Multiple sequence alignment - TraesCS7B01G114100

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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 TraesCS7B01G114100 chr7B 100.000 2872 0 0 1 2872 132111523 132108652 0.000000e+00 5304
1 TraesCS7B01G114100 chr7A 95.176 2073 79 12 377 2441 169305523 169303464 0.000000e+00 3254
2 TraesCS7B01G114100 chr7D 92.785 2093 81 32 377 2453 167558402 167556364 0.000000e+00 2964
3 TraesCS7B01G114100 chr7D 88.053 226 17 3 2447 2667 167555207 167554987 2.840000e-65 259
4 TraesCS7B01G114100 chr7D 92.169 166 11 2 2708 2872 167554994 167554830 1.720000e-57 233
5 TraesCS7B01G114100 chr7D 90.654 107 9 1 9 115 167558506 167558401 1.070000e-29 141
6 TraesCS7B01G114100 chr7D 88.525 61 7 0 55 115 167564345 167564285 1.100000e-09 75
7 TraesCS7B01G114100 chr5B 95.238 273 12 1 114 385 35776437 35776709 5.680000e-117 431
8 TraesCS7B01G114100 chr5B 94.717 265 13 1 114 377 577245597 577245861 7.410000e-111 411
9 TraesCS7B01G114100 chr5B 94.318 264 14 1 114 376 557281288 557281551 1.240000e-108 403
10 TraesCS7B01G114100 chr3B 95.506 267 11 1 114 379 17707978 17707712 2.640000e-115 425
11 TraesCS7B01G114100 chr6B 95.131 267 12 1 114 379 682421622 682421356 1.230000e-113 420
12 TraesCS7B01G114100 chr6B 92.405 79 6 0 1618 1696 572113107 572113185 2.340000e-21 113
13 TraesCS7B01G114100 chr5D 92.361 288 15 6 104 384 70678056 70677769 1.240000e-108 403
14 TraesCS7B01G114100 chr2B 94.007 267 15 1 112 377 406553035 406552769 1.240000e-108 403
15 TraesCS7B01G114100 chr4A 94.007 267 13 3 112 376 597820336 597820071 4.460000e-108 401
16 TraesCS7B01G114100 chr2A 94.007 267 13 3 112 376 575349018 575349283 4.460000e-108 401
17 TraesCS7B01G114100 chr6A 92.500 80 6 0 1617 1696 524364159 524364238 6.500000e-22 115
18 TraesCS7B01G114100 chr6D 92.405 79 6 0 1618 1696 382563463 382563541 2.340000e-21 113


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 TraesCS7B01G114100 chr7B 132108652 132111523 2871 True 5304.00 5304 100.00000 1 2872 1 chr7B.!!$R1 2871
1 TraesCS7B01G114100 chr7A 169303464 169305523 2059 True 3254.00 3254 95.17600 377 2441 1 chr7A.!!$R1 2064
2 TraesCS7B01G114100 chr7D 167554830 167558506 3676 True 899.25 2964 90.91525 9 2872 4 chr7D.!!$R2 2863

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
905 911 0.250513 GAGCCCCTCCTACACAACAG 59.749 60.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2595 3781 0.378962 CGAGGAGTCGGTGAGCTTAG 59.621 60.0 0.0 0.0 42.87 2.18 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
32 33 3.501349 TGTCTCAGCTTAGACCAGTTCT 58.499 45.455 22.26 0.00 44.40 3.01
34 35 5.077564 TGTCTCAGCTTAGACCAGTTCTAA 58.922 41.667 22.26 1.58 44.40 2.10
41 42 4.876679 GCTTAGACCAGTTCTAACCAATCC 59.123 45.833 0.00 0.00 41.19 3.01
43 44 3.170717 AGACCAGTTCTAACCAATCCGA 58.829 45.455 0.00 0.00 30.17 4.55
51 52 3.628008 TCTAACCAATCCGAGCAGTCTA 58.372 45.455 0.00 0.00 0.00 2.59
59 60 4.974368 ATCCGAGCAGTCTATACTATGC 57.026 45.455 0.00 0.00 33.48 3.14
102 103 5.334414 GGCACTATTATTTGAGGATCTTGCG 60.334 44.000 0.00 0.00 34.92 4.85
110 111 4.537135 TTGAGGATCTTGCGTTTAGACT 57.463 40.909 0.00 0.00 34.92 3.24
113 114 2.234908 AGGATCTTGCGTTTAGACTGCT 59.765 45.455 0.00 0.00 0.00 4.24
114 115 3.447586 AGGATCTTGCGTTTAGACTGCTA 59.552 43.478 0.00 0.00 0.00 3.49
115 116 3.552294 GGATCTTGCGTTTAGACTGCTAC 59.448 47.826 0.00 0.00 0.00 3.58
116 117 3.936372 TCTTGCGTTTAGACTGCTACT 57.064 42.857 0.00 0.00 0.00 2.57
117 118 3.834610 TCTTGCGTTTAGACTGCTACTC 58.165 45.455 0.00 0.00 0.00 2.59
118 119 2.649331 TGCGTTTAGACTGCTACTCC 57.351 50.000 0.00 0.00 0.00 3.85
119 120 1.203994 TGCGTTTAGACTGCTACTCCC 59.796 52.381 0.00 0.00 0.00 4.30
120 121 1.477295 GCGTTTAGACTGCTACTCCCT 59.523 52.381 0.00 0.00 0.00 4.20
121 122 2.094130 GCGTTTAGACTGCTACTCCCTT 60.094 50.000 0.00 0.00 0.00 3.95
122 123 3.129988 GCGTTTAGACTGCTACTCCCTTA 59.870 47.826 0.00 0.00 0.00 2.69
123 124 4.734108 GCGTTTAGACTGCTACTCCCTTAG 60.734 50.000 0.00 0.00 0.00 2.18
124 125 4.398673 CGTTTAGACTGCTACTCCCTTAGT 59.601 45.833 0.00 0.00 42.62 2.24
125 126 5.448904 CGTTTAGACTGCTACTCCCTTAGTC 60.449 48.000 0.00 0.00 39.80 2.59
126 127 3.021177 AGACTGCTACTCCCTTAGTCC 57.979 52.381 0.00 0.00 39.80 3.85
127 128 2.583566 AGACTGCTACTCCCTTAGTCCT 59.416 50.000 0.00 0.00 39.80 3.85
128 129 3.011934 AGACTGCTACTCCCTTAGTCCTT 59.988 47.826 0.00 0.00 39.80 3.36
129 130 3.100671 ACTGCTACTCCCTTAGTCCTTG 58.899 50.000 0.00 0.00 39.80 3.61
130 131 3.245658 ACTGCTACTCCCTTAGTCCTTGA 60.246 47.826 0.00 0.00 39.80 3.02
131 132 3.769844 CTGCTACTCCCTTAGTCCTTGAA 59.230 47.826 0.00 0.00 39.80 2.69
132 133 4.164981 TGCTACTCCCTTAGTCCTTGAAA 58.835 43.478 0.00 0.00 39.80 2.69
133 134 4.223032 TGCTACTCCCTTAGTCCTTGAAAG 59.777 45.833 0.00 0.00 39.80 2.62
134 135 4.466726 GCTACTCCCTTAGTCCTTGAAAGA 59.533 45.833 0.00 0.00 39.80 2.52
135 136 5.394773 GCTACTCCCTTAGTCCTTGAAAGAG 60.395 48.000 0.00 0.00 39.80 2.85
136 137 4.494591 ACTCCCTTAGTCCTTGAAAGAGT 58.505 43.478 0.00 0.00 30.33 3.24
137 138 4.284746 ACTCCCTTAGTCCTTGAAAGAGTG 59.715 45.833 0.00 0.00 30.33 3.51
138 139 4.232091 TCCCTTAGTCCTTGAAAGAGTGT 58.768 43.478 0.00 0.00 0.00 3.55
139 140 5.399991 TCCCTTAGTCCTTGAAAGAGTGTA 58.600 41.667 0.00 0.00 0.00 2.90
140 141 5.245526 TCCCTTAGTCCTTGAAAGAGTGTAC 59.754 44.000 0.00 0.00 0.00 2.90
141 142 5.246429 CCCTTAGTCCTTGAAAGAGTGTACT 59.754 44.000 0.00 0.00 0.00 2.73
142 143 6.239629 CCCTTAGTCCTTGAAAGAGTGTACTT 60.240 42.308 0.00 0.00 0.00 2.24
143 144 6.869388 CCTTAGTCCTTGAAAGAGTGTACTTC 59.131 42.308 0.00 0.00 0.00 3.01
144 145 5.216614 AGTCCTTGAAAGAGTGTACTTCC 57.783 43.478 0.00 0.00 0.00 3.46
145 146 4.654262 AGTCCTTGAAAGAGTGTACTTCCA 59.346 41.667 0.00 0.00 0.00 3.53
146 147 5.130477 AGTCCTTGAAAGAGTGTACTTCCAA 59.870 40.000 0.00 0.00 0.00 3.53
147 148 5.236695 GTCCTTGAAAGAGTGTACTTCCAAC 59.763 44.000 0.00 0.00 0.00 3.77
148 149 5.130477 TCCTTGAAAGAGTGTACTTCCAACT 59.870 40.000 0.00 0.00 0.00 3.16
149 150 5.823045 CCTTGAAAGAGTGTACTTCCAACTT 59.177 40.000 0.00 0.00 0.00 2.66
150 151 6.318900 CCTTGAAAGAGTGTACTTCCAACTTT 59.681 38.462 0.00 0.00 0.00 2.66
151 152 6.677781 TGAAAGAGTGTACTTCCAACTTTG 57.322 37.500 0.00 0.00 0.00 2.77
152 153 6.177610 TGAAAGAGTGTACTTCCAACTTTGT 58.822 36.000 0.00 0.00 0.00 2.83
153 154 6.657541 TGAAAGAGTGTACTTCCAACTTTGTT 59.342 34.615 0.00 0.00 0.00 2.83
154 155 6.436843 AAGAGTGTACTTCCAACTTTGTTG 57.563 37.500 3.69 3.69 0.00 3.33
155 156 4.881850 AGAGTGTACTTCCAACTTTGTTGG 59.118 41.667 19.97 19.97 40.87 3.77
156 157 4.850680 AGTGTACTTCCAACTTTGTTGGA 58.149 39.130 23.38 23.38 46.08 3.53
162 163 3.374042 TCCAACTTTGTTGGAGGTCAA 57.626 42.857 23.38 5.39 43.17 3.18
173 174 4.826274 TTGGAGGTCAACTATCTCAAGG 57.174 45.455 0.00 0.00 0.00 3.61
174 175 3.791320 TGGAGGTCAACTATCTCAAGGT 58.209 45.455 0.00 0.00 0.00 3.50
175 176 4.168101 TGGAGGTCAACTATCTCAAGGTT 58.832 43.478 0.00 0.00 0.00 3.50
176 177 4.597507 TGGAGGTCAACTATCTCAAGGTTT 59.402 41.667 0.00 0.00 0.00 3.27
177 178 4.938226 GGAGGTCAACTATCTCAAGGTTTG 59.062 45.833 0.00 0.00 0.00 2.93
178 179 5.280011 GGAGGTCAACTATCTCAAGGTTTGA 60.280 44.000 0.00 0.00 38.17 2.69
179 180 5.552178 AGGTCAACTATCTCAAGGTTTGAC 58.448 41.667 4.10 4.10 35.46 3.18
180 181 4.695928 GGTCAACTATCTCAAGGTTTGACC 59.304 45.833 13.85 13.85 38.99 4.02
181 182 4.389077 GTCAACTATCTCAAGGTTTGACCG 59.611 45.833 0.00 0.00 44.90 4.79
182 183 4.282449 TCAACTATCTCAAGGTTTGACCGA 59.718 41.667 0.00 0.00 44.90 4.69
183 184 4.457834 ACTATCTCAAGGTTTGACCGAG 57.542 45.455 0.00 0.00 44.90 4.63
184 185 3.833070 ACTATCTCAAGGTTTGACCGAGT 59.167 43.478 0.00 0.00 44.90 4.18
185 186 3.771577 ATCTCAAGGTTTGACCGAGTT 57.228 42.857 0.00 0.00 44.90 3.01
186 187 3.553828 TCTCAAGGTTTGACCGAGTTT 57.446 42.857 0.00 0.00 44.90 2.66
187 188 4.675976 TCTCAAGGTTTGACCGAGTTTA 57.324 40.909 0.00 0.00 44.90 2.01
188 189 5.223449 TCTCAAGGTTTGACCGAGTTTAT 57.777 39.130 0.00 0.00 44.90 1.40
189 190 4.994852 TCTCAAGGTTTGACCGAGTTTATG 59.005 41.667 0.00 0.00 44.90 1.90
190 191 3.500680 TCAAGGTTTGACCGAGTTTATGC 59.499 43.478 0.00 0.00 44.90 3.14
191 192 3.134574 AGGTTTGACCGAGTTTATGCA 57.865 42.857 0.00 0.00 44.90 3.96
192 193 3.482436 AGGTTTGACCGAGTTTATGCAA 58.518 40.909 0.00 0.00 44.90 4.08
193 194 3.886505 AGGTTTGACCGAGTTTATGCAAA 59.113 39.130 0.00 0.00 44.90 3.68
194 195 4.339814 AGGTTTGACCGAGTTTATGCAAAA 59.660 37.500 0.00 0.00 44.90 2.44
195 196 5.044558 GGTTTGACCGAGTTTATGCAAAAA 58.955 37.500 0.00 0.00 0.00 1.94
196 197 5.694458 GGTTTGACCGAGTTTATGCAAAAAT 59.306 36.000 0.00 0.00 0.00 1.82
197 198 6.864165 GGTTTGACCGAGTTTATGCAAAAATA 59.136 34.615 0.00 0.00 0.00 1.40
198 199 7.544217 GGTTTGACCGAGTTTATGCAAAAATAT 59.456 33.333 0.00 0.00 0.00 1.28
199 200 8.372521 GTTTGACCGAGTTTATGCAAAAATATG 58.627 33.333 0.00 0.00 0.00 1.78
200 201 7.151999 TGACCGAGTTTATGCAAAAATATGT 57.848 32.000 0.00 0.00 0.00 2.29
201 202 7.247728 TGACCGAGTTTATGCAAAAATATGTC 58.752 34.615 0.00 3.94 0.00 3.06
202 203 7.094592 TGACCGAGTTTATGCAAAAATATGTCA 60.095 33.333 14.36 14.36 0.00 3.58
203 204 7.598278 ACCGAGTTTATGCAAAAATATGTCAA 58.402 30.769 0.00 0.00 0.00 3.18
204 205 8.250332 ACCGAGTTTATGCAAAAATATGTCAAT 58.750 29.630 0.00 0.00 0.00 2.57
205 206 8.533965 CCGAGTTTATGCAAAAATATGTCAATG 58.466 33.333 0.00 0.00 0.00 2.82
206 207 8.051909 CGAGTTTATGCAAAAATATGTCAATGC 58.948 33.333 0.00 0.00 0.00 3.56
207 208 9.090692 GAGTTTATGCAAAAATATGTCAATGCT 57.909 29.630 0.00 0.00 34.97 3.79
208 209 9.439500 AGTTTATGCAAAAATATGTCAATGCTT 57.561 25.926 0.00 0.00 34.97 3.91
209 210 9.480538 GTTTATGCAAAAATATGTCAATGCTTG 57.519 29.630 0.00 0.00 34.97 4.01
210 211 8.774890 TTATGCAAAAATATGTCAATGCTTGT 57.225 26.923 0.00 0.00 34.97 3.16
211 212 6.469139 TGCAAAAATATGTCAATGCTTGTG 57.531 33.333 0.00 0.00 34.97 3.33
212 213 6.221659 TGCAAAAATATGTCAATGCTTGTGA 58.778 32.000 0.00 0.00 34.97 3.58
213 214 6.704937 TGCAAAAATATGTCAATGCTTGTGAA 59.295 30.769 0.00 0.00 34.97 3.18
214 215 7.226128 TGCAAAAATATGTCAATGCTTGTGAAA 59.774 29.630 0.00 0.00 34.97 2.69
215 216 7.531534 GCAAAAATATGTCAATGCTTGTGAAAC 59.468 33.333 0.00 0.00 37.35 2.78
216 217 7.656707 AAAATATGTCAATGCTTGTGAAACC 57.343 32.000 0.00 0.00 34.36 3.27
217 218 5.981088 ATATGTCAATGCTTGTGAAACCA 57.019 34.783 0.00 0.00 34.36 3.67
218 219 4.669206 ATGTCAATGCTTGTGAAACCAA 57.331 36.364 0.00 0.00 34.36 3.67
219 220 4.462508 TGTCAATGCTTGTGAAACCAAA 57.537 36.364 0.00 0.00 34.36 3.28
220 221 5.021033 TGTCAATGCTTGTGAAACCAAAT 57.979 34.783 0.00 0.00 34.36 2.32
221 222 6.154203 TGTCAATGCTTGTGAAACCAAATA 57.846 33.333 0.00 0.00 34.36 1.40
222 223 6.215121 TGTCAATGCTTGTGAAACCAAATAG 58.785 36.000 0.00 0.00 34.36 1.73
223 224 5.634859 GTCAATGCTTGTGAAACCAAATAGG 59.365 40.000 0.00 0.00 45.67 2.57
275 276 9.851686 TGAATCTAATGCTACTAATTTGATGGT 57.148 29.630 0.00 0.00 32.33 3.55
343 344 8.445275 AAAAAGTTTGACTTTCCAACAAAGTT 57.555 26.923 6.53 0.00 46.78 2.66
344 345 9.549078 AAAAAGTTTGACTTTCCAACAAAGTTA 57.451 25.926 6.53 0.00 46.78 2.24
345 346 9.549078 AAAAGTTTGACTTTCCAACAAAGTTAA 57.451 25.926 6.53 1.47 46.78 2.01
346 347 9.549078 AAAGTTTGACTTTCCAACAAAGTTAAA 57.451 25.926 11.17 11.17 44.47 1.52
347 348 9.549078 AAGTTTGACTTTCCAACAAAGTTAAAA 57.451 25.926 14.94 10.05 42.93 1.52
348 349 9.203421 AGTTTGACTTTCCAACAAAGTTAAAAG 57.797 29.630 14.94 10.18 42.93 2.27
349 350 8.984764 GTTTGACTTTCCAACAAAGTTAAAAGT 58.015 29.630 14.94 16.09 42.93 2.66
351 352 9.628746 TTGACTTTCCAACAAAGTTAAAAGTAC 57.371 29.630 16.11 12.38 40.27 2.73
352 353 8.794553 TGACTTTCCAACAAAGTTAAAAGTACA 58.205 29.630 16.11 13.80 40.27 2.90
353 354 8.975410 ACTTTCCAACAAAGTTAAAAGTACAC 57.025 30.769 15.23 0.00 37.18 2.90
354 355 8.799367 ACTTTCCAACAAAGTTAAAAGTACACT 58.201 29.630 15.23 0.00 37.18 3.55
355 356 9.634163 CTTTCCAACAAAGTTAAAAGTACACTT 57.366 29.630 0.00 0.00 37.91 3.16
395 396 8.488668 GGGAGTATATAGGAGTAGGAGACTAAG 58.511 44.444 0.00 0.00 46.54 2.18
416 417 3.405170 CAAACGTTGCACATATCCTCC 57.595 47.619 0.00 0.00 0.00 4.30
445 446 3.272574 AGGAATTGCTGTCATCGATGT 57.727 42.857 24.09 2.84 0.00 3.06
478 480 0.616679 TTAGTAGGGGAGCTGGCGTT 60.617 55.000 0.00 0.00 0.00 4.84
496 498 2.166130 TTGGCGGCTCGTTCTGATGA 62.166 55.000 11.43 0.00 0.00 2.92
499 501 1.142778 GCGGCTCGTTCTGATGAGAC 61.143 60.000 10.55 7.26 42.55 3.36
732 738 0.909610 TCCCAGTCCCCACTCATCAC 60.910 60.000 0.00 0.00 0.00 3.06
773 779 2.150051 GTATGGGAGGGCAGGGAGG 61.150 68.421 0.00 0.00 0.00 4.30
844 850 4.778415 CCACGTCACCGCTCCGAG 62.778 72.222 0.00 0.00 37.70 4.63
905 911 0.250513 GAGCCCCTCCTACACAACAG 59.749 60.000 0.00 0.00 0.00 3.16
909 915 1.079127 CCTCCTACACAACAGCCGG 60.079 63.158 0.00 0.00 0.00 6.13
994 1000 1.333931 TCTAGCGATAAGGCACTGACG 59.666 52.381 0.00 0.00 40.86 4.35
1160 1170 5.784578 TGCTATAGTTTCTATCAGCCGAA 57.215 39.130 0.84 0.00 0.00 4.30
1391 1403 0.596577 CGTCACCCGTTCTCTTCTCA 59.403 55.000 0.00 0.00 0.00 3.27
1518 1534 3.719144 GTGCCGTTGGTACGTGCC 61.719 66.667 16.68 16.68 46.20 5.01
1590 1608 3.055602 TCTGAACTGTGGTGGATGATGAG 60.056 47.826 0.00 0.00 0.00 2.90
1719 1737 3.634397 ACAATGCTAGCACATGGTACT 57.366 42.857 27.04 10.78 32.23 2.73
1729 1747 2.878406 GCACATGGTACTTCTTGTGTGT 59.122 45.455 14.97 0.00 41.74 3.72
1744 1762 9.299963 CTTCTTGTGTGTGTTTGAATTGAATTA 57.700 29.630 0.00 0.00 0.00 1.40
2153 2171 6.814644 TGAAACTCGTATTGTATTGTACAGGG 59.185 38.462 0.00 0.00 40.24 4.45
2242 2262 8.503458 AGAAAGGTGTAAATCATGATCTCTTG 57.497 34.615 9.06 0.00 0.00 3.02
2265 2285 9.823647 CTTGATCTACTTATGAGGTTTACATGT 57.176 33.333 2.69 2.69 0.00 3.21
2408 2429 8.682710 GTTCCAATATACATTTAGGAGCAACAA 58.317 33.333 0.00 0.00 0.00 2.83
2449 2470 5.750067 GCAATTGCCTGATATTTGTAGTTGG 59.250 40.000 20.06 0.00 34.31 3.77
2453 2474 6.252599 TGCCTGATATTTGTAGTTGGAGAT 57.747 37.500 0.00 0.00 0.00 2.75
2455 2476 7.801104 TGCCTGATATTTGTAGTTGGAGATAA 58.199 34.615 0.00 0.00 0.00 1.75
2457 2478 8.560374 GCCTGATATTTGTAGTTGGAGATAAAC 58.440 37.037 0.00 0.00 0.00 2.01
2458 2479 9.057089 CCTGATATTTGTAGTTGGAGATAAACC 57.943 37.037 0.00 0.00 0.00 3.27
2459 2480 8.974060 TGATATTTGTAGTTGGAGATAAACCC 57.026 34.615 0.00 0.00 0.00 4.11
2460 2481 8.553153 TGATATTTGTAGTTGGAGATAAACCCA 58.447 33.333 0.00 0.00 0.00 4.51
2461 2482 9.403583 GATATTTGTAGTTGGAGATAAACCCAA 57.596 33.333 0.00 0.00 39.88 4.12
2462 2483 7.703058 ATTTGTAGTTGGAGATAAACCCAAG 57.297 36.000 0.00 0.00 42.50 3.61
2469 3650 7.339482 AGTTGGAGATAAACCCAAGTAATCTC 58.661 38.462 0.00 0.00 42.52 2.75
2470 3651 7.182930 AGTTGGAGATAAACCCAAGTAATCTCT 59.817 37.037 9.71 0.00 42.52 3.10
2512 3698 6.739112 TGTACTCACTTTGGATATCGATGAG 58.261 40.000 8.54 12.63 38.42 2.90
2518 3704 5.812127 CACTTTGGATATCGATGAGTGTCAA 59.188 40.000 8.54 1.74 0.00 3.18
2547 3733 3.436704 TCATCATCTTTCGGTGTTGCTTC 59.563 43.478 0.00 0.00 0.00 3.86
2551 3737 1.879380 TCTTTCGGTGTTGCTTCATGG 59.121 47.619 0.00 0.00 0.00 3.66
2552 3738 0.958091 TTTCGGTGTTGCTTCATGGG 59.042 50.000 0.00 0.00 0.00 4.00
2572 3758 2.420687 GGATGAGGATGACGCTTCCTTT 60.421 50.000 13.02 6.74 43.75 3.11
2586 3772 3.813166 GCTTCCTTTGTGCTAGTGTTGTA 59.187 43.478 0.00 0.00 0.00 2.41
2595 3781 3.678548 GTGCTAGTGTTGTAAGGTGCTAC 59.321 47.826 0.00 0.00 0.00 3.58
2627 3813 3.122948 CGACTCCTCGGTGTTTTACAATG 59.877 47.826 0.00 0.00 36.16 2.82
2628 3814 4.062991 GACTCCTCGGTGTTTTACAATGT 58.937 43.478 0.00 0.00 0.00 2.71
2639 3825 5.039984 TGTTTTACAATGTGTGATGTGTGC 58.960 37.500 0.00 0.00 0.00 4.57
2640 3826 3.913548 TTACAATGTGTGATGTGTGCC 57.086 42.857 0.00 0.00 0.00 5.01
2657 3843 3.199071 TGTGCCGTCATCCCTTTTATAGT 59.801 43.478 0.00 0.00 0.00 2.12
2659 3845 4.638865 GTGCCGTCATCCCTTTTATAGTTT 59.361 41.667 0.00 0.00 0.00 2.66
2660 3846 5.124936 GTGCCGTCATCCCTTTTATAGTTTT 59.875 40.000 0.00 0.00 0.00 2.43
2661 3847 5.712917 TGCCGTCATCCCTTTTATAGTTTTT 59.287 36.000 0.00 0.00 0.00 1.94
2684 3870 8.873215 TTTTTATACACATTTGCGAGGAAAAA 57.127 26.923 0.00 0.00 0.00 1.94
2685 3871 7.861176 TTTATACACATTTGCGAGGAAAAAC 57.139 32.000 0.00 0.00 0.00 2.43
2686 3872 3.092334 ACACATTTGCGAGGAAAAACC 57.908 42.857 0.00 0.00 39.35 3.27
2687 3873 2.428890 ACACATTTGCGAGGAAAAACCA 59.571 40.909 0.00 0.00 42.04 3.67
2688 3874 3.118956 ACACATTTGCGAGGAAAAACCAA 60.119 39.130 0.00 0.00 42.04 3.67
2689 3875 4.057432 CACATTTGCGAGGAAAAACCAAT 58.943 39.130 0.00 0.00 42.04 3.16
2690 3876 4.511082 CACATTTGCGAGGAAAAACCAATT 59.489 37.500 0.00 0.00 42.04 2.32
2691 3877 5.007528 CACATTTGCGAGGAAAAACCAATTT 59.992 36.000 0.00 0.00 42.04 1.82
2692 3878 5.588246 ACATTTGCGAGGAAAAACCAATTTT 59.412 32.000 0.00 0.00 43.85 1.82
2731 3917 1.651987 ATAGTTCCCATCAACACGCG 58.348 50.000 3.53 3.53 0.00 6.01
2739 3925 2.412325 CCCATCAACACGCGAAAACTAC 60.412 50.000 15.93 0.00 0.00 2.73
2747 3933 5.074430 ACACGCGAAAACTACTTAAACAG 57.926 39.130 15.93 0.00 0.00 3.16
2771 3957 4.235939 TGTTTCCCGTTCATGACAATTG 57.764 40.909 3.24 3.24 0.00 2.32
2772 3958 3.005261 TGTTTCCCGTTCATGACAATTGG 59.995 43.478 10.83 0.00 0.00 3.16
2775 3961 1.544724 CCGTTCATGACAATTGGGGT 58.455 50.000 10.83 0.00 0.00 4.95
2788 3974 4.592351 ACAATTGGGGTTTTCATCATGACA 59.408 37.500 10.83 0.00 0.00 3.58
2801 3987 5.499313 TCATCATGACATAAGCAAACCTCA 58.501 37.500 0.00 0.00 0.00 3.86
2808 3994 5.046910 ACATAAGCAAACCTCATGTTTCG 57.953 39.130 0.00 0.00 45.35 3.46
2809 3995 4.082787 ACATAAGCAAACCTCATGTTTCGG 60.083 41.667 0.00 0.00 45.35 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.861055 GTCTAAGCTGAGACATAACTATGCTC 59.139 42.308 24.29 11.24 44.49 4.26
1 2 6.239176 GGTCTAAGCTGAGACATAACTATGCT 60.239 42.308 28.90 0.00 46.51 3.79
2 3 5.923684 GGTCTAAGCTGAGACATAACTATGC 59.076 44.000 28.90 7.88 46.51 3.14
3 4 7.043961 TGGTCTAAGCTGAGACATAACTATG 57.956 40.000 28.90 0.00 46.51 2.23
4 5 6.836527 ACTGGTCTAAGCTGAGACATAACTAT 59.163 38.462 28.90 7.39 46.51 2.12
5 6 6.188407 ACTGGTCTAAGCTGAGACATAACTA 58.812 40.000 28.90 9.59 46.51 2.24
6 7 5.020132 ACTGGTCTAAGCTGAGACATAACT 58.980 41.667 28.90 6.88 46.51 2.24
7 8 5.331876 ACTGGTCTAAGCTGAGACATAAC 57.668 43.478 28.90 14.37 46.51 1.89
11 12 3.501349 AGAACTGGTCTAAGCTGAGACA 58.499 45.455 28.90 15.86 46.51 3.41
20 21 4.773674 TCGGATTGGTTAGAACTGGTCTAA 59.226 41.667 11.03 11.03 44.91 2.10
32 33 5.138276 AGTATAGACTGCTCGGATTGGTTA 58.862 41.667 0.00 0.00 33.41 2.85
34 35 3.567397 AGTATAGACTGCTCGGATTGGT 58.433 45.455 0.00 0.00 33.41 3.67
41 42 2.160615 AGCGCATAGTATAGACTGCTCG 59.839 50.000 11.47 1.89 36.28 5.03
43 44 7.934665 AGTATATAGCGCATAGTATAGACTGCT 59.065 37.037 16.37 2.82 34.10 4.24
59 60 2.506865 CCAACGAGCGAGTATATAGCG 58.493 52.381 0.00 1.59 34.23 4.26
102 103 5.163530 GGACTAAGGGAGTAGCAGTCTAAAC 60.164 48.000 0.00 0.00 39.06 2.01
110 111 3.468071 TCAAGGACTAAGGGAGTAGCA 57.532 47.619 0.00 0.00 39.06 3.49
113 114 5.480772 CACTCTTTCAAGGACTAAGGGAGTA 59.519 44.000 0.00 0.00 39.06 2.59
114 115 4.284746 CACTCTTTCAAGGACTAAGGGAGT 59.715 45.833 0.00 0.00 42.90 3.85
115 116 4.284746 ACACTCTTTCAAGGACTAAGGGAG 59.715 45.833 0.00 0.00 0.00 4.30
116 117 4.232091 ACACTCTTTCAAGGACTAAGGGA 58.768 43.478 0.00 0.00 0.00 4.20
117 118 4.625607 ACACTCTTTCAAGGACTAAGGG 57.374 45.455 0.00 0.00 0.00 3.95
118 119 6.347859 AGTACACTCTTTCAAGGACTAAGG 57.652 41.667 0.00 0.00 0.00 2.69
119 120 6.869388 GGAAGTACACTCTTTCAAGGACTAAG 59.131 42.308 0.00 0.00 0.00 2.18
120 121 6.325545 TGGAAGTACACTCTTTCAAGGACTAA 59.674 38.462 0.00 0.00 30.93 2.24
121 122 5.836898 TGGAAGTACACTCTTTCAAGGACTA 59.163 40.000 0.00 0.00 30.93 2.59
122 123 4.654262 TGGAAGTACACTCTTTCAAGGACT 59.346 41.667 0.00 0.00 30.93 3.85
123 124 4.957296 TGGAAGTACACTCTTTCAAGGAC 58.043 43.478 0.00 0.00 30.93 3.85
124 125 5.130477 AGTTGGAAGTACACTCTTTCAAGGA 59.870 40.000 0.00 0.00 41.68 3.36
125 126 5.368989 AGTTGGAAGTACACTCTTTCAAGG 58.631 41.667 0.00 0.00 41.68 3.61
126 127 6.927294 AAGTTGGAAGTACACTCTTTCAAG 57.073 37.500 0.00 0.00 41.68 3.02
127 128 6.657541 ACAAAGTTGGAAGTACACTCTTTCAA 59.342 34.615 0.00 0.00 39.65 2.69
128 129 6.177610 ACAAAGTTGGAAGTACACTCTTTCA 58.822 36.000 0.00 0.00 31.87 2.69
129 130 6.679327 ACAAAGTTGGAAGTACACTCTTTC 57.321 37.500 0.00 0.00 0.00 2.62
130 131 6.127730 CCAACAAAGTTGGAAGTACACTCTTT 60.128 38.462 21.24 0.00 42.06 2.52
131 132 5.357032 CCAACAAAGTTGGAAGTACACTCTT 59.643 40.000 21.24 0.00 42.06 2.85
132 133 4.881850 CCAACAAAGTTGGAAGTACACTCT 59.118 41.667 21.24 0.00 42.06 3.24
133 134 4.879545 TCCAACAAAGTTGGAAGTACACTC 59.120 41.667 24.83 0.00 44.90 3.51
134 135 4.850680 TCCAACAAAGTTGGAAGTACACT 58.149 39.130 24.83 0.00 44.90 3.55
135 136 4.036380 CCTCCAACAAAGTTGGAAGTACAC 59.964 45.833 26.25 0.00 46.85 2.90
136 137 4.204012 CCTCCAACAAAGTTGGAAGTACA 58.796 43.478 26.25 8.75 46.85 2.90
137 138 4.204799 ACCTCCAACAAAGTTGGAAGTAC 58.795 43.478 24.29 0.00 46.85 2.73
138 139 4.080243 TGACCTCCAACAAAGTTGGAAGTA 60.080 41.667 25.11 14.82 46.85 2.24
139 140 3.288092 GACCTCCAACAAAGTTGGAAGT 58.712 45.455 25.26 25.26 46.85 3.01
140 141 3.287222 TGACCTCCAACAAAGTTGGAAG 58.713 45.455 26.25 23.28 46.85 3.46
141 142 3.374042 TGACCTCCAACAAAGTTGGAA 57.626 42.857 26.25 13.19 46.85 3.53
142 143 3.374042 TTGACCTCCAACAAAGTTGGA 57.626 42.857 25.17 25.17 45.61 3.53
152 153 4.168101 ACCTTGAGATAGTTGACCTCCAA 58.832 43.478 0.00 0.00 0.00 3.53
153 154 3.791320 ACCTTGAGATAGTTGACCTCCA 58.209 45.455 0.00 0.00 0.00 3.86
154 155 4.828072 AACCTTGAGATAGTTGACCTCC 57.172 45.455 0.00 0.00 0.00 4.30
155 156 5.639931 GTCAAACCTTGAGATAGTTGACCTC 59.360 44.000 0.00 0.00 41.01 3.85
156 157 5.513267 GGTCAAACCTTGAGATAGTTGACCT 60.513 44.000 20.71 0.00 41.01 3.85
157 158 4.695928 GGTCAAACCTTGAGATAGTTGACC 59.304 45.833 15.37 15.37 41.01 4.02
158 159 4.389077 CGGTCAAACCTTGAGATAGTTGAC 59.611 45.833 5.92 5.92 41.01 3.18
159 160 4.282449 TCGGTCAAACCTTGAGATAGTTGA 59.718 41.667 0.00 0.00 41.01 3.18
160 161 4.566004 TCGGTCAAACCTTGAGATAGTTG 58.434 43.478 0.00 0.00 41.01 3.16
161 162 4.283722 ACTCGGTCAAACCTTGAGATAGTT 59.716 41.667 7.70 0.00 41.01 2.24
162 163 3.833070 ACTCGGTCAAACCTTGAGATAGT 59.167 43.478 7.70 0.00 41.01 2.12
163 164 4.457834 ACTCGGTCAAACCTTGAGATAG 57.542 45.455 7.70 0.00 41.01 2.08
164 165 4.884668 AACTCGGTCAAACCTTGAGATA 57.115 40.909 7.70 0.00 41.01 1.98
165 166 3.771577 AACTCGGTCAAACCTTGAGAT 57.228 42.857 7.70 0.00 41.01 2.75
166 167 3.553828 AAACTCGGTCAAACCTTGAGA 57.446 42.857 7.70 0.00 41.01 3.27
167 168 4.378459 GCATAAACTCGGTCAAACCTTGAG 60.378 45.833 0.00 0.00 41.01 3.02
168 169 3.500680 GCATAAACTCGGTCAAACCTTGA 59.499 43.478 0.00 0.00 35.66 3.02
169 170 3.252215 TGCATAAACTCGGTCAAACCTTG 59.748 43.478 0.00 0.00 35.66 3.61
170 171 3.482436 TGCATAAACTCGGTCAAACCTT 58.518 40.909 0.00 0.00 35.66 3.50
171 172 3.134574 TGCATAAACTCGGTCAAACCT 57.865 42.857 0.00 0.00 35.66 3.50
172 173 3.907894 TTGCATAAACTCGGTCAAACC 57.092 42.857 0.00 0.00 34.05 3.27
173 174 6.763303 ATTTTTGCATAAACTCGGTCAAAC 57.237 33.333 4.36 0.00 0.00 2.93
174 175 8.085296 ACATATTTTTGCATAAACTCGGTCAAA 58.915 29.630 4.36 0.00 0.00 2.69
175 176 7.598278 ACATATTTTTGCATAAACTCGGTCAA 58.402 30.769 4.36 0.00 0.00 3.18
176 177 7.094592 TGACATATTTTTGCATAAACTCGGTCA 60.095 33.333 16.57 16.57 0.00 4.02
177 178 7.247728 TGACATATTTTTGCATAAACTCGGTC 58.752 34.615 4.36 10.27 0.00 4.79
178 179 7.151999 TGACATATTTTTGCATAAACTCGGT 57.848 32.000 4.36 1.90 0.00 4.69
179 180 8.533965 CATTGACATATTTTTGCATAAACTCGG 58.466 33.333 4.36 0.00 0.00 4.63
180 181 8.051909 GCATTGACATATTTTTGCATAAACTCG 58.948 33.333 4.36 0.00 0.00 4.18
181 182 9.090692 AGCATTGACATATTTTTGCATAAACTC 57.909 29.630 4.36 0.00 32.66 3.01
182 183 9.439500 AAGCATTGACATATTTTTGCATAAACT 57.561 25.926 4.36 0.00 32.66 2.66
249 250 9.851686 ACCATCAAATTAGTAGCATTAGATTCA 57.148 29.630 0.00 0.00 0.00 2.57
321 322 9.549078 TTTTAACTTTGTTGGAAAGTCAAACTT 57.451 25.926 0.00 0.00 40.80 2.66
322 323 9.203421 CTTTTAACTTTGTTGGAAAGTCAAACT 57.797 29.630 0.00 0.00 39.36 2.66
323 324 8.984764 ACTTTTAACTTTGTTGGAAAGTCAAAC 58.015 29.630 14.79 0.00 39.36 2.93
325 326 9.628746 GTACTTTTAACTTTGTTGGAAAGTCAA 57.371 29.630 19.65 0.39 39.36 3.18
326 327 8.794553 TGTACTTTTAACTTTGTTGGAAAGTCA 58.205 29.630 19.65 16.27 39.36 3.41
327 328 9.069078 GTGTACTTTTAACTTTGTTGGAAAGTC 57.931 33.333 19.65 14.95 39.36 3.01
328 329 8.799367 AGTGTACTTTTAACTTTGTTGGAAAGT 58.201 29.630 19.81 19.81 41.82 2.66
329 330 9.634163 AAGTGTACTTTTAACTTTGTTGGAAAG 57.366 29.630 13.97 13.97 29.98 2.62
330 331 9.984190 AAAGTGTACTTTTAACTTTGTTGGAAA 57.016 25.926 7.30 0.00 43.07 3.13
355 356 7.234166 CCTATATACTCCCTCCGTCCTTAAAAA 59.766 40.741 0.00 0.00 0.00 1.94
356 357 6.723052 CCTATATACTCCCTCCGTCCTTAAAA 59.277 42.308 0.00 0.00 0.00 1.52
357 358 6.045931 TCCTATATACTCCCTCCGTCCTTAAA 59.954 42.308 0.00 0.00 0.00 1.52
358 359 5.553162 TCCTATATACTCCCTCCGTCCTTAA 59.447 44.000 0.00 0.00 0.00 1.85
359 360 5.103687 TCCTATATACTCCCTCCGTCCTTA 58.896 45.833 0.00 0.00 0.00 2.69
360 361 3.921486 TCCTATATACTCCCTCCGTCCTT 59.079 47.826 0.00 0.00 0.00 3.36
361 362 3.524380 CTCCTATATACTCCCTCCGTCCT 59.476 52.174 0.00 0.00 0.00 3.85
362 363 3.266513 ACTCCTATATACTCCCTCCGTCC 59.733 52.174 0.00 0.00 0.00 4.79
363 364 4.573021 ACTCCTATATACTCCCTCCGTC 57.427 50.000 0.00 0.00 0.00 4.79
364 365 4.474287 CCTACTCCTATATACTCCCTCCGT 59.526 50.000 0.00 0.00 0.00 4.69
365 366 4.720773 TCCTACTCCTATATACTCCCTCCG 59.279 50.000 0.00 0.00 0.00 4.63
366 367 5.971881 TCTCCTACTCCTATATACTCCCTCC 59.028 48.000 0.00 0.00 0.00 4.30
367 368 6.675303 AGTCTCCTACTCCTATATACTCCCTC 59.325 46.154 0.00 0.00 30.33 4.30
368 369 6.586870 AGTCTCCTACTCCTATATACTCCCT 58.413 44.000 0.00 0.00 30.33 4.20
369 370 6.896452 AGTCTCCTACTCCTATATACTCCC 57.104 45.833 0.00 0.00 30.33 4.30
370 371 7.989170 GCTTAGTCTCCTACTCCTATATACTCC 59.011 44.444 0.00 0.00 39.80 3.85
371 372 8.542080 TGCTTAGTCTCCTACTCCTATATACTC 58.458 40.741 0.00 0.00 39.80 2.59
372 373 8.452138 TGCTTAGTCTCCTACTCCTATATACT 57.548 38.462 0.00 0.00 39.80 2.12
373 374 9.517868 TTTGCTTAGTCTCCTACTCCTATATAC 57.482 37.037 0.00 0.00 39.80 1.47
374 375 9.517868 GTTTGCTTAGTCTCCTACTCCTATATA 57.482 37.037 0.00 0.00 39.80 0.86
375 376 7.175293 CGTTTGCTTAGTCTCCTACTCCTATAT 59.825 40.741 0.00 0.00 39.80 0.86
414 415 9.453572 GATGACAGCAATTCCTAATATATTGGA 57.546 33.333 10.20 10.50 31.54 3.53
416 417 9.154847 TCGATGACAGCAATTCCTAATATATTG 57.845 33.333 8.28 0.00 33.49 1.90
445 446 1.822990 CTACTAAAGCCGGTCTGACCA 59.177 52.381 25.42 4.96 38.47 4.02
478 480 2.125552 CATCAGAACGAGCCGCCA 60.126 61.111 0.00 0.00 0.00 5.69
496 498 5.432680 AGATCATCAAATGACCACTGTCT 57.567 39.130 0.00 0.00 43.01 3.41
549 551 5.062934 TCAGAAGTACAAAACAGAACACACG 59.937 40.000 0.00 0.00 0.00 4.49
732 738 0.667184 GCATTCCTTTGGTTGGTGCG 60.667 55.000 0.00 0.00 0.00 5.34
842 848 2.245438 CTTTGGTCCCTCGGAGGCTC 62.245 65.000 18.91 5.78 32.73 4.70
843 849 2.203938 TTTGGTCCCTCGGAGGCT 60.204 61.111 18.91 0.00 32.73 4.58
844 850 2.269241 CTTTGGTCCCTCGGAGGC 59.731 66.667 18.91 5.83 32.73 4.70
845 851 1.597461 GTCTTTGGTCCCTCGGAGG 59.403 63.158 17.41 17.41 34.30 4.30
846 852 1.215647 CGTCTTTGGTCCCTCGGAG 59.784 63.158 0.00 0.00 29.39 4.63
847 853 2.939261 GCGTCTTTGGTCCCTCGGA 61.939 63.158 0.00 0.00 0.00 4.55
905 911 1.007387 CAACAAAAGCTGGACCGGC 60.007 57.895 18.27 18.27 35.73 6.13
909 915 1.404035 ACCGAACAACAAAAGCTGGAC 59.596 47.619 0.00 0.00 0.00 4.02
994 1000 2.484062 CCGTGGCAGCCATTGATCC 61.484 63.158 19.75 1.85 35.28 3.36
1264 1275 1.574925 GATGATCTCGTCGCCGCTA 59.425 57.895 0.00 0.00 0.00 4.26
1291 1302 2.603953 CTCGTACGAACCTTCCCTTTC 58.396 52.381 20.00 0.00 0.00 2.62
1294 1305 0.611340 AGCTCGTACGAACCTTCCCT 60.611 55.000 20.00 4.33 0.00 4.20
1391 1403 1.376466 GCCTCCCACTGTCACACAT 59.624 57.895 0.00 0.00 0.00 3.21
1518 1534 1.135402 GGCAGTTAATTTGGTCAGCGG 60.135 52.381 0.00 0.00 0.00 5.52
1590 1608 4.697352 AGCAGACCACAGAACATCATAAAC 59.303 41.667 0.00 0.00 0.00 2.01
1719 1737 9.299963 CTAATTCAATTCAAACACACACAAGAA 57.700 29.630 0.00 0.00 0.00 2.52
1729 1747 8.074972 GCAAAATTGGCTAATTCAATTCAAACA 58.925 29.630 8.63 0.00 42.06 2.83
1774 1792 0.598065 AGAAACACCAAAGCATCCGC 59.402 50.000 0.00 0.00 38.99 5.54
1775 1793 3.502211 AGTAAGAAACACCAAAGCATCCG 59.498 43.478 0.00 0.00 0.00 4.18
1895 1913 4.365514 TGGACAGACAAAAGAGCCATAA 57.634 40.909 0.00 0.00 0.00 1.90
1896 1914 4.263462 ACATGGACAGACAAAAGAGCCATA 60.263 41.667 0.00 0.00 33.63 2.74
1990 2008 5.990996 ACACCAACCAAAGCATATTTCTTTG 59.009 36.000 15.40 15.40 45.96 2.77
1999 2017 1.363443 CGCACACCAACCAAAGCAT 59.637 52.632 0.00 0.00 0.00 3.79
2000 2018 2.780094 CCGCACACCAACCAAAGCA 61.780 57.895 0.00 0.00 0.00 3.91
2149 2167 3.070018 CAGCTTTGAGTCACTTACCCTG 58.930 50.000 0.00 0.00 0.00 4.45
2400 2421 7.384932 GCAATTATGGGGTATAAATTGTTGCTC 59.615 37.037 8.05 0.00 38.86 4.26
2408 2429 7.017452 AGGCAATTGCAATTATGGGGTATAAAT 59.983 33.333 30.32 0.00 44.36 1.40
2492 3678 5.595885 ACACTCATCGATATCCAAAGTGAG 58.404 41.667 20.38 16.33 36.89 3.51
2512 3698 3.679389 AGATGATGAAGTGGGTTGACAC 58.321 45.455 0.00 0.00 41.63 3.67
2518 3704 2.305927 ACCGAAAGATGATGAAGTGGGT 59.694 45.455 0.00 0.00 0.00 4.51
2547 3733 0.395686 AGCGTCATCCTCATCCCATG 59.604 55.000 0.00 0.00 0.00 3.66
2551 3737 0.755686 AGGAAGCGTCATCCTCATCC 59.244 55.000 1.14 0.00 44.01 3.51
2552 3738 2.611225 AAGGAAGCGTCATCCTCATC 57.389 50.000 1.14 0.00 46.65 2.92
2572 3758 2.104111 AGCACCTTACAACACTAGCACA 59.896 45.455 0.00 0.00 0.00 4.57
2595 3781 0.378962 CGAGGAGTCGGTGAGCTTAG 59.621 60.000 0.00 0.00 42.87 2.18
2623 3809 0.592637 ACGGCACACATCACACATTG 59.407 50.000 0.00 0.00 0.00 2.82
2627 3813 0.443869 GATGACGGCACACATCACAC 59.556 55.000 0.00 0.00 39.95 3.82
2628 3814 0.673333 GGATGACGGCACACATCACA 60.673 55.000 0.00 0.00 41.20 3.58
2659 3845 8.756864 GTTTTTCCTCGCAAATGTGTATAAAAA 58.243 29.630 0.00 0.00 0.00 1.94
2660 3846 7.382759 GGTTTTTCCTCGCAAATGTGTATAAAA 59.617 33.333 0.00 0.00 0.00 1.52
2661 3847 6.864165 GGTTTTTCCTCGCAAATGTGTATAAA 59.136 34.615 0.00 0.00 0.00 1.40
2662 3848 6.016192 TGGTTTTTCCTCGCAAATGTGTATAA 60.016 34.615 0.00 0.00 37.07 0.98
2663 3849 5.473846 TGGTTTTTCCTCGCAAATGTGTATA 59.526 36.000 0.00 0.00 37.07 1.47
2664 3850 4.279671 TGGTTTTTCCTCGCAAATGTGTAT 59.720 37.500 0.00 0.00 37.07 2.29
2665 3851 3.632604 TGGTTTTTCCTCGCAAATGTGTA 59.367 39.130 0.00 0.00 37.07 2.90
2666 3852 2.428890 TGGTTTTTCCTCGCAAATGTGT 59.571 40.909 0.00 0.00 37.07 3.72
2667 3853 3.090952 TGGTTTTTCCTCGCAAATGTG 57.909 42.857 0.00 0.00 37.07 3.21
2668 3854 3.810310 TTGGTTTTTCCTCGCAAATGT 57.190 38.095 0.00 0.00 37.07 2.71
2669 3855 5.671742 AAATTGGTTTTTCCTCGCAAATG 57.328 34.783 0.00 0.00 37.07 2.32
2670 3856 6.691754 AAAAATTGGTTTTTCCTCGCAAAT 57.308 29.167 0.00 0.00 42.32 2.32
2695 3881 8.938883 TGGGAACTATAGAAATAATTGAGAGCT 58.061 33.333 6.78 0.00 0.00 4.09
2696 3882 9.732130 ATGGGAACTATAGAAATAATTGAGAGC 57.268 33.333 6.78 0.00 0.00 4.09
2703 3889 9.273016 CGTGTTGATGGGAACTATAGAAATAAT 57.727 33.333 6.78 0.00 0.00 1.28
2704 3890 7.225931 GCGTGTTGATGGGAACTATAGAAATAA 59.774 37.037 6.78 0.00 0.00 1.40
2705 3891 6.704493 GCGTGTTGATGGGAACTATAGAAATA 59.296 38.462 6.78 0.00 0.00 1.40
2706 3892 5.527582 GCGTGTTGATGGGAACTATAGAAAT 59.472 40.000 6.78 0.00 0.00 2.17
2747 3933 4.497473 TTGTCATGAACGGGAAACATTC 57.503 40.909 0.00 0.00 0.00 2.67
2771 3957 4.402155 TGCTTATGTCATGATGAAAACCCC 59.598 41.667 0.00 0.00 0.00 4.95
2772 3958 5.581126 TGCTTATGTCATGATGAAAACCC 57.419 39.130 0.00 0.00 0.00 4.11
2775 3961 7.039853 TGAGGTTTGCTTATGTCATGATGAAAA 60.040 33.333 0.00 0.00 0.00 2.29
2801 3987 5.126384 TGACTTTTGGTCTTTTCCGAAACAT 59.874 36.000 0.00 0.00 44.74 2.71
2808 3994 8.336801 ACTGTATATGACTTTTGGTCTTTTCC 57.663 34.615 0.00 0.00 44.74 3.13
2809 3995 8.169268 CGACTGTATATGACTTTTGGTCTTTTC 58.831 37.037 0.00 0.00 44.74 2.29
2833 4019 1.611261 CCTTGTAGGGGGTGGTCGA 60.611 63.158 0.00 0.00 0.00 4.20
2834 4020 2.987125 CCTTGTAGGGGGTGGTCG 59.013 66.667 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.