Multiple sequence alignment - TraesCS2D01G411300

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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 TraesCS2D01G411300 chr2D 100.000 2699 0 0 1 2699 526162075 526164773 0.000000e+00 4985.0
1 TraesCS2D01G411300 chr2D 81.132 159 23 6 2529 2680 373876048 373875890 1.310000e-23 121.0
2 TraesCS2D01G411300 chr2B 93.836 2385 97 15 151 2494 621182070 621179695 0.000000e+00 3544.0
3 TraesCS2D01G411300 chr2B 86.538 52 4 1 2604 2655 16249272 16249320 1.000000e-03 54.7
4 TraesCS2D01G411300 chr2A 92.701 2329 92 28 227 2497 670642957 670640649 0.000000e+00 3288.0
5 TraesCS2D01G411300 chr1A 85.600 125 15 3 2576 2698 261932002 261932125 7.840000e-26 128.0
6 TraesCS2D01G411300 chr4B 85.263 95 9 3 7 99 3761279 3761370 2.860000e-15 93.5
7 TraesCS2D01G411300 chr1D 77.439 164 28 5 2526 2680 332971579 332971742 3.700000e-14 89.8


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 TraesCS2D01G411300 chr2D 526162075 526164773 2698 False 4985 4985 100.000 1 2699 1 chr2D.!!$F1 2698
1 TraesCS2D01G411300 chr2B 621179695 621182070 2375 True 3544 3544 93.836 151 2494 1 chr2B.!!$R1 2343
2 TraesCS2D01G411300 chr2A 670640649 670642957 2308 True 3288 3288 92.701 227 2497 1 chr2A.!!$R1 2270

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
59 60 0.032952 CGGGACCCACCATATACACG 59.967 60.0 12.15 0.0 41.2 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2005 2050 1.524482 GATCTGCCAGTCCCTGTCC 59.476 63.158 0.0 0.0 0.0 4.02 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
17 18 3.680786 CACGACGGCTGGAGGTGA 61.681 66.667 0.00 0.00 0.00 4.02
18 19 2.915659 ACGACGGCTGGAGGTGAA 60.916 61.111 0.00 0.00 0.00 3.18
19 20 2.342279 CGACGGCTGGAGGTGAAA 59.658 61.111 0.00 0.00 0.00 2.69
20 21 1.738099 CGACGGCTGGAGGTGAAAG 60.738 63.158 0.00 0.00 0.00 2.62
21 22 1.671742 GACGGCTGGAGGTGAAAGA 59.328 57.895 0.00 0.00 0.00 2.52
22 23 0.034896 GACGGCTGGAGGTGAAAGAA 59.965 55.000 0.00 0.00 0.00 2.52
23 24 0.472471 ACGGCTGGAGGTGAAAGAAA 59.528 50.000 0.00 0.00 0.00 2.52
24 25 1.133915 ACGGCTGGAGGTGAAAGAAAA 60.134 47.619 0.00 0.00 0.00 2.29
25 26 1.953686 CGGCTGGAGGTGAAAGAAAAA 59.046 47.619 0.00 0.00 0.00 1.94
26 27 2.030805 CGGCTGGAGGTGAAAGAAAAAG 60.031 50.000 0.00 0.00 0.00 2.27
27 28 3.222603 GGCTGGAGGTGAAAGAAAAAGA 58.777 45.455 0.00 0.00 0.00 2.52
28 29 3.254411 GGCTGGAGGTGAAAGAAAAAGAG 59.746 47.826 0.00 0.00 0.00 2.85
29 30 3.254411 GCTGGAGGTGAAAGAAAAAGAGG 59.746 47.826 0.00 0.00 0.00 3.69
30 31 4.718961 CTGGAGGTGAAAGAAAAAGAGGA 58.281 43.478 0.00 0.00 0.00 3.71
31 32 5.124036 TGGAGGTGAAAGAAAAAGAGGAA 57.876 39.130 0.00 0.00 0.00 3.36
32 33 5.705400 TGGAGGTGAAAGAAAAAGAGGAAT 58.295 37.500 0.00 0.00 0.00 3.01
33 34 6.848069 TGGAGGTGAAAGAAAAAGAGGAATA 58.152 36.000 0.00 0.00 0.00 1.75
34 35 6.942576 TGGAGGTGAAAGAAAAAGAGGAATAG 59.057 38.462 0.00 0.00 0.00 1.73
35 36 6.943146 GGAGGTGAAAGAAAAAGAGGAATAGT 59.057 38.462 0.00 0.00 0.00 2.12
36 37 7.119992 GGAGGTGAAAGAAAAAGAGGAATAGTC 59.880 40.741 0.00 0.00 0.00 2.59
37 38 6.651225 AGGTGAAAGAAAAAGAGGAATAGTCG 59.349 38.462 0.00 0.00 0.00 4.18
38 39 6.427242 GGTGAAAGAAAAAGAGGAATAGTCGT 59.573 38.462 0.00 0.00 0.00 4.34
39 40 7.291567 GTGAAAGAAAAAGAGGAATAGTCGTG 58.708 38.462 0.00 0.00 0.00 4.35
40 41 5.864628 AAGAAAAAGAGGAATAGTCGTGC 57.135 39.130 0.00 0.00 0.00 5.34
41 42 3.927142 AGAAAAAGAGGAATAGTCGTGCG 59.073 43.478 0.00 0.00 0.00 5.34
42 43 2.295253 AAAGAGGAATAGTCGTGCGG 57.705 50.000 0.00 0.00 0.00 5.69
43 44 0.460311 AAGAGGAATAGTCGTGCGGG 59.540 55.000 0.00 0.00 0.00 6.13
44 45 0.395311 AGAGGAATAGTCGTGCGGGA 60.395 55.000 0.00 0.00 0.00 5.14
45 46 0.248949 GAGGAATAGTCGTGCGGGAC 60.249 60.000 0.00 0.00 37.19 4.46
46 47 1.227176 GGAATAGTCGTGCGGGACC 60.227 63.158 3.58 0.00 37.66 4.46
47 48 1.227176 GAATAGTCGTGCGGGACCC 60.227 63.158 0.00 0.00 37.66 4.46
48 49 1.952102 GAATAGTCGTGCGGGACCCA 61.952 60.000 12.15 0.00 37.66 4.51
49 50 2.234913 AATAGTCGTGCGGGACCCAC 62.235 60.000 12.15 0.13 37.66 4.61
53 54 3.776781 CGTGCGGGACCCACCATA 61.777 66.667 12.15 0.00 41.20 2.74
54 55 2.915869 GTGCGGGACCCACCATAT 59.084 61.111 12.15 0.00 41.20 1.78
55 56 1.750341 CGTGCGGGACCCACCATATA 61.750 60.000 12.15 0.00 41.20 0.86
56 57 0.250166 GTGCGGGACCCACCATATAC 60.250 60.000 12.15 0.00 41.20 1.47
57 58 0.691413 TGCGGGACCCACCATATACA 60.691 55.000 12.15 0.00 41.20 2.29
58 59 0.250166 GCGGGACCCACCATATACAC 60.250 60.000 12.15 0.00 41.20 2.90
59 60 0.032952 CGGGACCCACCATATACACG 59.967 60.000 12.15 0.00 41.20 4.49
60 61 0.250166 GGGACCCACCATATACACGC 60.250 60.000 5.33 0.00 41.20 5.34
61 62 0.466543 GGACCCACCATATACACGCA 59.533 55.000 0.00 0.00 38.79 5.24
62 63 1.071699 GGACCCACCATATACACGCAT 59.928 52.381 0.00 0.00 38.79 4.73
63 64 2.413837 GACCCACCATATACACGCATC 58.586 52.381 0.00 0.00 0.00 3.91
64 65 2.037251 GACCCACCATATACACGCATCT 59.963 50.000 0.00 0.00 0.00 2.90
65 66 2.037251 ACCCACCATATACACGCATCTC 59.963 50.000 0.00 0.00 0.00 2.75
66 67 2.328473 CCACCATATACACGCATCTCG 58.672 52.381 0.00 0.00 45.38 4.04
67 68 1.721389 CACCATATACACGCATCTCGC 59.279 52.381 0.00 0.00 43.23 5.03
68 69 1.339929 ACCATATACACGCATCTCGCA 59.660 47.619 0.00 0.00 42.60 5.10
69 70 1.721389 CCATATACACGCATCTCGCAC 59.279 52.381 0.00 0.00 42.60 5.34
70 71 1.383412 CATATACACGCATCTCGCACG 59.617 52.381 0.00 0.00 42.60 5.34
71 72 0.317519 TATACACGCATCTCGCACGG 60.318 55.000 0.00 0.00 42.60 4.94
72 73 2.954020 ATACACGCATCTCGCACGGG 62.954 60.000 0.00 0.00 42.60 5.28
73 74 4.794439 CACGCATCTCGCACGGGA 62.794 66.667 0.00 0.00 42.60 5.14
74 75 3.838271 ACGCATCTCGCACGGGAT 61.838 61.111 0.00 0.00 42.60 3.85
77 78 2.280389 CATCTCGCACGGGATGGG 60.280 66.667 22.26 0.68 46.39 4.00
78 79 2.764128 ATCTCGCACGGGATGGGT 60.764 61.111 4.28 0.00 41.93 4.51
79 80 3.094062 ATCTCGCACGGGATGGGTG 62.094 63.158 4.28 0.00 41.93 4.61
80 81 4.082523 CTCGCACGGGATGGGTGT 62.083 66.667 0.00 0.00 41.93 4.16
81 82 3.605749 CTCGCACGGGATGGGTGTT 62.606 63.158 0.00 0.00 41.93 3.32
82 83 2.671619 CGCACGGGATGGGTGTTT 60.672 61.111 0.00 0.00 37.70 2.83
83 84 2.686816 CGCACGGGATGGGTGTTTC 61.687 63.158 0.00 0.00 37.70 2.78
84 85 2.686816 GCACGGGATGGGTGTTTCG 61.687 63.158 0.00 0.00 37.70 3.46
85 86 1.302192 CACGGGATGGGTGTTTCGT 60.302 57.895 0.00 0.00 0.00 3.85
86 87 1.302192 ACGGGATGGGTGTTTCGTG 60.302 57.895 0.00 0.00 0.00 4.35
87 88 2.038269 CGGGATGGGTGTTTCGTGG 61.038 63.158 0.00 0.00 0.00 4.94
88 89 2.340328 GGGATGGGTGTTTCGTGGC 61.340 63.158 0.00 0.00 0.00 5.01
89 90 2.686816 GGATGGGTGTTTCGTGGCG 61.687 63.158 0.00 0.00 0.00 5.69
90 91 3.322706 GATGGGTGTTTCGTGGCGC 62.323 63.158 0.00 0.00 0.00 6.53
93 94 4.659874 GGTGTTTCGTGGCGCGTG 62.660 66.667 20.88 0.00 42.13 5.34
94 95 3.632107 GTGTTTCGTGGCGCGTGA 61.632 61.111 20.88 7.75 42.13 4.35
95 96 3.334751 TGTTTCGTGGCGCGTGAG 61.335 61.111 20.88 0.00 42.13 3.51
117 118 0.544223 AACAAAAAGTTGGGTGGGCC 59.456 50.000 0.00 0.00 39.49 5.80
118 119 0.326143 ACAAAAAGTTGGGTGGGCCT 60.326 50.000 4.53 0.00 39.22 5.19
119 120 0.106521 CAAAAAGTTGGGTGGGCCTG 59.893 55.000 4.53 0.00 34.45 4.85
120 121 1.695114 AAAAAGTTGGGTGGGCCTGC 61.695 55.000 4.53 0.00 34.45 4.85
121 122 4.621087 AAGTTGGGTGGGCCTGCC 62.621 66.667 4.53 7.16 34.45 4.85
133 134 3.698765 CCTGCCGGCTCCAATTTT 58.301 55.556 29.70 0.00 0.00 1.82
134 135 1.974543 CCTGCCGGCTCCAATTTTT 59.025 52.632 29.70 0.00 0.00 1.94
255 259 3.065233 CGCTGCTGTTTATCTGGCATTTA 59.935 43.478 0.00 0.00 34.12 1.40
256 260 4.438608 CGCTGCTGTTTATCTGGCATTTAA 60.439 41.667 0.00 0.00 34.12 1.52
257 261 5.410067 GCTGCTGTTTATCTGGCATTTAAA 58.590 37.500 0.00 0.00 34.12 1.52
259 263 6.368516 GCTGCTGTTTATCTGGCATTTAAAAA 59.631 34.615 0.00 0.00 34.12 1.94
437 441 1.308047 TTCTCTCGCAAGCAAGCAAA 58.692 45.000 1.32 0.00 37.18 3.68
438 442 0.588252 TCTCTCGCAAGCAAGCAAAC 59.412 50.000 1.32 0.00 37.18 2.93
700 709 9.053135 GTTATTATACGCTTCGTAATCTCAGAG 57.947 37.037 3.12 0.00 45.39 3.35
796 821 2.939756 TGTGATTATGTTAATGCCGCGT 59.060 40.909 4.92 0.00 0.00 6.01
847 872 3.525800 ACCTCCATTGTTTAGCCACTT 57.474 42.857 0.00 0.00 0.00 3.16
848 873 3.421844 ACCTCCATTGTTTAGCCACTTC 58.578 45.455 0.00 0.00 0.00 3.01
884 909 4.096382 CGCCACCTCAAATGCTTAAGTATT 59.904 41.667 12.47 12.47 31.67 1.89
1260 1291 3.068691 CGGGAGTTCCTGGAGCGA 61.069 66.667 4.82 0.00 38.76 4.93
1536 1567 2.954753 GCGGTTCAGGCTCAACGTG 61.955 63.158 0.00 0.00 35.42 4.49
1620 1651 2.716017 CCAGGTCGAGAGGTGCCTC 61.716 68.421 10.12 10.12 43.03 4.70
1720 1751 3.636231 CCCTCGCCAACCTGGACA 61.636 66.667 0.00 0.00 40.96 4.02
1816 1847 0.742281 CAAGATCGAGTGCCCAGTGG 60.742 60.000 0.63 0.63 0.00 4.00
1977 2022 4.677779 GCTTATTCGGGCACAATGACAAAT 60.678 41.667 0.00 0.00 0.00 2.32
2005 2050 6.151691 TGCTTTTTAGCAGCTAAACAGAATG 58.848 36.000 32.06 19.11 36.44 2.67
2048 2093 8.879759 TCGAGTGAGAATTGTAACAAAATATCC 58.120 33.333 0.00 0.00 0.00 2.59
2082 2152 5.127356 ACGTAGAATAAAGAGAAGGGGACAG 59.873 44.000 0.00 0.00 0.00 3.51
2229 2302 3.788434 TTCTCTTCGAAAATGTGCGAC 57.212 42.857 0.00 0.00 36.11 5.19
2231 2304 4.168922 TCTCTTCGAAAATGTGCGACTA 57.831 40.909 0.00 0.00 36.11 2.59
2273 2347 1.748493 TCATCGGCCAATAACTTTGCC 59.252 47.619 2.24 0.00 39.30 4.52
2455 2546 0.946221 CTCGTGAGTTGTGACCTGGC 60.946 60.000 0.00 0.00 0.00 4.85
2499 2594 3.406682 GCATTCCAAAAGGCTCGTG 57.593 52.632 0.00 0.00 39.07 4.35
2500 2595 0.109132 GCATTCCAAAAGGCTCGTGG 60.109 55.000 9.59 9.59 39.07 4.94
2501 2596 0.109132 CATTCCAAAAGGCTCGTGGC 60.109 55.000 10.77 2.35 40.90 5.01
2502 2597 0.539438 ATTCCAAAAGGCTCGTGGCA 60.539 50.000 13.78 1.89 44.01 4.92
2503 2598 0.539438 TTCCAAAAGGCTCGTGGCAT 60.539 50.000 13.78 0.00 44.01 4.40
2504 2599 0.960364 TCCAAAAGGCTCGTGGCATC 60.960 55.000 13.78 0.00 44.01 3.91
2505 2600 0.962356 CCAAAAGGCTCGTGGCATCT 60.962 55.000 13.78 0.00 44.01 2.90
2506 2601 0.449388 CAAAAGGCTCGTGGCATCTC 59.551 55.000 13.78 0.00 44.01 2.75
2507 2602 0.678048 AAAAGGCTCGTGGCATCTCC 60.678 55.000 13.78 0.00 44.01 3.71
2508 2603 1.841302 AAAGGCTCGTGGCATCTCCA 61.841 55.000 13.78 0.00 44.18 3.86
2515 2610 3.067985 TGGCATCTCCAAGACGCA 58.932 55.556 0.00 0.00 43.21 5.24
2516 2611 1.374568 TGGCATCTCCAAGACGCAA 59.625 52.632 0.00 0.00 43.21 4.85
2517 2612 0.955428 TGGCATCTCCAAGACGCAAC 60.955 55.000 0.00 0.00 43.21 4.17
2518 2613 0.674895 GGCATCTCCAAGACGCAACT 60.675 55.000 0.00 0.00 34.69 3.16
2519 2614 1.160137 GCATCTCCAAGACGCAACTT 58.840 50.000 0.00 0.00 32.99 2.66
2520 2615 1.537202 GCATCTCCAAGACGCAACTTT 59.463 47.619 0.00 0.00 32.99 2.66
2521 2616 2.030805 GCATCTCCAAGACGCAACTTTT 60.031 45.455 0.00 0.00 32.99 2.27
2522 2617 3.550842 GCATCTCCAAGACGCAACTTTTT 60.551 43.478 0.00 0.00 32.99 1.94
2537 2632 2.857254 TTTTTACCGGCATCCGTCC 58.143 52.632 0.00 0.00 46.80 4.79
2538 2633 1.020333 TTTTTACCGGCATCCGTCCG 61.020 55.000 0.00 0.00 46.80 4.79
2539 2634 2.169937 TTTTACCGGCATCCGTCCGT 62.170 55.000 0.00 0.00 46.80 4.69
2540 2635 2.839043 TTTACCGGCATCCGTCCGTG 62.839 60.000 0.00 0.00 46.80 4.94
2542 2637 4.444838 CCGGCATCCGTCCGTGAA 62.445 66.667 4.47 0.00 46.80 3.18
2543 2638 3.186047 CGGCATCCGTCCGTGAAC 61.186 66.667 0.00 0.00 42.73 3.18
2544 2639 2.047655 GGCATCCGTCCGTGAACA 60.048 61.111 0.00 0.00 0.00 3.18
2545 2640 2.100631 GGCATCCGTCCGTGAACAG 61.101 63.158 0.00 0.00 0.00 3.16
2546 2641 1.080093 GCATCCGTCCGTGAACAGA 60.080 57.895 0.00 0.00 0.00 3.41
2547 2642 1.078759 GCATCCGTCCGTGAACAGAG 61.079 60.000 0.00 0.00 0.00 3.35
2548 2643 0.526211 CATCCGTCCGTGAACAGAGA 59.474 55.000 0.00 0.00 0.00 3.10
2549 2644 1.067846 CATCCGTCCGTGAACAGAGAA 60.068 52.381 0.00 0.00 0.00 2.87
2550 2645 1.254026 TCCGTCCGTGAACAGAGAAT 58.746 50.000 0.00 0.00 0.00 2.40
2551 2646 1.201647 TCCGTCCGTGAACAGAGAATC 59.798 52.381 0.00 0.00 0.00 2.52
2552 2647 1.067846 CCGTCCGTGAACAGAGAATCA 60.068 52.381 0.00 0.00 37.82 2.57
2553 2648 2.254459 CGTCCGTGAACAGAGAATCAG 58.746 52.381 0.00 0.00 37.82 2.90
2554 2649 2.351835 CGTCCGTGAACAGAGAATCAGT 60.352 50.000 0.00 0.00 35.87 3.41
2555 2650 3.246619 GTCCGTGAACAGAGAATCAGTC 58.753 50.000 0.00 0.00 31.77 3.51
2556 2651 2.231478 TCCGTGAACAGAGAATCAGTCC 59.769 50.000 0.00 0.00 31.77 3.85
2557 2652 2.029020 CCGTGAACAGAGAATCAGTCCA 60.029 50.000 0.00 0.00 31.77 4.02
2558 2653 2.989840 CGTGAACAGAGAATCAGTCCAC 59.010 50.000 0.00 0.00 31.77 4.02
2559 2654 3.552890 CGTGAACAGAGAATCAGTCCACA 60.553 47.826 0.00 0.00 31.77 4.17
2560 2655 3.993081 GTGAACAGAGAATCAGTCCACAG 59.007 47.826 0.00 0.00 31.77 3.66
2561 2656 3.897505 TGAACAGAGAATCAGTCCACAGA 59.102 43.478 0.00 0.00 31.77 3.41
2562 2657 3.951775 ACAGAGAATCAGTCCACAGAC 57.048 47.619 0.00 0.00 43.89 3.51
2563 2658 3.234353 ACAGAGAATCAGTCCACAGACA 58.766 45.455 0.00 0.00 46.15 3.41
2564 2659 3.006323 ACAGAGAATCAGTCCACAGACAC 59.994 47.826 0.00 0.00 46.15 3.67
2565 2660 3.006217 CAGAGAATCAGTCCACAGACACA 59.994 47.826 0.00 0.00 46.15 3.72
2566 2661 3.257873 AGAGAATCAGTCCACAGACACAG 59.742 47.826 0.00 0.00 46.15 3.66
2567 2662 3.234353 AGAATCAGTCCACAGACACAGA 58.766 45.455 0.00 0.00 46.15 3.41
2568 2663 3.837146 AGAATCAGTCCACAGACACAGAT 59.163 43.478 0.00 0.00 46.15 2.90
2569 2664 3.606595 ATCAGTCCACAGACACAGATG 57.393 47.619 0.00 0.00 46.15 2.90
2570 2665 1.001293 TCAGTCCACAGACACAGATGC 59.999 52.381 0.00 0.00 46.15 3.91
2571 2666 0.037882 AGTCCACAGACACAGATGCG 60.038 55.000 0.00 0.00 46.15 4.73
2572 2667 1.016130 GTCCACAGACACAGATGCGG 61.016 60.000 0.00 0.00 42.99 5.69
2573 2668 2.393768 CCACAGACACAGATGCGGC 61.394 63.158 0.00 0.00 0.00 6.53
2574 2669 1.375140 CACAGACACAGATGCGGCT 60.375 57.895 0.00 0.00 0.00 5.52
2575 2670 1.375140 ACAGACACAGATGCGGCTG 60.375 57.895 2.14 2.14 41.63 4.85
2576 2671 2.435586 AGACACAGATGCGGCTGC 60.436 61.111 11.65 11.65 39.51 5.25
2577 2672 3.503363 GACACAGATGCGGCTGCC 61.503 66.667 16.57 9.11 41.78 4.85
2578 2673 4.334118 ACACAGATGCGGCTGCCA 62.334 61.111 20.29 3.31 41.78 4.92
2579 2674 2.827190 CACAGATGCGGCTGCCAT 60.827 61.111 20.29 8.65 41.78 4.40
2580 2675 1.524393 CACAGATGCGGCTGCCATA 60.524 57.895 20.29 6.92 41.78 2.74
2581 2676 1.524621 ACAGATGCGGCTGCCATAC 60.525 57.895 20.29 7.95 41.78 2.39
2582 2677 1.524393 CAGATGCGGCTGCCATACA 60.524 57.895 20.29 13.72 41.78 2.29
2583 2678 1.096967 CAGATGCGGCTGCCATACAA 61.097 55.000 20.29 0.00 41.78 2.41
2584 2679 1.097547 AGATGCGGCTGCCATACAAC 61.098 55.000 20.29 11.89 41.78 3.32
2585 2680 2.378945 GATGCGGCTGCCATACAACG 62.379 60.000 20.29 3.56 41.78 4.10
2586 2681 4.536687 GCGGCTGCCATACAACGC 62.537 66.667 20.29 10.42 44.13 4.84
2587 2682 2.819595 CGGCTGCCATACAACGCT 60.820 61.111 20.29 0.00 0.00 5.07
2588 2683 1.520564 CGGCTGCCATACAACGCTA 60.521 57.895 20.29 0.00 0.00 4.26
2589 2684 1.490693 CGGCTGCCATACAACGCTAG 61.491 60.000 20.29 0.00 0.00 3.42
2590 2685 1.643832 GCTGCCATACAACGCTAGC 59.356 57.895 4.06 4.06 0.00 3.42
2591 2686 0.811616 GCTGCCATACAACGCTAGCT 60.812 55.000 13.93 0.00 0.00 3.32
2592 2687 0.933097 CTGCCATACAACGCTAGCTG 59.067 55.000 13.93 7.83 0.00 4.24
2593 2688 1.089481 TGCCATACAACGCTAGCTGC 61.089 55.000 13.93 0.00 38.57 5.25
2594 2689 1.089481 GCCATACAACGCTAGCTGCA 61.089 55.000 13.93 0.00 43.06 4.41
2595 2690 1.586422 CCATACAACGCTAGCTGCAT 58.414 50.000 13.93 0.00 43.06 3.96
2596 2691 2.754472 CCATACAACGCTAGCTGCATA 58.246 47.619 13.93 0.66 43.06 3.14
2597 2692 2.476619 CCATACAACGCTAGCTGCATAC 59.523 50.000 13.93 0.00 43.06 2.39
2598 2693 2.951457 TACAACGCTAGCTGCATACA 57.049 45.000 13.93 0.00 43.06 2.29
2599 2694 2.315925 ACAACGCTAGCTGCATACAT 57.684 45.000 13.93 0.00 43.06 2.29
2600 2695 2.632377 ACAACGCTAGCTGCATACATT 58.368 42.857 13.93 0.00 43.06 2.71
2601 2696 2.352651 ACAACGCTAGCTGCATACATTG 59.647 45.455 13.93 8.11 43.06 2.82
2639 2734 8.687824 ACAAATCGGATGAAATTCATACAAAC 57.312 30.769 17.45 1.55 37.57 2.93
2640 2735 8.303156 ACAAATCGGATGAAATTCATACAAACA 58.697 29.630 17.45 0.00 37.57 2.83
2641 2736 8.586273 CAAATCGGATGAAATTCATACAAACAC 58.414 33.333 17.45 0.20 37.57 3.32
2642 2737 6.809630 TCGGATGAAATTCATACAAACACA 57.190 33.333 17.45 0.00 37.57 3.72
2643 2738 6.841119 TCGGATGAAATTCATACAAACACAG 58.159 36.000 17.45 0.57 37.57 3.66
2644 2739 5.512788 CGGATGAAATTCATACAAACACAGC 59.487 40.000 17.45 0.00 37.57 4.40
2645 2740 5.807011 GGATGAAATTCATACAAACACAGCC 59.193 40.000 13.05 0.89 37.65 4.85
2646 2741 4.793071 TGAAATTCATACAAACACAGCCG 58.207 39.130 0.00 0.00 0.00 5.52
2647 2742 3.848272 AATTCATACAAACACAGCCGG 57.152 42.857 0.00 0.00 0.00 6.13
2648 2743 2.552599 TTCATACAAACACAGCCGGA 57.447 45.000 5.05 0.00 0.00 5.14
2649 2744 2.779755 TCATACAAACACAGCCGGAT 57.220 45.000 5.05 0.00 0.00 4.18
2650 2745 3.066291 TCATACAAACACAGCCGGATT 57.934 42.857 5.05 0.00 0.00 3.01
2651 2746 3.417101 TCATACAAACACAGCCGGATTT 58.583 40.909 5.05 0.00 0.00 2.17
2652 2747 3.438781 TCATACAAACACAGCCGGATTTC 59.561 43.478 5.05 0.00 0.00 2.17
2653 2748 1.686355 ACAAACACAGCCGGATTTCA 58.314 45.000 5.05 0.00 0.00 2.69
2654 2749 2.238521 ACAAACACAGCCGGATTTCAT 58.761 42.857 5.05 0.00 0.00 2.57
2655 2750 3.417101 ACAAACACAGCCGGATTTCATA 58.583 40.909 5.05 0.00 0.00 2.15
2656 2751 3.190535 ACAAACACAGCCGGATTTCATAC 59.809 43.478 5.05 0.00 0.00 2.39
2657 2752 2.779755 ACACAGCCGGATTTCATACA 57.220 45.000 5.05 0.00 0.00 2.29
2658 2753 3.066291 ACACAGCCGGATTTCATACAA 57.934 42.857 5.05 0.00 0.00 2.41
2659 2754 3.417101 ACACAGCCGGATTTCATACAAA 58.583 40.909 5.05 0.00 0.00 2.83
2660 2755 3.190535 ACACAGCCGGATTTCATACAAAC 59.809 43.478 5.05 0.00 0.00 2.93
2661 2756 3.190327 CACAGCCGGATTTCATACAAACA 59.810 43.478 5.05 0.00 0.00 2.83
2662 2757 4.016444 ACAGCCGGATTTCATACAAACAT 58.984 39.130 5.05 0.00 0.00 2.71
2663 2758 4.142403 ACAGCCGGATTTCATACAAACATG 60.142 41.667 5.05 0.00 0.00 3.21
2664 2759 4.096231 CAGCCGGATTTCATACAAACATGA 59.904 41.667 5.05 0.00 33.10 3.07
2665 2760 4.889409 AGCCGGATTTCATACAAACATGAT 59.111 37.500 5.05 0.00 34.95 2.45
2666 2761 6.017192 CAGCCGGATTTCATACAAACATGATA 60.017 38.462 5.05 0.00 34.95 2.15
2667 2762 6.205464 AGCCGGATTTCATACAAACATGATAG 59.795 38.462 5.05 0.00 34.95 2.08
2668 2763 6.204688 GCCGGATTTCATACAAACATGATAGA 59.795 38.462 5.05 0.00 34.95 1.98
2669 2764 7.094634 GCCGGATTTCATACAAACATGATAGAT 60.095 37.037 5.05 0.00 34.95 1.98
2670 2765 8.786898 CCGGATTTCATACAAACATGATAGATT 58.213 33.333 0.00 0.00 34.95 2.40
2693 2788 8.889849 ATTTCATATAAAACCAGACGAAAACG 57.110 30.769 0.00 0.00 0.00 3.60
2694 2789 6.411630 TCATATAAAACCAGACGAAAACGG 57.588 37.500 0.00 0.00 0.00 4.44
2695 2790 5.933463 TCATATAAAACCAGACGAAAACGGT 59.067 36.000 0.00 0.00 0.00 4.83
2696 2791 6.427547 TCATATAAAACCAGACGAAAACGGTT 59.572 34.615 0.00 0.00 43.55 4.44
2697 2792 7.601886 TCATATAAAACCAGACGAAAACGGTTA 59.398 33.333 0.00 0.00 40.84 2.85
2698 2793 6.806388 ATAAAACCAGACGAAAACGGTTAT 57.194 33.333 0.00 0.00 40.84 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.709125 TTTCACCTCCAGCCGTCGTG 62.709 60.000 0.00 0.00 0.00 4.35
1 2 2.436087 CTTTCACCTCCAGCCGTCGT 62.436 60.000 0.00 0.00 0.00 4.34
2 3 1.738099 CTTTCACCTCCAGCCGTCG 60.738 63.158 0.00 0.00 0.00 5.12
3 4 0.034896 TTCTTTCACCTCCAGCCGTC 59.965 55.000 0.00 0.00 0.00 4.79
4 5 0.472471 TTTCTTTCACCTCCAGCCGT 59.528 50.000 0.00 0.00 0.00 5.68
5 6 1.604604 TTTTCTTTCACCTCCAGCCG 58.395 50.000 0.00 0.00 0.00 5.52
6 7 3.222603 TCTTTTTCTTTCACCTCCAGCC 58.777 45.455 0.00 0.00 0.00 4.85
7 8 3.254411 CCTCTTTTTCTTTCACCTCCAGC 59.746 47.826 0.00 0.00 0.00 4.85
8 9 4.718961 TCCTCTTTTTCTTTCACCTCCAG 58.281 43.478 0.00 0.00 0.00 3.86
9 10 4.788925 TCCTCTTTTTCTTTCACCTCCA 57.211 40.909 0.00 0.00 0.00 3.86
10 11 6.943146 ACTATTCCTCTTTTTCTTTCACCTCC 59.057 38.462 0.00 0.00 0.00 4.30
11 12 7.148557 CGACTATTCCTCTTTTTCTTTCACCTC 60.149 40.741 0.00 0.00 0.00 3.85
12 13 6.651225 CGACTATTCCTCTTTTTCTTTCACCT 59.349 38.462 0.00 0.00 0.00 4.00
13 14 6.427242 ACGACTATTCCTCTTTTTCTTTCACC 59.573 38.462 0.00 0.00 0.00 4.02
14 15 7.291567 CACGACTATTCCTCTTTTTCTTTCAC 58.708 38.462 0.00 0.00 0.00 3.18
15 16 6.073222 GCACGACTATTCCTCTTTTTCTTTCA 60.073 38.462 0.00 0.00 0.00 2.69
16 17 6.307915 GCACGACTATTCCTCTTTTTCTTTC 58.692 40.000 0.00 0.00 0.00 2.62
17 18 5.107065 CGCACGACTATTCCTCTTTTTCTTT 60.107 40.000 0.00 0.00 0.00 2.52
18 19 4.389077 CGCACGACTATTCCTCTTTTTCTT 59.611 41.667 0.00 0.00 0.00 2.52
19 20 3.927142 CGCACGACTATTCCTCTTTTTCT 59.073 43.478 0.00 0.00 0.00 2.52
20 21 3.062234 CCGCACGACTATTCCTCTTTTTC 59.938 47.826 0.00 0.00 0.00 2.29
21 22 3.000727 CCGCACGACTATTCCTCTTTTT 58.999 45.455 0.00 0.00 0.00 1.94
22 23 2.618053 CCGCACGACTATTCCTCTTTT 58.382 47.619 0.00 0.00 0.00 2.27
23 24 1.134788 CCCGCACGACTATTCCTCTTT 60.135 52.381 0.00 0.00 0.00 2.52
24 25 0.460311 CCCGCACGACTATTCCTCTT 59.540 55.000 0.00 0.00 0.00 2.85
25 26 0.395311 TCCCGCACGACTATTCCTCT 60.395 55.000 0.00 0.00 0.00 3.69
26 27 0.248949 GTCCCGCACGACTATTCCTC 60.249 60.000 0.00 0.00 0.00 3.71
27 28 1.673808 GGTCCCGCACGACTATTCCT 61.674 60.000 0.00 0.00 33.07 3.36
28 29 1.227176 GGTCCCGCACGACTATTCC 60.227 63.158 0.00 0.00 33.07 3.01
29 30 1.227176 GGGTCCCGCACGACTATTC 60.227 63.158 0.00 0.00 33.07 1.75
30 31 1.985662 TGGGTCCCGCACGACTATT 60.986 57.895 2.65 0.00 33.07 1.73
31 32 2.363276 TGGGTCCCGCACGACTAT 60.363 61.111 2.65 0.00 33.07 2.12
32 33 3.376078 GTGGGTCCCGCACGACTA 61.376 66.667 17.13 0.00 37.54 2.59
36 37 1.750341 TATATGGTGGGTCCCGCACG 61.750 60.000 23.12 0.00 46.12 5.34
37 38 0.250166 GTATATGGTGGGTCCCGCAC 60.250 60.000 23.12 12.64 44.77 5.34
38 39 0.691413 TGTATATGGTGGGTCCCGCA 60.691 55.000 23.12 9.68 35.42 5.69
39 40 0.250166 GTGTATATGGTGGGTCCCGC 60.250 60.000 13.61 13.61 34.77 6.13
40 41 0.032952 CGTGTATATGGTGGGTCCCG 59.967 60.000 2.65 0.00 34.77 5.14
41 42 0.250166 GCGTGTATATGGTGGGTCCC 60.250 60.000 0.00 0.00 34.77 4.46
42 43 0.466543 TGCGTGTATATGGTGGGTCC 59.533 55.000 0.00 0.00 0.00 4.46
43 44 2.037251 AGATGCGTGTATATGGTGGGTC 59.963 50.000 0.00 0.00 0.00 4.46
44 45 2.037251 GAGATGCGTGTATATGGTGGGT 59.963 50.000 0.00 0.00 0.00 4.51
45 46 2.688507 GAGATGCGTGTATATGGTGGG 58.311 52.381 0.00 0.00 0.00 4.61
46 47 2.328473 CGAGATGCGTGTATATGGTGG 58.672 52.381 0.00 0.00 34.64 4.61
47 48 1.721389 GCGAGATGCGTGTATATGGTG 59.279 52.381 0.00 0.00 43.41 4.17
48 49 2.065993 GCGAGATGCGTGTATATGGT 57.934 50.000 0.00 0.00 43.41 3.55
59 60 2.969238 CCATCCCGTGCGAGATGC 60.969 66.667 9.99 0.00 46.70 3.91
60 61 2.280389 CCCATCCCGTGCGAGATG 60.280 66.667 8.75 8.75 39.69 2.90
61 62 2.764128 ACCCATCCCGTGCGAGAT 60.764 61.111 0.00 0.00 0.00 2.75
62 63 3.770040 CACCCATCCCGTGCGAGA 61.770 66.667 0.00 0.00 0.00 4.04
63 64 3.605749 AACACCCATCCCGTGCGAG 62.606 63.158 0.00 0.00 34.45 5.03
64 65 3.185299 AAACACCCATCCCGTGCGA 62.185 57.895 0.00 0.00 34.45 5.10
65 66 2.671619 AAACACCCATCCCGTGCG 60.672 61.111 0.00 0.00 34.45 5.34
66 67 2.686816 CGAAACACCCATCCCGTGC 61.687 63.158 0.00 0.00 34.45 5.34
67 68 1.302192 ACGAAACACCCATCCCGTG 60.302 57.895 0.00 0.00 37.26 4.94
68 69 1.302192 CACGAAACACCCATCCCGT 60.302 57.895 0.00 0.00 0.00 5.28
69 70 2.038269 CCACGAAACACCCATCCCG 61.038 63.158 0.00 0.00 0.00 5.14
70 71 2.340328 GCCACGAAACACCCATCCC 61.340 63.158 0.00 0.00 0.00 3.85
71 72 2.686816 CGCCACGAAACACCCATCC 61.687 63.158 0.00 0.00 0.00 3.51
72 73 2.867472 CGCCACGAAACACCCATC 59.133 61.111 0.00 0.00 0.00 3.51
73 74 3.361977 GCGCCACGAAACACCCAT 61.362 61.111 0.00 0.00 0.00 4.00
87 88 1.539776 CTTTTTGTTGGCTCACGCGC 61.540 55.000 5.73 0.00 36.88 6.86
88 89 0.248458 ACTTTTTGTTGGCTCACGCG 60.248 50.000 3.53 3.53 36.88 6.01
89 90 1.921243 AACTTTTTGTTGGCTCACGC 58.079 45.000 0.00 0.00 37.52 5.34
98 99 0.544223 GGCCCACCCAACTTTTTGTT 59.456 50.000 0.00 0.00 39.92 2.83
99 100 0.326143 AGGCCCACCCAACTTTTTGT 60.326 50.000 0.00 0.00 36.11 2.83
100 101 0.106521 CAGGCCCACCCAACTTTTTG 59.893 55.000 0.00 0.00 36.11 2.44
101 102 1.695114 GCAGGCCCACCCAACTTTTT 61.695 55.000 0.00 0.00 36.11 1.94
102 103 2.140138 GCAGGCCCACCCAACTTTT 61.140 57.895 0.00 0.00 36.11 2.27
103 104 2.524148 GCAGGCCCACCCAACTTT 60.524 61.111 0.00 0.00 36.11 2.66
104 105 4.621087 GGCAGGCCCACCCAACTT 62.621 66.667 0.00 0.00 36.11 2.66
116 117 1.974543 AAAAATTGGAGCCGGCAGG 59.025 52.632 31.54 0.00 41.62 4.85
132 133 6.538381 GCAATTCAGGTTCTCAAAAGGAAAAA 59.462 34.615 0.00 0.00 0.00 1.94
133 134 6.048509 GCAATTCAGGTTCTCAAAAGGAAAA 58.951 36.000 0.00 0.00 0.00 2.29
134 135 5.453198 GGCAATTCAGGTTCTCAAAAGGAAA 60.453 40.000 0.00 0.00 0.00 3.13
135 136 4.039124 GGCAATTCAGGTTCTCAAAAGGAA 59.961 41.667 0.00 0.00 0.00 3.36
136 137 3.573967 GGCAATTCAGGTTCTCAAAAGGA 59.426 43.478 0.00 0.00 0.00 3.36
137 138 3.306294 GGGCAATTCAGGTTCTCAAAAGG 60.306 47.826 0.00 0.00 0.00 3.11
138 139 3.612479 CGGGCAATTCAGGTTCTCAAAAG 60.612 47.826 0.00 0.00 0.00 2.27
139 140 2.295909 CGGGCAATTCAGGTTCTCAAAA 59.704 45.455 0.00 0.00 0.00 2.44
140 141 1.885887 CGGGCAATTCAGGTTCTCAAA 59.114 47.619 0.00 0.00 0.00 2.69
141 142 1.073125 TCGGGCAATTCAGGTTCTCAA 59.927 47.619 0.00 0.00 0.00 3.02
142 143 0.690192 TCGGGCAATTCAGGTTCTCA 59.310 50.000 0.00 0.00 0.00 3.27
143 144 1.740025 CTTCGGGCAATTCAGGTTCTC 59.260 52.381 0.00 0.00 0.00 2.87
144 145 1.351017 TCTTCGGGCAATTCAGGTTCT 59.649 47.619 0.00 0.00 0.00 3.01
145 146 1.468914 GTCTTCGGGCAATTCAGGTTC 59.531 52.381 0.00 0.00 0.00 3.62
146 147 1.534729 GTCTTCGGGCAATTCAGGTT 58.465 50.000 0.00 0.00 0.00 3.50
147 148 0.322546 GGTCTTCGGGCAATTCAGGT 60.323 55.000 0.00 0.00 0.00 4.00
148 149 1.369091 CGGTCTTCGGGCAATTCAGG 61.369 60.000 0.00 0.00 34.75 3.86
149 150 0.391130 TCGGTCTTCGGGCAATTCAG 60.391 55.000 0.00 0.00 39.77 3.02
259 263 5.782893 TCGTCAAACTCCAATCCAATTTT 57.217 34.783 0.00 0.00 0.00 1.82
262 266 5.982890 AATTCGTCAAACTCCAATCCAAT 57.017 34.783 0.00 0.00 0.00 3.16
480 488 1.672854 TTCTGGTATGGGCGTCTCGG 61.673 60.000 0.00 0.00 0.00 4.63
700 709 2.028385 TCTTCGACCTTGGTTTAGAGGC 60.028 50.000 0.00 0.00 36.48 4.70
774 799 3.375610 ACGCGGCATTAACATAATCACAA 59.624 39.130 12.47 0.00 0.00 3.33
865 890 4.096382 CGCCAATACTTAAGCATTTGAGGT 59.904 41.667 1.29 0.00 0.00 3.85
949 974 0.608640 ACGAGGATCTTGGACACACC 59.391 55.000 0.00 0.00 39.54 4.16
1260 1291 3.454573 TGCGCGTACCGGGAGAAT 61.455 61.111 8.43 0.00 42.31 2.40
1536 1567 3.470567 CGGAACACGCTCACGCTC 61.471 66.667 0.00 0.00 45.53 5.03
1720 1751 3.119209 GCGGCTACCTTAGTCTTTAGTGT 60.119 47.826 0.00 0.00 0.00 3.55
1900 1940 2.558359 CCTCGCATTGGTTCTTTTTCCT 59.442 45.455 0.00 0.00 0.00 3.36
1945 1986 4.278669 TGTGCCCGAATAAGCAAAGTAAAA 59.721 37.500 0.00 0.00 41.48 1.52
1960 2005 1.902938 TCATTTGTCATTGTGCCCGA 58.097 45.000 0.00 0.00 0.00 5.14
1977 2022 6.016360 TCTGTTTAGCTGCTAAAAAGCAATCA 60.016 34.615 33.07 23.70 44.88 2.57
2005 2050 1.524482 GATCTGCCAGTCCCTGTCC 59.476 63.158 0.00 0.00 0.00 4.02
2048 2093 9.595823 TTCTCTTTATTCTACGTAAATGGGAAG 57.404 33.333 0.00 6.70 0.00 3.46
2175 2248 2.260434 GAGGCTACGTTCGGCACA 59.740 61.111 12.39 0.00 0.00 4.57
2273 2347 4.035208 GTGCCTACCACCTTTTCATTATCG 59.965 45.833 0.00 0.00 38.55 2.92
2327 2416 2.353610 GGGCTTGATGGGGTTGCTG 61.354 63.158 0.00 0.00 0.00 4.41
2455 2546 2.802792 CAACTGCGCATGGATGGG 59.197 61.111 12.24 0.00 42.88 4.00
2469 2561 1.730547 GGAATGCTGTGTGCGCAAC 60.731 57.895 14.00 13.70 46.63 4.17
2501 2596 3.904136 AAAAGTTGCGTCTTGGAGATG 57.096 42.857 0.00 0.00 34.41 2.90
2527 2622 2.047655 TGTTCACGGACGGATGCC 60.048 61.111 0.00 0.00 0.00 4.40
2528 2623 1.078759 CTCTGTTCACGGACGGATGC 61.079 60.000 0.00 0.00 34.59 3.91
2529 2624 0.526211 TCTCTGTTCACGGACGGATG 59.474 55.000 0.00 0.00 34.59 3.51
2530 2625 1.254026 TTCTCTGTTCACGGACGGAT 58.746 50.000 0.00 0.00 34.59 4.18
2531 2626 1.201647 GATTCTCTGTTCACGGACGGA 59.798 52.381 0.00 0.00 33.98 4.69
2532 2627 1.067846 TGATTCTCTGTTCACGGACGG 60.068 52.381 0.00 0.00 0.00 4.79
2533 2628 2.254459 CTGATTCTCTGTTCACGGACG 58.746 52.381 0.00 0.00 0.00 4.79
2534 2629 3.246619 GACTGATTCTCTGTTCACGGAC 58.753 50.000 0.00 0.00 0.00 4.79
2535 2630 2.231478 GGACTGATTCTCTGTTCACGGA 59.769 50.000 0.00 0.00 0.00 4.69
2536 2631 2.029020 TGGACTGATTCTCTGTTCACGG 60.029 50.000 0.00 0.00 30.21 4.94
2537 2632 2.989840 GTGGACTGATTCTCTGTTCACG 59.010 50.000 9.06 0.00 42.33 4.35
2539 2634 3.897505 TCTGTGGACTGATTCTCTGTTCA 59.102 43.478 0.00 0.00 32.36 3.18
2540 2635 4.241681 GTCTGTGGACTGATTCTCTGTTC 58.758 47.826 0.00 0.00 39.24 3.18
2541 2636 3.643320 TGTCTGTGGACTGATTCTCTGTT 59.357 43.478 0.00 0.00 42.54 3.16
2542 2637 3.006323 GTGTCTGTGGACTGATTCTCTGT 59.994 47.826 0.00 0.00 42.54 3.41
2543 2638 3.006217 TGTGTCTGTGGACTGATTCTCTG 59.994 47.826 0.00 0.00 42.54 3.35
2544 2639 3.234353 TGTGTCTGTGGACTGATTCTCT 58.766 45.455 0.00 0.00 42.54 3.10
2545 2640 3.256879 TCTGTGTCTGTGGACTGATTCTC 59.743 47.826 0.00 0.00 42.54 2.87
2546 2641 3.234353 TCTGTGTCTGTGGACTGATTCT 58.766 45.455 0.00 0.00 42.54 2.40
2547 2642 3.667497 TCTGTGTCTGTGGACTGATTC 57.333 47.619 0.00 0.00 42.54 2.52
2548 2643 3.867600 GCATCTGTGTCTGTGGACTGATT 60.868 47.826 0.00 0.00 42.54 2.57
2549 2644 2.354503 GCATCTGTGTCTGTGGACTGAT 60.355 50.000 0.00 0.00 42.54 2.90
2550 2645 1.001293 GCATCTGTGTCTGTGGACTGA 59.999 52.381 0.00 0.00 42.54 3.41
2551 2646 1.436600 GCATCTGTGTCTGTGGACTG 58.563 55.000 0.00 0.00 42.54 3.51
2552 2647 0.037882 CGCATCTGTGTCTGTGGACT 60.038 55.000 0.00 0.00 42.54 3.85
2553 2648 1.016130 CCGCATCTGTGTCTGTGGAC 61.016 60.000 0.00 0.00 44.15 4.02
2554 2649 1.293179 CCGCATCTGTGTCTGTGGA 59.707 57.895 0.00 0.00 44.15 4.02
2555 2650 2.393768 GCCGCATCTGTGTCTGTGG 61.394 63.158 0.00 0.00 44.21 4.17
2556 2651 1.375140 AGCCGCATCTGTGTCTGTG 60.375 57.895 0.00 0.00 0.00 3.66
2557 2652 1.375140 CAGCCGCATCTGTGTCTGT 60.375 57.895 0.00 0.00 0.00 3.41
2558 2653 2.747822 GCAGCCGCATCTGTGTCTG 61.748 63.158 0.00 0.00 38.36 3.51
2559 2654 2.435586 GCAGCCGCATCTGTGTCT 60.436 61.111 0.00 0.00 38.36 3.41
2560 2655 3.503363 GGCAGCCGCATCTGTGTC 61.503 66.667 0.00 0.00 41.24 3.67
2561 2656 2.256072 TATGGCAGCCGCATCTGTGT 62.256 55.000 7.03 0.00 41.24 3.72
2562 2657 1.524393 TATGGCAGCCGCATCTGTG 60.524 57.895 7.03 0.00 41.24 3.66
2563 2658 1.524621 GTATGGCAGCCGCATCTGT 60.525 57.895 7.03 0.00 41.24 3.41
2564 2659 1.096967 TTGTATGGCAGCCGCATCTG 61.097 55.000 7.03 0.00 41.24 2.90
2565 2660 1.097547 GTTGTATGGCAGCCGCATCT 61.098 55.000 7.03 0.00 41.24 2.90
2566 2661 1.356624 GTTGTATGGCAGCCGCATC 59.643 57.895 7.03 1.63 41.24 3.91
2567 2662 2.472059 CGTTGTATGGCAGCCGCAT 61.472 57.895 7.03 0.00 41.24 4.73
2568 2663 3.124270 CGTTGTATGGCAGCCGCA 61.124 61.111 7.03 2.78 41.24 5.69
2569 2664 4.536687 GCGTTGTATGGCAGCCGC 62.537 66.667 7.03 0.00 40.27 6.53
2570 2665 1.490693 CTAGCGTTGTATGGCAGCCG 61.491 60.000 7.03 0.00 0.00 5.52
2571 2666 1.776034 GCTAGCGTTGTATGGCAGCC 61.776 60.000 3.66 3.66 31.58 4.85
2572 2667 0.811616 AGCTAGCGTTGTATGGCAGC 60.812 55.000 9.55 0.00 35.20 5.25
2573 2668 0.933097 CAGCTAGCGTTGTATGGCAG 59.067 55.000 9.55 0.00 0.00 4.85
2574 2669 1.089481 GCAGCTAGCGTTGTATGGCA 61.089 55.000 9.55 0.00 0.00 4.92
2575 2670 1.643832 GCAGCTAGCGTTGTATGGC 59.356 57.895 9.55 0.86 0.00 4.40
2613 2708 9.139174 GTTTGTATGAATTTCATCCGATTTGTT 57.861 29.630 14.99 0.00 38.26 2.83
2614 2709 8.303156 TGTTTGTATGAATTTCATCCGATTTGT 58.697 29.630 14.99 0.00 38.26 2.83
2615 2710 8.586273 GTGTTTGTATGAATTTCATCCGATTTG 58.414 33.333 14.99 0.00 38.26 2.32
2616 2711 8.303156 TGTGTTTGTATGAATTTCATCCGATTT 58.697 29.630 14.99 0.00 38.26 2.17
2617 2712 7.825681 TGTGTTTGTATGAATTTCATCCGATT 58.174 30.769 14.99 0.00 38.26 3.34
2618 2713 7.389803 TGTGTTTGTATGAATTTCATCCGAT 57.610 32.000 14.99 0.00 38.26 4.18
2619 2714 6.622679 GCTGTGTTTGTATGAATTTCATCCGA 60.623 38.462 14.99 1.57 38.26 4.55
2620 2715 5.512788 GCTGTGTTTGTATGAATTTCATCCG 59.487 40.000 14.99 0.00 38.26 4.18
2621 2716 5.807011 GGCTGTGTTTGTATGAATTTCATCC 59.193 40.000 14.99 5.13 38.26 3.51
2622 2717 5.512788 CGGCTGTGTTTGTATGAATTTCATC 59.487 40.000 14.99 8.16 38.26 2.92
2623 2718 5.401550 CGGCTGTGTTTGTATGAATTTCAT 58.598 37.500 15.78 15.78 40.72 2.57
2624 2719 4.320861 CCGGCTGTGTTTGTATGAATTTCA 60.321 41.667 0.75 0.75 0.00 2.69
2625 2720 4.083003 TCCGGCTGTGTTTGTATGAATTTC 60.083 41.667 0.00 0.00 0.00 2.17
2626 2721 3.823873 TCCGGCTGTGTTTGTATGAATTT 59.176 39.130 0.00 0.00 0.00 1.82
2627 2722 3.417101 TCCGGCTGTGTTTGTATGAATT 58.583 40.909 0.00 0.00 0.00 2.17
2628 2723 3.066291 TCCGGCTGTGTTTGTATGAAT 57.934 42.857 0.00 0.00 0.00 2.57
2629 2724 2.552599 TCCGGCTGTGTTTGTATGAA 57.447 45.000 0.00 0.00 0.00 2.57
2630 2725 2.779755 ATCCGGCTGTGTTTGTATGA 57.220 45.000 0.00 0.00 0.00 2.15
2631 2726 3.190327 TGAAATCCGGCTGTGTTTGTATG 59.810 43.478 0.00 0.00 0.00 2.39
2632 2727 3.417101 TGAAATCCGGCTGTGTTTGTAT 58.583 40.909 0.00 0.00 0.00 2.29
2633 2728 2.852449 TGAAATCCGGCTGTGTTTGTA 58.148 42.857 0.00 0.00 0.00 2.41
2634 2729 1.686355 TGAAATCCGGCTGTGTTTGT 58.314 45.000 0.00 0.00 0.00 2.83
2635 2730 3.190327 TGTATGAAATCCGGCTGTGTTTG 59.810 43.478 0.00 0.00 0.00 2.93
2636 2731 3.417101 TGTATGAAATCCGGCTGTGTTT 58.583 40.909 0.00 0.00 0.00 2.83
2637 2732 3.066291 TGTATGAAATCCGGCTGTGTT 57.934 42.857 0.00 0.00 0.00 3.32
2638 2733 2.779755 TGTATGAAATCCGGCTGTGT 57.220 45.000 0.00 0.00 0.00 3.72
2639 2734 3.190327 TGTTTGTATGAAATCCGGCTGTG 59.810 43.478 0.00 0.00 0.00 3.66
2640 2735 3.417101 TGTTTGTATGAAATCCGGCTGT 58.583 40.909 0.00 0.00 0.00 4.40
2641 2736 4.096231 TCATGTTTGTATGAAATCCGGCTG 59.904 41.667 0.00 0.00 34.32 4.85
2642 2737 4.269183 TCATGTTTGTATGAAATCCGGCT 58.731 39.130 0.00 0.00 34.32 5.52
2643 2738 4.630894 TCATGTTTGTATGAAATCCGGC 57.369 40.909 0.00 0.00 34.32 6.13
2644 2739 7.728847 TCTATCATGTTTGTATGAAATCCGG 57.271 36.000 0.00 0.00 40.21 5.14
2667 2762 8.995906 CGTTTTCGTCTGGTTTTATATGAAATC 58.004 33.333 0.00 0.00 38.65 2.17
2668 2763 7.966204 CCGTTTTCGTCTGGTTTTATATGAAAT 59.034 33.333 0.00 0.00 42.35 2.17
2669 2764 7.041235 ACCGTTTTCGTCTGGTTTTATATGAAA 60.041 33.333 0.00 0.00 42.35 2.69
2670 2765 6.427547 ACCGTTTTCGTCTGGTTTTATATGAA 59.572 34.615 0.00 0.00 42.35 2.57
2671 2766 5.933463 ACCGTTTTCGTCTGGTTTTATATGA 59.067 36.000 0.00 0.00 42.35 2.15
2672 2767 6.173191 ACCGTTTTCGTCTGGTTTTATATG 57.827 37.500 0.00 0.00 42.35 1.78
2673 2768 6.806388 AACCGTTTTCGTCTGGTTTTATAT 57.194 33.333 0.00 0.00 41.80 0.86
2674 2769 7.903995 ATAACCGTTTTCGTCTGGTTTTATA 57.096 32.000 0.32 0.00 41.80 0.98
2675 2770 6.806388 ATAACCGTTTTCGTCTGGTTTTAT 57.194 33.333 0.32 0.00 41.80 1.40


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

AutoCloner maintained by Alex Coulton.