Multiple sequence alignment - TraesCS2D01G236100

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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 TraesCS2D01G236100 chr2D 100.000 3655 0 0 1 3655 229636681 229640335 0.000000e+00 6750.0
1 TraesCS2D01G236100 chr2A 97.492 1794 33 3 828 2612 309692037 309690247 0.000000e+00 3053.0
2 TraesCS2D01G236100 chr2A 91.341 820 31 9 2769 3585 309689897 309689115 0.000000e+00 1085.0
3 TraesCS2D01G236100 chr2A 89.023 829 81 9 6 826 309706579 309705753 0.000000e+00 1018.0
4 TraesCS2D01G236100 chr2A 93.878 49 2 1 60 107 309706482 309706434 5.060000e-09 73.1
5 TraesCS2D01G236100 chr2B 97.441 977 23 2 1672 2648 326272891 326271917 0.000000e+00 1664.0
6 TraesCS2D01G236100 chr2B 94.023 870 31 10 828 1686 326287223 326286364 0.000000e+00 1299.0
7 TraesCS2D01G236100 chr2B 94.253 609 25 4 2713 3317 326271916 326271314 0.000000e+00 922.0
8 TraesCS2D01G236100 chr2B 93.814 194 11 1 3463 3655 603410451 603410258 1.280000e-74 291.0
9 TraesCS2D01G236100 chr2B 93.782 193 12 0 3463 3655 798140956 798140764 1.280000e-74 291.0
10 TraesCS2D01G236100 chr2B 93.333 195 13 0 3461 3655 800248994 800248800 4.620000e-74 289.0
11 TraesCS2D01G236100 chr7A 90.734 831 71 5 1 826 487718702 487717873 0.000000e+00 1103.0
12 TraesCS2D01G236100 chr7A 89.623 106 7 4 3352 3457 106952479 106952378 8.240000e-27 132.0
13 TraesCS2D01G236100 chr6B 93.782 193 12 0 3463 3655 66742264 66742456 1.280000e-74 291.0
14 TraesCS2D01G236100 chr6B 91.241 137 10 1 3326 3462 465733302 465733168 6.230000e-43 185.0
15 TraesCS2D01G236100 chr3A 93.782 193 12 0 3463 3655 497712469 497712661 1.280000e-74 291.0
16 TraesCS2D01G236100 chr3A 90.196 51 3 2 3406 3456 126111585 126111537 8.470000e-07 65.8
17 TraesCS2D01G236100 chr1B 93.367 196 11 2 3461 3655 192272229 192272035 4.620000e-74 289.0
18 TraesCS2D01G236100 chrUn 93.299 194 13 0 3462 3655 9873222 9873029 1.660000e-73 287.0
19 TraesCS2D01G236100 chr1D 93.299 194 13 0 3462 3655 15108996 15109189 1.660000e-73 287.0
20 TraesCS2D01G236100 chr1D 93.043 115 6 1 3344 3458 22543299 22543187 2.260000e-37 167.0
21 TraesCS2D01G236100 chr3D 95.172 145 5 1 3314 3458 108008608 108008466 1.020000e-55 228.0
22 TraesCS2D01G236100 chr6D 91.781 146 8 3 3314 3458 269880431 269880573 2.230000e-47 200.0
23 TraesCS2D01G236100 chr1A 89.130 138 13 1 3318 3455 272988852 272988717 1.750000e-38 171.0
24 TraesCS2D01G236100 chr6A 92.308 52 3 1 3406 3457 4042963 4043013 5.060000e-09 73.1


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 TraesCS2D01G236100 chr2D 229636681 229640335 3654 False 6750.00 6750 100.0000 1 3655 1 chr2D.!!$F1 3654
1 TraesCS2D01G236100 chr2A 309689115 309692037 2922 True 2069.00 3053 94.4165 828 3585 2 chr2A.!!$R1 2757
2 TraesCS2D01G236100 chr2A 309705753 309706579 826 True 545.55 1018 91.4505 6 826 2 chr2A.!!$R2 820
3 TraesCS2D01G236100 chr2B 326286364 326287223 859 True 1299.00 1299 94.0230 828 1686 1 chr2B.!!$R1 858
4 TraesCS2D01G236100 chr2B 326271314 326272891 1577 True 1293.00 1664 95.8470 1672 3317 2 chr2B.!!$R5 1645
5 TraesCS2D01G236100 chr7A 487717873 487718702 829 True 1103.00 1103 90.7340 1 826 1 chr7A.!!$R2 825

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
166 167 0.037232 GAACCGGTTGGAGAGTCAGG 60.037 60.0 27.87 0.0 39.21 3.86 F
1203 1211 0.179108 AAGCTTCGGGATACAGCGAC 60.179 55.0 0.00 0.0 38.66 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1460 1477 1.494960 AATTGTTGTGGGTTGGCTGT 58.505 45.0 0.00 0.0 0.0 4.40 R
2660 2677 0.264359 AGAGAGAGGCTGGGCTGTAT 59.736 55.0 0.33 0.0 0.0 2.29 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
22 23 2.224843 ACTGGCAGGACACAATCAATCA 60.225 45.455 20.34 0.00 0.00 2.57
37 38 1.830587 AATCAGCCGAGCACCTCACA 61.831 55.000 0.00 0.00 0.00 3.58
125 126 7.338196 TGGAGAACACAATCAAAGACTGTTTTA 59.662 33.333 0.00 0.00 0.00 1.52
162 163 1.192803 GGAGGAACCGGTTGGAGAGT 61.193 60.000 27.87 0.00 39.21 3.24
164 165 0.471211 AGGAACCGGTTGGAGAGTCA 60.471 55.000 27.87 0.00 39.21 3.41
166 167 0.037232 GAACCGGTTGGAGAGTCAGG 60.037 60.000 27.87 0.00 39.21 3.86
177 178 1.556911 GAGAGTCAGGGCAGGAAATGA 59.443 52.381 0.00 0.00 0.00 2.57
187 188 1.758936 CAGGAAATGATGAGCAGGCA 58.241 50.000 0.00 0.00 0.00 4.75
202 203 1.061131 CAGGCAGCGTAAACTGAATCG 59.939 52.381 0.00 0.00 40.25 3.34
239 240 2.292794 GAAGCGGTCGTCCATGGCTA 62.293 60.000 6.96 0.00 32.82 3.93
246 247 0.529773 TCGTCCATGGCTATTGCGAC 60.530 55.000 6.96 0.00 40.82 5.19
255 256 1.752501 GCTATTGCGACGTCGTGCAT 61.753 55.000 35.48 25.81 41.42 3.96
288 289 2.489275 CGGCACACCTTTTGGCACT 61.489 57.895 0.00 0.00 45.59 4.40
321 322 2.030562 CGTCGGTCTTGCCCTTGT 59.969 61.111 0.00 0.00 0.00 3.16
344 345 1.001633 TGGACTTCTTAGACGCCAACC 59.998 52.381 0.95 0.00 0.00 3.77
382 383 2.691240 AAAGGAGACCGGTGGGGAGT 62.691 60.000 14.63 0.00 39.97 3.85
442 443 2.427245 CCCGCCTTCTCTGACCGAT 61.427 63.158 0.00 0.00 0.00 4.18
456 457 3.470888 CGATGGGGCGGTCCTCTT 61.471 66.667 0.00 0.00 32.58 2.85
499 502 2.976490 ATCAGCTGTGGGAGGGTGC 61.976 63.158 14.67 0.00 0.00 5.01
560 563 2.028130 GGCTCAAGAGAGGATCGAGAA 58.972 52.381 0.32 0.00 42.67 2.87
561 564 2.627699 GGCTCAAGAGAGGATCGAGAAT 59.372 50.000 0.32 0.00 42.67 2.40
579 583 4.689062 AGAATGGTGGAGAAGAGGAACTA 58.311 43.478 0.00 0.00 41.55 2.24
622 626 0.765510 GGGAAGGAGAGGTTGTGTGT 59.234 55.000 0.00 0.00 0.00 3.72
624 628 1.141053 GGAAGGAGAGGTTGTGTGTGT 59.859 52.381 0.00 0.00 0.00 3.72
640 644 1.536907 TGTCGGGAGGGTTAAGGCA 60.537 57.895 0.00 0.00 0.00 4.75
660 666 3.780173 GGCCAGCGAGCTCCTCTT 61.780 66.667 8.47 0.00 0.00 2.85
695 702 2.317609 CCCACAGGTCAGCGAAACG 61.318 63.158 0.00 0.00 0.00 3.60
726 733 1.066257 GCAGGCACACCACACAAAG 59.934 57.895 0.00 0.00 39.06 2.77
733 740 1.601903 CACACCACACAAAGCACGTAT 59.398 47.619 0.00 0.00 0.00 3.06
734 741 2.032799 CACACCACACAAAGCACGTATT 59.967 45.455 0.00 0.00 0.00 1.89
735 742 2.685897 ACACCACACAAAGCACGTATTT 59.314 40.909 0.00 0.00 0.00 1.40
740 747 5.472137 ACCACACAAAGCACGTATTTCTATT 59.528 36.000 0.00 0.00 0.00 1.73
767 774 2.543777 TTCCTTTCGCTAGCACAGTT 57.456 45.000 16.45 0.00 0.00 3.16
772 779 4.817464 TCCTTTCGCTAGCACAGTTAAAAA 59.183 37.500 16.45 1.29 0.00 1.94
773 780 5.472137 TCCTTTCGCTAGCACAGTTAAAAAT 59.528 36.000 16.45 0.00 0.00 1.82
783 790 4.793071 CACAGTTAAAAATGATGCGGTGA 58.207 39.130 0.00 0.00 0.00 4.02
788 795 3.764885 AAAAATGATGCGGTGACTAGC 57.235 42.857 0.00 0.00 0.00 3.42
820 827 4.873789 GCTATTTACGCGACGCTTATTA 57.126 40.909 15.93 7.21 0.00 0.98
822 829 5.238442 GCTATTTACGCGACGCTTATTATG 58.762 41.667 15.93 2.48 0.00 1.90
826 833 1.591158 ACGCGACGCTTATTATGTTGG 59.409 47.619 15.93 0.00 0.00 3.77
840 848 1.145377 GTTGGATATGACCGGCCGT 59.855 57.895 26.12 12.57 0.00 5.68
905 913 4.892345 CCTCCATCATCTCAGTTCTCAGTA 59.108 45.833 0.00 0.00 0.00 2.74
964 972 0.524862 CAGCCAAAGATGAGCCACAC 59.475 55.000 0.00 0.00 0.00 3.82
1203 1211 0.179108 AAGCTTCGGGATACAGCGAC 60.179 55.000 0.00 0.00 38.66 5.19
1460 1477 2.100418 CGCTCAGATGATCCTCTCACAA 59.900 50.000 0.00 0.00 36.48 3.33
1738 1755 7.981142 TCAATTCGGAATTTGAGTTATACCAC 58.019 34.615 13.09 0.00 0.00 4.16
1897 1914 6.867662 TTTTTCTTTCTGCTCCTAGAGTTG 57.132 37.500 0.00 0.00 31.39 3.16
2020 2037 0.394352 CCTTCGCATGGGGCTAAAGT 60.394 55.000 10.21 0.00 41.67 2.66
2147 2164 0.765510 AGGAGGCGTTGGAGAAGTTT 59.234 50.000 0.00 0.00 0.00 2.66
2274 2291 7.715657 TGTTTCAATATGAAGAGCAAAACTGT 58.284 30.769 0.00 0.00 37.70 3.55
2404 2421 5.502153 ACTAGACACTATCCGCTTTACAG 57.498 43.478 0.00 0.00 0.00 2.74
2405 2422 5.191426 ACTAGACACTATCCGCTTTACAGA 58.809 41.667 0.00 0.00 0.00 3.41
2417 2434 4.457949 CCGCTTTACAGAAGTAAATGGGTT 59.542 41.667 1.76 0.00 46.09 4.11
2558 2575 7.400158 ACGATGAATCATTTATCAACGAGAG 57.600 36.000 11.45 0.00 42.28 3.20
2648 2665 4.516698 ACATCTACTTGGTCTTGCAGTTTG 59.483 41.667 0.00 0.00 0.00 2.93
2649 2666 2.878406 TCTACTTGGTCTTGCAGTTTGC 59.122 45.455 0.00 0.00 45.29 3.68
2658 2675 4.017092 GCAGTTTGCACACTTGGC 57.983 55.556 1.88 0.91 44.26 4.52
2659 2676 1.592400 GCAGTTTGCACACTTGGCC 60.592 57.895 1.88 0.00 44.26 5.36
2660 2677 1.815196 CAGTTTGCACACTTGGCCA 59.185 52.632 0.00 0.00 0.00 5.36
2661 2678 0.390124 CAGTTTGCACACTTGGCCAT 59.610 50.000 6.09 0.00 0.00 4.40
2662 2679 1.612950 CAGTTTGCACACTTGGCCATA 59.387 47.619 6.09 0.00 0.00 2.74
2663 2680 1.613437 AGTTTGCACACTTGGCCATAC 59.387 47.619 6.09 0.00 0.00 2.39
2664 2681 1.339610 GTTTGCACACTTGGCCATACA 59.660 47.619 6.09 0.00 0.00 2.29
2665 2682 1.246649 TTGCACACTTGGCCATACAG 58.753 50.000 6.09 3.15 0.00 2.74
2666 2683 1.243342 TGCACACTTGGCCATACAGC 61.243 55.000 6.09 8.58 0.00 4.40
2674 2691 2.203266 GCCATACAGCCCAGCCTC 60.203 66.667 0.00 0.00 0.00 4.70
2675 2692 2.750657 GCCATACAGCCCAGCCTCT 61.751 63.158 0.00 0.00 0.00 3.69
2676 2693 1.449353 CCATACAGCCCAGCCTCTC 59.551 63.158 0.00 0.00 0.00 3.20
2677 2694 1.053264 CCATACAGCCCAGCCTCTCT 61.053 60.000 0.00 0.00 0.00 3.10
2678 2695 0.392336 CATACAGCCCAGCCTCTCTC 59.608 60.000 0.00 0.00 0.00 3.20
2679 2696 0.264359 ATACAGCCCAGCCTCTCTCT 59.736 55.000 0.00 0.00 0.00 3.10
2680 2697 0.396417 TACAGCCCAGCCTCTCTCTC 60.396 60.000 0.00 0.00 0.00 3.20
2681 2698 1.381599 CAGCCCAGCCTCTCTCTCT 60.382 63.158 0.00 0.00 0.00 3.10
2682 2699 1.076044 AGCCCAGCCTCTCTCTCTC 60.076 63.158 0.00 0.00 0.00 3.20
2683 2700 1.076044 GCCCAGCCTCTCTCTCTCT 60.076 63.158 0.00 0.00 0.00 3.10
2684 2701 1.109323 GCCCAGCCTCTCTCTCTCTC 61.109 65.000 0.00 0.00 0.00 3.20
2685 2702 0.552848 CCCAGCCTCTCTCTCTCTCT 59.447 60.000 0.00 0.00 0.00 3.10
2686 2703 1.477558 CCCAGCCTCTCTCTCTCTCTC 60.478 61.905 0.00 0.00 0.00 3.20
2687 2704 1.492176 CCAGCCTCTCTCTCTCTCTCT 59.508 57.143 0.00 0.00 0.00 3.10
2688 2705 2.486191 CCAGCCTCTCTCTCTCTCTCTC 60.486 59.091 0.00 0.00 0.00 3.20
2689 2706 2.437281 CAGCCTCTCTCTCTCTCTCTCT 59.563 54.545 0.00 0.00 0.00 3.10
2690 2707 2.703007 AGCCTCTCTCTCTCTCTCTCTC 59.297 54.545 0.00 0.00 0.00 3.20
2691 2708 2.703007 GCCTCTCTCTCTCTCTCTCTCT 59.297 54.545 0.00 0.00 0.00 3.10
2692 2709 3.244044 GCCTCTCTCTCTCTCTCTCTCTC 60.244 56.522 0.00 0.00 0.00 3.20
2693 2710 3.323403 CCTCTCTCTCTCTCTCTCTCTCC 59.677 56.522 0.00 0.00 0.00 3.71
2694 2711 3.309296 TCTCTCTCTCTCTCTCTCTCCC 58.691 54.545 0.00 0.00 0.00 4.30
2695 2712 2.370189 CTCTCTCTCTCTCTCTCTCCCC 59.630 59.091 0.00 0.00 0.00 4.81
2696 2713 1.421646 CTCTCTCTCTCTCTCTCCCCC 59.578 61.905 0.00 0.00 0.00 5.40
2697 2714 1.221635 CTCTCTCTCTCTCTCCCCCA 58.778 60.000 0.00 0.00 0.00 4.96
2698 2715 0.923358 TCTCTCTCTCTCTCCCCCAC 59.077 60.000 0.00 0.00 0.00 4.61
2699 2716 0.926293 CTCTCTCTCTCTCCCCCACT 59.074 60.000 0.00 0.00 0.00 4.00
2700 2717 2.131854 CTCTCTCTCTCTCCCCCACTA 58.868 57.143 0.00 0.00 0.00 2.74
2701 2718 2.106511 CTCTCTCTCTCTCCCCCACTAG 59.893 59.091 0.00 0.00 0.00 2.57
2702 2719 1.850345 CTCTCTCTCTCCCCCACTAGT 59.150 57.143 0.00 0.00 0.00 2.57
2703 2720 2.243736 CTCTCTCTCTCCCCCACTAGTT 59.756 54.545 0.00 0.00 0.00 2.24
2704 2721 2.242708 TCTCTCTCTCCCCCACTAGTTC 59.757 54.545 0.00 0.00 0.00 3.01
2705 2722 1.064611 TCTCTCTCCCCCACTAGTTCG 60.065 57.143 0.00 0.00 0.00 3.95
2706 2723 0.997363 TCTCTCCCCCACTAGTTCGA 59.003 55.000 0.00 0.00 0.00 3.71
2707 2724 1.356738 TCTCTCCCCCACTAGTTCGAA 59.643 52.381 0.00 0.00 0.00 3.71
2708 2725 2.176889 CTCTCCCCCACTAGTTCGAAA 58.823 52.381 0.00 0.00 0.00 3.46
2709 2726 1.897802 TCTCCCCCACTAGTTCGAAAC 59.102 52.381 0.00 0.00 0.00 2.78
2710 2727 1.621814 CTCCCCCACTAGTTCGAAACA 59.378 52.381 0.00 0.00 0.00 2.83
2711 2728 1.621814 TCCCCCACTAGTTCGAAACAG 59.378 52.381 0.00 2.28 0.00 3.16
2732 2749 7.385778 ACAGTAGTTTTAGTTTGTTCTTGCA 57.614 32.000 0.00 0.00 0.00 4.08
2742 2759 2.260844 TGTTCTTGCAGAGACTTGGG 57.739 50.000 0.00 0.00 33.02 4.12
2782 2992 6.603224 TGGTTTTAGCCTTCCTTTGTACTTA 58.397 36.000 0.00 0.00 0.00 2.24
2874 3088 5.885912 AGGAAATATGTTACCATCGTGCTTT 59.114 36.000 0.00 0.00 32.29 3.51
2878 3092 8.905103 AAATATGTTACCATCGTGCTTTTAAC 57.095 30.769 0.00 0.00 32.29 2.01
3099 3313 3.056588 TGCAATGCACAGACATGACTA 57.943 42.857 2.72 0.00 31.71 2.59
3206 3423 6.266786 CACTTCCCAAATAAGGTTAAACCAGT 59.733 38.462 0.00 0.00 41.95 4.00
3250 3467 7.637229 AGAATTTATGCAGATTCTTCATCACG 58.363 34.615 13.85 0.00 39.01 4.35
3272 3489 8.630037 TCACGAGAGCTTTATTATGATCAGTAA 58.370 33.333 0.09 1.10 0.00 2.24
3273 3490 9.416794 CACGAGAGCTTTATTATGATCAGTAAT 57.583 33.333 0.09 8.27 0.00 1.89
3391 3608 3.679025 GCAAGATAAGGCTGATCTGATCG 59.321 47.826 15.30 5.92 33.85 3.69
3392 3609 4.244066 CAAGATAAGGCTGATCTGATCGG 58.756 47.826 15.30 19.85 33.85 4.18
3408 3625 0.108186 TCGGCACTTGGATAGCACAG 60.108 55.000 0.00 0.00 0.00 3.66
3421 3638 7.144722 TGGATAGCACAGAACTTGTAATTTG 57.855 36.000 0.00 0.00 38.16 2.32
3422 3639 6.714810 TGGATAGCACAGAACTTGTAATTTGT 59.285 34.615 0.00 0.00 38.16 2.83
3423 3640 7.230510 TGGATAGCACAGAACTTGTAATTTGTT 59.769 33.333 0.00 0.00 38.16 2.83
3475 3692 9.125026 GGGTGATTCTCTGTGTTGAAATATATT 57.875 33.333 0.00 0.00 0.00 1.28
3488 3705 4.202567 TGAAATATATTGCCCACCTCCCTC 60.203 45.833 0.00 0.00 0.00 4.30
3498 3715 1.340405 CCACCTCCCTCCATCAGTTTG 60.340 57.143 0.00 0.00 0.00 2.93
3501 3718 1.065126 CCTCCCTCCATCAGTTTGGAC 60.065 57.143 0.00 0.00 40.90 4.02
3520 3737 2.229784 GACTTTTGGATGAGTTGGCTGG 59.770 50.000 0.00 0.00 0.00 4.85
3531 3748 2.097825 AGTTGGCTGGAGCATGAATTC 58.902 47.619 0.00 0.00 44.36 2.17
3544 3761 6.660521 GGAGCATGAATTCAATATGGTATCCA 59.339 38.462 13.09 0.00 38.19 3.41
3546 3763 8.118976 AGCATGAATTCAATATGGTATCCAAG 57.881 34.615 13.09 0.00 36.95 3.61
3556 3773 1.004277 TGGTATCCAAGCCAACAGGTC 59.996 52.381 0.00 0.00 0.00 3.85
3567 3784 4.532834 AGCCAACAGGTCTTAAGTTCAAA 58.467 39.130 1.63 0.00 0.00 2.69
3571 3788 5.359860 CCAACAGGTCTTAAGTTCAAAACCT 59.640 40.000 1.63 3.97 37.61 3.50
3580 3797 0.927537 GTTCAAAACCTTGCCAACGC 59.072 50.000 0.00 0.00 32.14 4.84
3596 3813 5.795939 TGCCAACGCAGTATTAAATAAAACG 59.204 36.000 0.00 0.00 45.00 3.60
3597 3814 6.022821 GCCAACGCAGTATTAAATAAAACGA 58.977 36.000 0.00 0.00 45.00 3.85
3598 3815 6.689669 GCCAACGCAGTATTAAATAAAACGAT 59.310 34.615 0.00 0.00 45.00 3.73
3599 3816 7.219344 GCCAACGCAGTATTAAATAAAACGATT 59.781 33.333 0.00 0.00 45.00 3.34
3600 3817 8.730427 CCAACGCAGTATTAAATAAAACGATTC 58.270 33.333 0.00 0.00 45.00 2.52
3601 3818 9.485591 CAACGCAGTATTAAATAAAACGATTCT 57.514 29.630 0.00 0.00 45.00 2.40
3611 3828 9.656040 TTAAATAAAACGATTCTACAGCCTACA 57.344 29.630 0.00 0.00 0.00 2.74
3612 3829 8.732746 AAATAAAACGATTCTACAGCCTACAT 57.267 30.769 0.00 0.00 0.00 2.29
3613 3830 7.948278 ATAAAACGATTCTACAGCCTACATC 57.052 36.000 0.00 0.00 0.00 3.06
3614 3831 3.627732 ACGATTCTACAGCCTACATCG 57.372 47.619 0.00 0.00 39.49 3.84
3615 3832 3.211865 ACGATTCTACAGCCTACATCGA 58.788 45.455 6.38 0.00 37.53 3.59
3616 3833 3.821600 ACGATTCTACAGCCTACATCGAT 59.178 43.478 6.38 0.00 37.53 3.59
3617 3834 4.083217 ACGATTCTACAGCCTACATCGATC 60.083 45.833 0.00 0.00 37.53 3.69
3618 3835 4.673061 CGATTCTACAGCCTACATCGATCC 60.673 50.000 0.00 0.00 36.47 3.36
3619 3836 2.515854 TCTACAGCCTACATCGATCCC 58.484 52.381 0.00 0.00 0.00 3.85
3620 3837 2.158519 TCTACAGCCTACATCGATCCCA 60.159 50.000 0.00 0.00 0.00 4.37
3621 3838 1.722034 ACAGCCTACATCGATCCCAT 58.278 50.000 0.00 0.00 0.00 4.00
3622 3839 1.345741 ACAGCCTACATCGATCCCATG 59.654 52.381 0.00 0.00 0.00 3.66
3623 3840 1.345741 CAGCCTACATCGATCCCATGT 59.654 52.381 0.00 9.36 38.13 3.21
3624 3841 1.620819 AGCCTACATCGATCCCATGTC 59.379 52.381 7.98 0.00 35.95 3.06
3625 3842 1.620819 GCCTACATCGATCCCATGTCT 59.379 52.381 7.98 0.00 35.95 3.41
3626 3843 2.826128 GCCTACATCGATCCCATGTCTA 59.174 50.000 7.98 0.00 35.95 2.59
3627 3844 3.258372 GCCTACATCGATCCCATGTCTAA 59.742 47.826 7.98 0.00 35.95 2.10
3628 3845 4.619394 GCCTACATCGATCCCATGTCTAAG 60.619 50.000 7.98 2.31 35.95 2.18
3629 3846 4.081972 CCTACATCGATCCCATGTCTAAGG 60.082 50.000 7.98 6.74 35.95 2.69
3630 3847 3.576861 ACATCGATCCCATGTCTAAGGA 58.423 45.455 0.00 0.00 27.49 3.36
3631 3848 3.322254 ACATCGATCCCATGTCTAAGGAC 59.678 47.826 0.00 0.00 42.42 3.85
3632 3849 3.314307 TCGATCCCATGTCTAAGGACT 57.686 47.619 0.00 0.00 42.54 3.85
3633 3850 4.448720 TCGATCCCATGTCTAAGGACTA 57.551 45.455 0.00 0.00 42.54 2.59
3634 3851 4.800023 TCGATCCCATGTCTAAGGACTAA 58.200 43.478 0.00 0.00 42.54 2.24
3635 3852 5.205821 TCGATCCCATGTCTAAGGACTAAA 58.794 41.667 0.00 0.00 42.54 1.85
3636 3853 5.659525 TCGATCCCATGTCTAAGGACTAAAA 59.340 40.000 0.00 0.00 42.54 1.52
3637 3854 6.326583 TCGATCCCATGTCTAAGGACTAAAAT 59.673 38.462 0.00 0.00 42.54 1.82
3638 3855 7.507956 TCGATCCCATGTCTAAGGACTAAAATA 59.492 37.037 0.00 0.00 42.54 1.40
3639 3856 7.815068 CGATCCCATGTCTAAGGACTAAAATAG 59.185 40.741 0.00 0.00 42.54 1.73
3640 3857 6.827727 TCCCATGTCTAAGGACTAAAATAGC 58.172 40.000 0.00 0.00 42.54 2.97
3641 3858 5.998363 CCCATGTCTAAGGACTAAAATAGCC 59.002 44.000 0.00 0.00 42.54 3.93
3642 3859 6.183361 CCCATGTCTAAGGACTAAAATAGCCT 60.183 42.308 0.00 0.00 42.54 4.58
3643 3860 7.016268 CCCATGTCTAAGGACTAAAATAGCCTA 59.984 40.741 0.00 0.00 42.54 3.93
3644 3861 8.091449 CCATGTCTAAGGACTAAAATAGCCTAG 58.909 40.741 0.00 0.00 42.54 3.02
3645 3862 8.861086 CATGTCTAAGGACTAAAATAGCCTAGA 58.139 37.037 0.00 0.00 42.54 2.43
3646 3863 8.235359 TGTCTAAGGACTAAAATAGCCTAGAC 57.765 38.462 0.00 0.00 42.54 2.59
3647 3864 7.837689 TGTCTAAGGACTAAAATAGCCTAGACA 59.162 37.037 19.08 19.08 42.54 3.41
3648 3865 8.862085 GTCTAAGGACTAAAATAGCCTAGACAT 58.138 37.037 17.61 0.00 39.24 3.06
3649 3866 8.861086 TCTAAGGACTAAAATAGCCTAGACATG 58.139 37.037 0.00 0.00 33.77 3.21
3650 3867 7.676683 AAGGACTAAAATAGCCTAGACATGA 57.323 36.000 0.00 0.00 33.77 3.07
3651 3868 7.296628 AGGACTAAAATAGCCTAGACATGAG 57.703 40.000 0.00 0.00 32.84 2.90
3652 3869 6.268847 AGGACTAAAATAGCCTAGACATGAGG 59.731 42.308 0.00 0.00 37.12 3.86
3653 3870 6.426646 ACTAAAATAGCCTAGACATGAGGG 57.573 41.667 0.00 0.00 34.35 4.30
3654 3871 4.713792 AAAATAGCCTAGACATGAGGGG 57.286 45.455 0.00 0.00 34.35 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.133790 GCTGATTGATTGTGTCCTGCC 59.866 52.381 0.00 0.00 0.00 4.85
22 23 4.363990 CGTGTGAGGTGCTCGGCT 62.364 66.667 0.00 0.00 32.35 5.52
41 42 3.747976 GGGTTGATGCGGTGGTGC 61.748 66.667 0.00 0.00 0.00 5.01
92 93 1.315257 ATTGTGTTCTCCATGCCGCC 61.315 55.000 0.00 0.00 0.00 6.13
99 100 4.780815 ACAGTCTTTGATTGTGTTCTCCA 58.219 39.130 0.00 0.00 31.50 3.86
143 144 1.192803 ACTCTCCAACCGGTTCCTCC 61.193 60.000 19.24 0.00 0.00 4.30
162 163 1.409241 GCTCATCATTTCCTGCCCTGA 60.409 52.381 0.00 0.00 0.00 3.86
164 165 0.627451 TGCTCATCATTTCCTGCCCT 59.373 50.000 0.00 0.00 0.00 5.19
166 167 1.030457 CCTGCTCATCATTTCCTGCC 58.970 55.000 0.00 0.00 0.00 4.85
177 178 0.036010 AGTTTACGCTGCCTGCTCAT 60.036 50.000 0.00 0.00 40.11 2.90
187 188 2.618053 CTTCCCGATTCAGTTTACGCT 58.382 47.619 0.00 0.00 0.00 5.07
239 240 2.778026 CATGCACGACGTCGCAAT 59.222 55.556 35.92 23.47 42.37 3.56
271 272 1.067916 CAGTGCCAAAAGGTGTGCC 59.932 57.895 0.00 0.00 0.00 5.01
288 289 3.860605 CGGGATCGGGCATCACCA 61.861 66.667 0.00 0.00 42.05 4.17
321 322 0.524862 GGCGTCTAAGAAGTCCACGA 59.475 55.000 0.00 0.00 32.08 4.35
407 408 1.997874 GGGAGGAGTGGATGCCAGT 60.998 63.158 0.00 0.00 40.30 4.00
442 443 1.684734 GAGTAAGAGGACCGCCCCA 60.685 63.158 0.00 0.00 34.66 4.96
455 456 0.978146 GGCCCCAGCAGAGAGAGTAA 60.978 60.000 0.00 0.00 42.56 2.24
456 457 1.381872 GGCCCCAGCAGAGAGAGTA 60.382 63.158 0.00 0.00 42.56 2.59
528 531 0.036010 CTTGAGCCCTCACCAACGAT 60.036 55.000 0.00 0.00 39.66 3.73
532 535 0.979665 CTCTCTTGAGCCCTCACCAA 59.020 55.000 0.00 0.00 39.66 3.67
533 536 0.906756 CCTCTCTTGAGCCCTCACCA 60.907 60.000 0.00 0.00 39.66 4.17
560 563 2.761208 CGTAGTTCCTCTTCTCCACCAT 59.239 50.000 0.00 0.00 0.00 3.55
561 564 2.168496 CGTAGTTCCTCTTCTCCACCA 58.832 52.381 0.00 0.00 0.00 4.17
579 583 5.049129 CCTTTCTTTCTCTTGCTTGATTCGT 60.049 40.000 0.00 0.00 0.00 3.85
622 626 0.912487 ATGCCTTAACCCTCCCGACA 60.912 55.000 0.00 0.00 0.00 4.35
624 628 1.632018 CCATGCCTTAACCCTCCCGA 61.632 60.000 0.00 0.00 0.00 5.14
735 742 8.827677 GCTAGCGAAAGGAAAAAGAATAATAGA 58.172 33.333 0.00 0.00 0.00 1.98
740 747 5.703592 TGTGCTAGCGAAAGGAAAAAGAATA 59.296 36.000 10.77 0.00 0.00 1.75
753 760 5.933187 TCATTTTTAACTGTGCTAGCGAA 57.067 34.783 10.77 0.00 0.00 4.70
767 774 3.308595 CGCTAGTCACCGCATCATTTTTA 59.691 43.478 0.00 0.00 0.00 1.52
772 779 4.738198 CGCTAGTCACCGCATCAT 57.262 55.556 0.00 0.00 0.00 2.45
820 827 0.250295 CGGCCGGTCATATCCAACAT 60.250 55.000 20.10 0.00 0.00 2.71
822 829 0.463116 AACGGCCGGTCATATCCAAC 60.463 55.000 31.76 0.00 0.00 3.77
826 833 1.338973 TCTACAACGGCCGGTCATATC 59.661 52.381 31.76 0.00 0.00 1.63
840 848 3.503363 CAGCCAGAACAAAGCATCTACAA 59.497 43.478 0.00 0.00 0.00 2.41
870 878 1.228245 ATGGAGGCCACACACACAC 60.228 57.895 5.01 0.00 35.80 3.82
871 879 1.073025 GATGGAGGCCACACACACA 59.927 57.895 5.01 0.00 35.80 3.72
905 913 3.117888 AGGTGTTGAGTTTGGATGTGAGT 60.118 43.478 0.00 0.00 0.00 3.41
964 972 1.134965 GTGAGGAGGAGACGATGGTTG 60.135 57.143 0.00 0.00 0.00 3.77
1460 1477 1.494960 AATTGTTGTGGGTTGGCTGT 58.505 45.000 0.00 0.00 0.00 4.40
1666 1683 2.810274 TCAAGACTCACAATGAAGCAGC 59.190 45.455 0.00 0.00 0.00 5.25
1738 1755 3.370953 CCCATTTCCCTGGACTCAGTTAG 60.371 52.174 0.00 0.00 38.69 2.34
1897 1914 3.181503 CCACAAGCATGAGCAATCTACAC 60.182 47.826 0.00 0.00 45.49 2.90
2020 2037 6.327154 CAGTATGTATCACCGACTTGTACAA 58.673 40.000 8.28 8.28 0.00 2.41
2119 2136 2.081462 CCAACGCCTCCTCGTATTTTT 58.919 47.619 0.00 0.00 42.46 1.94
2147 2164 3.311110 GACCCCAGCACCGACTCA 61.311 66.667 0.00 0.00 0.00 3.41
2274 2291 1.136305 GTGTATTGAGCGGCAGACCTA 59.864 52.381 1.45 0.00 0.00 3.08
2404 2421 9.239551 ACTATGAACCTTAAACCCATTTACTTC 57.760 33.333 0.00 0.00 29.77 3.01
2435 2452 8.383175 TCAGGAAATCAAGTAGGATAAAGTGTT 58.617 33.333 0.00 0.00 0.00 3.32
2558 2575 2.780065 TTTGATAGCATTGATGGCGC 57.220 45.000 0.00 0.00 36.08 6.53
2648 2665 1.508088 GCTGTATGGCCAAGTGTGC 59.492 57.895 10.96 7.48 0.00 4.57
2657 2674 2.203266 GAGGCTGGGCTGTATGGC 60.203 66.667 0.33 0.00 40.96 4.40
2658 2675 1.053264 AGAGAGGCTGGGCTGTATGG 61.053 60.000 0.33 0.00 0.00 2.74
2659 2676 0.392336 GAGAGAGGCTGGGCTGTATG 59.608 60.000 0.33 0.00 0.00 2.39
2660 2677 0.264359 AGAGAGAGGCTGGGCTGTAT 59.736 55.000 0.33 0.00 0.00 2.29
2661 2678 0.396417 GAGAGAGAGGCTGGGCTGTA 60.396 60.000 0.33 0.00 0.00 2.74
2662 2679 1.685421 GAGAGAGAGGCTGGGCTGT 60.685 63.158 0.33 0.00 0.00 4.40
2663 2680 1.381599 AGAGAGAGAGGCTGGGCTG 60.382 63.158 0.33 0.00 0.00 4.85
2664 2681 1.076044 GAGAGAGAGAGGCTGGGCT 60.076 63.158 0.00 0.00 0.00 5.19
2665 2682 1.076044 AGAGAGAGAGAGGCTGGGC 60.076 63.158 0.00 0.00 0.00 5.36
2666 2683 0.552848 AGAGAGAGAGAGAGGCTGGG 59.447 60.000 0.00 0.00 0.00 4.45
2667 2684 1.492176 AGAGAGAGAGAGAGAGGCTGG 59.508 57.143 0.00 0.00 0.00 4.85
2668 2685 2.437281 AGAGAGAGAGAGAGAGAGGCTG 59.563 54.545 0.00 0.00 0.00 4.85
2669 2686 2.703007 GAGAGAGAGAGAGAGAGAGGCT 59.297 54.545 0.00 0.00 0.00 4.58
2670 2687 2.703007 AGAGAGAGAGAGAGAGAGAGGC 59.297 54.545 0.00 0.00 0.00 4.70
2671 2688 3.323403 GGAGAGAGAGAGAGAGAGAGAGG 59.677 56.522 0.00 0.00 0.00 3.69
2672 2689 3.323403 GGGAGAGAGAGAGAGAGAGAGAG 59.677 56.522 0.00 0.00 0.00 3.20
2673 2690 3.309296 GGGAGAGAGAGAGAGAGAGAGA 58.691 54.545 0.00 0.00 0.00 3.10
2674 2691 2.370189 GGGGAGAGAGAGAGAGAGAGAG 59.630 59.091 0.00 0.00 0.00 3.20
2675 2692 2.408565 GGGGAGAGAGAGAGAGAGAGA 58.591 57.143 0.00 0.00 0.00 3.10
2676 2693 1.421646 GGGGGAGAGAGAGAGAGAGAG 59.578 61.905 0.00 0.00 0.00 3.20
2677 2694 1.274708 TGGGGGAGAGAGAGAGAGAGA 60.275 57.143 0.00 0.00 0.00 3.10
2678 2695 1.133792 GTGGGGGAGAGAGAGAGAGAG 60.134 61.905 0.00 0.00 0.00 3.20
2679 2696 0.923358 GTGGGGGAGAGAGAGAGAGA 59.077 60.000 0.00 0.00 0.00 3.10
2680 2697 0.926293 AGTGGGGGAGAGAGAGAGAG 59.074 60.000 0.00 0.00 0.00 3.20
2681 2698 2.131854 CTAGTGGGGGAGAGAGAGAGA 58.868 57.143 0.00 0.00 0.00 3.10
2682 2699 1.850345 ACTAGTGGGGGAGAGAGAGAG 59.150 57.143 0.00 0.00 0.00 3.20
2683 2700 1.988539 ACTAGTGGGGGAGAGAGAGA 58.011 55.000 0.00 0.00 0.00 3.10
2684 2701 2.661718 GAACTAGTGGGGGAGAGAGAG 58.338 57.143 0.00 0.00 0.00 3.20
2685 2702 1.064611 CGAACTAGTGGGGGAGAGAGA 60.065 57.143 0.00 0.00 0.00 3.10
2686 2703 1.064611 TCGAACTAGTGGGGGAGAGAG 60.065 57.143 0.00 0.00 0.00 3.20
2687 2704 0.997363 TCGAACTAGTGGGGGAGAGA 59.003 55.000 0.00 0.00 0.00 3.10
2688 2705 1.848652 TTCGAACTAGTGGGGGAGAG 58.151 55.000 0.00 0.00 0.00 3.20
2689 2706 1.897802 GTTTCGAACTAGTGGGGGAGA 59.102 52.381 0.00 0.00 0.00 3.71
2690 2707 1.621814 TGTTTCGAACTAGTGGGGGAG 59.378 52.381 0.00 0.00 0.00 4.30
2691 2708 1.621814 CTGTTTCGAACTAGTGGGGGA 59.378 52.381 0.00 0.00 0.00 4.81
2692 2709 1.346722 ACTGTTTCGAACTAGTGGGGG 59.653 52.381 11.51 0.00 0.00 5.40
2693 2710 2.833631 ACTGTTTCGAACTAGTGGGG 57.166 50.000 11.51 0.00 0.00 4.96
2694 2711 4.516365 ACTACTGTTTCGAACTAGTGGG 57.484 45.455 20.81 15.63 30.93 4.61
2695 2712 6.839820 AAAACTACTGTTTCGAACTAGTGG 57.160 37.500 18.76 18.05 44.70 4.00
2696 2713 8.571461 ACTAAAACTACTGTTTCGAACTAGTG 57.429 34.615 18.76 12.80 44.70 2.74
2697 2714 9.591792 AAACTAAAACTACTGTTTCGAACTAGT 57.408 29.630 15.38 15.38 44.70 2.57
2698 2715 9.845305 CAAACTAAAACTACTGTTTCGAACTAG 57.155 33.333 0.00 1.46 44.70 2.57
2699 2716 9.369904 ACAAACTAAAACTACTGTTTCGAACTA 57.630 29.630 0.00 0.00 44.70 2.24
2700 2717 8.260270 ACAAACTAAAACTACTGTTTCGAACT 57.740 30.769 0.00 0.00 44.70 3.01
2701 2718 8.885302 AACAAACTAAAACTACTGTTTCGAAC 57.115 30.769 0.00 0.00 44.70 3.95
2702 2719 8.938906 AGAACAAACTAAAACTACTGTTTCGAA 58.061 29.630 0.00 0.00 44.70 3.71
2703 2720 8.483307 AGAACAAACTAAAACTACTGTTTCGA 57.517 30.769 0.00 0.00 44.70 3.71
2704 2721 8.995906 CAAGAACAAACTAAAACTACTGTTTCG 58.004 33.333 0.00 0.00 44.70 3.46
2705 2722 8.795341 GCAAGAACAAACTAAAACTACTGTTTC 58.205 33.333 0.00 0.00 44.70 2.78
2707 2724 7.822658 TGCAAGAACAAACTAAAACTACTGTT 58.177 30.769 0.00 0.00 38.16 3.16
2708 2725 7.335924 TCTGCAAGAACAAACTAAAACTACTGT 59.664 33.333 0.00 0.00 42.31 3.55
2709 2726 7.693952 TCTGCAAGAACAAACTAAAACTACTG 58.306 34.615 0.00 0.00 42.31 2.74
2710 2727 7.769044 TCTCTGCAAGAACAAACTAAAACTACT 59.231 33.333 0.00 0.00 46.34 2.57
2711 2728 7.851472 GTCTCTGCAAGAACAAACTAAAACTAC 59.149 37.037 0.00 0.00 46.34 2.73
2742 2759 6.652900 GCTAAAACCATTCCTGGAGATATCTC 59.347 42.308 22.41 22.41 46.37 2.75
2760 2777 7.864379 GGTTTAAGTACAAAGGAAGGCTAAAAC 59.136 37.037 0.00 0.00 0.00 2.43
2764 2781 6.190346 TGGTTTAAGTACAAAGGAAGGCTA 57.810 37.500 0.00 0.00 0.00 3.93
2782 2992 9.077885 ACAAAGTGTATGTTCATAGAATGGTTT 57.922 29.630 0.00 0.00 0.00 3.27
2874 3088 6.092670 ACGATAGCTAGTACGTCACAAGTTAA 59.907 38.462 14.52 0.00 42.67 2.01
2878 3092 4.272480 CACGATAGCTAGTACGTCACAAG 58.728 47.826 16.50 5.92 42.67 3.16
3040 3254 6.351711 CATCCAGTTCTGGAGTGATAAATGA 58.648 40.000 23.14 0.30 41.88 2.57
3099 3313 6.295916 CCTCAACCTACTCCAGACTTACAAAT 60.296 42.308 0.00 0.00 0.00 2.32
3206 3423 5.682234 TTCTTCAATAGAGATGACCTGCA 57.318 39.130 0.00 0.00 33.51 4.41
3272 3489 6.779539 CAGGGAGGCTTGGAAATTCTAAATAT 59.220 38.462 0.00 0.00 0.00 1.28
3273 3490 6.129179 CAGGGAGGCTTGGAAATTCTAAATA 58.871 40.000 0.00 0.00 0.00 1.40
3274 3491 4.958581 CAGGGAGGCTTGGAAATTCTAAAT 59.041 41.667 0.00 0.00 0.00 1.40
3337 3554 6.398918 TGATTCTAGTTACTTCAAGCCACTC 58.601 40.000 0.00 0.00 0.00 3.51
3391 3608 1.740025 GTTCTGTGCTATCCAAGTGCC 59.260 52.381 0.00 0.00 0.00 5.01
3392 3609 2.704572 AGTTCTGTGCTATCCAAGTGC 58.295 47.619 0.00 0.00 0.00 4.40
3440 3657 3.846588 ACAGAGAATCACCCAATACCAGT 59.153 43.478 0.00 0.00 37.82 4.00
3475 3692 2.692368 GATGGAGGGAGGTGGGCA 60.692 66.667 0.00 0.00 0.00 5.36
3488 3705 4.523943 TCATCCAAAAGTCCAAACTGATGG 59.476 41.667 0.00 4.37 40.74 3.51
3498 3715 2.229784 CAGCCAACTCATCCAAAAGTCC 59.770 50.000 0.00 0.00 0.00 3.85
3501 3718 2.490903 CTCCAGCCAACTCATCCAAAAG 59.509 50.000 0.00 0.00 0.00 2.27
3520 3737 7.692460 TGGATACCATATTGAATTCATGCTC 57.308 36.000 9.40 2.56 0.00 4.26
3531 3748 4.279169 CCTGTTGGCTTGGATACCATATTG 59.721 45.833 0.00 0.00 35.42 1.90
3544 3761 4.164843 TGAACTTAAGACCTGTTGGCTT 57.835 40.909 10.09 0.00 36.63 4.35
3546 3763 4.911514 TTTGAACTTAAGACCTGTTGGC 57.088 40.909 10.09 0.00 36.63 4.52
3556 3773 4.502645 CGTTGGCAAGGTTTTGAACTTAAG 59.497 41.667 11.60 0.00 36.36 1.85
3585 3802 9.656040 TGTAGGCTGTAGAATCGTTTTATTTAA 57.344 29.630 0.00 0.00 0.00 1.52
3586 3803 9.826574 ATGTAGGCTGTAGAATCGTTTTATTTA 57.173 29.630 0.00 0.00 0.00 1.40
3587 3804 8.732746 ATGTAGGCTGTAGAATCGTTTTATTT 57.267 30.769 0.00 0.00 0.00 1.40
3588 3805 7.169308 CGATGTAGGCTGTAGAATCGTTTTATT 59.831 37.037 0.00 0.00 33.92 1.40
3589 3806 6.641314 CGATGTAGGCTGTAGAATCGTTTTAT 59.359 38.462 0.00 0.00 33.92 1.40
3590 3807 5.975344 CGATGTAGGCTGTAGAATCGTTTTA 59.025 40.000 0.00 0.00 33.92 1.52
3591 3808 4.804139 CGATGTAGGCTGTAGAATCGTTTT 59.196 41.667 0.00 0.00 33.92 2.43
3592 3809 4.097437 TCGATGTAGGCTGTAGAATCGTTT 59.903 41.667 0.00 0.00 38.38 3.60
3593 3810 3.630769 TCGATGTAGGCTGTAGAATCGTT 59.369 43.478 0.00 0.00 38.38 3.85
3594 3811 3.211865 TCGATGTAGGCTGTAGAATCGT 58.788 45.455 0.00 0.00 38.38 3.73
3595 3812 3.898517 TCGATGTAGGCTGTAGAATCG 57.101 47.619 0.00 5.12 38.53 3.34
3596 3813 4.381079 GGGATCGATGTAGGCTGTAGAATC 60.381 50.000 0.54 0.00 0.00 2.52
3597 3814 3.511934 GGGATCGATGTAGGCTGTAGAAT 59.488 47.826 0.54 0.00 0.00 2.40
3598 3815 2.891580 GGGATCGATGTAGGCTGTAGAA 59.108 50.000 0.54 0.00 0.00 2.10
3599 3816 2.158519 TGGGATCGATGTAGGCTGTAGA 60.159 50.000 0.54 0.00 0.00 2.59
3600 3817 2.239400 TGGGATCGATGTAGGCTGTAG 58.761 52.381 0.54 0.00 0.00 2.74
3601 3818 2.375014 TGGGATCGATGTAGGCTGTA 57.625 50.000 0.54 0.00 0.00 2.74
3602 3819 1.345741 CATGGGATCGATGTAGGCTGT 59.654 52.381 0.54 0.00 0.00 4.40
3603 3820 1.345741 ACATGGGATCGATGTAGGCTG 59.654 52.381 0.54 0.00 32.12 4.85
3604 3821 1.620819 GACATGGGATCGATGTAGGCT 59.379 52.381 0.54 0.00 34.10 4.58
3605 3822 1.620819 AGACATGGGATCGATGTAGGC 59.379 52.381 0.54 0.00 34.10 3.93
3606 3823 4.081972 CCTTAGACATGGGATCGATGTAGG 60.082 50.000 0.54 8.46 34.10 3.18
3607 3824 4.767409 TCCTTAGACATGGGATCGATGTAG 59.233 45.833 0.54 4.23 34.10 2.74
3608 3825 4.523173 GTCCTTAGACATGGGATCGATGTA 59.477 45.833 0.54 0.00 42.99 2.29
3609 3826 3.322254 GTCCTTAGACATGGGATCGATGT 59.678 47.826 0.54 8.36 42.99 3.06
3610 3827 3.576118 AGTCCTTAGACATGGGATCGATG 59.424 47.826 0.54 0.00 46.15 3.84
3611 3828 3.850752 AGTCCTTAGACATGGGATCGAT 58.149 45.455 0.00 0.00 46.15 3.59
3612 3829 3.314307 AGTCCTTAGACATGGGATCGA 57.686 47.619 0.00 0.00 46.15 3.59
3613 3830 5.531122 TTTAGTCCTTAGACATGGGATCG 57.469 43.478 0.00 0.00 46.15 3.69
3614 3831 7.604545 GCTATTTTAGTCCTTAGACATGGGATC 59.395 40.741 0.00 0.00 46.15 3.36
3615 3832 7.454225 GCTATTTTAGTCCTTAGACATGGGAT 58.546 38.462 0.00 0.00 46.15 3.85
3616 3833 6.183361 GGCTATTTTAGTCCTTAGACATGGGA 60.183 42.308 0.00 0.00 46.15 4.37
3617 3834 5.998363 GGCTATTTTAGTCCTTAGACATGGG 59.002 44.000 0.00 0.00 46.15 4.00
3618 3835 6.831976 AGGCTATTTTAGTCCTTAGACATGG 58.168 40.000 0.00 0.00 46.15 3.66
3619 3836 8.861086 TCTAGGCTATTTTAGTCCTTAGACATG 58.139 37.037 0.00 0.00 46.15 3.21
3620 3837 8.862085 GTCTAGGCTATTTTAGTCCTTAGACAT 58.138 37.037 0.00 0.00 46.15 3.06
3621 3838 7.837689 TGTCTAGGCTATTTTAGTCCTTAGACA 59.162 37.037 11.30 11.30 46.15 3.41
3622 3839 8.235359 TGTCTAGGCTATTTTAGTCCTTAGAC 57.765 38.462 0.00 7.87 43.89 2.59
3623 3840 8.861086 CATGTCTAGGCTATTTTAGTCCTTAGA 58.139 37.037 0.00 0.00 35.16 2.10
3624 3841 8.861086 TCATGTCTAGGCTATTTTAGTCCTTAG 58.139 37.037 0.00 0.00 35.16 2.18
3625 3842 8.777578 TCATGTCTAGGCTATTTTAGTCCTTA 57.222 34.615 0.00 0.00 35.16 2.69
3626 3843 7.202047 CCTCATGTCTAGGCTATTTTAGTCCTT 60.202 40.741 0.00 0.00 35.16 3.36
3627 3844 6.268847 CCTCATGTCTAGGCTATTTTAGTCCT 59.731 42.308 0.00 0.00 36.64 3.85
3628 3845 6.459923 CCTCATGTCTAGGCTATTTTAGTCC 58.540 44.000 0.00 0.00 0.00 3.85
3629 3846 6.459923 CCCTCATGTCTAGGCTATTTTAGTC 58.540 44.000 0.00 0.00 32.34 2.59
3630 3847 5.308237 CCCCTCATGTCTAGGCTATTTTAGT 59.692 44.000 0.00 0.00 32.34 2.24
3631 3848 5.799213 CCCCTCATGTCTAGGCTATTTTAG 58.201 45.833 0.00 0.00 32.34 1.85
3632 3849 5.825593 CCCCTCATGTCTAGGCTATTTTA 57.174 43.478 0.00 0.00 32.34 1.52
3633 3850 4.713792 CCCCTCATGTCTAGGCTATTTT 57.286 45.455 0.00 0.00 32.34 1.82


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

AutoCloner maintained by Alex Coulton.