAGCAACAAT 58.379 39.130 3.84 0.00 41.61 2.71
2705 2901 3.488384 CGCCAAGTTTCTGTTAGCAACAA 60.488 43.478 3.84 0.00 41.61 2.83
2706 2902 2.032799 CGCCAAGTTTCTGTTAGCAACA 59.967 45.455 2.49 2.49 39.52 3.33
2707 2903 2.650608 CGCCAAGTTTCTGTTAGCAAC 58.349 47.619 0.00 0.00 0.00 4.17
2708 2904 1.001815 GCGCCAAGTTTCTGTTAGCAA 60.002 47.619 0.00 0.00 0.00 3.91
2709 2905 0.591170 GCGCCAAGTTTCTGTTAGCA 59.409 50.000 0.00 0.00 0.00 3.49
2710 2906 0.109735 GGCGCCAAGTTTCTGTTAGC 60.110 55.000 24.80 0.00 0.00 3.09
2711 2907 0.521735 GGGCGCCAAGTTTCTGTTAG 59.478 55.000 30.85 0.00 0.00 2.34
2712 2908 1.231958 CGGGCGCCAAGTTTCTGTTA 61.232 55.000 30.85 0.00 0.00 2.41
2713 2909 2.551912 CGGGCGCCAAGTTTCTGTT 61.552 57.895 30.85 0.00 0.00 3.16
2714 2910 2.978010 CGGGCGCCAAGTTTCTGT 60.978 61.111 30.85 0.00 0.00 3.41
2715 2911 2.551912 AACGGGCGCCAAGTTTCTG 61.552 57.895 30.85 6.83 0.00 3.02
2716 2912 2.203294 AACGGGCGCCAAGTTTCT 60.203 55.556 30.85 9.92 0.00 2.52
2717 2913 1.862602 ATCAACGGGCGCCAAGTTTC 61.863 55.000 29.19 11.84 0.00 2.78
2718 2914 1.460273 AATCAACGGGCGCCAAGTTT 61.460 50.000 29.19 17.62 0.00 2.66
2719 2915 1.460273 AAATCAACGGGCGCCAAGTT 61.460 50.000 30.85 28.59 0.00 2.66
2720 2916 1.460273 AAAATCAACGGGCGCCAAGT 61.460 50.000 30.85 24.45 0.00 3.16
2721 2917 0.523966 TAAAATCAACGGGCGCCAAG 59.476 50.000 30.85 23.72 0.00 3.61
2722 2918 1.133407 GATAAAATCAACGGGCGCCAA 59.867 47.619 30.85 8.04 0.00 4.52
2723 2919 0.736053 GATAAAATCAACGGGCGCCA 59.264 50.000 30.85 7.48 0.00 5.69
2724 2920 0.316689 CGATAAAATCAACGGGCGCC 60.317 55.000 21.18 21.18 0.00 6.53
2725 2921 0.375803 ACGATAAAATCAACGGGCGC 59.624 50.000 0.00 0.00 0.00 6.53
2726 2922 2.350498 AGAACGATAAAATCAACGGGCG 59.650 45.455 0.00 0.00 0.00 6.13
2727 2923 4.095610 CAAGAACGATAAAATCAACGGGC 58.904 43.478 0.00 0.00 0.00 6.13
2728 2924 5.539582 TCAAGAACGATAAAATCAACGGG 57.460 39.130 0.00 0.00 0.00 5.28
2740 2936 9.499479 AAGATTGCAATCTATATCAAGAACGAT 57.501 29.630 35.78 16.49 44.67 3.73
2741 2937 8.893219 AAGATTGCAATCTATATCAAGAACGA 57.107 30.769 35.78 0.00 44.67 3.85
2742 2938 9.591404 GAAAGATTGCAATCTATATCAAGAACG 57.409 33.333 35.78 0.00 44.67 3.95
2760 2956 8.139989 CCAAGAATAATAGGGCAAGAAAGATTG 58.860 37.037 0.00 0.00 0.00 2.67
2761 2957 7.841222 ACCAAGAATAATAGGGCAAGAAAGATT 59.159 33.333 0.00 0.00 0.00 2.40
2762 2958 7.357471 ACCAAGAATAATAGGGCAAGAAAGAT 58.643 34.615 0.00 0.00 0.00 2.40
2763 2959 6.731467 ACCAAGAATAATAGGGCAAGAAAGA 58.269 36.000 0.00 0.00 0.00 2.52
2764 2960 7.122650 TCAACCAAGAATAATAGGGCAAGAAAG 59.877 37.037 0.00 0.00 0.00 2.62
2765 2961 6.951198 TCAACCAAGAATAATAGGGCAAGAAA 59.049 34.615 0.00 0.00 0.00 2.52
2766 2962 6.377146 GTCAACCAAGAATAATAGGGCAAGAA 59.623 38.462 0.00 0.00 0.00 2.52
2767 2963 5.885912 GTCAACCAAGAATAATAGGGCAAGA 59.114 40.000 0.00 0.00 0.00 3.02
2768 2964 5.067805 GGTCAACCAAGAATAATAGGGCAAG 59.932 44.000 0.00 0.00 35.64 4.01
2769 2965 4.953579 GGTCAACCAAGAATAATAGGGCAA 59.046 41.667 0.00 0.00 35.64 4.52
2770 2966 4.229582 AGGTCAACCAAGAATAATAGGGCA 59.770 41.667 1.33 0.00 38.89 5.36
2771 2967 4.793201 AGGTCAACCAAGAATAATAGGGC 58.207 43.478 1.33 0.00 38.89 5.19
2772 2968 6.321435 GGAAAGGTCAACCAAGAATAATAGGG 59.679 42.308 1.33 0.00 38.89 3.53
2773 2969 7.119387 AGGAAAGGTCAACCAAGAATAATAGG 58.881 38.462 1.33 0.00 38.89 2.57
2774 2970 8.581253 AAGGAAAGGTCAACCAAGAATAATAG 57.419 34.615 1.33 0.00 38.89 1.73
2775 2971 9.681062 CTAAGGAAAGGTCAACCAAGAATAATA 57.319 33.333 1.33 0.00 38.89 0.98
2776 2972 8.390921 TCTAAGGAAAGGTCAACCAAGAATAAT 58.609 33.333 1.33 0.00 38.89 1.28
2777 2973 7.751646 TCTAAGGAAAGGTCAACCAAGAATAA 58.248 34.615 1.33 0.00 38.89 1.40
2778 2974 7.324388 TCTAAGGAAAGGTCAACCAAGAATA 57.676 36.000 1.33 0.00 38.89 1.75
2779 2975 6.200878 TCTAAGGAAAGGTCAACCAAGAAT 57.799 37.500 1.33 0.00 38.89 2.40
2780 2976 5.640158 TCTAAGGAAAGGTCAACCAAGAA 57.360 39.130 1.33 0.00 38.89 2.52
2781 2977 5.640158 TTCTAAGGAAAGGTCAACCAAGA 57.360 39.130 1.33 0.00 38.89 3.02
2782 2978 6.003950 TCATTCTAAGGAAAGGTCAACCAAG 58.996 40.000 1.33 0.00 34.90 3.61
2783 2979 5.947663 TCATTCTAAGGAAAGGTCAACCAA 58.052 37.500 1.33 0.00 34.90 3.67
2784 2980 5.576563 TCATTCTAAGGAAAGGTCAACCA 57.423 39.130 1.33 0.00 34.90 3.67
2785 2981 6.127619 CCAATCATTCTAAGGAAAGGTCAACC 60.128 42.308 0.00 0.00 34.90 3.77
2786 2982 6.434340 ACCAATCATTCTAAGGAAAGGTCAAC 59.566 38.462 0.00 0.00 34.90 3.18
2787 2983 6.434028 CACCAATCATTCTAAGGAAAGGTCAA 59.566 38.462 2.38 0.00 34.90 3.18
2788 2984 5.945784 CACCAATCATTCTAAGGAAAGGTCA 59.054 40.000 2.38 0.00 34.90 4.02
2789 2985 5.163612 GCACCAATCATTCTAAGGAAAGGTC 60.164 44.000 2.38 0.00 34.90 3.85
2790 2986 4.706962 GCACCAATCATTCTAAGGAAAGGT 59.293 41.667 0.00 0.13 34.90 3.50
2791 2987 4.201950 CGCACCAATCATTCTAAGGAAAGG 60.202 45.833 0.00 0.00 34.90 3.11
2792 2988 4.635765 TCGCACCAATCATTCTAAGGAAAG 59.364 41.667 0.00 0.00 34.90 2.62
2793 2989 4.584874 TCGCACCAATCATTCTAAGGAAA 58.415 39.130 0.00 0.00 34.90 3.13
2794 2990 4.214986 TCGCACCAATCATTCTAAGGAA 57.785 40.909 0.00 0.00 35.78 3.36
2795 2991 3.904800 TCGCACCAATCATTCTAAGGA 57.095 42.857 0.00 0.00 0.00 3.36
2796 2992 6.808008 ATAATCGCACCAATCATTCTAAGG 57.192 37.500 0.00 0.00 0.00 2.69
2797 2993 7.864686 TCAATAATCGCACCAATCATTCTAAG 58.135 34.615 0.00 0.00 0.00 2.18
2798 2994 7.800155 TCAATAATCGCACCAATCATTCTAA 57.200 32.000 0.00 0.00 0.00 2.10
2799 2995 7.984422 ATCAATAATCGCACCAATCATTCTA 57.016 32.000 0.00 0.00 0.00 2.10
2800 2996 6.889301 ATCAATAATCGCACCAATCATTCT 57.111 33.333 0.00 0.00 0.00 2.40
2801 2997 8.453320 TCATATCAATAATCGCACCAATCATTC 58.547 33.333 0.00 0.00 0.00 2.67
2802 2998 8.339344 TCATATCAATAATCGCACCAATCATT 57.661 30.769 0.00 0.00 0.00 2.57
2803 2999 7.926674 TCATATCAATAATCGCACCAATCAT 57.073 32.000 0.00 0.00 0.00 2.45
2804 3000 7.661027 TCTTCATATCAATAATCGCACCAATCA 59.339 33.333 0.00 0.00 0.00 2.57
2805 3001 8.032952 TCTTCATATCAATAATCGCACCAATC 57.967 34.615 0.00 0.00 0.00 2.67
2806 3002 7.984422 TCTTCATATCAATAATCGCACCAAT 57.016 32.000 0.00 0.00 0.00 3.16
2807 3003 7.800155 TTCTTCATATCAATAATCGCACCAA 57.200 32.000 0.00 0.00 0.00 3.67
2808 3004 7.041167 CCTTTCTTCATATCAATAATCGCACCA 60.041 37.037 0.00 0.00 0.00 4.17
2809 3005 7.301054 CCTTTCTTCATATCAATAATCGCACC 58.699 38.462 0.00 0.00 0.00 5.01
2810 3006 7.173218 TCCCTTTCTTCATATCAATAATCGCAC 59.827 37.037 0.00 0.00 0.00 5.34
2811 3007 7.223584 TCCCTTTCTTCATATCAATAATCGCA 58.776 34.615 0.00 0.00 0.00 5.10
2812 3008 7.672983 TCCCTTTCTTCATATCAATAATCGC 57.327 36.000 0.00 0.00 0.00 4.58


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

AutoCloner maintained by Alex Coulton.