Multiple sequence alignment - TraesCS7A01G422400

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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 TraesCS7A01G422400 chr7A 100.000 2634 0 0 1 2634 612988978 612991611 0.000000e+00 4865.0
1 TraesCS7A01G422400 chr7A 96.283 269 10 0 1 269 131491462 131491730 2.410000e-120 442.0
2 TraesCS7A01G422400 chr7D 90.137 1967 86 46 715 2634 532897989 532899894 0.000000e+00 2459.0
3 TraesCS7A01G422400 chr7D 94.185 791 29 6 1852 2634 533432131 533432912 0.000000e+00 1190.0
4 TraesCS7A01G422400 chr7D 92.952 525 28 6 921 1445 533429986 533430501 0.000000e+00 756.0
5 TraesCS7A01G422400 chr7D 93.407 364 13 8 1501 1860 533430502 533430858 1.800000e-146 529.0
6 TraesCS7A01G422400 chr7D 87.847 288 29 6 270 554 533427801 533428085 1.510000e-87 333.0
7 TraesCS7A01G422400 chr7D 82.143 252 34 8 271 519 532896728 532896971 3.440000e-49 206.0
8 TraesCS7A01G422400 chr7D 76.819 371 21 25 591 924 533428072 533428414 5.870000e-32 148.0
9 TraesCS7A01G422400 chr7D 82.787 122 15 5 579 698 532897736 532897853 1.290000e-18 104.0
10 TraesCS7A01G422400 chr7D 87.778 90 8 2 2262 2349 532899374 532899462 4.640000e-18 102.0
11 TraesCS7A01G422400 chr7D 87.778 90 8 2 2262 2349 533432405 533432493 4.640000e-18 102.0
12 TraesCS7A01G422400 chr7B 90.364 1100 58 20 1571 2634 573260693 573261780 0.000000e+00 1400.0
13 TraesCS7A01G422400 chr7B 94.384 641 23 6 835 1473 573259441 573260070 0.000000e+00 972.0
14 TraesCS7A01G422400 chr7B 79.963 544 66 29 322 826 573258860 573259399 6.930000e-96 361.0
15 TraesCS7A01G422400 chr7B 86.517 89 9 2 2263 2349 573261260 573261347 7.760000e-16 95.3
16 TraesCS7A01G422400 chr3A 96.283 269 10 0 1 269 214015945 214016213 2.410000e-120 442.0
17 TraesCS7A01G422400 chr3A 95.926 270 9 2 1 269 596850207 596849939 1.120000e-118 436.0
18 TraesCS7A01G422400 chr3A 94.286 280 12 4 1 277 405118859 405118581 2.420000e-115 425.0
19 TraesCS7A01G422400 chr2A 96.283 269 9 1 1 269 469339017 469339284 8.650000e-120 440.0
20 TraesCS7A01G422400 chr2A 95.539 269 12 0 1 269 329445428 329445160 5.210000e-117 431.0
21 TraesCS7A01G422400 chr4A 95.556 270 12 0 1 270 582688082 582687813 1.450000e-117 433.0
22 TraesCS7A01G422400 chr1A 95.539 269 12 0 1 269 360319245 360318977 5.210000e-117 431.0
23 TraesCS7A01G422400 chr1A 95.539 269 11 1 1 269 380925784 380926051 1.870000e-116 429.0
24 TraesCS7A01G422400 chr5D 76.699 412 39 31 2261 2623 398907833 398908236 2.690000e-40 176.0
25 TraesCS7A01G422400 chr5B 82.353 170 16 10 2463 2623 479202869 479203033 4.570000e-28 135.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G422400 chr7A 612988978 612991611 2633 False 4865.000000 4865 100.000000 1 2634 1 chr7A.!!$F2 2633
1 TraesCS7A01G422400 chr7D 532896728 532899894 3166 False 717.750000 2459 85.711250 271 2634 4 chr7D.!!$F1 2363
2 TraesCS7A01G422400 chr7D 533427801 533432912 5111 False 509.666667 1190 88.831333 270 2634 6 chr7D.!!$F2 2364
3 TraesCS7A01G422400 chr7B 573258860 573261780 2920 False 707.075000 1400 87.807000 322 2634 4 chr7B.!!$F1 2312

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
93 94 0.034477 AACGGGGAAAATGCTCGGAT 60.034 50.0 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1967 6281 0.105964 GCCGTACCACCATATGCTGA 59.894 55.0 0.0 0.0 0.0 4.26 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
19 20 2.438933 GTTTAACACACGCACACGAA 57.561 45.000 0.00 0.00 43.93 3.85
20 21 2.771689 GTTTAACACACGCACACGAAA 58.228 42.857 0.00 0.00 43.93 3.46
21 22 3.162068 GTTTAACACACGCACACGAAAA 58.838 40.909 0.00 0.00 43.93 2.29
22 23 2.722936 TAACACACGCACACGAAAAG 57.277 45.000 0.00 0.00 43.93 2.27
23 24 1.080298 AACACACGCACACGAAAAGA 58.920 45.000 0.00 0.00 43.93 2.52
24 25 0.650512 ACACACGCACACGAAAAGAG 59.349 50.000 0.00 0.00 43.93 2.85
25 26 0.042188 CACACGCACACGAAAAGAGG 60.042 55.000 0.00 0.00 43.93 3.69
26 27 0.461339 ACACGCACACGAAAAGAGGT 60.461 50.000 0.00 0.00 43.93 3.85
27 28 1.202440 ACACGCACACGAAAAGAGGTA 60.202 47.619 0.00 0.00 43.93 3.08
28 29 1.455786 CACGCACACGAAAAGAGGTAG 59.544 52.381 0.00 0.00 43.93 3.18
29 30 1.338973 ACGCACACGAAAAGAGGTAGA 59.661 47.619 0.00 0.00 43.93 2.59
30 31 2.223876 ACGCACACGAAAAGAGGTAGAA 60.224 45.455 0.00 0.00 43.93 2.10
31 32 2.798283 CGCACACGAAAAGAGGTAGAAA 59.202 45.455 0.00 0.00 43.93 2.52
32 33 3.120991 CGCACACGAAAAGAGGTAGAAAG 60.121 47.826 0.00 0.00 43.93 2.62
33 34 3.186613 GCACACGAAAAGAGGTAGAAAGG 59.813 47.826 0.00 0.00 0.00 3.11
34 35 4.628074 CACACGAAAAGAGGTAGAAAGGA 58.372 43.478 0.00 0.00 0.00 3.36
35 36 4.448060 CACACGAAAAGAGGTAGAAAGGAC 59.552 45.833 0.00 0.00 0.00 3.85
36 37 3.995048 CACGAAAAGAGGTAGAAAGGACC 59.005 47.826 0.00 0.00 37.22 4.46
37 38 3.644738 ACGAAAAGAGGTAGAAAGGACCA 59.355 43.478 0.00 0.00 39.65 4.02
38 39 3.995048 CGAAAAGAGGTAGAAAGGACCAC 59.005 47.826 0.00 0.00 39.65 4.16
39 40 4.325119 GAAAAGAGGTAGAAAGGACCACC 58.675 47.826 0.00 0.00 39.65 4.61
40 41 1.558233 AGAGGTAGAAAGGACCACCG 58.442 55.000 0.00 0.00 39.65 4.94
41 42 0.535797 GAGGTAGAAAGGACCACCGG 59.464 60.000 0.00 0.00 39.65 5.28
42 43 0.115745 AGGTAGAAAGGACCACCGGA 59.884 55.000 9.46 0.00 39.65 5.14
43 44 0.535797 GGTAGAAAGGACCACCGGAG 59.464 60.000 9.46 0.00 41.83 4.63
56 57 4.251760 CGGAGGACATATGAGCGC 57.748 61.111 10.38 0.00 0.00 5.92
57 58 1.373497 CGGAGGACATATGAGCGCC 60.373 63.158 10.38 5.25 0.00 6.53
58 59 1.373497 GGAGGACATATGAGCGCCG 60.373 63.158 10.38 0.00 0.00 6.46
59 60 1.373497 GAGGACATATGAGCGCCGG 60.373 63.158 10.38 0.00 0.00 6.13
60 61 1.806461 GAGGACATATGAGCGCCGGA 61.806 60.000 5.05 0.00 0.00 5.14
61 62 1.069090 GGACATATGAGCGCCGGAA 59.931 57.895 5.05 0.00 0.00 4.30
62 63 0.320771 GGACATATGAGCGCCGGAAT 60.321 55.000 5.05 0.00 0.00 3.01
63 64 0.792640 GACATATGAGCGCCGGAATG 59.207 55.000 5.05 6.31 0.00 2.67
64 65 1.230635 ACATATGAGCGCCGGAATGC 61.231 55.000 5.05 5.46 0.00 3.56
65 66 1.071299 ATATGAGCGCCGGAATGCA 59.929 52.632 5.05 0.00 0.00 3.96
66 67 0.534877 ATATGAGCGCCGGAATGCAA 60.535 50.000 5.05 0.00 0.00 4.08
67 68 0.746204 TATGAGCGCCGGAATGCAAA 60.746 50.000 5.05 0.00 0.00 3.68
68 69 1.594194 ATGAGCGCCGGAATGCAAAA 61.594 50.000 5.05 0.00 0.00 2.44
69 70 1.801512 GAGCGCCGGAATGCAAAAC 60.802 57.895 5.05 0.00 0.00 2.43
70 71 3.171911 GCGCCGGAATGCAAAACG 61.172 61.111 5.05 0.00 0.00 3.60
75 76 3.855630 CGGAATGCAAAACGGACAA 57.144 47.368 0.00 0.00 0.00 3.18
76 77 1.404477 CGGAATGCAAAACGGACAAC 58.596 50.000 0.00 0.00 0.00 3.32
87 88 1.211709 CGGACAACGGGGAAAATGC 59.788 57.895 0.00 0.00 39.42 3.56
88 89 1.241315 CGGACAACGGGGAAAATGCT 61.241 55.000 0.00 0.00 39.42 3.79
89 90 0.526211 GGACAACGGGGAAAATGCTC 59.474 55.000 0.00 0.00 0.00 4.26
90 91 0.168128 GACAACGGGGAAAATGCTCG 59.832 55.000 0.00 0.00 0.00 5.03
91 92 1.241315 ACAACGGGGAAAATGCTCGG 61.241 55.000 0.00 0.00 0.00 4.63
92 93 0.958382 CAACGGGGAAAATGCTCGGA 60.958 55.000 0.00 0.00 0.00 4.55
93 94 0.034477 AACGGGGAAAATGCTCGGAT 60.034 50.000 0.00 0.00 0.00 4.18
94 95 0.748005 ACGGGGAAAATGCTCGGATG 60.748 55.000 0.00 0.00 0.00 3.51
95 96 1.735973 GGGGAAAATGCTCGGATGC 59.264 57.895 0.00 0.00 0.00 3.91
102 103 4.842292 TGCTCGGATGCATGAGAC 57.158 55.556 16.17 9.01 38.12 3.36
103 104 1.227060 TGCTCGGATGCATGAGACG 60.227 57.895 16.17 10.00 38.12 4.18
104 105 1.066422 GCTCGGATGCATGAGACGA 59.934 57.895 16.17 13.19 34.04 4.20
105 106 0.528466 GCTCGGATGCATGAGACGAA 60.528 55.000 16.17 1.71 34.04 3.85
106 107 1.203928 CTCGGATGCATGAGACGAAC 58.796 55.000 2.46 0.00 34.04 3.95
107 108 0.530288 TCGGATGCATGAGACGAACA 59.470 50.000 2.46 0.00 0.00 3.18
108 109 0.647410 CGGATGCATGAGACGAACAC 59.353 55.000 2.46 0.00 0.00 3.32
109 110 1.725641 GGATGCATGAGACGAACACA 58.274 50.000 2.46 0.00 0.00 3.72
110 111 2.283298 GGATGCATGAGACGAACACAT 58.717 47.619 2.46 0.00 0.00 3.21
111 112 3.457234 GGATGCATGAGACGAACACATA 58.543 45.455 2.46 0.00 0.00 2.29
112 113 4.060900 GGATGCATGAGACGAACACATAT 58.939 43.478 2.46 0.00 0.00 1.78
113 114 4.084171 GGATGCATGAGACGAACACATATG 60.084 45.833 2.46 0.00 0.00 1.78
114 115 2.609002 TGCATGAGACGAACACATATGC 59.391 45.455 1.58 0.00 0.00 3.14
115 116 2.609002 GCATGAGACGAACACATATGCA 59.391 45.455 1.58 0.00 29.91 3.96
116 117 3.063861 GCATGAGACGAACACATATGCAA 59.936 43.478 1.58 0.00 29.91 4.08
117 118 4.437255 GCATGAGACGAACACATATGCAAA 60.437 41.667 1.58 0.00 29.91 3.68
118 119 5.731406 GCATGAGACGAACACATATGCAAAT 60.731 40.000 1.58 0.00 29.91 2.32
119 120 5.220557 TGAGACGAACACATATGCAAATG 57.779 39.130 1.58 0.00 0.00 2.32
120 121 4.019919 AGACGAACACATATGCAAATGC 57.980 40.909 1.58 0.00 42.50 3.56
133 134 3.317744 GCAAATGCAATGCACATGATG 57.682 42.857 21.43 12.69 43.04 3.07
134 135 2.933260 GCAAATGCAATGCACATGATGA 59.067 40.909 21.43 0.00 43.04 2.92
135 136 3.242284 GCAAATGCAATGCACATGATGAC 60.242 43.478 21.43 4.57 43.04 3.06
136 137 3.878160 AATGCAATGCACATGATGACA 57.122 38.095 11.23 0.00 43.04 3.58
137 138 4.400529 AATGCAATGCACATGATGACAT 57.599 36.364 11.23 0.00 43.04 3.06
152 153 6.985188 TGATGACATGATATGAGATGCATG 57.015 37.500 2.46 0.00 42.75 4.06
153 154 6.707290 TGATGACATGATATGAGATGCATGA 58.293 36.000 2.46 0.00 40.29 3.07
154 155 6.594159 TGATGACATGATATGAGATGCATGAC 59.406 38.462 2.46 0.00 40.29 3.06
155 156 5.860611 TGACATGATATGAGATGCATGACA 58.139 37.500 2.46 4.19 40.29 3.58
156 157 6.292923 TGACATGATATGAGATGCATGACAA 58.707 36.000 2.46 0.00 39.26 3.18
157 158 6.768861 TGACATGATATGAGATGCATGACAAA 59.231 34.615 2.46 0.00 39.26 2.83
158 159 7.041372 TGACATGATATGAGATGCATGACAAAG 60.041 37.037 2.46 0.00 39.26 2.77
159 160 6.996282 ACATGATATGAGATGCATGACAAAGA 59.004 34.615 2.46 0.00 40.29 2.52
160 161 6.856135 TGATATGAGATGCATGACAAAGAC 57.144 37.500 2.46 0.00 37.87 3.01
161 162 6.350906 TGATATGAGATGCATGACAAAGACA 58.649 36.000 2.46 1.88 37.87 3.41
162 163 6.824704 TGATATGAGATGCATGACAAAGACAA 59.175 34.615 2.46 0.00 37.87 3.18
163 164 4.754372 TGAGATGCATGACAAAGACAAC 57.246 40.909 2.46 0.00 0.00 3.32
164 165 4.136051 TGAGATGCATGACAAAGACAACA 58.864 39.130 2.46 0.00 0.00 3.33
165 166 4.579753 TGAGATGCATGACAAAGACAACAA 59.420 37.500 2.46 0.00 0.00 2.83
166 167 4.863491 AGATGCATGACAAAGACAACAAC 58.137 39.130 2.46 0.00 0.00 3.32
167 168 4.338964 AGATGCATGACAAAGACAACAACA 59.661 37.500 2.46 0.00 0.00 3.33
168 169 3.768406 TGCATGACAAAGACAACAACAC 58.232 40.909 0.00 0.00 0.00 3.32
169 170 3.192212 TGCATGACAAAGACAACAACACA 59.808 39.130 0.00 0.00 0.00 3.72
170 171 4.142204 TGCATGACAAAGACAACAACACAT 60.142 37.500 0.00 0.00 0.00 3.21
171 172 4.207635 GCATGACAAAGACAACAACACATG 59.792 41.667 0.00 0.00 36.65 3.21
172 173 4.368874 TGACAAAGACAACAACACATGG 57.631 40.909 0.00 0.00 0.00 3.66
173 174 4.013050 TGACAAAGACAACAACACATGGA 58.987 39.130 0.00 0.00 0.00 3.41
174 175 4.096231 TGACAAAGACAACAACACATGGAG 59.904 41.667 0.00 0.00 0.00 3.86
175 176 4.269183 ACAAAGACAACAACACATGGAGA 58.731 39.130 0.00 0.00 0.00 3.71
176 177 4.096382 ACAAAGACAACAACACATGGAGAC 59.904 41.667 0.00 0.00 0.00 3.36
189 190 2.421751 TGGAGACAAAAACCCGACAA 57.578 45.000 0.00 0.00 37.44 3.18
190 191 2.018515 TGGAGACAAAAACCCGACAAC 58.981 47.619 0.00 0.00 37.44 3.32
191 192 1.003223 GGAGACAAAAACCCGACAACG 60.003 52.381 0.00 0.00 39.43 4.10
210 211 9.685005 CGACAACGGAGAAATAAAATAACTTAG 57.315 33.333 0.00 0.00 35.72 2.18
213 214 9.274065 CAACGGAGAAATAAAATAACTTAGTGC 57.726 33.333 0.00 0.00 0.00 4.40
214 215 7.982224 ACGGAGAAATAAAATAACTTAGTGCC 58.018 34.615 0.00 0.00 0.00 5.01
215 216 7.123830 CGGAGAAATAAAATAACTTAGTGCCG 58.876 38.462 0.00 0.00 0.00 5.69
216 217 7.415229 GGAGAAATAAAATAACTTAGTGCCGG 58.585 38.462 0.00 0.00 0.00 6.13
217 218 7.281549 GGAGAAATAAAATAACTTAGTGCCGGA 59.718 37.037 5.05 0.00 0.00 5.14
218 219 8.570068 AGAAATAAAATAACTTAGTGCCGGAA 57.430 30.769 5.05 0.00 0.00 4.30
219 220 9.016438 AGAAATAAAATAACTTAGTGCCGGAAA 57.984 29.630 5.05 0.00 0.00 3.13
220 221 8.975410 AAATAAAATAACTTAGTGCCGGAAAC 57.025 30.769 5.05 1.67 0.00 2.78
233 234 3.015516 GGAAACGGCAAGAGTTGGA 57.984 52.632 0.00 0.00 31.43 3.53
234 235 0.875059 GGAAACGGCAAGAGTTGGAG 59.125 55.000 0.00 0.00 31.43 3.86
235 236 1.594331 GAAACGGCAAGAGTTGGAGT 58.406 50.000 0.00 0.00 31.43 3.85
236 237 2.549349 GGAAACGGCAAGAGTTGGAGTA 60.549 50.000 0.00 0.00 31.43 2.59
237 238 2.165319 AACGGCAAGAGTTGGAGTAC 57.835 50.000 0.00 0.00 0.00 2.73
238 239 1.045407 ACGGCAAGAGTTGGAGTACA 58.955 50.000 0.00 0.00 0.00 2.90
239 240 1.623811 ACGGCAAGAGTTGGAGTACAT 59.376 47.619 0.00 0.00 0.00 2.29
240 241 2.829720 ACGGCAAGAGTTGGAGTACATA 59.170 45.455 0.00 0.00 0.00 2.29
241 242 3.451178 ACGGCAAGAGTTGGAGTACATAT 59.549 43.478 0.00 0.00 0.00 1.78
242 243 4.647853 ACGGCAAGAGTTGGAGTACATATA 59.352 41.667 0.00 0.00 0.00 0.86
243 244 5.128171 ACGGCAAGAGTTGGAGTACATATAA 59.872 40.000 0.00 0.00 0.00 0.98
244 245 5.692204 CGGCAAGAGTTGGAGTACATATAAG 59.308 44.000 0.00 0.00 0.00 1.73
245 246 5.992217 GGCAAGAGTTGGAGTACATATAAGG 59.008 44.000 0.00 0.00 0.00 2.69
246 247 6.408206 GGCAAGAGTTGGAGTACATATAAGGT 60.408 42.308 0.00 0.00 0.00 3.50
247 248 7.201974 GGCAAGAGTTGGAGTACATATAAGGTA 60.202 40.741 0.00 0.00 0.00 3.08
248 249 8.202137 GCAAGAGTTGGAGTACATATAAGGTAA 58.798 37.037 0.00 0.00 0.00 2.85
262 263 8.877195 ACATATAAGGTAAATTACATCCGAGGT 58.123 33.333 5.45 0.00 0.00 3.85
263 264 9.151471 CATATAAGGTAAATTACATCCGAGGTG 57.849 37.037 5.45 0.00 0.00 4.00
264 265 5.431179 AAGGTAAATTACATCCGAGGTGT 57.569 39.130 5.45 0.00 0.00 4.16
265 266 5.431179 AGGTAAATTACATCCGAGGTGTT 57.569 39.130 5.45 0.00 0.00 3.32
266 267 6.549433 AGGTAAATTACATCCGAGGTGTTA 57.451 37.500 5.45 0.00 0.00 2.41
267 268 6.343703 AGGTAAATTACATCCGAGGTGTTAC 58.656 40.000 5.45 2.63 0.00 2.50
268 269 6.070653 AGGTAAATTACATCCGAGGTGTTACA 60.071 38.462 5.45 0.00 0.00 2.41
272 273 3.764237 ACATCCGAGGTGTTACAGTTT 57.236 42.857 0.00 0.00 0.00 2.66
288 289 3.081804 CAGTTTAGTCGGGAAGGCATTT 58.918 45.455 0.00 0.00 0.00 2.32
289 290 3.506067 CAGTTTAGTCGGGAAGGCATTTT 59.494 43.478 0.00 0.00 0.00 1.82
333 334 8.421784 GTGGTATGGAGTAGTTATCTTTCATGA 58.578 37.037 0.00 0.00 0.00 3.07
355 357 5.190528 TGATGAAAACCAAGATCTAGCCTCT 59.809 40.000 0.00 0.00 0.00 3.69
403 406 2.169769 TCTCGTGTTGTTCCCTTCTTGT 59.830 45.455 0.00 0.00 0.00 3.16
411 414 6.206634 GTGTTGTTCCCTTCTTGTAATCATCA 59.793 38.462 0.00 0.00 0.00 3.07
430 433 5.931724 TCATCATCGTTGAAGCACTTTTCTA 59.068 36.000 0.00 0.00 34.96 2.10
433 436 4.806342 TCGTTGAAGCACTTTTCTAACC 57.194 40.909 0.00 0.00 0.00 2.85
436 439 4.495184 CGTTGAAGCACTTTTCTAACCGTT 60.495 41.667 0.00 0.00 0.00 4.44
446 449 5.010012 ACTTTTCTAACCGTTCGGAGTTCTA 59.990 40.000 18.28 1.12 0.00 2.10
454 457 2.395654 GTTCGGAGTTCTATCATCGGC 58.604 52.381 0.00 0.00 0.00 5.54
468 472 0.605319 ATCGGCGGTGTTGATGTTGT 60.605 50.000 7.21 0.00 0.00 3.32
475 479 2.479389 CGGTGTTGATGTTGTTGCTTGT 60.479 45.455 0.00 0.00 0.00 3.16
505 509 4.935702 TGCTTGAGTTCACTTCAAAATGG 58.064 39.130 0.00 0.00 0.00 3.16
620 1345 8.476657 TTGCATATTTTTGTGTGACATTATGG 57.523 30.769 0.00 0.00 0.00 2.74
627 1352 9.947433 ATTTTTGTGTGACATTATGGATCAATT 57.053 25.926 0.00 0.00 0.00 2.32
693 1426 8.398665 CCTAAATTCGTTTTCCTCTCCAATTAG 58.601 37.037 0.00 0.00 0.00 1.73
732 1585 5.045578 ACAATAAACTGTACTGATGCCCTCT 60.046 40.000 6.77 0.00 0.00 3.69
733 1586 5.700402 ATAAACTGTACTGATGCCCTCTT 57.300 39.130 6.77 0.00 0.00 2.85
734 1587 3.618690 AACTGTACTGATGCCCTCTTC 57.381 47.619 6.77 0.00 0.00 2.87
735 1588 2.540383 ACTGTACTGATGCCCTCTTCA 58.460 47.619 6.77 0.00 0.00 3.02
758 1614 4.082136 ACTCCGTTCACTACTGATTTCCTC 60.082 45.833 0.00 0.00 0.00 3.71
780 1636 0.035820 ACCAAACACACTGTCACGGT 60.036 50.000 0.00 0.00 0.00 4.83
945 3418 4.615834 GCTCGTCTCGGCTAGCGG 62.616 72.222 15.73 15.73 0.00 5.52
1310 3787 1.319541 CGTACGGGGAGATCATGTCT 58.680 55.000 7.57 0.00 40.81 3.41
1484 4513 3.248171 CAGAACTACTCGCGCCGC 61.248 66.667 0.00 0.00 0.00 6.53
1524 4554 4.341235 CCATCGGGAGTAAATCTGTACTGA 59.659 45.833 4.80 4.80 34.40 3.41
1547 4577 6.375736 TGAAGTTGACAACAAGAAATGTACCA 59.624 34.615 20.08 0.00 42.99 3.25
1606 4636 3.431725 GCGCTGCAGGGGTACAAC 61.432 66.667 29.52 10.16 0.00 3.32
1680 4710 1.669211 GGCGACAGTAGTGAACCAGTC 60.669 57.143 4.09 0.00 32.86 3.51
1703 4733 0.616371 TACCATGCCCCACTGTGTAC 59.384 55.000 7.08 0.00 0.00 2.90
1722 4752 4.883585 TGTACCATCTGCATCTTGGATTTC 59.116 41.667 14.61 4.84 34.52 2.17
1842 4875 6.964370 TCACATAGAAACACAAAGTGAAAACG 59.036 34.615 3.88 0.00 36.96 3.60
1872 6186 1.349026 CTCCAGTTGAGGGCTTGAGAA 59.651 52.381 0.00 0.00 37.45 2.87
1908 6222 1.362224 TGAGTTCTTTCCCAGGGGAG 58.638 55.000 5.33 4.46 46.06 4.30
1934 6248 6.094048 CAGGAGTAATAACTTTGACCACCATG 59.906 42.308 0.00 0.00 35.56 3.66
1964 6278 4.623932 ACATTCAGTGTGTACATCAGGT 57.376 40.909 0.00 0.00 40.28 4.00
1965 6279 4.569943 ACATTCAGTGTGTACATCAGGTC 58.430 43.478 0.00 0.00 40.28 3.85
1966 6280 4.040339 ACATTCAGTGTGTACATCAGGTCA 59.960 41.667 0.00 0.00 40.28 4.02
1967 6281 4.890158 TTCAGTGTGTACATCAGGTCAT 57.110 40.909 0.00 0.00 0.00 3.06
1968 6282 4.456280 TCAGTGTGTACATCAGGTCATC 57.544 45.455 0.00 0.00 0.00 2.92
1969 6283 3.831911 TCAGTGTGTACATCAGGTCATCA 59.168 43.478 0.00 0.00 0.00 3.07
1970 6284 4.082026 TCAGTGTGTACATCAGGTCATCAG 60.082 45.833 0.00 0.00 0.00 2.90
1984 6298 3.059884 GTCATCAGCATATGGTGGTACG 58.940 50.000 29.33 15.28 40.73 3.67
1985 6299 2.037121 TCATCAGCATATGGTGGTACGG 59.963 50.000 29.33 14.63 40.73 4.02
2060 6406 9.423061 AGAAAATACCATACAAACTGCAATTTC 57.577 29.630 0.00 0.00 0.00 2.17
2167 6514 8.902735 GCAGCTTCTAAAATTACAACTTACAAC 58.097 33.333 0.00 0.00 0.00 3.32
2199 6546 7.273815 GGAGAAGAGAAGATTACAACTTACACG 59.726 40.741 0.00 0.00 0.00 4.49
2221 6568 4.260375 CGAGCTTCTTCATAACCCAATTCG 60.260 45.833 0.00 0.00 0.00 3.34
2230 6577 9.675464 TCTTCATAACCCAATTCGTAATAAACT 57.325 29.630 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.438933 TTCGTGTGCGTGTGTTAAAC 57.561 45.000 0.00 0.00 39.49 2.01
1 2 3.124806 TCTTTTCGTGTGCGTGTGTTAAA 59.875 39.130 0.00 0.00 39.49 1.52
2 3 2.671888 TCTTTTCGTGTGCGTGTGTTAA 59.328 40.909 0.00 0.00 39.49 2.01
3 4 2.269172 TCTTTTCGTGTGCGTGTGTTA 58.731 42.857 0.00 0.00 39.49 2.41
4 5 1.062002 CTCTTTTCGTGTGCGTGTGTT 59.938 47.619 0.00 0.00 39.49 3.32
5 6 0.650512 CTCTTTTCGTGTGCGTGTGT 59.349 50.000 0.00 0.00 39.49 3.72
6 7 0.042188 CCTCTTTTCGTGTGCGTGTG 60.042 55.000 0.00 0.00 39.49 3.82
7 8 0.461339 ACCTCTTTTCGTGTGCGTGT 60.461 50.000 0.00 0.00 39.49 4.49
8 9 1.455786 CTACCTCTTTTCGTGTGCGTG 59.544 52.381 0.00 0.00 39.49 5.34
9 10 1.338973 TCTACCTCTTTTCGTGTGCGT 59.661 47.619 0.00 0.00 39.49 5.24
10 11 2.060326 TCTACCTCTTTTCGTGTGCG 57.940 50.000 0.00 0.00 39.92 5.34
11 12 3.186613 CCTTTCTACCTCTTTTCGTGTGC 59.813 47.826 0.00 0.00 0.00 4.57
12 13 4.448060 GTCCTTTCTACCTCTTTTCGTGTG 59.552 45.833 0.00 0.00 0.00 3.82
13 14 4.502777 GGTCCTTTCTACCTCTTTTCGTGT 60.503 45.833 0.00 0.00 33.97 4.49
14 15 3.995048 GGTCCTTTCTACCTCTTTTCGTG 59.005 47.826 0.00 0.00 33.97 4.35
15 16 3.644738 TGGTCCTTTCTACCTCTTTTCGT 59.355 43.478 0.00 0.00 37.91 3.85
16 17 3.995048 GTGGTCCTTTCTACCTCTTTTCG 59.005 47.826 0.00 0.00 37.91 3.46
17 18 4.325119 GGTGGTCCTTTCTACCTCTTTTC 58.675 47.826 0.00 0.00 37.91 2.29
18 19 3.244457 CGGTGGTCCTTTCTACCTCTTTT 60.244 47.826 0.00 0.00 36.92 2.27
19 20 2.302157 CGGTGGTCCTTTCTACCTCTTT 59.698 50.000 0.00 0.00 36.92 2.52
20 21 1.900486 CGGTGGTCCTTTCTACCTCTT 59.100 52.381 0.00 0.00 36.92 2.85
21 22 1.558233 CGGTGGTCCTTTCTACCTCT 58.442 55.000 0.00 0.00 36.92 3.69
22 23 0.535797 CCGGTGGTCCTTTCTACCTC 59.464 60.000 0.00 0.00 36.92 3.85
23 24 0.115745 TCCGGTGGTCCTTTCTACCT 59.884 55.000 0.00 0.00 36.92 3.08
24 25 0.535797 CTCCGGTGGTCCTTTCTACC 59.464 60.000 0.00 0.00 37.53 3.18
25 26 0.535797 CCTCCGGTGGTCCTTTCTAC 59.464 60.000 14.67 0.00 0.00 2.59
26 27 0.410663 TCCTCCGGTGGTCCTTTCTA 59.589 55.000 21.58 0.00 0.00 2.10
27 28 1.157751 TCCTCCGGTGGTCCTTTCT 59.842 57.895 21.58 0.00 0.00 2.52
28 29 1.295746 GTCCTCCGGTGGTCCTTTC 59.704 63.158 21.58 4.19 0.00 2.62
29 30 0.840722 ATGTCCTCCGGTGGTCCTTT 60.841 55.000 21.58 2.33 0.00 3.11
30 31 0.042131 TATGTCCTCCGGTGGTCCTT 59.958 55.000 21.58 13.47 0.00 3.36
31 32 0.264955 ATATGTCCTCCGGTGGTCCT 59.735 55.000 21.58 11.92 0.00 3.85
32 33 0.393077 CATATGTCCTCCGGTGGTCC 59.607 60.000 21.58 13.87 0.00 4.46
33 34 1.341531 CTCATATGTCCTCCGGTGGTC 59.658 57.143 21.58 16.75 0.00 4.02
34 35 1.414158 CTCATATGTCCTCCGGTGGT 58.586 55.000 21.58 5.94 0.00 4.16
35 36 0.034059 GCTCATATGTCCTCCGGTGG 59.966 60.000 16.75 16.75 0.00 4.61
36 37 0.319040 CGCTCATATGTCCTCCGGTG 60.319 60.000 0.00 0.00 0.00 4.94
37 38 2.041976 CGCTCATATGTCCTCCGGT 58.958 57.895 0.00 0.00 0.00 5.28
38 39 1.373497 GCGCTCATATGTCCTCCGG 60.373 63.158 0.00 0.00 0.00 5.14
39 40 1.373497 GGCGCTCATATGTCCTCCG 60.373 63.158 7.64 1.45 0.00 4.63
40 41 1.373497 CGGCGCTCATATGTCCTCC 60.373 63.158 7.64 0.00 0.00 4.30
41 42 1.373497 CCGGCGCTCATATGTCCTC 60.373 63.158 7.64 0.00 0.00 3.71
42 43 1.399744 TTCCGGCGCTCATATGTCCT 61.400 55.000 7.64 0.00 0.00 3.85
43 44 0.320771 ATTCCGGCGCTCATATGTCC 60.321 55.000 7.64 0.00 0.00 4.02
44 45 0.792640 CATTCCGGCGCTCATATGTC 59.207 55.000 7.64 0.00 0.00 3.06
45 46 1.230635 GCATTCCGGCGCTCATATGT 61.231 55.000 7.64 0.00 0.00 2.29
46 47 1.229975 TGCATTCCGGCGCTCATATG 61.230 55.000 7.64 7.98 36.28 1.78
47 48 0.534877 TTGCATTCCGGCGCTCATAT 60.535 50.000 7.64 0.00 36.28 1.78
48 49 0.746204 TTTGCATTCCGGCGCTCATA 60.746 50.000 7.64 0.00 36.28 2.15
49 50 1.594194 TTTTGCATTCCGGCGCTCAT 61.594 50.000 7.64 0.00 36.28 2.90
50 51 2.264461 TTTTGCATTCCGGCGCTCA 61.264 52.632 7.64 0.00 36.28 4.26
51 52 1.801512 GTTTTGCATTCCGGCGCTC 60.802 57.895 7.64 0.00 36.28 5.03
52 53 2.258286 GTTTTGCATTCCGGCGCT 59.742 55.556 7.64 0.00 36.28 5.92
53 54 3.171911 CGTTTTGCATTCCGGCGC 61.172 61.111 0.00 0.00 36.28 6.53
54 55 2.503809 CCGTTTTGCATTCCGGCG 60.504 61.111 0.00 0.00 36.28 6.46
55 56 1.443702 GTCCGTTTTGCATTCCGGC 60.444 57.895 12.17 5.68 40.23 6.13
56 57 0.312416 TTGTCCGTTTTGCATTCCGG 59.688 50.000 11.08 11.08 41.75 5.14
57 58 1.404477 GTTGTCCGTTTTGCATTCCG 58.596 50.000 0.00 0.00 0.00 4.30
58 59 1.404477 CGTTGTCCGTTTTGCATTCC 58.596 50.000 0.00 0.00 0.00 3.01
59 60 1.404477 CCGTTGTCCGTTTTGCATTC 58.596 50.000 0.00 0.00 33.66 2.67
60 61 0.031449 CCCGTTGTCCGTTTTGCATT 59.969 50.000 0.00 0.00 33.66 3.56
61 62 1.657556 CCCGTTGTCCGTTTTGCAT 59.342 52.632 0.00 0.00 33.66 3.96
62 63 2.482333 CCCCGTTGTCCGTTTTGCA 61.482 57.895 0.00 0.00 33.66 4.08
63 64 1.726533 TTCCCCGTTGTCCGTTTTGC 61.727 55.000 0.00 0.00 33.66 3.68
64 65 0.739561 TTTCCCCGTTGTCCGTTTTG 59.260 50.000 0.00 0.00 33.66 2.44
65 66 1.472188 TTTTCCCCGTTGTCCGTTTT 58.528 45.000 0.00 0.00 33.66 2.43
66 67 1.338655 CATTTTCCCCGTTGTCCGTTT 59.661 47.619 0.00 0.00 33.66 3.60
67 68 0.955905 CATTTTCCCCGTTGTCCGTT 59.044 50.000 0.00 0.00 33.66 4.44
68 69 1.520600 GCATTTTCCCCGTTGTCCGT 61.521 55.000 0.00 0.00 33.66 4.69
69 70 1.211709 GCATTTTCCCCGTTGTCCG 59.788 57.895 0.00 0.00 0.00 4.79
70 71 0.526211 GAGCATTTTCCCCGTTGTCC 59.474 55.000 0.00 0.00 0.00 4.02
71 72 0.168128 CGAGCATTTTCCCCGTTGTC 59.832 55.000 0.00 0.00 0.00 3.18
72 73 1.241315 CCGAGCATTTTCCCCGTTGT 61.241 55.000 0.00 0.00 0.00 3.32
73 74 0.958382 TCCGAGCATTTTCCCCGTTG 60.958 55.000 0.00 0.00 0.00 4.10
74 75 0.034477 ATCCGAGCATTTTCCCCGTT 60.034 50.000 0.00 0.00 0.00 4.44
75 76 0.748005 CATCCGAGCATTTTCCCCGT 60.748 55.000 0.00 0.00 0.00 5.28
76 77 2.024918 CATCCGAGCATTTTCCCCG 58.975 57.895 0.00 0.00 0.00 5.73
77 78 1.037030 TGCATCCGAGCATTTTCCCC 61.037 55.000 0.00 0.00 40.11 4.81
78 79 2.492418 TGCATCCGAGCATTTTCCC 58.508 52.632 0.00 0.00 40.11 3.97
86 87 0.528466 TTCGTCTCATGCATCCGAGC 60.528 55.000 8.78 4.49 0.00 5.03
87 88 1.203928 GTTCGTCTCATGCATCCGAG 58.796 55.000 7.55 7.55 0.00 4.63
88 89 0.530288 TGTTCGTCTCATGCATCCGA 59.470 50.000 0.00 0.00 0.00 4.55
89 90 0.647410 GTGTTCGTCTCATGCATCCG 59.353 55.000 0.00 0.00 0.00 4.18
90 91 1.725641 TGTGTTCGTCTCATGCATCC 58.274 50.000 0.00 0.00 0.00 3.51
91 92 4.610007 GCATATGTGTTCGTCTCATGCATC 60.610 45.833 4.29 0.00 33.23 3.91
92 93 3.249320 GCATATGTGTTCGTCTCATGCAT 59.751 43.478 4.29 0.00 33.23 3.96
93 94 2.609002 GCATATGTGTTCGTCTCATGCA 59.391 45.455 4.29 0.00 33.23 3.96
94 95 2.609002 TGCATATGTGTTCGTCTCATGC 59.391 45.455 4.29 0.00 33.23 4.06
95 96 4.863152 TTGCATATGTGTTCGTCTCATG 57.137 40.909 4.29 0.00 33.23 3.07
96 97 5.731406 GCATTTGCATATGTGTTCGTCTCAT 60.731 40.000 16.96 0.00 41.59 2.90
97 98 4.437255 GCATTTGCATATGTGTTCGTCTCA 60.437 41.667 16.96 0.00 41.59 3.27
98 99 4.031028 GCATTTGCATATGTGTTCGTCTC 58.969 43.478 16.96 0.00 41.59 3.36
99 100 4.019919 GCATTTGCATATGTGTTCGTCT 57.980 40.909 16.96 0.00 41.59 4.18
113 114 2.933260 TCATCATGTGCATTGCATTTGC 59.067 40.909 15.49 13.65 41.91 3.68
114 115 3.929610 TGTCATCATGTGCATTGCATTTG 59.070 39.130 15.49 14.76 41.91 2.32
115 116 4.195225 TGTCATCATGTGCATTGCATTT 57.805 36.364 15.49 2.46 41.91 2.32
116 117 3.878160 TGTCATCATGTGCATTGCATT 57.122 38.095 15.49 2.84 41.91 3.56
117 118 3.716601 CATGTCATCATGTGCATTGCAT 58.283 40.909 15.49 0.00 44.37 3.96
118 119 3.157932 CATGTCATCATGTGCATTGCA 57.842 42.857 7.38 7.38 44.37 4.08
125 126 7.066284 ATGCATCTCATATCATGTCATCATGTG 59.934 37.037 0.00 0.00 41.56 3.21
126 127 7.066284 CATGCATCTCATATCATGTCATCATGT 59.934 37.037 0.00 0.27 41.53 3.21
127 128 7.280876 TCATGCATCTCATATCATGTCATCATG 59.719 37.037 0.00 2.27 41.82 3.07
128 129 7.281100 GTCATGCATCTCATATCATGTCATCAT 59.719 37.037 0.00 0.00 37.95 2.45
129 130 6.594159 GTCATGCATCTCATATCATGTCATCA 59.406 38.462 0.00 0.00 37.95 3.07
130 131 6.594159 TGTCATGCATCTCATATCATGTCATC 59.406 38.462 0.00 0.00 37.95 2.92
131 132 6.472887 TGTCATGCATCTCATATCATGTCAT 58.527 36.000 0.00 0.00 37.95 3.06
132 133 5.860611 TGTCATGCATCTCATATCATGTCA 58.139 37.500 0.00 0.00 37.95 3.58
133 134 6.796705 TTGTCATGCATCTCATATCATGTC 57.203 37.500 0.00 0.00 37.95 3.06
134 135 6.996282 TCTTTGTCATGCATCTCATATCATGT 59.004 34.615 0.00 0.00 37.95 3.21
135 136 7.041372 TGTCTTTGTCATGCATCTCATATCATG 60.041 37.037 0.00 0.00 38.05 3.07
136 137 6.996282 TGTCTTTGTCATGCATCTCATATCAT 59.004 34.615 0.00 0.00 33.19 2.45
137 138 6.350906 TGTCTTTGTCATGCATCTCATATCA 58.649 36.000 0.00 0.00 33.19 2.15
138 139 6.856135 TGTCTTTGTCATGCATCTCATATC 57.144 37.500 0.00 0.00 33.19 1.63
139 140 6.600427 TGTTGTCTTTGTCATGCATCTCATAT 59.400 34.615 0.00 0.00 33.19 1.78
140 141 5.939296 TGTTGTCTTTGTCATGCATCTCATA 59.061 36.000 0.00 0.00 33.19 2.15
141 142 4.763279 TGTTGTCTTTGTCATGCATCTCAT 59.237 37.500 0.00 0.00 35.31 2.90
142 143 4.136051 TGTTGTCTTTGTCATGCATCTCA 58.864 39.130 0.00 0.00 0.00 3.27
143 144 4.754372 TGTTGTCTTTGTCATGCATCTC 57.246 40.909 0.00 0.00 0.00 2.75
144 145 4.338964 TGTTGTTGTCTTTGTCATGCATCT 59.661 37.500 0.00 0.00 0.00 2.90
145 146 4.442073 GTGTTGTTGTCTTTGTCATGCATC 59.558 41.667 0.00 0.00 0.00 3.91
146 147 4.142204 TGTGTTGTTGTCTTTGTCATGCAT 60.142 37.500 0.00 0.00 0.00 3.96
147 148 3.192212 TGTGTTGTTGTCTTTGTCATGCA 59.808 39.130 0.00 0.00 0.00 3.96
148 149 3.768406 TGTGTTGTTGTCTTTGTCATGC 58.232 40.909 0.00 0.00 0.00 4.06
149 150 4.741185 CCATGTGTTGTTGTCTTTGTCATG 59.259 41.667 0.00 0.00 0.00 3.07
150 151 4.644234 TCCATGTGTTGTTGTCTTTGTCAT 59.356 37.500 0.00 0.00 0.00 3.06
151 152 4.013050 TCCATGTGTTGTTGTCTTTGTCA 58.987 39.130 0.00 0.00 0.00 3.58
152 153 4.335315 TCTCCATGTGTTGTTGTCTTTGTC 59.665 41.667 0.00 0.00 0.00 3.18
153 154 4.096382 GTCTCCATGTGTTGTTGTCTTTGT 59.904 41.667 0.00 0.00 0.00 2.83
154 155 4.096231 TGTCTCCATGTGTTGTTGTCTTTG 59.904 41.667 0.00 0.00 0.00 2.77
155 156 4.269183 TGTCTCCATGTGTTGTTGTCTTT 58.731 39.130 0.00 0.00 0.00 2.52
156 157 3.884895 TGTCTCCATGTGTTGTTGTCTT 58.115 40.909 0.00 0.00 0.00 3.01
157 158 3.558931 TGTCTCCATGTGTTGTTGTCT 57.441 42.857 0.00 0.00 0.00 3.41
158 159 4.630894 TTTGTCTCCATGTGTTGTTGTC 57.369 40.909 0.00 0.00 0.00 3.18
159 160 5.167845 GTTTTTGTCTCCATGTGTTGTTGT 58.832 37.500 0.00 0.00 0.00 3.32
160 161 4.566360 GGTTTTTGTCTCCATGTGTTGTTG 59.434 41.667 0.00 0.00 0.00 3.33
161 162 4.382577 GGGTTTTTGTCTCCATGTGTTGTT 60.383 41.667 0.00 0.00 0.00 2.83
162 163 3.132111 GGGTTTTTGTCTCCATGTGTTGT 59.868 43.478 0.00 0.00 0.00 3.32
163 164 3.716601 GGGTTTTTGTCTCCATGTGTTG 58.283 45.455 0.00 0.00 0.00 3.33
164 165 2.360801 CGGGTTTTTGTCTCCATGTGTT 59.639 45.455 0.00 0.00 0.00 3.32
165 166 1.953686 CGGGTTTTTGTCTCCATGTGT 59.046 47.619 0.00 0.00 0.00 3.72
166 167 2.031157 GTCGGGTTTTTGTCTCCATGTG 60.031 50.000 0.00 0.00 0.00 3.21
167 168 2.227194 GTCGGGTTTTTGTCTCCATGT 58.773 47.619 0.00 0.00 0.00 3.21
168 169 2.226330 TGTCGGGTTTTTGTCTCCATG 58.774 47.619 0.00 0.00 0.00 3.66
169 170 2.621526 GTTGTCGGGTTTTTGTCTCCAT 59.378 45.455 0.00 0.00 0.00 3.41
170 171 2.018515 GTTGTCGGGTTTTTGTCTCCA 58.981 47.619 0.00 0.00 0.00 3.86
171 172 1.003223 CGTTGTCGGGTTTTTGTCTCC 60.003 52.381 0.00 0.00 0.00 3.71
172 173 2.378507 CGTTGTCGGGTTTTTGTCTC 57.621 50.000 0.00 0.00 0.00 3.36
184 185 9.685005 CTAAGTTATTTTATTTCTCCGTTGTCG 57.315 33.333 0.00 0.00 0.00 4.35
187 188 9.274065 GCACTAAGTTATTTTATTTCTCCGTTG 57.726 33.333 0.00 0.00 0.00 4.10
188 189 8.456471 GGCACTAAGTTATTTTATTTCTCCGTT 58.544 33.333 0.00 0.00 0.00 4.44
189 190 7.201582 CGGCACTAAGTTATTTTATTTCTCCGT 60.202 37.037 0.00 0.00 0.00 4.69
190 191 7.123830 CGGCACTAAGTTATTTTATTTCTCCG 58.876 38.462 0.00 0.00 0.00 4.63
191 192 7.281549 TCCGGCACTAAGTTATTTTATTTCTCC 59.718 37.037 0.00 0.00 0.00 3.71
192 193 8.205131 TCCGGCACTAAGTTATTTTATTTCTC 57.795 34.615 0.00 0.00 0.00 2.87
193 194 8.570068 TTCCGGCACTAAGTTATTTTATTTCT 57.430 30.769 0.00 0.00 0.00 2.52
194 195 9.069078 GTTTCCGGCACTAAGTTATTTTATTTC 57.931 33.333 0.00 0.00 0.00 2.17
195 196 7.751793 CGTTTCCGGCACTAAGTTATTTTATTT 59.248 33.333 0.00 0.00 0.00 1.40
196 197 7.245604 CGTTTCCGGCACTAAGTTATTTTATT 58.754 34.615 0.00 0.00 0.00 1.40
197 198 6.778108 CGTTTCCGGCACTAAGTTATTTTAT 58.222 36.000 0.00 0.00 0.00 1.40
198 199 6.168164 CGTTTCCGGCACTAAGTTATTTTA 57.832 37.500 0.00 0.00 0.00 1.52
199 200 5.038247 CGTTTCCGGCACTAAGTTATTTT 57.962 39.130 0.00 0.00 0.00 1.82
200 201 4.673534 CGTTTCCGGCACTAAGTTATTT 57.326 40.909 0.00 0.00 0.00 1.40
214 215 0.882927 TCCAACTCTTGCCGTTTCCG 60.883 55.000 0.00 0.00 0.00 4.30
215 216 0.875059 CTCCAACTCTTGCCGTTTCC 59.125 55.000 0.00 0.00 0.00 3.13
216 217 1.594331 ACTCCAACTCTTGCCGTTTC 58.406 50.000 0.00 0.00 0.00 2.78
217 218 2.158871 TGTACTCCAACTCTTGCCGTTT 60.159 45.455 0.00 0.00 0.00 3.60
218 219 1.414919 TGTACTCCAACTCTTGCCGTT 59.585 47.619 0.00 0.00 0.00 4.44
219 220 1.045407 TGTACTCCAACTCTTGCCGT 58.955 50.000 0.00 0.00 0.00 5.68
220 221 2.386661 ATGTACTCCAACTCTTGCCG 57.613 50.000 0.00 0.00 0.00 5.69
221 222 5.992217 CCTTATATGTACTCCAACTCTTGCC 59.008 44.000 0.00 0.00 0.00 4.52
222 223 6.583562 ACCTTATATGTACTCCAACTCTTGC 58.416 40.000 0.00 0.00 0.00 4.01
236 237 8.877195 ACCTCGGATGTAATTTACCTTATATGT 58.123 33.333 4.17 0.00 0.00 2.29
237 238 9.151471 CACCTCGGATGTAATTTACCTTATATG 57.849 37.037 4.17 0.00 0.00 1.78
238 239 8.877195 ACACCTCGGATGTAATTTACCTTATAT 58.123 33.333 4.17 0.00 0.00 0.86
239 240 8.253867 ACACCTCGGATGTAATTTACCTTATA 57.746 34.615 4.17 0.00 0.00 0.98
240 241 7.133133 ACACCTCGGATGTAATTTACCTTAT 57.867 36.000 4.17 0.00 0.00 1.73
241 242 6.549433 ACACCTCGGATGTAATTTACCTTA 57.451 37.500 4.17 0.00 0.00 2.69
242 243 5.431179 ACACCTCGGATGTAATTTACCTT 57.569 39.130 4.17 0.00 0.00 3.50
243 244 5.431179 AACACCTCGGATGTAATTTACCT 57.569 39.130 4.17 0.00 0.00 3.08
244 245 6.108015 TGTAACACCTCGGATGTAATTTACC 58.892 40.000 4.17 0.00 0.00 2.85
245 246 6.815142 ACTGTAACACCTCGGATGTAATTTAC 59.185 38.462 0.00 0.00 0.00 2.01
246 247 6.938507 ACTGTAACACCTCGGATGTAATTTA 58.061 36.000 0.00 0.00 0.00 1.40
247 248 5.801380 ACTGTAACACCTCGGATGTAATTT 58.199 37.500 0.00 0.00 0.00 1.82
248 249 5.416271 ACTGTAACACCTCGGATGTAATT 57.584 39.130 0.00 0.00 0.00 1.40
249 250 5.416271 AACTGTAACACCTCGGATGTAAT 57.584 39.130 0.00 0.00 0.00 1.89
250 251 4.877378 AACTGTAACACCTCGGATGTAA 57.123 40.909 0.00 0.00 0.00 2.41
251 252 4.877378 AAACTGTAACACCTCGGATGTA 57.123 40.909 0.00 0.00 0.00 2.29
252 253 3.764237 AAACTGTAACACCTCGGATGT 57.236 42.857 0.00 0.00 0.00 3.06
253 254 4.817517 ACTAAACTGTAACACCTCGGATG 58.182 43.478 0.00 0.00 0.00 3.51
254 255 4.380233 CGACTAAACTGTAACACCTCGGAT 60.380 45.833 0.00 0.00 0.00 4.18
255 256 3.058016 CGACTAAACTGTAACACCTCGGA 60.058 47.826 0.00 0.00 0.00 4.55
256 257 3.240069 CGACTAAACTGTAACACCTCGG 58.760 50.000 0.00 0.00 0.00 4.63
257 258 3.240069 CCGACTAAACTGTAACACCTCG 58.760 50.000 0.00 0.00 0.00 4.63
258 259 3.256631 TCCCGACTAAACTGTAACACCTC 59.743 47.826 0.00 0.00 0.00 3.85
259 260 3.233507 TCCCGACTAAACTGTAACACCT 58.766 45.455 0.00 0.00 0.00 4.00
260 261 3.665745 TCCCGACTAAACTGTAACACC 57.334 47.619 0.00 0.00 0.00 4.16
261 262 3.992427 CCTTCCCGACTAAACTGTAACAC 59.008 47.826 0.00 0.00 0.00 3.32
262 263 3.555586 GCCTTCCCGACTAAACTGTAACA 60.556 47.826 0.00 0.00 0.00 2.41
263 264 2.998670 GCCTTCCCGACTAAACTGTAAC 59.001 50.000 0.00 0.00 0.00 2.50
264 265 2.633967 TGCCTTCCCGACTAAACTGTAA 59.366 45.455 0.00 0.00 0.00 2.41
265 266 2.250031 TGCCTTCCCGACTAAACTGTA 58.750 47.619 0.00 0.00 0.00 2.74
266 267 1.053424 TGCCTTCCCGACTAAACTGT 58.947 50.000 0.00 0.00 0.00 3.55
267 268 2.403252 ATGCCTTCCCGACTAAACTG 57.597 50.000 0.00 0.00 0.00 3.16
268 269 3.434940 AAATGCCTTCCCGACTAAACT 57.565 42.857 0.00 0.00 0.00 2.66
272 273 2.706890 GACAAAATGCCTTCCCGACTA 58.293 47.619 0.00 0.00 0.00 2.59
288 289 3.555324 TGTGGGCCTGCTCGACAA 61.555 61.111 4.53 0.00 0.00 3.18
289 290 4.314440 GTGTGGGCCTGCTCGACA 62.314 66.667 4.53 0.00 0.00 4.35
333 334 5.707066 AGAGGCTAGATCTTGGTTTTCAT 57.293 39.130 0.00 0.00 0.00 2.57
355 357 3.536075 TCATCGTCATATCCACCCCTA 57.464 47.619 0.00 0.00 0.00 3.53
403 406 6.741992 AAAGTGCTTCAACGATGATGATTA 57.258 33.333 11.98 0.00 34.96 1.75
411 414 4.084013 CGGTTAGAAAAGTGCTTCAACGAT 60.084 41.667 0.00 0.00 0.00 3.73
430 433 3.488721 CGATGATAGAACTCCGAACGGTT 60.489 47.826 12.93 0.00 36.47 4.44
433 436 2.651701 CCGATGATAGAACTCCGAACG 58.348 52.381 0.00 0.00 0.00 3.95
436 439 0.591659 CGCCGATGATAGAACTCCGA 59.408 55.000 0.00 0.00 0.00 4.55
446 449 0.107703 ACATCAACACCGCCGATGAT 60.108 50.000 5.67 0.00 39.09 2.45
454 457 2.118683 CAAGCAACAACATCAACACCG 58.881 47.619 0.00 0.00 0.00 4.94
468 472 2.622470 TCAAGCATGCAGTTACAAGCAA 59.378 40.909 21.98 0.00 44.88 3.91
475 479 3.743521 AGTGAACTCAAGCATGCAGTTA 58.256 40.909 21.98 7.31 31.48 2.24
539 543 9.425893 CAATTAGAATGCAAATAGTGAACGTAG 57.574 33.333 0.00 0.00 0.00 3.51
541 545 7.816640 ACAATTAGAATGCAAATAGTGAACGT 58.183 30.769 0.00 0.00 0.00 3.99
542 546 9.210426 GTACAATTAGAATGCAAATAGTGAACG 57.790 33.333 0.00 0.00 0.00 3.95
572 597 7.201232 GCAAGCATAATAAACACACACTTAACG 60.201 37.037 0.00 0.00 0.00 3.18
650 1375 8.726988 CGAATTTAGGAGGTCAGTTTTCATTAA 58.273 33.333 0.00 0.00 0.00 1.40
693 1426 8.893727 ACAGTTTATTGTTTGGATAGATAGCAC 58.106 33.333 0.00 0.00 0.00 4.40
732 1585 4.866508 AATCAGTAGTGAACGGAGTGAA 57.133 40.909 3.93 0.00 45.00 3.18
733 1586 4.321750 GGAAATCAGTAGTGAACGGAGTGA 60.322 45.833 3.93 0.34 45.00 3.41
734 1587 3.927142 GGAAATCAGTAGTGAACGGAGTG 59.073 47.826 3.93 0.00 45.00 3.51
758 1614 0.738389 GTGACAGTGTGTTTGGTGGG 59.262 55.000 0.00 0.00 0.00 4.61
780 1636 2.879756 GCTGGTCAGGAGCCACATTTTA 60.880 50.000 0.00 0.00 31.85 1.52
1183 3660 2.037641 TCAGCATAGCAACACACTCTGT 59.962 45.455 0.00 0.00 32.89 3.41
1188 3665 0.804989 GGGTCAGCATAGCAACACAC 59.195 55.000 0.00 0.00 0.00 3.82
1194 3671 2.187685 CAGCGGGTCAGCATAGCA 59.812 61.111 0.00 0.00 40.15 3.49
1195 3672 3.275338 GCAGCGGGTCAGCATAGC 61.275 66.667 0.00 0.00 40.15 2.97
1196 3673 2.590007 GGCAGCGGGTCAGCATAG 60.590 66.667 0.00 0.00 40.15 2.23
1197 3674 4.175337 GGGCAGCGGGTCAGCATA 62.175 66.667 0.00 0.00 40.15 3.14
1329 3806 3.044305 GAGCTTGCCGTTGACGCT 61.044 61.111 0.00 0.00 38.18 5.07
1461 3938 1.218316 GCGAGTAGTTCTGGGGTGG 59.782 63.158 0.00 0.00 0.00 4.61
1463 3940 3.003113 GCGCGAGTAGTTCTGGGGT 62.003 63.158 12.10 0.00 37.22 4.95
1484 4513 1.961793 TGGAAAGAAAGACCGTGTGG 58.038 50.000 0.00 0.00 42.84 4.17
1491 4520 3.336138 ACTCCCGATGGAAAGAAAGAC 57.664 47.619 0.00 0.00 41.17 3.01
1524 4554 6.767524 TGGTACATTTCTTGTTGTCAACTT 57.232 33.333 16.45 0.00 39.87 2.66
1556 4586 2.938451 ACATCACAACACACACACAGAG 59.062 45.455 0.00 0.00 0.00 3.35
1558 4588 2.792196 GCACATCACAACACACACACAG 60.792 50.000 0.00 0.00 0.00 3.66
1563 4593 1.308047 GAGGCACATCACAACACACA 58.692 50.000 0.00 0.00 0.00 3.72
1564 4594 0.235665 CGAGGCACATCACAACACAC 59.764 55.000 0.00 0.00 0.00 3.82
1565 4595 0.179059 ACGAGGCACATCACAACACA 60.179 50.000 0.00 0.00 0.00 3.72
1568 4598 2.384382 CAAAACGAGGCACATCACAAC 58.616 47.619 0.00 0.00 0.00 3.32
1606 4636 2.613506 GGTTCCGTTGAAGCCCACG 61.614 63.158 0.00 0.00 41.96 4.94
1680 4710 1.152694 CAGTGGGGCATGGTATGGG 60.153 63.158 0.00 0.00 0.00 4.00
1703 4733 2.292569 CGGAAATCCAAGATGCAGATGG 59.707 50.000 8.51 8.51 35.14 3.51
1722 4752 9.698309 AGATATGTGAGAAATATTAACTGACGG 57.302 33.333 0.00 0.00 0.00 4.79
1842 4875 2.616510 CCTCAACTGGAGTGGTTGGATC 60.617 54.545 6.72 0.00 42.40 3.36
1872 6186 6.648192 AGAACTCATCCGAAGAATTCTGAAT 58.352 36.000 9.17 0.00 44.75 2.57
1908 6222 4.395231 GGTGGTCAAAGTTATTACTCCTGC 59.605 45.833 0.00 0.00 31.99 4.85
1963 6277 3.059884 CGTACCACCATATGCTGATGAC 58.940 50.000 0.00 0.00 0.00 3.06
1964 6278 2.037121 CCGTACCACCATATGCTGATGA 59.963 50.000 0.00 0.00 0.00 2.92
1965 6279 2.416747 CCGTACCACCATATGCTGATG 58.583 52.381 0.00 0.00 0.00 3.07
1966 6280 1.270839 GCCGTACCACCATATGCTGAT 60.271 52.381 0.00 0.00 0.00 2.90
1967 6281 0.105964 GCCGTACCACCATATGCTGA 59.894 55.000 0.00 0.00 0.00 4.26
1968 6282 0.179059 TGCCGTACCACCATATGCTG 60.179 55.000 0.00 0.00 0.00 4.41
1969 6283 0.764890 ATGCCGTACCACCATATGCT 59.235 50.000 0.00 0.00 0.00 3.79
1970 6284 1.266718 CAATGCCGTACCACCATATGC 59.733 52.381 0.00 0.00 0.00 3.14
1984 6298 1.035139 CCCCTGTAATCTGCAATGCC 58.965 55.000 1.53 0.00 0.00 4.40
1985 6299 1.035139 CCCCCTGTAATCTGCAATGC 58.965 55.000 0.00 0.00 0.00 3.56
2040 6372 6.094881 GCTAGGAAATTGCAGTTTGTATGGTA 59.905 38.462 12.36 0.00 0.00 3.25
2085 6431 6.071051 ACCTTGTTTTGCTTCTACCTTCAAAA 60.071 34.615 0.00 0.00 36.45 2.44
2167 6514 4.410228 TGTAATCTTCTCTTCTCCCCATGG 59.590 45.833 4.14 4.14 0.00 3.66
2199 6546 4.636206 ACGAATTGGGTTATGAAGAAGCTC 59.364 41.667 0.00 0.00 0.00 4.09
2221 6568 8.193250 TGTAGAAGCGGAATTCAGTTTATTAC 57.807 34.615 7.93 12.91 0.00 1.89
2230 6577 3.734463 TGTGTTGTAGAAGCGGAATTCA 58.266 40.909 7.93 0.00 0.00 2.57
2578 6947 0.983378 AGATGCTCCAGTACCACCCC 60.983 60.000 0.00 0.00 0.00 4.95


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

AutoCloner maintained by Alex Coulton.