Multiple sequence alignment - TraesCS7A01G166700

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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 TraesCS7A01G166700 chr7A 100.000 2636 0 0 900 3535 122163860 122166495 0.000000e+00 4868
1 TraesCS7A01G166700 chr7A 100.000 561 0 0 1 561 122162961 122163521 0.000000e+00 1037
2 TraesCS7A01G166700 chr7B 88.613 1853 119 37 900 2697 78227308 78229123 0.000000e+00 2169
3 TraesCS7A01G166700 chr7B 85.246 1891 156 56 900 2721 78321131 78322967 0.000000e+00 1832
4 TraesCS7A01G166700 chr7B 90.984 244 17 2 318 561 78227010 78227248 1.220000e-84 324
5 TraesCS7A01G166700 chr7D 88.545 1196 80 28 1555 2718 117749676 117750846 0.000000e+00 1397
6 TraesCS7A01G166700 chr7D 85.582 756 82 9 2801 3534 117751625 117752375 0.000000e+00 767
7 TraesCS7A01G166700 chr7D 88.926 605 52 8 900 1496 117749068 117749665 0.000000e+00 732
8 TraesCS7A01G166700 chr7D 83.974 780 82 16 2779 3535 414493791 414494550 0.000000e+00 708
9 TraesCS7A01G166700 chr7D 94.301 193 11 0 369 561 117748823 117749015 2.670000e-76 296
10 TraesCS7A01G166700 chr7D 95.513 156 6 1 164 318 117748397 117748552 7.580000e-62 248
11 TraesCS7A01G166700 chr6A 85.696 783 85 10 2777 3535 115035302 115036081 0.000000e+00 800
12 TraesCS7A01G166700 chr5D 85.733 778 88 8 2779 3535 497817420 497818195 0.000000e+00 800
13 TraesCS7A01G166700 chr5D 85.256 780 89 9 2779 3534 458000906 458001683 0.000000e+00 780
14 TraesCS7A01G166700 chr5D 83.762 622 75 9 2779 3378 456615168 456615785 1.840000e-157 566
15 TraesCS7A01G166700 chr6D 85.752 765 98 8 2779 3535 262299925 262300686 0.000000e+00 798
16 TraesCS7A01G166700 chr6D 85.733 771 84 8 2788 3535 93632723 93631956 0.000000e+00 791
17 TraesCS7A01G166700 chr2D 85.385 780 85 10 2779 3535 587269404 587270177 0.000000e+00 782
18 TraesCS7A01G166700 chr2D 85.233 772 84 12 2790 3535 69500377 69499610 0.000000e+00 767
19 TraesCS7A01G166700 chr2D 84.891 781 91 10 2779 3535 218350269 218349492 0.000000e+00 763
20 TraesCS7A01G166700 chr2D 84.785 769 91 14 2790 3535 423335432 423334667 0.000000e+00 749
21 TraesCS7A01G166700 chr2D 88.347 369 37 4 2777 3141 373983390 373983756 4.190000e-119 438
22 TraesCS7A01G166700 chr2A 85.204 784 79 17 2779 3535 57542795 57543568 0.000000e+00 771
23 TraesCS7A01G166700 chr1D 85.344 771 81 10 2788 3535 277993794 277994555 0.000000e+00 769
24 TraesCS7A01G166700 chr5A 84.744 780 92 10 2780 3535 63382357 63383133 0.000000e+00 756
25 TraesCS7A01G166700 chr3B 88.660 388 42 2 3149 3535 646749683 646749297 4.130000e-129 472


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 TraesCS7A01G166700 chr7A 122162961 122166495 3534 False 2952.5 4868 100.0000 1 3535 2 chr7A.!!$F1 3534
1 TraesCS7A01G166700 chr7B 78321131 78322967 1836 False 1832.0 1832 85.2460 900 2721 1 chr7B.!!$F1 1821
2 TraesCS7A01G166700 chr7B 78227010 78229123 2113 False 1246.5 2169 89.7985 318 2697 2 chr7B.!!$F2 2379
3 TraesCS7A01G166700 chr7D 414493791 414494550 759 False 708.0 708 83.9740 2779 3535 1 chr7D.!!$F1 756
4 TraesCS7A01G166700 chr7D 117748397 117752375 3978 False 688.0 1397 90.5734 164 3534 5 chr7D.!!$F2 3370
5 TraesCS7A01G166700 chr6A 115035302 115036081 779 False 800.0 800 85.6960 2777 3535 1 chr6A.!!$F1 758
6 TraesCS7A01G166700 chr5D 497817420 497818195 775 False 800.0 800 85.7330 2779 3535 1 chr5D.!!$F3 756
7 TraesCS7A01G166700 chr5D 458000906 458001683 777 False 780.0 780 85.2560 2779 3534 1 chr5D.!!$F2 755
8 TraesCS7A01G166700 chr5D 456615168 456615785 617 False 566.0 566 83.7620 2779 3378 1 chr5D.!!$F1 599
9 TraesCS7A01G166700 chr6D 262299925 262300686 761 False 798.0 798 85.7520 2779 3535 1 chr6D.!!$F1 756
10 TraesCS7A01G166700 chr6D 93631956 93632723 767 True 791.0 791 85.7330 2788 3535 1 chr6D.!!$R1 747
11 TraesCS7A01G166700 chr2D 587269404 587270177 773 False 782.0 782 85.3850 2779 3535 1 chr2D.!!$F2 756
12 TraesCS7A01G166700 chr2D 69499610 69500377 767 True 767.0 767 85.2330 2790 3535 1 chr2D.!!$R1 745
13 TraesCS7A01G166700 chr2D 218349492 218350269 777 True 763.0 763 84.8910 2779 3535 1 chr2D.!!$R2 756
14 TraesCS7A01G166700 chr2D 423334667 423335432 765 True 749.0 749 84.7850 2790 3535 1 chr2D.!!$R3 745
15 TraesCS7A01G166700 chr2A 57542795 57543568 773 False 771.0 771 85.2040 2779 3535 1 chr2A.!!$F1 756
16 TraesCS7A01G166700 chr1D 277993794 277994555 761 False 769.0 769 85.3440 2788 3535 1 chr1D.!!$F1 747
17 TraesCS7A01G166700 chr5A 63382357 63383133 776 False 756.0 756 84.7440 2780 3535 1 chr5A.!!$F1 755


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
141 142 0.026803 GCGAGCGCTAAAATCAGTGG 59.973 55.0 11.50 0.0 38.26 4.00 F
144 145 0.035056 AGCGCTAAAATCAGTGGGCT 60.035 50.0 8.99 0.0 42.45 5.19 F
158 159 0.038166 TGGGCTGAATCGAAGGCTTT 59.962 50.0 0.00 0.0 39.99 3.51 F
432 653 0.165511 GCTTGCTCGTTTCAGCTCTG 59.834 55.0 0.00 0.0 40.39 3.35 F
972 1196 0.504384 CTGACGACGTTGTTCTGCTG 59.496 55.0 10.42 0.0 0.00 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1466 1699 0.106819 ATGAGGCTCCAGTGCATTCC 60.107 55.000 12.86 0.0 34.04 3.01 R
2082 2395 0.232303 GTCGCCACGAACAACTGAAG 59.768 55.000 0.00 0.0 37.72 3.02 R
2146 2459 2.677875 GGCTTGAGTTGCCCCAGG 60.678 66.667 0.00 0.0 44.32 4.45 R
2398 2711 1.068895 CCAAGCACAAATTCCACTGCA 59.931 47.619 0.00 0.0 31.71 4.41 R
2666 2994 0.179129 CCGGAATCTTTGCATGCCAC 60.179 55.000 16.68 0.0 0.00 5.01 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 2.661866 ACCACTCGCGTGACAAGC 60.662 61.111 16.04 2.97 43.97 4.01
18 19 3.414700 CCACTCGCGTGACAAGCC 61.415 66.667 16.04 0.00 43.97 4.35
19 20 2.661537 CACTCGCGTGACAAGCCA 60.662 61.111 16.04 0.00 43.97 4.75
20 21 2.356313 ACTCGCGTGACAAGCCAG 60.356 61.111 16.04 7.10 0.00 4.85
21 22 2.049156 CTCGCGTGACAAGCCAGA 60.049 61.111 5.77 0.00 0.00 3.86
22 23 2.355837 TCGCGTGACAAGCCAGAC 60.356 61.111 5.77 0.00 0.00 3.51
23 24 2.661537 CGCGTGACAAGCCAGACA 60.662 61.111 7.82 0.00 0.00 3.41
24 25 2.661566 CGCGTGACAAGCCAGACAG 61.662 63.158 7.82 0.00 0.00 3.51
25 26 1.300931 GCGTGACAAGCCAGACAGA 60.301 57.895 1.44 0.00 0.00 3.41
26 27 1.560860 GCGTGACAAGCCAGACAGAC 61.561 60.000 1.44 0.00 0.00 3.51
27 28 0.946221 CGTGACAAGCCAGACAGACC 60.946 60.000 0.00 0.00 0.00 3.85
28 29 0.394565 GTGACAAGCCAGACAGACCT 59.605 55.000 0.00 0.00 0.00 3.85
29 30 0.681733 TGACAAGCCAGACAGACCTC 59.318 55.000 0.00 0.00 0.00 3.85
30 31 0.681733 GACAAGCCAGACAGACCTCA 59.318 55.000 0.00 0.00 0.00 3.86
31 32 0.394565 ACAAGCCAGACAGACCTCAC 59.605 55.000 0.00 0.00 0.00 3.51
32 33 0.668706 CAAGCCAGACAGACCTCACG 60.669 60.000 0.00 0.00 0.00 4.35
33 34 1.821061 AAGCCAGACAGACCTCACGG 61.821 60.000 0.00 0.00 0.00 4.94
34 35 2.262915 CCAGACAGACCTCACGGC 59.737 66.667 0.00 0.00 0.00 5.68
35 36 2.279069 CCAGACAGACCTCACGGCT 61.279 63.158 0.00 0.00 0.00 5.52
36 37 1.214062 CAGACAGACCTCACGGCTC 59.786 63.158 0.00 0.00 0.00 4.70
37 38 1.075836 AGACAGACCTCACGGCTCT 59.924 57.895 0.00 0.00 0.00 4.09
38 39 1.214062 GACAGACCTCACGGCTCTG 59.786 63.158 0.00 0.00 40.86 3.35
39 40 1.528292 GACAGACCTCACGGCTCTGT 61.528 60.000 4.69 4.69 45.70 3.41
40 41 1.080230 CAGACCTCACGGCTCTGTG 60.080 63.158 2.51 2.51 41.28 3.66
41 42 2.433318 GACCTCACGGCTCTGTGC 60.433 66.667 4.03 0.00 39.73 4.57
42 43 4.363990 ACCTCACGGCTCTGTGCG 62.364 66.667 4.03 0.00 44.05 5.34
51 52 4.873129 CTCTGTGCGCCGCGGTAT 62.873 66.667 28.70 0.00 0.00 2.73
52 53 3.478724 CTCTGTGCGCCGCGGTATA 62.479 63.158 28.70 10.30 0.00 1.47
53 54 2.355837 CTGTGCGCCGCGGTATAT 60.356 61.111 28.70 0.00 0.00 0.86
54 55 1.081041 CTGTGCGCCGCGGTATATA 60.081 57.895 28.70 10.13 0.00 0.86
55 56 0.457853 CTGTGCGCCGCGGTATATAT 60.458 55.000 28.70 0.00 0.00 0.86
56 57 0.734597 TGTGCGCCGCGGTATATATG 60.735 55.000 28.70 9.07 0.00 1.78
57 58 0.734942 GTGCGCCGCGGTATATATGT 60.735 55.000 28.70 0.00 0.00 2.29
58 59 0.810016 TGCGCCGCGGTATATATGTA 59.190 50.000 28.70 4.84 0.00 2.29
59 60 1.406180 TGCGCCGCGGTATATATGTAT 59.594 47.619 28.70 0.00 0.00 2.29
60 61 2.159212 TGCGCCGCGGTATATATGTATT 60.159 45.455 28.70 0.00 0.00 1.89
61 62 3.066481 TGCGCCGCGGTATATATGTATTA 59.934 43.478 28.70 0.00 0.00 0.98
62 63 3.423206 GCGCCGCGGTATATATGTATTAC 59.577 47.826 28.70 3.02 0.00 1.89
63 64 4.600032 CGCCGCGGTATATATGTATTACA 58.400 43.478 28.70 0.00 0.00 2.41
64 65 4.438797 CGCCGCGGTATATATGTATTACAC 59.561 45.833 28.70 1.86 0.00 2.90
65 66 5.585390 GCCGCGGTATATATGTATTACACT 58.415 41.667 28.70 0.00 0.00 3.55
66 67 5.684626 GCCGCGGTATATATGTATTACACTC 59.315 44.000 28.70 0.00 0.00 3.51
67 68 5.905733 CCGCGGTATATATGTATTACACTCG 59.094 44.000 19.50 0.00 0.00 4.18
68 69 5.905733 CGCGGTATATATGTATTACACTCGG 59.094 44.000 0.00 0.00 0.00 4.63
69 70 5.684626 GCGGTATATATGTATTACACTCGGC 59.315 44.000 0.00 0.28 0.00 5.54
70 71 6.459298 GCGGTATATATGTATTACACTCGGCT 60.459 42.308 0.00 0.00 0.00 5.52
71 72 6.910972 CGGTATATATGTATTACACTCGGCTG 59.089 42.308 0.00 0.00 0.00 4.85
72 73 7.201670 CGGTATATATGTATTACACTCGGCTGA 60.202 40.741 0.00 0.00 0.00 4.26
73 74 8.464404 GGTATATATGTATTACACTCGGCTGAA 58.536 37.037 0.00 0.00 0.00 3.02
74 75 9.286946 GTATATATGTATTACACTCGGCTGAAC 57.713 37.037 0.00 0.00 0.00 3.18
75 76 3.945981 TGTATTACACTCGGCTGAACA 57.054 42.857 0.00 0.00 0.00 3.18
76 77 3.845178 TGTATTACACTCGGCTGAACAG 58.155 45.455 0.00 0.00 0.00 3.16
77 78 3.508402 TGTATTACACTCGGCTGAACAGA 59.492 43.478 5.97 0.00 0.00 3.41
78 79 2.433868 TTACACTCGGCTGAACAGAC 57.566 50.000 5.97 1.39 0.00 3.51
85 86 3.782244 GCTGAACAGACGGCGCAG 61.782 66.667 10.83 8.25 32.46 5.18
86 87 2.356313 CTGAACAGACGGCGCAGT 60.356 61.111 14.51 14.51 0.00 4.40
87 88 2.661537 TGAACAGACGGCGCAGTG 60.662 61.111 20.30 7.32 0.00 3.66
88 89 4.077188 GAACAGACGGCGCAGTGC 62.077 66.667 20.30 4.58 45.38 4.40
89 90 4.609018 AACAGACGGCGCAGTGCT 62.609 61.111 20.30 12.11 45.43 4.40
110 111 2.025727 CCGATCCGACGGTGTAGC 59.974 66.667 14.79 0.00 46.70 3.58
111 112 2.352001 CGATCCGACGGTGTAGCG 60.352 66.667 14.79 5.47 0.00 4.26
112 113 2.654404 GATCCGACGGTGTAGCGC 60.654 66.667 14.79 0.00 0.00 5.92
113 114 4.547905 ATCCGACGGTGTAGCGCG 62.548 66.667 14.79 0.00 0.00 6.86
133 134 3.261951 GCGGATGCGAGCGCTAAA 61.262 61.111 11.50 0.00 42.51 1.85
134 135 2.808958 GCGGATGCGAGCGCTAAAA 61.809 57.895 11.50 0.00 42.51 1.52
135 136 1.934463 CGGATGCGAGCGCTAAAAT 59.066 52.632 11.50 3.44 42.51 1.82
136 137 0.111089 CGGATGCGAGCGCTAAAATC 60.111 55.000 11.50 13.37 42.51 2.17
137 138 0.937304 GGATGCGAGCGCTAAAATCA 59.063 50.000 11.50 4.31 42.51 2.57
138 139 1.070309 GGATGCGAGCGCTAAAATCAG 60.070 52.381 11.50 0.00 42.51 2.90
139 140 1.594862 GATGCGAGCGCTAAAATCAGT 59.405 47.619 11.50 0.00 42.51 3.41
140 141 0.721154 TGCGAGCGCTAAAATCAGTG 59.279 50.000 11.50 0.00 42.51 3.66
141 142 0.026803 GCGAGCGCTAAAATCAGTGG 59.973 55.000 11.50 0.00 38.26 4.00
142 143 0.652592 CGAGCGCTAAAATCAGTGGG 59.347 55.000 11.50 0.00 0.00 4.61
143 144 0.378610 GAGCGCTAAAATCAGTGGGC 59.621 55.000 11.50 0.00 38.41 5.36
144 145 0.035056 AGCGCTAAAATCAGTGGGCT 60.035 50.000 8.99 0.00 42.45 5.19
145 146 0.099436 GCGCTAAAATCAGTGGGCTG 59.901 55.000 0.00 0.00 43.87 4.85
154 155 2.772739 CAGTGGGCTGAATCGAAGG 58.227 57.895 0.00 0.00 45.28 3.46
155 156 1.078143 AGTGGGCTGAATCGAAGGC 60.078 57.895 0.68 0.68 39.40 4.35
156 157 1.078143 GTGGGCTGAATCGAAGGCT 60.078 57.895 8.81 0.00 39.99 4.58
157 158 0.678048 GTGGGCTGAATCGAAGGCTT 60.678 55.000 0.00 0.00 39.99 4.35
158 159 0.038166 TGGGCTGAATCGAAGGCTTT 59.962 50.000 0.00 0.00 39.99 3.51
159 160 0.735471 GGGCTGAATCGAAGGCTTTC 59.265 55.000 0.00 0.00 39.99 2.62
160 161 0.735471 GGCTGAATCGAAGGCTTTCC 59.265 55.000 0.00 0.00 37.26 3.13
161 162 0.375106 GCTGAATCGAAGGCTTTCCG 59.625 55.000 0.00 0.93 37.47 4.30
162 163 1.726853 CTGAATCGAAGGCTTTCCGT 58.273 50.000 0.00 0.00 37.47 4.69
163 164 2.888594 CTGAATCGAAGGCTTTCCGTA 58.111 47.619 0.00 0.00 37.47 4.02
164 165 3.259064 CTGAATCGAAGGCTTTCCGTAA 58.741 45.455 0.00 0.00 37.47 3.18
165 166 3.666274 TGAATCGAAGGCTTTCCGTAAA 58.334 40.909 0.00 0.00 37.47 2.01
166 167 4.066490 TGAATCGAAGGCTTTCCGTAAAA 58.934 39.130 0.00 0.00 37.47 1.52
167 168 4.515944 TGAATCGAAGGCTTTCCGTAAAAA 59.484 37.500 0.00 0.00 37.47 1.94
241 242 4.208746 AGTTTGAATGGTTTACCGGAACA 58.791 39.130 9.46 0.00 39.43 3.18
243 244 2.156098 TGAATGGTTTACCGGAACAGC 58.844 47.619 9.46 0.44 39.43 4.40
319 526 0.761187 AACTGCTGGAGTTGCTCTCA 59.239 50.000 14.00 0.00 43.71 3.27
352 559 1.465354 GCAATCTTGCGCACTCTTCTG 60.465 52.381 11.12 4.17 45.11 3.02
357 564 2.942376 TCTTGCGCACTCTTCTGAAAAA 59.058 40.909 11.12 0.00 0.00 1.94
376 597 1.428869 ACTTCACTCCTGGTTGCTCT 58.571 50.000 0.00 0.00 0.00 4.09
397 618 3.021695 TGTATCGATTCACCGTCTCCTT 58.978 45.455 1.71 0.00 0.00 3.36
398 619 2.586258 ATCGATTCACCGTCTCCTTG 57.414 50.000 0.00 0.00 0.00 3.61
432 653 0.165511 GCTTGCTCGTTTCAGCTCTG 59.834 55.000 0.00 0.00 40.39 3.35
921 1142 5.886960 GAGATTTACCTCAAAGCACACAT 57.113 39.130 0.00 0.00 34.89 3.21
965 1189 0.660595 CGCTTCTCTGACGACGTTGT 60.661 55.000 8.55 8.55 0.00 3.32
972 1196 0.504384 CTGACGACGTTGTTCTGCTG 59.496 55.000 10.42 0.00 0.00 4.41
1041 1265 3.823330 GAGGACATCGACGGCGGT 61.823 66.667 12.58 0.00 38.28 5.68
1200 1430 1.960689 GCCAAGCACAGGAAGGTAAAA 59.039 47.619 0.00 0.00 0.00 1.52
1202 1432 2.558359 CCAAGCACAGGAAGGTAAAAGG 59.442 50.000 0.00 0.00 0.00 3.11
1203 1433 3.486383 CAAGCACAGGAAGGTAAAAGGA 58.514 45.455 0.00 0.00 0.00 3.36
1206 1436 2.423577 CACAGGAAGGTAAAAGGACCG 58.576 52.381 0.00 0.00 44.88 4.79
1232 1462 0.874390 TGCCGTCTTCTGCATCAAAC 59.126 50.000 0.00 0.00 31.31 2.93
1237 1467 3.976942 CCGTCTTCTGCATCAAACTTTTG 59.023 43.478 0.00 0.00 39.48 2.44
1344 1574 2.966516 AGGGAATCCGATACCTTCACTC 59.033 50.000 0.00 0.00 38.33 3.51
1414 1644 9.695526 TTGTACTGAAAATTCTGGATCAAATTG 57.304 29.630 0.00 0.00 0.00 2.32
1419 1649 8.180706 TGAAAATTCTGGATCAAATTGACTGA 57.819 30.769 0.00 0.00 0.00 3.41
1420 1650 8.084073 TGAAAATTCTGGATCAAATTGACTGAC 58.916 33.333 0.00 0.00 0.00 3.51
1466 1699 0.720027 CTGCATCGAGCTTGTCAGTG 59.280 55.000 0.00 0.00 45.94 3.66
1541 1774 7.651027 TCTACTAGTACAGTTTTACCCATCC 57.349 40.000 0.00 0.00 38.80 3.51
1542 1775 7.184161 TCTACTAGTACAGTTTTACCCATCCA 58.816 38.462 0.00 0.00 38.80 3.41
1543 1776 6.886178 ACTAGTACAGTTTTACCCATCCAT 57.114 37.500 0.00 0.00 31.59 3.41
1544 1777 6.885922 ACTAGTACAGTTTTACCCATCCATC 58.114 40.000 0.00 0.00 31.59 3.51
1548 1781 3.756434 ACAGTTTTACCCATCCATCGTTG 59.244 43.478 0.00 0.00 0.00 4.10
1575 1808 5.411361 ACATTTACTGAAGTTTATGCGCAGA 59.589 36.000 18.32 9.06 0.00 4.26
1717 1955 4.559502 GCTGTATCGATCAAGAGGTATGCA 60.560 45.833 0.00 0.00 0.00 3.96
1718 1956 5.529581 TGTATCGATCAAGAGGTATGCAA 57.470 39.130 0.00 0.00 0.00 4.08
1752 2009 5.237344 AGTTCTTGAATGTCTGTTGCAGTAC 59.763 40.000 0.00 0.00 32.61 2.73
1757 2014 6.389830 TGAATGTCTGTTGCAGTACAAATT 57.610 33.333 0.00 0.00 40.82 1.82
1763 2020 5.237344 GTCTGTTGCAGTACAAATTCAGTCT 59.763 40.000 0.00 0.00 40.82 3.24
1774 2031 6.292389 ACAAATTCAGTCTCTTCTCAAACG 57.708 37.500 0.00 0.00 0.00 3.60
1799 2056 4.132336 CAGGTGCACACTTGATATGCTAT 58.868 43.478 20.43 0.00 40.38 2.97
1850 2107 1.839994 CTCCTCTGGGACCTTATGCAA 59.160 52.381 0.00 0.00 36.57 4.08
1863 2120 3.193479 CCTTATGCAAAAGTCCAGGTTCC 59.807 47.826 0.00 0.00 0.00 3.62
1864 2121 2.380064 ATGCAAAAGTCCAGGTTCCA 57.620 45.000 0.00 0.00 0.00 3.53
1868 2125 4.415596 TGCAAAAGTCCAGGTTCCATTAT 58.584 39.130 0.00 0.00 0.00 1.28
1869 2126 5.575157 TGCAAAAGTCCAGGTTCCATTATA 58.425 37.500 0.00 0.00 0.00 0.98
1870 2127 6.194235 TGCAAAAGTCCAGGTTCCATTATAT 58.806 36.000 0.00 0.00 0.00 0.86
1871 2128 6.321181 TGCAAAAGTCCAGGTTCCATTATATC 59.679 38.462 0.00 0.00 0.00 1.63
1872 2129 6.321181 GCAAAAGTCCAGGTTCCATTATATCA 59.679 38.462 0.00 0.00 0.00 2.15
1873 2130 7.682021 GCAAAAGTCCAGGTTCCATTATATCAC 60.682 40.741 0.00 0.00 0.00 3.06
1874 2131 6.831664 AAGTCCAGGTTCCATTATATCACT 57.168 37.500 0.00 0.00 0.00 3.41
1875 2132 6.426646 AGTCCAGGTTCCATTATATCACTC 57.573 41.667 0.00 0.00 0.00 3.51
1876 2133 6.146760 AGTCCAGGTTCCATTATATCACTCT 58.853 40.000 0.00 0.00 0.00 3.24
1880 2137 6.933521 CCAGGTTCCATTATATCACTCTTCTG 59.066 42.308 0.00 0.00 0.00 3.02
1929 2186 4.386867 TCTCGTCAGTTCTTTGTTCAGT 57.613 40.909 0.00 0.00 0.00 3.41
1948 2211 6.481434 TCAGTTAGTTAGCTAATTCTCCCC 57.519 41.667 9.88 0.00 39.17 4.81
1966 2236 1.762370 CCCTTTTTACCCCATGCATCC 59.238 52.381 0.00 0.00 0.00 3.51
1976 2246 1.640069 CATGCATCCGCTCACTTCG 59.360 57.895 0.00 0.00 39.64 3.79
1981 2251 2.701780 ATCCGCTCACTTCGCTCGT 61.702 57.895 0.00 0.00 0.00 4.18
2007 2277 2.221169 GCTGTTGACAATCAGGTGACA 58.779 47.619 15.16 0.00 32.94 3.58
2013 2283 5.535783 TGTTGACAATCAGGTGACAATCAAT 59.464 36.000 0.00 0.00 36.01 2.57
2015 2285 6.258230 TGACAATCAGGTGACAATCAATTC 57.742 37.500 0.00 0.00 0.00 2.17
2067 2354 4.988540 TGTTCCTCACTGTACTGAAATTCG 59.011 41.667 6.77 0.00 0.00 3.34
2072 2359 6.071560 TCCTCACTGTACTGAAATTCGTGTAT 60.072 38.462 6.77 0.00 0.00 2.29
2082 2395 4.391830 TGAAATTCGTGTATCTGTCTTGGC 59.608 41.667 0.00 0.00 0.00 4.52
2088 2401 3.615110 CGTGTATCTGTCTTGGCTTCAGT 60.615 47.826 0.00 0.00 0.00 3.41
2146 2459 3.112709 GCAGTCGGACTTCGTGGC 61.113 66.667 8.18 4.76 40.32 5.01
2182 2495 1.409427 CCTCATCGGACCAGTAAGACC 59.591 57.143 0.00 0.00 33.16 3.85
2248 2561 5.476599 TGTGATAATTTGGACTCCAACCAAG 59.523 40.000 10.25 0.00 43.82 3.61
2376 2689 3.567164 ACCTGTCTTTGATTGAAGCTGTG 59.433 43.478 0.00 0.00 0.00 3.66
2401 2714 9.237187 TGAGGTACACAATTATATCTTTTTGCA 57.763 29.630 0.00 0.00 0.00 4.08
2402 2715 9.722056 GAGGTACACAATTATATCTTTTTGCAG 57.278 33.333 0.00 0.00 0.00 4.41
2449 2767 3.551496 TTTGGGCTCAGGCGTCAGG 62.551 63.158 0.00 0.00 39.81 3.86
2534 2854 2.052782 TCGATGTCGAGAGGGAATGA 57.947 50.000 0.21 0.00 44.22 2.57
2535 2855 2.375146 TCGATGTCGAGAGGGAATGAA 58.625 47.619 0.21 0.00 44.22 2.57
2576 2896 2.809665 GCTCGAGGAGATGGAAATGCAT 60.810 50.000 15.58 0.00 0.00 3.96
2633 2953 0.877071 GTCACATGCTGGGTTCAGTG 59.123 55.000 0.00 0.00 42.78 3.66
2665 2993 4.261656 CGGGGTTTGCAAAATTGTGTAGTA 60.262 41.667 14.67 0.00 0.00 1.82
2666 2994 5.227152 GGGGTTTGCAAAATTGTGTAGTAG 58.773 41.667 14.67 0.00 0.00 2.57
2667 2995 5.221362 GGGGTTTGCAAAATTGTGTAGTAGT 60.221 40.000 14.67 0.00 0.00 2.73
2683 3011 3.019564 AGTAGTGGCATGCAAAGATTCC 58.980 45.455 21.36 0.00 0.00 3.01
2723 3137 0.613260 ACCGATACTGCATGTGTGGT 59.387 50.000 0.00 0.00 0.00 4.16
2724 3138 1.828595 ACCGATACTGCATGTGTGGTA 59.171 47.619 0.00 0.00 0.00 3.25
2736 3150 3.616284 TGTGGTACGAACACATGGG 57.384 52.632 0.00 0.00 43.35 4.00
2757 3172 7.288810 TGGGAACTCCAAATATTTATGATGC 57.711 36.000 0.00 0.00 43.84 3.91
2760 3175 7.038799 GGGAACTCCAAATATTTATGATGCCAT 60.039 37.037 0.00 0.00 37.91 4.40
2761 3176 9.023962 GGAACTCCAAATATTTATGATGCCATA 57.976 33.333 0.00 0.00 33.51 2.74
2766 3181 9.898152 TCCAAATATTTATGATGCCATATACGA 57.102 29.630 0.00 0.00 35.38 3.43
2774 3189 9.758651 TTTATGATGCCATATACGATATGTACC 57.241 33.333 11.43 3.98 35.38 3.34
2775 3190 5.827666 TGATGCCATATACGATATGTACCG 58.172 41.667 11.43 0.00 35.44 4.02
2826 3851 2.345876 TCGACGATCATGTTGTGCATT 58.654 42.857 0.00 0.00 35.19 3.56
2851 3876 2.106338 ACACAACATGTCATCACCTCCA 59.894 45.455 0.00 0.00 36.54 3.86
2852 3877 2.745821 CACAACATGTCATCACCTCCAG 59.254 50.000 0.00 0.00 0.00 3.86
2902 3928 4.505191 CAGGTTCATGAACAACTGCAAAAG 59.495 41.667 33.42 10.75 42.85 2.27
2907 3933 2.098614 TGAACAACTGCAAAAGAGGCA 58.901 42.857 0.00 0.00 39.32 4.75
2969 3995 3.317993 GCTTCTTGTCTTTGGGCAAAGTA 59.682 43.478 0.00 0.00 45.88 2.24
3027 4055 3.114606 TGACAAAGATAGCCCATGGAGA 58.885 45.455 15.22 0.00 0.00 3.71
3098 4127 4.353777 ACAGTATAGTGGCAAGGAGAAGA 58.646 43.478 12.20 0.00 0.00 2.87
3113 4142 5.555966 AGGAGAAGATTTTCCTTCAGTCAC 58.444 41.667 0.00 0.00 40.96 3.67
3116 4145 5.555966 AGAAGATTTTCCTTCAGTCACTCC 58.444 41.667 0.00 0.00 43.68 3.85
3194 4247 3.430042 AAGATCCTGTGATGCAACTGT 57.570 42.857 0.00 0.00 0.00 3.55
3195 4248 3.430042 AGATCCTGTGATGCAACTGTT 57.570 42.857 0.00 0.00 0.00 3.16
3214 4267 7.154435 ACTGTTTTCAAGAATGATGATGGAG 57.846 36.000 0.00 0.00 34.96 3.86
3248 4302 6.613699 TGATCCTGATATTGCCCTTGTAAAT 58.386 36.000 0.00 0.00 0.00 1.40
3269 4326 6.927294 AATCCTTCGAACAGTTATTCCATC 57.073 37.500 0.00 0.00 0.00 3.51
3274 4331 5.614324 TCGAACAGTTATTCCATCTCCAT 57.386 39.130 0.00 0.00 0.00 3.41
3344 4401 2.697751 GAGATTGCCAAGAGCCTCTCTA 59.302 50.000 0.00 0.00 40.28 2.43
3440 4497 0.538584 ATCTCCGCATGTGCTCTCAA 59.461 50.000 0.00 0.00 39.32 3.02
3523 4581 2.428491 CCGTGCACTTATGGTAACCAA 58.572 47.619 16.19 0.00 36.95 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.049156 TCTGGCTTGTCACGCGAG 60.049 61.111 15.93 4.59 34.97 5.03
6 7 2.661537 TGTCTGGCTTGTCACGCG 60.662 61.111 3.53 3.53 0.00 6.01
7 8 1.300931 TCTGTCTGGCTTGTCACGC 60.301 57.895 0.00 0.00 0.00 5.34
8 9 0.946221 GGTCTGTCTGGCTTGTCACG 60.946 60.000 0.00 0.00 0.00 4.35
10 11 0.681733 GAGGTCTGTCTGGCTTGTCA 59.318 55.000 0.00 0.00 0.00 3.58
11 12 0.681733 TGAGGTCTGTCTGGCTTGTC 59.318 55.000 0.00 0.00 0.00 3.18
12 13 0.394565 GTGAGGTCTGTCTGGCTTGT 59.605 55.000 0.00 0.00 0.00 3.16
13 14 0.668706 CGTGAGGTCTGTCTGGCTTG 60.669 60.000 0.00 0.00 0.00 4.01
14 15 1.668294 CGTGAGGTCTGTCTGGCTT 59.332 57.895 0.00 0.00 0.00 4.35
15 16 3.371021 CGTGAGGTCTGTCTGGCT 58.629 61.111 0.00 0.00 0.00 4.75
34 35 2.749110 ATATACCGCGGCGCACAGAG 62.749 60.000 32.61 14.84 0.00 3.35
35 36 1.517210 TATATACCGCGGCGCACAGA 61.517 55.000 32.61 13.37 0.00 3.41
36 37 0.457853 ATATATACCGCGGCGCACAG 60.458 55.000 32.61 21.38 0.00 3.66
37 38 0.734597 CATATATACCGCGGCGCACA 60.735 55.000 32.61 16.13 0.00 4.57
38 39 0.734942 ACATATATACCGCGGCGCAC 60.735 55.000 32.61 3.11 0.00 5.34
39 40 0.810016 TACATATATACCGCGGCGCA 59.190 50.000 32.61 13.44 0.00 6.09
40 41 2.129823 ATACATATATACCGCGGCGC 57.870 50.000 28.58 24.21 0.00 6.53
41 42 4.438797 GTGTAATACATATATACCGCGGCG 59.561 45.833 28.58 16.78 0.00 6.46
42 43 5.585390 AGTGTAATACATATATACCGCGGC 58.415 41.667 28.58 3.54 0.00 6.53
43 44 5.905733 CGAGTGTAATACATATATACCGCGG 59.094 44.000 26.86 26.86 0.00 6.46
44 45 5.905733 CCGAGTGTAATACATATATACCGCG 59.094 44.000 0.00 0.00 0.00 6.46
45 46 5.684626 GCCGAGTGTAATACATATATACCGC 59.315 44.000 0.00 0.00 0.00 5.68
46 47 6.910972 CAGCCGAGTGTAATACATATATACCG 59.089 42.308 0.00 0.00 0.00 4.02
47 48 7.993101 TCAGCCGAGTGTAATACATATATACC 58.007 38.462 0.00 0.00 0.00 2.73
48 49 9.286946 GTTCAGCCGAGTGTAATACATATATAC 57.713 37.037 0.00 0.00 0.00 1.47
49 50 9.016438 TGTTCAGCCGAGTGTAATACATATATA 57.984 33.333 0.00 0.00 0.00 0.86
50 51 7.892609 TGTTCAGCCGAGTGTAATACATATAT 58.107 34.615 0.00 0.00 0.00 0.86
51 52 7.229907 TCTGTTCAGCCGAGTGTAATACATATA 59.770 37.037 0.00 0.00 0.00 0.86
52 53 6.040504 TCTGTTCAGCCGAGTGTAATACATAT 59.959 38.462 0.00 0.00 0.00 1.78
53 54 5.358725 TCTGTTCAGCCGAGTGTAATACATA 59.641 40.000 0.00 0.00 0.00 2.29
54 55 4.159693 TCTGTTCAGCCGAGTGTAATACAT 59.840 41.667 0.00 0.00 0.00 2.29
55 56 3.508402 TCTGTTCAGCCGAGTGTAATACA 59.492 43.478 0.00 0.00 0.00 2.29
56 57 3.858238 GTCTGTTCAGCCGAGTGTAATAC 59.142 47.826 0.00 0.00 0.00 1.89
57 58 3.427098 CGTCTGTTCAGCCGAGTGTAATA 60.427 47.826 0.00 0.00 0.00 0.98
58 59 2.671351 CGTCTGTTCAGCCGAGTGTAAT 60.671 50.000 0.00 0.00 0.00 1.89
59 60 1.335597 CGTCTGTTCAGCCGAGTGTAA 60.336 52.381 0.00 0.00 0.00 2.41
60 61 0.240145 CGTCTGTTCAGCCGAGTGTA 59.760 55.000 0.00 0.00 0.00 2.90
61 62 1.007271 CGTCTGTTCAGCCGAGTGT 60.007 57.895 0.00 0.00 0.00 3.55
62 63 1.734477 CCGTCTGTTCAGCCGAGTG 60.734 63.158 4.85 0.00 0.00 3.51
63 64 2.651361 CCGTCTGTTCAGCCGAGT 59.349 61.111 4.85 0.00 0.00 4.18
64 65 2.811317 GCCGTCTGTTCAGCCGAG 60.811 66.667 4.85 0.00 0.00 4.63
65 66 4.717629 CGCCGTCTGTTCAGCCGA 62.718 66.667 4.85 0.00 0.00 5.54
68 69 3.782244 CTGCGCCGTCTGTTCAGC 61.782 66.667 4.18 0.00 0.00 4.26
69 70 2.356313 ACTGCGCCGTCTGTTCAG 60.356 61.111 4.18 0.00 0.00 3.02
70 71 2.661537 CACTGCGCCGTCTGTTCA 60.662 61.111 4.18 0.00 0.00 3.18
71 72 4.077188 GCACTGCGCCGTCTGTTC 62.077 66.667 4.18 0.00 32.94 3.18
72 73 4.609018 AGCACTGCGCCGTCTGTT 62.609 61.111 4.18 0.00 44.04 3.16
94 95 2.352001 CGCTACACCGTCGGATCG 60.352 66.667 20.51 8.41 0.00 3.69
95 96 2.654404 GCGCTACACCGTCGGATC 60.654 66.667 20.51 0.79 0.00 3.36
96 97 4.547905 CGCGCTACACCGTCGGAT 62.548 66.667 20.51 8.21 0.00 4.18
117 118 0.111089 GATTTTAGCGCTCGCATCCG 60.111 55.000 16.34 0.00 44.88 4.18
118 119 0.937304 TGATTTTAGCGCTCGCATCC 59.063 50.000 16.34 0.32 44.88 3.51
119 120 1.594862 ACTGATTTTAGCGCTCGCATC 59.405 47.619 16.34 14.26 44.88 3.91
120 121 1.328680 CACTGATTTTAGCGCTCGCAT 59.671 47.619 16.34 3.54 44.88 4.73
121 122 0.721154 CACTGATTTTAGCGCTCGCA 59.279 50.000 16.34 5.25 44.88 5.10
122 123 0.026803 CCACTGATTTTAGCGCTCGC 59.973 55.000 16.34 6.09 42.33 5.03
123 124 0.652592 CCCACTGATTTTAGCGCTCG 59.347 55.000 16.34 0.00 0.00 5.03
124 125 0.378610 GCCCACTGATTTTAGCGCTC 59.621 55.000 16.34 0.00 0.00 5.03
125 126 0.035056 AGCCCACTGATTTTAGCGCT 60.035 50.000 17.26 17.26 0.00 5.92
126 127 2.482326 AGCCCACTGATTTTAGCGC 58.518 52.632 0.00 0.00 0.00 5.92
136 137 1.372087 GCCTTCGATTCAGCCCACTG 61.372 60.000 0.00 0.00 45.95 3.66
137 138 1.078143 GCCTTCGATTCAGCCCACT 60.078 57.895 0.00 0.00 0.00 4.00
138 139 0.678048 AAGCCTTCGATTCAGCCCAC 60.678 55.000 0.00 0.00 0.00 4.61
139 140 0.038166 AAAGCCTTCGATTCAGCCCA 59.962 50.000 0.00 0.00 0.00 5.36
140 141 0.735471 GAAAGCCTTCGATTCAGCCC 59.265 55.000 0.00 0.00 0.00 5.19
141 142 0.735471 GGAAAGCCTTCGATTCAGCC 59.265 55.000 0.00 0.00 31.77 4.85
142 143 0.375106 CGGAAAGCCTTCGATTCAGC 59.625 55.000 0.00 0.00 31.77 4.26
143 144 1.726853 ACGGAAAGCCTTCGATTCAG 58.273 50.000 0.00 0.00 31.77 3.02
144 145 3.322211 TTACGGAAAGCCTTCGATTCA 57.678 42.857 0.00 0.00 31.77 2.57
145 146 4.673534 TTTTACGGAAAGCCTTCGATTC 57.326 40.909 0.00 0.00 31.77 2.52
164 165 7.116736 AGATGACCTTCCCGTATATTGTTTTT 58.883 34.615 0.00 0.00 0.00 1.94
165 166 6.659824 AGATGACCTTCCCGTATATTGTTTT 58.340 36.000 0.00 0.00 0.00 2.43
166 167 6.248569 AGATGACCTTCCCGTATATTGTTT 57.751 37.500 0.00 0.00 0.00 2.83
167 168 5.888982 AGATGACCTTCCCGTATATTGTT 57.111 39.130 0.00 0.00 0.00 2.83
168 169 5.888982 AAGATGACCTTCCCGTATATTGT 57.111 39.130 0.00 0.00 0.00 2.71
169 170 5.701290 GGAAAGATGACCTTCCCGTATATTG 59.299 44.000 0.00 0.00 33.02 1.90
170 171 5.368523 TGGAAAGATGACCTTCCCGTATATT 59.631 40.000 0.00 0.00 30.85 1.28
171 172 4.905456 TGGAAAGATGACCTTCCCGTATAT 59.095 41.667 0.00 0.00 30.85 0.86
182 183 3.441572 CACAGGTTCATGGAAAGATGACC 59.558 47.826 0.00 0.00 31.92 4.02
241 242 5.363580 TGGAGAAAAGAAAACATTTCCAGCT 59.636 36.000 0.00 0.00 36.44 4.24
243 244 8.667076 AATTGGAGAAAAGAAAACATTTCCAG 57.333 30.769 0.00 0.00 36.44 3.86
305 306 2.540265 AAGTGTGAGAGCAACTCCAG 57.460 50.000 8.13 0.00 44.34 3.86
341 548 4.034510 AGTGAAGTTTTTCAGAAGAGTGCG 59.965 41.667 0.00 0.00 43.66 5.34
344 551 5.819901 CAGGAGTGAAGTTTTTCAGAAGAGT 59.180 40.000 0.00 0.00 43.66 3.24
352 559 3.381590 AGCAACCAGGAGTGAAGTTTTTC 59.618 43.478 0.00 0.00 0.00 2.29
357 564 1.071385 CAGAGCAACCAGGAGTGAAGT 59.929 52.381 0.00 0.00 0.00 3.01
376 597 2.651455 AGGAGACGGTGAATCGATACA 58.349 47.619 0.00 0.00 0.00 2.29
454 675 1.625870 CACAGCGCGATCTTGTACG 59.374 57.895 12.10 0.00 0.00 3.67
905 1126 5.048782 GTCAATTCATGTGTGCTTTGAGGTA 60.049 40.000 0.00 0.00 31.24 3.08
917 1138 3.073678 TGGACTTCCGTCAATTCATGTG 58.926 45.455 0.00 0.00 42.05 3.21
918 1139 3.074412 GTGGACTTCCGTCAATTCATGT 58.926 45.455 0.00 0.00 42.05 3.21
921 1142 2.920724 TGTGGACTTCCGTCAATTCA 57.079 45.000 0.00 0.00 42.05 2.57
935 1159 1.188219 AGAGAAGCGAGCCTTGTGGA 61.188 55.000 0.00 0.00 32.78 4.02
936 1160 1.018226 CAGAGAAGCGAGCCTTGTGG 61.018 60.000 0.00 0.00 32.78 4.17
940 1164 1.214062 CGTCAGAGAAGCGAGCCTT 59.786 57.895 0.00 0.00 36.19 4.35
965 1189 3.650281 TCCATATTTCCTGCAGCAGAA 57.350 42.857 24.90 11.52 32.44 3.02
972 1196 1.683385 GGGCAGTTCCATATTTCCTGC 59.317 52.381 0.00 0.00 45.93 4.85
1128 1358 2.639286 GTGTTGAACAGCTGCCCG 59.361 61.111 15.27 0.00 0.00 6.13
1164 1394 2.367202 GGCCTTGATCTCCCCGTCA 61.367 63.158 0.00 0.00 0.00 4.35
1273 1503 2.232941 CCAAACAGATGCAGCTGGAATT 59.767 45.455 33.28 22.03 40.20 2.17
1364 1594 3.769792 GTTGTGCACACCTGTGTCAACT 61.770 50.000 21.56 0.00 46.12 3.16
1384 1614 8.463930 TGATCCAGAATTTTCAGTACAAAAGT 57.536 30.769 0.00 0.00 0.00 2.66
1414 1644 6.503524 TGTTTTCAAGCCAAAATAGTCAGTC 58.496 36.000 0.00 0.00 0.00 3.51
1466 1699 0.106819 ATGAGGCTCCAGTGCATTCC 60.107 55.000 12.86 0.00 34.04 3.01
1524 1757 4.510571 ACGATGGATGGGTAAAACTGTAC 58.489 43.478 0.00 0.00 0.00 2.90
1541 1774 4.083324 ACTTCAGTAAATGTGCCAACGATG 60.083 41.667 0.00 0.00 0.00 3.84
1542 1775 4.072131 ACTTCAGTAAATGTGCCAACGAT 58.928 39.130 0.00 0.00 0.00 3.73
1543 1776 3.472652 ACTTCAGTAAATGTGCCAACGA 58.527 40.909 0.00 0.00 0.00 3.85
1544 1777 3.896648 ACTTCAGTAAATGTGCCAACG 57.103 42.857 0.00 0.00 0.00 4.10
1548 1781 4.793216 CGCATAAACTTCAGTAAATGTGCC 59.207 41.667 0.00 0.00 29.95 5.01
1724 1962 6.514541 CTGCAACAGACATTCAAGAACTGAAT 60.515 38.462 0.00 0.00 43.36 2.57
1731 1969 4.702831 TGTACTGCAACAGACATTCAAGA 58.297 39.130 0.78 0.00 35.18 3.02
1737 1975 5.532406 ACTGAATTTGTACTGCAACAGACAT 59.468 36.000 0.78 0.00 36.72 3.06
1738 1976 4.881273 ACTGAATTTGTACTGCAACAGACA 59.119 37.500 0.78 0.00 36.72 3.41
1739 1977 5.237344 AGACTGAATTTGTACTGCAACAGAC 59.763 40.000 0.78 9.22 36.72 3.51
1740 1978 5.368145 AGACTGAATTTGTACTGCAACAGA 58.632 37.500 0.78 0.00 36.72 3.41
1741 1979 5.468072 AGAGACTGAATTTGTACTGCAACAG 59.532 40.000 0.00 0.00 36.72 3.16
1742 1980 5.368145 AGAGACTGAATTTGTACTGCAACA 58.632 37.500 0.00 0.00 36.72 3.33
1744 1982 6.291377 AGAAGAGACTGAATTTGTACTGCAA 58.709 36.000 0.00 0.00 34.87 4.08
1745 1983 5.858381 AGAAGAGACTGAATTTGTACTGCA 58.142 37.500 0.00 0.00 0.00 4.41
1746 1984 5.928839 TGAGAAGAGACTGAATTTGTACTGC 59.071 40.000 0.00 0.00 0.00 4.40
1752 2009 6.132056 CACGTTTGAGAAGAGACTGAATTTG 58.868 40.000 0.00 0.00 0.00 2.32
1757 2014 2.100749 TGCACGTTTGAGAAGAGACTGA 59.899 45.455 0.00 0.00 0.00 3.41
1763 2020 1.581934 CACCTGCACGTTTGAGAAGA 58.418 50.000 0.00 0.00 0.00 2.87
1799 2056 2.751259 GCTCATGTTGAATGCAGAAGGA 59.249 45.455 0.00 0.00 0.00 3.36
1850 2107 7.127955 AGAGTGATATAATGGAACCTGGACTTT 59.872 37.037 0.00 0.00 0.00 2.66
1863 2120 8.637099 TGGAGAAGACAGAAGAGTGATATAATG 58.363 37.037 0.00 0.00 0.00 1.90
1864 2121 8.774546 TGGAGAAGACAGAAGAGTGATATAAT 57.225 34.615 0.00 0.00 0.00 1.28
1868 2125 6.013379 AGTTGGAGAAGACAGAAGAGTGATA 58.987 40.000 0.00 0.00 0.00 2.15
1869 2126 4.837860 AGTTGGAGAAGACAGAAGAGTGAT 59.162 41.667 0.00 0.00 0.00 3.06
1870 2127 4.038522 CAGTTGGAGAAGACAGAAGAGTGA 59.961 45.833 0.00 0.00 0.00 3.41
1871 2128 4.202202 ACAGTTGGAGAAGACAGAAGAGTG 60.202 45.833 0.00 0.00 0.00 3.51
1872 2129 3.964031 ACAGTTGGAGAAGACAGAAGAGT 59.036 43.478 0.00 0.00 0.00 3.24
1873 2130 4.599047 ACAGTTGGAGAAGACAGAAGAG 57.401 45.455 0.00 0.00 0.00 2.85
1874 2131 4.651503 AGAACAGTTGGAGAAGACAGAAGA 59.348 41.667 0.00 0.00 0.00 2.87
1875 2132 4.954875 AGAACAGTTGGAGAAGACAGAAG 58.045 43.478 0.00 0.00 0.00 2.85
1876 2133 6.267699 TGATAGAACAGTTGGAGAAGACAGAA 59.732 38.462 0.00 0.00 0.00 3.02
1880 2137 6.031751 AGTGATAGAACAGTTGGAGAAGAC 57.968 41.667 0.00 0.00 0.00 3.01
1929 2186 9.676861 GTAAAAAGGGGAGAATTAGCTAACTAA 57.323 33.333 8.70 0.00 42.47 2.24
1948 2211 1.202405 GCGGATGCATGGGGTAAAAAG 60.202 52.381 2.46 0.00 42.15 2.27
1966 2236 1.669158 CTGAACGAGCGAAGTGAGCG 61.669 60.000 0.00 0.00 40.04 5.03
1976 2246 1.301716 TCAACAGCCCTGAACGAGC 60.302 57.895 1.69 0.00 0.00 5.03
1981 2251 2.507484 CTGATTGTCAACAGCCCTGAA 58.493 47.619 1.69 0.00 0.00 3.02
2013 2283 8.737175 CAGGTCACAGTTAGTAGTAGTAATGAA 58.263 37.037 0.81 0.00 0.00 2.57
2015 2285 6.973474 GCAGGTCACAGTTAGTAGTAGTAATG 59.027 42.308 0.81 4.01 0.00 1.90
2067 2354 3.931578 ACTGAAGCCAAGACAGATACAC 58.068 45.455 0.00 0.00 35.85 2.90
2072 2359 3.206150 GAACAACTGAAGCCAAGACAGA 58.794 45.455 0.00 0.00 35.85 3.41
2082 2395 0.232303 GTCGCCACGAACAACTGAAG 59.768 55.000 0.00 0.00 37.72 3.02
2088 2401 2.970324 GCAGGTCGCCACGAACAA 60.970 61.111 7.86 0.00 46.95 2.83
2146 2459 2.677875 GGCTTGAGTTGCCCCAGG 60.678 66.667 0.00 0.00 44.32 4.45
2182 2495 1.131218 CTTCAGTGATGCGTGCGTG 59.869 57.895 0.00 0.00 0.00 5.34
2248 2561 2.231235 CCAACATGGTTAGCTTCAACCC 59.769 50.000 14.53 0.00 46.29 4.11
2376 2689 9.722056 CTGCAAAAAGATATAATTGTGTACCTC 57.278 33.333 0.00 0.00 0.00 3.85
2389 2702 6.369615 GCACAAATTCCACTGCAAAAAGATAT 59.630 34.615 0.00 0.00 0.00 1.63
2390 2703 5.695816 GCACAAATTCCACTGCAAAAAGATA 59.304 36.000 0.00 0.00 0.00 1.98
2391 2704 4.512571 GCACAAATTCCACTGCAAAAAGAT 59.487 37.500 0.00 0.00 0.00 2.40
2392 2705 3.870419 GCACAAATTCCACTGCAAAAAGA 59.130 39.130 0.00 0.00 0.00 2.52
2393 2706 3.872771 AGCACAAATTCCACTGCAAAAAG 59.127 39.130 0.00 0.00 31.71 2.27
2397 2710 2.483363 CCAAGCACAAATTCCACTGCAA 60.483 45.455 0.00 0.00 31.71 4.08
2398 2711 1.068895 CCAAGCACAAATTCCACTGCA 59.931 47.619 0.00 0.00 31.71 4.41
2399 2712 1.606224 CCCAAGCACAAATTCCACTGC 60.606 52.381 0.00 0.00 0.00 4.40
2400 2713 1.962807 TCCCAAGCACAAATTCCACTG 59.037 47.619 0.00 0.00 0.00 3.66
2401 2714 2.380064 TCCCAAGCACAAATTCCACT 57.620 45.000 0.00 0.00 0.00 4.00
2402 2715 3.244181 ACAATCCCAAGCACAAATTCCAC 60.244 43.478 0.00 0.00 0.00 4.02
2449 2767 1.893062 GCCCTGCACAGATTTTCCC 59.107 57.895 0.00 0.00 0.00 3.97
2532 2852 0.732880 GCAGCTAGCTCGAACGTTCA 60.733 55.000 26.71 13.46 41.15 3.18
2533 2853 1.734359 CGCAGCTAGCTCGAACGTTC 61.734 60.000 23.57 18.47 42.61 3.95
2534 2854 1.801913 CGCAGCTAGCTCGAACGTT 60.802 57.895 23.57 0.00 42.61 3.99
2535 2855 2.202492 CGCAGCTAGCTCGAACGT 60.202 61.111 23.57 0.00 42.61 3.99
2576 2896 1.610102 GCCTTCTTCAGCTCTCTGCAA 60.610 52.381 0.00 0.00 45.94 4.08
2633 2953 1.671379 GCAAACCCCGTCCTCTGTC 60.671 63.158 0.00 0.00 0.00 3.51
2665 2993 0.813184 CGGAATCTTTGCATGCCACT 59.187 50.000 16.68 0.00 0.00 4.00
2666 2994 0.179129 CCGGAATCTTTGCATGCCAC 60.179 55.000 16.68 0.00 0.00 5.01
2667 2995 0.323269 TCCGGAATCTTTGCATGCCA 60.323 50.000 16.68 0.00 0.00 4.92
2683 3011 5.220381 GGTACATATCGTATATGGCATCCG 58.780 45.833 1.65 5.48 31.20 4.18
2723 3137 1.972075 TGGAGTTCCCATGTGTTCGTA 59.028 47.619 0.00 0.00 40.82 3.43
2724 3138 0.762418 TGGAGTTCCCATGTGTTCGT 59.238 50.000 0.00 0.00 40.82 3.85
2733 3147 6.267471 GGCATCATAAATATTTGGAGTTCCCA 59.733 38.462 11.05 0.00 44.93 4.37
2757 3172 7.590322 GCAACTATCGGTACATATCGTATATGG 59.410 40.741 14.97 3.10 31.20 2.74
2760 3175 7.335171 ACTGCAACTATCGGTACATATCGTATA 59.665 37.037 0.00 0.00 31.20 1.47
2761 3176 6.150641 ACTGCAACTATCGGTACATATCGTAT 59.849 38.462 0.00 0.00 31.20 3.06
2763 3178 4.277672 ACTGCAACTATCGGTACATATCGT 59.722 41.667 0.00 0.00 0.00 3.73
2764 3179 4.795268 ACTGCAACTATCGGTACATATCG 58.205 43.478 0.00 0.00 0.00 2.92
2765 3180 5.800941 GCTACTGCAACTATCGGTACATATC 59.199 44.000 0.00 0.00 39.41 1.63
2766 3181 5.710984 GCTACTGCAACTATCGGTACATAT 58.289 41.667 0.00 0.00 39.41 1.78
2768 3183 3.978687 GCTACTGCAACTATCGGTACAT 58.021 45.455 0.00 0.00 39.41 2.29
2769 3184 3.431922 GCTACTGCAACTATCGGTACA 57.568 47.619 0.00 0.00 39.41 2.90
2792 3817 1.313091 CGTCGAGGATGAGGGTGACA 61.313 60.000 0.00 0.00 0.00 3.58
2826 3851 5.164620 AGGTGATGACATGTTGTGTGATA 57.835 39.130 0.00 0.00 42.36 2.15
2851 3876 1.075601 TGGGATCAGGAAACCTTGCT 58.924 50.000 0.00 0.00 0.00 3.91
2852 3877 2.149973 ATGGGATCAGGAAACCTTGC 57.850 50.000 0.00 0.00 0.00 4.01
2863 3888 3.737559 ACCTGCTAAACAATGGGATCA 57.262 42.857 0.00 0.00 0.00 2.92
2902 3928 5.768333 GCATTTGAAGTTTTGTATGCCTC 57.232 39.130 0.00 0.00 33.96 4.70
2907 3933 5.106157 CGAGAGGGCATTTGAAGTTTTGTAT 60.106 40.000 0.00 0.00 0.00 2.29
2979 4005 1.146774 TCTCAAACCCAATTGGCCAGA 59.853 47.619 19.75 12.05 37.83 3.86
3027 4055 7.094291 GCTACTATCTGGTTGACGGTATCTATT 60.094 40.741 0.00 0.00 0.00 1.73
3098 4127 2.876079 GCGGGAGTGACTGAAGGAAAAT 60.876 50.000 0.00 0.00 0.00 1.82
3153 4203 1.269448 TGGATTTGGCACGCTTTCTTC 59.731 47.619 0.00 0.00 0.00 2.87
3194 4247 8.413309 AAGAACTCCATCATCATTCTTGAAAA 57.587 30.769 0.00 0.00 38.02 2.29
3195 4248 9.519191 TTAAGAACTCCATCATCATTCTTGAAA 57.481 29.630 7.59 0.00 39.37 2.69
3214 4267 7.308830 GGGCAATATCAGGATCATGTTAAGAAC 60.309 40.741 7.33 0.00 0.00 3.01
3248 4302 5.395324 GGAGATGGAATAACTGTTCGAAGGA 60.395 44.000 0.00 0.00 0.00 3.36
3269 4326 1.469703 TCTTGATTGCGTGCAATGGAG 59.530 47.619 23.55 18.70 45.50 3.86
3274 4331 1.739466 GGATCTCTTGATTGCGTGCAA 59.261 47.619 10.02 10.02 40.47 4.08
3409 4466 1.825341 CGGAGATGCCATGGTCAGA 59.175 57.895 14.67 0.00 35.94 3.27
3440 4497 2.019984 GGACGAGTACCTACGGATGTT 58.980 52.381 8.95 0.00 0.00 2.71
3479 4537 1.802960 CACTCCGGATGCTTGCATATC 59.197 52.381 3.57 3.63 0.00 1.63



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

AutoCloner maintained by Alex Coulton.