Multiple sequence alignment - TraesCS3D01G227100

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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 TraesCS3D01G227100 chr3D 100.000 2999 0 0 1 2999 308738095 308741093 0.000000e+00 5539.0
1 TraesCS3D01G227100 chr3D 88.834 403 42 3 1 401 606344038 606343637 2.690000e-135 492.0
2 TraesCS3D01G227100 chr3D 81.493 335 60 2 2618 2951 186934227 186934560 1.060000e-69 274.0
3 TraesCS3D01G227100 chr3D 95.652 46 2 0 2953 2998 114345816 114345771 1.150000e-09 75.0
4 TraesCS3D01G227100 chr3D 95.652 46 1 1 2954 2998 471271187 471271142 4.150000e-09 73.1
5 TraesCS3D01G227100 chr3A 93.881 2190 95 17 1 2189 428322497 428324648 0.000000e+00 3265.0
6 TraesCS3D01G227100 chr3A 92.926 311 12 5 2222 2523 428324646 428324955 7.630000e-121 444.0
7 TraesCS3D01G227100 chr3B 92.739 2052 99 10 674 2691 412875133 412873098 0.000000e+00 2918.0
8 TraesCS3D01G227100 chr3B 90.045 673 54 9 1 669 412915060 412914397 0.000000e+00 859.0
9 TraesCS3D01G227100 chr3B 88.308 402 43 4 1 401 815605771 815606169 2.090000e-131 479.0
10 TraesCS3D01G227100 chr3B 88.308 402 43 4 1 401 815654482 815654880 2.090000e-131 479.0
11 TraesCS3D01G227100 chr3B 88.060 402 44 4 1 401 815525411 815525809 9.730000e-130 473.0
12 TraesCS3D01G227100 chr3B 75.087 289 47 13 2522 2809 155627434 155627170 8.790000e-21 111.0
13 TraesCS3D01G227100 chr7D 88.424 406 37 8 1 401 381351046 381351446 5.810000e-132 481.0
14 TraesCS3D01G227100 chr7D 88.424 406 37 8 1 401 381351783 381352183 5.810000e-132 481.0
15 TraesCS3D01G227100 chr7D 87.376 404 46 5 1 401 568268062 568267661 2.720000e-125 459.0
16 TraesCS3D01G227100 chr7D 83.146 89 14 1 2603 2690 458965117 458965029 2.480000e-11 80.5
17 TraesCS3D01G227100 chr5D 87.321 418 43 8 1 415 182930490 182930900 1.260000e-128 470.0
18 TraesCS3D01G227100 chr5D 95.556 45 2 0 2954 2998 40888366 40888410 4.150000e-09 73.1
19 TraesCS3D01G227100 chr2D 85.849 318 43 2 2633 2949 619420582 619420898 1.330000e-88 337.0
20 TraesCS3D01G227100 chr6B 81.465 437 56 13 2525 2949 529402906 529403329 4.790000e-88 335.0
21 TraesCS3D01G227100 chr6B 86.719 256 27 5 2697 2951 512253081 512253330 8.190000e-71 278.0
22 TraesCS3D01G227100 chr6B 95.556 45 2 0 2954 2998 579999186 579999230 4.150000e-09 73.1
23 TraesCS3D01G227100 chr7B 82.005 389 58 10 2532 2916 634758206 634758586 1.340000e-83 320.0
24 TraesCS3D01G227100 chr7B 78.815 439 74 9 2525 2949 427687062 427687495 8.190000e-71 278.0
25 TraesCS3D01G227100 chr7B 77.000 200 45 1 2523 2722 587653004 587652806 2.440000e-21 113.0
26 TraesCS3D01G227100 chr7B 95.556 45 2 0 2954 2998 603654992 603655036 4.150000e-09 73.1
27 TraesCS3D01G227100 chr1D 83.117 308 48 4 2645 2951 463979639 463979335 8.190000e-71 278.0
28 TraesCS3D01G227100 chr2B 78.378 444 79 8 2521 2951 665516106 665515667 3.810000e-69 272.0
29 TraesCS3D01G227100 chr6A 78.102 411 80 9 2544 2951 13056729 13056326 4.960000e-63 252.0
30 TraesCS3D01G227100 chr6A 87.288 118 7 2 836 953 93422195 93422304 8.730000e-26 128.0
31 TraesCS3D01G227100 chr1B 78.994 338 64 6 2615 2949 662172548 662172215 1.080000e-54 224.0
32 TraesCS3D01G227100 chr6D 77.987 159 33 2 2541 2697 56919987 56920145 6.840000e-17 99.0
33 TraesCS3D01G227100 chr6D 95.556 45 2 0 2954 2998 350559232 350559188 4.150000e-09 73.1
34 TraesCS3D01G227100 chr6D 95.556 45 2 0 2954 2998 372425706 372425662 4.150000e-09 73.1
35 TraesCS3D01G227100 chr6D 95.556 45 2 0 2954 2998 473510310 473510266 4.150000e-09 73.1
36 TraesCS3D01G227100 chr5A 95.556 45 2 0 2954 2998 357809287 357809243 4.150000e-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 TraesCS3D01G227100 chr3D 308738095 308741093 2998 False 5539.0 5539 100.0000 1 2999 1 chr3D.!!$F2 2998
1 TraesCS3D01G227100 chr3A 428322497 428324955 2458 False 1854.5 3265 93.4035 1 2523 2 chr3A.!!$F1 2522
2 TraesCS3D01G227100 chr3B 412873098 412875133 2035 True 2918.0 2918 92.7390 674 2691 1 chr3B.!!$R2 2017
3 TraesCS3D01G227100 chr3B 412914397 412915060 663 True 859.0 859 90.0450 1 669 1 chr3B.!!$R3 668
4 TraesCS3D01G227100 chr7D 381351046 381352183 1137 False 481.0 481 88.4240 1 401 2 chr7D.!!$F1 400

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
475 1218 0.320334 TGTGTGGTGCCAGATGTACG 60.320 55.0 0.0 0.0 0.0 3.67 F
1328 2109 0.798776 CGTCCTGTTCACTCCATTGC 59.201 55.0 0.0 0.0 0.0 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 2360 0.453390 GAGGCATTGCTACTGTTGGC 59.547 55.0 8.82 0.0 35.09 4.52 R
2550 3342 0.034059 GTCCAGATGTATGAGGCGGG 59.966 60.0 0.00 0.0 0.00 6.13 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
161 163 9.367160 ACCTTAAAATCTCCTTGATTGAAAAGA 57.633 29.630 0.00 0.00 43.99 2.52
230 234 9.726232 GACGTAACAAAACTCTTAAATTCCTTT 57.274 29.630 0.00 0.00 0.00 3.11
248 252 7.784633 TTCCTTTGACCAATGAATGAAAAAC 57.215 32.000 0.00 0.00 0.00 2.43
303 307 5.048713 ACCGAGAAGCTAAATGTTCCTTTTG 60.049 40.000 0.00 0.00 0.00 2.44
332 340 5.007528 GCACATAAGGTTTTGTTTGCACATT 59.992 36.000 0.00 0.00 33.09 2.71
475 1218 0.320334 TGTGTGGTGCCAGATGTACG 60.320 55.000 0.00 0.00 0.00 3.67
520 1263 6.870971 AAATGACTTTGCGGTAGAGTTAAA 57.129 33.333 0.00 0.00 0.00 1.52
551 1294 5.418310 ACAAACTTGGAATGTCACGTTAG 57.582 39.130 0.00 0.00 30.54 2.34
583 1326 2.004808 CTAGACAGCGGGTGCATCGA 62.005 60.000 15.04 0.00 46.23 3.59
596 1339 4.300803 GGTGCATCGATATTACACCGTTA 58.699 43.478 17.86 0.00 41.21 3.18
634 1377 9.873655 TGTACTTTTCAAGTGCATGCACCAAAA 62.874 37.037 39.94 34.56 46.84 2.44
918 1690 0.951558 CCAAAAACCAGTGTCCGGAG 59.048 55.000 3.06 0.00 0.00 4.63
1010 1782 1.070175 CACACCGTTCATGGACGAAAC 60.070 52.381 28.14 6.13 45.47 2.78
1289 2070 2.823147 CGCCTCCGTCGACTACCT 60.823 66.667 14.70 0.00 0.00 3.08
1328 2109 0.798776 CGTCCTGTTCACTCCATTGC 59.201 55.000 0.00 0.00 0.00 3.56
1367 2148 2.839629 TGCAGACGAACGATGCAAT 58.160 47.368 21.24 0.00 46.31 3.56
1505 2286 3.824510 GACCGACGACGAAAGCGC 61.825 66.667 9.28 0.00 42.48 5.92
1579 2360 0.788391 GACCTGCGAGTTTTACCACG 59.212 55.000 0.00 0.00 0.00 4.94
1999 2780 1.733399 GTCTTCGGTGAGGCGTGAC 60.733 63.158 0.00 0.00 0.00 3.67
2006 2787 1.528292 GGTGAGGCGTGACAGAGAGT 61.528 60.000 0.00 0.00 0.00 3.24
2065 2846 1.000827 CAGGTCTTCAGGATCGATCGG 60.001 57.143 18.81 13.46 0.00 4.18
2120 2901 7.012989 TCGTCTTAGCTATACTTTGCAGATGTA 59.987 37.037 0.00 0.00 0.00 2.29
2121 2902 7.810282 CGTCTTAGCTATACTTTGCAGATGTAT 59.190 37.037 0.00 11.27 34.21 2.29
2122 2903 8.920665 GTCTTAGCTATACTTTGCAGATGTATG 58.079 37.037 14.47 8.49 32.60 2.39
2123 2904 8.642432 TCTTAGCTATACTTTGCAGATGTATGT 58.358 33.333 14.47 0.45 32.60 2.29
2124 2905 9.914131 CTTAGCTATACTTTGCAGATGTATGTA 57.086 33.333 14.47 2.35 32.60 2.29
2125 2906 9.692749 TTAGCTATACTTTGCAGATGTATGTAC 57.307 33.333 14.47 0.00 32.60 2.90
2126 2907 7.726216 AGCTATACTTTGCAGATGTATGTACA 58.274 34.615 0.00 0.00 40.98 2.90
2127 2908 8.204160 AGCTATACTTTGCAGATGTATGTACAA 58.796 33.333 0.00 0.00 39.99 2.41
2128 2909 8.826710 GCTATACTTTGCAGATGTATGTACAAA 58.173 33.333 0.00 0.00 39.99 2.83
2132 2913 8.165239 ACTTTGCAGATGTATGTACAAAAAGA 57.835 30.769 0.00 0.00 39.99 2.52
2133 2914 8.629158 ACTTTGCAGATGTATGTACAAAAAGAA 58.371 29.630 0.00 0.00 39.99 2.52
2134 2915 9.462174 CTTTGCAGATGTATGTACAAAAAGAAA 57.538 29.630 0.00 0.00 39.99 2.52
2148 2929 5.990996 ACAAAAAGAAAATGTACATGCCCAG 59.009 36.000 9.63 0.00 0.00 4.45
2209 2990 0.940833 TCGAAATGTTGCGTGCTCAA 59.059 45.000 0.00 0.00 0.00 3.02
2210 2991 1.332065 TCGAAATGTTGCGTGCTCAAA 59.668 42.857 0.00 0.00 0.00 2.69
2303 3086 2.134201 TGTGTCAGACAGCGTTGTAG 57.866 50.000 4.38 1.13 37.76 2.74
2322 3105 2.498167 AGGTTTGATGCTCGGATATGC 58.502 47.619 0.00 0.00 0.00 3.14
2323 3106 1.195448 GGTTTGATGCTCGGATATGCG 59.805 52.381 10.76 10.76 0.00 4.73
2532 3324 3.486383 AGCTGAGTAGTAGGAGCATCTC 58.514 50.000 0.00 0.00 33.67 2.75
2550 3342 2.396157 CCAGCCGGGCGTCTTAAAC 61.396 63.158 14.39 0.00 0.00 2.01
2561 3353 2.199236 CGTCTTAAACCCGCCTCATAC 58.801 52.381 0.00 0.00 0.00 2.39
2562 3354 2.417651 CGTCTTAAACCCGCCTCATACA 60.418 50.000 0.00 0.00 0.00 2.29
2563 3355 3.740141 CGTCTTAAACCCGCCTCATACAT 60.740 47.826 0.00 0.00 0.00 2.29
2565 3357 3.709653 TCTTAAACCCGCCTCATACATCT 59.290 43.478 0.00 0.00 0.00 2.90
2566 3358 2.332063 AAACCCGCCTCATACATCTG 57.668 50.000 0.00 0.00 0.00 2.90
2575 3367 0.689412 TCATACATCTGGACGGGCCA 60.689 55.000 4.39 0.77 46.96 5.36
2578 3370 2.815684 TACATCTGGACGGGCCACCT 62.816 60.000 4.39 0.00 43.33 4.00
2580 3372 3.924013 ATCTGGACGGGCCACCTGA 62.924 63.158 21.63 21.63 43.33 3.86
2595 3387 1.875813 CTGATCACTGTCGGCTCGC 60.876 63.158 0.00 0.00 0.00 5.03
2601 3393 0.800683 CACTGTCGGCTCGCGAAATA 60.801 55.000 11.33 0.00 0.00 1.40
2603 3395 0.778815 CTGTCGGCTCGCGAAATATC 59.221 55.000 11.33 1.69 0.00 1.63
2623 3415 0.749649 GATCCAGACAGACGCCTCAT 59.250 55.000 0.00 0.00 0.00 2.90
2628 3420 1.132453 CAGACAGACGCCTCATACGAA 59.868 52.381 0.00 0.00 0.00 3.85
2631 3423 0.098200 CAGACGCCTCATACGAACGA 59.902 55.000 0.14 0.00 0.00 3.85
2639 3431 1.132453 CTCATACGAACGAGCTGACCA 59.868 52.381 0.00 0.00 0.00 4.02
2716 3508 2.755064 CATGCCCGCCATGTTGGA 60.755 61.111 0.00 0.00 45.05 3.53
2717 3509 2.755469 ATGCCCGCCATGTTGGAC 60.755 61.111 0.00 0.00 40.96 4.02
2721 3513 4.402528 CCGCCATGTTGGACCCGA 62.403 66.667 0.00 0.00 40.96 5.14
2722 3514 3.124921 CGCCATGTTGGACCCGAC 61.125 66.667 0.00 0.00 40.96 4.79
2723 3515 2.033448 GCCATGTTGGACCCGACA 59.967 61.111 11.26 11.26 40.96 4.35
2724 3516 2.040544 GCCATGTTGGACCCGACAG 61.041 63.158 13.95 3.83 42.83 3.51
2725 3517 2.040544 CCATGTTGGACCCGACAGC 61.041 63.158 13.95 0.00 42.83 4.40
2726 3518 1.003355 CATGTTGGACCCGACAGCT 60.003 57.895 13.95 0.00 42.83 4.24
2727 3519 1.021390 CATGTTGGACCCGACAGCTC 61.021 60.000 13.95 0.00 42.83 4.09
2728 3520 2.432628 GTTGGACCCGACAGCTCG 60.433 66.667 1.58 0.00 39.83 5.03
2729 3521 2.599281 TTGGACCCGACAGCTCGA 60.599 61.111 0.00 0.00 43.06 4.04
2730 3522 2.927580 TTGGACCCGACAGCTCGAC 61.928 63.158 0.00 0.00 43.06 4.20
2731 3523 4.131088 GGACCCGACAGCTCGACC 62.131 72.222 0.00 0.00 43.06 4.79
2732 3524 4.131088 GACCCGACAGCTCGACCC 62.131 72.222 0.00 0.00 43.06 4.46
2735 3527 4.436998 CCGACAGCTCGACCCCAC 62.437 72.222 0.00 0.00 43.06 4.61
2736 3528 4.436998 CGACAGCTCGACCCCACC 62.437 72.222 0.00 0.00 43.06 4.61
2737 3529 4.436998 GACAGCTCGACCCCACCG 62.437 72.222 0.00 0.00 0.00 4.94
2742 3534 2.046314 CTCGACCCCACCGCAAAT 60.046 61.111 0.00 0.00 0.00 2.32
2743 3535 1.674322 CTCGACCCCACCGCAAATT 60.674 57.895 0.00 0.00 0.00 1.82
2744 3536 1.922135 CTCGACCCCACCGCAAATTG 61.922 60.000 0.00 0.00 0.00 2.32
2745 3537 2.261361 GACCCCACCGCAAATTGC 59.739 61.111 8.09 8.09 40.69 3.56
2746 3538 2.522923 ACCCCACCGCAAATTGCA 60.523 55.556 18.65 0.00 45.36 4.08
2747 3539 2.048316 CCCCACCGCAAATTGCAC 60.048 61.111 18.65 0.00 45.36 4.57
2748 3540 2.048316 CCCACCGCAAATTGCACC 60.048 61.111 18.65 0.00 45.36 5.01
2749 3541 2.733301 CCACCGCAAATTGCACCA 59.267 55.556 18.65 0.00 45.36 4.17
2750 3542 1.068753 CCACCGCAAATTGCACCAA 59.931 52.632 18.65 0.00 45.36 3.67
2751 3543 0.531532 CCACCGCAAATTGCACCAAA 60.532 50.000 18.65 0.00 45.36 3.28
2752 3544 1.510776 CACCGCAAATTGCACCAAAT 58.489 45.000 18.65 0.00 45.36 2.32
2753 3545 1.460359 CACCGCAAATTGCACCAAATC 59.540 47.619 18.65 0.00 45.36 2.17
2754 3546 1.077915 CCGCAAATTGCACCAAATCC 58.922 50.000 18.65 0.00 45.36 3.01
2755 3547 1.607509 CCGCAAATTGCACCAAATCCA 60.608 47.619 18.65 0.00 45.36 3.41
2756 3548 1.460359 CGCAAATTGCACCAAATCCAC 59.540 47.619 18.65 0.00 45.36 4.02
2757 3549 1.805943 GCAAATTGCACCAAATCCACC 59.194 47.619 13.73 0.00 44.26 4.61
2758 3550 2.550639 GCAAATTGCACCAAATCCACCT 60.551 45.455 13.73 0.00 44.26 4.00
2759 3551 3.306641 GCAAATTGCACCAAATCCACCTA 60.307 43.478 13.73 0.00 44.26 3.08
2760 3552 4.244862 CAAATTGCACCAAATCCACCTAC 58.755 43.478 0.00 0.00 0.00 3.18
2761 3553 1.917872 TTGCACCAAATCCACCTACC 58.082 50.000 0.00 0.00 0.00 3.18
2762 3554 0.039035 TGCACCAAATCCACCTACCC 59.961 55.000 0.00 0.00 0.00 3.69
2763 3555 0.039035 GCACCAAATCCACCTACCCA 59.961 55.000 0.00 0.00 0.00 4.51
2764 3556 1.955208 GCACCAAATCCACCTACCCAG 60.955 57.143 0.00 0.00 0.00 4.45
2765 3557 1.633432 CACCAAATCCACCTACCCAGA 59.367 52.381 0.00 0.00 0.00 3.86
2766 3558 1.633945 ACCAAATCCACCTACCCAGAC 59.366 52.381 0.00 0.00 0.00 3.51
2767 3559 1.064685 CCAAATCCACCTACCCAGACC 60.065 57.143 0.00 0.00 0.00 3.85
2768 3560 1.916181 CAAATCCACCTACCCAGACCT 59.084 52.381 0.00 0.00 0.00 3.85
2769 3561 1.584724 AATCCACCTACCCAGACCTG 58.415 55.000 0.00 0.00 0.00 4.00
2770 3562 0.983378 ATCCACCTACCCAGACCTGC 60.983 60.000 0.00 0.00 0.00 4.85
2771 3563 2.670148 CCACCTACCCAGACCTGCC 61.670 68.421 0.00 0.00 0.00 4.85
2772 3564 2.683933 ACCTACCCAGACCTGCCG 60.684 66.667 0.00 0.00 0.00 5.69
2773 3565 3.470888 CCTACCCAGACCTGCCGG 61.471 72.222 0.00 0.00 0.00 6.13
2774 3566 2.363795 CTACCCAGACCTGCCGGA 60.364 66.667 5.05 0.00 0.00 5.14
2775 3567 1.762460 CTACCCAGACCTGCCGGAT 60.762 63.158 5.05 0.00 0.00 4.18
2776 3568 1.306654 TACCCAGACCTGCCGGATT 60.307 57.895 5.05 0.00 0.00 3.01
2777 3569 1.335132 TACCCAGACCTGCCGGATTC 61.335 60.000 5.05 0.00 0.00 2.52
2778 3570 2.669133 CCCAGACCTGCCGGATTCA 61.669 63.158 5.05 0.00 0.00 2.57
2779 3571 1.528824 CCAGACCTGCCGGATTCAT 59.471 57.895 5.05 0.00 0.00 2.57
2780 3572 0.107017 CCAGACCTGCCGGATTCATT 60.107 55.000 5.05 0.00 0.00 2.57
2781 3573 1.683011 CCAGACCTGCCGGATTCATTT 60.683 52.381 5.05 0.00 0.00 2.32
2782 3574 1.402968 CAGACCTGCCGGATTCATTTG 59.597 52.381 5.05 0.00 0.00 2.32
2783 3575 1.004745 AGACCTGCCGGATTCATTTGT 59.995 47.619 5.05 0.00 0.00 2.83
2784 3576 1.818674 GACCTGCCGGATTCATTTGTT 59.181 47.619 5.05 0.00 0.00 2.83
2785 3577 3.013921 GACCTGCCGGATTCATTTGTTA 58.986 45.455 5.05 0.00 0.00 2.41
2786 3578 3.631250 ACCTGCCGGATTCATTTGTTAT 58.369 40.909 5.05 0.00 0.00 1.89
2787 3579 3.632145 ACCTGCCGGATTCATTTGTTATC 59.368 43.478 5.05 0.00 0.00 1.75
2788 3580 3.885297 CCTGCCGGATTCATTTGTTATCT 59.115 43.478 5.05 0.00 0.00 1.98
2789 3581 4.023707 CCTGCCGGATTCATTTGTTATCTC 60.024 45.833 5.05 0.00 0.00 2.75
2790 3582 3.882888 TGCCGGATTCATTTGTTATCTCC 59.117 43.478 5.05 0.00 0.00 3.71
2791 3583 4.137543 GCCGGATTCATTTGTTATCTCCT 58.862 43.478 5.05 0.00 0.00 3.69
2792 3584 4.214332 GCCGGATTCATTTGTTATCTCCTC 59.786 45.833 5.05 0.00 0.00 3.71
2793 3585 5.615289 CCGGATTCATTTGTTATCTCCTCT 58.385 41.667 0.00 0.00 0.00 3.69
2794 3586 5.698545 CCGGATTCATTTGTTATCTCCTCTC 59.301 44.000 0.00 0.00 0.00 3.20
2795 3587 6.463614 CCGGATTCATTTGTTATCTCCTCTCT 60.464 42.308 0.00 0.00 0.00 3.10
2796 3588 6.989169 CGGATTCATTTGTTATCTCCTCTCTT 59.011 38.462 0.00 0.00 0.00 2.85
2797 3589 8.144478 CGGATTCATTTGTTATCTCCTCTCTTA 58.856 37.037 0.00 0.00 0.00 2.10
2801 3593 9.838339 TTCATTTGTTATCTCCTCTCTTATTCC 57.162 33.333 0.00 0.00 0.00 3.01
2802 3594 9.218525 TCATTTGTTATCTCCTCTCTTATTCCT 57.781 33.333 0.00 0.00 0.00 3.36
2803 3595 9.487790 CATTTGTTATCTCCTCTCTTATTCCTC 57.512 37.037 0.00 0.00 0.00 3.71
2804 3596 7.604657 TTGTTATCTCCTCTCTTATTCCTCC 57.395 40.000 0.00 0.00 0.00 4.30
2805 3597 5.770663 TGTTATCTCCTCTCTTATTCCTCCG 59.229 44.000 0.00 0.00 0.00 4.63
2806 3598 2.588620 TCTCCTCTCTTATTCCTCCGC 58.411 52.381 0.00 0.00 0.00 5.54
2807 3599 1.616374 CTCCTCTCTTATTCCTCCGCC 59.384 57.143 0.00 0.00 0.00 6.13
2808 3600 0.315568 CCTCTCTTATTCCTCCGCCG 59.684 60.000 0.00 0.00 0.00 6.46
2809 3601 0.319125 CTCTCTTATTCCTCCGCCGC 60.319 60.000 0.00 0.00 0.00 6.53
2810 3602 1.040893 TCTCTTATTCCTCCGCCGCA 61.041 55.000 0.00 0.00 0.00 5.69
2811 3603 0.876342 CTCTTATTCCTCCGCCGCAC 60.876 60.000 0.00 0.00 0.00 5.34
2812 3604 1.887707 CTTATTCCTCCGCCGCACC 60.888 63.158 0.00 0.00 0.00 5.01
2813 3605 3.726595 TTATTCCTCCGCCGCACCG 62.727 63.158 0.00 0.00 0.00 4.94
2832 3624 4.838486 CCGTCTCGCAGCTCCGTC 62.838 72.222 0.00 0.00 0.00 4.79
2854 3646 3.796443 CGCGCATTCTGCAGCAGT 61.796 61.111 22.10 0.35 45.36 4.40
2855 3647 2.564975 GCGCATTCTGCAGCAGTT 59.435 55.556 22.10 8.46 45.36 3.16
2856 3648 1.513586 GCGCATTCTGCAGCAGTTC 60.514 57.895 22.10 8.72 45.36 3.01
2857 3649 1.136147 CGCATTCTGCAGCAGTTCC 59.864 57.895 22.10 8.38 45.36 3.62
2858 3650 1.303799 CGCATTCTGCAGCAGTTCCT 61.304 55.000 22.10 2.89 45.36 3.36
2859 3651 1.742761 GCATTCTGCAGCAGTTCCTA 58.257 50.000 22.10 0.00 44.26 2.94
2860 3652 1.669779 GCATTCTGCAGCAGTTCCTAG 59.330 52.381 22.10 8.61 44.26 3.02
2861 3653 2.938756 GCATTCTGCAGCAGTTCCTAGT 60.939 50.000 22.10 0.00 44.26 2.57
2862 3654 2.751166 TTCTGCAGCAGTTCCTAGTC 57.249 50.000 22.10 0.00 32.61 2.59
2863 3655 1.930251 TCTGCAGCAGTTCCTAGTCT 58.070 50.000 22.10 0.00 32.61 3.24
2864 3656 1.821753 TCTGCAGCAGTTCCTAGTCTC 59.178 52.381 22.10 0.00 32.61 3.36
2865 3657 1.824230 CTGCAGCAGTTCCTAGTCTCT 59.176 52.381 14.90 0.00 0.00 3.10
2866 3658 1.547820 TGCAGCAGTTCCTAGTCTCTG 59.452 52.381 0.00 0.00 0.00 3.35
2867 3659 1.548269 GCAGCAGTTCCTAGTCTCTGT 59.452 52.381 0.00 0.00 0.00 3.41
2868 3660 2.673610 GCAGCAGTTCCTAGTCTCTGTG 60.674 54.545 0.00 5.83 0.00 3.66
2869 3661 1.548269 AGCAGTTCCTAGTCTCTGTGC 59.452 52.381 0.00 0.00 0.00 4.57
2870 3662 1.404851 GCAGTTCCTAGTCTCTGTGCC 60.405 57.143 6.99 0.00 0.00 5.01
2871 3663 2.175202 CAGTTCCTAGTCTCTGTGCCT 58.825 52.381 0.00 0.00 0.00 4.75
2872 3664 3.357203 CAGTTCCTAGTCTCTGTGCCTA 58.643 50.000 0.00 0.00 0.00 3.93
2873 3665 3.129638 CAGTTCCTAGTCTCTGTGCCTAC 59.870 52.174 0.00 0.00 0.00 3.18
2874 3666 3.090037 GTTCCTAGTCTCTGTGCCTACA 58.910 50.000 0.00 0.00 35.08 2.74
2881 3673 4.192000 CTGTGCCTACAGCTTCGG 57.808 61.111 0.00 0.00 46.93 4.30
2882 3674 2.047274 TGTGCCTACAGCTTCGGC 60.047 61.111 10.06 10.06 44.23 5.54
2885 3677 2.579201 GCCTACAGCTTCGGCAGA 59.421 61.111 11.70 0.00 43.25 4.26
2886 3678 1.520342 GCCTACAGCTTCGGCAGAG 60.520 63.158 11.70 0.00 43.25 3.35
2887 3679 1.520342 CCTACAGCTTCGGCAGAGC 60.520 63.158 1.16 1.16 44.74 4.09
2888 3680 1.216444 CTACAGCTTCGGCAGAGCA 59.784 57.895 11.10 0.00 44.74 4.26
2889 3681 0.805322 CTACAGCTTCGGCAGAGCAG 60.805 60.000 11.10 6.01 44.74 4.24
2890 3682 1.536073 TACAGCTTCGGCAGAGCAGT 61.536 55.000 11.10 11.01 44.74 4.40
2891 3683 2.099431 CAGCTTCGGCAGAGCAGTC 61.099 63.158 11.10 0.00 44.74 3.51
2892 3684 2.817396 GCTTCGGCAGAGCAGTCC 60.817 66.667 4.41 0.00 41.33 3.85
2893 3685 2.977178 CTTCGGCAGAGCAGTCCT 59.023 61.111 0.00 0.00 0.00 3.85
2894 3686 1.153667 CTTCGGCAGAGCAGTCCTC 60.154 63.158 0.00 0.00 41.07 3.71
2901 3693 3.520402 GAGCAGTCCTCTCTCCCG 58.480 66.667 0.00 0.00 37.60 5.14
2902 3694 1.379309 GAGCAGTCCTCTCTCCCGT 60.379 63.158 0.00 0.00 37.60 5.28
2903 3695 1.379309 AGCAGTCCTCTCTCCCGTC 60.379 63.158 0.00 0.00 0.00 4.79
2904 3696 2.419739 GCAGTCCTCTCTCCCGTCC 61.420 68.421 0.00 0.00 0.00 4.79
2905 3697 1.304952 CAGTCCTCTCTCCCGTCCT 59.695 63.158 0.00 0.00 0.00 3.85
2906 3698 0.750182 CAGTCCTCTCTCCCGTCCTC 60.750 65.000 0.00 0.00 0.00 3.71
2907 3699 1.820481 GTCCTCTCTCCCGTCCTCG 60.820 68.421 0.00 0.00 0.00 4.63
2908 3700 3.213402 CCTCTCTCCCGTCCTCGC 61.213 72.222 0.00 0.00 35.54 5.03
2909 3701 3.213402 CTCTCTCCCGTCCTCGCC 61.213 72.222 0.00 0.00 35.54 5.54
2931 3723 4.446413 GGGACATCGTCGCCGGTT 62.446 66.667 1.90 0.00 39.17 4.44
2932 3724 2.433664 GGACATCGTCGCCGGTTT 60.434 61.111 1.90 0.00 32.65 3.27
2933 3725 2.736682 GGACATCGTCGCCGGTTTG 61.737 63.158 1.90 0.00 32.65 2.93
2934 3726 2.736682 GACATCGTCGCCGGTTTGG 61.737 63.158 1.90 0.00 42.50 3.28
2935 3727 2.433491 CATCGTCGCCGGTTTGGA 60.433 61.111 1.90 0.00 42.00 3.53
2936 3728 2.433664 ATCGTCGCCGGTTTGGAC 60.434 61.111 1.90 5.18 42.00 4.02
2962 3754 4.178861 GGTACGCTCGCATGTCAA 57.821 55.556 0.00 0.00 0.00 3.18
2963 3755 2.677971 GGTACGCTCGCATGTCAAT 58.322 52.632 0.00 0.00 0.00 2.57
2964 3756 1.847818 GGTACGCTCGCATGTCAATA 58.152 50.000 0.00 0.00 0.00 1.90
2965 3757 2.198406 GGTACGCTCGCATGTCAATAA 58.802 47.619 0.00 0.00 0.00 1.40
2966 3758 2.605818 GGTACGCTCGCATGTCAATAAA 59.394 45.455 0.00 0.00 0.00 1.40
2967 3759 3.062909 GGTACGCTCGCATGTCAATAAAA 59.937 43.478 0.00 0.00 0.00 1.52
2968 3760 3.822594 ACGCTCGCATGTCAATAAAAA 57.177 38.095 0.00 0.00 0.00 1.94
2969 3761 3.747193 ACGCTCGCATGTCAATAAAAAG 58.253 40.909 0.00 0.00 0.00 2.27
2970 3762 3.435327 ACGCTCGCATGTCAATAAAAAGA 59.565 39.130 0.00 0.00 0.00 2.52
2971 3763 4.024438 CGCTCGCATGTCAATAAAAAGAG 58.976 43.478 0.00 0.00 0.00 2.85
2972 3764 3.788163 GCTCGCATGTCAATAAAAAGAGC 59.212 43.478 0.00 0.00 41.08 4.09
2973 3765 4.346129 CTCGCATGTCAATAAAAAGAGCC 58.654 43.478 0.00 0.00 0.00 4.70
2974 3766 3.755905 TCGCATGTCAATAAAAAGAGCCA 59.244 39.130 0.00 0.00 0.00 4.75
2975 3767 3.853671 CGCATGTCAATAAAAAGAGCCAC 59.146 43.478 0.00 0.00 0.00 5.01
2976 3768 4.379813 CGCATGTCAATAAAAAGAGCCACT 60.380 41.667 0.00 0.00 0.00 4.00
2977 3769 5.473039 GCATGTCAATAAAAAGAGCCACTT 58.527 37.500 0.00 0.00 40.98 3.16
2979 3771 6.128742 GCATGTCAATAAAAAGAGCCACTTTG 60.129 38.462 7.16 0.00 46.55 2.77
2980 3772 5.288804 TGTCAATAAAAAGAGCCACTTTGC 58.711 37.500 7.16 0.00 46.55 3.68
2981 3773 5.163468 TGTCAATAAAAAGAGCCACTTTGCA 60.163 36.000 7.16 0.00 46.55 4.08
2982 3774 5.752955 GTCAATAAAAAGAGCCACTTTGCAA 59.247 36.000 0.00 0.00 46.55 4.08
2983 3775 5.752955 TCAATAAAAAGAGCCACTTTGCAAC 59.247 36.000 0.00 0.00 46.55 4.17
2984 3776 3.608316 AAAAAGAGCCACTTTGCAACA 57.392 38.095 0.00 0.00 46.55 3.33
2985 3777 3.608316 AAAAGAGCCACTTTGCAACAA 57.392 38.095 0.00 0.00 46.55 2.83
2986 3778 3.825143 AAAGAGCCACTTTGCAACAAT 57.175 38.095 0.00 0.00 45.66 2.71
2987 3779 2.806608 AGAGCCACTTTGCAACAATG 57.193 45.000 0.00 0.00 0.00 2.82
2988 3780 4.293216 AAAGAGCCACTTTGCAACAATGC 61.293 43.478 0.00 0.00 45.66 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 8.293157 TGCGAACAAATTTGATACAAGAACATA 58.707 29.630 24.64 0.00 0.00 2.29
186 190 1.132643 GTCATCGTACGCCAGAGAAGT 59.867 52.381 11.24 0.00 0.00 3.01
230 234 5.335583 CCGCTAGTTTTTCATTCATTGGTCA 60.336 40.000 0.00 0.00 0.00 4.02
233 237 5.309323 TCCGCTAGTTTTTCATTCATTGG 57.691 39.130 0.00 0.00 0.00 3.16
248 252 6.146184 CAGGTGTGACATAATAAATCCGCTAG 59.854 42.308 0.00 0.00 0.00 3.42
263 267 1.525077 GGTTTCGCCAGGTGTGACA 60.525 57.895 0.00 0.00 37.17 3.58
303 307 3.619233 ACAAAACCTTATGTGCACGAC 57.381 42.857 13.13 0.00 0.00 4.34
401 1144 8.632679 GCCCACCATCATGTATATTTATATTGG 58.367 37.037 0.00 0.00 0.00 3.16
520 1263 6.048732 ACATTCCAAGTTTGTTTTGAACCT 57.951 33.333 0.00 0.00 0.00 3.50
551 1294 2.282820 GCTGTCTAGATGTTAACTGCGC 59.717 50.000 0.00 0.00 0.00 6.09
583 1326 5.493809 ACACTTGCCTTAACGGTGTAATAT 58.506 37.500 0.00 0.00 39.01 1.28
592 1335 4.806342 AGTACAAACACTTGCCTTAACG 57.194 40.909 0.00 0.00 35.84 3.18
596 1339 5.652994 TGAAAAGTACAAACACTTGCCTT 57.347 34.783 0.00 0.00 38.74 4.35
918 1690 0.040499 AGAGAGAGGGGTGTCTGGTC 59.960 60.000 0.00 0.00 0.00 4.02
1156 1928 2.574018 GCTCTTGGTTGGGGTTGGC 61.574 63.158 0.00 0.00 0.00 4.52
1165 1937 1.523758 GAATGTCGTGGCTCTTGGTT 58.476 50.000 0.00 0.00 0.00 3.67
1221 1993 0.696501 GGCTTCCTTCCACAGGGTTA 59.303 55.000 0.00 0.00 44.12 2.85
1226 1998 2.747855 GGCGGCTTCCTTCCACAG 60.748 66.667 0.00 0.00 0.00 3.66
1289 2070 2.361771 GACCGGAGACCCCACCTA 59.638 66.667 9.46 0.00 34.14 3.08
1328 2109 3.160047 ATGGCGGCAGGAGAGGAG 61.160 66.667 19.29 0.00 0.00 3.69
1367 2148 2.431683 GTGCACCCCTGCTCTTCA 59.568 61.111 5.22 0.00 44.57 3.02
1505 2286 1.064946 GTCGTCTCAGCATCCTCGG 59.935 63.158 0.00 0.00 0.00 4.63
1579 2360 0.453390 GAGGCATTGCTACTGTTGGC 59.547 55.000 8.82 0.00 35.09 4.52
1679 2460 3.795342 CCAAGTTAACCCGCGGCG 61.795 66.667 22.85 16.78 0.00 6.46
1882 2663 0.693767 AGCTCCTCCATCTTCCCCAG 60.694 60.000 0.00 0.00 0.00 4.45
1989 2770 1.166129 GTACTCTCTGTCACGCCTCA 58.834 55.000 0.00 0.00 0.00 3.86
1999 2780 4.021016 ACACCTTTAGCTTGGTACTCTCTG 60.021 45.833 0.00 0.00 34.79 3.35
2006 2787 3.756933 ACGAACACCTTTAGCTTGGTA 57.243 42.857 0.00 0.00 34.79 3.25
2065 2846 2.720750 CAAACAACACCGCGCGTC 60.721 61.111 29.95 0.00 0.00 5.19
2122 2903 6.926272 TGGGCATGTACATTTTCTTTTTGTAC 59.074 34.615 5.37 5.69 43.74 2.90
2123 2904 7.055667 TGGGCATGTACATTTTCTTTTTGTA 57.944 32.000 5.37 0.00 0.00 2.41
2124 2905 5.923204 TGGGCATGTACATTTTCTTTTTGT 58.077 33.333 5.37 0.00 0.00 2.83
2125 2906 5.990996 ACTGGGCATGTACATTTTCTTTTTG 59.009 36.000 5.37 0.00 0.00 2.44
2126 2907 5.990996 CACTGGGCATGTACATTTTCTTTTT 59.009 36.000 5.37 0.00 0.00 1.94
2127 2908 5.540911 CACTGGGCATGTACATTTTCTTTT 58.459 37.500 5.37 0.00 0.00 2.27
2128 2909 4.561326 GCACTGGGCATGTACATTTTCTTT 60.561 41.667 5.37 0.00 43.97 2.52
2129 2910 3.056607 GCACTGGGCATGTACATTTTCTT 60.057 43.478 5.37 0.00 43.97 2.52
2130 2911 2.493278 GCACTGGGCATGTACATTTTCT 59.507 45.455 5.37 0.00 43.97 2.52
2131 2912 2.879826 GCACTGGGCATGTACATTTTC 58.120 47.619 5.37 0.00 43.97 2.29
2303 3086 1.195448 CGCATATCCGAGCATCAAACC 59.805 52.381 0.00 0.00 33.17 3.27
2532 3324 2.046700 TTTAAGACGCCCGGCTGG 60.047 61.111 3.88 3.88 31.22 4.85
2535 3327 3.129502 GGGTTTAAGACGCCCGGC 61.130 66.667 0.00 0.00 35.30 6.13
2543 3335 3.709653 AGATGTATGAGGCGGGTTTAAGA 59.290 43.478 0.00 0.00 0.00 2.10
2546 3338 2.104111 CCAGATGTATGAGGCGGGTTTA 59.896 50.000 0.00 0.00 0.00 2.01
2550 3342 0.034059 GTCCAGATGTATGAGGCGGG 59.966 60.000 0.00 0.00 0.00 6.13
2565 3357 3.399181 GATCAGGTGGCCCGTCCA 61.399 66.667 0.00 0.00 44.18 4.02
2566 3358 3.399181 TGATCAGGTGGCCCGTCC 61.399 66.667 0.00 0.00 35.12 4.79
2575 3367 1.893786 GAGCCGACAGTGATCAGGT 59.106 57.895 0.00 0.00 0.00 4.00
2578 3370 2.181777 GCGAGCCGACAGTGATCA 59.818 61.111 0.00 0.00 0.00 2.92
2580 3372 3.440415 TCGCGAGCCGACAGTGAT 61.440 61.111 3.71 0.00 41.89 3.06
2595 3387 3.908978 CGTCTGTCTGGATCGATATTTCG 59.091 47.826 0.00 0.00 46.87 3.46
2601 3393 0.753479 AGGCGTCTGTCTGGATCGAT 60.753 55.000 0.00 0.00 0.00 3.59
2603 3395 1.064946 GAGGCGTCTGTCTGGATCG 59.935 63.158 0.00 0.00 0.00 3.69
2606 3398 1.103803 GTATGAGGCGTCTGTCTGGA 58.896 55.000 8.06 0.00 0.00 3.86
2608 3400 0.733150 TCGTATGAGGCGTCTGTCTG 59.267 55.000 8.06 0.00 0.00 3.51
2611 3403 0.179171 CGTTCGTATGAGGCGTCTGT 60.179 55.000 8.06 0.00 0.00 3.41
2613 3405 0.377554 CTCGTTCGTATGAGGCGTCT 59.622 55.000 8.06 0.00 34.38 4.18
2615 3407 1.226603 GCTCGTTCGTATGAGGCGT 60.227 57.895 12.51 0.00 37.79 5.68
2616 3408 1.064296 AGCTCGTTCGTATGAGGCG 59.936 57.895 12.51 5.08 37.79 5.52
2639 3431 1.707427 GGGTTGGATATGAGGGATGCT 59.293 52.381 0.00 0.00 0.00 3.79
2667 3459 4.660938 GGTGCCCCATATCCGCCC 62.661 72.222 0.00 0.00 0.00 6.13
2698 3490 4.517815 CCAACATGGCGGGCATGC 62.518 66.667 35.64 9.90 33.61 4.06
2699 3491 2.755064 TCCAACATGGCGGGCATG 60.755 61.111 34.54 34.54 37.47 4.06
2700 3492 2.755469 GTCCAACATGGCGGGCAT 60.755 61.111 11.73 11.73 37.47 4.40
2704 3496 4.402528 TCGGGTCCAACATGGCGG 62.403 66.667 0.00 0.00 37.47 6.13
2705 3497 3.124921 GTCGGGTCCAACATGGCG 61.125 66.667 0.00 0.00 37.47 5.69
2706 3498 2.033448 TGTCGGGTCCAACATGGC 59.967 61.111 0.00 0.00 37.47 4.40
2707 3499 2.040544 GCTGTCGGGTCCAACATGG 61.041 63.158 0.00 0.00 39.43 3.66
2708 3500 1.003355 AGCTGTCGGGTCCAACATG 60.003 57.895 0.00 0.00 0.00 3.21
2709 3501 1.296715 GAGCTGTCGGGTCCAACAT 59.703 57.895 0.00 0.00 36.53 2.71
2710 3502 2.741092 GAGCTGTCGGGTCCAACA 59.259 61.111 0.00 0.00 36.53 3.33
2711 3503 2.432628 CGAGCTGTCGGGTCCAAC 60.433 66.667 5.28 0.00 42.87 3.77
2712 3504 2.599281 TCGAGCTGTCGGGTCCAA 60.599 61.111 5.28 0.00 46.80 3.53
2713 3505 3.371063 GTCGAGCTGTCGGGTCCA 61.371 66.667 5.28 0.00 46.80 4.02
2714 3506 4.131088 GGTCGAGCTGTCGGGTCC 62.131 72.222 7.51 0.00 46.80 4.46
2715 3507 4.131088 GGGTCGAGCTGTCGGGTC 62.131 72.222 15.18 0.41 46.80 4.46
2718 3510 4.436998 GTGGGGTCGAGCTGTCGG 62.437 72.222 15.18 0.00 46.80 4.79
2720 3512 4.436998 CGGTGGGGTCGAGCTGTC 62.437 72.222 15.18 5.48 0.00 3.51
2725 3517 1.674322 AATTTGCGGTGGGGTCGAG 60.674 57.895 0.00 0.00 0.00 4.04
2726 3518 1.969064 CAATTTGCGGTGGGGTCGA 60.969 57.895 0.00 0.00 0.00 4.20
2727 3519 2.566010 CAATTTGCGGTGGGGTCG 59.434 61.111 0.00 0.00 0.00 4.79
2728 3520 2.261361 GCAATTTGCGGTGGGGTC 59.739 61.111 5.49 0.00 31.71 4.46
2737 3529 1.805943 GGTGGATTTGGTGCAATTTGC 59.194 47.619 14.49 14.49 45.29 3.68
2738 3530 3.405823 AGGTGGATTTGGTGCAATTTG 57.594 42.857 0.00 0.00 0.00 2.32
2739 3531 3.260632 GGTAGGTGGATTTGGTGCAATTT 59.739 43.478 0.00 0.00 0.00 1.82
2740 3532 2.831526 GGTAGGTGGATTTGGTGCAATT 59.168 45.455 0.00 0.00 0.00 2.32
2741 3533 2.456577 GGTAGGTGGATTTGGTGCAAT 58.543 47.619 0.00 0.00 0.00 3.56
2742 3534 1.549037 GGGTAGGTGGATTTGGTGCAA 60.549 52.381 0.00 0.00 0.00 4.08
2743 3535 0.039035 GGGTAGGTGGATTTGGTGCA 59.961 55.000 0.00 0.00 0.00 4.57
2744 3536 0.039035 TGGGTAGGTGGATTTGGTGC 59.961 55.000 0.00 0.00 0.00 5.01
2745 3537 1.633432 TCTGGGTAGGTGGATTTGGTG 59.367 52.381 0.00 0.00 0.00 4.17
2746 3538 1.633945 GTCTGGGTAGGTGGATTTGGT 59.366 52.381 0.00 0.00 0.00 3.67
2747 3539 1.064685 GGTCTGGGTAGGTGGATTTGG 60.065 57.143 0.00 0.00 0.00 3.28
2748 3540 1.916181 AGGTCTGGGTAGGTGGATTTG 59.084 52.381 0.00 0.00 0.00 2.32
2749 3541 1.916181 CAGGTCTGGGTAGGTGGATTT 59.084 52.381 0.00 0.00 0.00 2.17
2750 3542 1.584724 CAGGTCTGGGTAGGTGGATT 58.415 55.000 0.00 0.00 0.00 3.01
2751 3543 0.983378 GCAGGTCTGGGTAGGTGGAT 60.983 60.000 0.00 0.00 0.00 3.41
2752 3544 1.612442 GCAGGTCTGGGTAGGTGGA 60.612 63.158 0.00 0.00 0.00 4.02
2753 3545 2.670148 GGCAGGTCTGGGTAGGTGG 61.670 68.421 0.00 0.00 0.00 4.61
2754 3546 2.990479 GGCAGGTCTGGGTAGGTG 59.010 66.667 0.00 0.00 0.00 4.00
2755 3547 2.683933 CGGCAGGTCTGGGTAGGT 60.684 66.667 0.00 0.00 0.00 3.08
2756 3548 3.470888 CCGGCAGGTCTGGGTAGG 61.471 72.222 0.00 0.00 37.58 3.18
2757 3549 1.338136 AATCCGGCAGGTCTGGGTAG 61.338 60.000 1.81 0.00 41.78 3.18
2758 3550 1.306654 AATCCGGCAGGTCTGGGTA 60.307 57.895 1.81 0.00 41.78 3.69
2759 3551 2.610859 AATCCGGCAGGTCTGGGT 60.611 61.111 1.81 0.00 41.78 4.51
2760 3552 1.987807 ATGAATCCGGCAGGTCTGGG 61.988 60.000 1.81 0.00 41.78 4.45
2761 3553 0.107017 AATGAATCCGGCAGGTCTGG 60.107 55.000 1.81 0.00 42.90 3.86
2762 3554 1.402968 CAAATGAATCCGGCAGGTCTG 59.597 52.381 1.81 0.00 39.05 3.51
2763 3555 1.004745 ACAAATGAATCCGGCAGGTCT 59.995 47.619 1.81 0.00 39.05 3.85
2764 3556 1.463674 ACAAATGAATCCGGCAGGTC 58.536 50.000 1.81 0.00 39.05 3.85
2765 3557 1.923356 AACAAATGAATCCGGCAGGT 58.077 45.000 1.81 0.00 39.05 4.00
2766 3558 3.885297 AGATAACAAATGAATCCGGCAGG 59.115 43.478 0.00 0.00 39.46 4.85
2767 3559 4.023707 GGAGATAACAAATGAATCCGGCAG 60.024 45.833 0.00 0.00 0.00 4.85
2768 3560 3.882888 GGAGATAACAAATGAATCCGGCA 59.117 43.478 0.00 0.00 0.00 5.69
2769 3561 4.137543 AGGAGATAACAAATGAATCCGGC 58.862 43.478 0.00 0.00 0.00 6.13
2770 3562 5.615289 AGAGGAGATAACAAATGAATCCGG 58.385 41.667 0.00 0.00 0.00 5.14
2771 3563 6.520272 AGAGAGGAGATAACAAATGAATCCG 58.480 40.000 0.00 0.00 0.00 4.18
2775 3567 9.838339 GGAATAAGAGAGGAGATAACAAATGAA 57.162 33.333 0.00 0.00 0.00 2.57
2776 3568 9.218525 AGGAATAAGAGAGGAGATAACAAATGA 57.781 33.333 0.00 0.00 0.00 2.57
2777 3569 9.487790 GAGGAATAAGAGAGGAGATAACAAATG 57.512 37.037 0.00 0.00 0.00 2.32
2778 3570 8.655901 GGAGGAATAAGAGAGGAGATAACAAAT 58.344 37.037 0.00 0.00 0.00 2.32
2779 3571 7.201920 CGGAGGAATAAGAGAGGAGATAACAAA 60.202 40.741 0.00 0.00 0.00 2.83
2780 3572 6.265649 CGGAGGAATAAGAGAGGAGATAACAA 59.734 42.308 0.00 0.00 0.00 2.83
2781 3573 5.770663 CGGAGGAATAAGAGAGGAGATAACA 59.229 44.000 0.00 0.00 0.00 2.41
2782 3574 5.336134 GCGGAGGAATAAGAGAGGAGATAAC 60.336 48.000 0.00 0.00 0.00 1.89
2783 3575 4.767928 GCGGAGGAATAAGAGAGGAGATAA 59.232 45.833 0.00 0.00 0.00 1.75
2784 3576 4.337145 GCGGAGGAATAAGAGAGGAGATA 58.663 47.826 0.00 0.00 0.00 1.98
2785 3577 3.161866 GCGGAGGAATAAGAGAGGAGAT 58.838 50.000 0.00 0.00 0.00 2.75
2786 3578 2.588620 GCGGAGGAATAAGAGAGGAGA 58.411 52.381 0.00 0.00 0.00 3.71
2787 3579 1.616374 GGCGGAGGAATAAGAGAGGAG 59.384 57.143 0.00 0.00 0.00 3.69
2788 3580 1.705873 GGCGGAGGAATAAGAGAGGA 58.294 55.000 0.00 0.00 0.00 3.71
2789 3581 0.315568 CGGCGGAGGAATAAGAGAGG 59.684 60.000 0.00 0.00 0.00 3.69
2790 3582 0.319125 GCGGCGGAGGAATAAGAGAG 60.319 60.000 9.78 0.00 0.00 3.20
2791 3583 1.040893 TGCGGCGGAGGAATAAGAGA 61.041 55.000 9.78 0.00 0.00 3.10
2792 3584 0.876342 GTGCGGCGGAGGAATAAGAG 60.876 60.000 9.78 0.00 0.00 2.85
2793 3585 1.143183 GTGCGGCGGAGGAATAAGA 59.857 57.895 9.78 0.00 0.00 2.10
2794 3586 1.887707 GGTGCGGCGGAGGAATAAG 60.888 63.158 9.78 0.00 0.00 1.73
2795 3587 2.188469 GGTGCGGCGGAGGAATAA 59.812 61.111 9.78 0.00 0.00 1.40
2796 3588 4.215742 CGGTGCGGCGGAGGAATA 62.216 66.667 9.78 0.00 0.00 1.75
2815 3607 4.838486 GACGGAGCTGCGAGACGG 62.838 72.222 34.91 4.08 0.00 4.79
2841 3633 2.935201 GACTAGGAACTGCTGCAGAATG 59.065 50.000 34.28 18.64 41.52 2.67
2842 3634 2.836981 AGACTAGGAACTGCTGCAGAAT 59.163 45.455 34.28 22.15 41.52 2.40
2843 3635 2.232452 GAGACTAGGAACTGCTGCAGAA 59.768 50.000 34.28 5.87 41.52 3.02
2844 3636 1.821753 GAGACTAGGAACTGCTGCAGA 59.178 52.381 34.28 12.01 41.52 4.26
2845 3637 1.824230 AGAGACTAGGAACTGCTGCAG 59.176 52.381 27.02 27.02 41.52 4.41
2846 3638 1.547820 CAGAGACTAGGAACTGCTGCA 59.452 52.381 0.88 0.88 41.52 4.41
2847 3639 1.548269 ACAGAGACTAGGAACTGCTGC 59.452 52.381 10.64 0.00 41.52 5.25
2848 3640 2.673610 GCACAGAGACTAGGAACTGCTG 60.674 54.545 10.64 0.00 41.52 4.41
2849 3641 1.548269 GCACAGAGACTAGGAACTGCT 59.452 52.381 10.64 0.00 41.52 4.24
2850 3642 1.404851 GGCACAGAGACTAGGAACTGC 60.405 57.143 10.64 2.72 41.52 4.40
2851 3643 2.175202 AGGCACAGAGACTAGGAACTG 58.825 52.381 9.60 9.60 41.52 3.16
2852 3644 2.614134 AGGCACAGAGACTAGGAACT 57.386 50.000 0.00 0.00 46.37 3.01
2853 3645 3.090037 TGTAGGCACAGAGACTAGGAAC 58.910 50.000 0.00 0.00 38.94 3.62
2854 3646 3.451402 TGTAGGCACAGAGACTAGGAA 57.549 47.619 0.00 0.00 38.94 3.36
2869 3661 1.520342 GCTCTGCCGAAGCTGTAGG 60.520 63.158 0.00 0.00 40.80 3.18
2870 3662 0.805322 CTGCTCTGCCGAAGCTGTAG 60.805 60.000 0.00 0.00 40.80 2.74
2871 3663 1.216444 CTGCTCTGCCGAAGCTGTA 59.784 57.895 0.00 0.00 40.80 2.74
2872 3664 2.047465 CTGCTCTGCCGAAGCTGT 60.047 61.111 0.00 0.00 40.80 4.40
2873 3665 2.047465 ACTGCTCTGCCGAAGCTG 60.047 61.111 0.00 7.21 40.80 4.24
2874 3666 2.264166 GACTGCTCTGCCGAAGCT 59.736 61.111 4.07 0.00 40.80 3.74
2875 3667 2.817396 GGACTGCTCTGCCGAAGC 60.817 66.667 0.00 0.00 40.48 3.86
2876 3668 1.153667 GAGGACTGCTCTGCCGAAG 60.154 63.158 0.00 0.00 0.00 3.79
2877 3669 1.599606 GAGAGGACTGCTCTGCCGAA 61.600 60.000 4.55 0.00 0.00 4.30
2878 3670 2.036414 AGAGGACTGCTCTGCCGA 59.964 61.111 0.00 0.00 0.00 5.54
2879 3671 2.003658 GAGAGAGGACTGCTCTGCCG 62.004 65.000 4.55 0.00 42.50 5.69
2880 3672 1.675720 GGAGAGAGGACTGCTCTGCC 61.676 65.000 4.55 2.85 42.77 4.85
2881 3673 1.675720 GGGAGAGAGGACTGCTCTGC 61.676 65.000 4.55 0.00 46.32 4.26
2882 3674 1.383456 CGGGAGAGAGGACTGCTCTG 61.383 65.000 4.55 0.00 42.50 3.35
2883 3675 1.077068 CGGGAGAGAGGACTGCTCT 60.077 63.158 0.00 0.00 44.98 4.09
2884 3676 1.379309 ACGGGAGAGAGGACTGCTC 60.379 63.158 0.00 0.00 0.00 4.26
2885 3677 1.379309 GACGGGAGAGAGGACTGCT 60.379 63.158 0.00 0.00 0.00 4.24
2886 3678 2.419739 GGACGGGAGAGAGGACTGC 61.420 68.421 0.00 0.00 0.00 4.40
2887 3679 0.750182 GAGGACGGGAGAGAGGACTG 60.750 65.000 0.00 0.00 0.00 3.51
2888 3680 1.610873 GAGGACGGGAGAGAGGACT 59.389 63.158 0.00 0.00 0.00 3.85
2889 3681 1.820481 CGAGGACGGGAGAGAGGAC 60.820 68.421 0.00 0.00 35.72 3.85
2890 3682 2.590645 CGAGGACGGGAGAGAGGA 59.409 66.667 0.00 0.00 35.72 3.71
2891 3683 3.213402 GCGAGGACGGGAGAGAGG 61.213 72.222 0.00 0.00 40.15 3.69
2892 3684 3.213402 GGCGAGGACGGGAGAGAG 61.213 72.222 0.00 0.00 40.15 3.20
2944 3736 1.145759 ATTGACATGCGAGCGTACCG 61.146 55.000 0.00 0.00 0.00 4.02
2945 3737 1.847818 TATTGACATGCGAGCGTACC 58.152 50.000 0.00 0.00 0.00 3.34
2946 3738 3.918258 TTTATTGACATGCGAGCGTAC 57.082 42.857 0.00 0.00 0.00 3.67
2947 3739 4.627900 TCTTTTTATTGACATGCGAGCGTA 59.372 37.500 0.00 0.00 0.00 4.42
2948 3740 3.435327 TCTTTTTATTGACATGCGAGCGT 59.565 39.130 0.00 0.00 0.00 5.07
2949 3741 4.002267 TCTTTTTATTGACATGCGAGCG 57.998 40.909 0.00 0.00 0.00 5.03
2950 3742 3.788163 GCTCTTTTTATTGACATGCGAGC 59.212 43.478 0.00 0.00 35.26 5.03
2951 3743 4.142622 TGGCTCTTTTTATTGACATGCGAG 60.143 41.667 0.00 0.00 0.00 5.03
2952 3744 3.755905 TGGCTCTTTTTATTGACATGCGA 59.244 39.130 0.00 0.00 0.00 5.10
2953 3745 3.853671 GTGGCTCTTTTTATTGACATGCG 59.146 43.478 0.00 0.00 0.00 4.73
2954 3746 5.064441 AGTGGCTCTTTTTATTGACATGC 57.936 39.130 0.00 0.00 0.00 4.06
2955 3747 6.128742 GCAAAGTGGCTCTTTTTATTGACATG 60.129 38.462 11.58 0.00 42.95 3.21
2956 3748 5.928264 GCAAAGTGGCTCTTTTTATTGACAT 59.072 36.000 11.58 0.00 42.95 3.06
2957 3749 5.163468 TGCAAAGTGGCTCTTTTTATTGACA 60.163 36.000 11.58 2.57 42.95 3.58
2958 3750 5.288804 TGCAAAGTGGCTCTTTTTATTGAC 58.711 37.500 11.58 0.38 42.95 3.18
2959 3751 5.528043 TGCAAAGTGGCTCTTTTTATTGA 57.472 34.783 11.58 0.00 42.95 2.57
2960 3752 5.523188 TGTTGCAAAGTGGCTCTTTTTATTG 59.477 36.000 11.58 3.12 42.95 1.90
2961 3753 5.669477 TGTTGCAAAGTGGCTCTTTTTATT 58.331 33.333 11.58 0.00 42.95 1.40
2962 3754 5.275067 TGTTGCAAAGTGGCTCTTTTTAT 57.725 34.783 11.58 0.00 42.95 1.40
2963 3755 4.727507 TGTTGCAAAGTGGCTCTTTTTA 57.272 36.364 11.58 2.02 42.95 1.52
2964 3756 3.608316 TGTTGCAAAGTGGCTCTTTTT 57.392 38.095 11.58 0.00 42.95 1.94
2965 3757 3.608316 TTGTTGCAAAGTGGCTCTTTT 57.392 38.095 11.58 0.00 42.95 2.27
2966 3758 3.460103 CATTGTTGCAAAGTGGCTCTTT 58.540 40.909 0.00 8.65 45.96 2.52
2967 3759 3.102052 CATTGTTGCAAAGTGGCTCTT 57.898 42.857 0.00 0.00 38.10 2.85
2968 3760 2.806608 CATTGTTGCAAAGTGGCTCT 57.193 45.000 0.00 0.00 34.04 4.09
2980 3772 1.959085 ACCGCTTCCTGCATTGTTG 59.041 52.632 0.00 0.00 43.06 3.33
2981 3773 4.500265 ACCGCTTCCTGCATTGTT 57.500 50.000 0.00 0.00 43.06 2.83


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

AutoCloner maintained by Alex Coulton.