Multiple sequence alignment - TraesCS6B01G210700

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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 TraesCS6B01G210700 chr6B 100.000 4093 0 0 1 4093 278538584 278542676 0.000000e+00 7559
1 TraesCS6B01G210700 chr6B 91.237 194 15 2 3831 4023 704702375 704702567 3.140000e-66 263
2 TraesCS6B01G210700 chr6D 96.479 3777 87 21 279 4023 155541026 155544788 0.000000e+00 6196
3 TraesCS6B01G210700 chr6D 91.753 194 15 1 3831 4023 3832125 3831932 6.740000e-68 268
4 TraesCS6B01G210700 chr6D 91.237 194 16 1 3831 4023 430311400 430311593 3.140000e-66 263
5 TraesCS6B01G210700 chr6A 97.941 3109 56 6 918 4023 209266652 209269755 0.000000e+00 5380
6 TraesCS6B01G210700 chr6A 92.832 279 5 5 513 784 209265996 209266266 1.380000e-104 390
7 TraesCS6B01G210700 chr6A 86.008 243 21 6 288 521 209265454 209265692 8.790000e-62 248
8 TraesCS6B01G210700 chr7B 76.949 1770 363 34 1335 3083 511062677 511064422 0.000000e+00 966
9 TraesCS6B01G210700 chr7D 76.763 1773 367 34 1335 3083 484361992 484363743 0.000000e+00 950
10 TraesCS6B01G210700 chr7A 76.431 1799 369 39 1311 3083 552679371 552681140 0.000000e+00 922
11 TraesCS6B01G210700 chr3D 92.268 194 14 1 3831 4023 144777734 144777541 1.450000e-69 274
12 TraesCS6B01G210700 chr5B 91.753 194 15 1 3831 4023 426623177 426622984 6.740000e-68 268
13 TraesCS6B01G210700 chr4A 91.237 194 16 1 3831 4023 630904005 630903812 3.140000e-66 263
14 TraesCS6B01G210700 chr1A 91.237 194 16 1 3831 4023 531692674 531692867 3.140000e-66 263


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 TraesCS6B01G210700 chr6B 278538584 278542676 4092 False 7559 7559 100.000000 1 4093 1 chr6B.!!$F1 4092
1 TraesCS6B01G210700 chr6D 155541026 155544788 3762 False 6196 6196 96.479000 279 4023 1 chr6D.!!$F1 3744
2 TraesCS6B01G210700 chr6A 209265454 209269755 4301 False 2006 5380 92.260333 288 4023 3 chr6A.!!$F1 3735
3 TraesCS6B01G210700 chr7B 511062677 511064422 1745 False 966 966 76.949000 1335 3083 1 chr7B.!!$F1 1748
4 TraesCS6B01G210700 chr7D 484361992 484363743 1751 False 950 950 76.763000 1335 3083 1 chr7D.!!$F1 1748
5 TraesCS6B01G210700 chr7A 552679371 552681140 1769 False 922 922 76.431000 1311 3083 1 chr7A.!!$F1 1772

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
265 266 0.095417 GCGAGCTCACCAAAATCGAC 59.905 55.0 15.4 0.0 35.47 4.20 F
1148 1735 0.249120 CTTGCGTGTCCCTGATGGTA 59.751 55.0 0.0 0.0 34.77 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1196 1783 0.253327 AGAACATCCCGGAAAGCTCC 59.747 55.000 0.73 0.00 38.52 4.70 R
3133 3738 1.227764 CATATGCAGGCGGCTGACT 60.228 57.895 39.78 26.86 45.15 3.41 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
20 21 2.283298 CATTTGAGGCGTATCAGCTGT 58.717 47.619 14.67 3.75 37.29 4.40
21 22 1.725641 TTTGAGGCGTATCAGCTGTG 58.274 50.000 14.67 3.70 37.29 3.66
22 23 0.608130 TTGAGGCGTATCAGCTGTGT 59.392 50.000 14.67 6.61 37.29 3.72
23 24 0.173481 TGAGGCGTATCAGCTGTGTC 59.827 55.000 14.67 4.10 37.29 3.67
24 25 0.173481 GAGGCGTATCAGCTGTGTCA 59.827 55.000 14.67 0.00 37.29 3.58
25 26 0.174389 AGGCGTATCAGCTGTGTCAG 59.826 55.000 14.67 4.23 37.29 3.51
34 35 4.335647 CTGTGTCAGCGGCCCCTT 62.336 66.667 0.00 0.00 0.00 3.95
35 36 4.641645 TGTGTCAGCGGCCCCTTG 62.642 66.667 0.00 0.00 0.00 3.61
46 47 3.787001 CCCCTTGGGCTCGAGGAC 61.787 72.222 22.80 0.00 45.61 3.85
47 48 2.685380 CCCTTGGGCTCGAGGACT 60.685 66.667 22.80 0.00 45.61 3.85
48 49 2.581354 CCTTGGGCTCGAGGACTG 59.419 66.667 15.77 0.00 45.61 3.51
49 50 2.286523 CCTTGGGCTCGAGGACTGT 61.287 63.158 15.77 0.00 45.61 3.55
50 51 1.216710 CTTGGGCTCGAGGACTGTC 59.783 63.158 15.58 0.00 0.00 3.51
51 52 2.549611 CTTGGGCTCGAGGACTGTCG 62.550 65.000 15.58 0.00 41.51 4.35
52 53 3.063084 GGGCTCGAGGACTGTCGT 61.063 66.667 15.58 2.15 40.93 4.34
53 54 2.637383 GGGCTCGAGGACTGTCGTT 61.637 63.158 15.58 0.00 40.93 3.85
54 55 1.289380 GGCTCGAGGACTGTCGTTT 59.711 57.895 15.58 0.00 40.93 3.60
55 56 0.319641 GGCTCGAGGACTGTCGTTTT 60.320 55.000 15.58 0.00 40.93 2.43
56 57 1.061485 GCTCGAGGACTGTCGTTTTC 58.939 55.000 15.58 0.00 40.93 2.29
57 58 1.328439 CTCGAGGACTGTCGTTTTCG 58.672 55.000 3.91 9.67 40.93 3.46
69 70 0.917259 CGTTTTCGATGAGGAGCGAG 59.083 55.000 0.00 0.00 41.85 5.03
70 71 0.647925 GTTTTCGATGAGGAGCGAGC 59.352 55.000 0.00 0.00 41.85 5.03
71 72 0.802222 TTTTCGATGAGGAGCGAGCG 60.802 55.000 0.00 0.00 41.85 5.03
72 73 2.613739 TTTCGATGAGGAGCGAGCGG 62.614 60.000 0.00 0.00 41.85 5.52
87 88 3.730761 CGGCAAGGCAGCAGACAC 61.731 66.667 0.00 0.00 35.83 3.67
88 89 3.730761 GGCAAGGCAGCAGACACG 61.731 66.667 0.00 0.00 35.83 4.49
89 90 3.730761 GCAAGGCAGCAGACACGG 61.731 66.667 0.00 0.00 0.00 4.94
90 91 2.281070 CAAGGCAGCAGACACGGT 60.281 61.111 0.00 0.00 0.00 4.83
91 92 1.005037 CAAGGCAGCAGACACGGTA 60.005 57.895 0.00 0.00 0.00 4.02
92 93 0.391661 CAAGGCAGCAGACACGGTAT 60.392 55.000 0.00 0.00 0.00 2.73
93 94 0.391661 AAGGCAGCAGACACGGTATG 60.392 55.000 0.00 0.00 0.00 2.39
94 95 1.218047 GGCAGCAGACACGGTATGA 59.782 57.895 0.00 0.00 0.00 2.15
95 96 1.084370 GGCAGCAGACACGGTATGAC 61.084 60.000 0.00 0.00 0.00 3.06
96 97 1.084370 GCAGCAGACACGGTATGACC 61.084 60.000 3.32 0.00 34.05 4.02
105 106 4.705746 GGTATGACCGGTGCAACA 57.294 55.556 14.63 3.25 39.98 3.33
106 107 2.168054 GGTATGACCGGTGCAACAC 58.832 57.895 14.63 11.87 39.98 3.32
138 139 4.753877 CGCTCGCGAAGTCCGACA 62.754 66.667 11.33 0.00 42.83 4.35
139 140 3.173240 GCTCGCGAAGTCCGACAC 61.173 66.667 11.33 0.00 41.76 3.67
140 141 2.254350 CTCGCGAAGTCCGACACA 59.746 61.111 11.33 0.00 41.76 3.72
141 142 1.797933 CTCGCGAAGTCCGACACAG 60.798 63.158 11.33 0.00 41.76 3.66
142 143 2.805353 CGCGAAGTCCGACACAGG 60.805 66.667 0.00 0.00 41.76 4.00
143 144 2.432628 GCGAAGTCCGACACAGGG 60.433 66.667 0.40 0.00 41.76 4.45
144 145 2.432628 CGAAGTCCGACACAGGGC 60.433 66.667 0.40 0.00 41.76 5.19
145 146 2.047179 GAAGTCCGACACAGGGCC 60.047 66.667 0.00 0.00 36.30 5.80
146 147 3.934391 GAAGTCCGACACAGGGCCG 62.934 68.421 0.00 0.00 36.30 6.13
147 148 4.988716 AGTCCGACACAGGGCCGA 62.989 66.667 0.00 0.00 36.30 5.54
148 149 3.998672 GTCCGACACAGGGCCGAA 61.999 66.667 0.00 0.00 0.00 4.30
149 150 3.235481 TCCGACACAGGGCCGAAA 61.235 61.111 0.00 0.00 0.00 3.46
150 151 2.046314 CCGACACAGGGCCGAAAT 60.046 61.111 0.00 0.00 0.00 2.17
151 152 2.398554 CCGACACAGGGCCGAAATG 61.399 63.158 0.00 0.00 0.00 2.32
152 153 2.398554 CGACACAGGGCCGAAATGG 61.399 63.158 0.00 0.00 42.50 3.16
153 154 2.035626 ACACAGGGCCGAAATGGG 59.964 61.111 0.00 0.00 38.63 4.00
154 155 2.035626 CACAGGGCCGAAATGGGT 59.964 61.111 0.00 0.00 38.63 4.51
155 156 2.046285 CACAGGGCCGAAATGGGTC 61.046 63.158 0.00 0.00 38.63 4.46
161 162 3.192922 CCGAAATGGGTCCGCGAC 61.193 66.667 8.23 3.56 0.00 5.19
162 163 2.433491 CGAAATGGGTCCGCGACA 60.433 61.111 8.23 0.67 33.68 4.35
163 164 2.030401 CGAAATGGGTCCGCGACAA 61.030 57.895 8.23 0.00 33.68 3.18
164 165 1.500396 GAAATGGGTCCGCGACAAC 59.500 57.895 8.23 2.17 33.68 3.32
165 166 0.953960 GAAATGGGTCCGCGACAACT 60.954 55.000 8.23 0.00 33.68 3.16
166 167 1.234615 AAATGGGTCCGCGACAACTG 61.235 55.000 8.23 0.00 33.68 3.16
167 168 3.605749 ATGGGTCCGCGACAACTGG 62.606 63.158 8.23 0.00 33.68 4.00
168 169 3.998672 GGGTCCGCGACAACTGGA 61.999 66.667 8.23 0.00 33.68 3.86
169 170 2.029964 GGTCCGCGACAACTGGAA 59.970 61.111 8.23 0.00 33.68 3.53
170 171 2.315386 GGTCCGCGACAACTGGAAC 61.315 63.158 8.23 0.00 33.68 3.62
171 172 2.029964 TCCGCGACAACTGGAACC 59.970 61.111 8.23 0.00 0.00 3.62
172 173 3.047877 CCGCGACAACTGGAACCC 61.048 66.667 8.23 0.00 0.00 4.11
173 174 3.411351 CGCGACAACTGGAACCCG 61.411 66.667 0.00 0.00 0.00 5.28
174 175 3.723348 GCGACAACTGGAACCCGC 61.723 66.667 0.00 0.00 35.91 6.13
175 176 3.047877 CGACAACTGGAACCCGCC 61.048 66.667 0.00 0.00 0.00 6.13
176 177 2.112297 GACAACTGGAACCCGCCA 59.888 61.111 0.00 0.00 36.30 5.69
177 178 1.303317 GACAACTGGAACCCGCCAT 60.303 57.895 0.00 0.00 37.30 4.40
178 179 1.586154 GACAACTGGAACCCGCCATG 61.586 60.000 0.00 0.00 37.30 3.66
179 180 1.303236 CAACTGGAACCCGCCATGA 60.303 57.895 0.00 0.00 37.30 3.07
180 181 0.680921 CAACTGGAACCCGCCATGAT 60.681 55.000 0.00 0.00 37.30 2.45
181 182 0.916086 AACTGGAACCCGCCATGATA 59.084 50.000 0.00 0.00 37.30 2.15
182 183 1.140312 ACTGGAACCCGCCATGATAT 58.860 50.000 0.00 0.00 37.30 1.63
183 184 1.202806 ACTGGAACCCGCCATGATATG 60.203 52.381 0.00 0.00 37.30 1.78
194 195 2.807676 CCATGATATGGGCCCTTAACC 58.192 52.381 25.70 16.76 46.86 2.85
195 196 2.436417 CATGATATGGGCCCTTAACCG 58.564 52.381 25.70 9.86 0.00 4.44
196 197 0.109723 TGATATGGGCCCTTAACCGC 59.890 55.000 25.70 12.33 0.00 5.68
197 198 0.400594 GATATGGGCCCTTAACCGCT 59.599 55.000 25.70 5.30 0.00 5.52
198 199 0.400594 ATATGGGCCCTTAACCGCTC 59.599 55.000 25.70 0.00 0.00 5.03
199 200 1.702022 TATGGGCCCTTAACCGCTCC 61.702 60.000 25.70 0.00 0.00 4.70
200 201 3.723922 GGGCCCTTAACCGCTCCA 61.724 66.667 17.04 0.00 0.00 3.86
201 202 2.595655 GGCCCTTAACCGCTCCAT 59.404 61.111 0.00 0.00 0.00 3.41
202 203 1.526225 GGCCCTTAACCGCTCCATC 60.526 63.158 0.00 0.00 0.00 3.51
203 204 1.223487 GCCCTTAACCGCTCCATCA 59.777 57.895 0.00 0.00 0.00 3.07
204 205 1.095807 GCCCTTAACCGCTCCATCAC 61.096 60.000 0.00 0.00 0.00 3.06
205 206 0.463833 CCCTTAACCGCTCCATCACC 60.464 60.000 0.00 0.00 0.00 4.02
206 207 0.810031 CCTTAACCGCTCCATCACCG 60.810 60.000 0.00 0.00 0.00 4.94
207 208 1.429148 CTTAACCGCTCCATCACCGC 61.429 60.000 0.00 0.00 0.00 5.68
208 209 2.862674 TTAACCGCTCCATCACCGCC 62.863 60.000 0.00 0.00 0.00 6.13
213 214 4.147449 CTCCATCACCGCCGCAGA 62.147 66.667 0.00 0.00 0.00 4.26
214 215 4.147449 TCCATCACCGCCGCAGAG 62.147 66.667 0.00 0.00 0.00 3.35
215 216 4.147449 CCATCACCGCCGCAGAGA 62.147 66.667 0.00 0.00 0.00 3.10
216 217 2.887568 CATCACCGCCGCAGAGAC 60.888 66.667 0.00 0.00 0.00 3.36
217 218 4.498520 ATCACCGCCGCAGAGACG 62.499 66.667 0.00 0.00 0.00 4.18
224 225 3.506096 CCGCAGAGACGACCGCTA 61.506 66.667 0.00 0.00 34.06 4.26
225 226 2.023461 CGCAGAGACGACCGCTAG 59.977 66.667 0.00 0.00 34.06 3.42
226 227 2.409651 GCAGAGACGACCGCTAGG 59.590 66.667 0.00 0.00 45.13 3.02
227 228 2.409651 CAGAGACGACCGCTAGGC 59.590 66.667 0.00 0.00 42.76 3.93
244 245 3.414700 CGCTGCCGTCACCTTGAC 61.415 66.667 0.00 0.00 43.65 3.18
251 252 3.112709 GTCACCTTGACGGCGAGC 61.113 66.667 16.62 5.63 37.67 5.03
252 253 3.303135 TCACCTTGACGGCGAGCT 61.303 61.111 16.62 0.00 35.61 4.09
253 254 2.811317 CACCTTGACGGCGAGCTC 60.811 66.667 16.62 2.73 35.61 4.09
254 255 3.303135 ACCTTGACGGCGAGCTCA 61.303 61.111 16.62 3.73 35.61 4.26
255 256 2.811317 CCTTGACGGCGAGCTCAC 60.811 66.667 16.62 3.30 0.00 3.51
256 257 2.811317 CTTGACGGCGAGCTCACC 60.811 66.667 16.62 13.13 0.00 4.02
257 258 3.573772 CTTGACGGCGAGCTCACCA 62.574 63.158 20.45 4.24 0.00 4.17
258 259 3.158537 TTGACGGCGAGCTCACCAA 62.159 57.895 20.45 9.74 0.00 3.67
259 260 2.357034 GACGGCGAGCTCACCAAA 60.357 61.111 20.45 0.00 0.00 3.28
260 261 1.959226 GACGGCGAGCTCACCAAAA 60.959 57.895 20.45 0.00 0.00 2.44
261 262 1.298859 GACGGCGAGCTCACCAAAAT 61.299 55.000 20.45 2.76 0.00 1.82
262 263 1.298859 ACGGCGAGCTCACCAAAATC 61.299 55.000 20.45 0.00 0.00 2.17
263 264 1.425428 GGCGAGCTCACCAAAATCG 59.575 57.895 16.08 0.00 36.51 3.34
264 265 1.019278 GGCGAGCTCACCAAAATCGA 61.019 55.000 16.08 0.00 35.47 3.59
265 266 0.095417 GCGAGCTCACCAAAATCGAC 59.905 55.000 15.40 0.00 35.47 4.20
266 267 1.428448 CGAGCTCACCAAAATCGACA 58.572 50.000 15.40 0.00 35.47 4.35
267 268 1.798223 CGAGCTCACCAAAATCGACAA 59.202 47.619 15.40 0.00 35.47 3.18
268 269 2.159787 CGAGCTCACCAAAATCGACAAG 60.160 50.000 15.40 0.00 35.47 3.16
269 270 2.154462 AGCTCACCAAAATCGACAAGG 58.846 47.619 0.00 0.00 0.00 3.61
270 271 2.151202 GCTCACCAAAATCGACAAGGA 58.849 47.619 0.00 0.00 0.00 3.36
271 272 2.160417 GCTCACCAAAATCGACAAGGAG 59.840 50.000 0.00 0.00 0.00 3.69
272 273 3.403038 CTCACCAAAATCGACAAGGAGT 58.597 45.455 0.00 0.00 0.00 3.85
273 274 3.138304 TCACCAAAATCGACAAGGAGTG 58.862 45.455 0.00 0.00 0.00 3.51
274 275 3.138304 CACCAAAATCGACAAGGAGTGA 58.862 45.455 0.00 0.00 0.00 3.41
275 276 3.753272 CACCAAAATCGACAAGGAGTGAT 59.247 43.478 0.00 0.00 0.00 3.06
276 277 4.216257 CACCAAAATCGACAAGGAGTGATT 59.784 41.667 0.00 0.00 32.83 2.57
277 278 5.411361 CACCAAAATCGACAAGGAGTGATTA 59.589 40.000 0.00 0.00 31.91 1.75
316 317 2.757056 GCGTTGGATAACCGGCACC 61.757 63.158 0.00 0.00 39.42 5.01
319 320 1.029947 GTTGGATAACCGGCACCCAG 61.030 60.000 0.00 0.00 39.42 4.45
323 324 1.152963 ATAACCGGCACCCAGATGC 60.153 57.895 0.00 0.00 45.34 3.91
335 337 2.065899 CCAGATGCGGGGGAAATTTA 57.934 50.000 0.00 0.00 0.00 1.40
338 340 1.064979 AGATGCGGGGGAAATTTACGT 60.065 47.619 0.00 0.00 0.00 3.57
347 349 3.119637 GGGGAAATTTACGTGTGATGGTG 60.120 47.826 0.00 0.00 0.00 4.17
361 363 2.092429 TGATGGTGGGAGATGCCTTAAC 60.092 50.000 0.00 0.00 36.66 2.01
363 365 0.463833 GGTGGGAGATGCCTTAACGG 60.464 60.000 0.00 0.00 36.66 4.44
454 464 2.025037 CCCCTCACATCCATTCTCCAAA 60.025 50.000 0.00 0.00 0.00 3.28
576 899 2.938798 GATCCACCCACCCACCCA 60.939 66.667 0.00 0.00 0.00 4.51
577 900 3.264845 ATCCACCCACCCACCCAC 61.265 66.667 0.00 0.00 0.00 4.61
610 933 0.543749 CTCAATCCCCTCCACTCCAC 59.456 60.000 0.00 0.00 0.00 4.02
626 949 2.682494 ACCCGCCCACACGAGTAT 60.682 61.111 0.00 0.00 34.06 2.12
784 1114 4.459089 AGCTCGCGCTTTCCCCTC 62.459 66.667 5.56 0.00 46.47 4.30
803 1146 1.613630 GCAGAGTTCTCCCCTCCCA 60.614 63.158 0.00 0.00 0.00 4.37
1037 1622 2.545526 CGTACGGAGGTAAGCGATAGAA 59.454 50.000 7.57 0.00 39.76 2.10
1148 1735 0.249120 CTTGCGTGTCCCTGATGGTA 59.751 55.000 0.00 0.00 34.77 3.25
1164 1751 1.663643 TGGTATGTTCTTCGATTGCGC 59.336 47.619 0.00 0.00 37.46 6.09
1355 1942 4.741239 TCCCTGGACCTGCTCCCC 62.741 72.222 0.00 0.00 38.49 4.81
1610 2212 4.778143 GCCACCGATGTCCGCCTT 62.778 66.667 0.00 0.00 36.84 4.35
2528 3130 4.623932 ACTTCCTGTCTGCAAATCACTA 57.376 40.909 0.00 0.00 0.00 2.74
2950 3552 1.909141 CTCTCGCTGTTTGGCTGCTG 61.909 60.000 0.00 0.00 39.51 4.41
3131 3736 2.682494 TGGTGGGGCTCGTCTACC 60.682 66.667 0.00 0.00 0.00 3.18
3133 3738 2.753043 GTGGGGCTCGTCTACCGA 60.753 66.667 0.00 0.00 45.00 4.69
3214 3819 2.808543 AGTCAGTTTTTCGGCTCATCAC 59.191 45.455 0.00 0.00 0.00 3.06
3620 4231 1.063912 GTGTGTGTGTGGTGTCATGTG 59.936 52.381 0.00 0.00 0.00 3.21
3666 4277 5.094387 TCCTCTTAGGAATGTCTGGTCTTT 58.906 41.667 0.00 0.00 42.51 2.52
3681 4292 1.198094 TCTTTGGGATCTGGCCGTCA 61.198 55.000 0.00 0.00 0.00 4.35
3682 4293 0.107017 CTTTGGGATCTGGCCGTCAT 60.107 55.000 0.00 0.00 0.00 3.06
3789 4400 5.140454 AGGACTGTAATCTTTGCAACCTTT 58.860 37.500 0.00 0.00 31.92 3.11
3896 4508 8.135382 AGGATGTAAGTGTGTTGTCTAGTAAT 57.865 34.615 0.00 0.00 0.00 1.89
3960 4572 8.510243 AATTTGAAATTTGAGGGGCATATTTC 57.490 30.769 0.00 11.77 46.37 2.17
4023 4635 5.712152 ATTTCTTCCCATGTTGTCTTGTC 57.288 39.130 0.00 0.00 0.00 3.18
4024 4636 4.437682 TTCTTCCCATGTTGTCTTGTCT 57.562 40.909 0.00 0.00 0.00 3.41
4025 4637 4.437682 TCTTCCCATGTTGTCTTGTCTT 57.562 40.909 0.00 0.00 0.00 3.01
4026 4638 4.389374 TCTTCCCATGTTGTCTTGTCTTC 58.611 43.478 0.00 0.00 0.00 2.87
4027 4639 3.140325 TCCCATGTTGTCTTGTCTTCC 57.860 47.619 0.00 0.00 0.00 3.46
4028 4640 2.162681 CCCATGTTGTCTTGTCTTCCC 58.837 52.381 0.00 0.00 0.00 3.97
4029 4641 2.488891 CCCATGTTGTCTTGTCTTCCCA 60.489 50.000 0.00 0.00 0.00 4.37
4030 4642 3.424703 CCATGTTGTCTTGTCTTCCCAT 58.575 45.455 0.00 0.00 0.00 4.00
4031 4643 3.192001 CCATGTTGTCTTGTCTTCCCATG 59.808 47.826 0.00 0.00 0.00 3.66
4032 4644 3.576078 TGTTGTCTTGTCTTCCCATGT 57.424 42.857 0.00 0.00 0.00 3.21
4033 4645 3.897239 TGTTGTCTTGTCTTCCCATGTT 58.103 40.909 0.00 0.00 0.00 2.71
4034 4646 3.631686 TGTTGTCTTGTCTTCCCATGTTG 59.368 43.478 0.00 0.00 0.00 3.33
4035 4647 3.576078 TGTCTTGTCTTCCCATGTTGT 57.424 42.857 0.00 0.00 0.00 3.32
4036 4648 3.476552 TGTCTTGTCTTCCCATGTTGTC 58.523 45.455 0.00 0.00 0.00 3.18
4037 4649 3.136443 TGTCTTGTCTTCCCATGTTGTCT 59.864 43.478 0.00 0.00 0.00 3.41
4038 4650 4.137543 GTCTTGTCTTCCCATGTTGTCTT 58.862 43.478 0.00 0.00 0.00 3.01
4039 4651 5.163248 TGTCTTGTCTTCCCATGTTGTCTTA 60.163 40.000 0.00 0.00 0.00 2.10
4040 4652 5.940470 GTCTTGTCTTCCCATGTTGTCTTAT 59.060 40.000 0.00 0.00 0.00 1.73
4041 4653 7.103641 GTCTTGTCTTCCCATGTTGTCTTATA 58.896 38.462 0.00 0.00 0.00 0.98
4042 4654 7.064728 GTCTTGTCTTCCCATGTTGTCTTATAC 59.935 40.741 0.00 0.00 0.00 1.47
4043 4655 6.367374 TGTCTTCCCATGTTGTCTTATACA 57.633 37.500 0.00 0.00 35.88 2.29
4044 4656 6.774673 TGTCTTCCCATGTTGTCTTATACAA 58.225 36.000 0.00 0.00 45.90 2.41
4055 4667 5.670792 TGTCTTATACAATTCTGGTCCGT 57.329 39.130 0.00 0.00 34.29 4.69
4056 4668 5.416083 TGTCTTATACAATTCTGGTCCGTG 58.584 41.667 0.00 0.00 34.29 4.94
4057 4669 4.270325 GTCTTATACAATTCTGGTCCGTGC 59.730 45.833 0.00 0.00 0.00 5.34
4058 4670 4.161565 TCTTATACAATTCTGGTCCGTGCT 59.838 41.667 0.00 0.00 0.00 4.40
4059 4671 2.851263 TACAATTCTGGTCCGTGCTT 57.149 45.000 0.00 0.00 0.00 3.91
4060 4672 1.523758 ACAATTCTGGTCCGTGCTTC 58.476 50.000 0.00 0.00 0.00 3.86
4061 4673 1.072331 ACAATTCTGGTCCGTGCTTCT 59.928 47.619 0.00 0.00 0.00 2.85
4062 4674 1.734465 CAATTCTGGTCCGTGCTTCTC 59.266 52.381 0.00 0.00 0.00 2.87
4063 4675 1.270907 ATTCTGGTCCGTGCTTCTCT 58.729 50.000 0.00 0.00 0.00 3.10
4064 4676 1.919240 TTCTGGTCCGTGCTTCTCTA 58.081 50.000 0.00 0.00 0.00 2.43
4065 4677 1.464734 TCTGGTCCGTGCTTCTCTAG 58.535 55.000 0.00 0.00 0.00 2.43
4066 4678 1.178276 CTGGTCCGTGCTTCTCTAGT 58.822 55.000 0.00 0.00 0.00 2.57
4067 4679 1.133407 CTGGTCCGTGCTTCTCTAGTC 59.867 57.143 0.00 0.00 0.00 2.59
4068 4680 0.456628 GGTCCGTGCTTCTCTAGTCC 59.543 60.000 0.00 0.00 0.00 3.85
4069 4681 1.174783 GTCCGTGCTTCTCTAGTCCA 58.825 55.000 0.00 0.00 0.00 4.02
4070 4682 1.751924 GTCCGTGCTTCTCTAGTCCAT 59.248 52.381 0.00 0.00 0.00 3.41
4071 4683 2.025155 TCCGTGCTTCTCTAGTCCATC 58.975 52.381 0.00 0.00 0.00 3.51
4072 4684 1.268794 CCGTGCTTCTCTAGTCCATCG 60.269 57.143 0.00 0.00 0.00 3.84
4073 4685 1.846541 GTGCTTCTCTAGTCCATCGC 58.153 55.000 0.00 0.00 0.00 4.58
4074 4686 1.407258 GTGCTTCTCTAGTCCATCGCT 59.593 52.381 0.00 0.00 0.00 4.93
4075 4687 2.103373 TGCTTCTCTAGTCCATCGCTT 58.897 47.619 0.00 0.00 0.00 4.68
4076 4688 2.497675 TGCTTCTCTAGTCCATCGCTTT 59.502 45.455 0.00 0.00 0.00 3.51
4077 4689 3.699538 TGCTTCTCTAGTCCATCGCTTTA 59.300 43.478 0.00 0.00 0.00 1.85
4078 4690 4.159693 TGCTTCTCTAGTCCATCGCTTTAA 59.840 41.667 0.00 0.00 0.00 1.52
4079 4691 4.504826 GCTTCTCTAGTCCATCGCTTTAAC 59.495 45.833 0.00 0.00 0.00 2.01
4080 4692 5.651530 CTTCTCTAGTCCATCGCTTTAACA 58.348 41.667 0.00 0.00 0.00 2.41
4081 4693 4.995124 TCTCTAGTCCATCGCTTTAACAC 58.005 43.478 0.00 0.00 0.00 3.32
4082 4694 4.461431 TCTCTAGTCCATCGCTTTAACACA 59.539 41.667 0.00 0.00 0.00 3.72
4083 4695 4.491676 TCTAGTCCATCGCTTTAACACAC 58.508 43.478 0.00 0.00 0.00 3.82
4084 4696 3.402628 AGTCCATCGCTTTAACACACT 57.597 42.857 0.00 0.00 0.00 3.55
4085 4697 4.530710 AGTCCATCGCTTTAACACACTA 57.469 40.909 0.00 0.00 0.00 2.74
4086 4698 4.495422 AGTCCATCGCTTTAACACACTAG 58.505 43.478 0.00 0.00 0.00 2.57
4087 4699 4.021368 AGTCCATCGCTTTAACACACTAGT 60.021 41.667 0.00 0.00 0.00 2.57
4088 4700 4.689345 GTCCATCGCTTTAACACACTAGTT 59.311 41.667 0.00 0.00 35.55 2.24
4089 4701 5.865552 GTCCATCGCTTTAACACACTAGTTA 59.134 40.000 0.00 0.00 33.07 2.24
4090 4702 6.366877 GTCCATCGCTTTAACACACTAGTTAA 59.633 38.462 0.00 0.00 40.96 2.01
4091 4703 7.064253 GTCCATCGCTTTAACACACTAGTTAAT 59.936 37.037 0.00 0.00 41.89 1.40
4092 4704 7.064134 TCCATCGCTTTAACACACTAGTTAATG 59.936 37.037 0.00 0.00 41.89 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.031314 CACAGCTGATACGCCTCAAATG 59.969 50.000 23.35 0.00 0.00 2.32
1 2 2.283298 CACAGCTGATACGCCTCAAAT 58.717 47.619 23.35 0.00 0.00 2.32
2 3 1.001974 ACACAGCTGATACGCCTCAAA 59.998 47.619 23.35 0.00 0.00 2.69
3 4 0.608130 ACACAGCTGATACGCCTCAA 59.392 50.000 23.35 0.00 0.00 3.02
4 5 0.173481 GACACAGCTGATACGCCTCA 59.827 55.000 23.35 0.00 0.00 3.86
5 6 0.173481 TGACACAGCTGATACGCCTC 59.827 55.000 23.35 4.13 0.00 4.70
6 7 0.174389 CTGACACAGCTGATACGCCT 59.826 55.000 23.35 0.00 0.00 5.52
7 8 2.670635 CTGACACAGCTGATACGCC 58.329 57.895 23.35 3.68 0.00 5.68
17 18 4.335647 AAGGGGCCGCTGACACAG 62.336 66.667 24.89 0.00 34.12 3.66
18 19 4.641645 CAAGGGGCCGCTGACACA 62.642 66.667 24.89 0.00 0.00 3.72
30 31 2.685380 AGTCCTCGAGCCCAAGGG 60.685 66.667 6.99 0.00 38.57 3.95
31 32 2.232298 GACAGTCCTCGAGCCCAAGG 62.232 65.000 6.99 0.00 0.00 3.61
32 33 1.216710 GACAGTCCTCGAGCCCAAG 59.783 63.158 6.99 0.00 0.00 3.61
33 34 2.636412 CGACAGTCCTCGAGCCCAA 61.636 63.158 6.99 0.00 35.58 4.12
34 35 3.062466 CGACAGTCCTCGAGCCCA 61.062 66.667 6.99 0.00 35.58 5.36
35 36 2.156051 AAACGACAGTCCTCGAGCCC 62.156 60.000 6.99 0.00 37.11 5.19
36 37 0.319641 AAAACGACAGTCCTCGAGCC 60.320 55.000 6.99 0.00 37.11 4.70
37 38 1.061485 GAAAACGACAGTCCTCGAGC 58.939 55.000 6.99 0.00 37.11 5.03
38 39 1.069432 TCGAAAACGACAGTCCTCGAG 60.069 52.381 5.13 5.13 37.99 4.04
39 40 0.946528 TCGAAAACGACAGTCCTCGA 59.053 50.000 7.33 7.33 39.48 4.04
40 41 1.649171 CATCGAAAACGACAGTCCTCG 59.351 52.381 0.00 0.00 39.68 4.63
41 42 2.917971 CTCATCGAAAACGACAGTCCTC 59.082 50.000 0.00 0.00 0.00 3.71
42 43 2.352814 CCTCATCGAAAACGACAGTCCT 60.353 50.000 0.00 0.00 0.00 3.85
43 44 1.993370 CCTCATCGAAAACGACAGTCC 59.007 52.381 0.00 0.00 0.00 3.85
44 45 2.917971 CTCCTCATCGAAAACGACAGTC 59.082 50.000 0.00 0.00 0.00 3.51
45 46 2.927014 GCTCCTCATCGAAAACGACAGT 60.927 50.000 0.00 0.00 0.00 3.55
46 47 1.656095 GCTCCTCATCGAAAACGACAG 59.344 52.381 0.00 0.00 0.00 3.51
47 48 1.710013 GCTCCTCATCGAAAACGACA 58.290 50.000 0.00 0.00 0.00 4.35
48 49 0.640768 CGCTCCTCATCGAAAACGAC 59.359 55.000 0.00 0.00 0.00 4.34
49 50 0.524414 TCGCTCCTCATCGAAAACGA 59.476 50.000 0.00 0.00 0.00 3.85
50 51 0.917259 CTCGCTCCTCATCGAAAACG 59.083 55.000 0.00 0.00 34.07 3.60
51 52 0.647925 GCTCGCTCCTCATCGAAAAC 59.352 55.000 0.00 0.00 34.07 2.43
52 53 0.802222 CGCTCGCTCCTCATCGAAAA 60.802 55.000 0.00 0.00 34.07 2.29
53 54 1.226688 CGCTCGCTCCTCATCGAAA 60.227 57.895 0.00 0.00 34.07 3.46
54 55 2.409243 CGCTCGCTCCTCATCGAA 59.591 61.111 0.00 0.00 34.07 3.71
55 56 3.586961 CCGCTCGCTCCTCATCGA 61.587 66.667 0.00 0.00 0.00 3.59
57 58 3.723235 TTGCCGCTCGCTCCTCATC 62.723 63.158 0.00 0.00 38.78 2.92
58 59 3.729965 CTTGCCGCTCGCTCCTCAT 62.730 63.158 0.00 0.00 38.78 2.90
59 60 4.441695 CTTGCCGCTCGCTCCTCA 62.442 66.667 0.00 0.00 38.78 3.86
70 71 3.730761 GTGTCTGCTGCCTTGCCG 61.731 66.667 0.00 0.00 0.00 5.69
71 72 3.730761 CGTGTCTGCTGCCTTGCC 61.731 66.667 0.00 0.00 0.00 4.52
72 73 3.730761 CCGTGTCTGCTGCCTTGC 61.731 66.667 0.00 0.00 0.00 4.01
73 74 0.391661 ATACCGTGTCTGCTGCCTTG 60.392 55.000 0.00 0.00 0.00 3.61
74 75 0.391661 CATACCGTGTCTGCTGCCTT 60.392 55.000 0.00 0.00 0.00 4.35
75 76 1.219124 CATACCGTGTCTGCTGCCT 59.781 57.895 0.00 0.00 0.00 4.75
76 77 1.084370 GTCATACCGTGTCTGCTGCC 61.084 60.000 0.00 0.00 0.00 4.85
77 78 1.084370 GGTCATACCGTGTCTGCTGC 61.084 60.000 0.00 0.00 0.00 5.25
78 79 3.050703 GGTCATACCGTGTCTGCTG 57.949 57.895 0.00 0.00 0.00 4.41
88 89 1.303091 GGTGTTGCACCGGTCATACC 61.303 60.000 2.59 13.34 44.95 2.73
89 90 2.168054 GGTGTTGCACCGGTCATAC 58.832 57.895 2.59 2.98 44.95 2.39
90 91 4.705746 GGTGTTGCACCGGTCATA 57.294 55.556 2.59 0.00 44.95 2.15
121 122 4.753877 TGTCGGACTTCGCGAGCG 62.754 66.667 9.59 11.64 39.05 5.03
122 123 3.173240 GTGTCGGACTTCGCGAGC 61.173 66.667 9.59 2.77 39.05 5.03
123 124 1.797933 CTGTGTCGGACTTCGCGAG 60.798 63.158 9.59 6.46 39.05 5.03
124 125 2.254350 CTGTGTCGGACTTCGCGA 59.746 61.111 3.71 3.71 39.05 5.87
125 126 2.805353 CCTGTGTCGGACTTCGCG 60.805 66.667 9.88 0.00 39.05 5.87
126 127 2.432628 CCCTGTGTCGGACTTCGC 60.433 66.667 9.88 0.00 39.05 4.70
127 128 2.432628 GCCCTGTGTCGGACTTCG 60.433 66.667 9.88 0.00 40.90 3.79
128 129 2.047179 GGCCCTGTGTCGGACTTC 60.047 66.667 9.88 3.60 0.00 3.01
129 130 4.003788 CGGCCCTGTGTCGGACTT 62.004 66.667 9.88 0.00 0.00 3.01
130 131 4.988716 TCGGCCCTGTGTCGGACT 62.989 66.667 9.88 0.00 0.00 3.85
131 132 2.798148 ATTTCGGCCCTGTGTCGGAC 62.798 60.000 0.00 0.00 0.00 4.79
132 133 2.589157 ATTTCGGCCCTGTGTCGGA 61.589 57.895 0.00 0.00 0.00 4.55
133 134 2.046314 ATTTCGGCCCTGTGTCGG 60.046 61.111 0.00 0.00 0.00 4.79
134 135 2.398554 CCATTTCGGCCCTGTGTCG 61.399 63.158 0.00 0.00 0.00 4.35
135 136 2.046285 CCCATTTCGGCCCTGTGTC 61.046 63.158 0.00 0.00 0.00 3.67
136 137 2.035626 CCCATTTCGGCCCTGTGT 59.964 61.111 0.00 0.00 0.00 3.72
137 138 2.035626 ACCCATTTCGGCCCTGTG 59.964 61.111 0.00 0.00 0.00 3.66
138 139 2.355115 GACCCATTTCGGCCCTGT 59.645 61.111 0.00 0.00 0.00 4.00
139 140 2.440247 GGACCCATTTCGGCCCTG 60.440 66.667 0.00 0.00 0.00 4.45
140 141 4.109675 CGGACCCATTTCGGCCCT 62.110 66.667 0.00 0.00 0.00 5.19
144 145 3.192922 GTCGCGGACCCATTTCGG 61.193 66.667 6.13 0.00 0.00 4.30
145 146 2.030401 TTGTCGCGGACCCATTTCG 61.030 57.895 6.13 0.00 0.00 3.46
146 147 0.953960 AGTTGTCGCGGACCCATTTC 60.954 55.000 6.13 0.00 0.00 2.17
147 148 1.072505 AGTTGTCGCGGACCCATTT 59.927 52.632 6.13 0.00 0.00 2.32
148 149 1.671054 CAGTTGTCGCGGACCCATT 60.671 57.895 6.13 0.00 0.00 3.16
149 150 2.047274 CAGTTGTCGCGGACCCAT 60.047 61.111 6.13 0.00 0.00 4.00
150 151 4.308458 CCAGTTGTCGCGGACCCA 62.308 66.667 6.13 0.00 0.00 4.51
151 152 3.524648 TTCCAGTTGTCGCGGACCC 62.525 63.158 6.13 0.00 0.00 4.46
152 153 2.029964 TTCCAGTTGTCGCGGACC 59.970 61.111 6.13 0.00 0.00 4.46
153 154 2.315386 GGTTCCAGTTGTCGCGGAC 61.315 63.158 6.13 3.78 0.00 4.79
154 155 2.029964 GGTTCCAGTTGTCGCGGA 59.970 61.111 6.13 0.00 0.00 5.54
155 156 3.047877 GGGTTCCAGTTGTCGCGG 61.048 66.667 6.13 0.00 0.00 6.46
156 157 3.411351 CGGGTTCCAGTTGTCGCG 61.411 66.667 0.00 0.00 0.00 5.87
157 158 3.723348 GCGGGTTCCAGTTGTCGC 61.723 66.667 0.00 0.00 36.51 5.19
158 159 3.047877 GGCGGGTTCCAGTTGTCG 61.048 66.667 0.00 0.00 0.00 4.35
159 160 1.303317 ATGGCGGGTTCCAGTTGTC 60.303 57.895 0.00 0.00 39.89 3.18
160 161 1.603455 CATGGCGGGTTCCAGTTGT 60.603 57.895 0.00 0.00 39.89 3.32
161 162 0.680921 ATCATGGCGGGTTCCAGTTG 60.681 55.000 0.00 0.00 39.89 3.16
162 163 0.916086 TATCATGGCGGGTTCCAGTT 59.084 50.000 0.00 0.00 39.89 3.16
163 164 1.140312 ATATCATGGCGGGTTCCAGT 58.860 50.000 0.00 0.00 39.89 4.00
164 165 1.527034 CATATCATGGCGGGTTCCAG 58.473 55.000 0.00 0.00 39.89 3.86
165 166 0.110295 CCATATCATGGCGGGTTCCA 59.890 55.000 0.00 0.00 44.70 3.53
166 167 2.946947 CCATATCATGGCGGGTTCC 58.053 57.895 0.00 0.00 44.70 3.62
175 176 2.436417 CGGTTAAGGGCCCATATCATG 58.564 52.381 27.56 8.27 0.00 3.07
176 177 1.271926 GCGGTTAAGGGCCCATATCAT 60.272 52.381 27.56 0.00 0.00 2.45
177 178 0.109723 GCGGTTAAGGGCCCATATCA 59.890 55.000 27.56 0.00 0.00 2.15
178 179 0.400594 AGCGGTTAAGGGCCCATATC 59.599 55.000 27.56 15.73 0.00 1.63
179 180 0.400594 GAGCGGTTAAGGGCCCATAT 59.599 55.000 27.56 12.64 0.00 1.78
180 181 1.702022 GGAGCGGTTAAGGGCCCATA 61.702 60.000 27.56 15.11 0.00 2.74
181 182 2.595655 GAGCGGTTAAGGGCCCAT 59.404 61.111 27.56 16.50 0.00 4.00
182 183 3.723922 GGAGCGGTTAAGGGCCCA 61.724 66.667 27.56 0.00 0.00 5.36
183 184 2.960359 GATGGAGCGGTTAAGGGCCC 62.960 65.000 16.46 16.46 0.00 5.80
184 185 1.526225 GATGGAGCGGTTAAGGGCC 60.526 63.158 0.00 0.00 0.00 5.80
185 186 1.095807 GTGATGGAGCGGTTAAGGGC 61.096 60.000 0.00 0.00 0.00 5.19
186 187 0.463833 GGTGATGGAGCGGTTAAGGG 60.464 60.000 0.00 0.00 0.00 3.95
187 188 0.810031 CGGTGATGGAGCGGTTAAGG 60.810 60.000 0.00 0.00 42.02 2.69
188 189 1.429148 GCGGTGATGGAGCGGTTAAG 61.429 60.000 0.00 0.00 45.93 1.85
189 190 1.448893 GCGGTGATGGAGCGGTTAA 60.449 57.895 0.00 0.00 45.93 2.01
190 191 2.185867 GCGGTGATGGAGCGGTTA 59.814 61.111 0.00 0.00 45.93 2.85
191 192 4.778143 GGCGGTGATGGAGCGGTT 62.778 66.667 0.00 0.00 45.93 4.44
196 197 4.147449 TCTGCGGCGGTGATGGAG 62.147 66.667 9.78 0.00 0.00 3.86
197 198 4.147449 CTCTGCGGCGGTGATGGA 62.147 66.667 9.78 0.00 0.00 3.41
198 199 4.147449 TCTCTGCGGCGGTGATGG 62.147 66.667 9.78 0.00 0.00 3.51
199 200 2.887568 GTCTCTGCGGCGGTGATG 60.888 66.667 15.75 2.88 0.00 3.07
200 201 4.498520 CGTCTCTGCGGCGGTGAT 62.499 66.667 15.75 0.00 0.00 3.06
207 208 3.456431 CTAGCGGTCGTCTCTGCGG 62.456 68.421 0.00 0.00 43.62 5.69
208 209 2.023461 CTAGCGGTCGTCTCTGCG 59.977 66.667 0.00 0.00 43.62 5.18
209 210 2.409651 CCTAGCGGTCGTCTCTGC 59.590 66.667 0.00 0.00 39.72 4.26
210 211 2.409651 GCCTAGCGGTCGTCTCTG 59.590 66.667 0.00 0.00 0.00 3.35
227 228 3.414700 GTCAAGGTGACGGCAGCG 61.415 66.667 16.00 1.24 46.76 5.18
237 238 3.303135 TGAGCTCGCCGTCAAGGT 61.303 61.111 9.64 0.00 43.70 3.50
238 239 2.811317 GTGAGCTCGCCGTCAAGG 60.811 66.667 16.69 0.00 44.97 3.61
239 240 2.811317 GGTGAGCTCGCCGTCAAG 60.811 66.667 29.54 0.00 36.72 3.02
245 246 1.019278 TCGATTTTGGTGAGCTCGCC 61.019 55.000 34.82 34.82 46.40 5.54
246 247 0.095417 GTCGATTTTGGTGAGCTCGC 59.905 55.000 19.20 19.20 0.00 5.03
247 248 1.428448 TGTCGATTTTGGTGAGCTCG 58.572 50.000 9.64 0.00 0.00 5.03
248 249 2.160417 CCTTGTCGATTTTGGTGAGCTC 59.840 50.000 6.82 6.82 0.00 4.09
249 250 2.154462 CCTTGTCGATTTTGGTGAGCT 58.846 47.619 0.00 0.00 0.00 4.09
250 251 2.151202 TCCTTGTCGATTTTGGTGAGC 58.849 47.619 0.00 0.00 0.00 4.26
251 252 3.187227 CACTCCTTGTCGATTTTGGTGAG 59.813 47.826 0.00 0.00 0.00 3.51
252 253 3.138304 CACTCCTTGTCGATTTTGGTGA 58.862 45.455 0.00 0.00 0.00 4.02
253 254 3.138304 TCACTCCTTGTCGATTTTGGTG 58.862 45.455 0.00 0.00 0.00 4.17
254 255 3.485463 TCACTCCTTGTCGATTTTGGT 57.515 42.857 0.00 0.00 0.00 3.67
255 256 6.683974 ATAATCACTCCTTGTCGATTTTGG 57.316 37.500 0.00 0.00 32.68 3.28
256 257 8.970691 AAAATAATCACTCCTTGTCGATTTTG 57.029 30.769 0.00 0.00 32.68 2.44
316 317 1.681264 GTAAATTTCCCCCGCATCTGG 59.319 52.381 0.00 0.00 0.00 3.86
319 320 1.064952 CACGTAAATTTCCCCCGCATC 59.935 52.381 0.00 0.00 0.00 3.91
323 324 1.810959 TCACACGTAAATTTCCCCCG 58.189 50.000 0.00 0.00 0.00 5.73
327 328 3.119637 CCCACCATCACACGTAAATTTCC 60.120 47.826 0.00 0.00 0.00 3.13
335 337 0.250234 CATCTCCCACCATCACACGT 59.750 55.000 0.00 0.00 0.00 4.49
338 340 0.915872 AGGCATCTCCCACCATCACA 60.916 55.000 0.00 0.00 34.51 3.58
347 349 0.106894 CTCCCGTTAAGGCATCTCCC 59.893 60.000 0.00 0.00 39.21 4.30
454 464 2.521996 GTTTCCTTTTTCACGTTGCGT 58.478 42.857 0.00 0.00 42.36 5.24
545 868 1.135489 GTGGATCACTCGTTCGTGCTA 60.135 52.381 0.00 0.00 34.92 3.49
579 902 1.661821 GATTGAGACGGCCGGATCG 60.662 63.158 31.76 11.33 0.00 3.69
580 903 1.301009 GGATTGAGACGGCCGGATC 60.301 63.158 31.76 25.70 0.00 3.36
610 933 2.202878 CATACTCGTGTGGGCGGG 60.203 66.667 0.00 0.00 38.50 6.13
626 949 0.321919 GGAGCTGGATGCACTGAACA 60.322 55.000 0.00 0.00 45.94 3.18
784 1114 2.726351 GGGAGGGGAGAACTCTGCG 61.726 68.421 1.86 0.00 34.92 5.18
785 1115 0.985490 ATGGGAGGGGAGAACTCTGC 60.985 60.000 1.86 0.00 35.34 4.26
797 1140 1.220236 AGAGAAGGAGGAGATGGGAGG 59.780 57.143 0.00 0.00 0.00 4.30
1017 1602 4.274459 TCTTTCTATCGCTTACCTCCGTAC 59.726 45.833 0.00 0.00 0.00 3.67
1037 1622 5.896963 AGAAAAACATGAAGGGGATCTCTT 58.103 37.500 0.00 0.00 0.00 2.85
1087 1674 4.701171 AGGAACCACGACTAAAACAACAAA 59.299 37.500 0.00 0.00 0.00 2.83
1148 1735 0.729116 CTGGCGCAATCGAAGAACAT 59.271 50.000 10.83 0.00 43.58 2.71
1196 1783 0.253327 AGAACATCCCGGAAAGCTCC 59.747 55.000 0.73 0.00 38.52 4.70
1526 2113 1.701292 TCGTCCGTATCCTCCTCCATA 59.299 52.381 0.00 0.00 0.00 2.74
2950 3552 1.797025 GCTCACCTGTGTGACCTTAC 58.203 55.000 3.69 0.00 46.40 2.34
3131 3736 2.705934 ATATGCAGGCGGCTGACTCG 62.706 60.000 39.78 15.98 45.15 4.18
3133 3738 1.227764 CATATGCAGGCGGCTGACT 60.228 57.895 39.78 26.86 45.15 3.41
3214 3819 4.785453 GAAGCCCACCCCAGCTCG 62.785 72.222 0.00 0.00 38.74 5.03
3634 4245 1.933021 TCCTAAGAGGAACCGCAAGA 58.067 50.000 0.00 0.00 42.51 3.02
3666 4277 1.688884 TCATGACGGCCAGATCCCA 60.689 57.895 2.24 0.00 0.00 4.37
3681 4292 0.605589 GGCTCTAGTATGCGCCTCAT 59.394 55.000 4.18 0.00 39.42 2.90
3682 4293 2.041976 GGCTCTAGTATGCGCCTCA 58.958 57.895 4.18 0.00 39.42 3.86
3896 4508 5.477984 AGCCAACTTTCAAGAATGCATCTTA 59.522 36.000 0.00 0.00 46.80 2.10
3960 4572 2.154462 GGATGCCATTCTTGGATACCG 58.846 52.381 0.00 0.00 46.92 4.02
4033 4645 5.416083 CACGGACCAGAATTGTATAAGACA 58.584 41.667 0.00 0.00 35.78 3.41
4034 4646 4.270325 GCACGGACCAGAATTGTATAAGAC 59.730 45.833 0.00 0.00 0.00 3.01
4035 4647 4.161565 AGCACGGACCAGAATTGTATAAGA 59.838 41.667 0.00 0.00 0.00 2.10
4036 4648 4.442706 AGCACGGACCAGAATTGTATAAG 58.557 43.478 0.00 0.00 0.00 1.73
4037 4649 4.481368 AGCACGGACCAGAATTGTATAA 57.519 40.909 0.00 0.00 0.00 0.98
4038 4650 4.161565 AGAAGCACGGACCAGAATTGTATA 59.838 41.667 0.00 0.00 0.00 1.47
4039 4651 3.055094 AGAAGCACGGACCAGAATTGTAT 60.055 43.478 0.00 0.00 0.00 2.29
4040 4652 2.301870 AGAAGCACGGACCAGAATTGTA 59.698 45.455 0.00 0.00 0.00 2.41
4041 4653 1.072331 AGAAGCACGGACCAGAATTGT 59.928 47.619 0.00 0.00 0.00 2.71
4042 4654 1.734465 GAGAAGCACGGACCAGAATTG 59.266 52.381 0.00 0.00 0.00 2.32
4043 4655 1.625818 AGAGAAGCACGGACCAGAATT 59.374 47.619 0.00 0.00 0.00 2.17
4044 4656 1.270907 AGAGAAGCACGGACCAGAAT 58.729 50.000 0.00 0.00 0.00 2.40
4045 4657 1.819288 CTAGAGAAGCACGGACCAGAA 59.181 52.381 0.00 0.00 0.00 3.02
4046 4658 1.271982 ACTAGAGAAGCACGGACCAGA 60.272 52.381 0.00 0.00 0.00 3.86
4047 4659 1.133407 GACTAGAGAAGCACGGACCAG 59.867 57.143 0.00 0.00 0.00 4.00
4048 4660 1.174783 GACTAGAGAAGCACGGACCA 58.825 55.000 0.00 0.00 0.00 4.02
4049 4661 0.456628 GGACTAGAGAAGCACGGACC 59.543 60.000 0.00 0.00 0.00 4.46
4050 4662 1.174783 TGGACTAGAGAAGCACGGAC 58.825 55.000 0.00 0.00 0.00 4.79
4051 4663 2.025155 GATGGACTAGAGAAGCACGGA 58.975 52.381 0.00 0.00 0.00 4.69
4052 4664 1.268794 CGATGGACTAGAGAAGCACGG 60.269 57.143 0.00 0.00 0.00 4.94
4053 4665 1.862008 GCGATGGACTAGAGAAGCACG 60.862 57.143 0.00 0.00 0.00 5.34
4054 4666 1.407258 AGCGATGGACTAGAGAAGCAC 59.593 52.381 0.00 0.00 0.00 4.40
4055 4667 1.769026 AGCGATGGACTAGAGAAGCA 58.231 50.000 0.00 0.00 0.00 3.91
4056 4668 2.880963 AAGCGATGGACTAGAGAAGC 57.119 50.000 0.00 0.00 0.00 3.86
4057 4669 5.517054 GTGTTAAAGCGATGGACTAGAGAAG 59.483 44.000 0.00 0.00 0.00 2.85
4058 4670 5.047590 TGTGTTAAAGCGATGGACTAGAGAA 60.048 40.000 0.00 0.00 0.00 2.87
4059 4671 4.461431 TGTGTTAAAGCGATGGACTAGAGA 59.539 41.667 0.00 0.00 0.00 3.10
4060 4672 4.563184 GTGTGTTAAAGCGATGGACTAGAG 59.437 45.833 0.00 0.00 0.00 2.43
4061 4673 4.219944 AGTGTGTTAAAGCGATGGACTAGA 59.780 41.667 0.00 0.00 0.00 2.43
4062 4674 4.495422 AGTGTGTTAAAGCGATGGACTAG 58.505 43.478 0.00 0.00 0.00 2.57
4063 4675 4.530710 AGTGTGTTAAAGCGATGGACTA 57.469 40.909 0.00 0.00 0.00 2.59
4064 4676 3.402628 AGTGTGTTAAAGCGATGGACT 57.597 42.857 0.00 0.00 0.00 3.85
4065 4677 4.243270 ACTAGTGTGTTAAAGCGATGGAC 58.757 43.478 0.00 0.00 0.00 4.02
4066 4678 4.530710 ACTAGTGTGTTAAAGCGATGGA 57.469 40.909 0.00 0.00 0.00 3.41
4067 4679 6.715344 TTAACTAGTGTGTTAAAGCGATGG 57.285 37.500 0.00 0.00 38.83 3.51


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

AutoCloner maintained by Alex Coulton.