Multiple sequence alignment - TraesCS7B01G004100

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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 TraesCS7B01G004100 chr7B 100.000 2549 0 0 1 2549 1777203 1774655 0.000000e+00 4708
1 TraesCS7B01G004100 chr7B 98.483 1978 29 1 573 2549 552932143 552930166 0.000000e+00 3485
2 TraesCS7B01G004100 chr7B 88.462 104 9 2 69 169 707432488 707432385 3.440000e-24 122
3 TraesCS7B01G004100 chr6B 98.593 1990 26 2 560 2549 660437756 660435769 0.000000e+00 3518
4 TraesCS7B01G004100 chr6B 99.087 219 0 1 354 572 295894421 295894205 2.380000e-105 392
5 TraesCS7B01G004100 chr6B 94.977 219 7 1 354 572 295895690 295895476 8.730000e-90 340
6 TraesCS7B01G004100 chr7A 98.735 1977 25 0 573 2549 701581941 701583917 0.000000e+00 3513
7 TraesCS7B01G004100 chr7A 99.543 219 1 0 354 572 689265754 689265972 1.420000e-107 399
8 TraesCS7B01G004100 chr7A 99.543 219 1 0 354 572 689267027 689267245 1.420000e-107 399
9 TraesCS7B01G004100 chr6A 98.731 1970 24 1 571 2540 617222871 617220903 0.000000e+00 3498
10 TraesCS7B01G004100 chr3B 98.535 1979 27 1 571 2549 379294091 379296067 0.000000e+00 3493
11 TraesCS7B01G004100 chr3B 100.000 219 0 0 354 572 646739652 646739434 3.050000e-109 405
12 TraesCS7B01G004100 chr3B 99.543 219 1 0 354 572 646738379 646738161 1.420000e-107 399
13 TraesCS7B01G004100 chr2B 98.487 1983 26 3 569 2549 4739872 4741852 0.000000e+00 3493
14 TraesCS7B01G004100 chr3A 98.484 1979 26 3 573 2549 722406047 722404071 0.000000e+00 3485
15 TraesCS7B01G004100 chr5A 98.432 1977 30 1 573 2549 459744881 459746856 0.000000e+00 3478
16 TraesCS7B01G004100 chr1A 98.382 1978 29 3 572 2549 22791528 22793502 0.000000e+00 3472
17 TraesCS7B01G004100 chr1B 98.673 226 2 1 348 572 502787112 502786887 1.420000e-107 399
18 TraesCS7B01G004100 chr1B 99.087 219 0 1 354 572 502785832 502785616 2.380000e-105 392
19 TraesCS7B01G004100 chr3D 85.068 221 22 8 354 572 38657417 38657628 5.520000e-52 215


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 TraesCS7B01G004100 chr7B 1774655 1777203 2548 True 4708.0 4708 100.0000 1 2549 1 chr7B.!!$R1 2548
1 TraesCS7B01G004100 chr7B 552930166 552932143 1977 True 3485.0 3485 98.4830 573 2549 1 chr7B.!!$R2 1976
2 TraesCS7B01G004100 chr6B 660435769 660437756 1987 True 3518.0 3518 98.5930 560 2549 1 chr6B.!!$R1 1989
3 TraesCS7B01G004100 chr6B 295894205 295895690 1485 True 366.0 392 97.0320 354 572 2 chr6B.!!$R2 218
4 TraesCS7B01G004100 chr7A 701581941 701583917 1976 False 3513.0 3513 98.7350 573 2549 1 chr7A.!!$F1 1976
5 TraesCS7B01G004100 chr7A 689265754 689267245 1491 False 399.0 399 99.5430 354 572 2 chr7A.!!$F2 218
6 TraesCS7B01G004100 chr6A 617220903 617222871 1968 True 3498.0 3498 98.7310 571 2540 1 chr6A.!!$R1 1969
7 TraesCS7B01G004100 chr3B 379294091 379296067 1976 False 3493.0 3493 98.5350 571 2549 1 chr3B.!!$F1 1978
8 TraesCS7B01G004100 chr3B 646738161 646739652 1491 True 402.0 405 99.7715 354 572 2 chr3B.!!$R1 218
9 TraesCS7B01G004100 chr2B 4739872 4741852 1980 False 3493.0 3493 98.4870 569 2549 1 chr2B.!!$F1 1980
10 TraesCS7B01G004100 chr3A 722404071 722406047 1976 True 3485.0 3485 98.4840 573 2549 1 chr3A.!!$R1 1976
11 TraesCS7B01G004100 chr5A 459744881 459746856 1975 False 3478.0 3478 98.4320 573 2549 1 chr5A.!!$F1 1976
12 TraesCS7B01G004100 chr1A 22791528 22793502 1974 False 3472.0 3472 98.3820 572 2549 1 chr1A.!!$F1 1977
13 TraesCS7B01G004100 chr1B 502785616 502787112 1496 True 395.5 399 98.8800 348 572 2 chr1B.!!$R1 224

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
342 343 0.107703 TTTCCAGAGCGCCCTATGTG 60.108 55.0 2.29 0.0 0.0 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1808 2809 2.378038 GCCTAATTGGATGCAGTTGGA 58.622 47.619 7.35 0.0 38.35 3.53 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 4.785453 CCACCTTCTGCCCGCCTC 62.785 72.222 0.00 0.00 0.00 4.70
18 19 4.785453 CACCTTCTGCCCGCCTCC 62.785 72.222 0.00 0.00 0.00 4.30
20 21 3.801997 CCTTCTGCCCGCCTCCAT 61.802 66.667 0.00 0.00 0.00 3.41
21 22 2.203126 CTTCTGCCCGCCTCCATC 60.203 66.667 0.00 0.00 0.00 3.51
22 23 3.764160 CTTCTGCCCGCCTCCATCC 62.764 68.421 0.00 0.00 0.00 3.51
23 24 4.804420 TCTGCCCGCCTCCATCCT 62.804 66.667 0.00 0.00 0.00 3.24
24 25 4.559063 CTGCCCGCCTCCATCCTG 62.559 72.222 0.00 0.00 0.00 3.86
26 27 4.554036 GCCCGCCTCCATCCTGTC 62.554 72.222 0.00 0.00 0.00 3.51
27 28 2.765807 CCCGCCTCCATCCTGTCT 60.766 66.667 0.00 0.00 0.00 3.41
28 29 2.503061 CCGCCTCCATCCTGTCTG 59.497 66.667 0.00 0.00 0.00 3.51
29 30 2.503061 CGCCTCCATCCTGTCTGG 59.497 66.667 0.00 0.00 34.93 3.86
30 31 2.362369 CGCCTCCATCCTGTCTGGT 61.362 63.158 0.00 0.00 35.19 4.00
31 32 1.222936 GCCTCCATCCTGTCTGGTG 59.777 63.158 0.00 0.00 35.19 4.17
32 33 1.267574 GCCTCCATCCTGTCTGGTGA 61.268 60.000 0.00 0.00 35.19 4.02
33 34 0.539051 CCTCCATCCTGTCTGGTGAC 59.461 60.000 0.00 0.00 43.20 3.67
34 35 1.566211 CTCCATCCTGTCTGGTGACT 58.434 55.000 0.00 0.00 43.29 3.41
35 36 1.206610 CTCCATCCTGTCTGGTGACTG 59.793 57.143 0.00 0.00 43.29 3.51
42 43 2.755650 CTGTCTGGTGACTGGTGTAAC 58.244 52.381 0.00 0.00 43.29 2.50
43 44 2.165319 GTCTGGTGACTGGTGTAACC 57.835 55.000 0.00 0.00 46.01 2.85
56 57 2.610433 GTGTAACCGTGTAAGTAGCCC 58.390 52.381 0.00 0.00 0.00 5.19
57 58 1.550072 TGTAACCGTGTAAGTAGCCCC 59.450 52.381 0.00 0.00 0.00 5.80
58 59 1.134699 GTAACCGTGTAAGTAGCCCCC 60.135 57.143 0.00 0.00 0.00 5.40
83 84 3.662759 CCCCCAGGCTAAATAGTTTGA 57.337 47.619 0.00 0.00 0.00 2.69
84 85 4.184649 CCCCCAGGCTAAATAGTTTGAT 57.815 45.455 0.00 0.00 0.00 2.57
85 86 4.546674 CCCCCAGGCTAAATAGTTTGATT 58.453 43.478 0.00 0.00 0.00 2.57
86 87 4.962362 CCCCCAGGCTAAATAGTTTGATTT 59.038 41.667 0.00 0.00 33.60 2.17
87 88 6.133356 CCCCCAGGCTAAATAGTTTGATTTA 58.867 40.000 0.00 0.00 31.51 1.40
88 89 6.265422 CCCCCAGGCTAAATAGTTTGATTTAG 59.735 42.308 10.27 10.27 45.91 1.85
96 97 6.791303 TAAATAGTTTGATTTAGCCAAGGCG 58.209 36.000 5.28 0.00 36.95 5.52
97 98 6.376018 TAAATAGTTTGATTTAGCCAAGGCGT 59.624 34.615 5.28 0.00 36.95 5.68
98 99 7.414762 TAAATAGTTTGATTTAGCCAAGGCGTC 60.415 37.037 5.28 3.99 36.95 5.19
106 107 2.854522 GCCAAGGCGTCTATGTTGT 58.145 52.632 0.00 0.00 0.00 3.32
107 108 0.447801 GCCAAGGCGTCTATGTTGTG 59.552 55.000 0.00 0.00 0.00 3.33
108 109 1.808411 CCAAGGCGTCTATGTTGTGT 58.192 50.000 0.00 0.00 0.00 3.72
109 110 1.732259 CCAAGGCGTCTATGTTGTGTC 59.268 52.381 0.00 0.00 0.00 3.67
110 111 2.612972 CCAAGGCGTCTATGTTGTGTCT 60.613 50.000 0.00 0.00 0.00 3.41
111 112 2.370281 AGGCGTCTATGTTGTGTCTG 57.630 50.000 0.00 0.00 0.00 3.51
112 113 1.618837 AGGCGTCTATGTTGTGTCTGT 59.381 47.619 0.00 0.00 0.00 3.41
113 114 1.993370 GGCGTCTATGTTGTGTCTGTC 59.007 52.381 0.00 0.00 0.00 3.51
114 115 2.609491 GGCGTCTATGTTGTGTCTGTCA 60.609 50.000 0.00 0.00 0.00 3.58
115 116 3.254060 GCGTCTATGTTGTGTCTGTCAT 58.746 45.455 0.00 0.00 0.00 3.06
116 117 4.421058 GCGTCTATGTTGTGTCTGTCATA 58.579 43.478 0.00 0.00 0.00 2.15
117 118 5.043903 GCGTCTATGTTGTGTCTGTCATAT 58.956 41.667 0.00 0.00 0.00 1.78
118 119 5.520288 GCGTCTATGTTGTGTCTGTCATATT 59.480 40.000 0.00 0.00 0.00 1.28
119 120 6.508563 GCGTCTATGTTGTGTCTGTCATATTG 60.509 42.308 0.00 0.00 0.00 1.90
120 121 6.531594 CGTCTATGTTGTGTCTGTCATATTGT 59.468 38.462 0.00 0.00 0.00 2.71
121 122 7.463251 CGTCTATGTTGTGTCTGTCATATTGTG 60.463 40.741 0.00 0.00 0.00 3.33
122 123 7.545615 GTCTATGTTGTGTCTGTCATATTGTGA 59.454 37.037 0.00 0.00 0.00 3.58
144 145 9.671279 TGTGACTGATATGTTTGTTTATCATCT 57.329 29.630 0.00 0.00 35.04 2.90
162 163 7.934855 ATCATCTTTCTAACTCATTTGTGCT 57.065 32.000 0.00 0.00 0.00 4.40
163 164 7.369803 TCATCTTTCTAACTCATTTGTGCTC 57.630 36.000 0.00 0.00 0.00 4.26
164 165 7.164122 TCATCTTTCTAACTCATTTGTGCTCT 58.836 34.615 0.00 0.00 0.00 4.09
165 166 7.332926 TCATCTTTCTAACTCATTTGTGCTCTC 59.667 37.037 0.00 0.00 0.00 3.20
166 167 5.934625 TCTTTCTAACTCATTTGTGCTCTCC 59.065 40.000 0.00 0.00 0.00 3.71
167 168 5.489792 TTCTAACTCATTTGTGCTCTCCT 57.510 39.130 0.00 0.00 0.00 3.69
168 169 6.605471 TTCTAACTCATTTGTGCTCTCCTA 57.395 37.500 0.00 0.00 0.00 2.94
169 170 6.798427 TCTAACTCATTTGTGCTCTCCTAT 57.202 37.500 0.00 0.00 0.00 2.57
170 171 6.577103 TCTAACTCATTTGTGCTCTCCTATG 58.423 40.000 0.00 0.00 0.00 2.23
171 172 4.833478 ACTCATTTGTGCTCTCCTATGT 57.167 40.909 0.00 0.00 0.00 2.29
172 173 4.764172 ACTCATTTGTGCTCTCCTATGTC 58.236 43.478 0.00 0.00 0.00 3.06
173 174 4.125703 CTCATTTGTGCTCTCCTATGTCC 58.874 47.826 0.00 0.00 0.00 4.02
174 175 3.776969 TCATTTGTGCTCTCCTATGTCCT 59.223 43.478 0.00 0.00 0.00 3.85
175 176 3.895232 TTTGTGCTCTCCTATGTCCTC 57.105 47.619 0.00 0.00 0.00 3.71
176 177 2.532250 TGTGCTCTCCTATGTCCTCA 57.468 50.000 0.00 0.00 0.00 3.86
177 178 2.820178 TGTGCTCTCCTATGTCCTCAA 58.180 47.619 0.00 0.00 0.00 3.02
178 179 2.497675 TGTGCTCTCCTATGTCCTCAAC 59.502 50.000 0.00 0.00 0.00 3.18
179 180 2.763448 GTGCTCTCCTATGTCCTCAACT 59.237 50.000 0.00 0.00 0.00 3.16
180 181 3.027412 TGCTCTCCTATGTCCTCAACTC 58.973 50.000 0.00 0.00 0.00 3.01
181 182 2.364002 GCTCTCCTATGTCCTCAACTCC 59.636 54.545 0.00 0.00 0.00 3.85
182 183 3.909732 CTCTCCTATGTCCTCAACTCCT 58.090 50.000 0.00 0.00 0.00 3.69
183 184 3.888930 CTCTCCTATGTCCTCAACTCCTC 59.111 52.174 0.00 0.00 0.00 3.71
184 185 3.269643 TCTCCTATGTCCTCAACTCCTCA 59.730 47.826 0.00 0.00 0.00 3.86
185 186 4.078922 TCTCCTATGTCCTCAACTCCTCAT 60.079 45.833 0.00 0.00 0.00 2.90
186 187 5.134509 TCTCCTATGTCCTCAACTCCTCATA 59.865 44.000 0.00 0.00 0.00 2.15
187 188 5.777449 TCCTATGTCCTCAACTCCTCATAA 58.223 41.667 0.00 0.00 0.00 1.90
188 189 6.202331 TCCTATGTCCTCAACTCCTCATAAA 58.798 40.000 0.00 0.00 0.00 1.40
189 190 6.098409 TCCTATGTCCTCAACTCCTCATAAAC 59.902 42.308 0.00 0.00 0.00 2.01
190 191 6.098982 CCTATGTCCTCAACTCCTCATAAACT 59.901 42.308 0.00 0.00 0.00 2.66
191 192 7.287927 CCTATGTCCTCAACTCCTCATAAACTA 59.712 40.741 0.00 0.00 0.00 2.24
192 193 7.682787 ATGTCCTCAACTCCTCATAAACTAT 57.317 36.000 0.00 0.00 0.00 2.12
193 194 7.496346 TGTCCTCAACTCCTCATAAACTATT 57.504 36.000 0.00 0.00 0.00 1.73
194 195 7.918076 TGTCCTCAACTCCTCATAAACTATTT 58.082 34.615 0.00 0.00 0.00 1.40
195 196 8.041323 TGTCCTCAACTCCTCATAAACTATTTC 58.959 37.037 0.00 0.00 0.00 2.17
196 197 8.041323 GTCCTCAACTCCTCATAAACTATTTCA 58.959 37.037 0.00 0.00 0.00 2.69
197 198 8.772250 TCCTCAACTCCTCATAAACTATTTCAT 58.228 33.333 0.00 0.00 0.00 2.57
198 199 9.401058 CCTCAACTCCTCATAAACTATTTCATT 57.599 33.333 0.00 0.00 0.00 2.57
200 201 9.739276 TCAACTCCTCATAAACTATTTCATTGT 57.261 29.630 0.00 0.00 0.00 2.71
201 202 9.778993 CAACTCCTCATAAACTATTTCATTGTG 57.221 33.333 0.00 0.00 0.00 3.33
202 203 7.989826 ACTCCTCATAAACTATTTCATTGTGC 58.010 34.615 0.00 0.00 0.00 4.57
203 204 7.831193 ACTCCTCATAAACTATTTCATTGTGCT 59.169 33.333 0.00 0.00 0.00 4.40
204 205 8.579850 TCCTCATAAACTATTTCATTGTGCTT 57.420 30.769 0.00 0.00 0.00 3.91
205 206 9.679661 TCCTCATAAACTATTTCATTGTGCTTA 57.320 29.630 0.00 0.00 0.00 3.09
206 207 9.722056 CCTCATAAACTATTTCATTGTGCTTAC 57.278 33.333 0.00 0.00 0.00 2.34
207 208 9.722056 CTCATAAACTATTTCATTGTGCTTACC 57.278 33.333 0.00 0.00 0.00 2.85
208 209 8.682710 TCATAAACTATTTCATTGTGCTTACCC 58.317 33.333 0.00 0.00 0.00 3.69
209 210 5.560966 AACTATTTCATTGTGCTTACCCG 57.439 39.130 0.00 0.00 0.00 5.28
210 211 4.839121 ACTATTTCATTGTGCTTACCCGA 58.161 39.130 0.00 0.00 0.00 5.14
211 212 5.250200 ACTATTTCATTGTGCTTACCCGAA 58.750 37.500 0.00 0.00 0.00 4.30
212 213 4.701956 ATTTCATTGTGCTTACCCGAAG 57.298 40.909 0.00 0.00 38.30 3.79
232 233 6.735130 CGAAGGGAGATTTGTTAAAAACTGT 58.265 36.000 0.00 0.00 29.32 3.55
233 234 6.856426 CGAAGGGAGATTTGTTAAAAACTGTC 59.144 38.462 0.00 0.00 29.32 3.51
234 235 6.313744 AGGGAGATTTGTTAAAAACTGTCG 57.686 37.500 0.00 0.00 29.32 4.35
235 236 5.826208 AGGGAGATTTGTTAAAAACTGTCGT 59.174 36.000 0.00 0.00 29.32 4.34
236 237 6.320418 AGGGAGATTTGTTAAAAACTGTCGTT 59.680 34.615 0.00 0.00 29.32 3.85
237 238 6.976349 GGGAGATTTGTTAAAAACTGTCGTTT 59.024 34.615 0.00 0.00 44.87 3.60
238 239 8.130469 GGGAGATTTGTTAAAAACTGTCGTTTA 58.870 33.333 0.00 0.00 42.28 2.01
239 240 9.673454 GGAGATTTGTTAAAAACTGTCGTTTAT 57.327 29.630 0.00 0.00 42.28 1.40
241 242 9.673454 AGATTTGTTAAAAACTGTCGTTTATCC 57.327 29.630 0.00 0.00 42.28 2.59
242 243 7.895582 TTTGTTAAAAACTGTCGTTTATCCG 57.104 32.000 0.00 0.00 42.28 4.18
243 244 6.841443 TGTTAAAAACTGTCGTTTATCCGA 57.159 33.333 0.00 0.00 42.28 4.55
244 245 7.244166 TGTTAAAAACTGTCGTTTATCCGAA 57.756 32.000 0.00 0.00 42.28 4.30
245 246 7.692088 TGTTAAAAACTGTCGTTTATCCGAAA 58.308 30.769 0.00 0.00 42.28 3.46
246 247 8.344098 TGTTAAAAACTGTCGTTTATCCGAAAT 58.656 29.630 0.00 0.00 42.28 2.17
247 248 9.810231 GTTAAAAACTGTCGTTTATCCGAAATA 57.190 29.630 0.00 0.00 42.28 1.40
249 250 8.944212 AAAAACTGTCGTTTATCCGAAATAAG 57.056 30.769 0.00 0.00 42.28 1.73
250 251 7.894376 AAACTGTCGTTTATCCGAAATAAGA 57.106 32.000 0.00 0.00 41.36 2.10
251 252 7.521509 AACTGTCGTTTATCCGAAATAAGAG 57.478 36.000 0.00 0.00 38.80 2.85
252 253 6.628185 ACTGTCGTTTATCCGAAATAAGAGT 58.372 36.000 0.00 0.00 38.80 3.24
253 254 6.530534 ACTGTCGTTTATCCGAAATAAGAGTG 59.469 38.462 0.00 0.00 38.80 3.51
254 255 6.623486 TGTCGTTTATCCGAAATAAGAGTGA 58.377 36.000 0.00 0.00 38.80 3.41
255 256 6.750501 TGTCGTTTATCCGAAATAAGAGTGAG 59.249 38.462 0.00 0.00 38.80 3.51
256 257 6.198591 GTCGTTTATCCGAAATAAGAGTGAGG 59.801 42.308 0.00 0.00 38.80 3.86
257 258 6.095860 TCGTTTATCCGAAATAAGAGTGAGGA 59.904 38.462 0.00 0.00 33.15 3.71
258 259 6.755141 CGTTTATCCGAAATAAGAGTGAGGAA 59.245 38.462 0.00 0.00 0.00 3.36
259 260 7.277098 CGTTTATCCGAAATAAGAGTGAGGAAA 59.723 37.037 0.00 0.00 0.00 3.13
260 261 8.388853 GTTTATCCGAAATAAGAGTGAGGAAAC 58.611 37.037 0.00 0.00 0.00 2.78
261 262 5.477607 TCCGAAATAAGAGTGAGGAAACA 57.522 39.130 0.00 0.00 0.00 2.83
262 263 6.049955 TCCGAAATAAGAGTGAGGAAACAT 57.950 37.500 0.00 0.00 0.00 2.71
263 264 5.874810 TCCGAAATAAGAGTGAGGAAACATG 59.125 40.000 0.00 0.00 0.00 3.21
264 265 5.643777 CCGAAATAAGAGTGAGGAAACATGT 59.356 40.000 0.00 0.00 0.00 3.21
265 266 6.149474 CCGAAATAAGAGTGAGGAAACATGTT 59.851 38.462 4.92 4.92 0.00 2.71
266 267 7.333423 CCGAAATAAGAGTGAGGAAACATGTTA 59.667 37.037 12.39 0.00 0.00 2.41
267 268 8.169268 CGAAATAAGAGTGAGGAAACATGTTAC 58.831 37.037 12.39 8.27 0.00 2.50
268 269 8.918202 AAATAAGAGTGAGGAAACATGTTACA 57.082 30.769 12.39 7.46 0.00 2.41
269 270 7.907214 ATAAGAGTGAGGAAACATGTTACAC 57.093 36.000 12.39 17.65 0.00 2.90
270 271 5.552870 AGAGTGAGGAAACATGTTACACT 57.447 39.130 25.68 25.68 39.32 3.55
271 272 6.665992 AGAGTGAGGAAACATGTTACACTA 57.334 37.500 25.55 9.42 37.27 2.74
272 273 6.456501 AGAGTGAGGAAACATGTTACACTAC 58.543 40.000 25.55 20.84 37.27 2.73
273 274 6.041637 AGAGTGAGGAAACATGTTACACTACA 59.958 38.462 25.55 14.89 37.27 2.74
274 275 6.223852 AGTGAGGAAACATGTTACACTACAG 58.776 40.000 24.90 0.00 35.77 2.74
275 276 5.408604 GTGAGGAAACATGTTACACTACAGG 59.591 44.000 12.39 0.00 36.01 4.00
276 277 5.071250 TGAGGAAACATGTTACACTACAGGT 59.929 40.000 12.39 0.00 44.08 4.00
290 291 9.590451 TTACACTACAGGTTTTATACTATGTGC 57.410 33.333 0.00 0.00 31.87 4.57
291 292 7.617225 ACACTACAGGTTTTATACTATGTGCA 58.383 34.615 0.00 0.00 31.87 4.57
292 293 7.764443 ACACTACAGGTTTTATACTATGTGCAG 59.236 37.037 0.00 0.00 31.87 4.41
293 294 7.764443 CACTACAGGTTTTATACTATGTGCAGT 59.236 37.037 0.00 0.00 31.87 4.40
294 295 8.319146 ACTACAGGTTTTATACTATGTGCAGTT 58.681 33.333 0.00 0.00 31.87 3.16
295 296 7.377766 ACAGGTTTTATACTATGTGCAGTTG 57.622 36.000 0.00 0.00 0.00 3.16
296 297 6.128007 ACAGGTTTTATACTATGTGCAGTTGC 60.128 38.462 0.00 0.00 42.50 4.17
297 298 6.094048 CAGGTTTTATACTATGTGCAGTTGCT 59.906 38.462 5.62 0.00 42.66 3.91
298 299 6.659242 AGGTTTTATACTATGTGCAGTTGCTT 59.341 34.615 5.62 0.00 42.66 3.91
299 300 6.747280 GGTTTTATACTATGTGCAGTTGCTTG 59.253 38.462 5.62 0.00 42.66 4.01
300 301 7.305474 GTTTTATACTATGTGCAGTTGCTTGT 58.695 34.615 5.62 0.00 42.66 3.16
301 302 6.662414 TTATACTATGTGCAGTTGCTTGTC 57.338 37.500 5.62 0.00 42.66 3.18
302 303 3.131709 ACTATGTGCAGTTGCTTGTCT 57.868 42.857 5.62 0.00 42.66 3.41
303 304 3.480470 ACTATGTGCAGTTGCTTGTCTT 58.520 40.909 5.62 0.00 42.66 3.01
304 305 2.787601 ATGTGCAGTTGCTTGTCTTG 57.212 45.000 5.62 0.00 42.66 3.02
305 306 1.748950 TGTGCAGTTGCTTGTCTTGA 58.251 45.000 5.62 0.00 42.66 3.02
306 307 1.672363 TGTGCAGTTGCTTGTCTTGAG 59.328 47.619 5.62 0.00 42.66 3.02
307 308 1.672881 GTGCAGTTGCTTGTCTTGAGT 59.327 47.619 5.62 0.00 42.66 3.41
308 309 2.098117 GTGCAGTTGCTTGTCTTGAGTT 59.902 45.455 5.62 0.00 42.66 3.01
309 310 2.097954 TGCAGTTGCTTGTCTTGAGTTG 59.902 45.455 5.62 0.00 42.66 3.16
310 311 2.724349 CAGTTGCTTGTCTTGAGTTGC 58.276 47.619 0.00 0.00 0.00 4.17
311 312 2.357009 CAGTTGCTTGTCTTGAGTTGCT 59.643 45.455 0.00 0.00 0.00 3.91
312 313 3.019564 AGTTGCTTGTCTTGAGTTGCTT 58.980 40.909 0.00 0.00 0.00 3.91
313 314 3.111098 GTTGCTTGTCTTGAGTTGCTTG 58.889 45.455 0.00 0.00 0.00 4.01
314 315 2.368439 TGCTTGTCTTGAGTTGCTTGT 58.632 42.857 0.00 0.00 0.00 3.16
315 316 3.540617 TGCTTGTCTTGAGTTGCTTGTA 58.459 40.909 0.00 0.00 0.00 2.41
316 317 4.136796 TGCTTGTCTTGAGTTGCTTGTAT 58.863 39.130 0.00 0.00 0.00 2.29
317 318 5.304778 TGCTTGTCTTGAGTTGCTTGTATA 58.695 37.500 0.00 0.00 0.00 1.47
318 319 5.179368 TGCTTGTCTTGAGTTGCTTGTATAC 59.821 40.000 0.00 0.00 0.00 1.47
319 320 5.179368 GCTTGTCTTGAGTTGCTTGTATACA 59.821 40.000 0.08 0.08 0.00 2.29
320 321 6.293407 GCTTGTCTTGAGTTGCTTGTATACAA 60.293 38.462 17.16 17.16 0.00 2.41
321 322 6.539649 TGTCTTGAGTTGCTTGTATACAAC 57.460 37.500 14.35 11.61 45.15 3.32
322 323 6.052360 TGTCTTGAGTTGCTTGTATACAACA 58.948 36.000 14.35 13.82 46.79 3.33
323 324 6.710295 TGTCTTGAGTTGCTTGTATACAACAT 59.290 34.615 14.35 4.56 46.79 2.71
324 325 7.228507 TGTCTTGAGTTGCTTGTATACAACATT 59.771 33.333 14.35 8.97 46.79 2.71
325 326 8.076178 GTCTTGAGTTGCTTGTATACAACATTT 58.924 33.333 14.35 8.69 46.79 2.32
326 327 8.289618 TCTTGAGTTGCTTGTATACAACATTTC 58.710 33.333 14.35 15.24 46.79 2.17
327 328 6.908825 TGAGTTGCTTGTATACAACATTTCC 58.091 36.000 14.35 4.24 46.79 3.13
328 329 6.488344 TGAGTTGCTTGTATACAACATTTCCA 59.512 34.615 14.35 6.54 46.79 3.53
329 330 6.913170 AGTTGCTTGTATACAACATTTCCAG 58.087 36.000 14.35 3.58 46.79 3.86
330 331 6.714810 AGTTGCTTGTATACAACATTTCCAGA 59.285 34.615 14.35 0.00 46.79 3.86
331 332 6.741992 TGCTTGTATACAACATTTCCAGAG 57.258 37.500 14.35 2.16 38.10 3.35
332 333 5.123820 TGCTTGTATACAACATTTCCAGAGC 59.876 40.000 14.35 12.11 38.10 4.09
333 334 5.727791 GCTTGTATACAACATTTCCAGAGCG 60.728 44.000 14.35 1.75 38.10 5.03
334 335 3.621268 TGTATACAACATTTCCAGAGCGC 59.379 43.478 2.20 0.00 31.43 5.92
335 336 1.448985 TACAACATTTCCAGAGCGCC 58.551 50.000 2.29 0.00 0.00 6.53
336 337 1.244019 ACAACATTTCCAGAGCGCCC 61.244 55.000 2.29 0.00 0.00 6.13
337 338 0.962356 CAACATTTCCAGAGCGCCCT 60.962 55.000 2.29 0.00 0.00 5.19
338 339 0.618458 AACATTTCCAGAGCGCCCTA 59.382 50.000 2.29 0.00 0.00 3.53
339 340 0.839946 ACATTTCCAGAGCGCCCTAT 59.160 50.000 2.29 0.00 0.00 2.57
340 341 1.233019 CATTTCCAGAGCGCCCTATG 58.767 55.000 2.29 0.00 0.00 2.23
341 342 0.839946 ATTTCCAGAGCGCCCTATGT 59.160 50.000 2.29 0.00 0.00 2.29
342 343 0.107703 TTTCCAGAGCGCCCTATGTG 60.108 55.000 2.29 0.00 0.00 3.21
343 344 0.975556 TTCCAGAGCGCCCTATGTGA 60.976 55.000 2.29 0.00 0.00 3.58
344 345 0.975556 TCCAGAGCGCCCTATGTGAA 60.976 55.000 2.29 0.00 0.00 3.18
345 346 0.531532 CCAGAGCGCCCTATGTGAAG 60.532 60.000 2.29 0.00 0.00 3.02
346 347 0.176680 CAGAGCGCCCTATGTGAAGT 59.823 55.000 2.29 0.00 0.00 3.01
347 348 1.409064 CAGAGCGCCCTATGTGAAGTA 59.591 52.381 2.29 0.00 0.00 2.24
348 349 2.036475 CAGAGCGCCCTATGTGAAGTAT 59.964 50.000 2.29 0.00 0.00 2.12
349 350 2.297597 AGAGCGCCCTATGTGAAGTATC 59.702 50.000 2.29 0.00 0.00 2.24
350 351 1.000163 AGCGCCCTATGTGAAGTATCG 60.000 52.381 2.29 0.00 0.00 2.92
351 352 1.419374 CGCCCTATGTGAAGTATCGC 58.581 55.000 0.00 0.00 36.58 4.58
352 353 1.797025 GCCCTATGTGAAGTATCGCC 58.203 55.000 0.00 0.00 35.11 5.54
659 1655 1.351017 CTCAGTTTTGCCCCTAGTCCA 59.649 52.381 0.00 0.00 0.00 4.02
1117 2115 3.515502 TGATCGAAGGGTTTCTCAGACAT 59.484 43.478 0.00 0.00 0.00 3.06
1273 2271 0.391661 TCTTTGGGTCGATGCTCTGC 60.392 55.000 0.00 0.00 0.00 4.26
1298 2296 3.519579 AGACTCTGATGAATGAACTGCG 58.480 45.455 0.00 0.00 0.00 5.18
1808 2809 2.472029 AGTGCAGGCTAGACTAATGGT 58.528 47.619 0.00 0.00 0.00 3.55
1836 2837 2.699846 GCATCCAATTAGGCCCATTCAA 59.300 45.455 0.00 0.00 37.29 2.69
1943 2944 6.484364 AATTGAATTATTCCGGAGCCAAAT 57.516 33.333 3.34 0.00 0.00 2.32
2148 3150 4.703379 AAATGAAGGGTGGAAAATGCAA 57.297 36.364 0.00 0.00 0.00 4.08
2374 3377 6.410540 TGTTTTGCACTTAAATTTTGGAGGT 58.589 32.000 0.00 0.00 0.00 3.85
2400 3403 4.929211 GGAAGGTTGAAAATGTATGTTGCC 59.071 41.667 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.785453 GAGGCGGGCAGAAGGTGG 62.785 72.222 3.78 0.00 0.00 4.61
1 2 4.785453 GGAGGCGGGCAGAAGGTG 62.785 72.222 3.78 0.00 0.00 4.00
3 4 3.764160 GATGGAGGCGGGCAGAAGG 62.764 68.421 3.78 0.00 0.00 3.46
4 5 2.203126 GATGGAGGCGGGCAGAAG 60.203 66.667 3.78 0.00 0.00 2.85
5 6 3.797353 GGATGGAGGCGGGCAGAA 61.797 66.667 3.78 0.00 0.00 3.02
7 8 4.559063 CAGGATGGAGGCGGGCAG 62.559 72.222 3.78 0.00 0.00 4.85
9 10 4.554036 GACAGGATGGAGGCGGGC 62.554 72.222 0.00 0.00 43.62 6.13
10 11 2.765807 AGACAGGATGGAGGCGGG 60.766 66.667 0.00 0.00 43.62 6.13
11 12 2.503061 CAGACAGGATGGAGGCGG 59.497 66.667 0.00 0.00 43.62 6.13
12 13 2.362369 ACCAGACAGGATGGAGGCG 61.362 63.158 0.00 0.00 43.62 5.52
13 14 1.222936 CACCAGACAGGATGGAGGC 59.777 63.158 0.00 0.00 43.62 4.70
14 15 0.539051 GTCACCAGACAGGATGGAGG 59.461 60.000 0.00 0.00 44.34 4.30
22 23 5.948504 CGGTTACACCAGTCACCAGACAG 62.949 56.522 0.00 0.00 41.21 3.51
23 24 4.171296 CGGTTACACCAGTCACCAGACA 62.171 54.545 0.00 0.00 41.21 3.41
24 25 1.604693 CGGTTACACCAGTCACCAGAC 60.605 57.143 0.00 0.00 41.21 3.51
25 26 0.677288 CGGTTACACCAGTCACCAGA 59.323 55.000 0.00 0.00 41.21 3.86
26 27 0.391597 ACGGTTACACCAGTCACCAG 59.608 55.000 0.00 0.00 41.21 4.00
27 28 0.105224 CACGGTTACACCAGTCACCA 59.895 55.000 0.00 0.00 41.21 4.17
28 29 0.105408 ACACGGTTACACCAGTCACC 59.895 55.000 0.00 0.00 38.47 4.02
29 30 2.798976 TACACGGTTACACCAGTCAC 57.201 50.000 0.00 0.00 38.47 3.67
30 31 2.694628 ACTTACACGGTTACACCAGTCA 59.305 45.455 0.00 0.00 38.47 3.41
31 32 3.375782 ACTTACACGGTTACACCAGTC 57.624 47.619 0.00 0.00 38.47 3.51
32 33 3.305608 GCTACTTACACGGTTACACCAGT 60.306 47.826 0.00 0.00 38.47 4.00
33 34 3.248266 GCTACTTACACGGTTACACCAG 58.752 50.000 0.00 0.00 38.47 4.00
34 35 2.029110 GGCTACTTACACGGTTACACCA 60.029 50.000 0.00 0.00 38.47 4.17
35 36 2.610433 GGCTACTTACACGGTTACACC 58.390 52.381 0.00 0.00 34.05 4.16
36 37 2.610433 GGGCTACTTACACGGTTACAC 58.390 52.381 0.00 0.00 0.00 2.90
37 38 1.550072 GGGGCTACTTACACGGTTACA 59.450 52.381 0.00 0.00 0.00 2.41
38 39 1.134699 GGGGGCTACTTACACGGTTAC 60.135 57.143 0.00 0.00 0.00 2.50
39 40 1.194218 GGGGGCTACTTACACGGTTA 58.806 55.000 0.00 0.00 0.00 2.85
40 41 1.985614 GGGGGCTACTTACACGGTT 59.014 57.895 0.00 0.00 0.00 4.44
41 42 3.717750 GGGGGCTACTTACACGGT 58.282 61.111 0.00 0.00 0.00 4.83
63 64 3.662759 TCAAACTATTTAGCCTGGGGG 57.337 47.619 0.00 0.00 0.00 5.40
64 65 7.277174 CTAAATCAAACTATTTAGCCTGGGG 57.723 40.000 0.00 0.00 40.61 4.96
71 72 6.912591 CGCCTTGGCTAAATCAAACTATTTAG 59.087 38.462 10.12 10.57 45.84 1.85
72 73 6.376018 ACGCCTTGGCTAAATCAAACTATTTA 59.624 34.615 10.12 0.00 31.63 1.40
73 74 5.185056 ACGCCTTGGCTAAATCAAACTATTT 59.815 36.000 10.12 0.00 33.69 1.40
74 75 4.705023 ACGCCTTGGCTAAATCAAACTATT 59.295 37.500 10.12 0.00 0.00 1.73
75 76 4.270008 ACGCCTTGGCTAAATCAAACTAT 58.730 39.130 10.12 0.00 0.00 2.12
76 77 3.681593 ACGCCTTGGCTAAATCAAACTA 58.318 40.909 10.12 0.00 0.00 2.24
77 78 2.488153 GACGCCTTGGCTAAATCAAACT 59.512 45.455 10.12 0.00 0.00 2.66
78 79 2.488153 AGACGCCTTGGCTAAATCAAAC 59.512 45.455 10.12 0.00 0.00 2.93
79 80 2.790433 AGACGCCTTGGCTAAATCAAA 58.210 42.857 10.12 0.00 0.00 2.69
80 81 2.489938 AGACGCCTTGGCTAAATCAA 57.510 45.000 10.12 0.00 0.00 2.57
81 82 3.118408 ACATAGACGCCTTGGCTAAATCA 60.118 43.478 10.12 0.00 0.00 2.57
82 83 3.467803 ACATAGACGCCTTGGCTAAATC 58.532 45.455 10.12 2.60 0.00 2.17
83 84 3.560636 ACATAGACGCCTTGGCTAAAT 57.439 42.857 10.12 0.00 0.00 1.40
84 85 3.006940 CAACATAGACGCCTTGGCTAAA 58.993 45.455 10.12 0.00 0.00 1.85
85 86 2.027561 ACAACATAGACGCCTTGGCTAA 60.028 45.455 10.12 0.00 0.00 3.09
86 87 1.553248 ACAACATAGACGCCTTGGCTA 59.447 47.619 10.12 0.00 0.00 3.93
87 88 0.324943 ACAACATAGACGCCTTGGCT 59.675 50.000 10.12 0.00 0.00 4.75
88 89 0.447801 CACAACATAGACGCCTTGGC 59.552 55.000 0.75 0.75 0.00 4.52
89 90 1.732259 GACACAACATAGACGCCTTGG 59.268 52.381 0.00 0.00 0.00 3.61
90 91 2.413112 CAGACACAACATAGACGCCTTG 59.587 50.000 0.00 0.00 0.00 3.61
91 92 2.037251 ACAGACACAACATAGACGCCTT 59.963 45.455 0.00 0.00 0.00 4.35
92 93 1.618837 ACAGACACAACATAGACGCCT 59.381 47.619 0.00 0.00 0.00 5.52
93 94 1.993370 GACAGACACAACATAGACGCC 59.007 52.381 0.00 0.00 0.00 5.68
94 95 2.672714 TGACAGACACAACATAGACGC 58.327 47.619 0.00 0.00 0.00 5.19
95 96 6.531594 ACAATATGACAGACACAACATAGACG 59.468 38.462 0.00 0.00 0.00 4.18
96 97 7.545615 TCACAATATGACAGACACAACATAGAC 59.454 37.037 0.00 0.00 29.99 2.59
97 98 7.610865 TCACAATATGACAGACACAACATAGA 58.389 34.615 0.00 0.00 29.99 1.98
98 99 7.832503 TCACAATATGACAGACACAACATAG 57.167 36.000 0.00 0.00 29.99 2.23
118 119 9.671279 AGATGATAAACAAACATATCAGTCACA 57.329 29.630 0.00 0.00 40.71 3.58
136 137 9.453572 AGCACAAATGAGTTAGAAAGATGATAA 57.546 29.630 0.00 0.00 0.00 1.75
137 138 9.102757 GAGCACAAATGAGTTAGAAAGATGATA 57.897 33.333 0.00 0.00 0.00 2.15
138 139 7.828223 AGAGCACAAATGAGTTAGAAAGATGAT 59.172 33.333 0.00 0.00 0.00 2.45
139 140 7.164122 AGAGCACAAATGAGTTAGAAAGATGA 58.836 34.615 0.00 0.00 0.00 2.92
140 141 7.375106 AGAGCACAAATGAGTTAGAAAGATG 57.625 36.000 0.00 0.00 0.00 2.90
141 142 6.597280 GGAGAGCACAAATGAGTTAGAAAGAT 59.403 38.462 0.00 0.00 0.00 2.40
142 143 5.934625 GGAGAGCACAAATGAGTTAGAAAGA 59.065 40.000 0.00 0.00 0.00 2.52
143 144 5.936956 AGGAGAGCACAAATGAGTTAGAAAG 59.063 40.000 0.00 0.00 0.00 2.62
144 145 5.869579 AGGAGAGCACAAATGAGTTAGAAA 58.130 37.500 0.00 0.00 0.00 2.52
145 146 5.489792 AGGAGAGCACAAATGAGTTAGAA 57.510 39.130 0.00 0.00 0.00 2.10
146 147 6.155221 ACATAGGAGAGCACAAATGAGTTAGA 59.845 38.462 0.00 0.00 0.00 2.10
147 148 6.344500 ACATAGGAGAGCACAAATGAGTTAG 58.656 40.000 0.00 0.00 0.00 2.34
148 149 6.299805 ACATAGGAGAGCACAAATGAGTTA 57.700 37.500 0.00 0.00 0.00 2.24
149 150 5.171339 ACATAGGAGAGCACAAATGAGTT 57.829 39.130 0.00 0.00 0.00 3.01
150 151 4.383552 GGACATAGGAGAGCACAAATGAGT 60.384 45.833 0.00 0.00 0.00 3.41
151 152 4.125703 GGACATAGGAGAGCACAAATGAG 58.874 47.826 0.00 0.00 0.00 2.90
152 153 3.776969 AGGACATAGGAGAGCACAAATGA 59.223 43.478 0.00 0.00 0.00 2.57
153 154 4.125703 GAGGACATAGGAGAGCACAAATG 58.874 47.826 0.00 0.00 0.00 2.32
154 155 3.776969 TGAGGACATAGGAGAGCACAAAT 59.223 43.478 0.00 0.00 0.00 2.32
155 156 3.173151 TGAGGACATAGGAGAGCACAAA 58.827 45.455 0.00 0.00 0.00 2.83
156 157 2.820178 TGAGGACATAGGAGAGCACAA 58.180 47.619 0.00 0.00 0.00 3.33
157 158 2.497675 GTTGAGGACATAGGAGAGCACA 59.502 50.000 0.00 0.00 0.00 4.57
158 159 2.763448 AGTTGAGGACATAGGAGAGCAC 59.237 50.000 0.00 0.00 0.00 4.40
159 160 3.027412 GAGTTGAGGACATAGGAGAGCA 58.973 50.000 0.00 0.00 0.00 4.26
160 161 2.364002 GGAGTTGAGGACATAGGAGAGC 59.636 54.545 0.00 0.00 0.00 4.09
161 162 3.888930 GAGGAGTTGAGGACATAGGAGAG 59.111 52.174 0.00 0.00 0.00 3.20
162 163 3.269643 TGAGGAGTTGAGGACATAGGAGA 59.730 47.826 0.00 0.00 0.00 3.71
163 164 3.636679 TGAGGAGTTGAGGACATAGGAG 58.363 50.000 0.00 0.00 0.00 3.69
164 165 3.757947 TGAGGAGTTGAGGACATAGGA 57.242 47.619 0.00 0.00 0.00 2.94
165 166 6.098982 AGTTTATGAGGAGTTGAGGACATAGG 59.901 42.308 0.00 0.00 0.00 2.57
166 167 7.118496 AGTTTATGAGGAGTTGAGGACATAG 57.882 40.000 0.00 0.00 0.00 2.23
167 168 8.783660 ATAGTTTATGAGGAGTTGAGGACATA 57.216 34.615 0.00 0.00 0.00 2.29
168 169 7.682787 ATAGTTTATGAGGAGTTGAGGACAT 57.317 36.000 0.00 0.00 0.00 3.06
169 170 7.496346 AATAGTTTATGAGGAGTTGAGGACA 57.504 36.000 0.00 0.00 0.00 4.02
170 171 8.041323 TGAAATAGTTTATGAGGAGTTGAGGAC 58.959 37.037 0.00 0.00 0.00 3.85
171 172 8.146053 TGAAATAGTTTATGAGGAGTTGAGGA 57.854 34.615 0.00 0.00 0.00 3.71
172 173 8.970859 ATGAAATAGTTTATGAGGAGTTGAGG 57.029 34.615 0.00 0.00 0.00 3.86
174 175 9.739276 ACAATGAAATAGTTTATGAGGAGTTGA 57.261 29.630 0.00 0.00 0.00 3.18
175 176 9.778993 CACAATGAAATAGTTTATGAGGAGTTG 57.221 33.333 0.00 0.00 0.00 3.16
176 177 8.462016 GCACAATGAAATAGTTTATGAGGAGTT 58.538 33.333 0.00 0.00 0.00 3.01
177 178 7.831193 AGCACAATGAAATAGTTTATGAGGAGT 59.169 33.333 0.00 0.00 0.00 3.85
178 179 8.218338 AGCACAATGAAATAGTTTATGAGGAG 57.782 34.615 0.00 0.00 0.00 3.69
179 180 8.579850 AAGCACAATGAAATAGTTTATGAGGA 57.420 30.769 0.00 0.00 0.00 3.71
180 181 9.722056 GTAAGCACAATGAAATAGTTTATGAGG 57.278 33.333 0.00 0.00 0.00 3.86
181 182 9.722056 GGTAAGCACAATGAAATAGTTTATGAG 57.278 33.333 0.00 0.00 0.00 2.90
182 183 8.682710 GGGTAAGCACAATGAAATAGTTTATGA 58.317 33.333 0.00 0.00 0.00 2.15
183 184 7.643764 CGGGTAAGCACAATGAAATAGTTTATG 59.356 37.037 0.00 0.00 0.00 1.90
184 185 7.554835 TCGGGTAAGCACAATGAAATAGTTTAT 59.445 33.333 0.00 0.00 0.00 1.40
185 186 6.879993 TCGGGTAAGCACAATGAAATAGTTTA 59.120 34.615 0.00 0.00 0.00 2.01
186 187 5.708230 TCGGGTAAGCACAATGAAATAGTTT 59.292 36.000 0.00 0.00 0.00 2.66
187 188 5.250200 TCGGGTAAGCACAATGAAATAGTT 58.750 37.500 0.00 0.00 0.00 2.24
188 189 4.839121 TCGGGTAAGCACAATGAAATAGT 58.161 39.130 0.00 0.00 0.00 2.12
189 190 5.220854 CCTTCGGGTAAGCACAATGAAATAG 60.221 44.000 0.00 0.00 33.49 1.73
190 191 4.638421 CCTTCGGGTAAGCACAATGAAATA 59.362 41.667 0.00 0.00 33.49 1.40
191 192 3.443681 CCTTCGGGTAAGCACAATGAAAT 59.556 43.478 0.00 0.00 33.49 2.17
192 193 2.817258 CCTTCGGGTAAGCACAATGAAA 59.183 45.455 0.00 0.00 33.49 2.69
193 194 2.432444 CCTTCGGGTAAGCACAATGAA 58.568 47.619 0.00 0.00 33.49 2.57
194 195 1.339631 CCCTTCGGGTAAGCACAATGA 60.340 52.381 0.00 0.00 38.25 2.57
195 196 1.094785 CCCTTCGGGTAAGCACAATG 58.905 55.000 0.00 0.00 38.25 2.82
196 197 0.988832 TCCCTTCGGGTAAGCACAAT 59.011 50.000 0.00 0.00 44.74 2.71
197 198 0.323629 CTCCCTTCGGGTAAGCACAA 59.676 55.000 0.00 0.00 44.74 3.33
198 199 0.543410 TCTCCCTTCGGGTAAGCACA 60.543 55.000 0.00 0.00 44.74 4.57
199 200 0.831307 ATCTCCCTTCGGGTAAGCAC 59.169 55.000 0.00 0.00 44.74 4.40
200 201 1.580059 AATCTCCCTTCGGGTAAGCA 58.420 50.000 0.00 0.00 44.74 3.91
201 202 2.289565 CAAATCTCCCTTCGGGTAAGC 58.710 52.381 0.00 0.00 44.74 3.09
202 203 3.629142 ACAAATCTCCCTTCGGGTAAG 57.371 47.619 0.00 0.00 44.74 2.34
203 204 5.502089 TTAACAAATCTCCCTTCGGGTAA 57.498 39.130 0.00 0.00 44.74 2.85
204 205 5.502089 TTTAACAAATCTCCCTTCGGGTA 57.498 39.130 0.00 0.00 44.74 3.69
205 206 4.376225 TTTAACAAATCTCCCTTCGGGT 57.624 40.909 0.00 0.00 44.74 5.28
206 207 5.243060 AGTTTTTAACAAATCTCCCTTCGGG 59.757 40.000 0.00 0.00 46.11 5.14
207 208 6.149633 CAGTTTTTAACAAATCTCCCTTCGG 58.850 40.000 0.00 0.00 0.00 4.30
208 209 6.735130 ACAGTTTTTAACAAATCTCCCTTCG 58.265 36.000 0.00 0.00 0.00 3.79
209 210 6.856426 CGACAGTTTTTAACAAATCTCCCTTC 59.144 38.462 0.00 0.00 0.00 3.46
210 211 6.320418 ACGACAGTTTTTAACAAATCTCCCTT 59.680 34.615 0.00 0.00 0.00 3.95
211 212 5.826208 ACGACAGTTTTTAACAAATCTCCCT 59.174 36.000 0.00 0.00 0.00 4.20
212 213 6.068473 ACGACAGTTTTTAACAAATCTCCC 57.932 37.500 0.00 0.00 0.00 4.30
227 228 7.063074 CACTCTTATTTCGGATAAACGACAGTT 59.937 37.037 0.00 0.00 43.37 3.16
228 229 6.530534 CACTCTTATTTCGGATAAACGACAGT 59.469 38.462 0.00 0.00 43.37 3.55
229 230 6.750501 TCACTCTTATTTCGGATAAACGACAG 59.249 38.462 0.00 0.00 43.37 3.51
230 231 6.623486 TCACTCTTATTTCGGATAAACGACA 58.377 36.000 0.00 0.00 43.37 4.35
231 232 6.198591 CCTCACTCTTATTTCGGATAAACGAC 59.801 42.308 0.00 0.00 43.37 4.34
232 233 6.095860 TCCTCACTCTTATTTCGGATAAACGA 59.904 38.462 0.00 0.00 41.76 3.85
233 234 6.270815 TCCTCACTCTTATTTCGGATAAACG 58.729 40.000 0.00 0.00 0.00 3.60
234 235 8.388853 GTTTCCTCACTCTTATTTCGGATAAAC 58.611 37.037 0.00 0.00 0.00 2.01
235 236 8.098286 TGTTTCCTCACTCTTATTTCGGATAAA 58.902 33.333 0.00 0.00 0.00 1.40
236 237 7.617225 TGTTTCCTCACTCTTATTTCGGATAA 58.383 34.615 0.00 0.00 0.00 1.75
237 238 7.177832 TGTTTCCTCACTCTTATTTCGGATA 57.822 36.000 0.00 0.00 0.00 2.59
238 239 6.049955 TGTTTCCTCACTCTTATTTCGGAT 57.950 37.500 0.00 0.00 0.00 4.18
239 240 5.477607 TGTTTCCTCACTCTTATTTCGGA 57.522 39.130 0.00 0.00 0.00 4.55
240 241 5.643777 ACATGTTTCCTCACTCTTATTTCGG 59.356 40.000 0.00 0.00 0.00 4.30
241 242 6.727824 ACATGTTTCCTCACTCTTATTTCG 57.272 37.500 0.00 0.00 0.00 3.46
242 243 8.999431 TGTAACATGTTTCCTCACTCTTATTTC 58.001 33.333 17.78 0.00 0.00 2.17
243 244 8.784043 GTGTAACATGTTTCCTCACTCTTATTT 58.216 33.333 17.78 0.00 36.32 1.40
244 245 8.157476 AGTGTAACATGTTTCCTCACTCTTATT 58.843 33.333 17.78 2.79 41.43 1.40
245 246 7.680730 AGTGTAACATGTTTCCTCACTCTTAT 58.319 34.615 17.78 3.39 41.43 1.73
246 247 7.062749 AGTGTAACATGTTTCCTCACTCTTA 57.937 36.000 17.78 0.00 41.43 2.10
247 248 5.930135 AGTGTAACATGTTTCCTCACTCTT 58.070 37.500 17.78 4.00 41.43 2.85
248 249 5.552870 AGTGTAACATGTTTCCTCACTCT 57.447 39.130 17.78 11.24 41.43 3.24
249 250 6.220930 TGTAGTGTAACATGTTTCCTCACTC 58.779 40.000 25.99 20.63 41.43 3.51
250 251 6.169557 TGTAGTGTAACATGTTTCCTCACT 57.830 37.500 25.74 25.74 41.43 3.41
251 252 5.408604 CCTGTAGTGTAACATGTTTCCTCAC 59.591 44.000 17.78 18.51 41.43 3.51
252 253 5.071250 ACCTGTAGTGTAACATGTTTCCTCA 59.929 40.000 17.78 8.61 41.43 3.86
253 254 5.548406 ACCTGTAGTGTAACATGTTTCCTC 58.452 41.667 17.78 8.85 41.43 3.71
254 255 5.562298 ACCTGTAGTGTAACATGTTTCCT 57.438 39.130 17.78 12.71 41.43 3.36
255 256 6.628919 AAACCTGTAGTGTAACATGTTTCC 57.371 37.500 17.78 8.61 41.41 3.13
264 265 9.590451 GCACATAGTATAAAACCTGTAGTGTAA 57.410 33.333 0.00 0.00 0.00 2.41
265 266 8.751242 TGCACATAGTATAAAACCTGTAGTGTA 58.249 33.333 0.00 0.00 0.00 2.90
266 267 7.617225 TGCACATAGTATAAAACCTGTAGTGT 58.383 34.615 0.00 0.00 0.00 3.55
267 268 7.764443 ACTGCACATAGTATAAAACCTGTAGTG 59.236 37.037 0.00 0.00 0.00 2.74
268 269 7.848128 ACTGCACATAGTATAAAACCTGTAGT 58.152 34.615 0.00 0.00 0.00 2.73
269 270 8.604035 CAACTGCACATAGTATAAAACCTGTAG 58.396 37.037 0.00 0.00 0.00 2.74
270 271 7.065324 GCAACTGCACATAGTATAAAACCTGTA 59.935 37.037 0.00 0.00 41.59 2.74
271 272 6.128007 GCAACTGCACATAGTATAAAACCTGT 60.128 38.462 0.00 0.00 41.59 4.00
272 273 6.094048 AGCAACTGCACATAGTATAAAACCTG 59.906 38.462 4.22 0.00 45.16 4.00
273 274 6.180472 AGCAACTGCACATAGTATAAAACCT 58.820 36.000 4.22 0.00 45.16 3.50
274 275 6.436843 AGCAACTGCACATAGTATAAAACC 57.563 37.500 4.22 0.00 45.16 3.27
275 276 7.305474 ACAAGCAACTGCACATAGTATAAAAC 58.695 34.615 4.22 0.00 45.16 2.43
276 277 7.390440 AGACAAGCAACTGCACATAGTATAAAA 59.610 33.333 4.22 0.00 45.16 1.52
277 278 6.878923 AGACAAGCAACTGCACATAGTATAAA 59.121 34.615 4.22 0.00 45.16 1.40
278 279 6.406370 AGACAAGCAACTGCACATAGTATAA 58.594 36.000 4.22 0.00 45.16 0.98
279 280 5.977635 AGACAAGCAACTGCACATAGTATA 58.022 37.500 4.22 0.00 45.16 1.47
280 281 4.836825 AGACAAGCAACTGCACATAGTAT 58.163 39.130 4.22 0.00 45.16 2.12
281 282 4.271696 AGACAAGCAACTGCACATAGTA 57.728 40.909 4.22 0.00 45.16 1.82
282 283 3.131709 AGACAAGCAACTGCACATAGT 57.868 42.857 4.22 0.00 45.16 2.12
283 284 3.499537 TCAAGACAAGCAACTGCACATAG 59.500 43.478 4.22 0.00 45.16 2.23
284 285 3.475575 TCAAGACAAGCAACTGCACATA 58.524 40.909 4.22 0.00 45.16 2.29
285 286 2.292569 CTCAAGACAAGCAACTGCACAT 59.707 45.455 4.22 0.00 45.16 3.21
286 287 1.672363 CTCAAGACAAGCAACTGCACA 59.328 47.619 4.22 0.00 45.16 4.57
287 288 1.672881 ACTCAAGACAAGCAACTGCAC 59.327 47.619 4.22 0.00 45.16 4.57
288 289 2.042686 ACTCAAGACAAGCAACTGCA 57.957 45.000 4.22 0.00 45.16 4.41
289 290 2.724349 CAACTCAAGACAAGCAACTGC 58.276 47.619 0.00 0.00 42.49 4.40
290 291 2.357009 AGCAACTCAAGACAAGCAACTG 59.643 45.455 0.00 0.00 0.00 3.16
291 292 2.648059 AGCAACTCAAGACAAGCAACT 58.352 42.857 0.00 0.00 0.00 3.16
292 293 3.111098 CAAGCAACTCAAGACAAGCAAC 58.889 45.455 0.00 0.00 0.00 4.17
293 294 2.754552 ACAAGCAACTCAAGACAAGCAA 59.245 40.909 0.00 0.00 0.00 3.91
294 295 2.368439 ACAAGCAACTCAAGACAAGCA 58.632 42.857 0.00 0.00 0.00 3.91
295 296 4.756084 ATACAAGCAACTCAAGACAAGC 57.244 40.909 0.00 0.00 0.00 4.01
296 297 6.785488 TGTATACAAGCAACTCAAGACAAG 57.215 37.500 2.20 0.00 0.00 3.16
297 298 6.540551 TGTTGTATACAAGCAACTCAAGACAA 59.459 34.615 18.56 0.00 43.66 3.18
298 299 6.052360 TGTTGTATACAAGCAACTCAAGACA 58.948 36.000 18.56 6.54 43.66 3.41
299 300 6.539649 TGTTGTATACAAGCAACTCAAGAC 57.460 37.500 18.56 3.98 43.66 3.01
300 301 7.744087 AATGTTGTATACAAGCAACTCAAGA 57.256 32.000 18.56 0.00 43.66 3.02
301 302 7.538678 GGAAATGTTGTATACAAGCAACTCAAG 59.461 37.037 18.56 0.00 43.66 3.02
302 303 7.013750 TGGAAATGTTGTATACAAGCAACTCAA 59.986 33.333 18.56 10.55 43.66 3.02
303 304 6.488344 TGGAAATGTTGTATACAAGCAACTCA 59.512 34.615 18.56 11.91 43.66 3.41
304 305 6.908825 TGGAAATGTTGTATACAAGCAACTC 58.091 36.000 18.56 16.39 43.66 3.01
305 306 6.714810 TCTGGAAATGTTGTATACAAGCAACT 59.285 34.615 18.56 10.47 43.66 3.16
306 307 6.908825 TCTGGAAATGTTGTATACAAGCAAC 58.091 36.000 18.56 8.39 43.60 4.17
307 308 6.349280 GCTCTGGAAATGTTGTATACAAGCAA 60.349 38.462 18.56 8.11 40.89 3.91
308 309 5.123820 GCTCTGGAAATGTTGTATACAAGCA 59.876 40.000 18.56 17.86 40.89 3.91
309 310 5.573146 GCTCTGGAAATGTTGTATACAAGC 58.427 41.667 18.56 10.36 40.89 4.01
310 311 5.727791 GCGCTCTGGAAATGTTGTATACAAG 60.728 44.000 18.56 4.68 40.89 3.16
311 312 4.094294 GCGCTCTGGAAATGTTGTATACAA 59.906 41.667 14.35 14.35 40.89 2.41
312 313 3.621268 GCGCTCTGGAAATGTTGTATACA 59.379 43.478 0.08 0.08 41.97 2.29
313 314 3.002348 GGCGCTCTGGAAATGTTGTATAC 59.998 47.826 7.64 0.00 0.00 1.47
314 315 3.202906 GGCGCTCTGGAAATGTTGTATA 58.797 45.455 7.64 0.00 0.00 1.47
315 316 2.017049 GGCGCTCTGGAAATGTTGTAT 58.983 47.619 7.64 0.00 0.00 2.29
316 317 1.448985 GGCGCTCTGGAAATGTTGTA 58.551 50.000 7.64 0.00 0.00 2.41
317 318 1.244019 GGGCGCTCTGGAAATGTTGT 61.244 55.000 7.64 0.00 0.00 3.32
318 319 0.962356 AGGGCGCTCTGGAAATGTTG 60.962 55.000 10.28 0.00 0.00 3.33
319 320 0.618458 TAGGGCGCTCTGGAAATGTT 59.382 50.000 23.04 0.00 0.00 2.71
320 321 0.839946 ATAGGGCGCTCTGGAAATGT 59.160 50.000 23.04 0.00 0.00 2.71
321 322 1.233019 CATAGGGCGCTCTGGAAATG 58.767 55.000 23.04 12.13 0.00 2.32
322 323 0.839946 ACATAGGGCGCTCTGGAAAT 59.160 50.000 23.04 1.13 0.00 2.17
323 324 0.107703 CACATAGGGCGCTCTGGAAA 60.108 55.000 23.04 0.00 0.00 3.13
324 325 0.975556 TCACATAGGGCGCTCTGGAA 60.976 55.000 23.04 0.00 0.00 3.53
325 326 0.975556 TTCACATAGGGCGCTCTGGA 60.976 55.000 23.04 9.45 0.00 3.86
326 327 0.531532 CTTCACATAGGGCGCTCTGG 60.532 60.000 23.04 15.02 0.00 3.86
327 328 0.176680 ACTTCACATAGGGCGCTCTG 59.823 55.000 23.04 7.68 0.00 3.35
328 329 1.776662 TACTTCACATAGGGCGCTCT 58.223 50.000 17.29 17.29 0.00 4.09
329 330 2.678324 GATACTTCACATAGGGCGCTC 58.322 52.381 6.54 1.48 0.00 5.03
330 331 1.000163 CGATACTTCACATAGGGCGCT 60.000 52.381 7.64 8.86 0.00 5.92
331 332 1.419374 CGATACTTCACATAGGGCGC 58.581 55.000 0.00 0.00 0.00 6.53
332 333 1.419374 GCGATACTTCACATAGGGCG 58.581 55.000 0.00 0.00 0.00 6.13
333 334 1.344763 AGGCGATACTTCACATAGGGC 59.655 52.381 0.00 0.00 0.00 5.19
334 335 2.365617 ACAGGCGATACTTCACATAGGG 59.634 50.000 0.00 0.00 0.00 3.53
335 336 3.735237 ACAGGCGATACTTCACATAGG 57.265 47.619 0.00 0.00 0.00 2.57
336 337 3.804325 CCAACAGGCGATACTTCACATAG 59.196 47.826 0.00 0.00 0.00 2.23
337 338 3.792401 CCAACAGGCGATACTTCACATA 58.208 45.455 0.00 0.00 0.00 2.29
338 339 2.632377 CCAACAGGCGATACTTCACAT 58.368 47.619 0.00 0.00 0.00 3.21
339 340 1.943968 GCCAACAGGCGATACTTCACA 60.944 52.381 0.00 0.00 38.93 3.58
340 341 0.727398 GCCAACAGGCGATACTTCAC 59.273 55.000 0.00 0.00 38.93 3.18
341 342 3.153024 GCCAACAGGCGATACTTCA 57.847 52.632 0.00 0.00 38.93 3.02
659 1655 2.809601 GAACGAGTCGGTGCGCAT 60.810 61.111 15.91 0.00 0.00 4.73
1117 2115 0.815734 GGACGATTCTGGTTCCTCGA 59.184 55.000 0.00 0.00 35.24 4.04
1273 2271 4.634883 CAGTTCATTCATCAGAGTCTTGGG 59.365 45.833 0.00 0.00 0.00 4.12
1298 2296 4.438472 GCAACCATTCTTCATGCTCTTCTC 60.438 45.833 0.00 0.00 34.29 2.87
1602 2600 9.748100 CAACATTTAAACAACTTTAACCAACAC 57.252 29.630 0.00 0.00 32.59 3.32
1808 2809 2.378038 GCCTAATTGGATGCAGTTGGA 58.622 47.619 7.35 0.00 38.35 3.53
2126 3127 4.703379 TGCATTTTCCACCCTTCATTTT 57.297 36.364 0.00 0.00 0.00 1.82
2374 3377 6.481644 GCAACATACATTTTCAACCTTCCAAA 59.518 34.615 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.