Multiple sequence alignment - TraesCS7D01G275200

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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 TraesCS7D01G275200 chr7D 100.000 2600 0 0 1 2600 264356913 264359512 0.000000e+00 4802
1 TraesCS7D01G275200 chr7D 90.432 1066 78 11 1556 2600 264368342 264369404 0.000000e+00 1382
2 TraesCS7D01G275200 chr7D 90.589 967 75 3 608 1572 264367117 264368069 0.000000e+00 1267
3 TraesCS7D01G275200 chr7D 98.565 418 5 1 19 436 3706754 3706338 0.000000e+00 737
4 TraesCS7D01G275200 chr7D 96.651 418 12 1 19 436 565125148 565125563 0.000000e+00 693
5 TraesCS7D01G275200 chr7D 90.373 322 18 4 522 834 264336521 264336838 6.700000e-111 411
6 TraesCS7D01G275200 chr7D 86.842 304 24 5 2311 2600 264324305 264324606 2.500000e-85 326
7 TraesCS7D01G275200 chr7B 89.247 2018 159 16 606 2600 244689562 244691544 0.000000e+00 2471
8 TraesCS7D01G275200 chr7B 87.274 1383 104 24 1256 2600 244713706 244715054 0.000000e+00 1513
9 TraesCS7D01G275200 chr7B 88.712 629 63 6 639 1264 244697017 244697640 0.000000e+00 761
10 TraesCS7D01G275200 chr7B 83.412 639 86 11 1932 2562 244649563 244650189 2.240000e-160 575
11 TraesCS7D01G275200 chr7B 98.662 299 3 1 436 733 244663466 244663764 1.770000e-146 529
12 TraesCS7D01G275200 chr7B 88.644 317 29 4 2251 2562 244643117 244643431 1.890000e-101 379
13 TraesCS7D01G275200 chr7A 96.135 1242 43 3 1363 2600 287912059 287913299 0.000000e+00 2023
14 TraesCS7D01G275200 chr7A 97.346 716 19 0 436 1151 287906736 287907451 0.000000e+00 1218
15 TraesCS7D01G275200 chr7A 90.062 322 19 7 522 834 287887357 287887674 3.120000e-109 405
16 TraesCS7D01G275200 chr7A 96.774 186 6 0 1168 1353 287907791 287907976 6.990000e-81 311
17 TraesCS7D01G275200 chr7A 85.526 304 28 3 2311 2600 287861105 287861406 1.170000e-78 303
18 TraesCS7D01G275200 chrUn 87.274 1383 104 24 1256 2600 284873328 284874676 0.000000e+00 1513
19 TraesCS7D01G275200 chr5D 96.462 424 13 2 19 441 407376882 407376460 0.000000e+00 699
20 TraesCS7D01G275200 chr5D 93.541 418 27 0 19 436 334015130 334015547 7.900000e-175 623
21 TraesCS7D01G275200 chr5D 93.541 418 27 0 19 436 334017765 334017348 7.900000e-175 623
22 TraesCS7D01G275200 chr6D 96.172 418 10 1 19 436 331829568 331829979 0.000000e+00 678
23 TraesCS7D01G275200 chr5B 95.261 422 14 2 19 436 615007184 615006765 0.000000e+00 664
24 TraesCS7D01G275200 chr1B 94.245 417 23 1 21 436 12370039 12370455 1.010000e-178 636
25 TraesCS7D01G275200 chr3B 93.541 418 27 0 19 436 482485593 482485176 7.900000e-175 623


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 TraesCS7D01G275200 chr7D 264356913 264359512 2599 False 4802.0 4802 100.0000 1 2600 1 chr7D.!!$F3 2599
1 TraesCS7D01G275200 chr7D 264367117 264369404 2287 False 1324.5 1382 90.5105 608 2600 2 chr7D.!!$F5 1992
2 TraesCS7D01G275200 chr7B 244689562 244691544 1982 False 2471.0 2471 89.2470 606 2600 1 chr7B.!!$F4 1994
3 TraesCS7D01G275200 chr7B 244713706 244715054 1348 False 1513.0 1513 87.2740 1256 2600 1 chr7B.!!$F6 1344
4 TraesCS7D01G275200 chr7B 244697017 244697640 623 False 761.0 761 88.7120 639 1264 1 chr7B.!!$F5 625
5 TraesCS7D01G275200 chr7B 244649563 244650189 626 False 575.0 575 83.4120 1932 2562 1 chr7B.!!$F2 630
6 TraesCS7D01G275200 chr7A 287912059 287913299 1240 False 2023.0 2023 96.1350 1363 2600 1 chr7A.!!$F3 1237
7 TraesCS7D01G275200 chr7A 287906736 287907976 1240 False 764.5 1218 97.0600 436 1353 2 chr7A.!!$F4 917
8 TraesCS7D01G275200 chrUn 284873328 284874676 1348 False 1513.0 1513 87.2740 1256 2600 1 chrUn.!!$F1 1344

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
85 86 0.030235 GTGTTGGCCGAGGTGAAAAC 59.970 55.0 0.00 0.0 0.00 2.43 F
203 204 0.034616 CTCTGATCCTTGGATCGGGC 59.965 60.0 28.36 8.4 38.24 6.13 F
342 343 0.036952 CGCCTATGTATCCTGCCCTG 60.037 60.0 0.00 0.0 0.00 4.45 F
384 385 0.179225 GCGTGCGTTTGTACTGGATG 60.179 55.0 0.00 0.0 0.00 3.51 F
385 386 0.179225 CGTGCGTTTGTACTGGATGC 60.179 55.0 0.00 0.0 0.00 3.91 F
1011 1015 0.461135 CCATAACCATGGCTTGCCAC 59.539 55.0 17.22 0.0 45.29 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1216 1543 0.038310 TCAAGCTCGTCCTCCAGAGA 59.962 55.000 0.00 0.0 36.65 3.10 R
1421 1762 0.325933 CTCCATGTCAGAGGCAACCA 59.674 55.000 0.00 0.0 37.17 3.67 R
1422 1763 0.393537 CCTCCATGTCAGAGGCAACC 60.394 60.000 3.86 0.0 44.30 3.77 R
1430 1771 0.818445 GCTGCATCCCTCCATGTCAG 60.818 60.000 0.00 0.0 34.06 3.51 R
1431 1772 1.225426 GCTGCATCCCTCCATGTCA 59.775 57.895 0.00 0.0 0.00 3.58 R
2059 2708 2.421424 ACATTCAGGCGATCTTTTCTGC 59.579 45.455 0.00 0.0 0.00 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
17 18 3.283684 CAGGCGTTGACGGGCAAA 61.284 61.111 0.00 0.00 38.44 3.68
18 19 2.978010 AGGCGTTGACGGGCAAAG 60.978 61.111 5.06 5.06 38.44 2.77
67 68 4.657824 CGTTCGGTGGCGGTGAGT 62.658 66.667 0.00 0.00 0.00 3.41
68 69 3.041940 GTTCGGTGGCGGTGAGTG 61.042 66.667 0.00 0.00 0.00 3.51
69 70 3.542676 TTCGGTGGCGGTGAGTGT 61.543 61.111 0.00 0.00 0.00 3.55
70 71 3.096633 TTCGGTGGCGGTGAGTGTT 62.097 57.895 0.00 0.00 0.00 3.32
71 72 3.345808 CGGTGGCGGTGAGTGTTG 61.346 66.667 0.00 0.00 0.00 3.33
72 73 2.978010 GGTGGCGGTGAGTGTTGG 60.978 66.667 0.00 0.00 0.00 3.77
73 74 3.660111 GTGGCGGTGAGTGTTGGC 61.660 66.667 0.00 0.00 0.00 4.52
74 75 4.947147 TGGCGGTGAGTGTTGGCC 62.947 66.667 0.00 0.00 44.00 5.36
76 77 4.980805 GCGGTGAGTGTTGGCCGA 62.981 66.667 5.99 0.00 46.33 5.54
77 78 2.738521 CGGTGAGTGTTGGCCGAG 60.739 66.667 0.00 0.00 46.33 4.63
78 79 2.358737 GGTGAGTGTTGGCCGAGG 60.359 66.667 0.00 0.00 0.00 4.63
79 80 2.426023 GTGAGTGTTGGCCGAGGT 59.574 61.111 0.00 0.00 0.00 3.85
80 81 1.961277 GTGAGTGTTGGCCGAGGTG 60.961 63.158 0.00 0.00 0.00 4.00
81 82 2.137528 TGAGTGTTGGCCGAGGTGA 61.138 57.895 0.00 0.00 0.00 4.02
82 83 1.070786 GAGTGTTGGCCGAGGTGAA 59.929 57.895 0.00 0.00 0.00 3.18
83 84 0.534203 GAGTGTTGGCCGAGGTGAAA 60.534 55.000 0.00 0.00 0.00 2.69
84 85 0.106918 AGTGTTGGCCGAGGTGAAAA 60.107 50.000 0.00 0.00 0.00 2.29
85 86 0.030235 GTGTTGGCCGAGGTGAAAAC 59.970 55.000 0.00 0.00 0.00 2.43
86 87 1.104577 TGTTGGCCGAGGTGAAAACC 61.105 55.000 0.00 0.00 0.00 3.27
87 88 0.822121 GTTGGCCGAGGTGAAAACCT 60.822 55.000 0.00 0.00 44.06 3.50
88 89 0.821711 TTGGCCGAGGTGAAAACCTG 60.822 55.000 1.25 0.00 40.86 4.00
89 90 1.228154 GGCCGAGGTGAAAACCTGT 60.228 57.895 1.25 0.00 40.86 4.00
90 91 0.822121 GGCCGAGGTGAAAACCTGTT 60.822 55.000 1.25 0.00 40.86 3.16
91 92 0.591659 GCCGAGGTGAAAACCTGTTC 59.408 55.000 1.25 0.00 40.86 3.18
92 93 1.814248 GCCGAGGTGAAAACCTGTTCT 60.814 52.381 1.25 0.00 40.86 3.01
93 94 2.549349 GCCGAGGTGAAAACCTGTTCTA 60.549 50.000 1.25 0.00 40.86 2.10
94 95 3.868754 GCCGAGGTGAAAACCTGTTCTAT 60.869 47.826 1.25 0.00 40.86 1.98
95 96 4.324267 CCGAGGTGAAAACCTGTTCTATT 58.676 43.478 1.25 0.00 40.86 1.73
96 97 4.760204 CCGAGGTGAAAACCTGTTCTATTT 59.240 41.667 1.25 0.00 40.86 1.40
97 98 5.240844 CCGAGGTGAAAACCTGTTCTATTTT 59.759 40.000 1.25 0.00 40.86 1.82
98 99 6.371389 CGAGGTGAAAACCTGTTCTATTTTC 58.629 40.000 1.25 0.00 40.86 2.29
99 100 6.313744 AGGTGAAAACCTGTTCTATTTTCG 57.686 37.500 0.00 0.00 42.61 3.46
100 101 5.240844 AGGTGAAAACCTGTTCTATTTTCGG 59.759 40.000 0.00 0.00 42.61 4.30
101 102 5.239963 GGTGAAAACCTGTTCTATTTTCGGA 59.760 40.000 0.00 0.00 42.61 4.55
102 103 6.140786 GTGAAAACCTGTTCTATTTTCGGAC 58.859 40.000 0.00 0.00 42.61 4.79
103 104 5.823570 TGAAAACCTGTTCTATTTTCGGACA 59.176 36.000 0.00 0.00 42.61 4.02
104 105 5.941948 AAACCTGTTCTATTTTCGGACAG 57.058 39.130 0.00 0.00 0.00 3.51
105 106 4.884668 ACCTGTTCTATTTTCGGACAGA 57.115 40.909 3.56 0.00 0.00 3.41
106 107 4.566987 ACCTGTTCTATTTTCGGACAGAC 58.433 43.478 3.56 0.00 0.00 3.51
107 108 3.933332 CCTGTTCTATTTTCGGACAGACC 59.067 47.826 3.56 0.00 0.00 3.85
127 128 3.617538 CGGCGGCGAAGATCGTTC 61.618 66.667 29.19 0.00 42.81 3.95
128 129 3.262686 GGCGGCGAAGATCGTTCC 61.263 66.667 12.98 0.00 42.81 3.62
129 130 3.262686 GCGGCGAAGATCGTTCCC 61.263 66.667 12.98 0.00 42.81 3.97
130 131 2.494918 CGGCGAAGATCGTTCCCT 59.505 61.111 0.00 0.00 42.81 4.20
131 132 1.153628 CGGCGAAGATCGTTCCCTT 60.154 57.895 0.00 0.00 42.81 3.95
132 133 1.146358 CGGCGAAGATCGTTCCCTTC 61.146 60.000 0.00 0.00 42.81 3.46
133 134 0.810426 GGCGAAGATCGTTCCCTTCC 60.810 60.000 1.45 0.00 42.81 3.46
134 135 0.175989 GCGAAGATCGTTCCCTTCCT 59.824 55.000 1.45 0.00 42.81 3.36
135 136 1.927895 CGAAGATCGTTCCCTTCCTG 58.072 55.000 0.00 0.00 36.36 3.86
136 137 1.476891 CGAAGATCGTTCCCTTCCTGA 59.523 52.381 0.00 0.00 36.36 3.86
137 138 2.094182 CGAAGATCGTTCCCTTCCTGAA 60.094 50.000 0.00 0.00 36.36 3.02
138 139 3.526534 GAAGATCGTTCCCTTCCTGAAG 58.473 50.000 0.00 0.00 38.14 3.02
139 140 6.986762 CGAAGATCGTTCCCTTCCTGAAGG 62.987 54.167 17.35 17.35 44.82 3.46
146 147 4.170723 CTTCCTGAAGGCGTCGTC 57.829 61.111 0.00 0.00 34.87 4.20
147 148 1.289066 CTTCCTGAAGGCGTCGTCA 59.711 57.895 5.34 5.34 34.87 4.35
148 149 1.006571 TTCCTGAAGGCGTCGTCAC 60.007 57.895 0.18 0.00 34.44 3.67
150 151 2.805353 CTGAAGGCGTCGTCACGG 60.805 66.667 0.18 0.00 46.80 4.94
165 166 2.504244 CGGCTCTCGTTGTCCGTC 60.504 66.667 0.00 0.00 37.33 4.79
166 167 2.649034 GGCTCTCGTTGTCCGTCA 59.351 61.111 0.00 0.00 37.94 4.35
167 168 1.215647 GGCTCTCGTTGTCCGTCAT 59.784 57.895 0.00 0.00 37.94 3.06
168 169 1.078759 GGCTCTCGTTGTCCGTCATG 61.079 60.000 0.00 0.00 37.94 3.07
169 170 0.388649 GCTCTCGTTGTCCGTCATGT 60.389 55.000 0.00 0.00 37.94 3.21
170 171 1.340658 CTCTCGTTGTCCGTCATGTG 58.659 55.000 0.00 0.00 37.94 3.21
171 172 0.955905 TCTCGTTGTCCGTCATGTGA 59.044 50.000 0.00 0.00 37.94 3.58
172 173 1.060713 CTCGTTGTCCGTCATGTGAC 58.939 55.000 3.07 3.07 41.47 3.67
173 174 0.671796 TCGTTGTCCGTCATGTGACT 59.328 50.000 11.03 0.00 42.66 3.41
174 175 1.060713 CGTTGTCCGTCATGTGACTC 58.939 55.000 11.03 3.15 42.66 3.36
175 176 1.335964 CGTTGTCCGTCATGTGACTCT 60.336 52.381 11.03 0.00 42.66 3.24
176 177 2.095415 CGTTGTCCGTCATGTGACTCTA 60.095 50.000 11.03 0.00 42.66 2.43
177 178 3.502920 GTTGTCCGTCATGTGACTCTAG 58.497 50.000 11.03 0.00 42.66 2.43
178 179 2.092323 TGTCCGTCATGTGACTCTAGG 58.908 52.381 11.03 5.28 42.66 3.02
179 180 1.405821 GTCCGTCATGTGACTCTAGGG 59.594 57.143 11.03 4.95 42.66 3.53
180 181 0.747255 CCGTCATGTGACTCTAGGGG 59.253 60.000 11.03 0.72 42.66 4.79
181 182 1.685180 CCGTCATGTGACTCTAGGGGA 60.685 57.143 11.03 0.00 42.66 4.81
182 183 2.100197 CGTCATGTGACTCTAGGGGAA 58.900 52.381 11.03 0.00 42.66 3.97
183 184 2.496070 CGTCATGTGACTCTAGGGGAAA 59.504 50.000 11.03 0.00 42.66 3.13
184 185 3.676324 CGTCATGTGACTCTAGGGGAAAC 60.676 52.174 11.03 0.00 42.66 2.78
185 186 3.515901 GTCATGTGACTCTAGGGGAAACT 59.484 47.826 5.91 0.00 41.65 2.66
186 187 3.769844 TCATGTGACTCTAGGGGAAACTC 59.230 47.826 0.00 0.00 0.00 3.01
187 188 6.565976 GTCATGTGACTCTAGGGGAAACTCT 61.566 48.000 5.91 0.00 42.77 3.24
188 189 3.165875 TGTGACTCTAGGGGAAACTCTG 58.834 50.000 0.00 0.00 44.95 3.35
189 190 3.181422 TGTGACTCTAGGGGAAACTCTGA 60.181 47.826 0.00 0.00 44.95 3.27
190 191 4.027437 GTGACTCTAGGGGAAACTCTGAT 58.973 47.826 0.00 0.00 44.95 2.90
191 192 4.098807 GTGACTCTAGGGGAAACTCTGATC 59.901 50.000 0.00 0.00 44.95 2.92
192 193 3.639561 GACTCTAGGGGAAACTCTGATCC 59.360 52.174 0.00 0.00 44.95 3.36
193 194 3.273618 ACTCTAGGGGAAACTCTGATCCT 59.726 47.826 0.00 0.00 44.95 3.24
194 195 4.265078 ACTCTAGGGGAAACTCTGATCCTT 60.265 45.833 0.00 0.00 44.95 3.36
195 196 4.033709 TCTAGGGGAAACTCTGATCCTTG 58.966 47.826 0.00 0.00 44.95 3.61
196 197 1.918957 AGGGGAAACTCTGATCCTTGG 59.081 52.381 0.00 0.00 42.28 3.61
197 198 1.916181 GGGGAAACTCTGATCCTTGGA 59.084 52.381 0.00 0.00 35.95 3.53
198 199 2.511637 GGGGAAACTCTGATCCTTGGAT 59.488 50.000 1.18 1.18 35.95 3.41
199 200 3.434310 GGGGAAACTCTGATCCTTGGATC 60.434 52.174 19.70 19.70 35.95 3.36
200 201 3.462021 GGAAACTCTGATCCTTGGATCG 58.538 50.000 20.69 16.06 34.46 3.69
201 202 3.462021 GAAACTCTGATCCTTGGATCGG 58.538 50.000 25.14 25.14 38.86 4.18
202 203 1.418334 ACTCTGATCCTTGGATCGGG 58.582 55.000 28.36 22.56 38.24 5.14
203 204 0.034616 CTCTGATCCTTGGATCGGGC 59.965 60.000 28.36 8.40 38.24 6.13
204 205 1.301244 CTGATCCTTGGATCGGGCG 60.301 63.158 23.98 10.55 35.02 6.13
205 206 2.031163 GATCCTTGGATCGGGCGG 59.969 66.667 13.16 0.00 0.00 6.13
206 207 2.768344 ATCCTTGGATCGGGCGGT 60.768 61.111 0.00 0.00 0.00 5.68
207 208 2.996168 GATCCTTGGATCGGGCGGTG 62.996 65.000 13.16 0.00 0.00 4.94
208 209 4.856801 CCTTGGATCGGGCGGTGG 62.857 72.222 0.00 0.00 0.00 4.61
236 237 2.662309 GGTGTCGTACCCTTCCTGA 58.338 57.895 0.90 0.00 44.15 3.86
237 238 0.971386 GGTGTCGTACCCTTCCTGAA 59.029 55.000 0.90 0.00 44.15 3.02
238 239 1.067071 GGTGTCGTACCCTTCCTGAAG 60.067 57.143 0.00 0.00 44.15 3.02
261 262 3.064324 GCCTTGGAGCGCATGGTT 61.064 61.111 11.47 0.00 0.00 3.67
262 263 3.056313 GCCTTGGAGCGCATGGTTC 62.056 63.158 11.47 0.00 0.00 3.62
263 264 2.753966 CCTTGGAGCGCATGGTTCG 61.754 63.158 11.47 0.00 0.00 3.95
264 265 2.031919 TTGGAGCGCATGGTTCGT 59.968 55.556 11.47 0.00 0.00 3.85
265 266 1.970917 CTTGGAGCGCATGGTTCGTC 61.971 60.000 11.47 0.00 0.00 4.20
266 267 2.434185 GGAGCGCATGGTTCGTCA 60.434 61.111 11.47 0.00 0.00 4.35
267 268 1.815421 GGAGCGCATGGTTCGTCAT 60.815 57.895 11.47 0.00 0.00 3.06
268 269 0.529773 GGAGCGCATGGTTCGTCATA 60.530 55.000 11.47 0.00 0.00 2.15
269 270 1.502231 GAGCGCATGGTTCGTCATAT 58.498 50.000 11.47 0.00 0.00 1.78
270 271 1.193203 GAGCGCATGGTTCGTCATATG 59.807 52.381 11.47 0.00 0.00 1.78
271 272 0.937304 GCGCATGGTTCGTCATATGT 59.063 50.000 0.30 0.00 0.00 2.29
272 273 1.333169 GCGCATGGTTCGTCATATGTG 60.333 52.381 0.30 0.00 34.94 3.21
273 274 1.261354 CGCATGGTTCGTCATATGTGG 59.739 52.381 1.90 0.00 0.00 4.17
274 275 1.002468 GCATGGTTCGTCATATGTGGC 60.002 52.381 1.90 0.00 0.00 5.01
275 276 2.564771 CATGGTTCGTCATATGTGGCT 58.435 47.619 1.90 0.00 0.00 4.75
276 277 3.727726 CATGGTTCGTCATATGTGGCTA 58.272 45.455 1.90 0.00 0.00 3.93
277 278 3.173668 TGGTTCGTCATATGTGGCTAC 57.826 47.619 1.90 0.00 0.00 3.58
278 279 2.764010 TGGTTCGTCATATGTGGCTACT 59.236 45.455 0.64 0.00 0.00 2.57
279 280 3.196901 TGGTTCGTCATATGTGGCTACTT 59.803 43.478 0.64 0.00 0.00 2.24
280 281 3.802685 GGTTCGTCATATGTGGCTACTTC 59.197 47.826 0.64 0.00 0.00 3.01
281 282 4.441634 GGTTCGTCATATGTGGCTACTTCT 60.442 45.833 0.64 0.00 0.00 2.85
282 283 4.569761 TCGTCATATGTGGCTACTTCTC 57.430 45.455 0.64 0.00 0.00 2.87
283 284 4.207955 TCGTCATATGTGGCTACTTCTCT 58.792 43.478 0.64 0.00 0.00 3.10
284 285 4.645136 TCGTCATATGTGGCTACTTCTCTT 59.355 41.667 0.64 0.00 0.00 2.85
285 286 5.826208 TCGTCATATGTGGCTACTTCTCTTA 59.174 40.000 0.64 0.00 0.00 2.10
286 287 6.017026 TCGTCATATGTGGCTACTTCTCTTAG 60.017 42.308 0.64 0.00 0.00 2.18
287 288 6.238786 CGTCATATGTGGCTACTTCTCTTAGT 60.239 42.308 0.64 0.00 0.00 2.24
288 289 6.920758 GTCATATGTGGCTACTTCTCTTAGTG 59.079 42.308 0.64 0.00 0.00 2.74
289 290 4.744795 ATGTGGCTACTTCTCTTAGTGG 57.255 45.455 0.64 0.00 0.00 4.00
290 291 3.507411 TGTGGCTACTTCTCTTAGTGGT 58.493 45.455 0.64 0.00 0.00 4.16
291 292 3.258372 TGTGGCTACTTCTCTTAGTGGTG 59.742 47.826 0.64 0.00 0.00 4.17
292 293 2.832129 TGGCTACTTCTCTTAGTGGTGG 59.168 50.000 0.00 0.00 0.00 4.61
293 294 2.832733 GGCTACTTCTCTTAGTGGTGGT 59.167 50.000 0.00 0.00 0.00 4.16
294 295 4.021916 GGCTACTTCTCTTAGTGGTGGTA 58.978 47.826 0.00 0.00 0.00 3.25
295 296 4.098196 GGCTACTTCTCTTAGTGGTGGTAG 59.902 50.000 0.00 0.00 0.00 3.18
296 297 4.705991 GCTACTTCTCTTAGTGGTGGTAGT 59.294 45.833 0.00 0.00 0.00 2.73
297 298 5.393243 GCTACTTCTCTTAGTGGTGGTAGTG 60.393 48.000 0.00 0.00 0.00 2.74
298 299 3.258622 ACTTCTCTTAGTGGTGGTAGTGC 59.741 47.826 0.00 0.00 0.00 4.40
299 300 3.170991 TCTCTTAGTGGTGGTAGTGCT 57.829 47.619 0.00 0.00 0.00 4.40
300 301 4.311520 TCTCTTAGTGGTGGTAGTGCTA 57.688 45.455 0.00 0.00 0.00 3.49
301 302 4.270834 TCTCTTAGTGGTGGTAGTGCTAG 58.729 47.826 0.00 0.00 0.00 3.42
302 303 3.362706 TCTTAGTGGTGGTAGTGCTAGG 58.637 50.000 0.00 0.00 0.00 3.02
303 304 3.010920 TCTTAGTGGTGGTAGTGCTAGGA 59.989 47.826 0.00 0.00 0.00 2.94
304 305 1.853963 AGTGGTGGTAGTGCTAGGAG 58.146 55.000 0.00 0.00 0.00 3.69
305 306 1.077334 AGTGGTGGTAGTGCTAGGAGT 59.923 52.381 0.00 0.00 0.00 3.85
306 307 1.204941 GTGGTGGTAGTGCTAGGAGTG 59.795 57.143 1.14 0.00 0.00 3.51
307 308 0.824759 GGTGGTAGTGCTAGGAGTGG 59.175 60.000 1.14 0.00 0.00 4.00
308 309 1.558233 GTGGTAGTGCTAGGAGTGGT 58.442 55.000 1.14 0.00 0.00 4.16
309 310 1.204941 GTGGTAGTGCTAGGAGTGGTG 59.795 57.143 1.14 0.00 0.00 4.17
310 311 1.203137 TGGTAGTGCTAGGAGTGGTGT 60.203 52.381 1.14 0.00 0.00 4.16
311 312 1.900486 GGTAGTGCTAGGAGTGGTGTT 59.100 52.381 1.14 0.00 0.00 3.32
312 313 2.353803 GGTAGTGCTAGGAGTGGTGTTG 60.354 54.545 1.14 0.00 0.00 3.33
313 314 1.424638 AGTGCTAGGAGTGGTGTTGT 58.575 50.000 0.00 0.00 0.00 3.32
314 315 1.768870 AGTGCTAGGAGTGGTGTTGTT 59.231 47.619 0.00 0.00 0.00 2.83
315 316 1.873591 GTGCTAGGAGTGGTGTTGTTG 59.126 52.381 0.00 0.00 0.00 3.33
316 317 0.875059 GCTAGGAGTGGTGTTGTTGC 59.125 55.000 0.00 0.00 0.00 4.17
317 318 1.148310 CTAGGAGTGGTGTTGTTGCG 58.852 55.000 0.00 0.00 0.00 4.85
318 319 0.882927 TAGGAGTGGTGTTGTTGCGC 60.883 55.000 0.00 0.00 0.00 6.09
319 320 2.186826 GGAGTGGTGTTGTTGCGCT 61.187 57.895 9.73 0.00 0.00 5.92
320 321 1.279840 GAGTGGTGTTGTTGCGCTC 59.720 57.895 9.73 2.14 0.00 5.03
321 322 1.436195 GAGTGGTGTTGTTGCGCTCA 61.436 55.000 9.73 5.24 0.00 4.26
322 323 1.009675 GTGGTGTTGTTGCGCTCAG 60.010 57.895 9.73 0.00 0.00 3.35
335 336 3.129792 GCTCAGCGCCTATGTATCC 57.870 57.895 2.29 0.00 0.00 2.59
336 337 0.605589 GCTCAGCGCCTATGTATCCT 59.394 55.000 2.29 0.00 0.00 3.24
337 338 1.671261 GCTCAGCGCCTATGTATCCTG 60.671 57.143 2.29 0.00 0.00 3.86
338 339 0.318441 TCAGCGCCTATGTATCCTGC 59.682 55.000 2.29 0.00 0.00 4.85
339 340 0.671781 CAGCGCCTATGTATCCTGCC 60.672 60.000 2.29 0.00 0.00 4.85
340 341 1.376037 GCGCCTATGTATCCTGCCC 60.376 63.158 0.00 0.00 0.00 5.36
341 342 1.831652 GCGCCTATGTATCCTGCCCT 61.832 60.000 0.00 0.00 0.00 5.19
342 343 0.036952 CGCCTATGTATCCTGCCCTG 60.037 60.000 0.00 0.00 0.00 4.45
343 344 0.326264 GCCTATGTATCCTGCCCTGG 59.674 60.000 0.00 0.00 0.00 4.45
344 345 0.987294 CCTATGTATCCTGCCCTGGG 59.013 60.000 8.86 8.86 0.00 4.45
345 346 1.734655 CTATGTATCCTGCCCTGGGT 58.265 55.000 15.56 0.00 0.00 4.51
346 347 1.349026 CTATGTATCCTGCCCTGGGTG 59.651 57.143 15.56 7.72 0.00 4.61
347 348 0.624500 ATGTATCCTGCCCTGGGTGT 60.625 55.000 15.56 0.00 0.00 4.16
348 349 1.224592 GTATCCTGCCCTGGGTGTG 59.775 63.158 15.56 4.75 0.00 3.82
349 350 1.229820 TATCCTGCCCTGGGTGTGT 60.230 57.895 15.56 0.00 0.00 3.72
350 351 1.561769 TATCCTGCCCTGGGTGTGTG 61.562 60.000 15.56 0.00 0.00 3.82
355 356 4.562425 CCCTGGGTGTGTGCGTGT 62.562 66.667 3.97 0.00 0.00 4.49
356 357 3.279116 CCTGGGTGTGTGCGTGTG 61.279 66.667 0.00 0.00 0.00 3.82
357 358 2.513666 CTGGGTGTGTGCGTGTGT 60.514 61.111 0.00 0.00 0.00 3.72
358 359 2.045829 TGGGTGTGTGCGTGTGTT 60.046 55.556 0.00 0.00 0.00 3.32
359 360 2.321668 CTGGGTGTGTGCGTGTGTTG 62.322 60.000 0.00 0.00 0.00 3.33
360 361 2.277884 GGTGTGTGCGTGTGTTGC 60.278 61.111 0.00 0.00 0.00 4.17
361 362 2.647481 GTGTGTGCGTGTGTTGCG 60.647 61.111 0.00 0.00 34.24 4.85
362 363 3.870422 TGTGTGCGTGTGTTGCGG 61.870 61.111 0.00 0.00 34.24 5.69
363 364 3.871574 GTGTGCGTGTGTTGCGGT 61.872 61.111 0.00 0.00 34.24 5.68
364 365 3.870422 TGTGCGTGTGTTGCGGTG 61.870 61.111 0.00 0.00 34.24 4.94
365 366 4.605967 GTGCGTGTGTTGCGGTGG 62.606 66.667 0.00 0.00 34.24 4.61
369 370 4.605967 GTGTGTTGCGGTGGCGTG 62.606 66.667 0.00 0.00 44.10 5.34
377 378 3.339464 CGGTGGCGTGCGTTTGTA 61.339 61.111 0.00 0.00 0.00 2.41
378 379 2.250190 GGTGGCGTGCGTTTGTAC 59.750 61.111 0.00 0.00 0.00 2.90
379 380 2.248835 GGTGGCGTGCGTTTGTACT 61.249 57.895 0.00 0.00 0.00 2.73
380 381 1.083015 GTGGCGTGCGTTTGTACTG 60.083 57.895 0.00 0.00 0.00 2.74
381 382 2.248135 TGGCGTGCGTTTGTACTGG 61.248 57.895 0.00 0.00 0.00 4.00
382 383 1.957186 GGCGTGCGTTTGTACTGGA 60.957 57.895 0.00 0.00 0.00 3.86
383 384 1.296056 GGCGTGCGTTTGTACTGGAT 61.296 55.000 0.00 0.00 0.00 3.41
384 385 0.179225 GCGTGCGTTTGTACTGGATG 60.179 55.000 0.00 0.00 0.00 3.51
385 386 0.179225 CGTGCGTTTGTACTGGATGC 60.179 55.000 0.00 0.00 0.00 3.91
386 387 1.156736 GTGCGTTTGTACTGGATGCT 58.843 50.000 0.00 0.00 0.00 3.79
387 388 1.535462 GTGCGTTTGTACTGGATGCTT 59.465 47.619 0.00 0.00 0.00 3.91
388 389 1.535028 TGCGTTTGTACTGGATGCTTG 59.465 47.619 0.00 0.00 0.00 4.01
389 390 1.804151 GCGTTTGTACTGGATGCTTGA 59.196 47.619 0.00 0.00 0.00 3.02
390 391 2.420022 GCGTTTGTACTGGATGCTTGAT 59.580 45.455 0.00 0.00 0.00 2.57
391 392 3.728864 GCGTTTGTACTGGATGCTTGATG 60.729 47.826 0.00 0.00 0.00 3.07
392 393 3.684305 CGTTTGTACTGGATGCTTGATGA 59.316 43.478 0.00 0.00 0.00 2.92
393 394 4.333649 CGTTTGTACTGGATGCTTGATGAT 59.666 41.667 0.00 0.00 0.00 2.45
394 395 5.503031 CGTTTGTACTGGATGCTTGATGATC 60.503 44.000 0.00 0.00 0.00 2.92
395 396 3.721035 TGTACTGGATGCTTGATGATCG 58.279 45.455 0.00 0.00 0.00 3.69
396 397 2.251409 ACTGGATGCTTGATGATCGG 57.749 50.000 0.00 0.00 0.00 4.18
397 398 1.487976 ACTGGATGCTTGATGATCGGT 59.512 47.619 0.00 0.00 0.00 4.69
398 399 1.871676 CTGGATGCTTGATGATCGGTG 59.128 52.381 0.00 0.00 0.00 4.94
399 400 0.590195 GGATGCTTGATGATCGGTGC 59.410 55.000 0.00 0.00 0.00 5.01
400 401 1.590932 GATGCTTGATGATCGGTGCT 58.409 50.000 5.90 0.00 0.00 4.40
401 402 1.945394 GATGCTTGATGATCGGTGCTT 59.055 47.619 5.90 0.68 0.00 3.91
402 403 1.825090 TGCTTGATGATCGGTGCTTT 58.175 45.000 5.90 0.00 0.00 3.51
403 404 2.984562 TGCTTGATGATCGGTGCTTTA 58.015 42.857 5.90 0.00 0.00 1.85
404 405 3.544684 TGCTTGATGATCGGTGCTTTAT 58.455 40.909 5.90 0.00 0.00 1.40
405 406 4.702831 TGCTTGATGATCGGTGCTTTATA 58.297 39.130 5.90 0.00 0.00 0.98
406 407 5.308014 TGCTTGATGATCGGTGCTTTATAT 58.692 37.500 5.90 0.00 0.00 0.86
407 408 6.463360 TGCTTGATGATCGGTGCTTTATATA 58.537 36.000 5.90 0.00 0.00 0.86
408 409 7.105588 TGCTTGATGATCGGTGCTTTATATAT 58.894 34.615 5.90 0.00 0.00 0.86
409 410 8.257306 TGCTTGATGATCGGTGCTTTATATATA 58.743 33.333 5.90 0.00 0.00 0.86
410 411 9.098355 GCTTGATGATCGGTGCTTTATATATAA 57.902 33.333 0.81 0.81 0.00 0.98
422 423 6.730960 CTTTATATATAAAGCGGGGCGAAA 57.269 37.500 25.10 1.66 41.69 3.46
423 424 6.730960 TTTATATATAAAGCGGGGCGAAAG 57.269 37.500 12.90 0.00 0.00 2.62
540 541 3.119029 AGTCAAAGCAAAGAAGCAAAGCA 60.119 39.130 0.00 0.00 36.85 3.91
565 566 2.027837 ACCACTAACACACGATTACCCC 60.028 50.000 0.00 0.00 0.00 4.95
646 647 5.651530 TCACTAGTTCTCCATCATTTCGTC 58.348 41.667 0.00 0.00 0.00 4.20
932 934 2.167693 AGAGCCGATTGTCGTTTCCATA 59.832 45.455 0.00 0.00 38.40 2.74
934 936 2.936498 AGCCGATTGTCGTTTCCATAAG 59.064 45.455 0.00 0.00 38.40 1.73
990 994 8.230472 AGAACAAACAATCTCATATCCCAATC 57.770 34.615 0.00 0.00 0.00 2.67
1011 1015 0.461135 CCATAACCATGGCTTGCCAC 59.539 55.000 17.22 0.00 45.29 5.01
1216 1543 3.055963 CAGTCAGACTCAGCAGAGGAAAT 60.056 47.826 11.18 0.00 46.44 2.17
1219 1546 3.446873 TCAGACTCAGCAGAGGAAATCTC 59.553 47.826 11.18 0.00 46.44 2.75
1228 1555 2.880963 GAGGAAATCTCTGGAGGACG 57.119 55.000 0.00 0.00 39.38 4.79
1342 1669 0.907486 CCTCAAGAGAGTGGATGGCA 59.093 55.000 0.00 0.00 40.40 4.92
1359 1686 1.821759 CACGGCAGTCCACACCAAA 60.822 57.895 0.00 0.00 0.00 3.28
1419 1760 0.599558 TGTGCAAAAGGATCAGCAGC 59.400 50.000 0.00 0.00 37.72 5.25
1420 1761 0.599558 GTGCAAAAGGATCAGCAGCA 59.400 50.000 0.00 0.00 37.72 4.41
1421 1762 1.203994 GTGCAAAAGGATCAGCAGCAT 59.796 47.619 0.00 0.00 37.72 3.79
1422 1763 1.203758 TGCAAAAGGATCAGCAGCATG 59.796 47.619 0.00 0.00 40.87 4.06
1423 1764 1.470979 GCAAAAGGATCAGCAGCATGG 60.471 52.381 0.00 0.00 35.86 3.66
1599 2229 3.006859 TCCAGAAGAAGAGATTTGCGTGA 59.993 43.478 0.00 0.00 0.00 4.35
1678 2308 4.592351 TCCTCTTCAGGAGATTGATCCATC 59.408 45.833 0.00 0.00 44.75 3.51
1715 2345 8.367911 TCTTCTGAACAATCTAAGCTTGTAGAA 58.632 33.333 9.86 5.06 35.84 2.10
2071 2720 4.846137 CCAAGTAAAACGCAGAAAAGATCG 59.154 41.667 0.00 0.00 0.00 3.69
2128 2781 3.803778 CACCTCAAACAAAAACAGGATGC 59.196 43.478 0.00 0.00 42.53 3.91
2135 2788 5.606348 AACAAAAACAGGATGCCTAAACA 57.394 34.783 0.00 0.00 42.53 2.83
2323 2978 6.899114 AGCAAAACTACTTGATTAAGGTTCG 58.101 36.000 1.95 0.00 38.26 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.254014 CTTTGCCCGTCAACGCCTG 62.254 63.158 0.00 0.00 38.18 4.85
1 2 2.978010 CTTTGCCCGTCAACGCCT 60.978 61.111 0.00 0.00 38.18 5.52
2 3 4.700365 GCTTTGCCCGTCAACGCC 62.700 66.667 0.00 0.00 42.20 5.68
3 4 4.700365 GGCTTTGCCCGTCAACGC 62.700 66.667 7.34 7.34 45.82 4.84
50 51 4.657824 ACTCACCGCCACCGAACG 62.658 66.667 0.00 0.00 36.29 3.95
51 52 3.041940 CACTCACCGCCACCGAAC 61.042 66.667 0.00 0.00 36.29 3.95
52 53 3.096633 AACACTCACCGCCACCGAA 62.097 57.895 0.00 0.00 36.29 4.30
53 54 3.542676 AACACTCACCGCCACCGA 61.543 61.111 0.00 0.00 36.29 4.69
54 55 3.345808 CAACACTCACCGCCACCG 61.346 66.667 0.00 0.00 0.00 4.94
55 56 2.978010 CCAACACTCACCGCCACC 60.978 66.667 0.00 0.00 0.00 4.61
56 57 3.660111 GCCAACACTCACCGCCAC 61.660 66.667 0.00 0.00 0.00 5.01
57 58 4.947147 GGCCAACACTCACCGCCA 62.947 66.667 0.00 0.00 39.50 5.69
59 60 4.980805 TCGGCCAACACTCACCGC 62.981 66.667 2.24 0.00 45.23 5.68
60 61 2.738521 CTCGGCCAACACTCACCG 60.739 66.667 2.24 0.00 46.97 4.94
61 62 2.358737 CCTCGGCCAACACTCACC 60.359 66.667 2.24 0.00 0.00 4.02
62 63 1.961277 CACCTCGGCCAACACTCAC 60.961 63.158 2.24 0.00 0.00 3.51
63 64 1.691195 TTCACCTCGGCCAACACTCA 61.691 55.000 2.24 0.00 0.00 3.41
64 65 0.534203 TTTCACCTCGGCCAACACTC 60.534 55.000 2.24 0.00 0.00 3.51
65 66 0.106918 TTTTCACCTCGGCCAACACT 60.107 50.000 2.24 0.00 0.00 3.55
66 67 0.030235 GTTTTCACCTCGGCCAACAC 59.970 55.000 2.24 0.00 0.00 3.32
67 68 1.104577 GGTTTTCACCTCGGCCAACA 61.105 55.000 2.24 0.00 40.44 3.33
68 69 1.658114 GGTTTTCACCTCGGCCAAC 59.342 57.895 2.24 0.00 40.44 3.77
69 70 4.167597 GGTTTTCACCTCGGCCAA 57.832 55.556 2.24 0.00 40.44 4.52
77 78 5.239963 TCCGAAAATAGAACAGGTTTTCACC 59.760 40.000 9.57 0.00 44.67 4.02
78 79 6.140786 GTCCGAAAATAGAACAGGTTTTCAC 58.859 40.000 9.57 0.00 40.22 3.18
79 80 5.823570 TGTCCGAAAATAGAACAGGTTTTCA 59.176 36.000 9.57 0.00 40.22 2.69
80 81 6.204108 TCTGTCCGAAAATAGAACAGGTTTTC 59.796 38.462 0.00 0.00 38.07 2.29
81 82 6.017357 GTCTGTCCGAAAATAGAACAGGTTTT 60.017 38.462 0.00 0.00 0.00 2.43
82 83 5.469084 GTCTGTCCGAAAATAGAACAGGTTT 59.531 40.000 0.00 0.00 0.00 3.27
83 84 4.995487 GTCTGTCCGAAAATAGAACAGGTT 59.005 41.667 0.00 0.00 0.00 3.50
84 85 4.562963 GGTCTGTCCGAAAATAGAACAGGT 60.563 45.833 0.00 0.00 0.00 4.00
85 86 3.933332 GGTCTGTCCGAAAATAGAACAGG 59.067 47.826 0.00 0.00 0.00 4.00
110 111 3.617538 GAACGATCTTCGCCGCCG 61.618 66.667 0.00 0.00 45.12 6.46
111 112 3.262686 GGAACGATCTTCGCCGCC 61.263 66.667 0.00 0.00 45.12 6.13
112 113 3.262686 GGGAACGATCTTCGCCGC 61.263 66.667 0.00 0.00 45.12 6.53
113 114 1.146358 GAAGGGAACGATCTTCGCCG 61.146 60.000 14.15 0.00 45.12 6.46
114 115 0.810426 GGAAGGGAACGATCTTCGCC 60.810 60.000 14.15 9.52 45.12 5.54
115 116 0.175989 AGGAAGGGAACGATCTTCGC 59.824 55.000 11.46 11.46 45.12 4.70
116 117 1.476891 TCAGGAAGGGAACGATCTTCG 59.523 52.381 0.00 0.00 46.93 3.79
117 118 3.526534 CTTCAGGAAGGGAACGATCTTC 58.473 50.000 1.01 0.00 38.79 2.87
118 119 3.618690 CTTCAGGAAGGGAACGATCTT 57.381 47.619 1.01 0.00 34.87 2.40
129 130 1.009389 GTGACGACGCCTTCAGGAAG 61.009 60.000 0.00 2.01 37.39 3.46
130 131 1.006571 GTGACGACGCCTTCAGGAA 60.007 57.895 0.00 0.00 37.39 3.36
131 132 2.649034 GTGACGACGCCTTCAGGA 59.351 61.111 0.00 0.00 37.39 3.86
132 133 2.805353 CGTGACGACGCCTTCAGG 60.805 66.667 0.00 0.00 39.10 3.86
133 134 2.805353 CCGTGACGACGCCTTCAG 60.805 66.667 6.54 0.00 44.68 3.02
135 136 4.719369 AGCCGTGACGACGCCTTC 62.719 66.667 6.54 0.00 44.68 3.46
136 137 4.719369 GAGCCGTGACGACGCCTT 62.719 66.667 6.54 0.00 44.68 4.35
163 164 3.515901 AGTTTCCCCTAGAGTCACATGAC 59.484 47.826 0.00 3.72 45.08 3.06
164 165 3.769844 GAGTTTCCCCTAGAGTCACATGA 59.230 47.826 0.00 0.00 0.00 3.07
165 166 3.772025 AGAGTTTCCCCTAGAGTCACATG 59.228 47.826 0.00 0.00 0.00 3.21
166 167 3.772025 CAGAGTTTCCCCTAGAGTCACAT 59.228 47.826 0.00 0.00 0.00 3.21
167 168 3.165875 CAGAGTTTCCCCTAGAGTCACA 58.834 50.000 0.00 0.00 0.00 3.58
168 169 3.432378 TCAGAGTTTCCCCTAGAGTCAC 58.568 50.000 0.00 0.00 0.00 3.67
169 170 3.827817 TCAGAGTTTCCCCTAGAGTCA 57.172 47.619 0.00 0.00 0.00 3.41
170 171 3.639561 GGATCAGAGTTTCCCCTAGAGTC 59.360 52.174 0.00 0.00 0.00 3.36
171 172 3.273618 AGGATCAGAGTTTCCCCTAGAGT 59.726 47.826 0.00 0.00 32.05 3.24
172 173 3.922375 AGGATCAGAGTTTCCCCTAGAG 58.078 50.000 0.00 0.00 32.05 2.43
173 174 4.033709 CAAGGATCAGAGTTTCCCCTAGA 58.966 47.826 0.00 0.00 32.05 2.43
174 175 3.135530 CCAAGGATCAGAGTTTCCCCTAG 59.864 52.174 0.00 0.00 32.05 3.02
175 176 3.115390 CCAAGGATCAGAGTTTCCCCTA 58.885 50.000 0.00 0.00 32.05 3.53
176 177 1.918957 CCAAGGATCAGAGTTTCCCCT 59.081 52.381 0.00 0.00 32.05 4.79
177 178 1.916181 TCCAAGGATCAGAGTTTCCCC 59.084 52.381 0.00 0.00 32.05 4.81
178 179 3.941704 ATCCAAGGATCAGAGTTTCCC 57.058 47.619 0.00 0.00 32.05 3.97
188 189 2.031163 CCGCCCGATCCAAGGATC 59.969 66.667 17.30 17.30 45.42 3.36
189 190 2.768344 ACCGCCCGATCCAAGGAT 60.768 61.111 0.16 0.16 37.59 3.24
190 191 3.781307 CACCGCCCGATCCAAGGA 61.781 66.667 0.00 0.00 0.00 3.36
191 192 4.856801 CCACCGCCCGATCCAAGG 62.857 72.222 0.00 0.00 0.00 3.61
219 220 2.365408 CTTCAGGAAGGGTACGACAC 57.635 55.000 1.01 0.00 34.87 3.67
244 245 3.056313 GAACCATGCGCTCCAAGGC 62.056 63.158 9.73 0.00 35.72 4.35
245 246 2.753966 CGAACCATGCGCTCCAAGG 61.754 63.158 9.73 5.77 38.28 3.61
246 247 1.970917 GACGAACCATGCGCTCCAAG 61.971 60.000 9.73 0.00 0.00 3.61
247 248 2.031919 ACGAACCATGCGCTCCAA 59.968 55.556 9.73 0.00 0.00 3.53
248 249 2.434185 GACGAACCATGCGCTCCA 60.434 61.111 9.73 0.00 0.00 3.86
249 250 0.529773 TATGACGAACCATGCGCTCC 60.530 55.000 9.73 0.00 0.00 4.70
250 251 1.193203 CATATGACGAACCATGCGCTC 59.807 52.381 9.73 0.00 0.00 5.03
251 252 1.220529 CATATGACGAACCATGCGCT 58.779 50.000 9.73 0.00 0.00 5.92
252 253 0.937304 ACATATGACGAACCATGCGC 59.063 50.000 10.38 0.00 0.00 6.09
253 254 1.261354 CCACATATGACGAACCATGCG 59.739 52.381 10.38 0.00 0.00 4.73
254 255 1.002468 GCCACATATGACGAACCATGC 60.002 52.381 10.38 0.00 0.00 4.06
255 256 2.564771 AGCCACATATGACGAACCATG 58.435 47.619 10.38 0.00 0.00 3.66
256 257 3.388024 AGTAGCCACATATGACGAACCAT 59.612 43.478 10.38 0.00 0.00 3.55
257 258 2.764010 AGTAGCCACATATGACGAACCA 59.236 45.455 10.38 0.00 0.00 3.67
258 259 3.454371 AGTAGCCACATATGACGAACC 57.546 47.619 10.38 0.00 0.00 3.62
259 260 4.683832 AGAAGTAGCCACATATGACGAAC 58.316 43.478 10.38 1.18 0.00 3.95
260 261 4.645136 AGAGAAGTAGCCACATATGACGAA 59.355 41.667 10.38 0.00 0.00 3.85
261 262 4.207955 AGAGAAGTAGCCACATATGACGA 58.792 43.478 10.38 0.00 0.00 4.20
262 263 4.576216 AGAGAAGTAGCCACATATGACG 57.424 45.455 10.38 0.00 0.00 4.35
263 264 6.920758 CACTAAGAGAAGTAGCCACATATGAC 59.079 42.308 10.38 0.00 0.00 3.06
264 265 6.040955 CCACTAAGAGAAGTAGCCACATATGA 59.959 42.308 10.38 0.00 0.00 2.15
265 266 6.183360 ACCACTAAGAGAAGTAGCCACATATG 60.183 42.308 0.00 0.00 0.00 1.78
266 267 5.900123 ACCACTAAGAGAAGTAGCCACATAT 59.100 40.000 0.00 0.00 0.00 1.78
267 268 5.127194 CACCACTAAGAGAAGTAGCCACATA 59.873 44.000 0.00 0.00 0.00 2.29
268 269 4.081420 CACCACTAAGAGAAGTAGCCACAT 60.081 45.833 0.00 0.00 0.00 3.21
269 270 3.258372 CACCACTAAGAGAAGTAGCCACA 59.742 47.826 0.00 0.00 0.00 4.17
270 271 3.368531 CCACCACTAAGAGAAGTAGCCAC 60.369 52.174 0.00 0.00 0.00 5.01
271 272 2.832129 CCACCACTAAGAGAAGTAGCCA 59.168 50.000 0.00 0.00 0.00 4.75
272 273 2.832733 ACCACCACTAAGAGAAGTAGCC 59.167 50.000 0.00 0.00 0.00 3.93
273 274 4.705991 ACTACCACCACTAAGAGAAGTAGC 59.294 45.833 0.00 0.00 31.31 3.58
274 275 5.393243 GCACTACCACCACTAAGAGAAGTAG 60.393 48.000 0.00 0.00 33.75 2.57
275 276 4.461781 GCACTACCACCACTAAGAGAAGTA 59.538 45.833 0.00 0.00 0.00 2.24
276 277 3.258622 GCACTACCACCACTAAGAGAAGT 59.741 47.826 0.00 0.00 0.00 3.01
277 278 3.511934 AGCACTACCACCACTAAGAGAAG 59.488 47.826 0.00 0.00 0.00 2.85
278 279 3.507411 AGCACTACCACCACTAAGAGAA 58.493 45.455 0.00 0.00 0.00 2.87
279 280 3.170991 AGCACTACCACCACTAAGAGA 57.829 47.619 0.00 0.00 0.00 3.10
280 281 3.381908 CCTAGCACTACCACCACTAAGAG 59.618 52.174 0.00 0.00 0.00 2.85
281 282 3.010920 TCCTAGCACTACCACCACTAAGA 59.989 47.826 0.00 0.00 0.00 2.10
282 283 3.362706 TCCTAGCACTACCACCACTAAG 58.637 50.000 0.00 0.00 0.00 2.18
283 284 3.245514 ACTCCTAGCACTACCACCACTAA 60.246 47.826 0.00 0.00 0.00 2.24
284 285 2.310945 ACTCCTAGCACTACCACCACTA 59.689 50.000 0.00 0.00 0.00 2.74
285 286 1.077334 ACTCCTAGCACTACCACCACT 59.923 52.381 0.00 0.00 0.00 4.00
286 287 1.204941 CACTCCTAGCACTACCACCAC 59.795 57.143 0.00 0.00 0.00 4.16
287 288 1.557099 CACTCCTAGCACTACCACCA 58.443 55.000 0.00 0.00 0.00 4.17
288 289 0.824759 CCACTCCTAGCACTACCACC 59.175 60.000 0.00 0.00 0.00 4.61
289 290 1.204941 CACCACTCCTAGCACTACCAC 59.795 57.143 0.00 0.00 0.00 4.16
290 291 1.203137 ACACCACTCCTAGCACTACCA 60.203 52.381 0.00 0.00 0.00 3.25
291 292 1.558233 ACACCACTCCTAGCACTACC 58.442 55.000 0.00 0.00 0.00 3.18
292 293 2.299297 ACAACACCACTCCTAGCACTAC 59.701 50.000 0.00 0.00 0.00 2.73
293 294 2.605257 ACAACACCACTCCTAGCACTA 58.395 47.619 0.00 0.00 0.00 2.74
294 295 1.424638 ACAACACCACTCCTAGCACT 58.575 50.000 0.00 0.00 0.00 4.40
295 296 1.873591 CAACAACACCACTCCTAGCAC 59.126 52.381 0.00 0.00 0.00 4.40
296 297 1.813862 GCAACAACACCACTCCTAGCA 60.814 52.381 0.00 0.00 0.00 3.49
297 298 0.875059 GCAACAACACCACTCCTAGC 59.125 55.000 0.00 0.00 0.00 3.42
298 299 1.148310 CGCAACAACACCACTCCTAG 58.852 55.000 0.00 0.00 0.00 3.02
299 300 0.882927 GCGCAACAACACCACTCCTA 60.883 55.000 0.30 0.00 0.00 2.94
300 301 2.186826 GCGCAACAACACCACTCCT 61.187 57.895 0.30 0.00 0.00 3.69
301 302 2.117941 GAGCGCAACAACACCACTCC 62.118 60.000 11.47 0.00 0.00 3.85
302 303 1.279840 GAGCGCAACAACACCACTC 59.720 57.895 11.47 0.00 0.00 3.51
303 304 1.439353 CTGAGCGCAACAACACCACT 61.439 55.000 11.47 0.00 0.00 4.00
304 305 1.009675 CTGAGCGCAACAACACCAC 60.010 57.895 11.47 0.00 0.00 4.16
305 306 2.833533 GCTGAGCGCAACAACACCA 61.834 57.895 11.47 0.00 38.92 4.17
306 307 2.050985 GCTGAGCGCAACAACACC 60.051 61.111 11.47 0.00 38.92 4.16
317 318 0.605589 AGGATACATAGGCGCTGAGC 59.394 55.000 7.64 0.00 43.13 4.26
318 319 1.671261 GCAGGATACATAGGCGCTGAG 60.671 57.143 7.64 0.00 41.41 3.35
319 320 0.318441 GCAGGATACATAGGCGCTGA 59.682 55.000 7.64 0.00 41.41 4.26
320 321 0.671781 GGCAGGATACATAGGCGCTG 60.672 60.000 7.64 0.00 41.41 5.18
321 322 1.674057 GGCAGGATACATAGGCGCT 59.326 57.895 7.64 0.00 41.41 5.92
322 323 1.376037 GGGCAGGATACATAGGCGC 60.376 63.158 0.00 0.00 41.41 6.53
323 324 0.036952 CAGGGCAGGATACATAGGCG 60.037 60.000 0.00 0.00 41.41 5.52
324 325 0.326264 CCAGGGCAGGATACATAGGC 59.674 60.000 0.00 0.00 41.41 3.93
325 326 0.987294 CCCAGGGCAGGATACATAGG 59.013 60.000 0.00 0.00 41.41 2.57
326 327 1.349026 CACCCAGGGCAGGATACATAG 59.651 57.143 4.91 0.00 41.41 2.23
327 328 1.345009 ACACCCAGGGCAGGATACATA 60.345 52.381 4.91 0.00 41.41 2.29
328 329 0.624500 ACACCCAGGGCAGGATACAT 60.625 55.000 4.91 0.00 41.41 2.29
329 330 1.229820 ACACCCAGGGCAGGATACA 60.230 57.895 4.91 0.00 41.41 2.29
330 331 1.224592 CACACCCAGGGCAGGATAC 59.775 63.158 4.91 0.00 0.00 2.24
331 332 1.229820 ACACACCCAGGGCAGGATA 60.230 57.895 4.91 0.00 0.00 2.59
332 333 2.532715 ACACACCCAGGGCAGGAT 60.533 61.111 4.91 0.00 0.00 3.24
333 334 3.569210 CACACACCCAGGGCAGGA 61.569 66.667 4.91 0.00 0.00 3.86
338 339 4.562425 ACACGCACACACCCAGGG 62.562 66.667 2.85 2.85 0.00 4.45
339 340 3.279116 CACACGCACACACCCAGG 61.279 66.667 0.00 0.00 0.00 4.45
340 341 2.112198 AACACACGCACACACCCAG 61.112 57.895 0.00 0.00 0.00 4.45
341 342 2.045829 AACACACGCACACACCCA 60.046 55.556 0.00 0.00 0.00 4.51
342 343 2.407210 CAACACACGCACACACCC 59.593 61.111 0.00 0.00 0.00 4.61
343 344 2.277884 GCAACACACGCACACACC 60.278 61.111 0.00 0.00 0.00 4.16
344 345 2.647481 CGCAACACACGCACACAC 60.647 61.111 0.00 0.00 0.00 3.82
345 346 3.870422 CCGCAACACACGCACACA 61.870 61.111 0.00 0.00 0.00 3.72
346 347 3.871574 ACCGCAACACACGCACAC 61.872 61.111 0.00 0.00 0.00 3.82
347 348 3.870422 CACCGCAACACACGCACA 61.870 61.111 0.00 0.00 0.00 4.57
348 349 4.605967 CCACCGCAACACACGCAC 62.606 66.667 0.00 0.00 0.00 5.34
352 353 4.605967 CACGCCACCGCAACACAC 62.606 66.667 0.00 0.00 38.22 3.82
360 361 3.339464 TACAAACGCACGCCACCG 61.339 61.111 0.00 0.00 41.14 4.94
361 362 2.248835 AGTACAAACGCACGCCACC 61.249 57.895 0.00 0.00 0.00 4.61
362 363 1.083015 CAGTACAAACGCACGCCAC 60.083 57.895 0.00 0.00 0.00 5.01
363 364 2.248135 CCAGTACAAACGCACGCCA 61.248 57.895 0.00 0.00 0.00 5.69
364 365 1.296056 ATCCAGTACAAACGCACGCC 61.296 55.000 0.00 0.00 0.00 5.68
365 366 0.179225 CATCCAGTACAAACGCACGC 60.179 55.000 0.00 0.00 0.00 5.34
366 367 0.179225 GCATCCAGTACAAACGCACG 60.179 55.000 0.00 0.00 0.00 5.34
367 368 1.156736 AGCATCCAGTACAAACGCAC 58.843 50.000 0.00 0.00 0.00 5.34
368 369 1.535028 CAAGCATCCAGTACAAACGCA 59.465 47.619 0.00 0.00 0.00 5.24
369 370 1.804151 TCAAGCATCCAGTACAAACGC 59.196 47.619 0.00 0.00 0.00 4.84
370 371 3.684305 TCATCAAGCATCCAGTACAAACG 59.316 43.478 0.00 0.00 0.00 3.60
371 372 5.503031 CGATCATCAAGCATCCAGTACAAAC 60.503 44.000 0.00 0.00 0.00 2.93
372 373 4.571984 CGATCATCAAGCATCCAGTACAAA 59.428 41.667 0.00 0.00 0.00 2.83
373 374 4.122046 CGATCATCAAGCATCCAGTACAA 58.878 43.478 0.00 0.00 0.00 2.41
374 375 3.493176 CCGATCATCAAGCATCCAGTACA 60.493 47.826 0.00 0.00 0.00 2.90
375 376 3.062763 CCGATCATCAAGCATCCAGTAC 58.937 50.000 0.00 0.00 0.00 2.73
376 377 2.700371 ACCGATCATCAAGCATCCAGTA 59.300 45.455 0.00 0.00 0.00 2.74
377 378 1.487976 ACCGATCATCAAGCATCCAGT 59.512 47.619 0.00 0.00 0.00 4.00
378 379 1.871676 CACCGATCATCAAGCATCCAG 59.128 52.381 0.00 0.00 0.00 3.86
379 380 1.957668 CACCGATCATCAAGCATCCA 58.042 50.000 0.00 0.00 0.00 3.41
380 381 0.590195 GCACCGATCATCAAGCATCC 59.410 55.000 0.00 0.00 0.00 3.51
381 382 1.590932 AGCACCGATCATCAAGCATC 58.409 50.000 0.00 0.00 0.00 3.91
382 383 2.048444 AAGCACCGATCATCAAGCAT 57.952 45.000 0.00 0.00 0.00 3.79
383 384 1.825090 AAAGCACCGATCATCAAGCA 58.175 45.000 0.00 0.00 0.00 3.91
384 385 5.869753 ATATAAAGCACCGATCATCAAGC 57.130 39.130 0.00 0.00 0.00 4.01
400 401 5.122711 GCTTTCGCCCCGCTTTATATATAAA 59.877 40.000 15.47 15.47 0.00 1.40
401 402 4.632688 GCTTTCGCCCCGCTTTATATATAA 59.367 41.667 0.81 0.81 0.00 0.98
402 403 4.186159 GCTTTCGCCCCGCTTTATATATA 58.814 43.478 0.00 0.00 0.00 0.86
403 404 3.007635 GCTTTCGCCCCGCTTTATATAT 58.992 45.455 0.00 0.00 0.00 0.86
404 405 2.419667 GCTTTCGCCCCGCTTTATATA 58.580 47.619 0.00 0.00 0.00 0.86
405 406 1.235724 GCTTTCGCCCCGCTTTATAT 58.764 50.000 0.00 0.00 0.00 0.86
406 407 2.697819 GCTTTCGCCCCGCTTTATA 58.302 52.632 0.00 0.00 0.00 0.98
407 408 3.509659 GCTTTCGCCCCGCTTTAT 58.490 55.556 0.00 0.00 0.00 1.40
417 418 1.802365 TCTACCGAAAAAGGCTTTCGC 59.198 47.619 13.76 7.41 46.89 4.70
419 420 8.434733 AATATACTCTACCGAAAAAGGCTTTC 57.565 34.615 13.76 0.41 33.69 2.62
420 421 8.044908 TGAATATACTCTACCGAAAAAGGCTTT 58.955 33.333 6.68 6.68 33.69 3.51
421 422 7.562135 TGAATATACTCTACCGAAAAAGGCTT 58.438 34.615 0.00 0.00 33.69 4.35
422 423 7.120923 TGAATATACTCTACCGAAAAAGGCT 57.879 36.000 0.00 0.00 33.69 4.58
423 424 7.516312 CGTTGAATATACTCTACCGAAAAAGGC 60.516 40.741 0.00 0.00 33.69 4.35
424 425 7.490402 ACGTTGAATATACTCTACCGAAAAAGG 59.510 37.037 0.00 0.00 37.30 3.11
425 426 8.403606 ACGTTGAATATACTCTACCGAAAAAG 57.596 34.615 0.00 0.00 0.00 2.27
426 427 8.246180 AGACGTTGAATATACTCTACCGAAAAA 58.754 33.333 0.00 0.00 0.00 1.94
427 428 7.765307 AGACGTTGAATATACTCTACCGAAAA 58.235 34.615 0.00 0.00 0.00 2.29
428 429 7.325660 AGACGTTGAATATACTCTACCGAAA 57.674 36.000 0.00 0.00 0.00 3.46
429 430 6.932356 AGACGTTGAATATACTCTACCGAA 57.068 37.500 0.00 0.00 0.00 4.30
430 431 7.118825 CCATAGACGTTGAATATACTCTACCGA 59.881 40.741 0.00 0.00 0.00 4.69
431 432 7.094890 ACCATAGACGTTGAATATACTCTACCG 60.095 40.741 0.00 0.00 0.00 4.02
432 433 8.108551 ACCATAGACGTTGAATATACTCTACC 57.891 38.462 0.00 0.00 0.00 3.18
434 435 9.783081 TGTACCATAGACGTTGAATATACTCTA 57.217 33.333 0.00 0.00 0.00 2.43
474 475 8.554835 TTTGGACGATTCACAAAATGACTATA 57.445 30.769 0.00 0.00 36.92 1.31
511 512 4.274459 GCTTCTTTGCTTTGACTCTCTTCA 59.726 41.667 0.00 0.00 0.00 3.02
540 541 5.163478 GGGTAATCGTGTGTTAGTGGTATCT 60.163 44.000 0.00 0.00 0.00 1.98
565 566 1.974236 AGTTGACTCTCTTCACCCCAG 59.026 52.381 0.00 0.00 0.00 4.45
646 647 2.353074 CGAGATCGACGAGCATGCG 61.353 63.158 16.35 11.71 43.02 4.73
932 934 3.648507 AGAGGAGATGAAATGCTGCTT 57.351 42.857 0.00 0.00 32.69 3.91
934 936 2.617774 GGAAGAGGAGATGAAATGCTGC 59.382 50.000 0.00 0.00 0.00 5.25
1011 1015 3.842923 ACGCTGGCAGATCGGAGG 61.843 66.667 20.86 0.00 0.00 4.30
1216 1543 0.038310 TCAAGCTCGTCCTCCAGAGA 59.962 55.000 0.00 0.00 36.65 3.10
1219 1546 1.153667 GCTCAAGCTCGTCCTCCAG 60.154 63.158 0.00 0.00 38.21 3.86
1342 1669 1.525995 CTTTGGTGTGGACTGCCGT 60.526 57.895 0.00 0.00 36.79 5.68
1419 1760 1.100510 CCATGTCAGAGGCAACCATG 58.899 55.000 0.00 0.00 34.18 3.66
1420 1761 0.994247 TCCATGTCAGAGGCAACCAT 59.006 50.000 0.00 0.00 37.17 3.55
1421 1762 0.325933 CTCCATGTCAGAGGCAACCA 59.674 55.000 0.00 0.00 37.17 3.67
1422 1763 0.393537 CCTCCATGTCAGAGGCAACC 60.394 60.000 3.86 0.00 44.30 3.77
1423 1764 3.165606 CCTCCATGTCAGAGGCAAC 57.834 57.895 3.86 0.00 44.30 4.17
1428 1769 0.835276 TGCATCCCTCCATGTCAGAG 59.165 55.000 0.00 0.00 0.00 3.35
1429 1770 0.835276 CTGCATCCCTCCATGTCAGA 59.165 55.000 0.00 0.00 33.36 3.27
1430 1771 0.818445 GCTGCATCCCTCCATGTCAG 60.818 60.000 0.00 0.00 34.06 3.51
1431 1772 1.225426 GCTGCATCCCTCCATGTCA 59.775 57.895 0.00 0.00 0.00 3.58
1432 1773 1.890979 CGCTGCATCCCTCCATGTC 60.891 63.158 0.00 0.00 0.00 3.06
1599 2229 1.302285 CTGCAACTGCCCCTCATCT 59.698 57.895 0.00 0.00 41.18 2.90
1678 2308 2.630098 TGTTCAGAAGAGAGACCCTGTG 59.370 50.000 0.00 0.00 0.00 3.66
1715 2345 6.058183 AGAGTTGTTGCACTAAGTTGATCTT 58.942 36.000 0.00 0.00 39.89 2.40
2059 2708 2.421424 ACATTCAGGCGATCTTTTCTGC 59.579 45.455 0.00 0.00 0.00 4.26
2071 2720 2.423538 GTGGTATGTTGGACATTCAGGC 59.576 50.000 0.00 0.00 39.88 4.85
2128 2781 9.401058 ACTTAATTCCTGATTGAGATGTTTAGG 57.599 33.333 0.00 0.00 35.51 2.69
2323 2978 6.237755 GCATGCTCAAATAGTTCTTCAAATGC 60.238 38.462 11.37 0.00 0.00 3.56


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

AutoCloner maintained by Alex Coulton.