Multiple sequence alignment - TraesCS4B01G347900

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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 TraesCS4B01G347900 chr4B 100.000 2888 0 0 1 2888 641482356 641485243 0.000000e+00 5334.0
1 TraesCS4B01G347900 chr4B 94.504 2693 98 23 44 2698 641685840 641688520 0.000000e+00 4108.0
2 TraesCS4B01G347900 chr4B 94.461 2690 99 22 46 2698 641568553 641571229 0.000000e+00 4096.0
3 TraesCS4B01G347900 chr4B 94.321 2694 102 24 44 2698 641609734 641612415 0.000000e+00 4080.0
4 TraesCS4B01G347900 chr4B 94.081 2703 93 26 44 2690 641777507 641780198 0.000000e+00 4043.0
5 TraesCS4B01G347900 chr4B 94.662 2585 90 21 44 2591 641646438 641649011 0.000000e+00 3965.0
6 TraesCS4B01G347900 chr4B 92.295 2427 140 30 46 2430 641521684 641524105 0.000000e+00 3402.0
7 TraesCS4B01G347900 chr4B 92.222 2430 138 29 44 2430 641541965 641544386 0.000000e+00 3393.0
8 TraesCS4B01G347900 chr4B 88.778 704 29 17 2044 2698 641740054 641740756 0.000000e+00 817.0
9 TraesCS4B01G347900 chr4B 96.447 197 7 0 2690 2886 641705520 641705716 2.780000e-85 326.0
10 TraesCS4B01G347900 chr4B 95.939 197 8 0 2690 2886 641665285 641665481 1.290000e-83 320.0
11 TraesCS4B01G347900 chr4B 95.939 197 8 0 2690 2886 641757887 641758083 1.290000e-83 320.0
12 TraesCS4B01G347900 chr4B 95.939 197 8 0 2690 2886 641796938 641797134 1.290000e-83 320.0
13 TraesCS4B01G347900 chr4B 95.431 197 9 0 2690 2886 641629291 641629487 6.010000e-82 315.0
14 TraesCS4B01G347900 chr4B 94.924 197 10 0 2690 2886 641588937 641589133 2.790000e-80 309.0
15 TraesCS4B01G347900 chr4B 94.286 35 2 0 2420 2454 641570993 641571027 1.000000e-03 54.7
16 TraesCS4B01G347900 chr4B 90.244 41 4 0 2414 2454 641612170 641612210 1.000000e-03 54.7
17 TraesCS4B01G347900 chr5A 91.976 2505 169 14 1 2487 679778206 679780696 0.000000e+00 3483.0
18 TraesCS4B01G347900 chrUn 95.468 1346 47 7 69 1409 410175031 410173695 0.000000e+00 2135.0
19 TraesCS4B01G347900 chrUn 94.778 766 28 5 124 884 467410818 467410060 0.000000e+00 1182.0
20 TraesCS4B01G347900 chrUn 95.431 197 9 0 2690 2886 337385770 337385574 6.010000e-82 315.0
21 TraesCS4B01G347900 chrUn 94.924 197 10 0 2690 2886 353374147 353374343 2.790000e-80 309.0
22 TraesCS4B01G347900 chr4D 92.703 1439 101 4 697 2132 499107982 499109419 0.000000e+00 2073.0
23 TraesCS4B01G347900 chr4D 87.535 361 31 6 2530 2887 499217769 499218118 3.470000e-109 405.0


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 TraesCS4B01G347900 chr4B 641482356 641485243 2887 False 5334.00 5334 100.0000 1 2888 1 chr4B.!!$F1 2887
1 TraesCS4B01G347900 chr4B 641685840 641688520 2680 False 4108.00 4108 94.5040 44 2698 1 chr4B.!!$F8 2654
2 TraesCS4B01G347900 chr4B 641777507 641780198 2691 False 4043.00 4043 94.0810 44 2690 1 chr4B.!!$F12 2646
3 TraesCS4B01G347900 chr4B 641646438 641649011 2573 False 3965.00 3965 94.6620 44 2591 1 chr4B.!!$F6 2547
4 TraesCS4B01G347900 chr4B 641521684 641524105 2421 False 3402.00 3402 92.2950 46 2430 1 chr4B.!!$F2 2384
5 TraesCS4B01G347900 chr4B 641541965 641544386 2421 False 3393.00 3393 92.2220 44 2430 1 chr4B.!!$F3 2386
6 TraesCS4B01G347900 chr4B 641568553 641571229 2676 False 2075.35 4096 94.3735 46 2698 2 chr4B.!!$F14 2652
7 TraesCS4B01G347900 chr4B 641609734 641612415 2681 False 2067.35 4080 92.2825 44 2698 2 chr4B.!!$F15 2654
8 TraesCS4B01G347900 chr4B 641740054 641740756 702 False 817.00 817 88.7780 2044 2698 1 chr4B.!!$F10 654
9 TraesCS4B01G347900 chr5A 679778206 679780696 2490 False 3483.00 3483 91.9760 1 2487 1 chr5A.!!$F1 2486
10 TraesCS4B01G347900 chrUn 410173695 410175031 1336 True 2135.00 2135 95.4680 69 1409 1 chrUn.!!$R2 1340
11 TraesCS4B01G347900 chrUn 467410060 467410818 758 True 1182.00 1182 94.7780 124 884 1 chrUn.!!$R3 760
12 TraesCS4B01G347900 chr4D 499107982 499109419 1437 False 2073.00 2073 92.7030 697 2132 1 chr4D.!!$F1 1435

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
904 956 0.602562 CGGAGGGCATGAAAAAGCAA 59.397 50.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2851 3018 0.032952 GTAGGGTGTGAGTGCGTTCA 59.967 55.0 0.0 0.0 0.0 3.18 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
24 25 5.208463 TGCACAACTTAGATAGTCACACA 57.792 39.130 0.00 0.00 35.54 3.72
25 26 5.606505 TGCACAACTTAGATAGTCACACAA 58.393 37.500 0.00 0.00 35.54 3.33
26 27 6.052360 TGCACAACTTAGATAGTCACACAAA 58.948 36.000 0.00 0.00 35.54 2.83
27 28 6.018262 TGCACAACTTAGATAGTCACACAAAC 60.018 38.462 0.00 0.00 35.54 2.93
28 29 6.018262 GCACAACTTAGATAGTCACACAAACA 60.018 38.462 0.00 0.00 35.54 2.83
29 30 7.345192 CACAACTTAGATAGTCACACAAACAC 58.655 38.462 0.00 0.00 35.54 3.32
30 31 7.011016 CACAACTTAGATAGTCACACAAACACA 59.989 37.037 0.00 0.00 35.54 3.72
31 32 7.011109 ACAACTTAGATAGTCACACAAACACAC 59.989 37.037 0.00 0.00 35.54 3.82
32 33 6.578944 ACTTAGATAGTCACACAAACACACA 58.421 36.000 0.00 0.00 28.23 3.72
33 34 6.479001 ACTTAGATAGTCACACAAACACACAC 59.521 38.462 0.00 0.00 28.23 3.82
34 35 4.765273 AGATAGTCACACAAACACACACA 58.235 39.130 0.00 0.00 0.00 3.72
35 36 4.570772 AGATAGTCACACAAACACACACAC 59.429 41.667 0.00 0.00 0.00 3.82
36 37 2.499197 AGTCACACAAACACACACACA 58.501 42.857 0.00 0.00 0.00 3.72
37 38 2.225491 AGTCACACAAACACACACACAC 59.775 45.455 0.00 0.00 0.00 3.82
38 39 2.031595 GTCACACAAACACACACACACA 60.032 45.455 0.00 0.00 0.00 3.72
39 40 2.031595 TCACACAAACACACACACACAC 60.032 45.455 0.00 0.00 0.00 3.82
40 41 1.950216 ACACAAACACACACACACACA 59.050 42.857 0.00 0.00 0.00 3.72
41 42 2.287308 ACACAAACACACACACACACAC 60.287 45.455 0.00 0.00 0.00 3.82
42 43 1.950216 ACAAACACACACACACACACA 59.050 42.857 0.00 0.00 0.00 3.72
67 68 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
68 69 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
69 70 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
70 71 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
71 72 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
72 73 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
73 74 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
74 75 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
81 109 1.136000 CACACACACACACACACACAG 60.136 52.381 0.00 0.00 0.00 3.66
83 111 2.009051 CACACACACACACACACAGAT 58.991 47.619 0.00 0.00 0.00 2.90
103 131 7.388776 CACAGATAGTTGAAGAGATGTTTCCAA 59.611 37.037 0.00 0.00 0.00 3.53
420 448 2.741092 GACGACCTGTCCAAGCCA 59.259 61.111 0.00 0.00 42.04 4.75
607 645 0.613260 TAGACAAAGCCTCCACGCAT 59.387 50.000 0.00 0.00 0.00 4.73
709 752 3.129462 CAGAGCGAGTAATGTCTTGGAGA 59.871 47.826 0.00 0.00 0.00 3.71
752 804 2.393271 ACACTGATAGCTGCTTGGTC 57.607 50.000 7.79 4.98 0.00 4.02
775 827 8.384718 GGTCTAGTAGTCCTCATTCTAATAGGA 58.615 40.741 6.23 0.00 36.28 2.94
837 889 7.924947 CAGACAACAAGCTCTGAATCTGATATA 59.075 37.037 10.28 0.00 36.75 0.86
859 911 2.023404 ACCAAGGAAAAGGGGACAACTT 60.023 45.455 0.00 0.00 0.00 2.66
904 956 0.602562 CGGAGGGCATGAAAAAGCAA 59.397 50.000 0.00 0.00 0.00 3.91
1127 1179 2.357075 TGGGAACGTGCGCATAAAATA 58.643 42.857 15.91 0.00 0.00 1.40
1261 1313 0.460987 CATCGGTCTCCAGAACCTGC 60.461 60.000 0.00 0.00 0.00 4.85
1317 1369 4.401925 ACAAGAAGACAAGCTGCCTTAAT 58.598 39.130 0.00 0.00 0.00 1.40
1350 1402 1.425066 ACCATCACCCTTGAAGCAAGA 59.575 47.619 8.64 0.00 43.42 3.02
1476 1528 4.214310 TGACTTCAACCAATGACACCAAT 58.786 39.130 0.00 0.00 37.92 3.16
1491 1543 3.118482 ACACCAATGAAACACATGCCAAA 60.118 39.130 0.00 0.00 39.39 3.28
1748 1800 2.032681 GGCTGCGACTCAGGGTTT 59.967 61.111 0.00 0.00 43.06 3.27
1755 1807 3.941483 CTGCGACTCAGGGTTTTATTGAT 59.059 43.478 0.00 0.00 39.15 2.57
1931 1983 8.459911 AGTTAGCCGTATTAAATAAAGCCATT 57.540 30.769 0.00 0.00 0.00 3.16
1937 1989 6.238897 CCGTATTAAATAAAGCCATTCCAGCA 60.239 38.462 0.00 0.00 0.00 4.41
1952 2004 4.424711 GCATTGGAGTGGCCCGGA 62.425 66.667 0.73 0.00 34.97 5.14
2042 2124 7.004691 GCTCTTATATGTTTCCCTTTACCCAT 58.995 38.462 0.00 0.00 0.00 4.00
2103 2185 4.567537 GCCCCCTCCATTTTGCTTTATTTT 60.568 41.667 0.00 0.00 0.00 1.82
2144 2236 3.724508 GAGCATCTCTAGCAGCTGTTA 57.275 47.619 16.64 13.17 37.48 2.41
2237 2329 1.135527 TGTAAATGTAGACGCCCTCGG 59.864 52.381 0.00 0.00 40.69 4.63
2243 2335 1.276989 TGTAGACGCCCTCGGATTTTT 59.723 47.619 0.00 0.00 40.69 1.94
2333 2425 5.036117 AGAAACTTGTCTTTGCAGGAGTA 57.964 39.130 0.00 0.00 0.00 2.59
2530 2654 6.405278 ACTTGTTTGGGACTAAAGGATTTG 57.595 37.500 0.00 0.00 39.63 2.32
2533 2657 6.155475 TGTTTGGGACTAAAGGATTTGTTG 57.845 37.500 0.00 0.00 39.63 3.33
2551 2685 7.534085 TTTGTTGTTGTTGTTGTTGTTGTTA 57.466 28.000 0.00 0.00 0.00 2.41
2561 2695 7.224753 TGTTGTTGTTGTTGTTATTGTTGTTGT 59.775 29.630 0.00 0.00 0.00 3.32
2593 2760 6.701841 TGTTGTTGTTGTTGTTGTTGTTGTAT 59.298 30.769 0.00 0.00 0.00 2.29
2594 2761 7.865889 TGTTGTTGTTGTTGTTGTTGTTGTATA 59.134 29.630 0.00 0.00 0.00 1.47
2601 2768 6.740110 TGTTGTTGTTGTTGTATAATCACCC 58.260 36.000 0.00 0.00 0.00 4.61
2625 2792 0.324943 ATGTGACCGGCTTTAGCTGT 59.675 50.000 0.00 3.86 45.66 4.40
2648 2815 0.690192 TGGCGGGAGATTTGTTCTGA 59.310 50.000 0.00 0.00 33.74 3.27
2675 2842 3.826157 TGATCGACTGAAATTTGGCCTTT 59.174 39.130 3.32 0.00 0.00 3.11
2698 2865 3.446873 TCTTGAGGTGCATGTGTTTGTTT 59.553 39.130 0.00 0.00 0.00 2.83
2699 2866 4.642437 TCTTGAGGTGCATGTGTTTGTTTA 59.358 37.500 0.00 0.00 0.00 2.01
2700 2867 4.566545 TGAGGTGCATGTGTTTGTTTAG 57.433 40.909 0.00 0.00 0.00 1.85
2701 2868 4.203226 TGAGGTGCATGTGTTTGTTTAGA 58.797 39.130 0.00 0.00 0.00 2.10
2702 2869 4.826733 TGAGGTGCATGTGTTTGTTTAGAT 59.173 37.500 0.00 0.00 0.00 1.98
2703 2870 6.000840 TGAGGTGCATGTGTTTGTTTAGATA 58.999 36.000 0.00 0.00 0.00 1.98
2704 2871 6.658816 TGAGGTGCATGTGTTTGTTTAGATAT 59.341 34.615 0.00 0.00 0.00 1.63
2705 2872 7.176515 TGAGGTGCATGTGTTTGTTTAGATATT 59.823 33.333 0.00 0.00 0.00 1.28
2706 2873 7.895759 AGGTGCATGTGTTTGTTTAGATATTT 58.104 30.769 0.00 0.00 0.00 1.40
2707 2874 8.028938 AGGTGCATGTGTTTGTTTAGATATTTC 58.971 33.333 0.00 0.00 0.00 2.17
2708 2875 7.008266 GGTGCATGTGTTTGTTTAGATATTTCG 59.992 37.037 0.00 0.00 0.00 3.46
2709 2876 7.008266 GTGCATGTGTTTGTTTAGATATTTCGG 59.992 37.037 0.00 0.00 0.00 4.30
2710 2877 7.094592 TGCATGTGTTTGTTTAGATATTTCGGA 60.095 33.333 0.00 0.00 0.00 4.55
2711 2878 7.915397 GCATGTGTTTGTTTAGATATTTCGGAT 59.085 33.333 0.00 0.00 0.00 4.18
2712 2879 9.225201 CATGTGTTTGTTTAGATATTTCGGATG 57.775 33.333 0.00 0.00 0.00 3.51
2713 2880 7.757526 TGTGTTTGTTTAGATATTTCGGATGG 58.242 34.615 0.00 0.00 0.00 3.51
2714 2881 6.691388 GTGTTTGTTTAGATATTTCGGATGGC 59.309 38.462 0.00 0.00 0.00 4.40
2715 2882 6.375736 TGTTTGTTTAGATATTTCGGATGGCA 59.624 34.615 0.00 0.00 0.00 4.92
2716 2883 6.618287 TTGTTTAGATATTTCGGATGGCAG 57.382 37.500 0.00 0.00 0.00 4.85
2717 2884 5.680619 TGTTTAGATATTTCGGATGGCAGT 58.319 37.500 0.00 0.00 0.00 4.40
2718 2885 5.527214 TGTTTAGATATTTCGGATGGCAGTG 59.473 40.000 0.00 0.00 0.00 3.66
2719 2886 2.498167 AGATATTTCGGATGGCAGTGC 58.502 47.619 6.55 6.55 0.00 4.40
2720 2887 2.158769 AGATATTTCGGATGGCAGTGCA 60.159 45.455 18.61 3.40 0.00 4.57
2721 2888 2.346766 TATTTCGGATGGCAGTGCAT 57.653 45.000 18.61 8.59 0.00 3.96
2722 2889 1.027357 ATTTCGGATGGCAGTGCATC 58.973 50.000 18.61 16.51 0.00 3.91
2723 2890 1.368345 TTTCGGATGGCAGTGCATCG 61.368 55.000 18.61 13.92 0.00 3.84
2724 2891 2.202919 CGGATGGCAGTGCATCGA 60.203 61.111 18.61 0.00 0.00 3.59
2725 2892 1.815003 CGGATGGCAGTGCATCGAA 60.815 57.895 18.61 0.00 0.00 3.71
2726 2893 1.162181 CGGATGGCAGTGCATCGAAT 61.162 55.000 18.61 1.81 0.00 3.34
2727 2894 1.027357 GGATGGCAGTGCATCGAATT 58.973 50.000 18.61 0.00 0.00 2.17
2728 2895 1.406539 GGATGGCAGTGCATCGAATTT 59.593 47.619 18.61 0.00 0.00 1.82
2729 2896 2.159198 GGATGGCAGTGCATCGAATTTT 60.159 45.455 18.61 0.00 0.00 1.82
2730 2897 2.350899 TGGCAGTGCATCGAATTTTG 57.649 45.000 18.61 0.00 0.00 2.44
2731 2898 0.994263 GGCAGTGCATCGAATTTTGC 59.006 50.000 18.61 1.74 39.33 3.68
2732 2899 0.994263 GCAGTGCATCGAATTTTGCC 59.006 50.000 11.09 0.00 38.08 4.52
2733 2900 1.669502 GCAGTGCATCGAATTTTGCCA 60.670 47.619 11.09 0.00 38.08 4.92
2734 2901 1.987770 CAGTGCATCGAATTTTGCCAC 59.012 47.619 6.29 5.12 38.08 5.01
2735 2902 1.612950 AGTGCATCGAATTTTGCCACA 59.387 42.857 6.29 0.00 38.08 4.17
2736 2903 2.035704 AGTGCATCGAATTTTGCCACAA 59.964 40.909 6.29 0.00 38.08 3.33
2737 2904 2.155539 GTGCATCGAATTTTGCCACAAC 59.844 45.455 6.29 0.00 38.08 3.32
2738 2905 2.223900 TGCATCGAATTTTGCCACAACA 60.224 40.909 6.29 0.00 38.08 3.33
2739 2906 2.155539 GCATCGAATTTTGCCACAACAC 59.844 45.455 0.00 0.00 32.66 3.32
2740 2907 3.641648 CATCGAATTTTGCCACAACACT 58.358 40.909 0.00 0.00 0.00 3.55
2741 2908 3.077229 TCGAATTTTGCCACAACACTG 57.923 42.857 0.00 0.00 0.00 3.66
2742 2909 2.425312 TCGAATTTTGCCACAACACTGT 59.575 40.909 0.00 0.00 35.63 3.55
2743 2910 3.119316 TCGAATTTTGCCACAACACTGTT 60.119 39.130 0.00 0.00 31.64 3.16
2744 2911 3.616379 CGAATTTTGCCACAACACTGTTT 59.384 39.130 0.00 0.00 31.64 2.83
2745 2912 4.259770 CGAATTTTGCCACAACACTGTTTC 60.260 41.667 0.00 0.00 31.64 2.78
2746 2913 3.667497 TTTTGCCACAACACTGTTTCA 57.333 38.095 0.00 0.00 31.64 2.69
2747 2914 2.937469 TTGCCACAACACTGTTTCAG 57.063 45.000 0.00 0.00 37.52 3.02
2748 2915 2.121291 TGCCACAACACTGTTTCAGA 57.879 45.000 3.70 0.00 35.18 3.27
2749 2916 1.742831 TGCCACAACACTGTTTCAGAC 59.257 47.619 3.70 0.00 35.18 3.51
2750 2917 2.017049 GCCACAACACTGTTTCAGACT 58.983 47.619 3.70 0.00 35.18 3.24
2751 2918 3.202906 GCCACAACACTGTTTCAGACTA 58.797 45.455 3.70 0.00 35.18 2.59
2752 2919 3.625764 GCCACAACACTGTTTCAGACTAA 59.374 43.478 3.70 0.00 35.18 2.24
2753 2920 4.095782 GCCACAACACTGTTTCAGACTAAA 59.904 41.667 3.70 0.00 35.18 1.85
2754 2921 5.221048 GCCACAACACTGTTTCAGACTAAAT 60.221 40.000 3.70 0.00 35.18 1.40
2755 2922 6.680378 GCCACAACACTGTTTCAGACTAAATT 60.680 38.462 3.70 0.00 35.18 1.82
2756 2923 7.257722 CCACAACACTGTTTCAGACTAAATTT 58.742 34.615 3.70 0.00 35.18 1.82
2757 2924 7.220683 CCACAACACTGTTTCAGACTAAATTTG 59.779 37.037 0.00 0.00 35.18 2.32
2758 2925 7.754924 CACAACACTGTTTCAGACTAAATTTGT 59.245 33.333 0.00 0.00 35.18 2.83
2759 2926 7.754924 ACAACACTGTTTCAGACTAAATTTGTG 59.245 33.333 0.00 0.00 35.18 3.33
2760 2927 6.265577 ACACTGTTTCAGACTAAATTTGTGC 58.734 36.000 0.00 0.00 35.18 4.57
2761 2928 6.127758 ACACTGTTTCAGACTAAATTTGTGCA 60.128 34.615 0.00 0.00 35.18 4.57
2762 2929 6.919662 CACTGTTTCAGACTAAATTTGTGCAT 59.080 34.615 0.00 0.00 35.18 3.96
2763 2930 6.919662 ACTGTTTCAGACTAAATTTGTGCATG 59.080 34.615 0.00 0.00 35.18 4.06
2764 2931 6.215121 TGTTTCAGACTAAATTTGTGCATGG 58.785 36.000 0.00 0.00 0.00 3.66
2765 2932 5.389859 TTCAGACTAAATTTGTGCATGGG 57.610 39.130 0.00 0.00 0.00 4.00
2766 2933 4.406456 TCAGACTAAATTTGTGCATGGGT 58.594 39.130 0.00 0.00 0.00 4.51
2767 2934 4.218200 TCAGACTAAATTTGTGCATGGGTG 59.782 41.667 0.00 0.00 0.00 4.61
2768 2935 4.022068 CAGACTAAATTTGTGCATGGGTGT 60.022 41.667 0.00 0.00 0.00 4.16
2769 2936 4.588528 AGACTAAATTTGTGCATGGGTGTT 59.411 37.500 0.00 0.00 0.00 3.32
2770 2937 4.630111 ACTAAATTTGTGCATGGGTGTTG 58.370 39.130 0.00 0.00 0.00 3.33
2771 2938 3.834489 AAATTTGTGCATGGGTGTTGA 57.166 38.095 0.00 0.00 0.00 3.18
2772 2939 2.818130 ATTTGTGCATGGGTGTTGAC 57.182 45.000 0.00 0.00 0.00 3.18
2773 2940 1.774110 TTTGTGCATGGGTGTTGACT 58.226 45.000 0.00 0.00 0.00 3.41
2774 2941 1.774110 TTGTGCATGGGTGTTGACTT 58.226 45.000 0.00 0.00 0.00 3.01
2775 2942 1.774110 TGTGCATGGGTGTTGACTTT 58.226 45.000 0.00 0.00 0.00 2.66
2776 2943 2.106566 TGTGCATGGGTGTTGACTTTT 58.893 42.857 0.00 0.00 0.00 2.27
2777 2944 2.100584 TGTGCATGGGTGTTGACTTTTC 59.899 45.455 0.00 0.00 0.00 2.29
2778 2945 2.362077 GTGCATGGGTGTTGACTTTTCT 59.638 45.455 0.00 0.00 0.00 2.52
2779 2946 3.568007 GTGCATGGGTGTTGACTTTTCTA 59.432 43.478 0.00 0.00 0.00 2.10
2780 2947 4.037446 GTGCATGGGTGTTGACTTTTCTAA 59.963 41.667 0.00 0.00 0.00 2.10
2781 2948 4.646945 TGCATGGGTGTTGACTTTTCTAAA 59.353 37.500 0.00 0.00 0.00 1.85
2782 2949 5.127845 TGCATGGGTGTTGACTTTTCTAAAA 59.872 36.000 0.00 0.00 0.00 1.52
2784 2951 6.460953 GCATGGGTGTTGACTTTTCTAAAAGA 60.461 38.462 19.33 0.00 46.39 2.52
2785 2952 7.488322 CATGGGTGTTGACTTTTCTAAAAGAA 58.512 34.615 19.33 0.00 46.39 2.52
2786 2953 6.859017 TGGGTGTTGACTTTTCTAAAAGAAC 58.141 36.000 19.33 14.38 46.39 3.01
2787 2954 6.434652 TGGGTGTTGACTTTTCTAAAAGAACA 59.565 34.615 19.33 16.27 46.39 3.18
2788 2955 7.123547 TGGGTGTTGACTTTTCTAAAAGAACAT 59.876 33.333 19.33 0.00 46.39 2.71
2789 2956 8.626526 GGGTGTTGACTTTTCTAAAAGAACATA 58.373 33.333 19.33 9.63 46.39 2.29
2818 2985 6.841443 TTTTTCACACATTGCAAATGTAGG 57.159 33.333 16.75 8.26 0.00 3.18
2819 2986 3.574284 TCACACATTGCAAATGTAGGC 57.426 42.857 16.75 0.00 0.00 3.93
2820 2987 2.889678 TCACACATTGCAAATGTAGGCA 59.110 40.909 16.75 0.00 38.46 4.75
2821 2988 2.988493 CACACATTGCAAATGTAGGCAC 59.012 45.455 16.75 0.00 40.23 5.01
2822 2989 2.892852 ACACATTGCAAATGTAGGCACT 59.107 40.909 15.91 0.00 40.23 4.40
2823 2990 3.057315 ACACATTGCAAATGTAGGCACTC 60.057 43.478 15.91 0.00 40.23 3.51
2824 2991 3.057386 CACATTGCAAATGTAGGCACTCA 60.057 43.478 1.71 0.00 40.23 3.41
2825 2992 3.765511 ACATTGCAAATGTAGGCACTCAT 59.234 39.130 1.71 0.00 40.23 2.90
2826 2993 4.949238 ACATTGCAAATGTAGGCACTCATA 59.051 37.500 1.71 0.00 40.23 2.15
2827 2994 5.595542 ACATTGCAAATGTAGGCACTCATAT 59.404 36.000 1.71 0.00 40.23 1.78
2828 2995 6.772233 ACATTGCAAATGTAGGCACTCATATA 59.228 34.615 1.71 0.00 40.23 0.86
2829 2996 7.449395 ACATTGCAAATGTAGGCACTCATATAT 59.551 33.333 1.71 0.00 40.23 0.86
2830 2997 8.949177 CATTGCAAATGTAGGCACTCATATATA 58.051 33.333 1.71 0.00 40.23 0.86
2831 2998 7.905604 TGCAAATGTAGGCACTCATATATAC 57.094 36.000 0.00 0.00 41.75 1.47
2832 2999 6.589907 TGCAAATGTAGGCACTCATATATACG 59.410 38.462 0.00 0.00 41.75 3.06
2833 3000 6.590292 GCAAATGTAGGCACTCATATATACGT 59.410 38.462 0.00 0.00 41.75 3.57
2834 3001 7.758076 GCAAATGTAGGCACTCATATATACGTA 59.242 37.037 0.00 0.00 41.75 3.57
2835 3002 9.073368 CAAATGTAGGCACTCATATATACGTAC 57.927 37.037 0.00 0.00 41.75 3.67
2836 3003 7.933215 ATGTAGGCACTCATATATACGTACA 57.067 36.000 0.00 0.00 41.75 2.90
2837 3004 7.933215 TGTAGGCACTCATATATACGTACAT 57.067 36.000 0.00 0.00 41.75 2.29
2838 3005 9.623000 ATGTAGGCACTCATATATACGTACATA 57.377 33.333 0.00 0.00 41.75 2.29
2839 3006 8.886719 TGTAGGCACTCATATATACGTACATAC 58.113 37.037 0.00 0.00 41.75 2.39
2840 3007 7.933215 AGGCACTCATATATACGTACATACA 57.067 36.000 0.00 0.00 0.00 2.29
2841 3008 7.759465 AGGCACTCATATATACGTACATACAC 58.241 38.462 0.00 0.00 0.00 2.90
2842 3009 7.610692 AGGCACTCATATATACGTACATACACT 59.389 37.037 0.00 0.00 0.00 3.55
2843 3010 7.909121 GGCACTCATATATACGTACATACACTC 59.091 40.741 0.00 0.00 0.00 3.51
2844 3011 7.635202 GCACTCATATATACGTACATACACTCG 59.365 40.741 0.00 0.00 0.00 4.18
2845 3012 8.866956 CACTCATATATACGTACATACACTCGA 58.133 37.037 0.00 0.00 0.00 4.04
2846 3013 8.867935 ACTCATATATACGTACATACACTCGAC 58.132 37.037 0.00 0.00 0.00 4.20
2847 3014 8.189709 TCATATATACGTACATACACTCGACC 57.810 38.462 0.00 0.00 0.00 4.79
2848 3015 7.818930 TCATATATACGTACATACACTCGACCA 59.181 37.037 0.00 0.00 0.00 4.02
2849 3016 8.610035 CATATATACGTACATACACTCGACCAT 58.390 37.037 0.00 0.00 0.00 3.55
2850 3017 9.822185 ATATATACGTACATACACTCGACCATA 57.178 33.333 0.00 0.00 0.00 2.74
2851 3018 8.728337 ATATACGTACATACACTCGACCATAT 57.272 34.615 0.00 0.00 0.00 1.78
2852 3019 5.104562 ACGTACATACACTCGACCATATG 57.895 43.478 0.00 0.00 0.00 1.78
2853 3020 4.818005 ACGTACATACACTCGACCATATGA 59.182 41.667 3.65 0.00 0.00 2.15
2854 3021 5.297527 ACGTACATACACTCGACCATATGAA 59.702 40.000 3.65 0.00 0.00 2.57
2855 3022 5.624081 CGTACATACACTCGACCATATGAAC 59.376 44.000 3.65 0.00 0.00 3.18
2856 3023 4.607955 ACATACACTCGACCATATGAACG 58.392 43.478 3.65 9.48 0.00 3.95
2857 3024 1.922570 ACACTCGACCATATGAACGC 58.077 50.000 3.65 0.00 0.00 4.84
2858 3025 1.203758 ACACTCGACCATATGAACGCA 59.796 47.619 3.65 0.26 0.00 5.24
2859 3026 1.588404 CACTCGACCATATGAACGCAC 59.412 52.381 3.65 0.00 0.00 5.34
2860 3027 1.476891 ACTCGACCATATGAACGCACT 59.523 47.619 3.65 0.00 0.00 4.40
2861 3028 2.120232 CTCGACCATATGAACGCACTC 58.880 52.381 3.65 0.00 0.00 3.51
2862 3029 1.474879 TCGACCATATGAACGCACTCA 59.525 47.619 3.65 0.00 0.00 3.41
2863 3030 1.588404 CGACCATATGAACGCACTCAC 59.412 52.381 3.65 0.00 0.00 3.51
2864 3031 2.616960 GACCATATGAACGCACTCACA 58.383 47.619 3.65 0.00 0.00 3.58
2865 3032 2.346803 ACCATATGAACGCACTCACAC 58.653 47.619 3.65 0.00 0.00 3.82
2866 3033 1.665679 CCATATGAACGCACTCACACC 59.334 52.381 3.65 0.00 0.00 4.16
2867 3034 1.665679 CATATGAACGCACTCACACCC 59.334 52.381 0.00 0.00 0.00 4.61
2868 3035 0.973632 TATGAACGCACTCACACCCT 59.026 50.000 0.00 0.00 0.00 4.34
2869 3036 0.973632 ATGAACGCACTCACACCCTA 59.026 50.000 0.00 0.00 0.00 3.53
2870 3037 0.032952 TGAACGCACTCACACCCTAC 59.967 55.000 0.00 0.00 0.00 3.18
2871 3038 0.669625 GAACGCACTCACACCCTACC 60.670 60.000 0.00 0.00 0.00 3.18
2872 3039 2.108278 AACGCACTCACACCCTACCC 62.108 60.000 0.00 0.00 0.00 3.69
2873 3040 2.669240 GCACTCACACCCTACCCC 59.331 66.667 0.00 0.00 0.00 4.95
2874 3041 1.918800 GCACTCACACCCTACCCCT 60.919 63.158 0.00 0.00 0.00 4.79
2875 3042 1.983224 CACTCACACCCTACCCCTG 59.017 63.158 0.00 0.00 0.00 4.45
2876 3043 0.836400 CACTCACACCCTACCCCTGT 60.836 60.000 0.00 0.00 0.00 4.00
2877 3044 0.836400 ACTCACACCCTACCCCTGTG 60.836 60.000 0.00 0.00 37.27 3.66
2878 3045 0.544357 CTCACACCCTACCCCTGTGA 60.544 60.000 0.00 0.00 41.54 3.58
2879 3046 0.544357 TCACACCCTACCCCTGTGAG 60.544 60.000 0.00 0.00 39.47 3.51
2880 3047 1.918800 ACACCCTACCCCTGTGAGC 60.919 63.158 0.00 0.00 34.18 4.26
2881 3048 1.918293 CACCCTACCCCTGTGAGCA 60.918 63.158 0.00 0.00 31.66 4.26
2882 3049 1.918800 ACCCTACCCCTGTGAGCAC 60.919 63.158 0.00 0.00 0.00 4.40
2883 3050 2.670148 CCCTACCCCTGTGAGCACC 61.670 68.421 0.00 0.00 0.00 5.01
2884 3051 1.613630 CCTACCCCTGTGAGCACCT 60.614 63.158 0.00 0.00 0.00 4.00
2885 3052 1.201429 CCTACCCCTGTGAGCACCTT 61.201 60.000 0.00 0.00 0.00 3.50
2886 3053 0.250513 CTACCCCTGTGAGCACCTTC 59.749 60.000 0.00 0.00 0.00 3.46
2887 3054 0.472925 TACCCCTGTGAGCACCTTCA 60.473 55.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 6.256975 GTGTGTGTGTTTGTGTGACTATCTAA 59.743 38.462 0.00 0.00 0.00 2.10
19 20 2.287248 TGTGTGTGTGTGTGTTTGTGTG 60.287 45.455 0.00 0.00 0.00 3.82
20 21 1.950216 TGTGTGTGTGTGTGTTTGTGT 59.050 42.857 0.00 0.00 0.00 3.72
21 22 2.287248 TGTGTGTGTGTGTGTGTTTGTG 60.287 45.455 0.00 0.00 0.00 3.33
22 23 1.950216 TGTGTGTGTGTGTGTGTTTGT 59.050 42.857 0.00 0.00 0.00 2.83
23 24 2.287248 TGTGTGTGTGTGTGTGTGTTTG 60.287 45.455 0.00 0.00 0.00 2.93
24 25 1.950216 TGTGTGTGTGTGTGTGTGTTT 59.050 42.857 0.00 0.00 0.00 2.83
25 26 1.265635 GTGTGTGTGTGTGTGTGTGTT 59.734 47.619 0.00 0.00 0.00 3.32
26 27 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
27 28 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
28 29 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
29 30 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
30 31 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
31 32 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
32 33 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
33 34 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
34 35 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
35 36 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
36 37 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
37 38 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
38 39 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
39 40 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
40 41 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
41 42 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
42 43 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
67 68 4.119136 TCAACTATCTGTGTGTGTGTGTG 58.881 43.478 0.00 0.00 0.00 3.82
68 69 4.400529 TCAACTATCTGTGTGTGTGTGT 57.599 40.909 0.00 0.00 0.00 3.72
69 70 5.049828 TCTTCAACTATCTGTGTGTGTGTG 58.950 41.667 0.00 0.00 0.00 3.82
70 71 5.069119 TCTCTTCAACTATCTGTGTGTGTGT 59.931 40.000 0.00 0.00 0.00 3.72
71 72 5.532557 TCTCTTCAACTATCTGTGTGTGTG 58.467 41.667 0.00 0.00 0.00 3.82
72 73 5.791336 TCTCTTCAACTATCTGTGTGTGT 57.209 39.130 0.00 0.00 0.00 3.72
73 74 6.162079 ACATCTCTTCAACTATCTGTGTGTG 58.838 40.000 0.00 0.00 0.00 3.82
74 75 6.352016 ACATCTCTTCAACTATCTGTGTGT 57.648 37.500 0.00 0.00 0.00 3.72
81 109 8.394121 GTCATTGGAAACATCTCTTCAACTATC 58.606 37.037 0.00 0.00 42.32 2.08
83 111 6.368791 CGTCATTGGAAACATCTCTTCAACTA 59.631 38.462 0.00 0.00 42.32 2.24
420 448 1.986698 GCTCAAAAAGCGTGCATGAT 58.013 45.000 10.93 0.00 42.21 2.45
500 530 7.280428 TGGTAAATTGACGTGTAGACAGAAAAA 59.720 33.333 0.00 0.00 0.00 1.94
502 532 6.282167 TGGTAAATTGACGTGTAGACAGAAA 58.718 36.000 0.00 0.00 0.00 2.52
584 622 2.353406 GCGTGGAGGCTTTGTCTAGTAA 60.353 50.000 0.00 0.00 0.00 2.24
589 627 0.613260 TATGCGTGGAGGCTTTGTCT 59.387 50.000 0.00 0.00 0.00 3.41
634 673 9.298774 GTACTGTAACCGATCTTATATTATGGC 57.701 37.037 0.00 0.00 0.00 4.40
737 784 4.537751 ACTACTAGACCAAGCAGCTATCA 58.462 43.478 0.00 0.00 0.00 2.15
752 804 9.184523 CCATCCTATTAGAATGAGGACTACTAG 57.815 40.741 0.00 0.00 42.13 2.57
775 827 1.206132 CCTGCATGCATGTGTTTCCAT 59.794 47.619 26.79 0.00 0.00 3.41
837 889 2.023404 AGTTGTCCCCTTTTCCTTGGTT 60.023 45.455 0.00 0.00 0.00 3.67
859 911 1.476891 CAGACGCAGGTAGGCTTCTTA 59.523 52.381 0.00 0.00 40.01 2.10
904 956 8.675504 GTCATGAAGAGATTTCACTTGATCAAT 58.324 33.333 8.96 0.00 0.00 2.57
1095 1147 4.124238 GCACGTTCCCATTAGCATAGTTA 58.876 43.478 0.00 0.00 0.00 2.24
1127 1179 6.663523 CCTCCAAAACCTATTGAAGTGGTTAT 59.336 38.462 5.31 0.00 42.53 1.89
1261 1313 2.069273 CTTGCAGTACCTGGAGTTTCG 58.931 52.381 0.00 0.00 32.58 3.46
1317 1369 3.493830 GATGGTATCGACGGCGGCA 62.494 63.158 15.54 0.00 38.28 5.69
1350 1402 0.107848 CGGCTTCTTCCACCCGTAAT 60.108 55.000 0.00 0.00 36.18 1.89
1476 1528 2.114616 AGGGTTTTGGCATGTGTTTCA 58.885 42.857 0.00 0.00 0.00 2.69
1491 1543 2.236395 CTCGTATTTCAGGGTCAGGGTT 59.764 50.000 0.00 0.00 0.00 4.11
1702 1754 0.608640 GTCACCTTGGTCATCGGAGT 59.391 55.000 0.00 0.00 0.00 3.85
1748 1800 4.712829 TGTAGGAGAACGGGACATCAATAA 59.287 41.667 0.00 0.00 0.00 1.40
1755 1807 1.202964 TGAGTGTAGGAGAACGGGACA 60.203 52.381 0.00 0.00 0.00 4.02
1857 1909 3.243501 GCTCTTGTGTGGCTTCAAATTGA 60.244 43.478 0.00 0.00 0.00 2.57
1937 1989 0.041090 AAAATCCGGGCCACTCCAAT 59.959 50.000 4.39 0.00 36.21 3.16
1952 2004 4.156556 CCATCGAATCACCACACAGAAAAT 59.843 41.667 0.00 0.00 0.00 1.82
2071 2153 3.419732 AATGGAGGGGGCACAATATTT 57.580 42.857 0.00 0.00 0.00 1.40
2103 2185 7.494211 TGCTCTAAATTAGAATAACTACGCCA 58.506 34.615 4.13 0.00 33.75 5.69
2165 2257 3.513909 TTGGCCATATCCTCATCCAAG 57.486 47.619 6.09 0.00 0.00 3.61
2192 2284 8.472413 CAAAATTGTTTAGATGAGTGGATGGAT 58.528 33.333 0.00 0.00 0.00 3.41
2224 2316 2.019948 AAAAATCCGAGGGCGTCTAC 57.980 50.000 5.58 0.00 35.23 2.59
2243 2335 2.920724 TCGTGGTGGTGATTCAAGAA 57.079 45.000 0.00 0.00 0.00 2.52
2490 2588 8.950210 CCAAACAAGTTATGATGTTCTAGTGAT 58.050 33.333 0.00 0.00 38.75 3.06
2495 2619 7.458397 AGTCCCAAACAAGTTATGATGTTCTA 58.542 34.615 0.00 0.00 38.75 2.10
2503 2627 7.703058 ATCCTTTAGTCCCAAACAAGTTATG 57.297 36.000 0.00 0.00 0.00 1.90
2505 2629 7.562088 ACAAATCCTTTAGTCCCAAACAAGTTA 59.438 33.333 0.00 0.00 0.00 2.24
2530 2654 7.568433 ACAATAACAACAACAACAACAACAAC 58.432 30.769 0.00 0.00 0.00 3.32
2533 2657 7.568433 ACAACAATAACAACAACAACAACAAC 58.432 30.769 0.00 0.00 0.00 3.32
2551 2685 6.037610 ACAACAACAACAACAACAACAACAAT 59.962 30.769 0.00 0.00 0.00 2.71
2561 2695 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
2593 2760 2.675603 CGGTCACATGTTCGGGTGATTA 60.676 50.000 0.00 0.00 44.94 1.75
2594 2761 1.821216 GGTCACATGTTCGGGTGATT 58.179 50.000 0.00 0.00 44.94 2.57
2601 2768 1.393539 CTAAAGCCGGTCACATGTTCG 59.606 52.381 1.90 0.45 0.00 3.95
2625 2792 1.611491 GAACAAATCTCCCGCCAACAA 59.389 47.619 0.00 0.00 0.00 2.83
2648 2815 5.163513 GCCAAATTTCAGTCGATCAACAAT 58.836 37.500 0.00 0.00 0.00 2.71
2675 2842 3.023119 ACAAACACATGCACCTCAAGAA 58.977 40.909 0.00 0.00 0.00 2.52
2698 2865 3.070878 TGCACTGCCATCCGAAATATCTA 59.929 43.478 0.00 0.00 0.00 1.98
2699 2866 2.158769 TGCACTGCCATCCGAAATATCT 60.159 45.455 0.00 0.00 0.00 1.98
2700 2867 2.221169 TGCACTGCCATCCGAAATATC 58.779 47.619 0.00 0.00 0.00 1.63
2701 2868 2.346766 TGCACTGCCATCCGAAATAT 57.653 45.000 0.00 0.00 0.00 1.28
2702 2869 2.221169 GATGCACTGCCATCCGAAATA 58.779 47.619 0.00 0.00 36.46 1.40
2703 2870 1.027357 GATGCACTGCCATCCGAAAT 58.973 50.000 0.00 0.00 36.46 2.17
2704 2871 1.368345 CGATGCACTGCCATCCGAAA 61.368 55.000 0.00 0.00 38.68 3.46
2705 2872 1.815003 CGATGCACTGCCATCCGAA 60.815 57.895 0.00 0.00 38.68 4.30
2706 2873 2.202919 CGATGCACTGCCATCCGA 60.203 61.111 0.00 0.00 38.68 4.55
2707 2874 1.162181 ATTCGATGCACTGCCATCCG 61.162 55.000 0.00 0.00 38.68 4.18
2708 2875 1.027357 AATTCGATGCACTGCCATCC 58.973 50.000 0.00 0.00 38.68 3.51
2709 2876 2.855963 CAAAATTCGATGCACTGCCATC 59.144 45.455 0.00 1.52 38.55 3.51
2710 2877 2.883574 CAAAATTCGATGCACTGCCAT 58.116 42.857 0.00 0.00 0.00 4.40
2711 2878 1.669502 GCAAAATTCGATGCACTGCCA 60.670 47.619 3.89 0.00 42.12 4.92
2712 2879 0.994263 GCAAAATTCGATGCACTGCC 59.006 50.000 3.89 0.00 42.12 4.85
2713 2880 0.994263 GGCAAAATTCGATGCACTGC 59.006 50.000 10.63 5.03 44.32 4.40
2714 2881 1.987770 GTGGCAAAATTCGATGCACTG 59.012 47.619 10.63 0.00 44.32 3.66
2715 2882 1.612950 TGTGGCAAAATTCGATGCACT 59.387 42.857 10.63 0.00 44.32 4.40
2716 2883 2.063156 TGTGGCAAAATTCGATGCAC 57.937 45.000 10.63 7.45 44.32 4.57
2717 2884 2.223900 TGTTGTGGCAAAATTCGATGCA 60.224 40.909 10.63 0.00 44.32 3.96
2718 2885 2.155539 GTGTTGTGGCAAAATTCGATGC 59.844 45.455 0.00 0.00 41.82 3.91
2719 2886 3.426191 CAGTGTTGTGGCAAAATTCGATG 59.574 43.478 0.00 0.00 0.00 3.84
2720 2887 3.068024 ACAGTGTTGTGGCAAAATTCGAT 59.932 39.130 0.00 0.00 35.83 3.59
2721 2888 2.425312 ACAGTGTTGTGGCAAAATTCGA 59.575 40.909 0.00 0.00 35.83 3.71
2722 2889 2.808244 ACAGTGTTGTGGCAAAATTCG 58.192 42.857 0.00 0.00 35.83 3.34
2723 2890 4.629200 TGAAACAGTGTTGTGGCAAAATTC 59.371 37.500 9.79 0.00 37.67 2.17
2724 2891 4.573900 TGAAACAGTGTTGTGGCAAAATT 58.426 34.783 9.79 0.00 37.67 1.82
2725 2892 4.081752 TCTGAAACAGTGTTGTGGCAAAAT 60.082 37.500 9.79 0.00 37.67 1.82
2726 2893 3.256879 TCTGAAACAGTGTTGTGGCAAAA 59.743 39.130 9.79 0.00 37.67 2.44
2727 2894 2.822561 TCTGAAACAGTGTTGTGGCAAA 59.177 40.909 9.79 0.00 37.67 3.68
2728 2895 2.163412 GTCTGAAACAGTGTTGTGGCAA 59.837 45.455 9.79 0.00 37.67 4.52
2729 2896 1.742831 GTCTGAAACAGTGTTGTGGCA 59.257 47.619 9.79 5.26 37.67 4.92
2730 2897 2.017049 AGTCTGAAACAGTGTTGTGGC 58.983 47.619 9.79 4.57 37.67 5.01
2731 2898 5.811399 TTTAGTCTGAAACAGTGTTGTGG 57.189 39.130 9.79 2.86 37.67 4.17
2732 2899 7.754924 ACAAATTTAGTCTGAAACAGTGTTGTG 59.245 33.333 9.79 3.21 37.67 3.33
2733 2900 7.754924 CACAAATTTAGTCTGAAACAGTGTTGT 59.245 33.333 9.79 0.00 39.87 3.32
2734 2901 7.253750 GCACAAATTTAGTCTGAAACAGTGTTG 60.254 37.037 9.79 0.00 32.61 3.33
2735 2902 6.751888 GCACAAATTTAGTCTGAAACAGTGTT 59.248 34.615 1.64 1.64 32.61 3.32
2736 2903 6.127758 TGCACAAATTTAGTCTGAAACAGTGT 60.128 34.615 0.00 0.00 32.61 3.55
2737 2904 6.264832 TGCACAAATTTAGTCTGAAACAGTG 58.735 36.000 0.00 0.00 32.61 3.66
2738 2905 6.449635 TGCACAAATTTAGTCTGAAACAGT 57.550 33.333 0.00 0.00 32.61 3.55
2739 2906 6.364165 CCATGCACAAATTTAGTCTGAAACAG 59.636 38.462 0.00 0.00 0.00 3.16
2740 2907 6.215121 CCATGCACAAATTTAGTCTGAAACA 58.785 36.000 0.00 0.00 0.00 2.83
2741 2908 5.634859 CCCATGCACAAATTTAGTCTGAAAC 59.365 40.000 0.00 0.00 0.00 2.78
2742 2909 5.304101 ACCCATGCACAAATTTAGTCTGAAA 59.696 36.000 0.00 0.00 0.00 2.69
2743 2910 4.832266 ACCCATGCACAAATTTAGTCTGAA 59.168 37.500 0.00 0.00 0.00 3.02
2744 2911 4.218200 CACCCATGCACAAATTTAGTCTGA 59.782 41.667 0.00 0.00 0.00 3.27
2745 2912 4.022068 ACACCCATGCACAAATTTAGTCTG 60.022 41.667 0.00 0.00 0.00 3.51
2746 2913 4.151883 ACACCCATGCACAAATTTAGTCT 58.848 39.130 0.00 0.00 0.00 3.24
2747 2914 4.519540 ACACCCATGCACAAATTTAGTC 57.480 40.909 0.00 0.00 0.00 2.59
2748 2915 4.343526 TCAACACCCATGCACAAATTTAGT 59.656 37.500 0.00 0.00 0.00 2.24
2749 2916 4.685628 GTCAACACCCATGCACAAATTTAG 59.314 41.667 0.00 0.00 0.00 1.85
2750 2917 4.343526 AGTCAACACCCATGCACAAATTTA 59.656 37.500 0.00 0.00 0.00 1.40
2751 2918 3.134442 AGTCAACACCCATGCACAAATTT 59.866 39.130 0.00 0.00 0.00 1.82
2752 2919 2.699846 AGTCAACACCCATGCACAAATT 59.300 40.909 0.00 0.00 0.00 1.82
2753 2920 2.318908 AGTCAACACCCATGCACAAAT 58.681 42.857 0.00 0.00 0.00 2.32
2754 2921 1.774110 AGTCAACACCCATGCACAAA 58.226 45.000 0.00 0.00 0.00 2.83
2755 2922 1.774110 AAGTCAACACCCATGCACAA 58.226 45.000 0.00 0.00 0.00 3.33
2756 2923 1.774110 AAAGTCAACACCCATGCACA 58.226 45.000 0.00 0.00 0.00 4.57
2757 2924 2.362077 AGAAAAGTCAACACCCATGCAC 59.638 45.455 0.00 0.00 0.00 4.57
2758 2925 2.665165 AGAAAAGTCAACACCCATGCA 58.335 42.857 0.00 0.00 0.00 3.96
2759 2926 4.846779 TTAGAAAAGTCAACACCCATGC 57.153 40.909 0.00 0.00 0.00 4.06
2760 2927 7.038154 TCTTTTAGAAAAGTCAACACCCATG 57.962 36.000 13.10 0.00 44.37 3.66
2761 2928 7.123547 TGTTCTTTTAGAAAAGTCAACACCCAT 59.876 33.333 13.10 0.00 44.37 4.00
2762 2929 6.434652 TGTTCTTTTAGAAAAGTCAACACCCA 59.565 34.615 13.10 0.00 44.37 4.51
2763 2930 6.859017 TGTTCTTTTAGAAAAGTCAACACCC 58.141 36.000 13.10 0.00 44.37 4.61
2795 2962 5.236047 GCCTACATTTGCAATGTGTGAAAAA 59.764 36.000 21.57 6.52 38.32 1.94
2796 2963 4.749099 GCCTACATTTGCAATGTGTGAAAA 59.251 37.500 21.57 6.80 39.20 2.29
2797 2964 4.202192 TGCCTACATTTGCAATGTGTGAAA 60.202 37.500 21.57 7.07 33.87 2.69
2798 2965 3.320256 TGCCTACATTTGCAATGTGTGAA 59.680 39.130 21.57 7.62 33.87 3.18
2799 2966 2.889678 TGCCTACATTTGCAATGTGTGA 59.110 40.909 21.57 9.68 33.87 3.58
2800 2967 2.988493 GTGCCTACATTTGCAATGTGTG 59.012 45.455 21.57 12.13 39.57 3.82
2801 2968 2.892852 AGTGCCTACATTTGCAATGTGT 59.107 40.909 18.35 18.35 39.57 3.72
2802 2969 3.057386 TGAGTGCCTACATTTGCAATGTG 60.057 43.478 18.73 14.73 39.57 3.21
2803 2970 3.156293 TGAGTGCCTACATTTGCAATGT 58.844 40.909 15.56 15.56 39.57 2.71
2804 2971 3.853831 TGAGTGCCTACATTTGCAATG 57.146 42.857 0.00 3.61 39.57 2.82
2805 2972 8.950210 GTATATATGAGTGCCTACATTTGCAAT 58.050 33.333 0.00 0.00 39.57 3.56
2806 2973 7.117667 CGTATATATGAGTGCCTACATTTGCAA 59.882 37.037 0.00 0.00 39.57 4.08
2807 2974 6.589907 CGTATATATGAGTGCCTACATTTGCA 59.410 38.462 0.00 0.00 34.54 4.08
2808 2975 6.590292 ACGTATATATGAGTGCCTACATTTGC 59.410 38.462 8.98 0.00 0.00 3.68
2809 2976 9.073368 GTACGTATATATGAGTGCCTACATTTG 57.927 37.037 8.98 0.00 0.00 2.32
2810 2977 8.799367 TGTACGTATATATGAGTGCCTACATTT 58.201 33.333 8.98 0.00 0.00 2.32
2811 2978 8.344446 TGTACGTATATATGAGTGCCTACATT 57.656 34.615 8.98 0.00 0.00 2.71
2812 2979 7.933215 TGTACGTATATATGAGTGCCTACAT 57.067 36.000 8.98 0.00 0.00 2.29
2813 2980 7.933215 ATGTACGTATATATGAGTGCCTACA 57.067 36.000 8.98 6.21 0.00 2.74
2814 2981 8.886719 TGTATGTACGTATATATGAGTGCCTAC 58.113 37.037 14.16 9.50 0.00 3.18
2815 2982 8.886719 GTGTATGTACGTATATATGAGTGCCTA 58.113 37.037 14.16 0.00 0.00 3.93
2816 2983 7.610692 AGTGTATGTACGTATATATGAGTGCCT 59.389 37.037 14.16 2.44 0.00 4.75
2817 2984 7.759465 AGTGTATGTACGTATATATGAGTGCC 58.241 38.462 14.16 2.12 0.00 5.01
2818 2985 7.635202 CGAGTGTATGTACGTATATATGAGTGC 59.365 40.741 14.16 2.73 0.00 4.40
2819 2986 8.866956 TCGAGTGTATGTACGTATATATGAGTG 58.133 37.037 14.16 6.46 0.00 3.51
2820 2987 8.867935 GTCGAGTGTATGTACGTATATATGAGT 58.132 37.037 14.16 7.93 0.00 3.41
2821 2988 8.326713 GGTCGAGTGTATGTACGTATATATGAG 58.673 40.741 14.16 6.25 0.00 2.90
2822 2989 7.818930 TGGTCGAGTGTATGTACGTATATATGA 59.181 37.037 14.16 3.32 0.00 2.15
2823 2990 7.967178 TGGTCGAGTGTATGTACGTATATATG 58.033 38.462 14.16 0.12 0.00 1.78
2824 2991 8.728337 ATGGTCGAGTGTATGTACGTATATAT 57.272 34.615 14.16 5.47 0.00 0.86
2825 2992 9.822185 ATATGGTCGAGTGTATGTACGTATATA 57.178 33.333 7.85 7.85 0.00 0.86
2826 2993 8.610035 CATATGGTCGAGTGTATGTACGTATAT 58.390 37.037 9.87 9.87 0.00 0.86
2827 2994 7.818930 TCATATGGTCGAGTGTATGTACGTATA 59.181 37.037 2.13 0.00 0.00 1.47
2828 2995 6.652062 TCATATGGTCGAGTGTATGTACGTAT 59.348 38.462 2.13 0.00 0.00 3.06
2829 2996 5.990996 TCATATGGTCGAGTGTATGTACGTA 59.009 40.000 2.13 0.00 0.00 3.57
2830 2997 4.818005 TCATATGGTCGAGTGTATGTACGT 59.182 41.667 2.13 0.00 0.00 3.57
2831 2998 5.352643 TCATATGGTCGAGTGTATGTACG 57.647 43.478 2.13 0.00 0.00 3.67
2832 2999 5.624081 CGTTCATATGGTCGAGTGTATGTAC 59.376 44.000 12.61 9.19 0.00 2.90
2833 3000 5.754778 CGTTCATATGGTCGAGTGTATGTA 58.245 41.667 12.61 0.73 0.00 2.29
2834 3001 4.607955 CGTTCATATGGTCGAGTGTATGT 58.392 43.478 12.61 0.00 0.00 2.29
2835 3002 3.425525 GCGTTCATATGGTCGAGTGTATG 59.574 47.826 19.02 0.00 0.00 2.39
2836 3003 3.067601 TGCGTTCATATGGTCGAGTGTAT 59.932 43.478 19.02 0.00 0.00 2.29
2837 3004 2.424246 TGCGTTCATATGGTCGAGTGTA 59.576 45.455 19.02 3.03 0.00 2.90
2838 3005 1.203758 TGCGTTCATATGGTCGAGTGT 59.796 47.619 19.02 0.00 0.00 3.55
2839 3006 1.588404 GTGCGTTCATATGGTCGAGTG 59.412 52.381 19.02 0.10 0.00 3.51
2840 3007 1.476891 AGTGCGTTCATATGGTCGAGT 59.523 47.619 19.02 8.45 0.00 4.18
2841 3008 2.120232 GAGTGCGTTCATATGGTCGAG 58.880 52.381 19.02 3.44 0.00 4.04
2842 3009 1.474879 TGAGTGCGTTCATATGGTCGA 59.525 47.619 19.02 0.00 0.00 4.20
2843 3010 1.588404 GTGAGTGCGTTCATATGGTCG 59.412 52.381 2.13 9.16 0.00 4.79
2844 3011 2.348666 GTGTGAGTGCGTTCATATGGTC 59.651 50.000 2.13 0.00 0.00 4.02
2845 3012 2.346803 GTGTGAGTGCGTTCATATGGT 58.653 47.619 2.13 0.00 0.00 3.55
2846 3013 1.665679 GGTGTGAGTGCGTTCATATGG 59.334 52.381 2.13 0.00 0.00 2.74
2847 3014 1.665679 GGGTGTGAGTGCGTTCATATG 59.334 52.381 0.00 0.00 0.00 1.78
2848 3015 1.555075 AGGGTGTGAGTGCGTTCATAT 59.445 47.619 0.00 0.00 0.00 1.78
2849 3016 0.973632 AGGGTGTGAGTGCGTTCATA 59.026 50.000 0.00 0.00 0.00 2.15
2850 3017 0.973632 TAGGGTGTGAGTGCGTTCAT 59.026 50.000 0.00 0.00 0.00 2.57
2851 3018 0.032952 GTAGGGTGTGAGTGCGTTCA 59.967 55.000 0.00 0.00 0.00 3.18
2852 3019 0.669625 GGTAGGGTGTGAGTGCGTTC 60.670 60.000 0.00 0.00 0.00 3.95
2853 3020 1.370064 GGTAGGGTGTGAGTGCGTT 59.630 57.895 0.00 0.00 0.00 4.84
2854 3021 2.580601 GGGTAGGGTGTGAGTGCGT 61.581 63.158 0.00 0.00 0.00 5.24
2855 3022 2.264794 GGGTAGGGTGTGAGTGCG 59.735 66.667 0.00 0.00 0.00 5.34
2856 3023 1.918800 AGGGGTAGGGTGTGAGTGC 60.919 63.158 0.00 0.00 0.00 4.40
2857 3024 0.836400 ACAGGGGTAGGGTGTGAGTG 60.836 60.000 0.00 0.00 0.00 3.51
2858 3025 0.836400 CACAGGGGTAGGGTGTGAGT 60.836 60.000 0.00 0.00 43.58 3.41
2859 3026 0.544357 TCACAGGGGTAGGGTGTGAG 60.544 60.000 0.32 0.00 44.35 3.51
2860 3027 0.544357 CTCACAGGGGTAGGGTGTGA 60.544 60.000 4.47 4.47 46.43 3.58
2861 3028 1.983224 CTCACAGGGGTAGGGTGTG 59.017 63.158 0.00 0.00 42.48 3.82
2862 3029 1.918800 GCTCACAGGGGTAGGGTGT 60.919 63.158 0.00 0.00 0.00 4.16
2863 3030 1.918293 TGCTCACAGGGGTAGGGTG 60.918 63.158 0.00 0.00 0.00 4.61
2864 3031 1.918800 GTGCTCACAGGGGTAGGGT 60.919 63.158 0.00 0.00 0.00 4.34
2865 3032 2.670148 GGTGCTCACAGGGGTAGGG 61.670 68.421 2.21 0.00 0.00 3.53
2866 3033 1.201429 AAGGTGCTCACAGGGGTAGG 61.201 60.000 2.21 0.00 0.00 3.18
2867 3034 0.250513 GAAGGTGCTCACAGGGGTAG 59.749 60.000 2.21 0.00 0.00 3.18
2868 3035 0.472925 TGAAGGTGCTCACAGGGGTA 60.473 55.000 2.21 0.00 0.00 3.69
2869 3036 1.770110 TGAAGGTGCTCACAGGGGT 60.770 57.895 2.21 0.00 0.00 4.95
2870 3037 3.160585 TGAAGGTGCTCACAGGGG 58.839 61.111 2.21 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.