Multiple sequence alignment - TraesCS4B01G197100

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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 TraesCS4B01G197100 chr4B 100.000 2775 0 0 1 2775 424720523 424723297 0.000000e+00 5125.0
1 TraesCS4B01G197100 chr4B 85.981 107 15 0 167 273 12020490 12020384 6.280000e-22 115.0
2 TraesCS4B01G197100 chr4D 96.125 1600 35 12 290 1880 342697986 342699567 0.000000e+00 2586.0
3 TraesCS4B01G197100 chr4D 94.346 283 16 0 2359 2641 342715244 342715526 4.240000e-118 435.0
4 TraesCS4B01G197100 chr4D 89.535 172 14 1 1 168 342697816 342697987 6.020000e-52 215.0
5 TraesCS4B01G197100 chr4D 93.525 139 7 2 2639 2775 444286170 444286308 3.620000e-49 206.0
6 TraesCS4B01G197100 chr4D 93.893 131 8 0 2645 2775 444274426 444274556 6.060000e-47 198.0
7 TraesCS4B01G197100 chr4D 90.000 100 10 0 172 271 373932478 373932379 2.240000e-26 130.0
8 TraesCS4B01G197100 chr4A 89.642 1815 104 38 860 2644 123247781 123246021 0.000000e+00 2233.0
9 TraesCS4B01G197100 chr4A 91.204 216 5 5 294 508 123250552 123250350 5.850000e-72 281.0
10 TraesCS4B01G197100 chr4A 93.182 132 9 0 2644 2775 140175886 140175755 7.840000e-46 195.0
11 TraesCS4B01G197100 chr4A 97.059 68 2 0 803 870 123250368 123250301 6.280000e-22 115.0
12 TraesCS4B01G197100 chr6D 91.870 246 11 6 513 750 467537893 467538137 4.430000e-88 335.0
13 TraesCS4B01G197100 chr3B 90.574 244 17 3 513 750 75980529 75980772 4.460000e-83 318.0
14 TraesCS4B01G197100 chr3B 88.660 97 10 1 172 268 116096914 116097009 1.750000e-22 117.0
15 TraesCS4B01G197100 chr3B 97.561 41 1 0 1905 1945 735382364 735382324 1.380000e-08 71.3
16 TraesCS4B01G197100 chr7A 89.744 234 17 4 513 739 360083363 360083130 2.700000e-75 292.0
17 TraesCS4B01G197100 chr5B 93.893 131 8 0 2645 2775 616833802 616833672 6.060000e-47 198.0
18 TraesCS4B01G197100 chr5B 73.235 340 62 19 1905 2225 54747741 54748070 2.270000e-16 97.1
19 TraesCS4B01G197100 chr5D 93.233 133 9 0 2643 2775 333334311 333334443 2.180000e-46 196.0
20 TraesCS4B01G197100 chr5D 91.304 138 12 0 2638 2775 485778035 485778172 3.650000e-44 189.0
21 TraesCS4B01G197100 chr7D 92.593 135 10 0 2641 2775 489236133 489236267 7.840000e-46 195.0
22 TraesCS4B01G197100 chr2D 93.130 131 9 0 2645 2775 602339375 602339245 2.820000e-45 193.0
23 TraesCS4B01G197100 chr2D 76.923 221 45 6 1393 1610 4497188 4497405 1.350000e-23 121.0
24 TraesCS4B01G197100 chr2B 93.130 131 9 0 2645 2775 797420262 797420132 2.820000e-45 193.0
25 TraesCS4B01G197100 chr2B 93.636 110 5 1 643 750 97952464 97952355 2.210000e-36 163.0
26 TraesCS4B01G197100 chr2B 88.000 100 11 1 164 263 498308132 498308230 1.750000e-22 117.0
27 TraesCS4B01G197100 chr1D 75.692 325 54 16 1911 2216 287614669 287614351 3.730000e-29 139.0
28 TraesCS4B01G197100 chr3D 93.478 92 6 0 172 263 603574580 603574489 1.340000e-28 137.0
29 TraesCS4B01G197100 chr3D 90.909 99 9 0 172 270 293614252 293614350 1.730000e-27 134.0
30 TraesCS4B01G197100 chr6A 89.899 99 10 0 172 270 444805235 444805137 8.070000e-26 128.0
31 TraesCS4B01G197100 chr1B 77.376 221 44 6 1393 1610 63091253 63091036 2.900000e-25 126.0
32 TraesCS4B01G197100 chr1B 89.899 99 8 2 172 270 348799104 348799008 2.900000e-25 126.0
33 TraesCS4B01G197100 chr1A 77.376 221 44 6 1393 1610 42603672 42603455 2.900000e-25 126.0
34 TraesCS4B01G197100 chr7B 88.350 103 12 0 159 261 665395541 665395439 1.040000e-24 124.0
35 TraesCS4B01G197100 chr3A 92.308 91 2 3 665 750 600913797 600913887 1.040000e-24 124.0
36 TraesCS4B01G197100 chr3A 75.510 245 45 12 530 765 444449190 444449428 3.780000e-19 106.0


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 TraesCS4B01G197100 chr4B 424720523 424723297 2774 False 5125.000000 5125 100.000 1 2775 1 chr4B.!!$F1 2774
1 TraesCS4B01G197100 chr4D 342697816 342699567 1751 False 1400.500000 2586 92.830 1 1880 2 chr4D.!!$F4 1879
2 TraesCS4B01G197100 chr4A 123246021 123250552 4531 True 876.333333 2233 92.635 294 2644 3 chr4A.!!$R2 2350

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
183 188 0.115745 ACTACCTCCTCCGTCCCAAA 59.884 55.0 0.0 0.0 0.0 3.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1890 4441 0.026544 TTGAACAACGCGTTTCCGAC 59.973 50.0 24.21 12.41 38.19 4.79 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
64 65 3.523564 ACTCCCATTAAGAGCAGCCTAAA 59.476 43.478 0.00 0.00 34.56 1.85
74 75 5.635417 AGAGCAGCCTAAATTGAAAGTTC 57.365 39.130 0.00 0.00 0.00 3.01
144 149 6.096673 ACAAAACTGGCAGGGTATTAAAAG 57.903 37.500 20.34 0.00 0.00 2.27
160 165 9.498176 GGTATTAAAAGACTTGTCAGGAGTTTA 57.502 33.333 3.49 0.00 0.00 2.01
167 172 8.418597 AAGACTTGTCAGGAGTTTATGTACTA 57.581 34.615 3.49 0.00 0.00 1.82
168 173 7.828712 AGACTTGTCAGGAGTTTATGTACTAC 58.171 38.462 3.49 0.00 0.00 2.73
169 174 6.932947 ACTTGTCAGGAGTTTATGTACTACC 58.067 40.000 0.00 0.00 28.49 3.18
170 175 6.724905 ACTTGTCAGGAGTTTATGTACTACCT 59.275 38.462 0.00 0.00 28.49 3.08
171 176 6.770746 TGTCAGGAGTTTATGTACTACCTC 57.229 41.667 0.00 0.00 28.49 3.85
172 177 5.655532 TGTCAGGAGTTTATGTACTACCTCC 59.344 44.000 0.00 0.00 28.49 4.30
173 178 5.892686 GTCAGGAGTTTATGTACTACCTCCT 59.107 44.000 11.74 11.74 40.32 3.69
174 179 6.039605 GTCAGGAGTTTATGTACTACCTCCTC 59.960 46.154 13.58 4.63 37.93 3.71
175 180 5.302313 CAGGAGTTTATGTACTACCTCCTCC 59.698 48.000 13.58 11.28 37.93 4.30
176 181 4.277921 GGAGTTTATGTACTACCTCCTCCG 59.722 50.000 0.00 0.00 0.00 4.63
177 182 4.864726 AGTTTATGTACTACCTCCTCCGT 58.135 43.478 0.00 0.00 0.00 4.69
178 183 4.886489 AGTTTATGTACTACCTCCTCCGTC 59.114 45.833 0.00 0.00 0.00 4.79
179 184 2.361643 ATGTACTACCTCCTCCGTCC 57.638 55.000 0.00 0.00 0.00 4.79
180 185 0.257039 TGTACTACCTCCTCCGTCCC 59.743 60.000 0.00 0.00 0.00 4.46
181 186 0.257039 GTACTACCTCCTCCGTCCCA 59.743 60.000 0.00 0.00 0.00 4.37
182 187 1.002069 TACTACCTCCTCCGTCCCAA 58.998 55.000 0.00 0.00 0.00 4.12
183 188 0.115745 ACTACCTCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
184 189 1.272807 CTACCTCCTCCGTCCCAAAA 58.727 55.000 0.00 0.00 0.00 2.44
185 190 1.838077 CTACCTCCTCCGTCCCAAAAT 59.162 52.381 0.00 0.00 0.00 1.82
186 191 1.961133 ACCTCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
187 192 2.271777 ACCTCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
188 193 2.645797 ACCTCCTCCGTCCCAAAATAAA 59.354 45.455 0.00 0.00 0.00 1.40
189 194 3.268595 ACCTCCTCCGTCCCAAAATAAAT 59.731 43.478 0.00 0.00 0.00 1.40
190 195 3.632145 CCTCCTCCGTCCCAAAATAAATG 59.368 47.826 0.00 0.00 0.00 2.32
191 196 4.270008 CTCCTCCGTCCCAAAATAAATGT 58.730 43.478 0.00 0.00 0.00 2.71
192 197 4.266714 TCCTCCGTCCCAAAATAAATGTC 58.733 43.478 0.00 0.00 0.00 3.06
193 198 4.018779 TCCTCCGTCCCAAAATAAATGTCT 60.019 41.667 0.00 0.00 0.00 3.41
194 199 4.705023 CCTCCGTCCCAAAATAAATGTCTT 59.295 41.667 0.00 0.00 0.00 3.01
195 200 5.883673 CCTCCGTCCCAAAATAAATGTCTTA 59.116 40.000 0.00 0.00 0.00 2.10
196 201 6.376018 CCTCCGTCCCAAAATAAATGTCTTAA 59.624 38.462 0.00 0.00 0.00 1.85
197 202 7.068226 CCTCCGTCCCAAAATAAATGTCTTAAT 59.932 37.037 0.00 0.00 0.00 1.40
198 203 8.356000 TCCGTCCCAAAATAAATGTCTTAATT 57.644 30.769 0.00 0.00 0.00 1.40
199 204 8.808092 TCCGTCCCAAAATAAATGTCTTAATTT 58.192 29.630 0.00 0.00 34.24 1.82
200 205 9.430623 CCGTCCCAAAATAAATGTCTTAATTTT 57.569 29.630 0.00 0.00 32.16 1.82
240 245 8.905103 ACAAATTTGTACTAAACTCACAACAC 57.095 30.769 22.10 0.00 40.16 3.32
241 246 8.736244 ACAAATTTGTACTAAACTCACAACACT 58.264 29.630 22.10 0.00 40.16 3.55
242 247 9.567848 CAAATTTGTACTAAACTCACAACACTT 57.432 29.630 10.15 0.00 32.19 3.16
249 254 9.659830 GTACTAAACTCACAACACTTATTTTGG 57.340 33.333 0.00 0.00 0.00 3.28
250 255 7.712797 ACTAAACTCACAACACTTATTTTGGG 58.287 34.615 0.00 0.00 0.00 4.12
251 256 6.783708 AAACTCACAACACTTATTTTGGGA 57.216 33.333 0.00 0.00 34.00 4.37
252 257 5.767816 ACTCACAACACTTATTTTGGGAC 57.232 39.130 0.00 0.00 31.75 4.46
253 258 4.274950 ACTCACAACACTTATTTTGGGACG 59.725 41.667 0.00 0.00 31.75 4.79
254 259 3.566322 TCACAACACTTATTTTGGGACGG 59.434 43.478 0.00 0.00 29.99 4.79
255 260 3.566322 CACAACACTTATTTTGGGACGGA 59.434 43.478 0.00 0.00 0.00 4.69
256 261 3.818773 ACAACACTTATTTTGGGACGGAG 59.181 43.478 0.00 0.00 0.00 4.63
257 262 4.069304 CAACACTTATTTTGGGACGGAGA 58.931 43.478 0.00 0.00 0.00 3.71
258 263 3.939066 ACACTTATTTTGGGACGGAGAG 58.061 45.455 0.00 0.00 0.00 3.20
259 264 3.581332 ACACTTATTTTGGGACGGAGAGA 59.419 43.478 0.00 0.00 0.00 3.10
260 265 4.184629 CACTTATTTTGGGACGGAGAGAG 58.815 47.826 0.00 0.00 0.00 3.20
261 266 3.838903 ACTTATTTTGGGACGGAGAGAGT 59.161 43.478 0.00 0.00 0.00 3.24
262 267 5.021458 ACTTATTTTGGGACGGAGAGAGTA 58.979 41.667 0.00 0.00 0.00 2.59
263 268 5.127356 ACTTATTTTGGGACGGAGAGAGTAG 59.873 44.000 0.00 0.00 0.00 2.57
264 269 2.599408 TTTGGGACGGAGAGAGTAGT 57.401 50.000 0.00 0.00 0.00 2.73
265 270 3.726557 TTTGGGACGGAGAGAGTAGTA 57.273 47.619 0.00 0.00 0.00 1.82
266 271 3.726557 TTGGGACGGAGAGAGTAGTAA 57.273 47.619 0.00 0.00 0.00 2.24
267 272 3.947612 TGGGACGGAGAGAGTAGTAAT 57.052 47.619 0.00 0.00 0.00 1.89
268 273 4.246712 TGGGACGGAGAGAGTAGTAATT 57.753 45.455 0.00 0.00 0.00 1.40
269 274 4.607239 TGGGACGGAGAGAGTAGTAATTT 58.393 43.478 0.00 0.00 0.00 1.82
270 275 5.021458 TGGGACGGAGAGAGTAGTAATTTT 58.979 41.667 0.00 0.00 0.00 1.82
271 276 5.482878 TGGGACGGAGAGAGTAGTAATTTTT 59.517 40.000 0.00 0.00 0.00 1.94
330 335 4.918583 GCGATTAGTTAGCAGTATGTCCTC 59.081 45.833 0.00 0.00 39.31 3.71
464 470 4.686554 GCAACTGATTTTCTGTCGACTACT 59.313 41.667 17.92 0.00 0.00 2.57
538 544 5.883115 TGGCGATAAATGGTGTTATCTTCAA 59.117 36.000 0.00 0.00 38.03 2.69
607 613 3.285484 CTTTCTGCCCAAGAGCATGTAT 58.715 45.455 0.00 0.00 43.09 2.29
608 614 2.336945 TCTGCCCAAGAGCATGTATG 57.663 50.000 0.00 0.00 43.09 2.39
609 615 1.134007 TCTGCCCAAGAGCATGTATGG 60.134 52.381 0.00 0.00 43.09 2.74
613 623 0.659427 CCAAGAGCATGTATGGTGCG 59.341 55.000 0.70 0.00 46.86 5.34
640 650 1.137086 CTAGCGAAGTATGGTGCAGGT 59.863 52.381 0.00 0.00 0.00 4.00
665 675 2.158460 GGGCTACCATTCCCAGCTTTAT 60.158 50.000 0.00 0.00 42.18 1.40
666 676 2.887152 GGCTACCATTCCCAGCTTTATG 59.113 50.000 0.00 0.00 35.60 1.90
668 678 1.780503 ACCATTCCCAGCTTTATGGC 58.219 50.000 11.25 0.00 40.96 4.40
669 679 1.043022 CCATTCCCAGCTTTATGGCC 58.957 55.000 0.00 0.00 39.17 5.36
670 680 1.688942 CCATTCCCAGCTTTATGGCCA 60.689 52.381 8.56 8.56 39.17 5.36
671 681 2.109774 CATTCCCAGCTTTATGGCCAA 58.890 47.619 10.96 0.00 39.17 4.52
672 682 2.317371 TTCCCAGCTTTATGGCCAAA 57.683 45.000 10.96 0.00 39.17 3.28
673 683 2.548464 TCCCAGCTTTATGGCCAAAT 57.452 45.000 10.96 0.00 39.17 2.32
674 684 2.109774 TCCCAGCTTTATGGCCAAATG 58.890 47.619 10.96 9.14 39.17 2.32
675 685 1.139455 CCCAGCTTTATGGCCAAATGG 59.861 52.381 10.96 11.67 39.17 3.16
676 686 1.832998 CCAGCTTTATGGCCAAATGGT 59.167 47.619 10.96 10.55 37.57 3.55
677 687 2.419021 CCAGCTTTATGGCCAAATGGTG 60.419 50.000 23.46 23.46 37.57 4.17
939 3488 0.600255 CGCGGTGTTTCACTCTCCTT 60.600 55.000 0.00 0.00 34.40 3.36
991 3542 1.181741 TTCCGTGTGCTCTGCTCTCT 61.182 55.000 0.00 0.00 0.00 3.10
1036 3587 4.858433 CCACGATTACCGCCGCGA 62.858 66.667 15.93 0.00 43.32 5.87
1049 3600 3.101428 CGCGACGCAACCTTACGT 61.101 61.111 21.35 0.00 46.91 3.57
1312 3863 2.662150 GTCCGTACGGAGCACATTC 58.338 57.895 36.37 19.23 46.16 2.67
1322 3873 6.255020 CGTACGGAGCACATTCTAATTTTACT 59.745 38.462 7.57 0.00 0.00 2.24
1327 3878 5.869350 AGCACATTCTAATTTTACTCACGC 58.131 37.500 0.00 0.00 0.00 5.34
1351 3902 3.707700 CGCTGCAAACCGCGTGTA 61.708 61.111 4.92 0.00 46.97 2.90
1717 4268 2.749865 CGCCATGTACCAACCGCTG 61.750 63.158 0.00 0.00 0.00 5.18
1798 4349 4.639824 CGGCTACGGCGCTTAATA 57.360 55.556 6.90 0.00 45.68 0.98
1800 4351 0.505655 CGGCTACGGCGCTTAATAAC 59.494 55.000 6.90 0.00 45.68 1.89
1801 4352 1.861971 GGCTACGGCGCTTAATAACT 58.138 50.000 6.90 0.00 39.81 2.24
1802 4353 2.605338 CGGCTACGGCGCTTAATAACTA 60.605 50.000 6.90 0.00 45.68 2.24
1803 4354 2.728318 GGCTACGGCGCTTAATAACTAC 59.272 50.000 6.90 0.00 39.81 2.73
1804 4355 3.551659 GGCTACGGCGCTTAATAACTACT 60.552 47.826 6.90 0.00 39.81 2.57
1805 4356 3.667726 GCTACGGCGCTTAATAACTACTC 59.332 47.826 6.90 0.00 0.00 2.59
1885 4436 8.635877 GTGTTATACACTAGATGTTCCTTCAG 57.364 38.462 0.00 0.00 45.27 3.02
1886 4437 8.251721 GTGTTATACACTAGATGTTCCTTCAGT 58.748 37.037 0.00 0.00 45.27 3.41
1887 4438 8.467598 TGTTATACACTAGATGTTCCTTCAGTC 58.532 37.037 0.00 0.00 43.19 3.51
1888 4439 8.688151 GTTATACACTAGATGTTCCTTCAGTCT 58.312 37.037 0.00 0.00 43.19 3.24
1889 4440 5.652994 ACACTAGATGTTCCTTCAGTCTC 57.347 43.478 0.00 0.00 38.98 3.36
1890 4441 4.156922 ACACTAGATGTTCCTTCAGTCTCG 59.843 45.833 0.00 0.00 38.98 4.04
1891 4442 4.156922 CACTAGATGTTCCTTCAGTCTCGT 59.843 45.833 0.00 0.00 0.00 4.18
1892 4443 3.859411 AGATGTTCCTTCAGTCTCGTC 57.141 47.619 0.00 0.00 0.00 4.20
1893 4444 2.162608 AGATGTTCCTTCAGTCTCGTCG 59.837 50.000 0.00 0.00 0.00 5.12
1894 4445 0.596577 TGTTCCTTCAGTCTCGTCGG 59.403 55.000 0.00 0.00 0.00 4.79
1895 4446 0.879765 GTTCCTTCAGTCTCGTCGGA 59.120 55.000 0.00 0.00 0.00 4.55
1896 4447 1.268899 GTTCCTTCAGTCTCGTCGGAA 59.731 52.381 0.00 0.00 0.00 4.30
1897 4448 1.612676 TCCTTCAGTCTCGTCGGAAA 58.387 50.000 0.00 0.00 0.00 3.13
1898 4449 1.268899 TCCTTCAGTCTCGTCGGAAAC 59.731 52.381 0.00 0.00 0.00 2.78
1922 4473 3.042887 GTTGTTCAACGGCAATGACTTC 58.957 45.455 0.00 0.00 0.00 3.01
1924 4475 0.237235 TTCAACGGCAATGACTTCGC 59.763 50.000 0.00 0.00 0.00 4.70
1935 4487 0.884704 TGACTTCGCCTTTGGTGAGC 60.885 55.000 0.07 0.00 43.44 4.26
1956 4508 3.813240 GCCACCTTGGATCTGCATATCAT 60.813 47.826 13.47 0.00 40.96 2.45
1960 4512 5.710567 CACCTTGGATCTGCATATCATTGAT 59.289 40.000 13.47 4.28 0.00 2.57
1964 4516 6.812879 TGGATCTGCATATCATTGATGAAC 57.187 37.500 13.47 0.00 40.69 3.18
1965 4517 6.540083 TGGATCTGCATATCATTGATGAACT 58.460 36.000 13.47 0.00 40.69 3.01
1969 4521 4.128643 TGCATATCATTGATGAACTCGCA 58.871 39.130 9.46 6.03 40.69 5.10
1971 4523 5.106830 TGCATATCATTGATGAACTCGCATC 60.107 40.000 9.46 0.00 43.84 3.91
1975 4527 5.845609 ATCATTGATGAACTCGCATCGAGC 61.846 45.833 15.17 2.16 46.60 5.03
1988 4540 1.201181 CATCGAGCTCGGATAAGGAGG 59.799 57.143 33.98 12.42 40.29 4.30
2029 4581 1.934589 TTCGGTGTCTATTGCGATGG 58.065 50.000 0.00 0.00 0.00 3.51
2034 4586 0.809636 TGTCTATTGCGATGGTGCCG 60.810 55.000 0.00 0.00 0.00 5.69
2057 4609 4.130118 GAGGTATGTGATGGACAATGGTC 58.870 47.826 0.00 0.00 43.55 4.02
2059 4611 4.130118 GGTATGTGATGGACAATGGTCTC 58.870 47.826 0.00 0.00 43.77 3.36
2066 4618 4.019411 TGATGGACAATGGTCTCAAGCTAA 60.019 41.667 0.00 0.00 43.77 3.09
2069 4621 3.691609 GGACAATGGTCTCAAGCTAAAGG 59.308 47.826 0.00 0.00 43.77 3.11
2084 4637 5.368989 AGCTAAAGGATTATTCGGTCTTGG 58.631 41.667 0.00 0.00 0.00 3.61
2089 4642 4.261801 AGGATTATTCGGTCTTGGTTGTG 58.738 43.478 0.00 0.00 0.00 3.33
2091 4644 4.881850 GGATTATTCGGTCTTGGTTGTGAT 59.118 41.667 0.00 0.00 0.00 3.06
2134 4689 2.456000 TTCGCAAAGAAGGCTAGCG 58.544 52.632 9.00 10.53 44.87 4.26
2169 4727 9.725019 TTTCTGTCTTGTCAAGTCAATATGTAT 57.275 29.630 12.30 0.00 0.00 2.29
2170 4728 8.707938 TCTGTCTTGTCAAGTCAATATGTATG 57.292 34.615 12.30 0.00 0.00 2.39
2183 4741 8.830580 AGTCAATATGTATGTGATTTGTACTGC 58.169 33.333 0.00 0.00 0.00 4.40
2184 4742 8.611757 GTCAATATGTATGTGATTTGTACTGCA 58.388 33.333 0.00 0.00 0.00 4.41
2185 4743 8.829612 TCAATATGTATGTGATTTGTACTGCAG 58.170 33.333 13.48 13.48 0.00 4.41
2197 4755 9.317936 TGATTTGTACTGCAGTTCTTATGATAG 57.682 33.333 27.06 0.00 0.00 2.08
2198 4756 9.534565 GATTTGTACTGCAGTTCTTATGATAGA 57.465 33.333 27.06 0.00 0.00 1.98
2199 4757 9.890629 ATTTGTACTGCAGTTCTTATGATAGAA 57.109 29.630 27.06 5.27 0.00 2.10
2200 4758 9.719355 TTTGTACTGCAGTTCTTATGATAGAAA 57.281 29.630 27.06 11.38 36.01 2.52
2201 4759 9.890629 TTGTACTGCAGTTCTTATGATAGAAAT 57.109 29.630 27.06 0.00 36.01 2.17
2227 4785 9.699410 TGAGACCCATATTACAATGAAAAAGAT 57.301 29.630 0.00 0.00 0.00 2.40
2241 4800 5.841810 TGAAAAAGATTTACTTGGGTGCTG 58.158 37.500 0.00 0.00 38.98 4.41
2245 4804 2.110011 AGATTTACTTGGGTGCTGGGTT 59.890 45.455 0.00 0.00 0.00 4.11
2277 4836 4.227300 ACAATAGTGGATGGTGTACATGGT 59.773 41.667 0.00 0.00 40.72 3.55
2278 4837 2.787473 AGTGGATGGTGTACATGGTG 57.213 50.000 0.00 0.00 40.72 4.17
2279 4838 1.094785 GTGGATGGTGTACATGGTGC 58.905 55.000 0.00 0.00 40.72 5.01
2288 4855 5.199723 TGGTGTACATGGTGCATATTGATT 58.800 37.500 0.00 0.00 30.01 2.57
2333 4900 1.496001 TGTACCCGGCAGATACTCCTA 59.504 52.381 0.00 0.00 0.00 2.94
2334 4901 1.885233 GTACCCGGCAGATACTCCTAC 59.115 57.143 0.00 0.00 0.00 3.18
2401 4968 7.461182 TTCAAATCTCGTTCCCATATTGTTT 57.539 32.000 0.00 0.00 0.00 2.83
2458 5025 1.197428 CGAAACGTTGACGACCGTG 59.803 57.895 18.73 0.00 43.02 4.94
2594 5166 6.771749 GCACTCTCTATTTCCTACTAGTGGTA 59.228 42.308 5.39 0.00 34.95 3.25
2611 5183 4.220163 AGTGGTACTGTTGGCTAGAAGTAC 59.780 45.833 12.97 12.97 42.70 2.73
2651 5223 2.813779 GCGACTTGCAAGTAAGGATG 57.186 50.000 31.20 16.99 45.45 3.51
2652 5224 2.346803 GCGACTTGCAAGTAAGGATGA 58.653 47.619 31.20 0.00 45.45 2.92
2653 5225 2.094417 GCGACTTGCAAGTAAGGATGAC 59.906 50.000 31.20 15.27 45.45 3.06
2654 5226 3.325870 CGACTTGCAAGTAAGGATGACA 58.674 45.455 31.20 0.00 39.88 3.58
2655 5227 3.745975 CGACTTGCAAGTAAGGATGACAA 59.254 43.478 31.20 0.00 39.88 3.18
2656 5228 4.393062 CGACTTGCAAGTAAGGATGACAAT 59.607 41.667 31.20 4.49 39.88 2.71
2657 5229 5.106555 CGACTTGCAAGTAAGGATGACAATT 60.107 40.000 31.20 4.01 39.88 2.32
2658 5230 6.568462 CGACTTGCAAGTAAGGATGACAATTT 60.568 38.462 31.20 3.31 39.88 1.82
2659 5231 7.054491 ACTTGCAAGTAAGGATGACAATTTT 57.946 32.000 30.25 0.00 37.52 1.82
2660 5232 8.177119 ACTTGCAAGTAAGGATGACAATTTTA 57.823 30.769 30.25 0.00 37.52 1.52
2661 5233 8.082242 ACTTGCAAGTAAGGATGACAATTTTAC 58.918 33.333 30.25 0.00 37.52 2.01
2662 5234 6.919721 TGCAAGTAAGGATGACAATTTTACC 58.080 36.000 0.00 0.00 0.00 2.85
2663 5235 6.071616 TGCAAGTAAGGATGACAATTTTACCC 60.072 38.462 0.00 0.00 0.00 3.69
2664 5236 6.071616 GCAAGTAAGGATGACAATTTTACCCA 60.072 38.462 0.00 0.00 0.00 4.51
2665 5237 7.363793 GCAAGTAAGGATGACAATTTTACCCAT 60.364 37.037 0.00 0.00 0.00 4.00
2666 5238 7.645058 AGTAAGGATGACAATTTTACCCATG 57.355 36.000 0.00 0.00 0.00 3.66
2667 5239 5.937975 AAGGATGACAATTTTACCCATGG 57.062 39.130 4.14 4.14 0.00 3.66
2668 5240 4.289245 AGGATGACAATTTTACCCATGGG 58.711 43.478 30.23 30.23 42.03 4.00
2690 5262 3.939564 GGTACCCGTGGATACCGT 58.060 61.111 0.00 0.00 31.93 4.83
2691 5263 3.109847 GGTACCCGTGGATACCGTA 57.890 57.895 0.00 0.00 31.93 4.02
2692 5264 0.668535 GGTACCCGTGGATACCGTAC 59.331 60.000 0.00 0.00 31.93 3.67
2693 5265 0.668535 GTACCCGTGGATACCGTACC 59.331 60.000 0.00 0.00 0.00 3.34
2694 5266 0.467290 TACCCGTGGATACCGTACCC 60.467 60.000 0.00 0.00 0.00 3.69
2695 5267 1.757731 CCCGTGGATACCGTACCCA 60.758 63.158 0.00 0.00 0.00 4.51
2696 5268 1.438814 CCGTGGATACCGTACCCAC 59.561 63.158 11.74 11.74 45.07 4.61
2700 5272 1.124780 TGGATACCGTACCCACATGG 58.875 55.000 0.00 0.00 41.37 3.66
2712 5284 0.771127 CCACATGGGTAGGGTATGGG 59.229 60.000 0.00 0.00 0.00 4.00
2713 5285 0.110486 CACATGGGTAGGGTATGGGC 59.890 60.000 0.00 0.00 0.00 5.36
2714 5286 0.328061 ACATGGGTAGGGTATGGGCA 60.328 55.000 0.00 0.00 0.00 5.36
2715 5287 1.075601 CATGGGTAGGGTATGGGCAT 58.924 55.000 0.00 0.00 0.00 4.40
2716 5288 2.274542 CATGGGTAGGGTATGGGCATA 58.725 52.381 0.00 0.00 0.00 3.14
2717 5289 2.516544 TGGGTAGGGTATGGGCATAA 57.483 50.000 0.00 0.00 0.00 1.90
2718 5290 3.012570 TGGGTAGGGTATGGGCATAAT 57.987 47.619 0.00 0.00 0.00 1.28
2719 5291 2.916934 TGGGTAGGGTATGGGCATAATC 59.083 50.000 0.00 0.00 0.00 1.75
2720 5292 3.190439 GGGTAGGGTATGGGCATAATCT 58.810 50.000 0.00 0.00 0.00 2.40
2721 5293 3.591977 GGGTAGGGTATGGGCATAATCTT 59.408 47.826 0.00 0.00 0.00 2.40
2722 5294 4.786454 GGGTAGGGTATGGGCATAATCTTA 59.214 45.833 0.00 0.00 0.00 2.10
2723 5295 5.432060 GGGTAGGGTATGGGCATAATCTTAT 59.568 44.000 0.00 0.00 0.00 1.73
2724 5296 6.618196 GGGTAGGGTATGGGCATAATCTTATA 59.382 42.308 0.00 0.00 0.00 0.98
2725 5297 7.294958 GGGTAGGGTATGGGCATAATCTTATAT 59.705 40.741 0.00 0.00 0.00 0.86
2726 5298 8.376270 GGTAGGGTATGGGCATAATCTTATATC 58.624 40.741 0.00 0.00 0.00 1.63
2727 5299 7.394144 AGGGTATGGGCATAATCTTATATCC 57.606 40.000 0.00 0.00 0.00 2.59
2728 5300 6.914270 AGGGTATGGGCATAATCTTATATCCA 59.086 38.462 0.00 6.13 32.66 3.41
2729 5301 7.577793 AGGGTATGGGCATAATCTTATATCCAT 59.422 37.037 14.90 14.90 38.05 3.41
2730 5302 7.667219 GGGTATGGGCATAATCTTATATCCATG 59.333 40.741 17.52 0.00 36.57 3.66
2731 5303 7.667219 GGTATGGGCATAATCTTATATCCATGG 59.333 40.741 4.97 4.97 36.57 3.66
2732 5304 6.017211 TGGGCATAATCTTATATCCATGGG 57.983 41.667 13.02 0.00 0.00 4.00
2733 5305 5.495802 TGGGCATAATCTTATATCCATGGGT 59.504 40.000 13.02 7.52 0.00 4.51
2734 5306 6.680644 TGGGCATAATCTTATATCCATGGGTA 59.319 38.462 13.02 10.18 0.00 3.69
2735 5307 7.147320 TGGGCATAATCTTATATCCATGGGTAG 60.147 40.741 13.02 0.00 0.00 3.18
2736 5308 7.147302 GGGCATAATCTTATATCCATGGGTAGT 60.147 40.741 13.02 2.14 0.00 2.73
2737 5309 8.934697 GGCATAATCTTATATCCATGGGTAGTA 58.065 37.037 13.02 0.03 0.00 1.82
2738 5310 9.765795 GCATAATCTTATATCCATGGGTAGTAC 57.234 37.037 13.02 0.00 0.00 2.73
2741 5313 8.736097 AATCTTATATCCATGGGTAGTACACA 57.264 34.615 13.02 7.90 35.08 3.72
2742 5314 8.917414 ATCTTATATCCATGGGTAGTACACAT 57.083 34.615 12.46 12.46 44.40 3.21
2744 5316 9.251440 TCTTATATCCATGGGTAGTACACATAC 57.749 37.037 17.63 0.00 40.96 2.39
2745 5317 6.869206 ATATCCATGGGTAGTACACATACC 57.131 41.667 17.63 1.74 40.96 2.73
2752 5324 2.887152 GGTAGTACACATACCCTACCCG 59.113 54.545 2.06 0.00 37.33 5.28
2753 5325 2.834638 AGTACACATACCCTACCCGT 57.165 50.000 0.00 0.00 30.88 5.28
2754 5326 3.105959 AGTACACATACCCTACCCGTT 57.894 47.619 0.00 0.00 30.88 4.44
2755 5327 4.249638 AGTACACATACCCTACCCGTTA 57.750 45.455 0.00 0.00 30.88 3.18
2756 5328 4.609301 AGTACACATACCCTACCCGTTAA 58.391 43.478 0.00 0.00 30.88 2.01
2757 5329 4.646492 AGTACACATACCCTACCCGTTAAG 59.354 45.833 0.00 0.00 30.88 1.85
2758 5330 3.444029 ACACATACCCTACCCGTTAAGT 58.556 45.455 0.00 0.00 0.00 2.24
2759 5331 3.448660 ACACATACCCTACCCGTTAAGTC 59.551 47.826 0.00 0.00 0.00 3.01
2760 5332 3.448301 CACATACCCTACCCGTTAAGTCA 59.552 47.826 0.00 0.00 0.00 3.41
2761 5333 4.100498 CACATACCCTACCCGTTAAGTCAT 59.900 45.833 0.00 0.00 0.00 3.06
2762 5334 4.100498 ACATACCCTACCCGTTAAGTCATG 59.900 45.833 0.00 0.00 0.00 3.07
2763 5335 1.835531 ACCCTACCCGTTAAGTCATGG 59.164 52.381 0.00 0.00 0.00 3.66
2768 5340 2.614829 CCCGTTAAGTCATGGGTAGG 57.385 55.000 0.00 0.00 38.13 3.18
2769 5341 1.140252 CCCGTTAAGTCATGGGTAGGG 59.860 57.143 0.00 0.00 38.13 3.53
2770 5342 1.474498 CCGTTAAGTCATGGGTAGGGC 60.474 57.143 0.00 0.00 0.00 5.19
2771 5343 1.208535 CGTTAAGTCATGGGTAGGGCA 59.791 52.381 0.00 0.00 0.00 5.36
2772 5344 2.158813 CGTTAAGTCATGGGTAGGGCAT 60.159 50.000 0.00 0.00 0.00 4.40
2773 5345 3.214328 GTTAAGTCATGGGTAGGGCATG 58.786 50.000 0.00 0.00 0.00 4.06
2774 5346 0.552848 AAGTCATGGGTAGGGCATGG 59.447 55.000 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 3.718956 AGGCTGCTCTTAATGGGAGTATT 59.281 43.478 0.00 0.00 33.73 1.89
45 46 4.889409 TCAATTTAGGCTGCTCTTAATGGG 59.111 41.667 0.00 0.00 0.00 4.00
53 54 5.376854 TGAACTTTCAATTTAGGCTGCTC 57.623 39.130 0.00 0.00 33.55 4.26
54 55 5.990120 ATGAACTTTCAATTTAGGCTGCT 57.010 34.783 0.00 0.00 41.13 4.24
86 87 9.250246 GCTATAGTAAGAATGACCTCCTTCTAT 57.750 37.037 0.84 0.00 31.60 1.98
144 149 7.034397 GGTAGTACATAAACTCCTGACAAGTC 58.966 42.308 2.06 0.00 0.00 3.01
160 165 1.133544 GGGACGGAGGAGGTAGTACAT 60.134 57.143 2.06 0.00 0.00 2.29
167 172 1.961133 TATTTTGGGACGGAGGAGGT 58.039 50.000 0.00 0.00 0.00 3.85
168 173 3.359695 TTTATTTTGGGACGGAGGAGG 57.640 47.619 0.00 0.00 0.00 4.30
169 174 4.270008 ACATTTATTTTGGGACGGAGGAG 58.730 43.478 0.00 0.00 0.00 3.69
170 175 4.018779 AGACATTTATTTTGGGACGGAGGA 60.019 41.667 0.00 0.00 0.00 3.71
171 176 4.270008 AGACATTTATTTTGGGACGGAGG 58.730 43.478 0.00 0.00 0.00 4.30
172 177 5.897377 AAGACATTTATTTTGGGACGGAG 57.103 39.130 0.00 0.00 0.00 4.63
173 178 7.948034 ATTAAGACATTTATTTTGGGACGGA 57.052 32.000 0.00 0.00 0.00 4.69
174 179 8.996024 AAATTAAGACATTTATTTTGGGACGG 57.004 30.769 0.00 0.00 26.18 4.79
214 219 9.991388 GTGTTGTGAGTTTAGTACAAATTTGTA 57.009 29.630 23.91 23.91 42.35 2.41
215 220 8.736244 AGTGTTGTGAGTTTAGTACAAATTTGT 58.264 29.630 25.99 25.99 44.86 2.83
216 221 9.567848 AAGTGTTGTGAGTTTAGTACAAATTTG 57.432 29.630 16.67 16.67 36.23 2.32
223 228 9.659830 CCAAAATAAGTGTTGTGAGTTTAGTAC 57.340 33.333 0.00 0.00 0.00 2.73
224 229 8.842280 CCCAAAATAAGTGTTGTGAGTTTAGTA 58.158 33.333 0.00 0.00 0.00 1.82
225 230 7.558444 TCCCAAAATAAGTGTTGTGAGTTTAGT 59.442 33.333 0.00 0.00 0.00 2.24
226 231 7.860872 GTCCCAAAATAAGTGTTGTGAGTTTAG 59.139 37.037 0.00 0.00 0.00 1.85
227 232 7.467539 CGTCCCAAAATAAGTGTTGTGAGTTTA 60.468 37.037 0.00 0.00 0.00 2.01
228 233 6.569780 GTCCCAAAATAAGTGTTGTGAGTTT 58.430 36.000 0.00 0.00 0.00 2.66
229 234 5.220970 CGTCCCAAAATAAGTGTTGTGAGTT 60.221 40.000 0.00 0.00 0.00 3.01
230 235 4.274950 CGTCCCAAAATAAGTGTTGTGAGT 59.725 41.667 0.00 0.00 0.00 3.41
231 236 4.320202 CCGTCCCAAAATAAGTGTTGTGAG 60.320 45.833 0.00 0.00 0.00 3.51
232 237 3.566322 CCGTCCCAAAATAAGTGTTGTGA 59.434 43.478 0.00 0.00 0.00 3.58
233 238 3.566322 TCCGTCCCAAAATAAGTGTTGTG 59.434 43.478 0.00 0.00 0.00 3.33
234 239 3.818773 CTCCGTCCCAAAATAAGTGTTGT 59.181 43.478 0.00 0.00 0.00 3.32
235 240 4.069304 TCTCCGTCCCAAAATAAGTGTTG 58.931 43.478 0.00 0.00 0.00 3.33
236 241 4.041198 TCTCTCCGTCCCAAAATAAGTGTT 59.959 41.667 0.00 0.00 0.00 3.32
237 242 3.581332 TCTCTCCGTCCCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
238 243 4.184629 CTCTCTCCGTCCCAAAATAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
239 244 3.838903 ACTCTCTCCGTCCCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
240 245 4.473477 ACTCTCTCCGTCCCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
241 246 5.021458 ACTACTCTCTCCGTCCCAAAATAA 58.979 41.667 0.00 0.00 0.00 1.40
242 247 4.607239 ACTACTCTCTCCGTCCCAAAATA 58.393 43.478 0.00 0.00 0.00 1.40
243 248 3.442076 ACTACTCTCTCCGTCCCAAAAT 58.558 45.455 0.00 0.00 0.00 1.82
244 249 2.885616 ACTACTCTCTCCGTCCCAAAA 58.114 47.619 0.00 0.00 0.00 2.44
245 250 2.599408 ACTACTCTCTCCGTCCCAAA 57.401 50.000 0.00 0.00 0.00 3.28
246 251 3.726557 TTACTACTCTCTCCGTCCCAA 57.273 47.619 0.00 0.00 0.00 4.12
247 252 3.947612 ATTACTACTCTCTCCGTCCCA 57.052 47.619 0.00 0.00 0.00 4.37
248 253 5.595257 AAAATTACTACTCTCTCCGTCCC 57.405 43.478 0.00 0.00 0.00 4.46
271 276 8.445361 AATTACTACTCTCTCACCCCTAAAAA 57.555 34.615 0.00 0.00 0.00 1.94
272 277 8.445361 AAATTACTACTCTCTCACCCCTAAAA 57.555 34.615 0.00 0.00 0.00 1.52
273 278 9.725206 ATAAATTACTACTCTCTCACCCCTAAA 57.275 33.333 0.00 0.00 0.00 1.85
274 279 9.725206 AATAAATTACTACTCTCTCACCCCTAA 57.275 33.333 0.00 0.00 0.00 2.69
276 281 9.725206 TTAATAAATTACTACTCTCTCACCCCT 57.275 33.333 0.00 0.00 0.00 4.79
464 470 1.525197 CGCAGAAGAACAAACGTGCTA 59.475 47.619 0.00 0.00 0.00 3.49
578 584 4.755411 CTCTTGGGCAGAAAGTAATACGA 58.245 43.478 0.00 0.00 0.00 3.43
595 601 0.659427 CCGCACCATACATGCTCTTG 59.341 55.000 0.00 0.00 41.10 3.02
607 613 4.129737 GCTAGAGCGTCCGCACCA 62.130 66.667 14.70 0.00 44.88 4.17
640 650 1.925285 CTGGGAATGGTAGCCCTGCA 61.925 60.000 0.00 0.00 44.96 4.41
650 660 1.043022 GGCCATAAAGCTGGGAATGG 58.957 55.000 0.00 10.89 41.55 3.16
668 678 1.185315 AAATCGGAGGCACCATTTGG 58.815 50.000 0.94 0.00 38.90 3.28
669 679 2.029110 ACAAAATCGGAGGCACCATTTG 60.029 45.455 16.56 16.56 39.77 2.32
670 680 2.029110 CACAAAATCGGAGGCACCATTT 60.029 45.455 0.94 4.03 38.90 2.32
671 681 1.545582 CACAAAATCGGAGGCACCATT 59.454 47.619 0.94 0.00 38.90 3.16
672 682 1.176527 CACAAAATCGGAGGCACCAT 58.823 50.000 0.94 0.00 38.90 3.55
673 683 1.523154 GCACAAAATCGGAGGCACCA 61.523 55.000 0.94 0.00 38.90 4.17
674 684 1.212751 GCACAAAATCGGAGGCACC 59.787 57.895 0.00 0.00 0.00 5.01
675 685 0.313672 TTGCACAAAATCGGAGGCAC 59.686 50.000 0.00 0.00 0.00 5.01
676 686 1.035923 TTTGCACAAAATCGGAGGCA 58.964 45.000 0.00 0.00 0.00 4.75
677 687 1.792367 GTTTTGCACAAAATCGGAGGC 59.208 47.619 11.39 0.00 41.64 4.70
680 690 3.118956 ACCAAGTTTTGCACAAAATCGGA 60.119 39.130 19.49 0.00 41.64 4.55
682 692 5.277825 TCTACCAAGTTTTGCACAAAATCG 58.722 37.500 11.39 4.13 41.64 3.34
939 3488 5.192176 TGTATGTGATGGAAATAAGCAGCA 58.808 37.500 0.00 0.00 0.00 4.41
991 3542 2.696187 TGCTGTAGTCCATGGCGTATAA 59.304 45.455 6.96 0.00 0.00 0.98
1348 3899 1.771073 GCACAGCACTTGCACGTACA 61.771 55.000 3.62 0.00 45.16 2.90
1351 3902 2.514592 AGCACAGCACTTGCACGT 60.515 55.556 3.62 0.00 42.83 4.49
1865 4416 6.038825 CGAGACTGAAGGAACATCTAGTGTAT 59.961 42.308 0.00 0.00 41.14 2.29
1879 4430 1.699343 GTTTCCGACGAGACTGAAGG 58.301 55.000 0.00 0.00 0.00 3.46
1890 4441 0.026544 TTGAACAACGCGTTTCCGAC 59.973 50.000 24.21 12.41 38.19 4.79
1891 4442 0.026544 GTTGAACAACGCGTTTCCGA 59.973 50.000 24.21 11.06 38.19 4.55
1892 4443 2.476345 GTTGAACAACGCGTTTCCG 58.524 52.632 24.21 14.21 38.19 4.30
1901 4452 2.774439 AGTCATTGCCGTTGAACAAC 57.226 45.000 7.51 7.51 37.92 3.32
1902 4453 2.286713 CGAAGTCATTGCCGTTGAACAA 60.287 45.455 0.00 0.00 0.00 2.83
1903 4454 1.262950 CGAAGTCATTGCCGTTGAACA 59.737 47.619 0.00 0.00 0.00 3.18
1904 4455 1.950472 CGAAGTCATTGCCGTTGAAC 58.050 50.000 0.00 0.00 0.00 3.18
1905 4456 0.237235 GCGAAGTCATTGCCGTTGAA 59.763 50.000 0.00 0.00 0.00 2.69
1906 4457 1.573829 GGCGAAGTCATTGCCGTTGA 61.574 55.000 0.00 0.00 39.30 3.18
1935 4487 3.497103 TGATATGCAGATCCAAGGTGG 57.503 47.619 18.25 0.00 39.43 4.61
1948 4500 4.737353 TGCGAGTTCATCAATGATATGC 57.263 40.909 0.00 0.00 36.56 3.14
1949 4501 5.346822 TCGATGCGAGTTCATCAATGATATG 59.653 40.000 0.00 0.00 42.15 1.78
1969 4521 1.202952 ACCTCCTTATCCGAGCTCGAT 60.203 52.381 36.59 26.71 43.02 3.59
1971 4523 0.312416 CACCTCCTTATCCGAGCTCG 59.688 60.000 29.06 29.06 39.44 5.03
2007 4559 3.186909 CATCGCAATAGACACCGAAAGA 58.813 45.455 0.00 0.00 33.10 2.52
2008 4560 2.285220 CCATCGCAATAGACACCGAAAG 59.715 50.000 0.00 0.00 33.10 2.62
2009 4561 2.276201 CCATCGCAATAGACACCGAAA 58.724 47.619 0.00 0.00 33.10 3.46
2011 4563 0.821517 ACCATCGCAATAGACACCGA 59.178 50.000 0.00 0.00 0.00 4.69
2012 4564 0.930310 CACCATCGCAATAGACACCG 59.070 55.000 0.00 0.00 0.00 4.94
2013 4565 0.657840 GCACCATCGCAATAGACACC 59.342 55.000 0.00 0.00 0.00 4.16
2014 4566 0.657840 GGCACCATCGCAATAGACAC 59.342 55.000 0.00 0.00 0.00 3.67
2016 4568 1.498865 CCGGCACCATCGCAATAGAC 61.499 60.000 0.00 0.00 0.00 2.59
2018 4570 1.224069 CTCCGGCACCATCGCAATAG 61.224 60.000 0.00 0.00 0.00 1.73
2019 4571 1.227527 CTCCGGCACCATCGCAATA 60.228 57.895 0.00 0.00 0.00 1.90
2020 4572 2.514592 CTCCGGCACCATCGCAAT 60.515 61.111 0.00 0.00 0.00 3.56
2021 4573 4.776322 CCTCCGGCACCATCGCAA 62.776 66.667 0.00 0.00 0.00 4.85
2023 4575 3.165160 ATACCTCCGGCACCATCGC 62.165 63.158 0.00 0.00 0.00 4.58
2024 4576 1.300931 CATACCTCCGGCACCATCG 60.301 63.158 0.00 0.00 0.00 3.84
2029 4581 0.532862 CCATCACATACCTCCGGCAC 60.533 60.000 0.00 0.00 0.00 5.01
2034 4586 3.117888 ACCATTGTCCATCACATACCTCC 60.118 47.826 0.00 0.00 33.90 4.30
2039 4591 5.430886 CTTGAGACCATTGTCCATCACATA 58.569 41.667 0.00 0.00 42.81 2.29
2042 4594 2.421424 GCTTGAGACCATTGTCCATCAC 59.579 50.000 0.00 0.00 42.81 3.06
2046 4598 4.326826 CTTTAGCTTGAGACCATTGTCCA 58.673 43.478 0.00 0.00 42.81 4.02
2049 4601 4.640771 TCCTTTAGCTTGAGACCATTGT 57.359 40.909 0.00 0.00 0.00 2.71
2051 4603 7.227512 CGAATAATCCTTTAGCTTGAGACCATT 59.772 37.037 0.00 0.00 0.00 3.16
2057 4609 6.284459 AGACCGAATAATCCTTTAGCTTGAG 58.716 40.000 0.00 0.00 0.00 3.02
2059 4611 6.238484 CCAAGACCGAATAATCCTTTAGCTTG 60.238 42.308 0.00 0.00 0.00 4.01
2066 4618 4.700213 CACAACCAAGACCGAATAATCCTT 59.300 41.667 0.00 0.00 0.00 3.36
2069 4621 6.436843 AATCACAACCAAGACCGAATAATC 57.563 37.500 0.00 0.00 0.00 1.75
2107 4660 2.519377 TTCTTTGCGAAGAGGAACGA 57.481 45.000 15.93 0.00 42.55 3.85
2145 4703 8.314021 ACATACATATTGACTTGACAAGACAGA 58.686 33.333 21.95 13.06 34.84 3.41
2147 4705 8.093927 TCACATACATATTGACTTGACAAGACA 58.906 33.333 21.95 18.26 33.22 3.41
2160 4718 8.615211 ACTGCAGTACAAATCACATACATATTG 58.385 33.333 20.16 0.00 0.00 1.90
2169 4727 6.934083 TCATAAGAACTGCAGTACAAATCACA 59.066 34.615 22.01 5.71 0.00 3.58
2170 4728 7.364522 TCATAAGAACTGCAGTACAAATCAC 57.635 36.000 22.01 4.68 0.00 3.06
2182 4740 7.172361 GGGTCTCATTTCTATCATAAGAACTGC 59.828 40.741 0.00 0.00 36.57 4.40
2183 4741 8.206867 TGGGTCTCATTTCTATCATAAGAACTG 58.793 37.037 0.00 0.00 37.45 3.16
2184 4742 8.324191 TGGGTCTCATTTCTATCATAAGAACT 57.676 34.615 0.00 0.00 35.25 3.01
2200 4758 9.699410 TCTTTTTCATTGTAATATGGGTCTCAT 57.301 29.630 0.00 0.00 39.78 2.90
2201 4759 9.699410 ATCTTTTTCATTGTAATATGGGTCTCA 57.301 29.630 0.00 0.00 0.00 3.27
2215 4773 6.930722 AGCACCCAAGTAAATCTTTTTCATTG 59.069 34.615 0.00 0.00 33.63 2.82
2216 4774 6.930722 CAGCACCCAAGTAAATCTTTTTCATT 59.069 34.615 0.00 0.00 33.63 2.57
2224 4782 1.710809 ACCCAGCACCCAAGTAAATCT 59.289 47.619 0.00 0.00 0.00 2.40
2225 4783 2.215942 ACCCAGCACCCAAGTAAATC 57.784 50.000 0.00 0.00 0.00 2.17
2227 4785 2.175069 TGTAACCCAGCACCCAAGTAAA 59.825 45.455 0.00 0.00 0.00 2.01
2228 4786 1.775459 TGTAACCCAGCACCCAAGTAA 59.225 47.619 0.00 0.00 0.00 2.24
2230 4788 0.553819 TTGTAACCCAGCACCCAAGT 59.446 50.000 0.00 0.00 0.00 3.16
2231 4789 1.339929 GTTTGTAACCCAGCACCCAAG 59.660 52.381 0.00 0.00 0.00 3.61
2232 4790 1.063567 AGTTTGTAACCCAGCACCCAA 60.064 47.619 0.00 0.00 0.00 4.12
2234 4792 1.244816 GAGTTTGTAACCCAGCACCC 58.755 55.000 0.00 0.00 0.00 4.61
2237 4795 2.719531 TGTGAGTTTGTAACCCAGCA 57.280 45.000 0.00 0.00 0.00 4.41
2241 4800 5.310451 TCCACTATTGTGAGTTTGTAACCC 58.690 41.667 8.98 0.00 46.55 4.11
2245 4804 5.937540 CACCATCCACTATTGTGAGTTTGTA 59.062 40.000 8.98 0.00 46.55 2.41
2277 4836 3.313249 CGGTTGCAGAGAATCAATATGCA 59.687 43.478 0.00 0.00 44.58 3.96
2278 4837 3.851105 GCGGTTGCAGAGAATCAATATGC 60.851 47.826 0.00 0.00 42.15 3.14
2279 4838 3.304257 GGCGGTTGCAGAGAATCAATATG 60.304 47.826 0.00 0.00 45.35 1.78
2288 4855 2.449031 AATCGTGGCGGTTGCAGAGA 62.449 55.000 0.00 0.00 45.35 3.10
2310 4877 1.069258 GTATCTGCCGGGTACAGCC 59.931 63.158 2.18 0.00 35.04 4.85
2319 4886 1.532007 GACGAGTAGGAGTATCTGCCG 59.468 57.143 0.00 0.00 33.73 5.69
2333 4900 1.414158 ATCGATCCCATTGGACGAGT 58.586 50.000 18.43 9.16 45.58 4.18
2334 4901 3.193479 TCATATCGATCCCATTGGACGAG 59.807 47.826 18.43 9.95 45.58 4.18
2373 4940 4.882671 ATGGGAACGAGATTTGAATTCG 57.117 40.909 0.04 0.00 40.02 3.34
2401 4968 8.918961 AATTATGTTCATCGCGGATTTTAAAA 57.081 26.923 6.13 2.51 0.00 1.52
2492 5064 5.266242 GCAATAGCTAAAACTCGTGAATGG 58.734 41.667 0.00 0.00 37.91 3.16
2494 5066 4.941263 TGGCAATAGCTAAAACTCGTGAAT 59.059 37.500 0.00 0.00 41.70 2.57
2579 5151 4.020839 GCCAACAGTACCACTAGTAGGAAA 60.021 45.833 15.59 3.75 0.00 3.13
2582 5154 3.097614 AGCCAACAGTACCACTAGTAGG 58.902 50.000 1.45 2.26 0.00 3.18
2594 5166 2.522185 TCGGTACTTCTAGCCAACAGT 58.478 47.619 0.00 0.00 0.00 3.55
2644 5216 5.896678 CCCATGGGTAAAATTGTCATCCTTA 59.103 40.000 23.93 0.00 0.00 2.69
2645 5217 4.716287 CCCATGGGTAAAATTGTCATCCTT 59.284 41.667 23.93 0.00 0.00 3.36
2646 5218 4.289245 CCCATGGGTAAAATTGTCATCCT 58.711 43.478 23.93 0.00 0.00 3.24
2647 5219 4.670896 CCCATGGGTAAAATTGTCATCC 57.329 45.455 23.93 0.00 0.00 3.51
2674 5246 0.668535 GGTACGGTATCCACGGGTAC 59.331 60.000 0.00 0.00 35.84 3.34
2675 5247 0.467290 GGGTACGGTATCCACGGGTA 60.467 60.000 12.62 0.00 35.23 3.69
2676 5248 1.758122 GGGTACGGTATCCACGGGT 60.758 63.158 12.62 0.00 35.23 5.28
2677 5249 1.757731 TGGGTACGGTATCCACGGG 60.758 63.158 16.12 0.00 32.95 5.28
2678 5250 3.938048 TGGGTACGGTATCCACGG 58.062 61.111 16.12 0.00 32.95 4.94
2681 5253 1.124780 CCATGTGGGTACGGTATCCA 58.875 55.000 16.12 16.12 36.36 3.41
2693 5265 0.771127 CCCATACCCTACCCATGTGG 59.229 60.000 0.00 0.00 41.37 4.17
2694 5266 0.110486 GCCCATACCCTACCCATGTG 59.890 60.000 0.00 0.00 0.00 3.21
2695 5267 0.328061 TGCCCATACCCTACCCATGT 60.328 55.000 0.00 0.00 0.00 3.21
2696 5268 1.075601 ATGCCCATACCCTACCCATG 58.924 55.000 0.00 0.00 0.00 3.66
2697 5269 2.753031 TATGCCCATACCCTACCCAT 57.247 50.000 0.00 0.00 0.00 4.00
2698 5270 2.516544 TTATGCCCATACCCTACCCA 57.483 50.000 0.00 0.00 0.00 4.51
2699 5271 3.190439 AGATTATGCCCATACCCTACCC 58.810 50.000 0.00 0.00 0.00 3.69
2700 5272 4.929146 AAGATTATGCCCATACCCTACC 57.071 45.455 0.00 0.00 0.00 3.18
2701 5273 8.376270 GGATATAAGATTATGCCCATACCCTAC 58.624 40.741 0.00 0.00 0.00 3.18
2702 5274 8.077512 TGGATATAAGATTATGCCCATACCCTA 58.922 37.037 0.00 0.00 0.00 3.53
2703 5275 6.914270 TGGATATAAGATTATGCCCATACCCT 59.086 38.462 0.00 0.00 0.00 4.34
2704 5276 7.149202 TGGATATAAGATTATGCCCATACCC 57.851 40.000 0.00 0.00 0.00 3.69
2705 5277 7.667219 CCATGGATATAAGATTATGCCCATACC 59.333 40.741 5.56 0.00 36.15 2.73
2706 5278 7.667219 CCCATGGATATAAGATTATGCCCATAC 59.333 40.741 15.22 0.00 36.15 2.39
2707 5279 7.353326 ACCCATGGATATAAGATTATGCCCATA 59.647 37.037 15.22 0.00 36.15 2.74
2708 5280 6.162779 ACCCATGGATATAAGATTATGCCCAT 59.837 38.462 15.22 11.57 37.24 4.00
2709 5281 5.495802 ACCCATGGATATAAGATTATGCCCA 59.504 40.000 15.22 8.98 33.57 5.36
2710 5282 6.018433 ACCCATGGATATAAGATTATGCCC 57.982 41.667 15.22 0.00 0.00 5.36
2711 5283 7.806180 ACTACCCATGGATATAAGATTATGCC 58.194 38.462 15.22 0.00 0.00 4.40
2712 5284 9.765795 GTACTACCCATGGATATAAGATTATGC 57.234 37.037 15.22 0.00 0.00 3.14
2715 5287 9.831682 TGTGTACTACCCATGGATATAAGATTA 57.168 33.333 15.22 0.00 0.00 1.75
2716 5288 8.736097 TGTGTACTACCCATGGATATAAGATT 57.264 34.615 15.22 0.00 0.00 2.40
2717 5289 8.917414 ATGTGTACTACCCATGGATATAAGAT 57.083 34.615 15.22 0.00 0.00 2.40
2718 5290 9.251440 GTATGTGTACTACCCATGGATATAAGA 57.749 37.037 15.22 0.00 0.00 2.10
2719 5291 8.475639 GGTATGTGTACTACCCATGGATATAAG 58.524 40.741 15.22 5.32 33.84 1.73
2720 5292 8.370266 GGTATGTGTACTACCCATGGATATAA 57.630 38.462 15.22 0.00 33.84 0.98
2721 5293 7.966339 GGTATGTGTACTACCCATGGATATA 57.034 40.000 15.22 1.55 33.84 0.86
2722 5294 6.869206 GGTATGTGTACTACCCATGGATAT 57.131 41.667 15.22 0.19 33.84 1.63
2732 5304 3.555966 ACGGGTAGGGTATGTGTACTAC 58.444 50.000 0.00 0.00 36.07 2.73
2733 5305 3.951563 ACGGGTAGGGTATGTGTACTA 57.048 47.619 0.00 0.00 0.00 1.82
2734 5306 2.834638 ACGGGTAGGGTATGTGTACT 57.165 50.000 0.00 0.00 0.00 2.73
2735 5307 4.402474 ACTTAACGGGTAGGGTATGTGTAC 59.598 45.833 0.00 0.00 0.00 2.90
2736 5308 4.609301 ACTTAACGGGTAGGGTATGTGTA 58.391 43.478 0.00 0.00 0.00 2.90
2737 5309 3.444029 ACTTAACGGGTAGGGTATGTGT 58.556 45.455 0.00 0.00 0.00 3.72
2738 5310 3.448301 TGACTTAACGGGTAGGGTATGTG 59.552 47.826 0.00 0.00 0.00 3.21
2739 5311 3.711863 TGACTTAACGGGTAGGGTATGT 58.288 45.455 0.00 0.00 0.00 2.29
2740 5312 4.502604 CCATGACTTAACGGGTAGGGTATG 60.503 50.000 0.00 0.00 0.00 2.39
2741 5313 3.644738 CCATGACTTAACGGGTAGGGTAT 59.355 47.826 0.00 0.00 0.00 2.73
2742 5314 3.033184 CCATGACTTAACGGGTAGGGTA 58.967 50.000 0.00 0.00 0.00 3.69
2743 5315 1.835531 CCATGACTTAACGGGTAGGGT 59.164 52.381 0.00 0.00 0.00 4.34
2744 5316 1.140252 CCCATGACTTAACGGGTAGGG 59.860 57.143 0.00 0.00 33.67 3.53
2745 5317 2.614829 CCCATGACTTAACGGGTAGG 57.385 55.000 0.00 0.00 33.67 3.18
2749 5321 1.140252 CCCTACCCATGACTTAACGGG 59.860 57.143 0.00 0.00 44.88 5.28
2750 5322 1.474498 GCCCTACCCATGACTTAACGG 60.474 57.143 0.00 0.00 0.00 4.44
2751 5323 1.208535 TGCCCTACCCATGACTTAACG 59.791 52.381 0.00 0.00 0.00 3.18
2752 5324 3.214328 CATGCCCTACCCATGACTTAAC 58.786 50.000 0.00 0.00 41.97 2.01
2753 5325 2.174639 CCATGCCCTACCCATGACTTAA 59.825 50.000 0.00 0.00 41.97 1.85
2754 5326 1.774254 CCATGCCCTACCCATGACTTA 59.226 52.381 0.00 0.00 41.97 2.24
2755 5327 0.552848 CCATGCCCTACCCATGACTT 59.447 55.000 0.00 0.00 41.97 3.01
2756 5328 2.234586 CCATGCCCTACCCATGACT 58.765 57.895 0.00 0.00 41.97 3.41
2757 5329 4.907457 CCATGCCCTACCCATGAC 57.093 61.111 0.00 0.00 41.97 3.06


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

AutoCloner maintained by Alex Coulton.