Multiple sequence alignment - TraesCS4B01G278700

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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 TraesCS4B01G278700 chr4B 100.000 2831 0 0 1 2831 561750377 561747547 0.000000e+00 5228
1 TraesCS4B01G278700 chr4B 93.750 208 13 0 2569 2776 424024603 424024396 2.120000e-81 313
2 TraesCS4B01G278700 chr4B 100.000 58 0 0 2774 2831 588239410 588239353 1.070000e-19 108
3 TraesCS4B01G278700 chr5B 94.200 2586 115 13 1 2571 108858119 108860684 0.000000e+00 3912
4 TraesCS4B01G278700 chr5B 93.760 2596 123 16 1 2567 75081140 75083725 0.000000e+00 3860
5 TraesCS4B01G278700 chr5B 93.615 2600 122 17 1 2567 67028344 67025756 0.000000e+00 3842
6 TraesCS4B01G278700 chr5B 95.673 208 8 1 2569 2776 541147538 541147744 1.630000e-87 333
7 TraesCS4B01G278700 chr5B 100.000 58 0 0 2774 2831 688022313 688022256 1.070000e-19 108
8 TraesCS4B01G278700 chr3B 94.041 2601 118 16 1 2569 154423006 154420411 0.000000e+00 3910
9 TraesCS4B01G278700 chr3B 94.000 2600 109 19 1 2570 10052102 10049520 0.000000e+00 3893
10 TraesCS4B01G278700 chr3B 93.731 2600 123 16 1 2571 151117096 151114508 0.000000e+00 3862
11 TraesCS4B01G278700 chr3B 90.000 530 20 10 2073 2571 204218008 204218535 0.000000e+00 654
12 TraesCS4B01G278700 chr2B 93.454 2597 129 17 1 2569 480006187 480008770 0.000000e+00 3816
13 TraesCS4B01G278700 chr2B 94.927 1991 97 4 8 1997 72935137 72937124 0.000000e+00 3114
14 TraesCS4B01G278700 chr2B 100.000 58 0 0 2774 2831 783865951 783866008 1.070000e-19 108
15 TraesCS4B01G278700 chr7B 93.274 2602 120 13 1 2571 671265622 671263045 0.000000e+00 3784
16 TraesCS4B01G278700 chr7B 98.387 62 0 1 2771 2831 692709121 692709182 1.070000e-19 108
17 TraesCS4B01G278700 chr6B 94.990 2076 89 10 25 2095 678821581 678823646 0.000000e+00 3243
18 TraesCS4B01G278700 chr6B 94.526 2101 105 7 1 2095 678840788 678842884 0.000000e+00 3234
19 TraesCS4B01G278700 chr6B 95.192 208 10 0 2569 2776 97593826 97593619 2.100000e-86 329
20 TraesCS4B01G278700 chr6B 94.231 208 11 1 2569 2776 715936253 715936047 1.640000e-82 316
21 TraesCS4B01G278700 chr6B 89.286 84 5 4 2491 2571 3539867 3539785 4.990000e-18 102
22 TraesCS4B01G278700 chr6B 89.286 84 6 3 2491 2572 91035804 91035886 4.990000e-18 102
23 TraesCS4B01G278700 chr6B 87.640 89 7 4 2491 2576 91029557 91029644 1.790000e-17 100
24 TraesCS4B01G278700 chr1D 95.169 207 9 1 2571 2776 355204339 355204545 2.720000e-85 326
25 TraesCS4B01G278700 chr3D 94.175 206 11 1 2571 2776 333765516 333765312 2.120000e-81 313
26 TraesCS4B01G278700 chr7A 94.118 204 11 1 2569 2772 689369255 689369053 2.740000e-80 309
27 TraesCS4B01G278700 chr7A 96.875 64 1 1 2769 2831 188256776 188256713 3.860000e-19 106
28 TraesCS4B01G278700 chr4D 88.995 209 22 1 2569 2776 302934040 302934248 1.010000e-64 257
29 TraesCS4B01G278700 chr3A 84.000 200 32 0 2577 2776 377793352 377793153 2.880000e-45 193
30 TraesCS4B01G278700 chr3A 100.000 59 0 0 2773 2831 580643361 580643419 2.980000e-20 110
31 TraesCS4B01G278700 chr2A 100.000 58 0 0 2774 2831 411765810 411765867 1.070000e-19 108
32 TraesCS4B01G278700 chr2A 100.000 58 0 0 2774 2831 438787079 438787136 1.070000e-19 108
33 TraesCS4B01G278700 chr1B 100.000 58 0 0 2774 2831 353195541 353195484 1.070000e-19 108


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 TraesCS4B01G278700 chr4B 561747547 561750377 2830 True 5228 5228 100.000 1 2831 1 chr4B.!!$R2 2830
1 TraesCS4B01G278700 chr5B 108858119 108860684 2565 False 3912 3912 94.200 1 2571 1 chr5B.!!$F2 2570
2 TraesCS4B01G278700 chr5B 75081140 75083725 2585 False 3860 3860 93.760 1 2567 1 chr5B.!!$F1 2566
3 TraesCS4B01G278700 chr5B 67025756 67028344 2588 True 3842 3842 93.615 1 2567 1 chr5B.!!$R1 2566
4 TraesCS4B01G278700 chr3B 154420411 154423006 2595 True 3910 3910 94.041 1 2569 1 chr3B.!!$R3 2568
5 TraesCS4B01G278700 chr3B 10049520 10052102 2582 True 3893 3893 94.000 1 2570 1 chr3B.!!$R1 2569
6 TraesCS4B01G278700 chr3B 151114508 151117096 2588 True 3862 3862 93.731 1 2571 1 chr3B.!!$R2 2570
7 TraesCS4B01G278700 chr3B 204218008 204218535 527 False 654 654 90.000 2073 2571 1 chr3B.!!$F1 498
8 TraesCS4B01G278700 chr2B 480006187 480008770 2583 False 3816 3816 93.454 1 2569 1 chr2B.!!$F2 2568
9 TraesCS4B01G278700 chr2B 72935137 72937124 1987 False 3114 3114 94.927 8 1997 1 chr2B.!!$F1 1989
10 TraesCS4B01G278700 chr7B 671263045 671265622 2577 True 3784 3784 93.274 1 2571 1 chr7B.!!$R1 2570
11 TraesCS4B01G278700 chr6B 678821581 678823646 2065 False 3243 3243 94.990 25 2095 1 chr6B.!!$F3 2070
12 TraesCS4B01G278700 chr6B 678840788 678842884 2096 False 3234 3234 94.526 1 2095 1 chr6B.!!$F4 2094

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
788 817 0.550914 CCCTGCACCCCTATAAGCAA 59.449 55.0 0.0 0.0 36.44 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2577 2643 0.03563 CTGAGAGGGCAGGAAAGGTG 60.036 60.0 0.0 0.0 32.26 4.0 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
29 30 1.683917 CATAGAGTTCGGGGAGGAGTG 59.316 57.143 0.00 0.00 0.00 3.51
306 307 2.830651 AGGATCAGTAGTTCCGTCCT 57.169 50.000 0.00 0.00 38.43 3.85
332 333 5.483685 TCAGTTATGTTGCAAGTCCTAGT 57.516 39.130 0.00 0.00 0.00 2.57
342 343 4.843728 TGCAAGTCCTAGTTAGGGAAATG 58.156 43.478 5.40 2.26 43.79 2.32
378 379 6.070251 CCTGGTTGTATATGCACCCTATATGA 60.070 42.308 8.77 0.00 0.00 2.15
647 670 6.980397 ACAGCAAAAGGTCAAGTTTATTTCAG 59.020 34.615 0.00 0.00 0.00 3.02
746 775 2.500098 CACAAATCCTCCTCCGTCCTAA 59.500 50.000 0.00 0.00 0.00 2.69
752 781 5.799978 ATCCTCCTCCGTCCTAACTATAT 57.200 43.478 0.00 0.00 0.00 0.86
785 814 4.322499 CGTATTACCCTGCACCCCTATAAG 60.322 50.000 0.00 0.00 0.00 1.73
788 817 0.550914 CCCTGCACCCCTATAAGCAA 59.449 55.000 0.00 0.00 36.44 3.91
818 847 4.744137 CAGAGACCAATAGAAAGATCAGCG 59.256 45.833 0.00 0.00 0.00 5.18
854 883 2.487762 CCCGTGTGTATCAATTGCTTGT 59.512 45.455 0.00 0.00 33.87 3.16
927 956 3.309388 CAGCTACGTCCAATCTATTCGG 58.691 50.000 0.00 0.00 0.00 4.30
1006 1035 3.083349 TCGGGGGCTGGATGTCTG 61.083 66.667 0.00 0.00 0.00 3.51
1317 1346 0.824109 CTCCCATTCCAGACGCACTA 59.176 55.000 0.00 0.00 0.00 2.74
1369 1398 1.887242 GCCAGTGACACGCTGTTCA 60.887 57.895 10.61 0.00 39.99 3.18
1381 1410 1.222115 GCTGTTCACGTTCGCCTTCT 61.222 55.000 0.00 0.00 0.00 2.85
1632 1661 2.818169 GCGCCATGGGGAGTGGATA 61.818 63.158 31.50 0.00 39.12 2.59
1666 1695 2.882876 GAGGCTACTTCGACGCCA 59.117 61.111 14.33 0.00 46.14 5.69
1669 1698 1.080025 GGCTACTTCGACGCCAAGT 60.080 57.895 7.08 7.08 43.25 3.16
1725 1754 1.851065 TATGCTCCTGCCAGGTTGCA 61.851 55.000 26.62 26.62 44.52 4.08
1792 1821 2.560542 GACGAGCATAGGATGTGGATCT 59.439 50.000 0.00 0.00 0.00 2.75
1821 1850 3.793144 CTGGAGTTTCGCCTGCGC 61.793 66.667 6.67 0.00 39.59 6.09
2009 2038 2.892640 CAGCGATGGGAGGAACGA 59.107 61.111 0.00 0.00 0.00 3.85
2034 2063 8.168790 AGTTAATGGTACCGTGTACAAAAATT 57.831 30.769 7.57 0.00 0.00 1.82
2440 2500 2.593436 CGTTGGGTTTGTCCGGCT 60.593 61.111 0.00 0.00 37.00 5.52
2577 2643 6.717540 TCCATTAGGAGTAGAGATAACTGAGC 59.282 42.308 0.00 0.00 39.61 4.26
2578 2644 6.491745 CCATTAGGAGTAGAGATAACTGAGCA 59.508 42.308 0.00 0.00 36.89 4.26
2579 2645 6.945938 TTAGGAGTAGAGATAACTGAGCAC 57.054 41.667 0.00 0.00 0.00 4.40
2580 2646 4.211920 AGGAGTAGAGATAACTGAGCACC 58.788 47.826 0.00 0.00 0.00 5.01
2581 2647 4.079443 AGGAGTAGAGATAACTGAGCACCT 60.079 45.833 0.00 0.00 0.00 4.00
2582 2648 4.647399 GGAGTAGAGATAACTGAGCACCTT 59.353 45.833 0.00 0.00 0.00 3.50
2583 2649 5.128008 GGAGTAGAGATAACTGAGCACCTTT 59.872 44.000 0.00 0.00 0.00 3.11
2584 2650 6.215495 AGTAGAGATAACTGAGCACCTTTC 57.785 41.667 0.00 0.00 0.00 2.62
2585 2651 4.479786 AGAGATAACTGAGCACCTTTCC 57.520 45.455 0.00 0.00 0.00 3.13
2586 2652 4.100373 AGAGATAACTGAGCACCTTTCCT 58.900 43.478 0.00 0.00 0.00 3.36
2587 2653 4.081198 AGAGATAACTGAGCACCTTTCCTG 60.081 45.833 0.00 0.00 0.00 3.86
2588 2654 2.185004 TAACTGAGCACCTTTCCTGC 57.815 50.000 0.00 0.00 34.63 4.85
2589 2655 0.538287 AACTGAGCACCTTTCCTGCC 60.538 55.000 0.00 0.00 35.01 4.85
2590 2656 1.676967 CTGAGCACCTTTCCTGCCC 60.677 63.158 0.00 0.00 35.01 5.36
2591 2657 2.134630 CTGAGCACCTTTCCTGCCCT 62.135 60.000 0.00 0.00 35.01 5.19
2592 2658 1.377856 GAGCACCTTTCCTGCCCTC 60.378 63.158 0.00 0.00 35.01 4.30
2593 2659 1.846712 GAGCACCTTTCCTGCCCTCT 61.847 60.000 0.00 0.00 35.01 3.69
2594 2660 1.377856 GCACCTTTCCTGCCCTCTC 60.378 63.158 0.00 0.00 0.00 3.20
2595 2661 2.069776 CACCTTTCCTGCCCTCTCA 58.930 57.895 0.00 0.00 0.00 3.27
2596 2662 0.035630 CACCTTTCCTGCCCTCTCAG 60.036 60.000 0.00 0.00 0.00 3.35
2606 2672 2.224821 CCCTCTCAGGCCATTAGCA 58.775 57.895 5.01 0.00 46.50 3.49
2607 2673 0.769873 CCCTCTCAGGCCATTAGCAT 59.230 55.000 5.01 0.00 46.50 3.79
2608 2674 1.144503 CCCTCTCAGGCCATTAGCATT 59.855 52.381 5.01 0.00 46.50 3.56
2609 2675 2.423947 CCCTCTCAGGCCATTAGCATTT 60.424 50.000 5.01 0.00 46.50 2.32
2610 2676 2.621998 CCTCTCAGGCCATTAGCATTTG 59.378 50.000 5.01 0.00 46.50 2.32
2611 2677 3.285484 CTCTCAGGCCATTAGCATTTGT 58.715 45.455 5.01 0.00 46.50 2.83
2612 2678 4.454678 CTCTCAGGCCATTAGCATTTGTA 58.545 43.478 5.01 0.00 46.50 2.41
2613 2679 5.052693 TCTCAGGCCATTAGCATTTGTAT 57.947 39.130 5.01 0.00 46.50 2.29
2614 2680 5.065914 TCTCAGGCCATTAGCATTTGTATC 58.934 41.667 5.01 0.00 46.50 2.24
2615 2681 4.144297 TCAGGCCATTAGCATTTGTATCC 58.856 43.478 5.01 0.00 46.50 2.59
2616 2682 3.890756 CAGGCCATTAGCATTTGTATCCA 59.109 43.478 5.01 0.00 46.50 3.41
2617 2683 4.525487 CAGGCCATTAGCATTTGTATCCAT 59.475 41.667 5.01 0.00 46.50 3.41
2618 2684 4.768968 AGGCCATTAGCATTTGTATCCATC 59.231 41.667 5.01 0.00 46.50 3.51
2619 2685 4.379813 GGCCATTAGCATTTGTATCCATCG 60.380 45.833 0.00 0.00 46.50 3.84
2620 2686 4.379813 GCCATTAGCATTTGTATCCATCGG 60.380 45.833 0.00 0.00 42.97 4.18
2621 2687 5.003160 CCATTAGCATTTGTATCCATCGGA 58.997 41.667 0.00 0.00 35.55 4.55
2622 2688 5.649395 CCATTAGCATTTGTATCCATCGGAT 59.351 40.000 0.43 0.43 45.40 4.18
2623 2689 6.183360 CCATTAGCATTTGTATCCATCGGATC 60.183 42.308 0.00 0.00 42.11 3.36
2624 2690 3.329386 AGCATTTGTATCCATCGGATCG 58.671 45.455 0.00 0.00 42.11 3.69
2625 2691 3.067106 GCATTTGTATCCATCGGATCGT 58.933 45.455 0.00 0.00 42.11 3.73
2626 2692 3.123621 GCATTTGTATCCATCGGATCGTC 59.876 47.826 0.00 0.00 42.11 4.20
2627 2693 4.306600 CATTTGTATCCATCGGATCGTCA 58.693 43.478 0.00 0.00 42.11 4.35
2628 2694 3.364889 TTGTATCCATCGGATCGTCAC 57.635 47.619 0.00 0.00 42.11 3.67
2629 2695 2.583143 TGTATCCATCGGATCGTCACT 58.417 47.619 0.00 0.00 42.11 3.41
2630 2696 2.956333 TGTATCCATCGGATCGTCACTT 59.044 45.455 0.00 0.00 42.11 3.16
2631 2697 4.139038 TGTATCCATCGGATCGTCACTTA 58.861 43.478 0.00 0.00 42.11 2.24
2632 2698 4.581409 TGTATCCATCGGATCGTCACTTAA 59.419 41.667 0.00 0.00 42.11 1.85
2633 2699 3.710326 TCCATCGGATCGTCACTTAAG 57.290 47.619 0.00 0.00 0.00 1.85
2634 2700 2.361119 TCCATCGGATCGTCACTTAAGG 59.639 50.000 7.53 0.00 0.00 2.69
2635 2701 2.545952 CCATCGGATCGTCACTTAAGGG 60.546 54.545 7.53 2.06 0.00 3.95
2636 2702 0.458669 TCGGATCGTCACTTAAGGGC 59.541 55.000 7.53 0.00 0.00 5.19
2637 2703 0.870307 CGGATCGTCACTTAAGGGCG 60.870 60.000 13.25 13.25 0.00 6.13
2638 2704 0.175073 GGATCGTCACTTAAGGGCGT 59.825 55.000 17.16 8.20 0.00 5.68
2639 2705 1.405121 GGATCGTCACTTAAGGGCGTT 60.405 52.381 17.16 11.39 0.00 4.84
2640 2706 2.344025 GATCGTCACTTAAGGGCGTTT 58.656 47.619 17.16 9.26 0.00 3.60
2641 2707 2.243602 TCGTCACTTAAGGGCGTTTT 57.756 45.000 17.16 0.00 0.00 2.43
2642 2708 2.137523 TCGTCACTTAAGGGCGTTTTC 58.862 47.619 17.16 0.00 0.00 2.29
2643 2709 1.868498 CGTCACTTAAGGGCGTTTTCA 59.132 47.619 7.53 0.00 0.00 2.69
2644 2710 2.096417 CGTCACTTAAGGGCGTTTTCAG 60.096 50.000 7.53 0.00 0.00 3.02
2645 2711 1.877443 TCACTTAAGGGCGTTTTCAGC 59.123 47.619 7.53 0.00 0.00 4.26
2652 2718 3.573558 GCGTTTTCAGCCATCCGA 58.426 55.556 0.00 0.00 0.00 4.55
2653 2719 2.098293 GCGTTTTCAGCCATCCGAT 58.902 52.632 0.00 0.00 0.00 4.18
2654 2720 0.451783 GCGTTTTCAGCCATCCGATT 59.548 50.000 0.00 0.00 0.00 3.34
2655 2721 1.795162 GCGTTTTCAGCCATCCGATTG 60.795 52.381 0.00 0.00 0.00 2.67
2656 2722 1.468520 CGTTTTCAGCCATCCGATTGT 59.531 47.619 0.00 0.00 0.00 2.71
2657 2723 2.476185 CGTTTTCAGCCATCCGATTGTC 60.476 50.000 0.00 0.00 0.00 3.18
2658 2724 2.749621 GTTTTCAGCCATCCGATTGTCT 59.250 45.455 0.00 0.00 0.00 3.41
2659 2725 2.315925 TTCAGCCATCCGATTGTCTC 57.684 50.000 0.00 0.00 0.00 3.36
2660 2726 1.489481 TCAGCCATCCGATTGTCTCT 58.511 50.000 0.00 0.00 0.00 3.10
2661 2727 1.833630 TCAGCCATCCGATTGTCTCTT 59.166 47.619 0.00 0.00 0.00 2.85
2662 2728 3.031013 TCAGCCATCCGATTGTCTCTTA 58.969 45.455 0.00 0.00 0.00 2.10
2663 2729 3.450817 TCAGCCATCCGATTGTCTCTTAA 59.549 43.478 0.00 0.00 0.00 1.85
2664 2730 4.101585 TCAGCCATCCGATTGTCTCTTAAT 59.898 41.667 0.00 0.00 0.00 1.40
2665 2731 4.450419 CAGCCATCCGATTGTCTCTTAATC 59.550 45.833 0.00 0.00 0.00 1.75
2666 2732 3.748568 GCCATCCGATTGTCTCTTAATCC 59.251 47.826 0.00 0.00 32.26 3.01
2667 2733 4.319177 CCATCCGATTGTCTCTTAATCCC 58.681 47.826 0.00 0.00 32.26 3.85
2668 2734 4.202357 CCATCCGATTGTCTCTTAATCCCA 60.202 45.833 0.00 0.00 32.26 4.37
2669 2735 4.402056 TCCGATTGTCTCTTAATCCCAC 57.598 45.455 0.00 0.00 32.26 4.61
2670 2736 3.134081 TCCGATTGTCTCTTAATCCCACC 59.866 47.826 0.00 0.00 32.26 4.61
2671 2737 3.467803 CGATTGTCTCTTAATCCCACCC 58.532 50.000 0.00 0.00 32.26 4.61
2672 2738 3.744530 CGATTGTCTCTTAATCCCACCCC 60.745 52.174 0.00 0.00 32.26 4.95
2673 2739 1.200519 TGTCTCTTAATCCCACCCCG 58.799 55.000 0.00 0.00 0.00 5.73
2674 2740 1.273381 TGTCTCTTAATCCCACCCCGA 60.273 52.381 0.00 0.00 0.00 5.14
2675 2741 1.413077 GTCTCTTAATCCCACCCCGAG 59.587 57.143 0.00 0.00 0.00 4.63
2676 2742 1.007963 TCTCTTAATCCCACCCCGAGT 59.992 52.381 0.00 0.00 0.00 4.18
2677 2743 1.838077 CTCTTAATCCCACCCCGAGTT 59.162 52.381 0.00 0.00 0.00 3.01
2678 2744 1.557832 TCTTAATCCCACCCCGAGTTG 59.442 52.381 0.00 0.00 0.00 3.16
2679 2745 1.557832 CTTAATCCCACCCCGAGTTGA 59.442 52.381 0.00 0.00 0.00 3.18
2680 2746 1.887797 TAATCCCACCCCGAGTTGAT 58.112 50.000 0.00 0.00 0.00 2.57
2681 2747 0.999712 AATCCCACCCCGAGTTGATT 59.000 50.000 0.00 0.00 0.00 2.57
2682 2748 0.546598 ATCCCACCCCGAGTTGATTC 59.453 55.000 0.00 0.00 0.00 2.52
2683 2749 1.449601 CCCACCCCGAGTTGATTCG 60.450 63.158 0.00 0.00 40.18 3.34
2684 2750 1.295423 CCACCCCGAGTTGATTCGT 59.705 57.895 0.00 0.00 38.88 3.85
2685 2751 0.321298 CCACCCCGAGTTGATTCGTT 60.321 55.000 0.00 0.00 38.88 3.85
2686 2752 1.076332 CACCCCGAGTTGATTCGTTC 58.924 55.000 0.00 0.00 38.88 3.95
2687 2753 0.389426 ACCCCGAGTTGATTCGTTCG 60.389 55.000 0.00 0.00 38.88 3.95
2688 2754 0.108992 CCCCGAGTTGATTCGTTCGA 60.109 55.000 6.02 0.00 38.88 3.71
2689 2755 1.470979 CCCCGAGTTGATTCGTTCGAT 60.471 52.381 0.00 0.00 38.88 3.59
2690 2756 1.852895 CCCGAGTTGATTCGTTCGATC 59.147 52.381 0.00 0.00 38.88 3.69
2691 2757 1.852895 CCGAGTTGATTCGTTCGATCC 59.147 52.381 0.00 0.00 38.88 3.36
2692 2758 2.479730 CCGAGTTGATTCGTTCGATCCT 60.480 50.000 0.00 0.00 38.88 3.24
2693 2759 3.242969 CCGAGTTGATTCGTTCGATCCTA 60.243 47.826 0.00 0.00 38.88 2.94
2694 2760 4.348656 CGAGTTGATTCGTTCGATCCTAA 58.651 43.478 0.00 0.00 35.91 2.69
2695 2761 4.204573 CGAGTTGATTCGTTCGATCCTAAC 59.795 45.833 0.00 1.08 35.91 2.34
2696 2762 5.068234 AGTTGATTCGTTCGATCCTAACA 57.932 39.130 6.45 0.00 0.00 2.41
2697 2763 5.475719 AGTTGATTCGTTCGATCCTAACAA 58.524 37.500 6.45 0.00 0.00 2.83
2698 2764 5.577164 AGTTGATTCGTTCGATCCTAACAAG 59.423 40.000 6.45 0.00 0.00 3.16
2699 2765 3.863424 TGATTCGTTCGATCCTAACAAGC 59.137 43.478 6.45 4.02 0.00 4.01
2700 2766 1.904144 TCGTTCGATCCTAACAAGCG 58.096 50.000 6.45 0.00 0.00 4.68
2701 2767 0.921347 CGTTCGATCCTAACAAGCGG 59.079 55.000 6.45 0.00 0.00 5.52
2702 2768 1.734707 CGTTCGATCCTAACAAGCGGT 60.735 52.381 6.45 0.00 0.00 5.68
2703 2769 2.478370 CGTTCGATCCTAACAAGCGGTA 60.478 50.000 6.45 0.00 0.00 4.02
2704 2770 3.514645 GTTCGATCCTAACAAGCGGTAA 58.485 45.455 0.00 0.00 0.00 2.85
2705 2771 3.155093 TCGATCCTAACAAGCGGTAAC 57.845 47.619 0.00 0.00 0.00 2.50
2706 2772 2.159198 TCGATCCTAACAAGCGGTAACC 60.159 50.000 0.00 0.00 0.00 2.85
2707 2773 2.558378 GATCCTAACAAGCGGTAACCC 58.442 52.381 0.00 0.00 0.00 4.11
2708 2774 1.648116 TCCTAACAAGCGGTAACCCT 58.352 50.000 0.00 0.00 0.00 4.34
2709 2775 1.980036 TCCTAACAAGCGGTAACCCTT 59.020 47.619 0.00 0.00 0.00 3.95
2710 2776 2.027837 TCCTAACAAGCGGTAACCCTTC 60.028 50.000 0.00 0.00 0.00 3.46
2711 2777 2.027469 CCTAACAAGCGGTAACCCTTCT 60.027 50.000 0.00 0.00 0.00 2.85
2712 2778 2.651382 AACAAGCGGTAACCCTTCTT 57.349 45.000 0.00 0.00 0.00 2.52
2713 2779 1.892209 ACAAGCGGTAACCCTTCTTG 58.108 50.000 11.98 11.98 41.19 3.02
2714 2780 1.165270 CAAGCGGTAACCCTTCTTGG 58.835 55.000 0.00 0.00 36.31 3.61
2723 2789 2.990479 CCTTCTTGGGCCGCTACT 59.010 61.111 0.00 0.00 0.00 2.57
2724 2790 1.153349 CCTTCTTGGGCCGCTACTC 60.153 63.158 0.00 0.00 0.00 2.59
2725 2791 1.617947 CCTTCTTGGGCCGCTACTCT 61.618 60.000 0.00 0.00 0.00 3.24
2726 2792 0.460987 CTTCTTGGGCCGCTACTCTG 60.461 60.000 0.00 0.00 0.00 3.35
2727 2793 1.899437 TTCTTGGGCCGCTACTCTGG 61.899 60.000 0.00 0.00 0.00 3.86
2728 2794 2.606519 TTGGGCCGCTACTCTGGT 60.607 61.111 0.00 0.00 0.00 4.00
2729 2795 2.859273 CTTGGGCCGCTACTCTGGTG 62.859 65.000 0.00 0.00 0.00 4.17
2730 2796 4.162690 GGGCCGCTACTCTGGTGG 62.163 72.222 0.00 0.00 37.40 4.61
2738 2804 3.494045 GCTACTCTGGTGGCATTTTTC 57.506 47.619 0.00 0.00 46.92 2.29
2739 2805 2.819608 GCTACTCTGGTGGCATTTTTCA 59.180 45.455 0.00 0.00 46.92 2.69
2740 2806 3.119708 GCTACTCTGGTGGCATTTTTCAG 60.120 47.826 0.00 0.00 46.92 3.02
2741 2807 1.615392 ACTCTGGTGGCATTTTTCAGC 59.385 47.619 0.00 0.00 0.00 4.26
2742 2808 1.891150 CTCTGGTGGCATTTTTCAGCT 59.109 47.619 0.00 0.00 33.13 4.24
2743 2809 2.298163 CTCTGGTGGCATTTTTCAGCTT 59.702 45.455 0.00 0.00 33.13 3.74
2744 2810 2.297033 TCTGGTGGCATTTTTCAGCTTC 59.703 45.455 0.00 0.00 33.13 3.86
2745 2811 2.298163 CTGGTGGCATTTTTCAGCTTCT 59.702 45.455 0.00 0.00 33.13 2.85
2746 2812 2.297033 TGGTGGCATTTTTCAGCTTCTC 59.703 45.455 0.00 0.00 33.13 2.87
2747 2813 2.589014 GTGGCATTTTTCAGCTTCTCG 58.411 47.619 0.00 0.00 0.00 4.04
2748 2814 1.541147 TGGCATTTTTCAGCTTCTCGG 59.459 47.619 0.00 0.00 0.00 4.63
2749 2815 1.812571 GGCATTTTTCAGCTTCTCGGA 59.187 47.619 0.00 0.00 0.00 4.55
2750 2816 2.424956 GGCATTTTTCAGCTTCTCGGAT 59.575 45.455 0.00 0.00 0.00 4.18
2751 2817 3.119352 GGCATTTTTCAGCTTCTCGGATT 60.119 43.478 0.00 0.00 0.00 3.01
2752 2818 4.096382 GGCATTTTTCAGCTTCTCGGATTA 59.904 41.667 0.00 0.00 0.00 1.75
2753 2819 5.393027 GGCATTTTTCAGCTTCTCGGATTAA 60.393 40.000 0.00 0.00 0.00 1.40
2754 2820 6.092748 GCATTTTTCAGCTTCTCGGATTAAA 58.907 36.000 0.00 0.00 0.00 1.52
2755 2821 6.753744 GCATTTTTCAGCTTCTCGGATTAAAT 59.246 34.615 0.00 0.00 0.00 1.40
2756 2822 7.276438 GCATTTTTCAGCTTCTCGGATTAAATT 59.724 33.333 0.00 0.00 0.00 1.82
2757 2823 8.589629 CATTTTTCAGCTTCTCGGATTAAATTG 58.410 33.333 0.00 0.00 0.00 2.32
2758 2824 5.818136 TTCAGCTTCTCGGATTAAATTGG 57.182 39.130 0.00 0.00 0.00 3.16
2759 2825 4.199310 TCAGCTTCTCGGATTAAATTGGG 58.801 43.478 0.00 0.00 0.00 4.12
2760 2826 2.952310 AGCTTCTCGGATTAAATTGGGC 59.048 45.455 0.00 0.00 0.00 5.36
2761 2827 2.034685 GCTTCTCGGATTAAATTGGGCC 59.965 50.000 0.00 0.00 0.00 5.80
2762 2828 3.555966 CTTCTCGGATTAAATTGGGCCT 58.444 45.455 4.53 0.00 0.00 5.19
2763 2829 4.714632 CTTCTCGGATTAAATTGGGCCTA 58.285 43.478 4.53 0.00 0.00 3.93
2764 2830 4.081322 TCTCGGATTAAATTGGGCCTAC 57.919 45.455 4.53 0.00 0.00 3.18
2765 2831 3.714798 TCTCGGATTAAATTGGGCCTACT 59.285 43.478 4.53 0.00 0.00 2.57
2766 2832 3.815401 CTCGGATTAAATTGGGCCTACTG 59.185 47.826 4.53 0.00 0.00 2.74
2767 2833 2.884639 CGGATTAAATTGGGCCTACTGG 59.115 50.000 4.53 0.00 0.00 4.00
2768 2834 3.230976 GGATTAAATTGGGCCTACTGGG 58.769 50.000 4.53 0.00 38.36 4.45
2781 2847 2.237392 CCTACTGGGCCTATAAGGATGC 59.763 54.545 10.47 0.00 37.67 3.91
2782 2848 0.687354 ACTGGGCCTATAAGGATGCG 59.313 55.000 4.53 0.00 37.67 4.73
2783 2849 0.687354 CTGGGCCTATAAGGATGCGT 59.313 55.000 4.53 0.00 37.67 5.24
2784 2850 1.072331 CTGGGCCTATAAGGATGCGTT 59.928 52.381 4.53 0.00 37.67 4.84
2785 2851 1.493022 TGGGCCTATAAGGATGCGTTT 59.507 47.619 4.53 0.00 37.67 3.60
2786 2852 1.880027 GGGCCTATAAGGATGCGTTTG 59.120 52.381 0.84 0.00 37.67 2.93
2787 2853 1.880027 GGCCTATAAGGATGCGTTTGG 59.120 52.381 0.00 0.00 37.67 3.28
2788 2854 2.572290 GCCTATAAGGATGCGTTTGGT 58.428 47.619 0.00 0.00 37.67 3.67
2789 2855 2.949644 GCCTATAAGGATGCGTTTGGTT 59.050 45.455 0.00 0.00 37.67 3.67
2790 2856 3.243068 GCCTATAAGGATGCGTTTGGTTG 60.243 47.826 0.00 0.00 37.67 3.77
2791 2857 4.196193 CCTATAAGGATGCGTTTGGTTGA 58.804 43.478 0.00 0.00 37.67 3.18
2792 2858 4.638421 CCTATAAGGATGCGTTTGGTTGAA 59.362 41.667 0.00 0.00 37.67 2.69
2793 2859 4.701956 ATAAGGATGCGTTTGGTTGAAG 57.298 40.909 0.00 0.00 0.00 3.02
2794 2860 1.247567 AGGATGCGTTTGGTTGAAGG 58.752 50.000 0.00 0.00 0.00 3.46
2795 2861 0.958822 GGATGCGTTTGGTTGAAGGT 59.041 50.000 0.00 0.00 0.00 3.50
2796 2862 1.335872 GGATGCGTTTGGTTGAAGGTG 60.336 52.381 0.00 0.00 0.00 4.00
2797 2863 1.336755 GATGCGTTTGGTTGAAGGTGT 59.663 47.619 0.00 0.00 0.00 4.16
2798 2864 0.736053 TGCGTTTGGTTGAAGGTGTC 59.264 50.000 0.00 0.00 0.00 3.67
2799 2865 0.316689 GCGTTTGGTTGAAGGTGTCG 60.317 55.000 0.00 0.00 0.00 4.35
2800 2866 1.011333 CGTTTGGTTGAAGGTGTCGT 58.989 50.000 0.00 0.00 0.00 4.34
2801 2867 2.203401 CGTTTGGTTGAAGGTGTCGTA 58.797 47.619 0.00 0.00 0.00 3.43
2802 2868 2.803956 CGTTTGGTTGAAGGTGTCGTAT 59.196 45.455 0.00 0.00 0.00 3.06
2803 2869 3.363575 CGTTTGGTTGAAGGTGTCGTATG 60.364 47.826 0.00 0.00 0.00 2.39
2804 2870 3.755112 TTGGTTGAAGGTGTCGTATGA 57.245 42.857 0.00 0.00 0.00 2.15
2805 2871 3.755112 TGGTTGAAGGTGTCGTATGAA 57.245 42.857 0.00 0.00 0.00 2.57
2806 2872 4.280436 TGGTTGAAGGTGTCGTATGAAT 57.720 40.909 0.00 0.00 0.00 2.57
2807 2873 4.000325 TGGTTGAAGGTGTCGTATGAATG 59.000 43.478 0.00 0.00 0.00 2.67
2808 2874 3.374058 GGTTGAAGGTGTCGTATGAATGG 59.626 47.826 0.00 0.00 0.00 3.16
2809 2875 3.260475 TGAAGGTGTCGTATGAATGGG 57.740 47.619 0.00 0.00 0.00 4.00
2810 2876 2.569853 TGAAGGTGTCGTATGAATGGGT 59.430 45.455 0.00 0.00 0.00 4.51
2811 2877 3.008594 TGAAGGTGTCGTATGAATGGGTT 59.991 43.478 0.00 0.00 0.00 4.11
2812 2878 2.985896 AGGTGTCGTATGAATGGGTTG 58.014 47.619 0.00 0.00 0.00 3.77
2813 2879 2.014128 GGTGTCGTATGAATGGGTTGG 58.986 52.381 0.00 0.00 0.00 3.77
2814 2880 2.014128 GTGTCGTATGAATGGGTTGGG 58.986 52.381 0.00 0.00 0.00 4.12
2815 2881 1.909986 TGTCGTATGAATGGGTTGGGA 59.090 47.619 0.00 0.00 0.00 4.37
2816 2882 2.285977 GTCGTATGAATGGGTTGGGAC 58.714 52.381 0.00 0.00 0.00 4.46
2817 2883 1.210967 TCGTATGAATGGGTTGGGACC 59.789 52.381 0.00 0.00 45.75 4.46
2828 2894 3.462483 GGTTGGGACCGTTCAATTTTT 57.538 42.857 0.00 0.00 35.91 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 1.648467 GAGCTGACGGTGGAAATGCC 61.648 60.000 0.00 0.00 37.10 4.40
245 246 2.214181 GAGCCGGACATGAGACGTGT 62.214 60.000 5.05 0.00 0.00 4.49
306 307 5.316167 AGGACTTGCAACATAACTGATTCA 58.684 37.500 0.00 0.00 0.00 2.57
342 343 2.215942 ACAACCAGGAACCATTAGGC 57.784 50.000 0.00 0.00 39.06 3.93
610 633 1.873698 TTTGCTGTACCCGTGAGAAC 58.126 50.000 0.00 0.00 0.00 3.01
752 781 7.503566 GGGTGCAGGGTAATACGTATATATAGA 59.496 40.741 8.83 0.00 0.00 1.98
785 814 2.489938 TTGGTCTCTGGGTGTATTGC 57.510 50.000 0.00 0.00 0.00 3.56
788 817 5.964477 TCTTTCTATTGGTCTCTGGGTGTAT 59.036 40.000 0.00 0.00 0.00 2.29
927 956 0.160182 CGTACGCAGACGAAAACACC 59.840 55.000 0.52 0.00 45.82 4.16
1006 1035 2.694760 CGCCCTGCCTTCTTTGCTC 61.695 63.158 0.00 0.00 0.00 4.26
1317 1346 0.258774 AGGTGTTGGAGCCACAAAGT 59.741 50.000 0.00 0.00 34.46 2.66
1354 1383 0.459585 AACGTGAACAGCGTGTCACT 60.460 50.000 12.73 1.15 42.10 3.41
1369 1398 2.607187 CATGAAGTAGAAGGCGAACGT 58.393 47.619 0.00 0.00 0.00 3.99
1381 1410 2.305635 ACACATGCCACTCCATGAAGTA 59.694 45.455 8.93 0.00 44.12 2.24
1431 1460 1.285023 CAGGTCGTCGTCTTCCGTT 59.715 57.895 0.00 0.00 37.94 4.44
1666 1695 0.108329 CCGACCCATGCGTCTAACTT 60.108 55.000 8.78 0.00 0.00 2.66
1669 1698 2.897207 CCCGACCCATGCGTCTAA 59.103 61.111 8.78 0.00 0.00 2.10
1694 1723 1.007618 GAGCATACGTAGCCGTCCC 60.008 63.158 0.08 0.00 46.28 4.46
1707 1736 2.362120 GCAACCTGGCAGGAGCAT 60.362 61.111 38.99 18.76 44.61 3.79
1792 1821 1.830587 AACTCCAGCTGATGCCACGA 61.831 55.000 17.39 0.29 40.80 4.35
1839 1868 1.843734 GCGACTCCTCGATACTCCGG 61.844 65.000 0.00 0.00 43.06 5.14
2009 2038 7.748691 ATTTTTGTACACGGTACCATTAACT 57.251 32.000 13.54 0.00 0.00 2.24
2034 2063 8.815565 TGGTATATTTTACTTGCTTTGATGGA 57.184 30.769 0.00 0.00 0.00 3.41
2313 2369 2.492484 ACCAAACGTACAAGGCAACAAA 59.508 40.909 0.00 0.00 41.41 2.83
2390 2446 9.844257 TGGTAACACAATTCACATATGATGATA 57.156 29.630 10.38 2.22 46.17 2.15
2479 2541 1.986631 TCCCACCTCCCAATTTCGTTA 59.013 47.619 0.00 0.00 0.00 3.18
2536 2602 2.113860 TGGAGCAGTTGGTGAATAGC 57.886 50.000 0.00 0.00 0.00 2.97
2571 2637 1.073897 GGCAGGAAAGGTGCTCAGT 59.926 57.895 0.00 0.00 40.97 3.41
2572 2638 1.676967 GGGCAGGAAAGGTGCTCAG 60.677 63.158 0.00 0.00 41.42 3.35
2573 2639 2.129555 GAGGGCAGGAAAGGTGCTCA 62.130 60.000 0.00 0.00 44.50 4.26
2574 2640 1.377856 GAGGGCAGGAAAGGTGCTC 60.378 63.158 0.00 0.00 42.18 4.26
2575 2641 1.846712 GAGAGGGCAGGAAAGGTGCT 61.847 60.000 0.00 0.00 40.97 4.40
2576 2642 1.377856 GAGAGGGCAGGAAAGGTGC 60.378 63.158 0.00 0.00 40.42 5.01
2577 2643 0.035630 CTGAGAGGGCAGGAAAGGTG 60.036 60.000 0.00 0.00 32.26 4.00
2578 2644 2.381445 CTGAGAGGGCAGGAAAGGT 58.619 57.895 0.00 0.00 32.26 3.50
2588 2654 0.769873 ATGCTAATGGCCTGAGAGGG 59.230 55.000 3.32 0.00 40.92 4.30
2589 2655 2.621998 CAAATGCTAATGGCCTGAGAGG 59.378 50.000 3.32 0.00 40.92 3.69
2590 2656 3.285484 ACAAATGCTAATGGCCTGAGAG 58.715 45.455 3.32 0.00 40.92 3.20
2591 2657 3.370840 ACAAATGCTAATGGCCTGAGA 57.629 42.857 3.32 0.00 40.92 3.27
2592 2658 4.217118 GGATACAAATGCTAATGGCCTGAG 59.783 45.833 3.32 0.00 40.92 3.35
2593 2659 4.144297 GGATACAAATGCTAATGGCCTGA 58.856 43.478 3.32 0.00 40.92 3.86
2594 2660 4.510038 GGATACAAATGCTAATGGCCTG 57.490 45.455 3.32 0.00 40.92 4.85
2610 2676 3.644884 AAGTGACGATCCGATGGATAC 57.355 47.619 0.00 0.00 43.27 2.24
2611 2677 4.217767 CCTTAAGTGACGATCCGATGGATA 59.782 45.833 0.97 0.00 43.27 2.59
2612 2678 3.005897 CCTTAAGTGACGATCCGATGGAT 59.994 47.826 0.97 0.00 46.28 3.41
2613 2679 2.361119 CCTTAAGTGACGATCCGATGGA 59.639 50.000 0.97 0.00 35.55 3.41
2614 2680 2.545952 CCCTTAAGTGACGATCCGATGG 60.546 54.545 0.97 0.00 0.00 3.51
2615 2681 2.743938 CCCTTAAGTGACGATCCGATG 58.256 52.381 0.97 0.00 0.00 3.84
2616 2682 1.068741 GCCCTTAAGTGACGATCCGAT 59.931 52.381 0.97 0.00 0.00 4.18
2617 2683 0.458669 GCCCTTAAGTGACGATCCGA 59.541 55.000 0.97 0.00 0.00 4.55
2618 2684 0.870307 CGCCCTTAAGTGACGATCCG 60.870 60.000 0.97 0.00 0.00 4.18
2619 2685 0.175073 ACGCCCTTAAGTGACGATCC 59.825 55.000 13.79 0.00 0.00 3.36
2620 2686 2.005971 AACGCCCTTAAGTGACGATC 57.994 50.000 13.79 0.00 0.00 3.69
2621 2687 2.467566 AAACGCCCTTAAGTGACGAT 57.532 45.000 13.79 2.05 0.00 3.73
2622 2688 2.137523 GAAAACGCCCTTAAGTGACGA 58.862 47.619 13.79 0.00 0.00 4.20
2623 2689 1.868498 TGAAAACGCCCTTAAGTGACG 59.132 47.619 0.97 4.74 0.00 4.35
2624 2690 2.350484 GCTGAAAACGCCCTTAAGTGAC 60.350 50.000 0.97 0.00 0.00 3.67
2625 2691 1.877443 GCTGAAAACGCCCTTAAGTGA 59.123 47.619 0.97 0.00 0.00 3.41
2626 2692 1.068541 GGCTGAAAACGCCCTTAAGTG 60.069 52.381 0.97 0.00 41.73 3.16
2627 2693 1.244816 GGCTGAAAACGCCCTTAAGT 58.755 50.000 0.97 0.00 41.73 2.24
2635 2701 0.451783 AATCGGATGGCTGAAAACGC 59.548 50.000 0.00 0.00 32.06 4.84
2636 2702 1.468520 ACAATCGGATGGCTGAAAACG 59.531 47.619 0.00 0.00 32.06 3.60
2637 2703 2.749621 AGACAATCGGATGGCTGAAAAC 59.250 45.455 0.00 0.00 37.26 2.43
2638 2704 3.009723 GAGACAATCGGATGGCTGAAAA 58.990 45.455 1.21 0.00 39.31 2.29
2639 2705 2.237143 AGAGACAATCGGATGGCTGAAA 59.763 45.455 1.21 0.00 39.31 2.69
2640 2706 1.833630 AGAGACAATCGGATGGCTGAA 59.166 47.619 1.21 0.00 39.31 3.02
2641 2707 1.489481 AGAGACAATCGGATGGCTGA 58.511 50.000 1.21 0.00 39.31 4.26
2642 2708 2.322355 AAGAGACAATCGGATGGCTG 57.678 50.000 1.21 0.00 39.31 4.85
2643 2709 4.503991 GGATTAAGAGACAATCGGATGGCT 60.504 45.833 0.00 0.00 42.89 4.75
2644 2710 3.748568 GGATTAAGAGACAATCGGATGGC 59.251 47.826 0.00 0.00 33.94 4.40
2645 2711 4.202357 TGGGATTAAGAGACAATCGGATGG 60.202 45.833 0.00 0.00 33.94 3.51
2646 2712 4.752101 GTGGGATTAAGAGACAATCGGATG 59.248 45.833 0.00 0.00 33.94 3.51
2647 2713 4.202367 GGTGGGATTAAGAGACAATCGGAT 60.202 45.833 0.00 0.00 33.94 4.18
2648 2714 3.134081 GGTGGGATTAAGAGACAATCGGA 59.866 47.826 0.00 0.00 33.94 4.55
2649 2715 3.467803 GGTGGGATTAAGAGACAATCGG 58.532 50.000 0.00 0.00 33.94 4.18
2650 2716 3.467803 GGGTGGGATTAAGAGACAATCG 58.532 50.000 0.00 0.00 33.94 3.34
2651 2717 3.744530 CGGGGTGGGATTAAGAGACAATC 60.745 52.174 0.00 0.00 0.00 2.67
2652 2718 2.172717 CGGGGTGGGATTAAGAGACAAT 59.827 50.000 0.00 0.00 0.00 2.71
2653 2719 1.557832 CGGGGTGGGATTAAGAGACAA 59.442 52.381 0.00 0.00 0.00 3.18
2654 2720 1.200519 CGGGGTGGGATTAAGAGACA 58.799 55.000 0.00 0.00 0.00 3.41
2655 2721 1.413077 CTCGGGGTGGGATTAAGAGAC 59.587 57.143 0.00 0.00 0.00 3.36
2656 2722 1.007963 ACTCGGGGTGGGATTAAGAGA 59.992 52.381 0.00 0.00 0.00 3.10
2657 2723 1.497161 ACTCGGGGTGGGATTAAGAG 58.503 55.000 0.00 0.00 0.00 2.85
2658 2724 1.557832 CAACTCGGGGTGGGATTAAGA 59.442 52.381 0.00 0.00 0.00 2.10
2659 2725 1.557832 TCAACTCGGGGTGGGATTAAG 59.442 52.381 0.00 0.00 0.00 1.85
2660 2726 1.659022 TCAACTCGGGGTGGGATTAA 58.341 50.000 0.00 0.00 0.00 1.40
2661 2727 1.887797 ATCAACTCGGGGTGGGATTA 58.112 50.000 0.00 0.00 0.00 1.75
2662 2728 0.999712 AATCAACTCGGGGTGGGATT 59.000 50.000 0.00 0.00 31.93 3.01
2663 2729 0.546598 GAATCAACTCGGGGTGGGAT 59.453 55.000 0.00 0.00 0.00 3.85
2664 2730 1.895020 CGAATCAACTCGGGGTGGGA 61.895 60.000 0.00 0.00 35.14 4.37
2665 2731 1.449601 CGAATCAACTCGGGGTGGG 60.450 63.158 0.00 0.00 35.14 4.61
2666 2732 0.321298 AACGAATCAACTCGGGGTGG 60.321 55.000 0.00 0.00 43.22 4.61
2667 2733 1.076332 GAACGAATCAACTCGGGGTG 58.924 55.000 0.00 0.00 43.22 4.61
2668 2734 0.389426 CGAACGAATCAACTCGGGGT 60.389 55.000 0.00 0.00 43.22 4.95
2669 2735 0.108992 TCGAACGAATCAACTCGGGG 60.109 55.000 0.00 0.00 43.22 5.73
2670 2736 1.852895 GATCGAACGAATCAACTCGGG 59.147 52.381 0.12 0.00 43.22 5.14
2671 2737 1.852895 GGATCGAACGAATCAACTCGG 59.147 52.381 0.12 0.00 43.22 4.63
2672 2738 2.798680 AGGATCGAACGAATCAACTCG 58.201 47.619 0.12 0.00 44.50 4.18
2673 2739 5.100259 TGTTAGGATCGAACGAATCAACTC 58.900 41.667 0.12 0.00 0.00 3.01
2674 2740 5.068234 TGTTAGGATCGAACGAATCAACT 57.932 39.130 0.12 0.00 0.00 3.16
2675 2741 5.724223 GCTTGTTAGGATCGAACGAATCAAC 60.724 44.000 0.12 4.66 0.00 3.18
2676 2742 4.328983 GCTTGTTAGGATCGAACGAATCAA 59.671 41.667 0.12 0.00 0.00 2.57
2677 2743 3.863424 GCTTGTTAGGATCGAACGAATCA 59.137 43.478 0.12 0.00 0.00 2.57
2678 2744 3.061139 CGCTTGTTAGGATCGAACGAATC 60.061 47.826 0.12 0.44 0.00 2.52
2679 2745 2.858344 CGCTTGTTAGGATCGAACGAAT 59.142 45.455 0.12 0.00 0.00 3.34
2680 2746 2.256174 CGCTTGTTAGGATCGAACGAA 58.744 47.619 0.12 0.00 0.00 3.85
2681 2747 1.468565 CCGCTTGTTAGGATCGAACGA 60.469 52.381 0.00 0.00 0.00 3.85
2682 2748 0.921347 CCGCTTGTTAGGATCGAACG 59.079 55.000 0.00 0.00 0.00 3.95
2683 2749 2.005971 ACCGCTTGTTAGGATCGAAC 57.994 50.000 0.00 2.88 0.00 3.95
2684 2750 3.514645 GTTACCGCTTGTTAGGATCGAA 58.485 45.455 0.00 0.00 0.00 3.71
2685 2751 2.159198 GGTTACCGCTTGTTAGGATCGA 60.159 50.000 0.00 0.00 0.00 3.59
2686 2752 2.199236 GGTTACCGCTTGTTAGGATCG 58.801 52.381 0.00 0.00 0.00 3.69
2687 2753 2.169978 AGGGTTACCGCTTGTTAGGATC 59.830 50.000 0.00 0.00 43.47 3.36
2688 2754 2.193993 AGGGTTACCGCTTGTTAGGAT 58.806 47.619 0.00 0.00 43.47 3.24
2689 2755 1.648116 AGGGTTACCGCTTGTTAGGA 58.352 50.000 0.00 0.00 43.47 2.94
2690 2756 2.027469 AGAAGGGTTACCGCTTGTTAGG 60.027 50.000 9.30 0.00 43.25 2.69
2691 2757 3.329929 AGAAGGGTTACCGCTTGTTAG 57.670 47.619 9.30 0.00 43.25 2.34
2692 2758 3.404899 CAAGAAGGGTTACCGCTTGTTA 58.595 45.455 16.65 0.00 42.71 2.41
2693 2759 2.227194 CAAGAAGGGTTACCGCTTGTT 58.773 47.619 16.65 12.72 44.55 2.83
2694 2760 1.544759 CCAAGAAGGGTTACCGCTTGT 60.545 52.381 20.50 11.05 44.97 3.16
2695 2761 1.165270 CCAAGAAGGGTTACCGCTTG 58.835 55.000 17.45 17.45 45.50 4.01
2696 2762 3.644861 CCAAGAAGGGTTACCGCTT 57.355 52.632 5.10 5.10 45.60 4.68
2706 2772 1.153349 GAGTAGCGGCCCAAGAAGG 60.153 63.158 0.00 0.00 37.03 3.46
2707 2773 0.460987 CAGAGTAGCGGCCCAAGAAG 60.461 60.000 0.00 0.00 0.00 2.85
2708 2774 1.596934 CAGAGTAGCGGCCCAAGAA 59.403 57.895 0.00 0.00 0.00 2.52
2709 2775 2.359169 CCAGAGTAGCGGCCCAAGA 61.359 63.158 0.00 0.00 0.00 3.02
2710 2776 2.187946 CCAGAGTAGCGGCCCAAG 59.812 66.667 0.00 0.00 0.00 3.61
2711 2777 2.606519 ACCAGAGTAGCGGCCCAA 60.607 61.111 0.00 0.00 0.00 4.12
2712 2778 3.390521 CACCAGAGTAGCGGCCCA 61.391 66.667 0.00 0.00 0.00 5.36
2713 2779 4.162690 CCACCAGAGTAGCGGCCC 62.163 72.222 0.00 0.00 0.00 5.80
2714 2780 4.840005 GCCACCAGAGTAGCGGCC 62.840 72.222 0.00 0.00 36.73 6.13
2715 2781 2.876368 AATGCCACCAGAGTAGCGGC 62.876 60.000 0.00 0.00 43.28 6.53
2716 2782 0.392998 AAATGCCACCAGAGTAGCGG 60.393 55.000 0.00 0.00 32.71 5.52
2717 2783 1.453155 AAAATGCCACCAGAGTAGCG 58.547 50.000 0.00 0.00 32.71 4.26
2718 2784 2.819608 TGAAAAATGCCACCAGAGTAGC 59.180 45.455 0.00 0.00 0.00 3.58
2719 2785 3.119708 GCTGAAAAATGCCACCAGAGTAG 60.120 47.826 0.00 0.00 0.00 2.57
2720 2786 2.819608 GCTGAAAAATGCCACCAGAGTA 59.180 45.455 0.00 0.00 0.00 2.59
2721 2787 1.615392 GCTGAAAAATGCCACCAGAGT 59.385 47.619 0.00 0.00 0.00 3.24
2722 2788 1.891150 AGCTGAAAAATGCCACCAGAG 59.109 47.619 0.00 0.00 0.00 3.35
2723 2789 1.999648 AGCTGAAAAATGCCACCAGA 58.000 45.000 0.00 0.00 0.00 3.86
2724 2790 2.298163 AGAAGCTGAAAAATGCCACCAG 59.702 45.455 0.00 0.00 0.00 4.00
2725 2791 2.297033 GAGAAGCTGAAAAATGCCACCA 59.703 45.455 0.00 0.00 0.00 4.17
2726 2792 2.669391 CGAGAAGCTGAAAAATGCCACC 60.669 50.000 0.00 0.00 0.00 4.61
2727 2793 2.589014 CGAGAAGCTGAAAAATGCCAC 58.411 47.619 0.00 0.00 0.00 5.01
2728 2794 1.541147 CCGAGAAGCTGAAAAATGCCA 59.459 47.619 0.00 0.00 0.00 4.92
2729 2795 1.812571 TCCGAGAAGCTGAAAAATGCC 59.187 47.619 0.00 0.00 0.00 4.40
2730 2796 3.772060 ATCCGAGAAGCTGAAAAATGC 57.228 42.857 0.00 0.00 0.00 3.56
2731 2797 8.589629 CAATTTAATCCGAGAAGCTGAAAAATG 58.410 33.333 0.00 0.00 0.00 2.32
2732 2798 7.761249 CCAATTTAATCCGAGAAGCTGAAAAAT 59.239 33.333 0.00 0.00 0.00 1.82
2733 2799 7.090173 CCAATTTAATCCGAGAAGCTGAAAAA 58.910 34.615 0.00 0.00 0.00 1.94
2734 2800 6.350110 CCCAATTTAATCCGAGAAGCTGAAAA 60.350 38.462 0.00 0.00 0.00 2.29
2735 2801 5.125417 CCCAATTTAATCCGAGAAGCTGAAA 59.875 40.000 0.00 0.00 0.00 2.69
2736 2802 4.640201 CCCAATTTAATCCGAGAAGCTGAA 59.360 41.667 0.00 0.00 0.00 3.02
2737 2803 4.199310 CCCAATTTAATCCGAGAAGCTGA 58.801 43.478 0.00 0.00 0.00 4.26
2738 2804 3.243201 GCCCAATTTAATCCGAGAAGCTG 60.243 47.826 0.00 0.00 0.00 4.24
2739 2805 2.952310 GCCCAATTTAATCCGAGAAGCT 59.048 45.455 0.00 0.00 0.00 3.74
2740 2806 2.034685 GGCCCAATTTAATCCGAGAAGC 59.965 50.000 0.00 0.00 0.00 3.86
2741 2807 3.555966 AGGCCCAATTTAATCCGAGAAG 58.444 45.455 0.00 0.00 0.00 2.85
2742 2808 3.662759 AGGCCCAATTTAATCCGAGAA 57.337 42.857 0.00 0.00 0.00 2.87
2743 2809 3.714798 AGTAGGCCCAATTTAATCCGAGA 59.285 43.478 0.00 0.00 0.00 4.04
2744 2810 3.815401 CAGTAGGCCCAATTTAATCCGAG 59.185 47.826 0.00 0.00 0.00 4.63
2745 2811 3.434453 CCAGTAGGCCCAATTTAATCCGA 60.434 47.826 0.00 0.00 0.00 4.55
2746 2812 2.884639 CCAGTAGGCCCAATTTAATCCG 59.115 50.000 0.00 0.00 0.00 4.18
2747 2813 3.230976 CCCAGTAGGCCCAATTTAATCC 58.769 50.000 0.00 0.00 0.00 3.01
2760 2826 2.237392 GCATCCTTATAGGCCCAGTAGG 59.763 54.545 0.00 1.62 34.61 3.18
2761 2827 2.093973 CGCATCCTTATAGGCCCAGTAG 60.094 54.545 0.00 0.00 34.61 2.57
2762 2828 1.899814 CGCATCCTTATAGGCCCAGTA 59.100 52.381 0.00 0.00 34.61 2.74
2763 2829 0.687354 CGCATCCTTATAGGCCCAGT 59.313 55.000 0.00 0.00 34.61 4.00
2764 2830 0.687354 ACGCATCCTTATAGGCCCAG 59.313 55.000 0.00 0.00 34.61 4.45
2765 2831 1.136828 AACGCATCCTTATAGGCCCA 58.863 50.000 0.00 0.00 34.61 5.36
2766 2832 1.880027 CAAACGCATCCTTATAGGCCC 59.120 52.381 0.00 0.00 34.61 5.80
2767 2833 1.880027 CCAAACGCATCCTTATAGGCC 59.120 52.381 0.00 0.00 34.61 5.19
2768 2834 2.572290 ACCAAACGCATCCTTATAGGC 58.428 47.619 0.00 0.00 34.61 3.93
2769 2835 4.196193 TCAACCAAACGCATCCTTATAGG 58.804 43.478 0.00 0.00 36.46 2.57
2770 2836 5.220854 CCTTCAACCAAACGCATCCTTATAG 60.221 44.000 0.00 0.00 0.00 1.31
2771 2837 4.638421 CCTTCAACCAAACGCATCCTTATA 59.362 41.667 0.00 0.00 0.00 0.98
2772 2838 3.443681 CCTTCAACCAAACGCATCCTTAT 59.556 43.478 0.00 0.00 0.00 1.73
2773 2839 2.817258 CCTTCAACCAAACGCATCCTTA 59.183 45.455 0.00 0.00 0.00 2.69
2774 2840 1.613437 CCTTCAACCAAACGCATCCTT 59.387 47.619 0.00 0.00 0.00 3.36
2775 2841 1.247567 CCTTCAACCAAACGCATCCT 58.752 50.000 0.00 0.00 0.00 3.24
2776 2842 0.958822 ACCTTCAACCAAACGCATCC 59.041 50.000 0.00 0.00 0.00 3.51
2777 2843 1.336755 ACACCTTCAACCAAACGCATC 59.663 47.619 0.00 0.00 0.00 3.91
2778 2844 1.336755 GACACCTTCAACCAAACGCAT 59.663 47.619 0.00 0.00 0.00 4.73
2779 2845 0.736053 GACACCTTCAACCAAACGCA 59.264 50.000 0.00 0.00 0.00 5.24
2780 2846 0.316689 CGACACCTTCAACCAAACGC 60.317 55.000 0.00 0.00 0.00 4.84
2781 2847 1.011333 ACGACACCTTCAACCAAACG 58.989 50.000 0.00 0.00 0.00 3.60
2782 2848 3.810941 TCATACGACACCTTCAACCAAAC 59.189 43.478 0.00 0.00 0.00 2.93
2783 2849 4.074627 TCATACGACACCTTCAACCAAA 57.925 40.909 0.00 0.00 0.00 3.28
2784 2850 3.755112 TCATACGACACCTTCAACCAA 57.245 42.857 0.00 0.00 0.00 3.67
2785 2851 3.755112 TTCATACGACACCTTCAACCA 57.245 42.857 0.00 0.00 0.00 3.67
2786 2852 3.374058 CCATTCATACGACACCTTCAACC 59.626 47.826 0.00 0.00 0.00 3.77
2787 2853 3.374058 CCCATTCATACGACACCTTCAAC 59.626 47.826 0.00 0.00 0.00 3.18
2788 2854 3.008594 ACCCATTCATACGACACCTTCAA 59.991 43.478 0.00 0.00 0.00 2.69
2789 2855 2.569853 ACCCATTCATACGACACCTTCA 59.430 45.455 0.00 0.00 0.00 3.02
2790 2856 3.261981 ACCCATTCATACGACACCTTC 57.738 47.619 0.00 0.00 0.00 3.46
2791 2857 3.343617 CAACCCATTCATACGACACCTT 58.656 45.455 0.00 0.00 0.00 3.50
2792 2858 2.355716 CCAACCCATTCATACGACACCT 60.356 50.000 0.00 0.00 0.00 4.00
2793 2859 2.014128 CCAACCCATTCATACGACACC 58.986 52.381 0.00 0.00 0.00 4.16
2794 2860 2.014128 CCCAACCCATTCATACGACAC 58.986 52.381 0.00 0.00 0.00 3.67
2795 2861 1.909986 TCCCAACCCATTCATACGACA 59.090 47.619 0.00 0.00 0.00 4.35
2796 2862 2.285977 GTCCCAACCCATTCATACGAC 58.714 52.381 0.00 0.00 0.00 4.34
2797 2863 1.210967 GGTCCCAACCCATTCATACGA 59.789 52.381 0.00 0.00 39.93 3.43
2798 2864 1.675552 GGTCCCAACCCATTCATACG 58.324 55.000 0.00 0.00 39.93 3.06
2799 2865 1.064979 ACGGTCCCAACCCATTCATAC 60.065 52.381 0.00 0.00 43.21 2.39
2800 2866 1.291109 ACGGTCCCAACCCATTCATA 58.709 50.000 0.00 0.00 43.21 2.15
2801 2867 0.407918 AACGGTCCCAACCCATTCAT 59.592 50.000 0.00 0.00 43.21 2.57
2802 2868 0.250989 GAACGGTCCCAACCCATTCA 60.251 55.000 0.00 0.00 43.21 2.57
2803 2869 0.250989 TGAACGGTCCCAACCCATTC 60.251 55.000 0.00 0.00 43.21 2.67
2804 2870 0.186386 TTGAACGGTCCCAACCCATT 59.814 50.000 0.00 0.00 43.21 3.16
2805 2871 0.407918 ATTGAACGGTCCCAACCCAT 59.592 50.000 0.00 0.00 43.21 4.00
2806 2872 0.186386 AATTGAACGGTCCCAACCCA 59.814 50.000 0.00 0.00 43.21 4.51
2807 2873 1.334160 AAATTGAACGGTCCCAACCC 58.666 50.000 0.00 0.00 43.21 4.11
2808 2874 3.462483 AAAAATTGAACGGTCCCAACC 57.538 42.857 0.00 0.00 42.66 3.77


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

AutoCloner maintained by Alex Coulton.