Multiple sequence alignment - TraesCS6A01G226700

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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 TraesCS6A01G226700 chr6A 100.000 3581 0 0 1 3581 426952473 426956053 0.000000e+00 6613
1 TraesCS6A01G226700 chr6D 95.537 3361 117 15 239 3581 293812299 293808954 0.000000e+00 5345
2 TraesCS6A01G226700 chr6B 96.616 2216 63 3 983 3197 458506894 458504690 0.000000e+00 3666
3 TraesCS6A01G226700 chr6B 87.949 473 43 7 502 962 458507724 458507254 2.430000e-151 545
4 TraesCS6A01G226700 chr3B 85.638 376 44 6 3209 3581 260141417 260141785 1.560000e-103 387
5 TraesCS6A01G226700 chr3B 84.935 385 51 4 3198 3581 260236731 260237109 2.020000e-102 383
6 TraesCS6A01G226700 chr2D 84.974 386 50 4 3198 3581 24268247 24268626 5.610000e-103 385
7 TraesCS6A01G226700 chr2D 84.872 390 49 7 3195 3581 293662206 293662588 5.610000e-103 385
8 TraesCS6A01G226700 chr2D 94.142 239 12 2 1 238 335148060 335148297 2.630000e-96 363
9 TraesCS6A01G226700 chr2D 93.277 238 16 0 1 238 112839204 112838967 5.690000e-93 351
10 TraesCS6A01G226700 chr2D 93.277 238 16 0 1 238 354366291 354366528 5.690000e-93 351
11 TraesCS6A01G226700 chr7A 84.896 384 50 5 3200 3581 725737355 725736978 7.250000e-102 381
12 TraesCS6A01G226700 chr3D 84.197 386 51 7 3198 3581 127346277 127346654 2.030000e-97 366
13 TraesCS6A01G226700 chr1A 84.197 386 51 8 3198 3580 541386850 541386472 2.030000e-97 366
14 TraesCS6A01G226700 chr2B 84.293 382 50 7 3203 3581 768128170 768127796 7.310000e-97 364
15 TraesCS6A01G226700 chr7B 93.697 238 15 0 1 238 502738251 502738014 1.220000e-94 357
16 TraesCS6A01G226700 chr5D 93.697 238 15 0 1 238 89065055 89064818 1.220000e-94 357
17 TraesCS6A01G226700 chr5D 93.697 238 15 0 1 238 328907416 328907653 1.220000e-94 357
18 TraesCS6A01G226700 chr5D 93.697 238 14 1 1 238 113379023 113379259 4.400000e-94 355
19 TraesCS6A01G226700 chr4B 93.697 238 15 0 1 238 527077659 527077422 1.220000e-94 357
20 TraesCS6A01G226700 chr1D 93.697 238 15 0 1 238 60385795 60385558 1.220000e-94 357


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 TraesCS6A01G226700 chr6A 426952473 426956053 3580 False 6613.0 6613 100.0000 1 3581 1 chr6A.!!$F1 3580
1 TraesCS6A01G226700 chr6D 293808954 293812299 3345 True 5345.0 5345 95.5370 239 3581 1 chr6D.!!$R1 3342
2 TraesCS6A01G226700 chr6B 458504690 458507724 3034 True 2105.5 3666 92.2825 502 3197 2 chr6B.!!$R1 2695

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
372 373 0.455005 GACGCCTAGTAGACGCCTTT 59.545 55.0 5.73 0.0 0.0 3.11 F
1245 1604 0.106469 TCTACTCCGCCATGCTCTCT 60.106 55.0 0.00 0.0 0.0 3.10 F
1514 1873 0.657368 GACGCACGAAAGCTGTTTGG 60.657 55.0 0.00 0.0 0.0 3.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 2412 0.595588 TGGGTGCACGCATTTAACAG 59.404 50.0 30.46 0.0 33.68 3.16 R
2410 2769 0.619832 TCCTCCTGCATCAGCTTCCT 60.620 55.0 0.00 0.0 42.74 3.36 R
3162 3522 0.916086 ACCTTCCACCAGTCACAACA 59.084 50.0 0.00 0.0 0.00 3.33 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
39 40 8.672823 TCATATTCATGTTCAAGATCAGAAGG 57.327 34.615 0.00 0.00 33.57 3.46
40 41 7.718314 TCATATTCATGTTCAAGATCAGAAGGG 59.282 37.037 0.00 0.00 33.57 3.95
41 42 4.916041 TCATGTTCAAGATCAGAAGGGT 57.084 40.909 0.00 0.00 0.00 4.34
42 43 6.373005 TTCATGTTCAAGATCAGAAGGGTA 57.627 37.500 0.00 0.00 0.00 3.69
43 44 6.566079 TCATGTTCAAGATCAGAAGGGTAT 57.434 37.500 0.00 0.00 0.00 2.73
44 45 6.962182 TCATGTTCAAGATCAGAAGGGTATT 58.038 36.000 0.00 0.00 0.00 1.89
45 46 6.825213 TCATGTTCAAGATCAGAAGGGTATTG 59.175 38.462 0.00 0.00 0.00 1.90
46 47 6.373005 TGTTCAAGATCAGAAGGGTATTGA 57.627 37.500 0.00 0.00 0.00 2.57
47 48 6.778821 TGTTCAAGATCAGAAGGGTATTGAA 58.221 36.000 0.00 0.00 33.97 2.69
48 49 7.405292 TGTTCAAGATCAGAAGGGTATTGAAT 58.595 34.615 1.37 0.00 37.47 2.57
49 50 8.548025 TGTTCAAGATCAGAAGGGTATTGAATA 58.452 33.333 1.37 0.00 37.47 1.75
50 51 9.566432 GTTCAAGATCAGAAGGGTATTGAATAT 57.434 33.333 1.37 0.00 37.47 1.28
51 52 9.565090 TTCAAGATCAGAAGGGTATTGAATATG 57.435 33.333 0.00 0.00 32.07 1.78
52 53 8.717717 TCAAGATCAGAAGGGTATTGAATATGT 58.282 33.333 0.00 0.00 0.00 2.29
53 54 9.347240 CAAGATCAGAAGGGTATTGAATATGTT 57.653 33.333 0.00 0.00 0.00 2.71
54 55 9.927081 AAGATCAGAAGGGTATTGAATATGTTT 57.073 29.630 0.00 0.00 0.00 2.83
55 56 9.347240 AGATCAGAAGGGTATTGAATATGTTTG 57.653 33.333 0.00 0.00 0.00 2.93
56 57 9.342308 GATCAGAAGGGTATTGAATATGTTTGA 57.658 33.333 0.00 0.00 0.00 2.69
57 58 8.737168 TCAGAAGGGTATTGAATATGTTTGAG 57.263 34.615 0.00 0.00 0.00 3.02
58 59 7.775093 TCAGAAGGGTATTGAATATGTTTGAGG 59.225 37.037 0.00 0.00 0.00 3.86
59 60 7.775093 CAGAAGGGTATTGAATATGTTTGAGGA 59.225 37.037 0.00 0.00 0.00 3.71
60 61 8.506083 AGAAGGGTATTGAATATGTTTGAGGAT 58.494 33.333 0.00 0.00 0.00 3.24
61 62 8.697507 AAGGGTATTGAATATGTTTGAGGATC 57.302 34.615 0.00 0.00 0.00 3.36
62 63 8.050316 AGGGTATTGAATATGTTTGAGGATCT 57.950 34.615 0.00 0.00 34.92 2.75
63 64 7.941238 AGGGTATTGAATATGTTTGAGGATCTG 59.059 37.037 0.00 0.00 34.92 2.90
64 65 7.939039 GGGTATTGAATATGTTTGAGGATCTGA 59.061 37.037 0.00 0.00 34.92 3.27
65 66 9.342308 GGTATTGAATATGTTTGAGGATCTGAA 57.658 33.333 0.00 0.00 34.92 3.02
67 68 8.812513 ATTGAATATGTTTGAGGATCTGAACA 57.187 30.769 0.00 0.00 42.63 3.18
68 69 8.812513 TTGAATATGTTTGAGGATCTGAACAT 57.187 30.769 15.42 15.42 46.38 2.71
69 70 8.812513 TGAATATGTTTGAGGATCTGAACATT 57.187 30.769 15.94 6.05 44.23 2.71
70 71 9.246670 TGAATATGTTTGAGGATCTGAACATTT 57.753 29.630 15.94 9.58 44.23 2.32
79 80 9.919416 TTGAGGATCTGAACATTTAATATTCCA 57.081 29.630 0.00 0.00 34.92 3.53
80 81 9.342308 TGAGGATCTGAACATTTAATATTCCAC 57.658 33.333 0.00 0.00 34.92 4.02
81 82 8.697507 AGGATCTGAACATTTAATATTCCACC 57.302 34.615 0.00 0.00 0.00 4.61
82 83 8.281531 AGGATCTGAACATTTAATATTCCACCA 58.718 33.333 0.00 0.00 0.00 4.17
83 84 8.912988 GGATCTGAACATTTAATATTCCACCAA 58.087 33.333 0.00 0.00 0.00 3.67
97 98 5.715434 TTCCACCAAATAAACCAACTAGC 57.285 39.130 0.00 0.00 0.00 3.42
98 99 4.730966 TCCACCAAATAAACCAACTAGCA 58.269 39.130 0.00 0.00 0.00 3.49
99 100 5.329399 TCCACCAAATAAACCAACTAGCAT 58.671 37.500 0.00 0.00 0.00 3.79
100 101 5.417580 TCCACCAAATAAACCAACTAGCATC 59.582 40.000 0.00 0.00 0.00 3.91
101 102 5.184864 CCACCAAATAAACCAACTAGCATCA 59.815 40.000 0.00 0.00 0.00 3.07
102 103 6.295011 CCACCAAATAAACCAACTAGCATCAA 60.295 38.462 0.00 0.00 0.00 2.57
103 104 6.586082 CACCAAATAAACCAACTAGCATCAAC 59.414 38.462 0.00 0.00 0.00 3.18
104 105 6.493458 ACCAAATAAACCAACTAGCATCAACT 59.507 34.615 0.00 0.00 0.00 3.16
105 106 7.668052 ACCAAATAAACCAACTAGCATCAACTA 59.332 33.333 0.00 0.00 0.00 2.24
106 107 7.968405 CCAAATAAACCAACTAGCATCAACTAC 59.032 37.037 0.00 0.00 0.00 2.73
107 108 8.511321 CAAATAAACCAACTAGCATCAACTACA 58.489 33.333 0.00 0.00 0.00 2.74
108 109 8.630054 AATAAACCAACTAGCATCAACTACAA 57.370 30.769 0.00 0.00 0.00 2.41
109 110 6.560253 AAACCAACTAGCATCAACTACAAG 57.440 37.500 0.00 0.00 0.00 3.16
110 111 5.483685 ACCAACTAGCATCAACTACAAGA 57.516 39.130 0.00 0.00 0.00 3.02
111 112 6.054860 ACCAACTAGCATCAACTACAAGAT 57.945 37.500 0.00 0.00 0.00 2.40
112 113 5.877012 ACCAACTAGCATCAACTACAAGATG 59.123 40.000 0.00 0.00 43.42 2.90
113 114 5.877012 CCAACTAGCATCAACTACAAGATGT 59.123 40.000 0.00 0.00 42.72 3.06
114 115 7.041721 CCAACTAGCATCAACTACAAGATGTA 58.958 38.462 0.00 0.00 42.72 2.29
115 116 7.549134 CCAACTAGCATCAACTACAAGATGTAA 59.451 37.037 0.00 0.00 42.72 2.41
116 117 9.102757 CAACTAGCATCAACTACAAGATGTAAT 57.897 33.333 0.00 0.00 42.72 1.89
117 118 8.879342 ACTAGCATCAACTACAAGATGTAATC 57.121 34.615 0.00 0.00 46.04 1.75
134 135 8.077836 GATGTAATCAACACTACTAGCAATCC 57.922 38.462 0.00 0.00 44.70 3.01
135 136 6.941857 TGTAATCAACACTACTAGCAATCCA 58.058 36.000 0.00 0.00 31.43 3.41
136 137 6.816640 TGTAATCAACACTACTAGCAATCCAC 59.183 38.462 0.00 0.00 31.43 4.02
137 138 3.845178 TCAACACTACTAGCAATCCACG 58.155 45.455 0.00 0.00 0.00 4.94
138 139 2.930040 CAACACTACTAGCAATCCACGG 59.070 50.000 0.00 0.00 0.00 4.94
139 140 1.480954 ACACTACTAGCAATCCACGGG 59.519 52.381 0.00 0.00 0.00 5.28
140 141 1.480954 CACTACTAGCAATCCACGGGT 59.519 52.381 0.00 0.00 0.00 5.28
141 142 2.691526 CACTACTAGCAATCCACGGGTA 59.308 50.000 0.00 0.00 0.00 3.69
142 143 2.692041 ACTACTAGCAATCCACGGGTAC 59.308 50.000 0.00 0.00 0.00 3.34
163 164 8.964476 GGTACCAATCTGAGATTTTGAGATAA 57.036 34.615 7.15 0.00 0.00 1.75
164 165 9.396022 GGTACCAATCTGAGATTTTGAGATAAA 57.604 33.333 7.15 0.00 0.00 1.40
167 168 9.917887 ACCAATCTGAGATTTTGAGATAAAGAT 57.082 29.630 4.67 0.00 0.00 2.40
189 190 9.829507 AAGATTGAATACAAGAGATGAACTAGG 57.170 33.333 0.00 0.00 39.46 3.02
190 191 8.428063 AGATTGAATACAAGAGATGAACTAGGG 58.572 37.037 0.00 0.00 39.46 3.53
191 192 7.496346 TTGAATACAAGAGATGAACTAGGGT 57.504 36.000 0.00 0.00 0.00 4.34
192 193 7.496346 TGAATACAAGAGATGAACTAGGGTT 57.504 36.000 0.00 0.00 38.52 4.11
193 194 7.918076 TGAATACAAGAGATGAACTAGGGTTT 58.082 34.615 0.00 0.00 35.58 3.27
194 195 7.824289 TGAATACAAGAGATGAACTAGGGTTTG 59.176 37.037 0.00 0.00 35.58 2.93
195 196 5.825593 ACAAGAGATGAACTAGGGTTTGA 57.174 39.130 0.00 0.00 35.58 2.69
196 197 5.799213 ACAAGAGATGAACTAGGGTTTGAG 58.201 41.667 0.00 0.00 35.58 3.02
197 198 5.544176 ACAAGAGATGAACTAGGGTTTGAGA 59.456 40.000 0.00 0.00 35.58 3.27
198 199 5.930837 AGAGATGAACTAGGGTTTGAGAG 57.069 43.478 0.00 0.00 35.58 3.20
199 200 4.714308 AGAGATGAACTAGGGTTTGAGAGG 59.286 45.833 0.00 0.00 35.58 3.69
200 201 4.689062 AGATGAACTAGGGTTTGAGAGGA 58.311 43.478 0.00 0.00 35.58 3.71
201 202 4.714308 AGATGAACTAGGGTTTGAGAGGAG 59.286 45.833 0.00 0.00 35.58 3.69
202 203 4.127918 TGAACTAGGGTTTGAGAGGAGA 57.872 45.455 0.00 0.00 35.58 3.71
203 204 4.689062 TGAACTAGGGTTTGAGAGGAGAT 58.311 43.478 0.00 0.00 35.58 2.75
204 205 4.467795 TGAACTAGGGTTTGAGAGGAGATG 59.532 45.833 0.00 0.00 35.58 2.90
205 206 3.379452 ACTAGGGTTTGAGAGGAGATGG 58.621 50.000 0.00 0.00 0.00 3.51
206 207 2.350863 AGGGTTTGAGAGGAGATGGT 57.649 50.000 0.00 0.00 0.00 3.55
207 208 1.912043 AGGGTTTGAGAGGAGATGGTG 59.088 52.381 0.00 0.00 0.00 4.17
208 209 1.630878 GGGTTTGAGAGGAGATGGTGT 59.369 52.381 0.00 0.00 0.00 4.16
209 210 2.040412 GGGTTTGAGAGGAGATGGTGTT 59.960 50.000 0.00 0.00 0.00 3.32
210 211 3.077359 GGTTTGAGAGGAGATGGTGTTG 58.923 50.000 0.00 0.00 0.00 3.33
211 212 3.496870 GGTTTGAGAGGAGATGGTGTTGT 60.497 47.826 0.00 0.00 0.00 3.32
212 213 4.137543 GTTTGAGAGGAGATGGTGTTGTT 58.862 43.478 0.00 0.00 0.00 2.83
213 214 3.407424 TGAGAGGAGATGGTGTTGTTG 57.593 47.619 0.00 0.00 0.00 3.33
214 215 2.972021 TGAGAGGAGATGGTGTTGTTGA 59.028 45.455 0.00 0.00 0.00 3.18
215 216 3.390967 TGAGAGGAGATGGTGTTGTTGAA 59.609 43.478 0.00 0.00 0.00 2.69
216 217 3.999663 GAGAGGAGATGGTGTTGTTGAAG 59.000 47.826 0.00 0.00 0.00 3.02
217 218 3.648067 AGAGGAGATGGTGTTGTTGAAGA 59.352 43.478 0.00 0.00 0.00 2.87
218 219 4.288105 AGAGGAGATGGTGTTGTTGAAGAT 59.712 41.667 0.00 0.00 0.00 2.40
219 220 4.330250 AGGAGATGGTGTTGTTGAAGATG 58.670 43.478 0.00 0.00 0.00 2.90
220 221 4.074970 GGAGATGGTGTTGTTGAAGATGT 58.925 43.478 0.00 0.00 0.00 3.06
221 222 4.520492 GGAGATGGTGTTGTTGAAGATGTT 59.480 41.667 0.00 0.00 0.00 2.71
222 223 5.443185 AGATGGTGTTGTTGAAGATGTTG 57.557 39.130 0.00 0.00 0.00 3.33
223 224 5.132502 AGATGGTGTTGTTGAAGATGTTGA 58.867 37.500 0.00 0.00 0.00 3.18
224 225 5.771666 AGATGGTGTTGTTGAAGATGTTGAT 59.228 36.000 0.00 0.00 0.00 2.57
225 226 5.185668 TGGTGTTGTTGAAGATGTTGATG 57.814 39.130 0.00 0.00 0.00 3.07
226 227 4.886489 TGGTGTTGTTGAAGATGTTGATGA 59.114 37.500 0.00 0.00 0.00 2.92
227 228 5.359292 TGGTGTTGTTGAAGATGTTGATGAA 59.641 36.000 0.00 0.00 0.00 2.57
228 229 5.916883 GGTGTTGTTGAAGATGTTGATGAAG 59.083 40.000 0.00 0.00 0.00 3.02
229 230 6.238731 GGTGTTGTTGAAGATGTTGATGAAGA 60.239 38.462 0.00 0.00 0.00 2.87
230 231 7.365741 GTGTTGTTGAAGATGTTGATGAAGAT 58.634 34.615 0.00 0.00 0.00 2.40
231 232 7.864379 GTGTTGTTGAAGATGTTGATGAAGATT 59.136 33.333 0.00 0.00 0.00 2.40
232 233 7.863877 TGTTGTTGAAGATGTTGATGAAGATTG 59.136 33.333 0.00 0.00 0.00 2.67
233 234 6.916440 TGTTGAAGATGTTGATGAAGATTGG 58.084 36.000 0.00 0.00 0.00 3.16
234 235 6.491062 TGTTGAAGATGTTGATGAAGATTGGT 59.509 34.615 0.00 0.00 0.00 3.67
235 236 6.748333 TGAAGATGTTGATGAAGATTGGTC 57.252 37.500 0.00 0.00 0.00 4.02
236 237 5.649395 TGAAGATGTTGATGAAGATTGGTCC 59.351 40.000 0.00 0.00 0.00 4.46
237 238 5.447778 AGATGTTGATGAAGATTGGTCCT 57.552 39.130 0.00 0.00 0.00 3.85
282 283 1.280710 TCAGCACCCCACGTGAATAAT 59.719 47.619 19.30 0.00 46.20 1.28
289 290 2.419990 CCCCACGTGAATAATCTGAGCA 60.420 50.000 19.30 0.00 0.00 4.26
294 295 5.450550 CCACGTGAATAATCTGAGCAGTCTA 60.451 44.000 19.30 0.00 0.00 2.59
299 300 7.651304 CGTGAATAATCTGAGCAGTCTAATTCT 59.349 37.037 0.00 0.00 0.00 2.40
319 320 4.333690 TCTCGTAGATCATAGGGCTAACC 58.666 47.826 0.00 0.00 35.61 2.85
332 333 0.737219 GCTAACCAGGCAGCTGATTG 59.263 55.000 20.43 14.19 34.86 2.67
335 336 2.584835 AACCAGGCAGCTGATTGTTA 57.415 45.000 20.43 0.00 0.00 2.41
336 337 2.814805 ACCAGGCAGCTGATTGTTAT 57.185 45.000 20.43 0.00 0.00 1.89
337 338 3.091633 ACCAGGCAGCTGATTGTTATT 57.908 42.857 20.43 0.00 0.00 1.40
344 345 5.068198 AGGCAGCTGATTGTTATTGGTTATG 59.932 40.000 20.43 0.00 0.00 1.90
346 347 6.204359 GCAGCTGATTGTTATTGGTTATGAG 58.796 40.000 20.43 0.00 0.00 2.90
348 349 5.300286 AGCTGATTGTTATTGGTTATGAGCC 59.700 40.000 0.00 0.00 0.00 4.70
355 356 5.822519 TGTTATTGGTTATGAGCCAGATGAC 59.177 40.000 0.00 0.00 37.31 3.06
361 362 0.678395 ATGAGCCAGATGACGCCTAG 59.322 55.000 0.00 0.00 0.00 3.02
362 363 0.684479 TGAGCCAGATGACGCCTAGT 60.684 55.000 0.00 0.00 0.00 2.57
371 372 0.679002 TGACGCCTAGTAGACGCCTT 60.679 55.000 5.73 0.00 0.00 4.35
372 373 0.455005 GACGCCTAGTAGACGCCTTT 59.545 55.000 5.73 0.00 0.00 3.11
794 811 5.636121 GTCGGTTTTGTTTGGAGAAAAACTT 59.364 36.000 9.36 0.00 41.40 2.66
868 888 2.320587 GCCAAGACTGTCAGGCGTG 61.321 63.158 22.58 14.18 37.41 5.34
888 908 1.003839 CCTAGCCTGTTTGACGCCA 60.004 57.895 0.00 0.00 0.00 5.69
962 982 3.753797 TGTAAAACTCACACACAGCACAA 59.246 39.130 0.00 0.00 0.00 3.33
1245 1604 0.106469 TCTACTCCGCCATGCTCTCT 60.106 55.000 0.00 0.00 0.00 3.10
1514 1873 0.657368 GACGCACGAAAGCTGTTTGG 60.657 55.000 0.00 0.00 0.00 3.28
1797 2156 1.821216 TGCTGAAAATCGGGAAGGTC 58.179 50.000 0.00 0.00 0.00 3.85
2014 2373 2.095461 CTGTCTTCGGTGAGATGAGGA 58.905 52.381 0.00 0.00 34.26 3.71
2053 2412 4.331968 TGATGAGGTTACATTTGTGGGAC 58.668 43.478 0.00 0.00 0.00 4.46
2211 2570 8.122330 GCACGATTTGAAGATGTAATGAATGTA 58.878 33.333 0.00 0.00 0.00 2.29
2275 2634 2.237143 TCACTTCTCAATGCCTGTAGGG 59.763 50.000 0.00 0.00 35.18 3.53
2331 2690 9.278734 GCTATAAGAAAATTACTGCAGTTGAAC 57.721 33.333 27.06 11.85 0.00 3.18
2334 2693 3.915437 AAATTACTGCAGTTGAACCCG 57.085 42.857 27.06 0.00 0.00 5.28
2410 2769 2.971330 TGGGAACAGGTTACGAAGGTAA 59.029 45.455 0.00 0.00 34.26 2.85
2607 2966 3.963428 ATAGACGCAACAGGAGTTCTT 57.037 42.857 0.00 0.00 35.28 2.52
2801 3160 3.055747 TGTTGGATGTACGCATGAAGGTA 60.056 43.478 0.00 0.00 35.07 3.08
2887 3247 4.673968 TGTACTTCTGTAGGGACTGATGT 58.326 43.478 0.00 8.04 41.52 3.06
3162 3522 6.183360 CCTGACAATCTGATATGCCATTTTGT 60.183 38.462 0.00 0.00 0.00 2.83
3163 3523 6.566141 TGACAATCTGATATGCCATTTTGTG 58.434 36.000 0.00 0.00 0.00 3.33
3225 3585 5.514274 TGAAAATGGAGCGAAAACTTTCT 57.486 34.783 1.03 0.00 35.07 2.52
3266 3626 4.912586 TGGAAACGGACAGGAAATATGAA 58.087 39.130 0.00 0.00 0.00 2.57
3267 3627 5.317808 TGGAAACGGACAGGAAATATGAAA 58.682 37.500 0.00 0.00 0.00 2.69
3268 3628 5.770663 TGGAAACGGACAGGAAATATGAAAA 59.229 36.000 0.00 0.00 0.00 2.29
3269 3629 6.435904 TGGAAACGGACAGGAAATATGAAAAT 59.564 34.615 0.00 0.00 0.00 1.82
3270 3630 6.751888 GGAAACGGACAGGAAATATGAAAATG 59.248 38.462 0.00 0.00 0.00 2.32
3271 3631 5.835113 ACGGACAGGAAATATGAAAATGG 57.165 39.130 0.00 0.00 0.00 3.16
3362 3722 0.584876 CGTTTTCCGGTGGAACAGAC 59.415 55.000 0.00 0.00 41.87 3.51
3378 3738 3.551846 ACAGACGTGGAAATGGAACTTT 58.448 40.909 0.00 0.00 0.00 2.66
3386 3746 5.221048 CGTGGAAATGGAACTTTCTGTTTCT 60.221 40.000 13.92 0.00 39.30 2.52
3419 3779 5.869344 GGACTTTCTGTTTTCAATATTGGCC 59.131 40.000 15.36 0.00 0.00 5.36
3420 3780 6.295292 GGACTTTCTGTTTTCAATATTGGCCT 60.295 38.462 15.36 0.00 0.00 5.19
3421 3781 6.458210 ACTTTCTGTTTTCAATATTGGCCTG 58.542 36.000 15.36 0.00 0.00 4.85
3422 3782 5.404466 TTCTGTTTTCAATATTGGCCTGG 57.596 39.130 15.36 0.00 0.00 4.45
3423 3783 3.195396 TCTGTTTTCAATATTGGCCTGGC 59.805 43.478 15.36 11.05 0.00 4.85
3470 3830 3.256879 ACCAAACAACACACAATGACACA 59.743 39.130 0.00 0.00 0.00 3.72
3502 3862 3.541632 TCGATCATTTAGGCCCAACTTC 58.458 45.455 0.00 0.00 0.00 3.01
3535 3895 7.937942 ACACACGTACTCAACTAGATCCTATAT 59.062 37.037 0.00 0.00 0.00 0.86
3560 3920 6.593770 TGCAATTGTCCAGTACTACTACAATG 59.406 38.462 21.20 17.26 36.76 2.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 9.286170 CCTTCTGATCTTGAACATGAATATGAT 57.714 33.333 0.00 0.00 37.73 2.45
14 15 7.718314 CCCTTCTGATCTTGAACATGAATATGA 59.282 37.037 0.00 0.00 37.73 2.15
15 16 7.501559 ACCCTTCTGATCTTGAACATGAATATG 59.498 37.037 0.00 0.00 40.24 1.78
16 17 7.580910 ACCCTTCTGATCTTGAACATGAATAT 58.419 34.615 0.00 0.00 0.00 1.28
17 18 6.962182 ACCCTTCTGATCTTGAACATGAATA 58.038 36.000 0.00 0.00 0.00 1.75
18 19 5.824421 ACCCTTCTGATCTTGAACATGAAT 58.176 37.500 0.00 0.00 0.00 2.57
19 20 5.246981 ACCCTTCTGATCTTGAACATGAA 57.753 39.130 0.00 0.00 0.00 2.57
20 21 4.916041 ACCCTTCTGATCTTGAACATGA 57.084 40.909 0.00 0.00 0.00 3.07
21 22 6.825213 TCAATACCCTTCTGATCTTGAACATG 59.175 38.462 0.00 0.00 0.00 3.21
22 23 6.962182 TCAATACCCTTCTGATCTTGAACAT 58.038 36.000 0.00 0.00 0.00 2.71
23 24 6.373005 TCAATACCCTTCTGATCTTGAACA 57.627 37.500 0.00 0.00 0.00 3.18
24 25 7.872113 ATTCAATACCCTTCTGATCTTGAAC 57.128 36.000 3.87 0.00 34.92 3.18
25 26 9.565090 CATATTCAATACCCTTCTGATCTTGAA 57.435 33.333 0.00 0.00 36.09 2.69
26 27 8.717717 ACATATTCAATACCCTTCTGATCTTGA 58.282 33.333 0.00 0.00 0.00 3.02
27 28 8.915057 ACATATTCAATACCCTTCTGATCTTG 57.085 34.615 0.00 0.00 0.00 3.02
28 29 9.927081 AAACATATTCAATACCCTTCTGATCTT 57.073 29.630 0.00 0.00 0.00 2.40
29 30 9.347240 CAAACATATTCAATACCCTTCTGATCT 57.653 33.333 0.00 0.00 0.00 2.75
30 31 9.342308 TCAAACATATTCAATACCCTTCTGATC 57.658 33.333 0.00 0.00 0.00 2.92
31 32 9.347240 CTCAAACATATTCAATACCCTTCTGAT 57.653 33.333 0.00 0.00 0.00 2.90
32 33 7.775093 CCTCAAACATATTCAATACCCTTCTGA 59.225 37.037 0.00 0.00 0.00 3.27
33 34 7.775093 TCCTCAAACATATTCAATACCCTTCTG 59.225 37.037 0.00 0.00 0.00 3.02
34 35 7.872138 TCCTCAAACATATTCAATACCCTTCT 58.128 34.615 0.00 0.00 0.00 2.85
35 36 8.697507 ATCCTCAAACATATTCAATACCCTTC 57.302 34.615 0.00 0.00 0.00 3.46
36 37 8.506083 AGATCCTCAAACATATTCAATACCCTT 58.494 33.333 0.00 0.00 0.00 3.95
37 38 7.941238 CAGATCCTCAAACATATTCAATACCCT 59.059 37.037 0.00 0.00 0.00 4.34
38 39 7.939039 TCAGATCCTCAAACATATTCAATACCC 59.061 37.037 0.00 0.00 0.00 3.69
39 40 8.908786 TCAGATCCTCAAACATATTCAATACC 57.091 34.615 0.00 0.00 0.00 2.73
41 42 9.904198 TGTTCAGATCCTCAAACATATTCAATA 57.096 29.630 0.00 0.00 0.00 1.90
42 43 8.812513 TGTTCAGATCCTCAAACATATTCAAT 57.187 30.769 0.00 0.00 0.00 2.57
43 44 8.812513 ATGTTCAGATCCTCAAACATATTCAA 57.187 30.769 9.56 0.00 39.78 2.69
44 45 8.812513 AATGTTCAGATCCTCAAACATATTCA 57.187 30.769 10.97 0.00 40.46 2.57
53 54 9.919416 TGGAATATTAAATGTTCAGATCCTCAA 57.081 29.630 0.00 0.00 32.71 3.02
54 55 9.342308 GTGGAATATTAAATGTTCAGATCCTCA 57.658 33.333 0.00 0.00 32.71 3.86
55 56 8.787852 GGTGGAATATTAAATGTTCAGATCCTC 58.212 37.037 0.00 0.00 32.71 3.71
56 57 8.281531 TGGTGGAATATTAAATGTTCAGATCCT 58.718 33.333 0.00 0.00 32.71 3.24
57 58 8.463930 TGGTGGAATATTAAATGTTCAGATCC 57.536 34.615 0.00 0.00 32.71 3.36
71 72 8.474831 GCTAGTTGGTTTATTTGGTGGAATATT 58.525 33.333 0.00 0.00 0.00 1.28
72 73 7.617723 TGCTAGTTGGTTTATTTGGTGGAATAT 59.382 33.333 0.00 0.00 0.00 1.28
73 74 6.948886 TGCTAGTTGGTTTATTTGGTGGAATA 59.051 34.615 0.00 0.00 0.00 1.75
74 75 5.777732 TGCTAGTTGGTTTATTTGGTGGAAT 59.222 36.000 0.00 0.00 0.00 3.01
75 76 5.141182 TGCTAGTTGGTTTATTTGGTGGAA 58.859 37.500 0.00 0.00 0.00 3.53
76 77 4.730966 TGCTAGTTGGTTTATTTGGTGGA 58.269 39.130 0.00 0.00 0.00 4.02
77 78 5.184864 TGATGCTAGTTGGTTTATTTGGTGG 59.815 40.000 0.00 0.00 0.00 4.61
78 79 6.266168 TGATGCTAGTTGGTTTATTTGGTG 57.734 37.500 0.00 0.00 0.00 4.17
79 80 6.493458 AGTTGATGCTAGTTGGTTTATTTGGT 59.507 34.615 0.00 0.00 0.00 3.67
80 81 6.924111 AGTTGATGCTAGTTGGTTTATTTGG 58.076 36.000 0.00 0.00 0.00 3.28
81 82 8.511321 TGTAGTTGATGCTAGTTGGTTTATTTG 58.489 33.333 0.00 0.00 0.00 2.32
82 83 8.630054 TGTAGTTGATGCTAGTTGGTTTATTT 57.370 30.769 0.00 0.00 0.00 1.40
83 84 8.630054 TTGTAGTTGATGCTAGTTGGTTTATT 57.370 30.769 0.00 0.00 0.00 1.40
84 85 8.100791 TCTTGTAGTTGATGCTAGTTGGTTTAT 58.899 33.333 0.00 0.00 0.00 1.40
85 86 7.446769 TCTTGTAGTTGATGCTAGTTGGTTTA 58.553 34.615 0.00 0.00 0.00 2.01
86 87 6.296026 TCTTGTAGTTGATGCTAGTTGGTTT 58.704 36.000 0.00 0.00 0.00 3.27
87 88 5.865085 TCTTGTAGTTGATGCTAGTTGGTT 58.135 37.500 0.00 0.00 0.00 3.67
88 89 5.483685 TCTTGTAGTTGATGCTAGTTGGT 57.516 39.130 0.00 0.00 0.00 3.67
89 90 5.877012 ACATCTTGTAGTTGATGCTAGTTGG 59.123 40.000 0.00 0.00 42.57 3.77
90 91 6.974932 ACATCTTGTAGTTGATGCTAGTTG 57.025 37.500 0.00 0.00 42.57 3.16
91 92 9.319143 GATTACATCTTGTAGTTGATGCTAGTT 57.681 33.333 0.00 0.00 42.57 2.24
92 93 8.478066 TGATTACATCTTGTAGTTGATGCTAGT 58.522 33.333 0.00 0.00 42.57 2.57
93 94 8.877808 TGATTACATCTTGTAGTTGATGCTAG 57.122 34.615 0.00 0.00 42.57 3.42
94 95 9.098355 GTTGATTACATCTTGTAGTTGATGCTA 57.902 33.333 0.00 0.00 42.57 3.49
95 96 7.607607 TGTTGATTACATCTTGTAGTTGATGCT 59.392 33.333 0.00 0.00 42.57 3.79
96 97 7.693951 GTGTTGATTACATCTTGTAGTTGATGC 59.306 37.037 0.00 0.00 42.57 3.91
97 98 8.939929 AGTGTTGATTACATCTTGTAGTTGATG 58.060 33.333 0.00 0.00 43.90 3.07
99 100 9.419297 GTAGTGTTGATTACATCTTGTAGTTGA 57.581 33.333 0.00 0.00 39.39 3.18
100 101 9.424319 AGTAGTGTTGATTACATCTTGTAGTTG 57.576 33.333 0.00 0.00 39.39 3.16
103 104 9.239002 GCTAGTAGTGTTGATTACATCTTGTAG 57.761 37.037 0.00 0.00 39.39 2.74
104 105 8.745590 TGCTAGTAGTGTTGATTACATCTTGTA 58.254 33.333 0.00 0.00 39.39 2.41
105 106 7.611770 TGCTAGTAGTGTTGATTACATCTTGT 58.388 34.615 0.00 0.00 39.39 3.16
106 107 8.479313 TTGCTAGTAGTGTTGATTACATCTTG 57.521 34.615 0.00 0.00 39.39 3.02
107 108 9.319143 GATTGCTAGTAGTGTTGATTACATCTT 57.681 33.333 0.00 0.00 39.39 2.40
108 109 7.928706 GGATTGCTAGTAGTGTTGATTACATCT 59.071 37.037 0.00 0.00 39.39 2.90
109 110 7.710907 TGGATTGCTAGTAGTGTTGATTACATC 59.289 37.037 0.00 0.00 39.39 3.06
110 111 7.495934 GTGGATTGCTAGTAGTGTTGATTACAT 59.504 37.037 0.00 0.00 39.39 2.29
111 112 6.816640 GTGGATTGCTAGTAGTGTTGATTACA 59.183 38.462 0.00 0.00 0.00 2.41
112 113 6.019801 CGTGGATTGCTAGTAGTGTTGATTAC 60.020 42.308 0.00 0.00 0.00 1.89
113 114 6.040247 CGTGGATTGCTAGTAGTGTTGATTA 58.960 40.000 0.00 0.00 0.00 1.75
114 115 4.870426 CGTGGATTGCTAGTAGTGTTGATT 59.130 41.667 0.00 0.00 0.00 2.57
115 116 4.433615 CGTGGATTGCTAGTAGTGTTGAT 58.566 43.478 0.00 0.00 0.00 2.57
116 117 3.368013 CCGTGGATTGCTAGTAGTGTTGA 60.368 47.826 0.00 0.00 0.00 3.18
117 118 2.930040 CCGTGGATTGCTAGTAGTGTTG 59.070 50.000 0.00 0.00 0.00 3.33
118 119 2.093658 CCCGTGGATTGCTAGTAGTGTT 60.094 50.000 0.00 0.00 0.00 3.32
119 120 1.480954 CCCGTGGATTGCTAGTAGTGT 59.519 52.381 0.00 0.00 0.00 3.55
120 121 1.480954 ACCCGTGGATTGCTAGTAGTG 59.519 52.381 0.00 0.00 0.00 2.74
121 122 1.861982 ACCCGTGGATTGCTAGTAGT 58.138 50.000 0.00 0.00 0.00 2.73
122 123 2.035576 GGTACCCGTGGATTGCTAGTAG 59.964 54.545 0.00 0.00 0.00 2.57
123 124 2.034124 GGTACCCGTGGATTGCTAGTA 58.966 52.381 0.00 0.00 0.00 1.82
124 125 0.828677 GGTACCCGTGGATTGCTAGT 59.171 55.000 0.00 0.00 0.00 2.57
125 126 0.828022 TGGTACCCGTGGATTGCTAG 59.172 55.000 10.07 0.00 0.00 3.42
126 127 1.277579 TTGGTACCCGTGGATTGCTA 58.722 50.000 10.07 0.00 0.00 3.49
127 128 0.623723 ATTGGTACCCGTGGATTGCT 59.376 50.000 10.07 0.00 0.00 3.91
128 129 1.021968 GATTGGTACCCGTGGATTGC 58.978 55.000 10.07 0.00 0.00 3.56
129 130 2.093181 TCAGATTGGTACCCGTGGATTG 60.093 50.000 10.07 0.00 0.00 2.67
130 131 2.170607 CTCAGATTGGTACCCGTGGATT 59.829 50.000 10.07 0.00 0.00 3.01
131 132 1.762957 CTCAGATTGGTACCCGTGGAT 59.237 52.381 10.07 0.00 0.00 3.41
132 133 1.191535 CTCAGATTGGTACCCGTGGA 58.808 55.000 10.07 0.00 0.00 4.02
133 134 1.191535 TCTCAGATTGGTACCCGTGG 58.808 55.000 10.07 0.00 0.00 4.94
134 135 3.543680 AATCTCAGATTGGTACCCGTG 57.456 47.619 10.07 1.44 0.00 4.94
135 136 4.019681 TCAAAATCTCAGATTGGTACCCGT 60.020 41.667 10.07 0.00 0.00 5.28
136 137 4.513442 TCAAAATCTCAGATTGGTACCCG 58.487 43.478 10.07 0.00 0.00 5.28
137 138 5.745227 TCTCAAAATCTCAGATTGGTACCC 58.255 41.667 10.07 0.00 0.00 3.69
138 139 8.964476 TTATCTCAAAATCTCAGATTGGTACC 57.036 34.615 4.43 4.43 0.00 3.34
141 142 9.917887 ATCTTTATCTCAAAATCTCAGATTGGT 57.082 29.630 0.00 0.00 0.00 3.67
163 164 9.829507 CCTAGTTCATCTCTTGTATTCAATCTT 57.170 33.333 0.00 0.00 32.82 2.40
164 165 8.428063 CCCTAGTTCATCTCTTGTATTCAATCT 58.572 37.037 0.00 0.00 32.82 2.40
165 166 8.207545 ACCCTAGTTCATCTCTTGTATTCAATC 58.792 37.037 0.00 0.00 32.82 2.67
166 167 8.095452 ACCCTAGTTCATCTCTTGTATTCAAT 57.905 34.615 0.00 0.00 32.82 2.57
167 168 7.496346 ACCCTAGTTCATCTCTTGTATTCAA 57.504 36.000 0.00 0.00 0.00 2.69
168 169 7.496346 AACCCTAGTTCATCTCTTGTATTCA 57.504 36.000 0.00 0.00 0.00 2.57
169 170 8.041323 TCAAACCCTAGTTCATCTCTTGTATTC 58.959 37.037 0.00 0.00 34.19 1.75
170 171 7.918076 TCAAACCCTAGTTCATCTCTTGTATT 58.082 34.615 0.00 0.00 34.19 1.89
171 172 7.400339 TCTCAAACCCTAGTTCATCTCTTGTAT 59.600 37.037 0.00 0.00 34.19 2.29
172 173 6.724441 TCTCAAACCCTAGTTCATCTCTTGTA 59.276 38.462 0.00 0.00 34.19 2.41
173 174 5.544176 TCTCAAACCCTAGTTCATCTCTTGT 59.456 40.000 0.00 0.00 34.19 3.16
174 175 6.042638 TCTCAAACCCTAGTTCATCTCTTG 57.957 41.667 0.00 0.00 34.19 3.02
175 176 5.188751 CCTCTCAAACCCTAGTTCATCTCTT 59.811 44.000 0.00 0.00 34.19 2.85
176 177 4.714308 CCTCTCAAACCCTAGTTCATCTCT 59.286 45.833 0.00 0.00 34.19 3.10
177 178 4.712337 TCCTCTCAAACCCTAGTTCATCTC 59.288 45.833 0.00 0.00 34.19 2.75
178 179 4.689062 TCCTCTCAAACCCTAGTTCATCT 58.311 43.478 0.00 0.00 34.19 2.90
179 180 4.712337 TCTCCTCTCAAACCCTAGTTCATC 59.288 45.833 0.00 0.00 34.19 2.92
180 181 4.689062 TCTCCTCTCAAACCCTAGTTCAT 58.311 43.478 0.00 0.00 34.19 2.57
181 182 4.127918 TCTCCTCTCAAACCCTAGTTCA 57.872 45.455 0.00 0.00 34.19 3.18
182 183 4.141824 CCATCTCCTCTCAAACCCTAGTTC 60.142 50.000 0.00 0.00 34.19 3.01
183 184 3.777522 CCATCTCCTCTCAAACCCTAGTT 59.222 47.826 0.00 0.00 38.03 2.24
184 185 3.246167 ACCATCTCCTCTCAAACCCTAGT 60.246 47.826 0.00 0.00 0.00 2.57
185 186 3.133721 CACCATCTCCTCTCAAACCCTAG 59.866 52.174 0.00 0.00 0.00 3.02
186 187 3.107601 CACCATCTCCTCTCAAACCCTA 58.892 50.000 0.00 0.00 0.00 3.53
187 188 1.912043 CACCATCTCCTCTCAAACCCT 59.088 52.381 0.00 0.00 0.00 4.34
188 189 1.630878 ACACCATCTCCTCTCAAACCC 59.369 52.381 0.00 0.00 0.00 4.11
189 190 3.077359 CAACACCATCTCCTCTCAAACC 58.923 50.000 0.00 0.00 0.00 3.27
190 191 3.744660 ACAACACCATCTCCTCTCAAAC 58.255 45.455 0.00 0.00 0.00 2.93
191 192 4.136796 CAACAACACCATCTCCTCTCAAA 58.863 43.478 0.00 0.00 0.00 2.69
192 193 3.390967 TCAACAACACCATCTCCTCTCAA 59.609 43.478 0.00 0.00 0.00 3.02
193 194 2.972021 TCAACAACACCATCTCCTCTCA 59.028 45.455 0.00 0.00 0.00 3.27
194 195 3.685139 TCAACAACACCATCTCCTCTC 57.315 47.619 0.00 0.00 0.00 3.20
195 196 3.648067 TCTTCAACAACACCATCTCCTCT 59.352 43.478 0.00 0.00 0.00 3.69
196 197 4.008074 TCTTCAACAACACCATCTCCTC 57.992 45.455 0.00 0.00 0.00 3.71
197 198 4.202503 ACATCTTCAACAACACCATCTCCT 60.203 41.667 0.00 0.00 0.00 3.69
198 199 4.074970 ACATCTTCAACAACACCATCTCC 58.925 43.478 0.00 0.00 0.00 3.71
199 200 5.239306 TCAACATCTTCAACAACACCATCTC 59.761 40.000 0.00 0.00 0.00 2.75
200 201 5.132502 TCAACATCTTCAACAACACCATCT 58.867 37.500 0.00 0.00 0.00 2.90
201 202 5.437289 TCAACATCTTCAACAACACCATC 57.563 39.130 0.00 0.00 0.00 3.51
202 203 5.535783 TCATCAACATCTTCAACAACACCAT 59.464 36.000 0.00 0.00 0.00 3.55
203 204 4.886489 TCATCAACATCTTCAACAACACCA 59.114 37.500 0.00 0.00 0.00 4.17
204 205 5.437289 TCATCAACATCTTCAACAACACC 57.563 39.130 0.00 0.00 0.00 4.16
205 206 6.728200 TCTTCATCAACATCTTCAACAACAC 58.272 36.000 0.00 0.00 0.00 3.32
206 207 6.940831 TCTTCATCAACATCTTCAACAACA 57.059 33.333 0.00 0.00 0.00 3.33
207 208 7.327761 CCAATCTTCATCAACATCTTCAACAAC 59.672 37.037 0.00 0.00 0.00 3.32
208 209 7.014518 ACCAATCTTCATCAACATCTTCAACAA 59.985 33.333 0.00 0.00 0.00 2.83
209 210 6.491062 ACCAATCTTCATCAACATCTTCAACA 59.509 34.615 0.00 0.00 0.00 3.33
210 211 6.917533 ACCAATCTTCATCAACATCTTCAAC 58.082 36.000 0.00 0.00 0.00 3.18
211 212 6.151648 GGACCAATCTTCATCAACATCTTCAA 59.848 38.462 0.00 0.00 0.00 2.69
212 213 5.649395 GGACCAATCTTCATCAACATCTTCA 59.351 40.000 0.00 0.00 0.00 3.02
213 214 5.884792 AGGACCAATCTTCATCAACATCTTC 59.115 40.000 0.00 0.00 0.00 2.87
214 215 5.824421 AGGACCAATCTTCATCAACATCTT 58.176 37.500 0.00 0.00 0.00 2.40
215 216 5.447778 AGGACCAATCTTCATCAACATCT 57.552 39.130 0.00 0.00 0.00 2.90
216 217 5.235186 CGTAGGACCAATCTTCATCAACATC 59.765 44.000 0.00 0.00 0.00 3.06
217 218 5.118990 CGTAGGACCAATCTTCATCAACAT 58.881 41.667 0.00 0.00 0.00 2.71
218 219 4.020573 ACGTAGGACCAATCTTCATCAACA 60.021 41.667 0.00 0.00 0.00 3.33
219 220 4.330074 CACGTAGGACCAATCTTCATCAAC 59.670 45.833 0.00 0.00 0.00 3.18
220 221 4.221924 TCACGTAGGACCAATCTTCATCAA 59.778 41.667 0.00 0.00 0.00 2.57
221 222 3.767131 TCACGTAGGACCAATCTTCATCA 59.233 43.478 0.00 0.00 0.00 3.07
222 223 4.113354 GTCACGTAGGACCAATCTTCATC 58.887 47.826 0.00 0.00 0.00 2.92
223 224 3.428999 CGTCACGTAGGACCAATCTTCAT 60.429 47.826 0.00 0.00 34.24 2.57
224 225 2.094906 CGTCACGTAGGACCAATCTTCA 60.095 50.000 0.00 0.00 34.24 3.02
225 226 2.094854 ACGTCACGTAGGACCAATCTTC 60.095 50.000 0.00 0.00 38.73 2.87
226 227 1.891150 ACGTCACGTAGGACCAATCTT 59.109 47.619 0.00 0.00 38.73 2.40
227 228 1.201647 CACGTCACGTAGGACCAATCT 59.798 52.381 0.41 0.00 38.32 2.40
228 229 1.068055 ACACGTCACGTAGGACCAATC 60.068 52.381 0.41 0.00 38.32 2.67
229 230 0.963962 ACACGTCACGTAGGACCAAT 59.036 50.000 0.41 0.00 38.32 3.16
230 231 0.031043 CACACGTCACGTAGGACCAA 59.969 55.000 0.41 0.00 38.32 3.67
231 232 0.818852 TCACACGTCACGTAGGACCA 60.819 55.000 0.41 0.00 38.32 4.02
232 233 0.311790 TTCACACGTCACGTAGGACC 59.688 55.000 0.41 0.00 38.32 4.46
233 234 2.049228 CTTTCACACGTCACGTAGGAC 58.951 52.381 0.41 0.00 38.32 3.85
234 235 1.601162 GCTTTCACACGTCACGTAGGA 60.601 52.381 0.41 0.00 38.32 2.94
235 236 0.782384 GCTTTCACACGTCACGTAGG 59.218 55.000 0.41 0.00 38.32 3.18
236 237 0.782384 GGCTTTCACACGTCACGTAG 59.218 55.000 0.41 0.00 38.32 3.51
237 238 0.386476 AGGCTTTCACACGTCACGTA 59.614 50.000 0.41 0.00 38.32 3.57
264 265 1.559682 AGATTATTCACGTGGGGTGCT 59.440 47.619 17.00 3.91 46.56 4.40
282 283 5.429130 TCTACGAGAATTAGACTGCTCAGA 58.571 41.667 3.60 0.00 0.00 3.27
289 290 6.376018 GCCCTATGATCTACGAGAATTAGACT 59.624 42.308 0.00 0.00 0.00 3.24
294 295 6.071278 GGTTAGCCCTATGATCTACGAGAATT 60.071 42.308 0.00 0.00 0.00 2.17
299 300 4.079970 CTGGTTAGCCCTATGATCTACGA 58.920 47.826 0.00 0.00 0.00 3.43
319 320 2.756760 ACCAATAACAATCAGCTGCCTG 59.243 45.455 9.47 11.00 40.54 4.85
324 325 5.300286 GGCTCATAACCAATAACAATCAGCT 59.700 40.000 0.00 0.00 0.00 4.24
332 333 5.050091 CGTCATCTGGCTCATAACCAATAAC 60.050 44.000 0.00 0.00 36.56 1.89
335 336 3.470709 CGTCATCTGGCTCATAACCAAT 58.529 45.455 0.00 0.00 36.56 3.16
336 337 2.905075 CGTCATCTGGCTCATAACCAA 58.095 47.619 0.00 0.00 36.56 3.67
337 338 1.473257 GCGTCATCTGGCTCATAACCA 60.473 52.381 0.00 0.00 35.40 3.67
344 345 1.268352 CTACTAGGCGTCATCTGGCTC 59.732 57.143 0.00 0.00 42.80 4.70
346 347 1.001158 GTCTACTAGGCGTCATCTGGC 60.001 57.143 0.00 0.00 0.00 4.85
348 349 1.334239 GCGTCTACTAGGCGTCATCTG 60.334 57.143 11.57 0.00 46.51 2.90
628 636 9.217223 CACGGCATATTAAGTGTGTATTTAAAC 57.783 33.333 0.00 0.00 0.00 2.01
635 643 7.618502 AATTTCACGGCATATTAAGTGTGTA 57.381 32.000 0.00 0.00 36.16 2.90
810 830 0.990295 GCGCGAACGTTTTTCTGTCC 60.990 55.000 12.10 0.00 42.83 4.02
853 873 2.031163 GCCACGCCTGACAGTCTT 59.969 61.111 1.31 0.00 0.00 3.01
873 893 1.526575 CCATTGGCGTCAAACAGGCT 61.527 55.000 6.51 0.00 36.36 4.58
888 908 1.003355 CTCCTGTGTGACGCCCATT 60.003 57.895 0.00 0.00 0.00 3.16
899 919 1.130749 CTTACGACGAGACCTCCTGTG 59.869 57.143 0.00 0.00 0.00 3.66
1125 1484 2.038762 AGGTGGAAGGTGGTGGGT 60.039 61.111 0.00 0.00 0.00 4.51
1197 1556 1.760875 GGGATAGGGCGTGGAGTCA 60.761 63.158 0.00 0.00 0.00 3.41
1386 1745 0.824759 GGATCGACCTAACCAGCTGT 59.175 55.000 13.81 0.00 35.41 4.40
1514 1873 2.076863 CATTCCTCTCGGTCAAACCAC 58.923 52.381 0.00 0.00 38.47 4.16
1598 1957 0.804989 GGGCATCCGTTCAAACAGAG 59.195 55.000 0.00 0.00 0.00 3.35
1797 2156 1.875514 CTCCACGCATAACCATGGATG 59.124 52.381 21.47 13.99 40.43 3.51
2053 2412 0.595588 TGGGTGCACGCATTTAACAG 59.404 50.000 30.46 0.00 33.68 3.16
2211 2570 7.890127 TCTGGTTGGACTTTCATATCTTTGATT 59.110 33.333 0.00 0.00 0.00 2.57
2331 2690 7.309177 TCACAACATAATTAACATTGTTCGGG 58.691 34.615 5.07 3.77 31.25 5.14
2334 2693 9.357652 AGCATCACAACATAATTAACATTGTTC 57.642 29.630 5.07 0.00 31.25 3.18
2410 2769 0.619832 TCCTCCTGCATCAGCTTCCT 60.620 55.000 0.00 0.00 42.74 3.36
2801 3160 2.047830 GATAGTGGGGTTCGAGGGAAT 58.952 52.381 0.00 0.00 34.05 3.01
3001 3361 6.534079 GCACTACTGATTATTAAACCGACACT 59.466 38.462 0.00 0.00 0.00 3.55
3162 3522 0.916086 ACCTTCCACCAGTCACAACA 59.084 50.000 0.00 0.00 0.00 3.33
3163 3523 2.767505 CTACCTTCCACCAGTCACAAC 58.232 52.381 0.00 0.00 0.00 3.32
3266 3626 6.916932 CGTTTTGCAAATTTCCATTTCCATTT 59.083 30.769 13.65 0.00 29.41 2.32
3267 3627 6.437094 CGTTTTGCAAATTTCCATTTCCATT 58.563 32.000 13.65 0.00 29.41 3.16
3268 3628 5.048852 CCGTTTTGCAAATTTCCATTTCCAT 60.049 36.000 13.65 0.00 29.41 3.41
3269 3629 4.274459 CCGTTTTGCAAATTTCCATTTCCA 59.726 37.500 13.65 0.00 29.41 3.53
3270 3630 4.513318 TCCGTTTTGCAAATTTCCATTTCC 59.487 37.500 13.65 0.00 29.41 3.13
3271 3631 5.665381 TCCGTTTTGCAAATTTCCATTTC 57.335 34.783 13.65 0.00 29.41 2.17
3313 3673 5.295540 CCGTTTTTGTTTCCATTTCCACATT 59.704 36.000 0.00 0.00 0.00 2.71
3336 3696 1.211709 CACCGGAAAACGCCATTCC 59.788 57.895 9.46 4.78 42.41 3.01
3362 3722 4.568152 AACAGAAAGTTCCATTTCCACG 57.432 40.909 0.00 0.00 39.53 4.94
3378 3738 7.388776 CAGAAAGTCCATATTCACAGAAACAGA 59.611 37.037 0.00 0.00 0.00 3.41
3386 3746 7.815840 TGAAAACAGAAAGTCCATATTCACA 57.184 32.000 0.00 0.00 0.00 3.58
3419 3779 2.338577 ACAAAGCAGCTATAGGCCAG 57.661 50.000 5.01 0.00 43.05 4.85
3420 3780 3.475566 CTACAAAGCAGCTATAGGCCA 57.524 47.619 5.01 0.00 43.05 5.36
3470 3830 5.180868 GCCTAAATGATCGATTCTGCTCATT 59.819 40.000 0.00 1.27 39.39 2.57
3502 3862 7.248437 TCTAGTTGAGTACGTGTGTGATATTG 58.752 38.462 0.00 0.00 0.00 1.90
3535 3895 5.731957 TGTAGTAGTACTGGACAATTGCA 57.268 39.130 13.29 0.00 0.00 4.08


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

AutoCloner maintained by Alex Coulton.