Multiple sequence alignment - TraesCS7D01G362000

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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 TraesCS7D01G362000 chr7D 100.000 2723 0 0 1 2723 464948819 464946097 0.000000e+00 5029
1 TraesCS7D01G362000 chr7D 79.331 1166 131 56 768 1892 464361575 464360479 0.000000e+00 717
2 TraesCS7D01G362000 chr7D 79.731 819 92 23 918 1701 464137836 464137057 2.400000e-145 525
3 TraesCS7D01G362000 chr7A 93.400 2500 102 27 247 2723 534765542 534768001 0.000000e+00 3644
4 TraesCS7D01G362000 chr7A 79.465 1159 139 66 768 1892 535272617 535273710 0.000000e+00 730
5 TraesCS7D01G362000 chr7A 79.849 794 90 23 941 1701 535590765 535591521 1.450000e-142 516
6 TraesCS7D01G362000 chr7B 80.508 985 112 47 936 1892 489781332 489780400 0.000000e+00 682
7 TraesCS7D01G362000 chr7B 79.682 817 91 29 919 1701 489552317 489551542 1.120000e-143 520


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 TraesCS7D01G362000 chr7D 464946097 464948819 2722 True 5029 5029 100.000 1 2723 1 chr7D.!!$R3 2722
1 TraesCS7D01G362000 chr7D 464360479 464361575 1096 True 717 717 79.331 768 1892 1 chr7D.!!$R2 1124
2 TraesCS7D01G362000 chr7D 464137057 464137836 779 True 525 525 79.731 918 1701 1 chr7D.!!$R1 783
3 TraesCS7D01G362000 chr7A 534765542 534768001 2459 False 3644 3644 93.400 247 2723 1 chr7A.!!$F1 2476
4 TraesCS7D01G362000 chr7A 535272617 535273710 1093 False 730 730 79.465 768 1892 1 chr7A.!!$F2 1124
5 TraesCS7D01G362000 chr7A 535590765 535591521 756 False 516 516 79.849 941 1701 1 chr7A.!!$F3 760
6 TraesCS7D01G362000 chr7B 489780400 489781332 932 True 682 682 80.508 936 1892 1 chr7B.!!$R2 956
7 TraesCS7D01G362000 chr7B 489551542 489552317 775 True 520 520 79.682 919 1701 1 chr7B.!!$R1 782

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
72 73 0.035739 TGTCGGGCTCCTGTAAAACC 59.964 55.0 0.0 0.0 0.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2025 2111 0.031449 AACAAAATGCCGAACGGTGG 59.969 50.0 14.63 0.0 37.65 4.61 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 3.388841 TCCTTCGTGCTTCCTCCC 58.611 61.111 0.00 0.00 0.00 4.30
18 19 1.535444 TCCTTCGTGCTTCCTCCCA 60.535 57.895 0.00 0.00 0.00 4.37
19 20 0.909610 TCCTTCGTGCTTCCTCCCAT 60.910 55.000 0.00 0.00 0.00 4.00
20 21 0.462759 CCTTCGTGCTTCCTCCCATC 60.463 60.000 0.00 0.00 0.00 3.51
21 22 0.250234 CTTCGTGCTTCCTCCCATCA 59.750 55.000 0.00 0.00 0.00 3.07
22 23 0.036388 TTCGTGCTTCCTCCCATCAC 60.036 55.000 0.00 0.00 0.00 3.06
23 24 0.904865 TCGTGCTTCCTCCCATCACT 60.905 55.000 0.00 0.00 0.00 3.41
24 25 0.742281 CGTGCTTCCTCCCATCACTG 60.742 60.000 0.00 0.00 0.00 3.66
25 26 0.393537 GTGCTTCCTCCCATCACTGG 60.394 60.000 0.00 0.00 42.73 4.00
33 34 4.007457 CCATCACTGGGCCTTGTG 57.993 61.111 19.31 19.31 39.04 3.33
34 35 1.679977 CCATCACTGGGCCTTGTGG 60.680 63.158 22.95 16.39 39.04 4.17
35 36 1.679977 CATCACTGGGCCTTGTGGG 60.680 63.158 22.95 15.03 35.15 4.61
53 54 4.143740 CCCTCTGGCAGACCTTCT 57.856 61.111 14.43 0.00 36.63 2.85
54 55 1.601171 CCCTCTGGCAGACCTTCTG 59.399 63.158 14.43 2.38 46.90 3.02
55 56 1.197430 CCCTCTGGCAGACCTTCTGT 61.197 60.000 14.43 0.00 45.94 3.41
63 64 2.579738 GACCTTCTGTCGGGCTCC 59.420 66.667 0.00 0.00 33.49 4.70
64 65 1.985116 GACCTTCTGTCGGGCTCCT 60.985 63.158 0.00 0.00 33.49 3.69
65 66 2.232298 GACCTTCTGTCGGGCTCCTG 62.232 65.000 0.00 0.00 33.49 3.86
66 67 2.286523 CCTTCTGTCGGGCTCCTGT 61.287 63.158 0.00 0.00 0.00 4.00
67 68 0.970937 CCTTCTGTCGGGCTCCTGTA 60.971 60.000 0.00 0.00 0.00 2.74
68 69 0.895530 CTTCTGTCGGGCTCCTGTAA 59.104 55.000 0.00 0.00 0.00 2.41
69 70 1.275291 CTTCTGTCGGGCTCCTGTAAA 59.725 52.381 0.00 0.00 0.00 2.01
70 71 1.344065 TCTGTCGGGCTCCTGTAAAA 58.656 50.000 0.00 0.00 0.00 1.52
71 72 1.001633 TCTGTCGGGCTCCTGTAAAAC 59.998 52.381 0.00 0.00 0.00 2.43
72 73 0.035739 TGTCGGGCTCCTGTAAAACC 59.964 55.000 0.00 0.00 0.00 3.27
73 74 0.675837 GTCGGGCTCCTGTAAAACCC 60.676 60.000 0.00 0.00 37.19 4.11
74 75 1.378119 CGGGCTCCTGTAAAACCCC 60.378 63.158 0.00 0.00 37.25 4.95
75 76 1.771646 GGGCTCCTGTAAAACCCCA 59.228 57.895 0.00 0.00 34.23 4.96
76 77 0.113580 GGGCTCCTGTAAAACCCCAA 59.886 55.000 0.00 0.00 34.23 4.12
77 78 1.254026 GGCTCCTGTAAAACCCCAAC 58.746 55.000 0.00 0.00 0.00 3.77
78 79 1.254026 GCTCCTGTAAAACCCCAACC 58.746 55.000 0.00 0.00 0.00 3.77
79 80 1.919240 CTCCTGTAAAACCCCAACCC 58.081 55.000 0.00 0.00 0.00 4.11
80 81 1.427753 CTCCTGTAAAACCCCAACCCT 59.572 52.381 0.00 0.00 0.00 4.34
81 82 2.645797 CTCCTGTAAAACCCCAACCCTA 59.354 50.000 0.00 0.00 0.00 3.53
82 83 3.062129 TCCTGTAAAACCCCAACCCTAA 58.938 45.455 0.00 0.00 0.00 2.69
83 84 3.074836 TCCTGTAAAACCCCAACCCTAAG 59.925 47.826 0.00 0.00 0.00 2.18
84 85 3.427573 CTGTAAAACCCCAACCCTAAGG 58.572 50.000 0.00 0.00 40.04 2.69
85 86 3.062129 TGTAAAACCCCAACCCTAAGGA 58.938 45.455 0.00 0.00 36.73 3.36
86 87 2.688902 AAAACCCCAACCCTAAGGAC 57.311 50.000 0.00 0.00 36.73 3.85
87 88 1.536644 AAACCCCAACCCTAAGGACA 58.463 50.000 0.00 0.00 36.73 4.02
88 89 1.536644 AACCCCAACCCTAAGGACAA 58.463 50.000 0.00 0.00 36.73 3.18
89 90 1.073098 ACCCCAACCCTAAGGACAAG 58.927 55.000 0.00 0.00 36.73 3.16
90 91 0.331616 CCCCAACCCTAAGGACAAGG 59.668 60.000 0.00 0.00 36.73 3.61
91 92 1.368374 CCCAACCCTAAGGACAAGGA 58.632 55.000 0.00 0.00 36.08 3.36
92 93 1.282157 CCCAACCCTAAGGACAAGGAG 59.718 57.143 0.00 0.00 36.08 3.69
93 94 1.282157 CCAACCCTAAGGACAAGGAGG 59.718 57.143 0.00 0.00 36.08 4.30
95 96 3.419154 CCCTAAGGACAAGGAGGGT 57.581 57.895 0.00 0.00 43.32 4.34
96 97 1.670059 CCCTAAGGACAAGGAGGGTT 58.330 55.000 0.00 0.00 43.32 4.11
97 98 1.993301 CCCTAAGGACAAGGAGGGTTT 59.007 52.381 0.00 0.00 43.32 3.27
98 99 2.026169 CCCTAAGGACAAGGAGGGTTTC 60.026 54.545 0.00 0.00 43.32 2.78
99 100 2.913617 CCTAAGGACAAGGAGGGTTTCT 59.086 50.000 0.00 0.00 36.08 2.52
100 101 3.330998 CCTAAGGACAAGGAGGGTTTCTT 59.669 47.826 0.00 0.00 36.08 2.52
101 102 3.973472 AAGGACAAGGAGGGTTTCTTT 57.027 42.857 0.00 0.00 0.00 2.52
102 103 3.510531 AGGACAAGGAGGGTTTCTTTC 57.489 47.619 0.00 0.00 0.00 2.62
103 104 3.056832 AGGACAAGGAGGGTTTCTTTCT 58.943 45.455 0.00 0.00 0.00 2.52
104 105 3.073209 AGGACAAGGAGGGTTTCTTTCTC 59.927 47.826 0.00 0.00 0.00 2.87
105 106 3.073209 GGACAAGGAGGGTTTCTTTCTCT 59.927 47.826 0.00 0.00 0.00 3.10
106 107 4.068599 GACAAGGAGGGTTTCTTTCTCTG 58.931 47.826 0.00 0.00 0.00 3.35
107 108 2.816672 CAAGGAGGGTTTCTTTCTCTGC 59.183 50.000 0.00 0.00 0.00 4.26
108 109 2.057922 AGGAGGGTTTCTTTCTCTGCA 58.942 47.619 0.00 0.00 0.00 4.41
109 110 2.646798 AGGAGGGTTTCTTTCTCTGCAT 59.353 45.455 0.00 0.00 0.00 3.96
110 111 2.751806 GGAGGGTTTCTTTCTCTGCATG 59.248 50.000 0.00 0.00 0.00 4.06
111 112 2.751806 GAGGGTTTCTTTCTCTGCATGG 59.248 50.000 0.00 0.00 0.00 3.66
112 113 1.203287 GGGTTTCTTTCTCTGCATGGC 59.797 52.381 0.00 0.00 0.00 4.40
113 114 1.203287 GGTTTCTTTCTCTGCATGGCC 59.797 52.381 0.00 0.00 0.00 5.36
114 115 1.203287 GTTTCTTTCTCTGCATGGCCC 59.797 52.381 0.00 0.00 0.00 5.80
115 116 0.323725 TTCTTTCTCTGCATGGCCCC 60.324 55.000 0.00 0.00 0.00 5.80
116 117 1.210204 TCTTTCTCTGCATGGCCCCT 61.210 55.000 0.00 0.00 0.00 4.79
117 118 0.324091 CTTTCTCTGCATGGCCCCTT 60.324 55.000 0.00 0.00 0.00 3.95
118 119 0.114954 TTTCTCTGCATGGCCCCTTT 59.885 50.000 0.00 0.00 0.00 3.11
119 120 0.998928 TTCTCTGCATGGCCCCTTTA 59.001 50.000 0.00 0.00 0.00 1.85
120 121 0.548031 TCTCTGCATGGCCCCTTTAG 59.452 55.000 0.00 0.00 0.00 1.85
121 122 0.466922 CTCTGCATGGCCCCTTTAGG 60.467 60.000 0.00 0.00 0.00 2.69
122 123 0.918799 TCTGCATGGCCCCTTTAGGA 60.919 55.000 0.00 0.00 38.24 2.94
123 124 0.753111 CTGCATGGCCCCTTTAGGAC 60.753 60.000 0.00 0.00 38.24 3.85
127 128 2.083715 TGGCCCCTTTAGGACAAGG 58.916 57.895 0.00 0.00 44.04 3.61
137 138 5.877491 CCTTTAGGACAAGGGTCTTTAACT 58.123 41.667 0.00 0.00 43.77 2.24
138 139 6.304624 CCTTTAGGACAAGGGTCTTTAACTT 58.695 40.000 0.00 0.00 43.77 2.66
139 140 6.430308 CCTTTAGGACAAGGGTCTTTAACTTC 59.570 42.308 0.00 0.00 43.77 3.01
140 141 4.368565 AGGACAAGGGTCTTTAACTTCC 57.631 45.455 0.00 0.00 43.77 3.46
141 142 3.981375 AGGACAAGGGTCTTTAACTTCCT 59.019 43.478 0.00 0.00 43.77 3.36
142 143 4.415846 AGGACAAGGGTCTTTAACTTCCTT 59.584 41.667 0.00 0.00 43.77 3.36
143 144 5.609708 AGGACAAGGGTCTTTAACTTCCTTA 59.390 40.000 0.00 0.00 43.77 2.69
144 145 5.704515 GGACAAGGGTCTTTAACTTCCTTAC 59.295 44.000 0.00 0.00 43.77 2.34
145 146 6.256643 ACAAGGGTCTTTAACTTCCTTACA 57.743 37.500 0.00 0.00 36.21 2.41
146 147 6.849151 ACAAGGGTCTTTAACTTCCTTACAT 58.151 36.000 0.00 0.00 36.21 2.29
147 148 7.295340 ACAAGGGTCTTTAACTTCCTTACATT 58.705 34.615 0.00 0.00 36.21 2.71
148 149 7.447545 ACAAGGGTCTTTAACTTCCTTACATTC 59.552 37.037 0.00 0.00 36.21 2.67
149 150 6.482524 AGGGTCTTTAACTTCCTTACATTCC 58.517 40.000 0.00 0.00 0.00 3.01
150 151 6.045106 AGGGTCTTTAACTTCCTTACATTCCA 59.955 38.462 0.00 0.00 0.00 3.53
151 152 6.890268 GGGTCTTTAACTTCCTTACATTCCAT 59.110 38.462 0.00 0.00 0.00 3.41
152 153 8.050930 GGGTCTTTAACTTCCTTACATTCCATA 58.949 37.037 0.00 0.00 0.00 2.74
153 154 9.628500 GGTCTTTAACTTCCTTACATTCCATAT 57.372 33.333 0.00 0.00 0.00 1.78
160 161 9.838339 AACTTCCTTACATTCCATATTACTCAG 57.162 33.333 0.00 0.00 0.00 3.35
161 162 8.432805 ACTTCCTTACATTCCATATTACTCAGG 58.567 37.037 0.00 0.00 0.00 3.86
162 163 7.931015 TCCTTACATTCCATATTACTCAGGT 57.069 36.000 0.00 0.00 0.00 4.00
163 164 9.442062 TTCCTTACATTCCATATTACTCAGGTA 57.558 33.333 0.00 0.00 0.00 3.08
164 165 9.442062 TCCTTACATTCCATATTACTCAGGTAA 57.558 33.333 0.00 0.00 41.42 2.85
217 218 7.610865 TCACAAATTTTAGTTTCATCCATCCC 58.389 34.615 0.00 0.00 0.00 3.85
218 219 7.234371 TCACAAATTTTAGTTTCATCCATCCCA 59.766 33.333 0.00 0.00 0.00 4.37
219 220 8.042515 CACAAATTTTAGTTTCATCCATCCCAT 58.957 33.333 0.00 0.00 0.00 4.00
220 221 9.265862 ACAAATTTTAGTTTCATCCATCCCATA 57.734 29.630 0.00 0.00 0.00 2.74
225 226 8.837099 TTTAGTTTCATCCATCCCATAAATGT 57.163 30.769 0.00 0.00 0.00 2.71
226 227 6.720112 AGTTTCATCCATCCCATAAATGTG 57.280 37.500 0.00 0.00 0.00 3.21
227 228 6.197168 AGTTTCATCCATCCCATAAATGTGT 58.803 36.000 0.00 0.00 0.00 3.72
228 229 6.097270 AGTTTCATCCATCCCATAAATGTGTG 59.903 38.462 0.00 0.00 0.00 3.82
229 230 5.128033 TCATCCATCCCATAAATGTGTGT 57.872 39.130 0.00 0.00 0.00 3.72
230 231 4.888823 TCATCCATCCCATAAATGTGTGTG 59.111 41.667 0.00 0.00 0.00 3.82
231 232 4.314522 TCCATCCCATAAATGTGTGTGT 57.685 40.909 0.00 0.00 0.00 3.72
232 233 5.443230 TCCATCCCATAAATGTGTGTGTA 57.557 39.130 0.00 0.00 0.00 2.90
233 234 5.436175 TCCATCCCATAAATGTGTGTGTAG 58.564 41.667 0.00 0.00 0.00 2.74
234 235 5.190726 TCCATCCCATAAATGTGTGTGTAGA 59.809 40.000 0.00 0.00 0.00 2.59
235 236 5.885352 CCATCCCATAAATGTGTGTGTAGAA 59.115 40.000 0.00 0.00 0.00 2.10
236 237 6.547141 CCATCCCATAAATGTGTGTGTAGAAT 59.453 38.462 0.00 0.00 0.00 2.40
237 238 7.068593 CCATCCCATAAATGTGTGTGTAGAATT 59.931 37.037 0.00 0.00 0.00 2.17
238 239 7.624360 TCCCATAAATGTGTGTGTAGAATTC 57.376 36.000 0.00 0.00 0.00 2.17
239 240 7.402054 TCCCATAAATGTGTGTGTAGAATTCT 58.598 34.615 13.56 13.56 0.00 2.40
240 241 7.888021 TCCCATAAATGTGTGTGTAGAATTCTT 59.112 33.333 14.36 0.00 0.00 2.52
241 242 8.184192 CCCATAAATGTGTGTGTAGAATTCTTC 58.816 37.037 14.36 9.34 0.00 2.87
242 243 8.184192 CCATAAATGTGTGTGTAGAATTCTTCC 58.816 37.037 14.36 5.61 0.00 3.46
243 244 6.575162 AAATGTGTGTGTAGAATTCTTCCC 57.425 37.500 14.36 0.00 0.00 3.97
244 245 4.974645 TGTGTGTGTAGAATTCTTCCCT 57.025 40.909 14.36 0.00 0.00 4.20
245 246 4.641396 TGTGTGTGTAGAATTCTTCCCTG 58.359 43.478 14.36 0.00 0.00 4.45
272 273 8.813282 CAATCATGAAATGTCATACCAACAATG 58.187 33.333 0.00 0.00 46.80 2.82
285 286 5.284861 ACCAACAATGCTACGTATATCCA 57.715 39.130 0.00 0.00 0.00 3.41
314 315 7.795534 ATCCTCATAGAAGCATCTCTAACAT 57.204 36.000 0.00 0.00 37.10 2.71
324 325 7.446625 AGAAGCATCTCTAACATCAAAACTTGT 59.553 33.333 0.00 0.00 0.00 3.16
386 387 1.374631 GATCAGCCTGCACGTGTCA 60.375 57.895 18.38 14.27 0.00 3.58
413 414 0.657840 CTAAAGAGGGCATTTCGGCG 59.342 55.000 0.00 0.00 42.43 6.46
414 415 0.035820 TAAAGAGGGCATTTCGGCGT 60.036 50.000 6.85 0.00 42.43 5.68
438 439 0.674534 CCCTCTCGATTAAGGTCCCG 59.325 60.000 7.60 0.00 0.00 5.14
474 475 8.404107 TGGTTCATAATCACTCGTCTATCATA 57.596 34.615 0.00 0.00 0.00 2.15
503 504 2.031314 CACGATGACAATCTGACATGGC 59.969 50.000 0.00 0.00 33.24 4.40
573 574 6.978659 TGACGCTTATCGATTCATAAAACTCT 59.021 34.615 1.71 0.00 41.67 3.24
604 605 5.521010 TGTATCTCTTACATTAAAACCGGCG 59.479 40.000 0.00 0.00 35.86 6.46
640 641 3.659092 CCAAGCGCCGAAAGCACA 61.659 61.111 2.29 0.00 44.04 4.57
647 648 0.163788 CGCCGAAAGCACACTTACTG 59.836 55.000 0.00 0.00 44.04 2.74
684 685 1.287041 GGTGTCGTCCGGCAAACTAC 61.287 60.000 0.00 0.00 0.00 2.73
685 686 1.372004 TGTCGTCCGGCAAACTACG 60.372 57.895 0.00 0.00 36.71 3.51
686 687 2.431260 TCGTCCGGCAAACTACGC 60.431 61.111 6.26 0.00 35.40 4.42
762 763 3.636300 AGCCAATGAACAAAGCTGTACAA 59.364 39.130 0.00 0.00 33.45 2.41
765 766 4.445385 CCAATGAACAAAGCTGTACAAAGC 59.555 41.667 0.00 0.00 43.88 3.51
802 803 6.528537 ACTGCAATGCTTATCATAAAACCA 57.471 33.333 6.82 0.00 34.33 3.67
856 866 4.039609 AGAAGGAAAAACATTCAGGCCTTG 59.960 41.667 0.00 0.60 41.07 3.61
1095 1115 0.963856 TACACCTCATCGTCGCCACT 60.964 55.000 0.00 0.00 0.00 4.00
1349 1396 3.139077 CGTTTACAAAAGAGGGTGAGCT 58.861 45.455 0.00 0.00 0.00 4.09
1350 1397 3.058914 CGTTTACAAAAGAGGGTGAGCTG 60.059 47.826 0.00 0.00 0.00 4.24
1622 1696 1.388093 CGCTGACGAGTTCATCAACAG 59.612 52.381 0.00 0.00 43.93 3.16
1733 1807 4.168291 GCGCTAGGCTGGCCTCTT 62.168 66.667 18.06 0.00 44.43 2.85
1897 1979 6.625960 GCCAGCTCTGAAGGGTTAAAATAAAG 60.626 42.308 0.00 0.00 0.00 1.85
1898 1980 6.127619 CCAGCTCTGAAGGGTTAAAATAAAGG 60.128 42.308 0.00 0.00 0.00 3.11
1899 1981 5.952347 AGCTCTGAAGGGTTAAAATAAAGGG 59.048 40.000 0.00 0.00 0.00 3.95
1900 1982 5.127194 GCTCTGAAGGGTTAAAATAAAGGGG 59.873 44.000 0.00 0.00 0.00 4.79
1901 1983 6.471942 TCTGAAGGGTTAAAATAAAGGGGA 57.528 37.500 0.00 0.00 0.00 4.81
1935 2017 3.119291 GTGTGCATTCTGTATCTCTCCG 58.881 50.000 0.00 0.00 0.00 4.63
1985 2067 0.654683 GATGCGCTGTGGAATCTGAC 59.345 55.000 9.73 0.00 0.00 3.51
2018 2104 1.048160 TCTGCACCTGTCTGTCACCA 61.048 55.000 0.00 0.00 0.00 4.17
2019 2105 0.882042 CTGCACCTGTCTGTCACCAC 60.882 60.000 0.00 0.00 0.00 4.16
2020 2106 1.146041 GCACCTGTCTGTCACCACA 59.854 57.895 0.00 0.00 0.00 4.17
2021 2107 0.250467 GCACCTGTCTGTCACCACAT 60.250 55.000 0.00 0.00 0.00 3.21
2022 2108 1.001974 GCACCTGTCTGTCACCACATA 59.998 52.381 0.00 0.00 0.00 2.29
2023 2109 2.355108 GCACCTGTCTGTCACCACATAT 60.355 50.000 0.00 0.00 0.00 1.78
2025 2111 2.501723 ACCTGTCTGTCACCACATATCC 59.498 50.000 0.00 0.00 0.00 2.59
2026 2112 2.158900 CCTGTCTGTCACCACATATCCC 60.159 54.545 0.00 0.00 0.00 3.85
2027 2113 2.501316 CTGTCTGTCACCACATATCCCA 59.499 50.000 0.00 0.00 0.00 4.37
2028 2114 2.236146 TGTCTGTCACCACATATCCCAC 59.764 50.000 0.00 0.00 0.00 4.61
2029 2115 1.837439 TCTGTCACCACATATCCCACC 59.163 52.381 0.00 0.00 0.00 4.61
2030 2116 0.539518 TGTCACCACATATCCCACCG 59.460 55.000 0.00 0.00 0.00 4.94
2031 2117 0.539986 GTCACCACATATCCCACCGT 59.460 55.000 0.00 0.00 0.00 4.83
2032 2118 1.065709 GTCACCACATATCCCACCGTT 60.066 52.381 0.00 0.00 0.00 4.44
2033 2119 1.208535 TCACCACATATCCCACCGTTC 59.791 52.381 0.00 0.00 0.00 3.95
2034 2120 0.177141 ACCACATATCCCACCGTTCG 59.823 55.000 0.00 0.00 0.00 3.95
2035 2121 0.531974 CCACATATCCCACCGTTCGG 60.532 60.000 9.81 9.81 0.00 4.30
2036 2122 1.145377 ACATATCCCACCGTTCGGC 59.855 57.895 11.32 0.00 0.00 5.54
2041 2127 0.610785 ATCCCACCGTTCGGCATTTT 60.611 50.000 11.32 0.00 0.00 1.82
2052 2138 4.319190 CGTTCGGCATTTTGTTTAGACAGA 60.319 41.667 0.00 0.00 37.04 3.41
2053 2139 4.742438 TCGGCATTTTGTTTAGACAGAC 57.258 40.909 0.00 0.00 37.04 3.51
2054 2140 4.130857 TCGGCATTTTGTTTAGACAGACA 58.869 39.130 0.00 0.00 37.04 3.41
2069 2155 2.682856 ACAGACAACAACGAGCACATTT 59.317 40.909 0.00 0.00 0.00 2.32
2116 2202 2.967270 GCTTCTGCCCAGGTTCAAT 58.033 52.632 0.00 0.00 0.00 2.57
2125 2211 3.006752 TGCCCAGGTTCAATTTGTTGATC 59.993 43.478 0.00 0.00 0.00 2.92
2154 2240 3.919163 CCGTATAGGCGGCCAATTA 57.081 52.632 23.09 5.25 45.47 1.40
2353 2445 5.459107 CAGATTAGGAACACGTAGCACATAC 59.541 44.000 0.00 0.00 0.00 2.39
2392 2484 4.398044 ACACATGTCAAACGAGAAAGGTTT 59.602 37.500 0.00 0.00 38.07 3.27
2411 2503 4.557205 GTTTAGGACATACTAGGGCATCG 58.443 47.826 0.00 0.00 0.00 3.84
2466 2558 1.697432 TGAAACAAGATGGTCGTCCCT 59.303 47.619 0.00 0.00 0.00 4.20
2467 2559 2.289444 TGAAACAAGATGGTCGTCCCTC 60.289 50.000 0.00 0.00 0.00 4.30
2489 2581 4.156190 TCGTAGAGGAAGTAGTCAAAGCAG 59.844 45.833 0.00 0.00 0.00 4.24
2491 2583 4.529109 AGAGGAAGTAGTCAAAGCAGAC 57.471 45.455 0.00 0.00 38.81 3.51
2496 2588 3.290308 AGTAGTCAAAGCAGACAGACG 57.710 47.619 6.72 0.00 40.98 4.18
2536 2628 0.321653 ACTTGAGGGGACAATCGCAC 60.322 55.000 0.00 0.00 0.00 5.34
2543 2635 0.165944 GGGACAATCGCACTGAAACG 59.834 55.000 0.00 0.00 0.00 3.60
2559 2651 0.537371 AACGCTCCCCAAGAACCTTG 60.537 55.000 0.00 0.00 0.00 3.61
2564 2656 1.971695 CCCCAAGAACCTTGTCGCC 60.972 63.158 6.04 0.00 0.00 5.54
2569 2661 2.046217 GAACCTTGTCGCCCCTCC 60.046 66.667 0.00 0.00 0.00 4.30
2571 2663 2.523453 GAACCTTGTCGCCCCTCCTC 62.523 65.000 0.00 0.00 0.00 3.71
2574 2666 3.672295 CTTGTCGCCCCTCCTCTGC 62.672 68.421 0.00 0.00 0.00 4.26
2587 2679 0.035881 CCTCTGCTGCAGGTTCTCAA 59.964 55.000 27.79 7.26 31.51 3.02
2600 2692 2.781595 TTCTCAAGGGACGCGGCTTC 62.782 60.000 13.91 4.53 0.00 3.86
2613 2705 1.376553 GGCTTCAGAGGTCTGCACC 60.377 63.158 1.81 0.29 43.46 5.01
2623 2715 2.933287 TCTGCACCCCCGAATGGT 60.933 61.111 0.00 0.00 36.21 3.55
2632 2724 1.153784 CCCGAATGGTTGTGCATGC 60.154 57.895 11.82 11.82 0.00 4.06
2638 2730 0.890542 ATGGTTGTGCATGCAGTCGT 60.891 50.000 23.41 9.35 0.00 4.34
2640 2732 1.207593 GTTGTGCATGCAGTCGTCC 59.792 57.895 23.41 8.85 0.00 4.79
2642 2734 3.490759 GTGCATGCAGTCGTCCGG 61.491 66.667 23.41 0.00 0.00 5.14
2647 2739 0.740868 CATGCAGTCGTCCGGATGTT 60.741 55.000 22.88 10.27 0.00 2.71
2649 2741 2.100631 GCAGTCGTCCGGATGTTGG 61.101 63.158 22.88 13.82 0.00 3.77
2653 2745 2.047274 CGTCCGGATGTTGGCACT 60.047 61.111 15.98 0.00 0.00 4.40
2673 2765 2.358898 CTGGGGAAACAACTCAACACAG 59.641 50.000 0.00 0.00 0.00 3.66
2674 2766 2.025793 TGGGGAAACAACTCAACACAGA 60.026 45.455 0.00 0.00 0.00 3.41
2675 2767 2.618709 GGGGAAACAACTCAACACAGAG 59.381 50.000 0.00 0.00 41.44 3.35
2676 2768 2.618709 GGGAAACAACTCAACACAGAGG 59.381 50.000 0.00 0.00 39.97 3.69
2677 2769 3.541632 GGAAACAACTCAACACAGAGGA 58.458 45.455 0.00 0.00 39.97 3.71
2678 2770 3.945285 GGAAACAACTCAACACAGAGGAA 59.055 43.478 0.00 0.00 39.97 3.36
2679 2771 4.201920 GGAAACAACTCAACACAGAGGAAC 60.202 45.833 0.00 0.00 39.97 3.62
2698 2790 2.487934 ACTCAGCAGATGTGTGTGTTC 58.512 47.619 0.00 0.00 34.41 3.18
2704 2796 2.355756 GCAGATGTGTGTGTTCTGTTGT 59.644 45.455 0.00 0.00 39.24 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.036388 GTGATGGGAGGAAGCACGAA 60.036 55.000 0.00 0.00 0.00 3.85
4 5 0.904865 AGTGATGGGAGGAAGCACGA 60.905 55.000 0.00 0.00 34.82 4.35
6 7 0.393537 CCAGTGATGGGAGGAAGCAC 60.394 60.000 0.00 0.00 0.00 4.40
7 8 1.993653 CCAGTGATGGGAGGAAGCA 59.006 57.895 0.00 0.00 0.00 3.91
8 9 4.972875 CCAGTGATGGGAGGAAGC 57.027 61.111 0.00 0.00 0.00 3.86
16 17 1.679977 CCACAAGGCCCAGTGATGG 60.680 63.158 22.89 13.60 37.97 3.51
17 18 1.679977 CCCACAAGGCCCAGTGATG 60.680 63.158 22.89 11.87 37.97 3.07
18 19 2.765969 CCCACAAGGCCCAGTGAT 59.234 61.111 22.89 0.00 37.97 3.06
36 37 1.601171 CAGAAGGTCTGCCAGAGGG 59.399 63.158 0.00 0.00 37.72 4.30
45 46 1.985116 GGAGCCCGACAGAAGGTCT 60.985 63.158 0.00 0.00 44.68 3.85
46 47 1.985116 AGGAGCCCGACAGAAGGTC 60.985 63.158 0.00 0.00 43.36 3.85
47 48 2.120718 AGGAGCCCGACAGAAGGT 59.879 61.111 0.00 0.00 0.00 3.50
48 49 0.970937 TACAGGAGCCCGACAGAAGG 60.971 60.000 0.00 0.00 0.00 3.46
49 50 0.895530 TTACAGGAGCCCGACAGAAG 59.104 55.000 0.00 0.00 0.00 2.85
50 51 1.344065 TTTACAGGAGCCCGACAGAA 58.656 50.000 0.00 0.00 0.00 3.02
51 52 1.001633 GTTTTACAGGAGCCCGACAGA 59.998 52.381 0.00 0.00 0.00 3.41
52 53 1.439679 GTTTTACAGGAGCCCGACAG 58.560 55.000 0.00 0.00 0.00 3.51
53 54 0.035739 GGTTTTACAGGAGCCCGACA 59.964 55.000 0.00 0.00 0.00 4.35
54 55 0.675837 GGGTTTTACAGGAGCCCGAC 60.676 60.000 0.00 0.00 0.00 4.79
55 56 1.681076 GGGTTTTACAGGAGCCCGA 59.319 57.895 0.00 0.00 0.00 5.14
56 57 1.378119 GGGGTTTTACAGGAGCCCG 60.378 63.158 0.00 0.00 43.08 6.13
57 58 4.757773 GGGGTTTTACAGGAGCCC 57.242 61.111 0.00 0.00 45.42 5.19
58 59 1.254026 GTTGGGGTTTTACAGGAGCC 58.746 55.000 0.00 0.00 0.00 4.70
59 60 1.254026 GGTTGGGGTTTTACAGGAGC 58.746 55.000 0.00 0.00 0.00 4.70
60 61 1.427753 AGGGTTGGGGTTTTACAGGAG 59.572 52.381 0.00 0.00 0.00 3.69
61 62 1.536644 AGGGTTGGGGTTTTACAGGA 58.463 50.000 0.00 0.00 0.00 3.86
62 63 3.427573 CTTAGGGTTGGGGTTTTACAGG 58.572 50.000 0.00 0.00 0.00 4.00
63 64 3.074836 TCCTTAGGGTTGGGGTTTTACAG 59.925 47.826 0.00 0.00 0.00 2.74
64 65 3.062129 TCCTTAGGGTTGGGGTTTTACA 58.938 45.455 0.00 0.00 0.00 2.41
65 66 3.181430 TGTCCTTAGGGTTGGGGTTTTAC 60.181 47.826 0.00 0.00 0.00 2.01
66 67 3.062129 TGTCCTTAGGGTTGGGGTTTTA 58.938 45.455 0.00 0.00 0.00 1.52
67 68 1.860906 TGTCCTTAGGGTTGGGGTTTT 59.139 47.619 0.00 0.00 0.00 2.43
68 69 1.536644 TGTCCTTAGGGTTGGGGTTT 58.463 50.000 0.00 0.00 0.00 3.27
69 70 1.427753 CTTGTCCTTAGGGTTGGGGTT 59.572 52.381 0.00 0.00 0.00 4.11
70 71 1.073098 CTTGTCCTTAGGGTTGGGGT 58.927 55.000 0.00 0.00 0.00 4.95
71 72 0.331616 CCTTGTCCTTAGGGTTGGGG 59.668 60.000 0.00 0.00 0.00 4.96
72 73 1.282157 CTCCTTGTCCTTAGGGTTGGG 59.718 57.143 0.00 0.00 33.41 4.12
73 74 1.282157 CCTCCTTGTCCTTAGGGTTGG 59.718 57.143 0.00 0.00 33.41 3.77
74 75 1.282157 CCCTCCTTGTCCTTAGGGTTG 59.718 57.143 0.00 0.00 43.26 3.77
75 76 1.670059 CCCTCCTTGTCCTTAGGGTT 58.330 55.000 0.00 0.00 43.26 4.11
76 77 3.419154 CCCTCCTTGTCCTTAGGGT 57.581 57.895 0.00 0.00 43.26 4.34
78 79 2.913617 AGAAACCCTCCTTGTCCTTAGG 59.086 50.000 0.00 0.00 0.00 2.69
79 80 4.642466 AAGAAACCCTCCTTGTCCTTAG 57.358 45.455 0.00 0.00 0.00 2.18
80 81 4.663592 AGAAAGAAACCCTCCTTGTCCTTA 59.336 41.667 0.00 0.00 0.00 2.69
81 82 3.463704 AGAAAGAAACCCTCCTTGTCCTT 59.536 43.478 0.00 0.00 0.00 3.36
82 83 3.056832 AGAAAGAAACCCTCCTTGTCCT 58.943 45.455 0.00 0.00 0.00 3.85
83 84 3.073209 AGAGAAAGAAACCCTCCTTGTCC 59.927 47.826 0.00 0.00 0.00 4.02
84 85 4.068599 CAGAGAAAGAAACCCTCCTTGTC 58.931 47.826 0.00 0.00 0.00 3.18
85 86 3.748989 GCAGAGAAAGAAACCCTCCTTGT 60.749 47.826 0.00 0.00 0.00 3.16
86 87 2.816672 GCAGAGAAAGAAACCCTCCTTG 59.183 50.000 0.00 0.00 0.00 3.61
87 88 2.443255 TGCAGAGAAAGAAACCCTCCTT 59.557 45.455 0.00 0.00 0.00 3.36
88 89 2.057922 TGCAGAGAAAGAAACCCTCCT 58.942 47.619 0.00 0.00 0.00 3.69
89 90 2.568623 TGCAGAGAAAGAAACCCTCC 57.431 50.000 0.00 0.00 0.00 4.30
90 91 2.751806 CCATGCAGAGAAAGAAACCCTC 59.248 50.000 0.00 0.00 0.00 4.30
91 92 2.800250 CCATGCAGAGAAAGAAACCCT 58.200 47.619 0.00 0.00 0.00 4.34
92 93 1.203287 GCCATGCAGAGAAAGAAACCC 59.797 52.381 0.00 0.00 0.00 4.11
93 94 1.203287 GGCCATGCAGAGAAAGAAACC 59.797 52.381 0.00 0.00 0.00 3.27
94 95 1.203287 GGGCCATGCAGAGAAAGAAAC 59.797 52.381 4.39 0.00 0.00 2.78
95 96 1.549203 GGGCCATGCAGAGAAAGAAA 58.451 50.000 4.39 0.00 0.00 2.52
96 97 0.323725 GGGGCCATGCAGAGAAAGAA 60.324 55.000 4.39 0.00 0.00 2.52
97 98 1.210204 AGGGGCCATGCAGAGAAAGA 61.210 55.000 4.39 0.00 0.00 2.52
98 99 0.324091 AAGGGGCCATGCAGAGAAAG 60.324 55.000 4.39 0.00 0.00 2.62
99 100 0.114954 AAAGGGGCCATGCAGAGAAA 59.885 50.000 4.39 0.00 0.00 2.52
100 101 0.998928 TAAAGGGGCCATGCAGAGAA 59.001 50.000 4.39 0.00 0.00 2.87
101 102 0.548031 CTAAAGGGGCCATGCAGAGA 59.452 55.000 4.39 0.00 0.00 3.10
102 103 0.466922 CCTAAAGGGGCCATGCAGAG 60.467 60.000 4.39 0.00 0.00 3.35
103 104 0.918799 TCCTAAAGGGGCCATGCAGA 60.919 55.000 4.39 0.00 35.41 4.26
104 105 0.753111 GTCCTAAAGGGGCCATGCAG 60.753 60.000 4.39 0.00 32.51 4.41
105 106 1.306296 GTCCTAAAGGGGCCATGCA 59.694 57.895 4.39 0.00 32.51 3.96
106 107 0.324275 TTGTCCTAAAGGGGCCATGC 60.324 55.000 4.39 0.00 39.39 4.06
107 108 1.686115 CCTTGTCCTAAAGGGGCCATG 60.686 57.143 4.39 0.00 42.68 3.66
108 109 0.631212 CCTTGTCCTAAAGGGGCCAT 59.369 55.000 4.39 0.00 42.68 4.40
109 110 2.083715 CCTTGTCCTAAAGGGGCCA 58.916 57.895 4.39 0.00 42.68 5.36
114 115 5.877491 AGTTAAAGACCCTTGTCCTAAAGG 58.123 41.667 0.00 0.00 45.48 3.11
115 116 6.430308 GGAAGTTAAAGACCCTTGTCCTAAAG 59.570 42.308 0.00 0.00 42.81 1.85
116 117 6.102174 AGGAAGTTAAAGACCCTTGTCCTAAA 59.898 38.462 0.00 0.00 42.81 1.85
117 118 5.609708 AGGAAGTTAAAGACCCTTGTCCTAA 59.390 40.000 0.00 0.00 42.81 2.69
118 119 5.160386 AGGAAGTTAAAGACCCTTGTCCTA 58.840 41.667 0.00 0.00 42.81 2.94
119 120 3.981375 AGGAAGTTAAAGACCCTTGTCCT 59.019 43.478 0.00 0.00 42.81 3.85
120 121 4.368565 AGGAAGTTAAAGACCCTTGTCC 57.631 45.455 0.00 0.00 42.81 4.02
121 122 6.293698 TGTAAGGAAGTTAAAGACCCTTGTC 58.706 40.000 0.00 0.00 42.09 3.18
122 123 6.256643 TGTAAGGAAGTTAAAGACCCTTGT 57.743 37.500 0.00 0.00 37.73 3.16
123 124 7.094334 GGAATGTAAGGAAGTTAAAGACCCTTG 60.094 40.741 0.00 0.00 37.73 3.61
124 125 6.946583 GGAATGTAAGGAAGTTAAAGACCCTT 59.053 38.462 0.00 0.00 40.11 3.95
125 126 6.045106 TGGAATGTAAGGAAGTTAAAGACCCT 59.955 38.462 0.00 0.00 0.00 4.34
126 127 6.243148 TGGAATGTAAGGAAGTTAAAGACCC 58.757 40.000 0.00 0.00 0.00 4.46
127 128 7.939784 ATGGAATGTAAGGAAGTTAAAGACC 57.060 36.000 0.00 0.00 0.00 3.85
134 135 9.838339 CTGAGTAATATGGAATGTAAGGAAGTT 57.162 33.333 0.00 0.00 0.00 2.66
135 136 8.432805 CCTGAGTAATATGGAATGTAAGGAAGT 58.567 37.037 0.00 0.00 0.00 3.01
136 137 8.432805 ACCTGAGTAATATGGAATGTAAGGAAG 58.567 37.037 0.00 0.00 0.00 3.46
137 138 8.331931 ACCTGAGTAATATGGAATGTAAGGAA 57.668 34.615 0.00 0.00 0.00 3.36
138 139 7.931015 ACCTGAGTAATATGGAATGTAAGGA 57.069 36.000 0.00 0.00 0.00 3.36
191 192 8.260114 GGGATGGATGAAACTAAAATTTGTGAT 58.740 33.333 0.00 0.00 0.00 3.06
192 193 7.234371 TGGGATGGATGAAACTAAAATTTGTGA 59.766 33.333 0.00 0.00 0.00 3.58
193 194 7.385267 TGGGATGGATGAAACTAAAATTTGTG 58.615 34.615 0.00 0.00 0.00 3.33
194 195 7.552050 TGGGATGGATGAAACTAAAATTTGT 57.448 32.000 0.00 0.00 0.00 2.83
199 200 9.265862 ACATTTATGGGATGGATGAAACTAAAA 57.734 29.630 0.00 0.00 0.00 1.52
200 201 8.694540 CACATTTATGGGATGGATGAAACTAAA 58.305 33.333 0.00 0.00 31.22 1.85
201 202 7.838696 ACACATTTATGGGATGGATGAAACTAA 59.161 33.333 0.00 0.00 34.60 2.24
202 203 7.285172 CACACATTTATGGGATGGATGAAACTA 59.715 37.037 0.00 0.00 34.60 2.24
203 204 6.097270 CACACATTTATGGGATGGATGAAACT 59.903 38.462 0.00 0.00 34.60 2.66
204 205 6.127366 ACACACATTTATGGGATGGATGAAAC 60.127 38.462 0.00 0.00 34.60 2.78
205 206 5.957168 ACACACATTTATGGGATGGATGAAA 59.043 36.000 0.00 0.00 34.60 2.69
206 207 5.360429 CACACACATTTATGGGATGGATGAA 59.640 40.000 0.00 0.00 34.60 2.57
207 208 4.888823 CACACACATTTATGGGATGGATGA 59.111 41.667 0.00 0.00 34.60 2.92
208 209 4.646040 ACACACACATTTATGGGATGGATG 59.354 41.667 0.00 0.00 34.60 3.51
209 210 4.870636 ACACACACATTTATGGGATGGAT 58.129 39.130 0.00 0.00 34.60 3.41
210 211 4.314522 ACACACACATTTATGGGATGGA 57.685 40.909 0.00 0.00 34.60 3.41
211 212 5.436175 TCTACACACACATTTATGGGATGG 58.564 41.667 0.00 0.00 34.60 3.51
212 213 7.572523 ATTCTACACACACATTTATGGGATG 57.427 36.000 0.00 0.00 34.60 3.51
213 214 8.055181 AGAATTCTACACACACATTTATGGGAT 58.945 33.333 6.06 0.00 34.60 3.85
214 215 7.402054 AGAATTCTACACACACATTTATGGGA 58.598 34.615 6.06 0.00 34.60 4.37
215 216 7.630242 AGAATTCTACACACACATTTATGGG 57.370 36.000 6.06 0.00 37.19 4.00
216 217 8.184192 GGAAGAATTCTACACACACATTTATGG 58.816 37.037 8.75 0.00 46.56 2.74
217 218 8.184192 GGGAAGAATTCTACACACACATTTATG 58.816 37.037 8.75 0.00 46.56 1.90
218 219 8.109634 AGGGAAGAATTCTACACACACATTTAT 58.890 33.333 8.75 0.00 46.56 1.40
219 220 7.390440 CAGGGAAGAATTCTACACACACATTTA 59.610 37.037 8.75 0.00 46.56 1.40
220 221 6.207417 CAGGGAAGAATTCTACACACACATTT 59.793 38.462 8.75 0.00 46.56 2.32
221 222 5.707298 CAGGGAAGAATTCTACACACACATT 59.293 40.000 8.75 0.00 46.56 2.71
222 223 5.248640 CAGGGAAGAATTCTACACACACAT 58.751 41.667 8.75 0.00 46.56 3.21
223 224 4.641396 CAGGGAAGAATTCTACACACACA 58.359 43.478 8.75 0.00 46.56 3.72
224 225 3.437049 GCAGGGAAGAATTCTACACACAC 59.563 47.826 8.75 0.04 46.56 3.82
225 226 3.072330 TGCAGGGAAGAATTCTACACACA 59.928 43.478 8.75 0.86 46.56 3.72
226 227 3.674997 TGCAGGGAAGAATTCTACACAC 58.325 45.455 8.75 4.98 46.56 3.82
227 228 4.365514 TTGCAGGGAAGAATTCTACACA 57.634 40.909 8.75 2.98 46.56 3.72
228 229 4.943705 TGATTGCAGGGAAGAATTCTACAC 59.056 41.667 8.75 3.72 46.56 2.90
229 230 5.178096 TGATTGCAGGGAAGAATTCTACA 57.822 39.130 8.75 0.00 46.56 2.74
230 231 5.824624 TCATGATTGCAGGGAAGAATTCTAC 59.175 40.000 8.75 4.97 46.56 2.59
231 232 6.005066 TCATGATTGCAGGGAAGAATTCTA 57.995 37.500 8.75 0.00 46.56 2.10
232 233 4.863548 TCATGATTGCAGGGAAGAATTCT 58.136 39.130 0.88 0.88 46.56 2.40
233 234 5.587388 TTCATGATTGCAGGGAAGAATTC 57.413 39.130 0.00 0.00 46.67 2.17
234 235 6.070424 ACATTTCATGATTGCAGGGAAGAATT 60.070 34.615 0.00 0.00 0.00 2.17
235 236 5.424252 ACATTTCATGATTGCAGGGAAGAAT 59.576 36.000 0.00 0.00 0.00 2.40
236 237 4.773674 ACATTTCATGATTGCAGGGAAGAA 59.226 37.500 0.00 0.00 0.00 2.52
237 238 4.346730 ACATTTCATGATTGCAGGGAAGA 58.653 39.130 0.00 0.00 0.00 2.87
238 239 4.158949 TGACATTTCATGATTGCAGGGAAG 59.841 41.667 0.00 0.00 0.00 3.46
239 240 4.087907 TGACATTTCATGATTGCAGGGAA 58.912 39.130 0.00 0.00 0.00 3.97
240 241 3.699413 TGACATTTCATGATTGCAGGGA 58.301 40.909 0.00 0.00 0.00 4.20
241 242 4.665833 ATGACATTTCATGATTGCAGGG 57.334 40.909 0.00 0.00 41.23 4.45
242 243 5.068067 TGGTATGACATTTCATGATTGCAGG 59.932 40.000 4.56 0.00 42.79 4.85
243 244 6.139048 TGGTATGACATTTCATGATTGCAG 57.861 37.500 4.56 0.00 42.79 4.41
244 245 6.071503 TGTTGGTATGACATTTCATGATTGCA 60.072 34.615 4.56 1.61 42.79 4.08
245 246 6.331845 TGTTGGTATGACATTTCATGATTGC 58.668 36.000 4.56 0.00 42.79 3.56
272 273 6.220930 TGAGGATTTTGTGGATATACGTAGC 58.779 40.000 0.08 0.00 0.00 3.58
285 286 6.897986 AGAGATGCTTCTATGAGGATTTTGT 58.102 36.000 1.44 0.00 30.30 2.83
314 315 3.386402 CCAAAAGGGGCTACAAGTTTTGA 59.614 43.478 7.28 0.00 39.43 2.69
324 325 0.547229 TACGGGTCCAAAAGGGGCTA 60.547 55.000 0.00 0.00 42.62 3.93
413 414 4.182339 GACCTTAATCGAGAGGGTTTCAC 58.818 47.826 14.53 0.00 37.36 3.18
414 415 3.197116 GGACCTTAATCGAGAGGGTTTCA 59.803 47.826 14.53 0.00 37.36 2.69
604 605 4.097863 CGGACGCGAAAAAGGGGC 62.098 66.667 15.93 0.00 0.00 5.80
667 668 1.372004 CGTAGTTTGCCGGACGACA 60.372 57.895 5.05 0.00 37.50 4.35
802 803 8.735692 TTTCTTTTTGCAGAAATGAAAAGGAT 57.264 26.923 20.22 0.00 37.77 3.24
856 866 1.446966 GAGGAGAAGCGGACAGTGC 60.447 63.158 0.00 0.00 0.00 4.40
1095 1115 1.968493 GCCCTGGAGGTGACGAATATA 59.032 52.381 0.00 0.00 38.26 0.86
1252 1290 1.204146 GGCTGTCCCAGATCCAGTAA 58.796 55.000 0.00 0.00 32.44 2.24
1349 1396 3.513768 ATGTGCGTGTGCTCGTCCA 62.514 57.895 0.00 0.00 43.34 4.02
1350 1397 2.738521 ATGTGCGTGTGCTCGTCC 60.739 61.111 0.00 0.00 43.34 4.79
1881 1963 8.192774 CGTTATTCCCCTTTATTTTAACCCTTC 58.807 37.037 0.00 0.00 0.00 3.46
1897 1979 1.064979 ACACCACATCCGTTATTCCCC 60.065 52.381 0.00 0.00 0.00 4.81
1898 1980 2.014128 CACACCACATCCGTTATTCCC 58.986 52.381 0.00 0.00 0.00 3.97
1899 1981 1.400494 GCACACCACATCCGTTATTCC 59.600 52.381 0.00 0.00 0.00 3.01
1900 1982 2.080693 TGCACACCACATCCGTTATTC 58.919 47.619 0.00 0.00 0.00 1.75
1901 1983 2.192664 TGCACACCACATCCGTTATT 57.807 45.000 0.00 0.00 0.00 1.40
1935 2017 1.814169 GACACGGATCCGAAAGCCC 60.814 63.158 39.55 18.60 42.83 5.19
1946 2028 3.552384 ACGGCCAAAGGACACGGA 61.552 61.111 2.24 0.00 0.00 4.69
1985 2067 2.578495 GTGCAGAAGAAACATCGCAAG 58.422 47.619 0.00 0.00 31.68 4.01
2018 2104 1.145377 GCCGAACGGTGGGATATGT 59.855 57.895 5.34 0.00 37.65 2.29
2019 2105 0.250295 ATGCCGAACGGTGGGATATG 60.250 55.000 5.34 0.00 35.57 1.78
2020 2106 0.472471 AATGCCGAACGGTGGGATAT 59.528 50.000 5.34 0.00 36.42 1.63
2021 2107 0.253610 AAATGCCGAACGGTGGGATA 59.746 50.000 5.34 0.00 36.42 2.59
2022 2108 0.610785 AAAATGCCGAACGGTGGGAT 60.611 50.000 5.34 0.00 39.48 3.85
2023 2109 1.228306 AAAATGCCGAACGGTGGGA 60.228 52.632 5.34 0.00 37.65 4.37
2025 2111 0.031449 AACAAAATGCCGAACGGTGG 59.969 50.000 14.63 0.00 37.65 4.61
2026 2112 1.846541 AAACAAAATGCCGAACGGTG 58.153 45.000 14.63 7.11 37.65 4.94
2027 2113 2.879646 TCTAAACAAAATGCCGAACGGT 59.120 40.909 14.63 0.00 37.65 4.83
2028 2114 3.231160 GTCTAAACAAAATGCCGAACGG 58.769 45.455 9.00 9.00 38.57 4.44
2029 2115 3.879427 TGTCTAAACAAAATGCCGAACG 58.121 40.909 0.00 0.00 30.70 3.95
2030 2116 4.909880 GTCTGTCTAAACAAAATGCCGAAC 59.090 41.667 0.00 0.00 34.24 3.95
2031 2117 4.576873 TGTCTGTCTAAACAAAATGCCGAA 59.423 37.500 0.00 0.00 34.24 4.30
2032 2118 4.130857 TGTCTGTCTAAACAAAATGCCGA 58.869 39.130 0.00 0.00 34.24 5.54
2033 2119 4.481930 TGTCTGTCTAAACAAAATGCCG 57.518 40.909 0.00 0.00 34.24 5.69
2034 2120 5.587289 TGTTGTCTGTCTAAACAAAATGCC 58.413 37.500 0.00 0.00 37.15 4.40
2035 2121 6.291060 CGTTGTTGTCTGTCTAAACAAAATGC 60.291 38.462 2.08 0.00 43.32 3.56
2036 2122 6.964370 TCGTTGTTGTCTGTCTAAACAAAATG 59.036 34.615 2.08 0.00 43.32 2.32
2041 2127 3.554324 GCTCGTTGTTGTCTGTCTAAACA 59.446 43.478 0.00 0.00 32.19 2.83
2052 2138 3.206150 AGAGAAATGTGCTCGTTGTTGT 58.794 40.909 0.00 0.00 37.46 3.32
2053 2139 3.662713 CGAGAGAAATGTGCTCGTTGTTG 60.663 47.826 0.00 0.00 44.59 3.33
2054 2140 2.476619 CGAGAGAAATGTGCTCGTTGTT 59.523 45.455 0.00 0.00 44.59 2.83
2069 2155 0.892755 ATACAAACCCGCACGAGAGA 59.107 50.000 0.00 0.00 0.00 3.10
2116 2202 2.811431 GGATGTGGACGTGATCAACAAA 59.189 45.455 0.00 0.00 44.79 2.83
2125 2211 1.602165 GCCTATACGGATGTGGACGTG 60.602 57.143 0.00 0.00 43.93 4.49
2213 2299 0.721718 GCTCTGCGTATGCTTTTCGT 59.278 50.000 8.69 0.00 43.34 3.85
2305 2397 4.769688 TGGATGTGATTTGCGAGTAATCT 58.230 39.130 0.00 0.00 34.00 2.40
2313 2405 3.770263 ATCTGTTGGATGTGATTTGCG 57.230 42.857 0.00 0.00 32.69 4.85
2353 2445 4.274214 ACATGTGTCTTTGATCCATATGCG 59.726 41.667 0.00 0.00 32.79 4.73
2357 2449 6.128309 CGTTTGACATGTGTCTTTGATCCATA 60.128 38.462 1.15 0.00 44.99 2.74
2362 2454 5.056480 TCTCGTTTGACATGTGTCTTTGAT 58.944 37.500 1.15 0.00 44.99 2.57
2380 2472 5.997384 AGTATGTCCTAAACCTTTCTCGT 57.003 39.130 0.00 0.00 0.00 4.18
2392 2484 2.377531 TCCGATGCCCTAGTATGTCCTA 59.622 50.000 0.00 0.00 0.00 2.94
2411 2503 0.944386 ATGTTGTTGCGTCAGTGTCC 59.056 50.000 0.00 0.00 0.00 4.02
2466 2558 4.077108 TGCTTTGACTACTTCCTCTACGA 58.923 43.478 0.00 0.00 0.00 3.43
2467 2559 4.156190 TCTGCTTTGACTACTTCCTCTACG 59.844 45.833 0.00 0.00 0.00 3.51
2474 2566 3.670991 CGTCTGTCTGCTTTGACTACTTC 59.329 47.826 6.63 0.00 37.79 3.01
2496 2588 2.831333 TCGACTACATCCTAGACGACC 58.169 52.381 0.00 0.00 36.97 4.79
2506 2598 2.758979 TCCCCTCAAGTTCGACTACATC 59.241 50.000 0.00 0.00 0.00 3.06
2536 2628 0.875059 GTTCTTGGGGAGCGTTTCAG 59.125 55.000 0.00 0.00 0.00 3.02
2543 2635 0.955919 CGACAAGGTTCTTGGGGAGC 60.956 60.000 11.65 0.00 0.00 4.70
2559 2651 4.154347 CAGCAGAGGAGGGGCGAC 62.154 72.222 0.00 0.00 0.00 5.19
2569 2661 1.440708 CTTGAGAACCTGCAGCAGAG 58.559 55.000 24.90 15.80 32.44 3.35
2571 2663 0.959372 CCCTTGAGAACCTGCAGCAG 60.959 60.000 16.23 16.23 0.00 4.24
2574 2666 0.671781 CGTCCCTTGAGAACCTGCAG 60.672 60.000 6.78 6.78 0.00 4.41
2578 2670 2.657237 CGCGTCCCTTGAGAACCT 59.343 61.111 0.00 0.00 0.00 3.50
2587 2679 3.764466 CTCTGAAGCCGCGTCCCT 61.764 66.667 4.92 0.00 0.00 4.20
2600 2692 4.087892 CGGGGGTGCAGACCTCTG 62.088 72.222 5.75 0.00 43.30 3.35
2613 2705 1.512230 CATGCACAACCATTCGGGG 59.488 57.895 0.00 0.00 42.91 5.73
2623 2715 2.316867 CGGACGACTGCATGCACAA 61.317 57.895 18.46 0.00 0.00 3.33
2632 2724 2.100631 GCCAACATCCGGACGACTG 61.101 63.158 6.12 3.10 0.00 3.51
2638 2730 2.350895 CCAGTGCCAACATCCGGA 59.649 61.111 6.61 6.61 0.00 5.14
2640 2732 2.751436 CCCCAGTGCCAACATCCG 60.751 66.667 0.00 0.00 0.00 4.18
2642 2734 0.603065 GTTTCCCCAGTGCCAACATC 59.397 55.000 0.00 0.00 0.00 3.06
2647 2739 0.467290 GAGTTGTTTCCCCAGTGCCA 60.467 55.000 0.00 0.00 0.00 4.92
2649 2741 1.067060 GTTGAGTTGTTTCCCCAGTGC 59.933 52.381 0.00 0.00 0.00 4.40
2653 2745 2.025793 TCTGTGTTGAGTTGTTTCCCCA 60.026 45.455 0.00 0.00 0.00 4.96
2673 2765 2.289320 ACACACATCTGCTGAGTTCCTC 60.289 50.000 0.00 0.00 0.00 3.71
2674 2766 1.696336 ACACACATCTGCTGAGTTCCT 59.304 47.619 0.00 0.00 0.00 3.36
2675 2767 1.802960 CACACACATCTGCTGAGTTCC 59.197 52.381 0.00 0.00 0.00 3.62
2676 2768 2.487934 ACACACACATCTGCTGAGTTC 58.512 47.619 0.00 0.00 0.00 3.01
2677 2769 2.627515 ACACACACATCTGCTGAGTT 57.372 45.000 0.00 0.00 0.00 3.01
2678 2770 2.103771 AGAACACACACATCTGCTGAGT 59.896 45.455 0.00 0.00 0.00 3.41
2679 2771 2.479275 CAGAACACACACATCTGCTGAG 59.521 50.000 0.00 0.00 34.72 3.35
2680 2772 2.158914 ACAGAACACACACATCTGCTGA 60.159 45.455 0.00 0.00 43.41 4.26
2681 2773 2.216046 ACAGAACACACACATCTGCTG 58.784 47.619 2.13 0.00 43.41 4.41
2682 2774 2.615447 CAACAGAACACACACATCTGCT 59.385 45.455 2.13 0.00 43.41 4.24
2683 2775 2.355756 ACAACAGAACACACACATCTGC 59.644 45.455 2.13 0.00 43.41 4.26
2698 2790 4.084013 CGGGAAAACTTGCTAGTACAACAG 60.084 45.833 0.00 0.00 33.17 3.16


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

AutoCloner maintained by Alex Coulton.