Multiple sequence alignment - TraesCS5B01G095100

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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 TraesCS5B01G095100 chr5B 100.000 3034 0 0 1 3034 124775651 124772618 0.000000e+00 5603.0
1 TraesCS5B01G095100 chr5B 96.154 52 2 0 1835 1886 124773750 124773699 5.390000e-13 86.1
2 TraesCS5B01G095100 chr5B 96.154 52 2 0 1902 1953 124773817 124773766 5.390000e-13 86.1
3 TraesCS5B01G095100 chr5D 90.982 1253 52 25 1835 3034 114013101 114011857 0.000000e+00 1631.0
4 TraesCS5B01G095100 chr5D 87.430 1432 64 39 561 1952 114014406 114013051 0.000000e+00 1541.0
5 TraesCS5B01G095100 chr5D 92.344 209 12 2 252 457 114015013 114014806 8.230000e-76 294.0
6 TraesCS5B01G095100 chr5D 91.736 121 4 4 53 171 114015128 114015012 2.420000e-36 163.0
7 TraesCS5B01G095100 chr5D 88.119 101 7 5 452 548 114014736 114014637 6.870000e-22 115.0
8 TraesCS5B01G095100 chr5D 97.959 49 1 0 1838 1886 114013031 114012983 5.390000e-13 86.1
9 TraesCS5B01G095100 chr5A 93.663 647 37 3 1911 2554 119226616 119225971 0.000000e+00 965.0
10 TraesCS5B01G095100 chr5A 86.920 841 44 34 468 1273 119227939 119227130 0.000000e+00 883.0
11 TraesCS5B01G095100 chr5A 90.146 548 23 10 2499 3034 119225969 119225441 0.000000e+00 684.0
12 TraesCS5B01G095100 chr5A 88.023 526 36 14 1362 1886 119227074 119226575 5.600000e-167 597.0
13 TraesCS5B01G095100 chr5A 84.798 421 35 11 1465 1885 701226527 701226918 2.190000e-106 396.0
14 TraesCS5B01G095100 chr5A 91.748 206 15 2 252 457 119228225 119228022 4.950000e-73 285.0
15 TraesCS5B01G095100 chr5A 87.778 90 10 1 165 253 498384060 498383971 1.490000e-18 104.0
16 TraesCS5B01G095100 chr7D 85.350 157 19 2 1439 1594 566041063 566041216 3.130000e-35 159.0
17 TraesCS5B01G095100 chr7D 93.421 76 4 1 1447 1521 34871044 34871119 8.890000e-21 111.0
18 TraesCS5B01G095100 chr7D 93.182 44 3 0 989 1032 635503185 635503228 7.020000e-07 65.8
19 TraesCS5B01G095100 chr7B 85.714 126 14 2 1439 1564 617569242 617569363 2.450000e-26 130.0
20 TraesCS5B01G095100 chr7B 83.333 126 12 7 1320 1445 740568354 740568238 1.150000e-19 108.0
21 TraesCS5B01G095100 chr7B 95.745 47 2 0 989 1035 740568988 740568942 3.240000e-10 76.8
22 TraesCS5B01G095100 chr7B 95.455 44 1 1 989 1032 740627279 740627237 5.430000e-08 69.4
23 TraesCS5B01G095100 chr7B 95.122 41 2 0 992 1032 740513982 740513942 7.020000e-07 65.8
24 TraesCS5B01G095100 chr3A 89.474 95 9 1 164 257 111496322 111496228 5.310000e-23 119.0
25 TraesCS5B01G095100 chr3A 89.412 85 8 1 170 253 183555997 183556081 4.140000e-19 106.0
26 TraesCS5B01G095100 chr1D 91.765 85 6 1 170 253 212378662 212378746 1.910000e-22 117.0
27 TraesCS5B01G095100 chr2A 89.655 87 6 3 170 253 52398094 52398008 1.150000e-19 108.0
28 TraesCS5B01G095100 chr2A 86.022 93 12 1 165 256 109182424 109182332 6.920000e-17 99.0
29 TraesCS5B01G095100 chr7A 92.105 76 5 1 1447 1521 35022017 35022092 4.140000e-19 106.0
30 TraesCS5B01G095100 chr7A 89.412 85 8 1 170 253 156937541 156937457 4.140000e-19 106.0
31 TraesCS5B01G095100 chr4A 89.412 85 8 1 170 253 651150981 651151065 4.140000e-19 106.0
32 TraesCS5B01G095100 chr6A 88.372 86 9 1 169 253 421217768 421217853 5.350000e-18 102.0


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 TraesCS5B01G095100 chr5B 124772618 124775651 3033 True 1925.066667 5603 97.436000 1 3034 3 chr5B.!!$R1 3033
1 TraesCS5B01G095100 chr5D 114011857 114015128 3271 True 638.350000 1631 91.428333 53 3034 6 chr5D.!!$R1 2981
2 TraesCS5B01G095100 chr5A 119225441 119228225 2784 True 682.800000 965 90.100000 252 3034 5 chr5A.!!$R2 2782

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
726 1032 0.331616 AAAAGGACATTCTCCCCCGG 59.668 55.0 0.0 0.0 40.53 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2282 2719 0.034059 AGAAGTGCAGACGGGAACAG 59.966 55.0 0.0 0.0 0.0 3.16 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
30 31 3.539107 CGCGACGCTTAACCGGTC 61.539 66.667 19.02 0.00 0.00 4.79
31 32 3.539107 GCGACGCTTAACCGGTCG 61.539 66.667 8.04 10.16 40.08 4.79
32 33 2.126734 CGACGCTTAACCGGTCGT 60.127 61.111 17.80 17.80 37.92 4.34
33 34 2.148365 CGACGCTTAACCGGTCGTC 61.148 63.158 27.56 27.56 45.30 4.20
34 35 1.211190 GACGCTTAACCGGTCGTCT 59.789 57.895 29.12 10.16 45.31 4.18
35 36 1.069378 GACGCTTAACCGGTCGTCTG 61.069 60.000 29.12 14.74 45.31 3.51
36 37 1.804326 CGCTTAACCGGTCGTCTGG 60.804 63.158 8.04 5.93 45.17 3.86
42 43 2.280524 CCGGTCGTCTGGTGCAAA 60.281 61.111 0.00 0.00 35.48 3.68
43 44 1.890041 CCGGTCGTCTGGTGCAAAA 60.890 57.895 0.00 0.00 35.48 2.44
44 45 1.278637 CGGTCGTCTGGTGCAAAAC 59.721 57.895 0.00 0.00 0.00 2.43
45 46 1.278637 GGTCGTCTGGTGCAAAACG 59.721 57.895 0.00 0.00 36.50 3.60
46 47 1.433837 GGTCGTCTGGTGCAAAACGT 61.434 55.000 10.08 0.00 36.55 3.99
47 48 0.375803 GTCGTCTGGTGCAAAACGTT 59.624 50.000 0.00 0.00 36.55 3.99
48 49 1.088306 TCGTCTGGTGCAAAACGTTT 58.912 45.000 7.96 7.96 36.55 3.60
49 50 1.062880 TCGTCTGGTGCAAAACGTTTC 59.937 47.619 15.01 3.22 36.55 2.78
50 51 1.835121 GTCTGGTGCAAAACGTTTCC 58.165 50.000 15.01 11.56 0.00 3.13
51 52 0.741915 TCTGGTGCAAAACGTTTCCC 59.258 50.000 15.01 12.15 0.00 3.97
52 53 0.744281 CTGGTGCAAAACGTTTCCCT 59.256 50.000 15.01 0.00 0.00 4.20
53 54 1.136110 CTGGTGCAAAACGTTTCCCTT 59.864 47.619 15.01 0.00 0.00 3.95
54 55 1.550976 TGGTGCAAAACGTTTCCCTTT 59.449 42.857 15.01 0.00 0.00 3.11
55 56 1.930503 GGTGCAAAACGTTTCCCTTTG 59.069 47.619 15.01 9.57 33.99 2.77
56 57 2.612604 GTGCAAAACGTTTCCCTTTGT 58.387 42.857 15.01 0.00 33.51 2.83
57 58 3.429135 GGTGCAAAACGTTTCCCTTTGTA 60.429 43.478 15.01 5.17 33.51 2.41
58 59 4.174762 GTGCAAAACGTTTCCCTTTGTAA 58.825 39.130 15.01 0.00 33.51 2.41
59 60 4.806775 GTGCAAAACGTTTCCCTTTGTAAT 59.193 37.500 15.01 0.00 33.51 1.89
173 176 9.691362 TTGCCTCTGTTTCAATAAATTTTACTC 57.309 29.630 0.00 0.00 0.00 2.59
174 177 8.303876 TGCCTCTGTTTCAATAAATTTTACTCC 58.696 33.333 0.00 0.00 0.00 3.85
175 178 7.759886 GCCTCTGTTTCAATAAATTTTACTCCC 59.240 37.037 0.00 0.00 0.00 4.30
176 179 9.025041 CCTCTGTTTCAATAAATTTTACTCCCT 57.975 33.333 0.00 0.00 0.00 4.20
178 181 9.020731 TCTGTTTCAATAAATTTTACTCCCTCC 57.979 33.333 0.00 0.00 0.00 4.30
179 182 7.822658 TGTTTCAATAAATTTTACTCCCTCCG 58.177 34.615 0.00 0.00 0.00 4.63
180 183 7.449086 TGTTTCAATAAATTTTACTCCCTCCGT 59.551 33.333 0.00 0.00 0.00 4.69
181 184 8.301720 GTTTCAATAAATTTTACTCCCTCCGTT 58.698 33.333 0.00 0.00 0.00 4.44
182 185 7.619964 TCAATAAATTTTACTCCCTCCGTTC 57.380 36.000 0.00 0.00 0.00 3.95
183 186 6.600427 TCAATAAATTTTACTCCCTCCGTTCC 59.400 38.462 0.00 0.00 0.00 3.62
184 187 4.376225 AAATTTTACTCCCTCCGTTCCA 57.624 40.909 0.00 0.00 0.00 3.53
185 188 4.376225 AATTTTACTCCCTCCGTTCCAA 57.624 40.909 0.00 0.00 0.00 3.53
186 189 3.860968 TTTTACTCCCTCCGTTCCAAA 57.139 42.857 0.00 0.00 0.00 3.28
187 190 3.860968 TTTACTCCCTCCGTTCCAAAA 57.139 42.857 0.00 0.00 0.00 2.44
188 191 4.376225 TTTACTCCCTCCGTTCCAAAAT 57.624 40.909 0.00 0.00 0.00 1.82
189 192 5.502089 TTTACTCCCTCCGTTCCAAAATA 57.498 39.130 0.00 0.00 0.00 1.40
190 193 5.703730 TTACTCCCTCCGTTCCAAAATAT 57.296 39.130 0.00 0.00 0.00 1.28
191 194 6.811634 TTACTCCCTCCGTTCCAAAATATA 57.188 37.500 0.00 0.00 0.00 0.86
192 195 5.703730 ACTCCCTCCGTTCCAAAATATAA 57.296 39.130 0.00 0.00 0.00 0.98
193 196 5.681639 ACTCCCTCCGTTCCAAAATATAAG 58.318 41.667 0.00 0.00 0.00 1.73
194 197 5.427481 ACTCCCTCCGTTCCAAAATATAAGA 59.573 40.000 0.00 0.00 0.00 2.10
195 198 6.069847 ACTCCCTCCGTTCCAAAATATAAGAA 60.070 38.462 0.00 0.00 0.00 2.52
196 199 6.906848 TCCCTCCGTTCCAAAATATAAGAAT 58.093 36.000 0.00 0.00 0.00 2.40
197 200 7.351166 TCCCTCCGTTCCAAAATATAAGAATT 58.649 34.615 0.00 0.00 0.00 2.17
198 201 7.837187 TCCCTCCGTTCCAAAATATAAGAATTT 59.163 33.333 0.00 0.00 0.00 1.82
199 202 8.474831 CCCTCCGTTCCAAAATATAAGAATTTT 58.525 33.333 0.00 0.00 39.14 1.82
200 203 9.869757 CCTCCGTTCCAAAATATAAGAATTTTT 57.130 29.630 0.00 0.00 37.03 1.94
225 228 3.547468 GCACTAGCATAATGGCAAAAACG 59.453 43.478 0.00 0.00 41.58 3.60
226 229 4.732784 CACTAGCATAATGGCAAAAACGT 58.267 39.130 0.00 0.00 35.83 3.99
227 230 5.160641 CACTAGCATAATGGCAAAAACGTT 58.839 37.500 0.00 0.00 35.83 3.99
228 231 5.286082 CACTAGCATAATGGCAAAAACGTTC 59.714 40.000 0.00 0.00 35.83 3.95
229 232 4.519540 AGCATAATGGCAAAAACGTTCT 57.480 36.364 0.00 0.00 35.83 3.01
230 233 4.881920 AGCATAATGGCAAAAACGTTCTT 58.118 34.783 0.00 0.00 35.83 2.52
231 234 6.019779 AGCATAATGGCAAAAACGTTCTTA 57.980 33.333 0.00 0.00 35.83 2.10
232 235 6.630071 AGCATAATGGCAAAAACGTTCTTAT 58.370 32.000 0.00 0.00 35.83 1.73
233 236 7.767261 AGCATAATGGCAAAAACGTTCTTATA 58.233 30.769 0.00 0.00 35.83 0.98
234 237 8.413229 AGCATAATGGCAAAAACGTTCTTATAT 58.587 29.630 0.00 0.00 35.83 0.86
235 238 9.030301 GCATAATGGCAAAAACGTTCTTATATT 57.970 29.630 0.00 1.92 0.00 1.28
240 243 7.981142 TGGCAAAAACGTTCTTATATTCTAGG 58.019 34.615 0.00 0.00 0.00 3.02
241 244 7.825270 TGGCAAAAACGTTCTTATATTCTAGGA 59.175 33.333 0.00 0.00 0.00 2.94
242 245 8.121086 GGCAAAAACGTTCTTATATTCTAGGAC 58.879 37.037 0.00 0.00 0.00 3.85
243 246 8.662141 GCAAAAACGTTCTTATATTCTAGGACA 58.338 33.333 0.00 0.00 0.00 4.02
246 249 9.804758 AAAACGTTCTTATATTCTAGGACAGAG 57.195 33.333 0.00 0.00 33.83 3.35
247 250 7.513371 ACGTTCTTATATTCTAGGACAGAGG 57.487 40.000 0.00 0.00 33.83 3.69
248 251 6.490721 ACGTTCTTATATTCTAGGACAGAGGG 59.509 42.308 0.00 0.00 33.83 4.30
249 252 6.715718 CGTTCTTATATTCTAGGACAGAGGGA 59.284 42.308 0.00 0.00 33.83 4.20
250 253 7.094549 CGTTCTTATATTCTAGGACAGAGGGAG 60.095 44.444 0.00 0.00 33.83 4.30
396 399 0.605319 AAATCTTTGACGAGCCGCCA 60.605 50.000 0.00 0.00 0.00 5.69
430 436 0.591236 CACCACACGCTTTGGTTTCG 60.591 55.000 0.53 0.00 45.62 3.46
431 437 1.008995 CCACACGCTTTGGTTTCGG 60.009 57.895 0.00 0.00 0.00 4.30
467 551 2.436824 GCTCCGTTTCCTCCAGGC 60.437 66.667 0.00 0.00 34.44 4.85
468 552 2.960688 GCTCCGTTTCCTCCAGGCT 61.961 63.158 0.00 0.00 34.44 4.58
534 622 2.657297 TTTTTAGGCAGCTGCAGGG 58.343 52.632 37.63 1.67 44.36 4.45
592 898 3.484547 GGAAGCGTACCGTTGGCG 61.485 66.667 0.00 0.00 37.95 5.69
593 899 2.735857 GAAGCGTACCGTTGGCGT 60.736 61.111 0.00 0.00 36.15 5.68
594 900 2.280321 AAGCGTACCGTTGGCGTT 60.280 55.556 0.00 0.00 36.15 4.84
595 901 2.488852 GAAGCGTACCGTTGGCGTTG 62.489 60.000 0.00 0.00 36.15 4.10
596 902 4.079748 GCGTACCGTTGGCGTTGG 62.080 66.667 0.00 0.00 36.15 3.77
597 903 4.079748 CGTACCGTTGGCGTTGGC 62.080 66.667 0.00 0.00 36.15 4.52
671 977 2.104859 CAGACAGGTGGCATCGCAG 61.105 63.158 0.00 0.00 0.00 5.18
696 1002 3.060070 GCATGAGAAACAAACAAAGCAGC 60.060 43.478 0.00 0.00 0.00 5.25
698 1004 2.421775 TGAGAAACAAACAAAGCAGCGA 59.578 40.909 0.00 0.00 0.00 4.93
723 1029 1.280998 TCGGAAAAGGACATTCTCCCC 59.719 52.381 0.00 0.00 40.53 4.81
724 1030 1.682087 CGGAAAAGGACATTCTCCCCC 60.682 57.143 0.00 0.00 40.53 5.40
725 1031 1.682087 GGAAAAGGACATTCTCCCCCG 60.682 57.143 0.00 0.00 40.53 5.73
726 1032 0.331616 AAAAGGACATTCTCCCCCGG 59.668 55.000 0.00 0.00 40.53 5.73
727 1033 2.211468 AAAGGACATTCTCCCCCGGC 62.211 60.000 0.00 0.00 40.53 6.13
728 1034 3.407967 GGACATTCTCCCCCGGCA 61.408 66.667 0.00 0.00 31.83 5.69
729 1035 2.190578 GACATTCTCCCCCGGCAG 59.809 66.667 0.00 0.00 0.00 4.85
730 1036 3.406595 GACATTCTCCCCCGGCAGG 62.407 68.421 0.00 0.00 37.24 4.85
801 1114 0.959553 AGAGTGAAAGGCGTCTTCGA 59.040 50.000 1.04 0.00 39.71 3.71
838 1153 3.462678 GAGAGACCGACCTGCCCC 61.463 72.222 0.00 0.00 0.00 5.80
877 1192 2.045340 CTGCAAAGGGTACGGGGG 60.045 66.667 0.00 0.00 0.00 5.40
933 1257 7.201626 CCAAGAGTAGCAAAGATCTCTGATTTG 60.202 40.741 0.00 0.00 37.35 2.32
934 1258 7.180322 AGAGTAGCAAAGATCTCTGATTTGA 57.820 36.000 0.00 0.00 36.28 2.69
935 1259 7.794041 AGAGTAGCAAAGATCTCTGATTTGAT 58.206 34.615 0.00 0.00 36.28 2.57
936 1260 8.266473 AGAGTAGCAAAGATCTCTGATTTGATT 58.734 33.333 0.00 0.00 36.28 2.57
937 1261 8.804912 AGTAGCAAAGATCTCTGATTTGATTT 57.195 30.769 0.00 0.00 36.28 2.17
1036 1382 4.038642 AGTTTTGCCGTGAATGGTATGTTT 59.961 37.500 0.00 0.00 0.00 2.83
1050 1396 1.055849 ATGTTTCCTTGTTTGGGCCC 58.944 50.000 17.59 17.59 0.00 5.80
1062 1408 1.442886 TTGGGCCCTGGATTTGACCT 61.443 55.000 25.70 0.00 0.00 3.85
1063 1409 0.551377 TGGGCCCTGGATTTGACCTA 60.551 55.000 25.70 0.00 0.00 3.08
1074 1420 2.961526 TTTGACCTAGCAGATCCGTC 57.038 50.000 0.00 0.00 0.00 4.79
1075 1421 2.145397 TTGACCTAGCAGATCCGTCT 57.855 50.000 0.00 0.00 34.14 4.18
1079 1425 2.227865 GACCTAGCAGATCCGTCTCATC 59.772 54.545 0.00 0.00 30.42 2.92
1210 1556 2.104963 GGTCACCACCACTTCTTCTTCT 59.895 50.000 0.00 0.00 43.17 2.85
1211 1557 3.433740 GGTCACCACCACTTCTTCTTCTT 60.434 47.826 0.00 0.00 43.17 2.52
1212 1558 3.810386 GTCACCACCACTTCTTCTTCTTC 59.190 47.826 0.00 0.00 0.00 2.87
1213 1559 3.711704 TCACCACCACTTCTTCTTCTTCT 59.288 43.478 0.00 0.00 0.00 2.85
1214 1560 4.164221 TCACCACCACTTCTTCTTCTTCTT 59.836 41.667 0.00 0.00 0.00 2.52
1215 1561 4.513318 CACCACCACTTCTTCTTCTTCTTC 59.487 45.833 0.00 0.00 0.00 2.87
1225 1571 3.963428 TCTTCTTCTTCTTCTTCCCCG 57.037 47.619 0.00 0.00 0.00 5.73
1244 1590 2.208431 CGCTCTGTCCATCCAAAGATC 58.792 52.381 0.00 0.00 0.00 2.75
1245 1591 2.570135 GCTCTGTCCATCCAAAGATCC 58.430 52.381 0.00 0.00 0.00 3.36
1246 1592 2.172293 GCTCTGTCCATCCAAAGATCCT 59.828 50.000 0.00 0.00 0.00 3.24
1247 1593 3.743899 GCTCTGTCCATCCAAAGATCCTC 60.744 52.174 0.00 0.00 0.00 3.71
1273 1627 0.335361 ACCTCATACCACCTCGTCCT 59.665 55.000 0.00 0.00 0.00 3.85
1274 1628 0.747255 CCTCATACCACCTCGTCCTG 59.253 60.000 0.00 0.00 0.00 3.86
1279 1633 3.517901 TCATACCACCTCGTCCTGAAAAT 59.482 43.478 0.00 0.00 0.00 1.82
1315 1675 2.108952 AGAGGATCAGCAAAACTTGGGT 59.891 45.455 0.00 0.00 37.82 4.51
1319 1679 5.086621 AGGATCAGCAAAACTTGGGTAAAT 58.913 37.500 0.00 0.00 0.00 1.40
1320 1680 5.185828 AGGATCAGCAAAACTTGGGTAAATC 59.814 40.000 0.00 0.00 0.00 2.17
1321 1681 5.185828 GGATCAGCAAAACTTGGGTAAATCT 59.814 40.000 0.00 0.00 0.00 2.40
1322 1682 5.452078 TCAGCAAAACTTGGGTAAATCTG 57.548 39.130 0.00 0.00 0.00 2.90
1323 1683 5.136828 TCAGCAAAACTTGGGTAAATCTGA 58.863 37.500 0.00 0.00 0.00 3.27
1348 1708 3.575965 AAAGAGCATAAACCTTTGGCG 57.424 42.857 0.00 0.00 0.00 5.69
1363 1723 2.211353 TGGCGTTTTTAACACCAAGC 57.789 45.000 0.00 0.00 40.43 4.01
1366 1726 3.318275 TGGCGTTTTTAACACCAAGCATA 59.682 39.130 0.00 0.00 40.43 3.14
1399 1759 6.428465 CAGTAGGAAAAAGGAAGGAAAGACTC 59.572 42.308 0.00 0.00 0.00 3.36
1402 1762 5.594725 AGGAAAAAGGAAGGAAAGACTCAAC 59.405 40.000 0.00 0.00 0.00 3.18
1415 1775 3.012518 AGACTCAACTAATGTGGCATGC 58.987 45.455 9.90 9.90 32.77 4.06
1453 1822 2.431057 CTGTCGGTAGATTAAGGGCTGT 59.569 50.000 0.00 0.00 0.00 4.40
1462 1831 1.317613 TTAAGGGCTGTTGTGCTGTG 58.682 50.000 0.00 0.00 0.00 3.66
1541 1911 1.160329 AGGCTGTCAACTTGCGACAC 61.160 55.000 0.00 0.00 38.45 3.67
1572 1942 2.734606 CAATTGTTCAGTGCATTGCCAG 59.265 45.455 6.12 0.00 0.00 4.85
1580 1950 2.204461 TGCATTGCCAGTTGCTGCT 61.204 52.632 6.12 0.00 40.71 4.24
1606 1976 5.158494 GTTCTTGTTTTGACCTTGAAACGT 58.842 37.500 0.00 0.00 38.31 3.99
1612 1982 4.875544 TTTGACCTTGAAACGTTCTGAG 57.124 40.909 0.00 0.00 0.00 3.35
1742 2112 1.450211 CACCAAGGAAGTCCGGTGT 59.550 57.895 13.50 0.95 40.49 4.16
1786 2156 5.635120 AGCTGTCTTCTTCCAGGTAAAATT 58.365 37.500 0.00 0.00 37.63 1.82
1787 2157 5.474876 AGCTGTCTTCTTCCAGGTAAAATTG 59.525 40.000 0.00 0.00 37.63 2.32
1788 2158 5.473504 GCTGTCTTCTTCCAGGTAAAATTGA 59.526 40.000 0.00 0.00 0.00 2.57
1789 2159 6.151817 GCTGTCTTCTTCCAGGTAAAATTGAT 59.848 38.462 0.00 0.00 0.00 2.57
1885 2255 6.036083 CACCTTGATTCGGTTGTGTTCTATAG 59.964 42.308 0.00 0.00 30.82 1.31
1940 2377 3.064900 AGAACCTCACCTTGATTCTGC 57.935 47.619 0.00 0.00 27.96 4.26
2038 2475 1.134699 TCGGTGGAGAGAATGATGTGC 60.135 52.381 0.00 0.00 0.00 4.57
2040 2477 1.293924 GTGGAGAGAATGATGTGCCG 58.706 55.000 0.00 0.00 0.00 5.69
2068 2505 4.438346 CGATGACGGATTCCACCC 57.562 61.111 3.09 0.00 35.72 4.61
2185 2622 5.621422 CGGCATATCATTTTCATAACTCCG 58.379 41.667 0.00 0.00 0.00 4.63
2220 2657 0.251073 CGAGTCCACCGGGGTAAAAT 59.749 55.000 6.32 0.00 38.11 1.82
2272 2709 5.759059 AGGATGCTATGAGGACATTTTTCA 58.241 37.500 0.00 0.00 37.87 2.69
2282 2719 3.636764 AGGACATTTTTCACTTGGTGGTC 59.363 43.478 0.00 0.00 33.87 4.02
2290 2727 0.884704 CACTTGGTGGTCTGTTCCCG 60.885 60.000 0.00 0.00 0.00 5.14
2338 2778 8.579682 AGCAGTAAATTTCAAGAAAACATGTC 57.420 30.769 0.00 0.00 33.56 3.06
2387 2835 6.582437 ACGGAACATGTTTTGAATTTTCAC 57.418 33.333 13.36 0.00 36.83 3.18
2426 2874 6.259608 CGATGAGCTGAGGAACTTCAAATATT 59.740 38.462 0.00 0.00 41.55 1.28
2428 2876 7.149569 TGAGCTGAGGAACTTCAAATATTTG 57.850 36.000 20.13 20.13 41.55 2.32
2466 2914 6.514870 GCTGTTGTGTTTTAGTTCATCATGGA 60.515 38.462 0.00 0.00 0.00 3.41
2535 2983 6.628919 ACTAGAACCAATGTTACAACAACC 57.371 37.500 0.00 0.00 43.03 3.77
2719 3242 7.987458 CCTTCAGCAGTTTATCTAGGAAATGTA 59.013 37.037 0.00 0.00 0.00 2.29
2725 3248 9.547753 GCAGTTTATCTAGGAAATGTATTCTCA 57.452 33.333 0.00 0.00 0.00 3.27
2783 3306 6.642707 AAAAACTGTTTGGATGGATCGTAA 57.357 33.333 6.53 0.00 0.00 3.18
2802 3325 9.953697 GATCGTAAGTCATACTGTATTCTCTTT 57.046 33.333 0.00 0.00 39.48 2.52
2842 3365 3.512680 GAACTTCACACGGGAGTAGATG 58.487 50.000 0.00 0.00 44.67 2.90
2953 3486 7.412853 AGTTCCTTTTCTAGTATCTCCAGAC 57.587 40.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 3.539107 GACCGGTTAAGCGTCGCG 61.539 66.667 23.92 12.09 0.00 5.87
14 15 3.539107 CGACCGGTTAAGCGTCGC 61.539 66.667 26.24 9.80 42.37 5.19
16 17 3.759353 GACGACCGGTTAAGCGTC 58.241 61.111 24.87 24.87 44.83 5.19
17 18 1.080974 CAGACGACCGGTTAAGCGT 60.081 57.895 23.92 17.80 39.99 5.07
18 19 1.804326 CCAGACGACCGGTTAAGCG 60.804 63.158 19.73 19.73 0.00 4.68
19 20 1.012486 CACCAGACGACCGGTTAAGC 61.012 60.000 9.42 0.00 31.41 3.09
20 21 1.012486 GCACCAGACGACCGGTTAAG 61.012 60.000 9.42 6.31 31.41 1.85
21 22 1.005867 GCACCAGACGACCGGTTAA 60.006 57.895 9.42 0.00 31.41 2.01
22 23 1.746322 TTGCACCAGACGACCGGTTA 61.746 55.000 9.42 0.00 31.41 2.85
23 24 2.596553 TTTGCACCAGACGACCGGTT 62.597 55.000 9.42 0.00 31.41 4.44
24 25 2.596553 TTTTGCACCAGACGACCGGT 62.597 55.000 6.92 6.92 35.27 5.28
25 26 1.890041 TTTTGCACCAGACGACCGG 60.890 57.895 0.00 0.00 0.00 5.28
26 27 1.278637 GTTTTGCACCAGACGACCG 59.721 57.895 0.00 0.00 0.00 4.79
27 28 1.278637 CGTTTTGCACCAGACGACC 59.721 57.895 4.82 0.00 37.69 4.79
28 29 0.375803 AACGTTTTGCACCAGACGAC 59.624 50.000 14.67 0.00 38.74 4.34
29 30 1.062880 GAAACGTTTTGCACCAGACGA 59.937 47.619 15.89 0.00 38.74 4.20
30 31 1.462791 GAAACGTTTTGCACCAGACG 58.537 50.000 15.89 8.29 41.00 4.18
31 32 1.535226 GGGAAACGTTTTGCACCAGAC 60.535 52.381 15.89 0.00 0.00 3.51
32 33 0.741915 GGGAAACGTTTTGCACCAGA 59.258 50.000 15.89 0.00 0.00 3.86
33 34 0.744281 AGGGAAACGTTTTGCACCAG 59.256 50.000 15.89 0.00 0.00 4.00
34 35 1.187087 AAGGGAAACGTTTTGCACCA 58.813 45.000 15.89 0.00 34.05 4.17
35 36 1.930503 CAAAGGGAAACGTTTTGCACC 59.069 47.619 15.89 14.52 45.48 5.01
36 37 2.612604 ACAAAGGGAAACGTTTTGCAC 58.387 42.857 15.89 4.30 45.48 4.57
37 38 4.451629 TTACAAAGGGAAACGTTTTGCA 57.548 36.364 15.89 0.00 45.48 4.08
38 39 5.977171 AATTACAAAGGGAAACGTTTTGC 57.023 34.783 15.89 2.90 45.48 3.68
39 40 7.063544 TCACAAATTACAAAGGGAAACGTTTTG 59.936 33.333 15.89 11.31 45.48 2.44
40 41 7.097834 TCACAAATTACAAAGGGAAACGTTTT 58.902 30.769 15.89 0.00 45.48 2.43
42 43 6.127563 ACTCACAAATTACAAAGGGAAACGTT 60.128 34.615 0.00 0.00 40.85 3.99
43 44 5.358725 ACTCACAAATTACAAAGGGAAACGT 59.641 36.000 0.00 0.00 0.00 3.99
44 45 5.827666 ACTCACAAATTACAAAGGGAAACG 58.172 37.500 0.00 0.00 0.00 3.60
45 46 7.937649 ACTACTCACAAATTACAAAGGGAAAC 58.062 34.615 0.00 0.00 0.00 2.78
46 47 7.229907 GGACTACTCACAAATTACAAAGGGAAA 59.770 37.037 0.00 0.00 0.00 3.13
47 48 6.713450 GGACTACTCACAAATTACAAAGGGAA 59.287 38.462 0.00 0.00 0.00 3.97
48 49 6.235664 GGACTACTCACAAATTACAAAGGGA 58.764 40.000 0.00 0.00 0.00 4.20
49 50 5.121768 CGGACTACTCACAAATTACAAAGGG 59.878 44.000 0.00 0.00 0.00 3.95
50 51 5.699458 ACGGACTACTCACAAATTACAAAGG 59.301 40.000 0.00 0.00 0.00 3.11
51 52 6.422701 TCACGGACTACTCACAAATTACAAAG 59.577 38.462 0.00 0.00 0.00 2.77
52 53 6.282167 TCACGGACTACTCACAAATTACAAA 58.718 36.000 0.00 0.00 0.00 2.83
53 54 5.845103 TCACGGACTACTCACAAATTACAA 58.155 37.500 0.00 0.00 0.00 2.41
54 55 5.010314 ACTCACGGACTACTCACAAATTACA 59.990 40.000 0.00 0.00 0.00 2.41
55 56 5.467705 ACTCACGGACTACTCACAAATTAC 58.532 41.667 0.00 0.00 0.00 1.89
56 57 5.717078 ACTCACGGACTACTCACAAATTA 57.283 39.130 0.00 0.00 0.00 1.40
57 58 4.602340 ACTCACGGACTACTCACAAATT 57.398 40.909 0.00 0.00 0.00 1.82
58 59 4.602340 AACTCACGGACTACTCACAAAT 57.398 40.909 0.00 0.00 0.00 2.32
59 60 5.475909 AGATAACTCACGGACTACTCACAAA 59.524 40.000 0.00 0.00 0.00 2.83
164 167 4.376225 TTGGAACGGAGGGAGTAAAATT 57.624 40.909 0.00 0.00 0.00 1.82
169 172 6.612456 TCTTATATTTTGGAACGGAGGGAGTA 59.388 38.462 0.00 0.00 0.00 2.59
170 173 5.427481 TCTTATATTTTGGAACGGAGGGAGT 59.573 40.000 0.00 0.00 0.00 3.85
171 174 5.925509 TCTTATATTTTGGAACGGAGGGAG 58.074 41.667 0.00 0.00 0.00 4.30
172 175 5.961398 TCTTATATTTTGGAACGGAGGGA 57.039 39.130 0.00 0.00 0.00 4.20
173 176 7.582667 AATTCTTATATTTTGGAACGGAGGG 57.417 36.000 0.00 0.00 0.00 4.30
174 177 9.869757 AAAAATTCTTATATTTTGGAACGGAGG 57.130 29.630 0.00 0.00 37.67 4.30
203 206 3.547468 CGTTTTTGCCATTATGCTAGTGC 59.453 43.478 0.00 0.00 40.20 4.40
204 207 4.732784 ACGTTTTTGCCATTATGCTAGTG 58.267 39.130 0.00 0.00 0.00 2.74
205 208 5.183140 AGAACGTTTTTGCCATTATGCTAGT 59.817 36.000 0.46 0.00 0.00 2.57
206 209 5.640732 AGAACGTTTTTGCCATTATGCTAG 58.359 37.500 0.46 0.00 0.00 3.42
207 210 5.637006 AGAACGTTTTTGCCATTATGCTA 57.363 34.783 0.46 0.00 0.00 3.49
208 211 4.519540 AGAACGTTTTTGCCATTATGCT 57.480 36.364 0.46 0.00 0.00 3.79
209 212 6.885735 ATAAGAACGTTTTTGCCATTATGC 57.114 33.333 13.87 0.00 0.00 3.14
214 217 8.621286 CCTAGAATATAAGAACGTTTTTGCCAT 58.379 33.333 13.87 2.89 0.00 4.40
215 218 7.825270 TCCTAGAATATAAGAACGTTTTTGCCA 59.175 33.333 13.87 0.01 0.00 4.92
216 219 8.121086 GTCCTAGAATATAAGAACGTTTTTGCC 58.879 37.037 13.87 0.00 0.00 4.52
217 220 8.662141 TGTCCTAGAATATAAGAACGTTTTTGC 58.338 33.333 13.87 0.00 0.00 3.68
220 223 9.804758 CTCTGTCCTAGAATATAAGAACGTTTT 57.195 33.333 0.46 0.00 34.32 2.43
221 224 8.414778 CCTCTGTCCTAGAATATAAGAACGTTT 58.585 37.037 0.46 0.00 34.32 3.60
222 225 7.014422 CCCTCTGTCCTAGAATATAAGAACGTT 59.986 40.741 0.00 0.00 34.32 3.99
223 226 6.490721 CCCTCTGTCCTAGAATATAAGAACGT 59.509 42.308 0.00 0.00 34.32 3.99
224 227 6.715718 TCCCTCTGTCCTAGAATATAAGAACG 59.284 42.308 0.00 0.00 34.32 3.95
225 228 7.726738 ACTCCCTCTGTCCTAGAATATAAGAAC 59.273 40.741 0.00 0.00 34.32 3.01
226 229 7.827787 ACTCCCTCTGTCCTAGAATATAAGAA 58.172 38.462 0.00 0.00 34.32 2.52
227 230 7.409408 ACTCCCTCTGTCCTAGAATATAAGA 57.591 40.000 0.00 0.00 34.32 2.10
228 231 9.762381 ATTACTCCCTCTGTCCTAGAATATAAG 57.238 37.037 0.00 0.00 34.32 1.73
234 237 9.947189 TTATTTATTACTCCCTCTGTCCTAGAA 57.053 33.333 0.00 0.00 34.32 2.10
235 238 9.947189 TTTATTTATTACTCCCTCTGTCCTAGA 57.053 33.333 0.00 0.00 0.00 2.43
326 329 1.995376 AACCAACCGCCTCAAGAAAT 58.005 45.000 0.00 0.00 0.00 2.17
367 370 5.335191 GCTCGTCAAAGATTTGTCAATCCTT 60.335 40.000 5.29 0.00 39.95 3.36
396 399 4.382685 CGTGTGGTGTGGATACCTTTCTAT 60.383 45.833 0.00 0.00 41.43 1.98
430 436 3.884226 GGAAGGATCCACAAGGTCC 57.116 57.895 15.82 6.68 45.79 4.46
450 456 2.436824 GCCTGGAGGAAACGGAGC 60.437 66.667 0.00 0.00 37.39 4.70
516 600 0.899717 CCCCTGCAGCTGCCTAAAAA 60.900 55.000 34.64 14.99 41.18 1.94
517 601 1.304381 CCCCTGCAGCTGCCTAAAA 60.304 57.895 34.64 15.76 41.18 1.52
518 602 1.204786 TACCCCTGCAGCTGCCTAAA 61.205 55.000 34.64 16.16 41.18 1.85
521 605 3.721706 GTACCCCTGCAGCTGCCT 61.722 66.667 34.64 14.60 41.18 4.75
522 606 3.567579 TTGTACCCCTGCAGCTGCC 62.568 63.158 34.64 18.16 41.18 4.85
525 613 0.539669 GGTTTTGTACCCCTGCAGCT 60.540 55.000 8.66 0.00 41.43 4.24
592 898 6.932356 TTCATGATGATAGAGAAAGCCAAC 57.068 37.500 0.00 0.00 0.00 3.77
593 899 7.997223 AGATTTCATGATGATAGAGAAAGCCAA 59.003 33.333 0.00 0.00 35.79 4.52
594 900 7.515586 AGATTTCATGATGATAGAGAAAGCCA 58.484 34.615 0.00 0.00 35.79 4.75
595 901 7.879160 AGAGATTTCATGATGATAGAGAAAGCC 59.121 37.037 0.00 0.00 35.79 4.35
596 902 8.714179 CAGAGATTTCATGATGATAGAGAAAGC 58.286 37.037 0.00 0.00 35.51 3.51
597 903 8.714179 GCAGAGATTTCATGATGATAGAGAAAG 58.286 37.037 0.00 0.00 32.45 2.62
661 967 1.078285 TCATGCTTCTGCGATGCCA 60.078 52.632 11.70 3.89 43.34 4.92
671 977 4.805192 TGCTTTGTTTGTTTCTCATGCTTC 59.195 37.500 0.00 0.00 0.00 3.86
696 1002 0.391130 TGTCCTTTTCCGATGCCTCG 60.391 55.000 4.21 4.21 44.62 4.63
698 1004 2.025887 AGAATGTCCTTTTCCGATGCCT 60.026 45.455 0.00 0.00 0.00 4.75
730 1036 4.980903 CAAACACAGCGTGCCGGC 62.981 66.667 22.73 22.73 36.98 6.13
801 1114 1.545706 GGAGGGGAAGCAAGTCGAGT 61.546 60.000 0.00 0.00 0.00 4.18
838 1153 5.068198 CAGGAAAGTGTATGGATTGGATTGG 59.932 44.000 0.00 0.00 0.00 3.16
839 1154 5.450965 GCAGGAAAGTGTATGGATTGGATTG 60.451 44.000 0.00 0.00 0.00 2.67
840 1155 4.646492 GCAGGAAAGTGTATGGATTGGATT 59.354 41.667 0.00 0.00 0.00 3.01
877 1192 2.348998 CCGATGCCCTGGCTATCC 59.651 66.667 9.97 0.00 42.51 2.59
884 1199 4.172512 AGCTGAGCCGATGCCCTG 62.173 66.667 0.00 0.00 38.69 4.45
885 1200 3.859414 GAGCTGAGCCGATGCCCT 61.859 66.667 0.00 0.00 38.69 5.19
887 1202 4.166888 TGGAGCTGAGCCGATGCC 62.167 66.667 0.00 0.00 38.69 4.40
888 1203 2.894387 GTGGAGCTGAGCCGATGC 60.894 66.667 0.00 0.00 37.95 3.91
889 1204 2.584418 CGTGGAGCTGAGCCGATG 60.584 66.667 0.00 0.00 0.00 3.84
890 1205 4.521062 GCGTGGAGCTGAGCCGAT 62.521 66.667 0.00 0.00 44.04 4.18
933 1257 2.287373 CGATGCTTGCCTCTCTCAAATC 59.713 50.000 0.00 0.00 0.00 2.17
934 1258 2.093288 TCGATGCTTGCCTCTCTCAAAT 60.093 45.455 0.00 0.00 0.00 2.32
935 1259 1.276138 TCGATGCTTGCCTCTCTCAAA 59.724 47.619 0.00 0.00 0.00 2.69
936 1260 0.897621 TCGATGCTTGCCTCTCTCAA 59.102 50.000 0.00 0.00 0.00 3.02
937 1261 0.897621 TTCGATGCTTGCCTCTCTCA 59.102 50.000 0.00 0.00 0.00 3.27
1036 1382 1.442886 ATCCAGGGCCCAAACAAGGA 61.443 55.000 27.56 20.10 0.00 3.36
1050 1396 3.737850 GGATCTGCTAGGTCAAATCCAG 58.262 50.000 0.00 0.00 34.20 3.86
1062 1408 2.107378 AGAGGATGAGACGGATCTGCTA 59.893 50.000 0.00 0.00 34.34 3.49
1063 1409 1.133513 AGAGGATGAGACGGATCTGCT 60.134 52.381 0.00 0.00 34.34 4.24
1105 1451 4.705519 ATGTTGTTGCTGCGCCGC 62.706 61.111 17.60 17.60 0.00 6.53
1106 1452 2.462255 AAGATGTTGTTGCTGCGCCG 62.462 55.000 4.18 0.00 0.00 6.46
1107 1453 1.005294 CAAGATGTTGTTGCTGCGCC 61.005 55.000 4.18 0.00 0.00 6.53
1108 1454 0.318107 ACAAGATGTTGTTGCTGCGC 60.318 50.000 1.68 0.00 45.00 6.09
1210 1556 1.276421 CAGAGCGGGGAAGAAGAAGAA 59.724 52.381 0.00 0.00 0.00 2.52
1211 1557 0.898320 CAGAGCGGGGAAGAAGAAGA 59.102 55.000 0.00 0.00 0.00 2.87
1212 1558 0.610687 ACAGAGCGGGGAAGAAGAAG 59.389 55.000 0.00 0.00 0.00 2.85
1213 1559 0.608640 GACAGAGCGGGGAAGAAGAA 59.391 55.000 0.00 0.00 0.00 2.52
1214 1560 1.258445 GGACAGAGCGGGGAAGAAGA 61.258 60.000 0.00 0.00 0.00 2.87
1215 1561 1.219393 GGACAGAGCGGGGAAGAAG 59.781 63.158 0.00 0.00 0.00 2.85
1225 1571 2.172293 AGGATCTTTGGATGGACAGAGC 59.828 50.000 0.00 0.00 31.46 4.09
1244 1590 3.118592 GGTGGTATGAGGTGAAGAAGAGG 60.119 52.174 0.00 0.00 0.00 3.69
1245 1591 3.772025 AGGTGGTATGAGGTGAAGAAGAG 59.228 47.826 0.00 0.00 0.00 2.85
1246 1592 3.769844 GAGGTGGTATGAGGTGAAGAAGA 59.230 47.826 0.00 0.00 0.00 2.87
1247 1593 3.429547 CGAGGTGGTATGAGGTGAAGAAG 60.430 52.174 0.00 0.00 0.00 2.85
1273 1627 8.593679 TCCTCTCATCTTGTACAGTAATTTTCA 58.406 33.333 0.00 0.00 0.00 2.69
1274 1628 9.606631 ATCCTCTCATCTTGTACAGTAATTTTC 57.393 33.333 0.00 0.00 0.00 2.29
1279 1633 6.183360 GCTGATCCTCTCATCTTGTACAGTAA 60.183 42.308 0.00 0.00 32.10 2.24
1346 1706 4.149221 GGTTATGCTTGGTGTTAAAAACGC 59.851 41.667 0.00 0.00 41.08 4.84
1347 1707 5.282510 TGGTTATGCTTGGTGTTAAAAACG 58.717 37.500 0.00 0.00 0.00 3.60
1348 1708 7.095397 GGAATGGTTATGCTTGGTGTTAAAAAC 60.095 37.037 0.00 0.00 0.00 2.43
1386 1746 5.412904 CCACATTAGTTGAGTCTTTCCTTCC 59.587 44.000 0.00 0.00 0.00 3.46
1387 1747 5.106515 GCCACATTAGTTGAGTCTTTCCTTC 60.107 44.000 0.00 0.00 0.00 3.46
1453 1822 0.465287 TCAGACTGAGCACAGCACAA 59.535 50.000 11.37 0.00 46.95 3.33
1462 1831 2.560542 TCAGTTCTTCCTCAGACTGAGC 59.439 50.000 24.62 11.37 42.98 4.26
1541 1911 4.386652 GCACTGAACAATTGGCAATACTTG 59.613 41.667 14.05 11.59 0.00 3.16
1547 1917 3.132160 CAATGCACTGAACAATTGGCAA 58.868 40.909 10.83 0.68 34.64 4.52
1548 1918 2.756829 CAATGCACTGAACAATTGGCA 58.243 42.857 10.83 8.75 35.54 4.92
1551 1921 2.734606 CTGGCAATGCACTGAACAATTG 59.265 45.455 7.79 3.24 0.00 2.32
1552 1922 2.366266 ACTGGCAATGCACTGAACAATT 59.634 40.909 7.79 0.00 0.00 2.32
1553 1923 1.965643 ACTGGCAATGCACTGAACAAT 59.034 42.857 7.79 0.00 0.00 2.71
1572 1942 3.990318 AAACAAGAACCTAGCAGCAAC 57.010 42.857 0.00 0.00 0.00 4.17
1580 1950 6.403855 CGTTTCAAGGTCAAAACAAGAACCTA 60.404 38.462 0.00 0.00 35.57 3.08
1606 1976 1.345741 CAACCTCCTGCAGTCTCAGAA 59.654 52.381 13.81 0.00 36.19 3.02
1712 2082 4.278513 TTGGTGCGGGGAAGGGTG 62.279 66.667 0.00 0.00 0.00 4.61
1786 2156 4.299586 TGTGTTGGGCTTGAATCTATCA 57.700 40.909 0.00 0.00 35.85 2.15
1787 2157 5.048083 TGTTTGTGTTGGGCTTGAATCTATC 60.048 40.000 0.00 0.00 0.00 2.08
1788 2158 4.832266 TGTTTGTGTTGGGCTTGAATCTAT 59.168 37.500 0.00 0.00 0.00 1.98
1789 2159 4.211125 TGTTTGTGTTGGGCTTGAATCTA 58.789 39.130 0.00 0.00 0.00 1.98
1821 2191 6.314152 GGAAGATTGTAGCTAAACCTCTGAAC 59.686 42.308 0.00 0.00 0.00 3.18
1885 2255 7.978982 AGATTGTAGCAATAATGTCAAGTGTC 58.021 34.615 0.00 0.00 0.00 3.67
1940 2377 1.806623 GCGGTGGCCTATAGAACACAG 60.807 57.143 20.85 18.69 35.62 3.66
2038 2475 0.810031 GTCATCGGTTGGGTGATCGG 60.810 60.000 0.00 0.00 0.00 4.18
2040 2477 2.677971 CGTCATCGGTTGGGTGATC 58.322 57.895 0.00 0.00 0.00 2.92
2068 2505 3.316071 ACTCTCTCAGACTGTTGCATG 57.684 47.619 1.59 0.00 0.00 4.06
2220 2657 1.638070 TGCAATGGACCACAGGGATAA 59.362 47.619 0.00 0.00 38.05 1.75
2272 2709 1.342672 ACGGGAACAGACCACCAAGT 61.343 55.000 0.00 0.00 0.00 3.16
2282 2719 0.034059 AGAAGTGCAGACGGGAACAG 59.966 55.000 0.00 0.00 0.00 3.16
2376 2818 3.321396 TGCTGGCATGAGTGAAAATTCAA 59.679 39.130 0.00 0.00 39.21 2.69
2387 2835 1.063616 CTCATCGTTTGCTGGCATGAG 59.936 52.381 0.00 8.18 0.00 2.90
2426 2874 5.239744 ACACAACAGCCGATGTAAATAACAA 59.760 36.000 0.00 0.00 43.00 2.83
2428 2876 5.291293 ACACAACAGCCGATGTAAATAAC 57.709 39.130 0.00 0.00 43.00 1.89
2535 2983 2.483106 CTGCACTTCCTGTCTGTTCATG 59.517 50.000 0.00 0.00 0.00 3.07
2783 3306 6.299805 TGGCAAAGAGAATACAGTATGACT 57.700 37.500 0.00 0.00 39.69 3.41
2802 3325 3.949586 TCCTGAAATGTATCCATGGCA 57.050 42.857 6.96 0.00 0.00 4.92
2819 3342 1.893801 CTACTCCCGTGTGAAGTTCCT 59.106 52.381 0.00 0.00 0.00 3.36
2821 3344 3.512680 CATCTACTCCCGTGTGAAGTTC 58.487 50.000 0.00 0.00 0.00 3.01
2858 3381 9.620259 ATTAAGAAACCTGGAATCTTGAGATAC 57.380 33.333 20.95 0.00 35.22 2.24
2908 3441 7.288158 GGAACTAGAGTAGAGGGAAATACACAT 59.712 40.741 0.00 0.00 0.00 3.21
2953 3486 3.193479 GCACCAAACTTTTAGGATCCAGG 59.807 47.826 15.82 3.87 0.00 4.45


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

AutoCloner maintained by Alex Coulton.