Multiple sequence alignment - TraesCS2B01G183300

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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 TraesCS2B01G183300 chr2B 100.000 3956 0 0 1 3956 158616043 158619998 0.000000e+00 7306.0
1 TraesCS2B01G183300 chr2B 100.000 28 0 0 160 187 2496243 2496270 7.000000e-03 52.8
2 TraesCS2B01G183300 chr2D 89.993 2858 169 56 360 3155 108919817 108922619 0.000000e+00 3585.0
3 TraesCS2B01G183300 chr2D 92.792 763 46 4 3197 3956 108922620 108923376 0.000000e+00 1096.0
4 TraesCS2B01G183300 chr2D 89.167 120 6 5 249 365 108913434 108913549 4.120000e-30 143.0
5 TraesCS2B01G183300 chr2D 81.000 100 15 2 33 132 531254770 531254865 4.240000e-10 76.8
6 TraesCS2B01G183300 chr2A 93.215 1577 84 7 2382 3956 104870214 104871769 0.000000e+00 2298.0
7 TraesCS2B01G183300 chr2A 86.961 2155 141 64 291 2366 104867967 104870060 0.000000e+00 2294.0
8 TraesCS2B01G183300 chr2A 93.583 187 12 0 1 187 104867706 104867892 3.010000e-71 279.0
9 TraesCS2B01G183300 chr5A 83.422 187 24 2 1 187 589219013 589218834 2.450000e-37 167.0
10 TraesCS2B01G183300 chr5A 89.231 65 6 1 67 131 535644772 535644709 3.280000e-11 80.5
11 TraesCS2B01G183300 chr1A 79.679 187 31 6 1 187 578755922 578755743 1.150000e-25 128.0
12 TraesCS2B01G183300 chr1B 81.560 141 20 2 49 187 670553001 670552865 1.160000e-20 111.0


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 TraesCS2B01G183300 chr2B 158616043 158619998 3955 False 7306.000000 7306 100.0000 1 3956 1 chr2B.!!$F2 3955
1 TraesCS2B01G183300 chr2D 108919817 108923376 3559 False 2340.500000 3585 91.3925 360 3956 2 chr2D.!!$F3 3596
2 TraesCS2B01G183300 chr2A 104867706 104871769 4063 False 1623.666667 2298 91.2530 1 3956 3 chr2A.!!$F1 3955

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
835 861 0.028770 CTCTTAGGCTCGCACTCTCG 59.971 60.0 0.0 0.0 0.00 4.04 F
920 947 0.040067 CTTTCGTCTTGTTGCTGGGC 60.040 55.0 0.0 0.0 0.00 5.36 F
1550 1632 0.176910 TGCAGGTCTGTCGTGAACAA 59.823 50.0 0.0 0.0 37.45 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2422 2652 1.400846 GCATCAGTGATGAAGTGCTGG 59.599 52.381 32.61 7.08 42.09 4.85 R
2781 3011 1.684450 TGGTCTTGTGACAGTTCGCTA 59.316 47.619 0.00 0.00 44.61 4.26 R
3198 3428 0.396435 TGTGCCCAGGTGACTAACAG 59.604 55.000 0.00 0.00 40.21 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
92 93 2.515926 TGATGCTCCGAAGATGCTAC 57.484 50.000 0.00 0.00 0.00 3.58
96 97 3.334583 TGCTCCGAAGATGCTACTTTT 57.665 42.857 0.00 0.00 0.00 2.27
187 188 2.404265 TTGCAAGCACTCGAAACATG 57.596 45.000 0.00 0.00 0.00 3.21
188 189 1.592064 TGCAAGCACTCGAAACATGA 58.408 45.000 0.00 0.00 0.00 3.07
189 190 2.153645 TGCAAGCACTCGAAACATGAT 58.846 42.857 0.00 0.00 0.00 2.45
190 191 2.160219 TGCAAGCACTCGAAACATGATC 59.840 45.455 0.00 0.00 0.00 2.92
191 192 2.476854 GCAAGCACTCGAAACATGATCC 60.477 50.000 0.00 0.00 0.00 3.36
192 193 2.029838 AGCACTCGAAACATGATCCC 57.970 50.000 0.00 0.00 0.00 3.85
193 194 1.017387 GCACTCGAAACATGATCCCC 58.983 55.000 0.00 0.00 0.00 4.81
196 197 1.210478 ACTCGAAACATGATCCCCTGG 59.790 52.381 0.00 0.00 0.00 4.45
197 198 1.486310 CTCGAAACATGATCCCCTGGA 59.514 52.381 0.00 0.00 35.55 3.86
198 199 1.486310 TCGAAACATGATCCCCTGGAG 59.514 52.381 0.00 0.00 34.05 3.86
199 200 1.685148 GAAACATGATCCCCTGGAGC 58.315 55.000 0.00 0.00 38.78 4.70
203 204 2.284625 TGATCCCCTGGAGCACGT 60.285 61.111 0.00 0.00 43.58 4.49
204 205 1.918293 TGATCCCCTGGAGCACGTT 60.918 57.895 0.00 0.00 43.58 3.99
205 206 1.153349 GATCCCCTGGAGCACGTTC 60.153 63.158 0.00 0.00 38.12 3.95
207 208 1.274703 ATCCCCTGGAGCACGTTCAT 61.275 55.000 0.00 0.00 34.05 2.57
208 209 1.746615 CCCCTGGAGCACGTTCATG 60.747 63.158 0.00 0.00 0.00 3.07
214 215 3.057315 CCTGGAGCACGTTCATGAAAAAT 60.057 43.478 10.35 0.00 0.00 1.82
216 217 5.335583 CCTGGAGCACGTTCATGAAAAATTA 60.336 40.000 10.35 0.00 0.00 1.40
217 218 5.457140 TGGAGCACGTTCATGAAAAATTAC 58.543 37.500 10.35 0.00 0.00 1.89
218 219 5.009110 TGGAGCACGTTCATGAAAAATTACA 59.991 36.000 10.35 2.01 0.00 2.41
219 220 6.092748 GGAGCACGTTCATGAAAAATTACAT 58.907 36.000 10.35 0.00 0.00 2.29
220 221 6.251376 GGAGCACGTTCATGAAAAATTACATC 59.749 38.462 10.35 1.71 0.00 3.06
221 222 6.092748 AGCACGTTCATGAAAAATTACATCC 58.907 36.000 10.35 0.00 0.00 3.51
222 223 5.003402 GCACGTTCATGAAAAATTACATCCG 59.997 40.000 10.35 7.89 0.00 4.18
223 224 5.511377 CACGTTCATGAAAAATTACATCCGG 59.489 40.000 10.35 0.00 0.00 5.14
224 225 5.182380 ACGTTCATGAAAAATTACATCCGGT 59.818 36.000 10.35 0.00 0.00 5.28
225 226 5.511377 CGTTCATGAAAAATTACATCCGGTG 59.489 40.000 10.35 1.37 0.00 4.94
226 227 4.992688 TCATGAAAAATTACATCCGGTGC 58.007 39.130 0.00 0.00 0.00 5.01
227 228 3.859411 TGAAAAATTACATCCGGTGCC 57.141 42.857 0.00 0.00 0.00 5.01
228 229 3.157881 TGAAAAATTACATCCGGTGCCA 58.842 40.909 0.00 0.00 0.00 4.92
229 230 3.766591 TGAAAAATTACATCCGGTGCCAT 59.233 39.130 0.00 0.00 0.00 4.40
230 231 3.799281 AAAATTACATCCGGTGCCATG 57.201 42.857 0.00 0.00 0.00 3.66
231 232 2.727123 AATTACATCCGGTGCCATGA 57.273 45.000 7.79 0.00 0.00 3.07
232 233 2.727123 ATTACATCCGGTGCCATGAA 57.273 45.000 7.79 0.00 0.00 2.57
233 234 2.498644 TTACATCCGGTGCCATGAAA 57.501 45.000 7.79 0.00 0.00 2.69
234 235 2.498644 TACATCCGGTGCCATGAAAA 57.501 45.000 7.79 0.00 0.00 2.29
235 236 1.626686 ACATCCGGTGCCATGAAAAA 58.373 45.000 7.79 0.00 0.00 1.94
268 269 9.777843 GTATTGTTTGATTTTTACTTTTGCGAG 57.222 29.630 0.00 0.00 0.00 5.03
279 280 6.913873 TTACTTTTGCGAGTTTACTGTTCT 57.086 33.333 0.00 0.00 0.00 3.01
280 281 5.156804 ACTTTTGCGAGTTTACTGTTCTG 57.843 39.130 0.00 0.00 0.00 3.02
282 283 2.902705 TGCGAGTTTACTGTTCTGGT 57.097 45.000 0.00 0.00 0.00 4.00
285 286 3.244078 TGCGAGTTTACTGTTCTGGTCAT 60.244 43.478 0.00 0.00 0.00 3.06
287 288 3.123621 CGAGTTTACTGTTCTGGTCATGC 59.876 47.826 0.00 0.00 0.00 4.06
288 289 4.319177 GAGTTTACTGTTCTGGTCATGCT 58.681 43.478 0.00 0.00 0.00 3.79
295 300 3.260483 CTGGTCATGCTCGAGCGC 61.260 66.667 30.75 19.94 45.83 5.92
308 313 1.065701 TCGAGCGCAGATTAGGACTTC 59.934 52.381 11.47 0.00 0.00 3.01
316 321 4.554330 CGCAGATTAGGACTTCCGTAGTAC 60.554 50.000 0.00 0.00 42.08 2.73
318 323 5.762218 GCAGATTAGGACTTCCGTAGTACTA 59.238 44.000 0.00 0.00 46.68 1.82
329 334 8.814038 ACTTCCGTAGTACTAATTCCTTTCTA 57.186 34.615 3.61 0.00 34.56 2.10
330 335 8.901793 ACTTCCGTAGTACTAATTCCTTTCTAG 58.098 37.037 3.61 0.00 34.56 2.43
331 336 9.118300 CTTCCGTAGTACTAATTCCTTTCTAGA 57.882 37.037 3.61 0.00 0.00 2.43
332 337 9.466497 TTCCGTAGTACTAATTCCTTTCTAGAA 57.534 33.333 3.61 0.00 0.00 2.10
333 338 9.118300 TCCGTAGTACTAATTCCTTTCTAGAAG 57.882 37.037 3.61 0.54 0.00 2.85
334 339 8.901793 CCGTAGTACTAATTCCTTTCTAGAAGT 58.098 37.037 3.61 0.08 0.00 3.01
367 372 8.659925 TTACCTTCCGTATATAAAATTCGCAA 57.340 30.769 0.00 0.00 0.00 4.85
368 373 7.739498 ACCTTCCGTATATAAAATTCGCAAT 57.261 32.000 0.00 0.00 0.00 3.56
377 382 2.193306 AAATTCGCAATGGATCACGC 57.807 45.000 0.00 0.00 0.00 5.34
701 722 3.766691 CCCCGTTGGACGATCCGT 61.767 66.667 1.51 0.00 46.05 4.69
731 752 1.060743 CCCCCTACTTAGCTTCCCCC 61.061 65.000 0.00 0.00 0.00 5.40
732 753 0.029989 CCCCTACTTAGCTTCCCCCT 60.030 60.000 0.00 0.00 0.00 4.79
764 785 1.857348 CCTTCCCTCCCACCCCTTT 60.857 63.158 0.00 0.00 0.00 3.11
771 792 0.908180 CTCCCACCCCTTTACCTCGT 60.908 60.000 0.00 0.00 0.00 4.18
780 801 1.135083 CCTTTACCTCGTGCGATCACT 60.135 52.381 0.00 0.00 40.99 3.41
789 815 1.737029 CGTGCGATCACTGAGAACCAT 60.737 52.381 0.00 0.00 40.99 3.55
797 823 5.299531 CGATCACTGAGAACCATAGGTAGAA 59.700 44.000 0.00 0.00 33.12 2.10
829 855 2.185350 GCAGCTCTTAGGCTCGCA 59.815 61.111 0.00 0.00 41.00 5.10
833 859 0.682855 AGCTCTTAGGCTCGCACTCT 60.683 55.000 0.00 0.00 38.24 3.24
834 860 0.248866 GCTCTTAGGCTCGCACTCTC 60.249 60.000 0.00 0.00 0.00 3.20
835 861 0.028770 CTCTTAGGCTCGCACTCTCG 59.971 60.000 0.00 0.00 0.00 4.04
837 863 0.452184 CTTAGGCTCGCACTCTCGAA 59.548 55.000 0.00 0.00 38.08 3.71
838 864 1.066303 CTTAGGCTCGCACTCTCGAAT 59.934 52.381 0.00 0.00 38.08 3.34
840 866 1.590259 GGCTCGCACTCTCGAATCC 60.590 63.158 0.00 0.00 38.08 3.01
841 867 1.435515 GCTCGCACTCTCGAATCCT 59.564 57.895 0.00 0.00 38.08 3.24
844 870 0.663688 TCGCACTCTCGAATCCTAGC 59.336 55.000 0.00 0.00 35.31 3.42
845 871 0.318275 CGCACTCTCGAATCCTAGCC 60.318 60.000 0.00 0.00 0.00 3.93
851 877 0.394565 CTCGAATCCTAGCCCCCTTG 59.605 60.000 0.00 0.00 0.00 3.61
852 878 0.326238 TCGAATCCTAGCCCCCTTGT 60.326 55.000 0.00 0.00 0.00 3.16
907 934 9.796120 TTTATTTGTTTCTTCATGTTCTTTCGT 57.204 25.926 0.00 0.00 0.00 3.85
908 935 7.914537 ATTTGTTTCTTCATGTTCTTTCGTC 57.085 32.000 0.00 0.00 0.00 4.20
912 939 6.093495 TGTTTCTTCATGTTCTTTCGTCTTGT 59.907 34.615 0.00 0.00 0.00 3.16
920 947 0.040067 CTTTCGTCTTGTTGCTGGGC 60.040 55.000 0.00 0.00 0.00 5.36
921 948 1.781025 TTTCGTCTTGTTGCTGGGCG 61.781 55.000 0.00 0.00 0.00 6.13
960 995 4.459337 GGAACTGATGGACCTTGGTTTTAG 59.541 45.833 0.00 0.00 0.00 1.85
974 1010 0.323629 TTTTAGTCGCAGGGTGAGGG 59.676 55.000 0.00 0.00 0.00 4.30
992 1028 1.139095 GTACCGGGTCGAGCTTCTG 59.861 63.158 15.18 3.37 0.00 3.02
995 1031 4.821589 CGGGTCGAGCTTCTGGGC 62.822 72.222 15.18 0.00 0.00 5.36
1070 1106 2.360475 GTGAGTTCTGGGGCCTGC 60.360 66.667 0.84 0.00 0.00 4.85
1075 1111 0.901580 AGTTCTGGGGCCTGCAATTG 60.902 55.000 0.84 0.00 0.00 2.32
1103 1139 4.357918 TTTTCAGTCTTGGGAAGAGGAG 57.642 45.455 0.00 0.00 38.41 3.69
1129 1165 0.323725 AATGAACTGGCCCGCAGATT 60.324 50.000 0.00 0.00 0.00 2.40
1137 1173 1.356624 GCCCGCAGATTGAATTCCG 59.643 57.895 2.27 0.00 0.00 4.30
1138 1174 1.356624 CCCGCAGATTGAATTCCGC 59.643 57.895 2.27 0.00 0.00 5.54
1148 1201 2.542766 TGAATTCCGCAGCGATTTTC 57.457 45.000 18.75 15.32 0.00 2.29
1162 1215 5.584649 CAGCGATTTTCACCCTGTAGAATTA 59.415 40.000 0.00 0.00 0.00 1.40
1172 1225 4.406003 ACCCTGTAGAATTAGTTCGAGCAT 59.594 41.667 1.01 0.00 39.38 3.79
1173 1226 4.747108 CCCTGTAGAATTAGTTCGAGCATG 59.253 45.833 1.01 0.00 39.38 4.06
1178 1231 7.492524 TGTAGAATTAGTTCGAGCATGATCTT 58.507 34.615 9.64 0.00 39.38 2.40
1203 1256 3.275143 TCAATAAAATCATCGCGGGTGT 58.725 40.909 6.13 0.00 0.00 4.16
1225 1278 7.724061 GGTGTATATGGAAATACTGAAACCCAT 59.276 37.037 0.00 0.00 37.98 4.00
1234 1287 7.254795 GGAAATACTGAAACCCATATGACTTCG 60.255 40.741 3.65 3.81 0.00 3.79
1237 1290 5.416947 ACTGAAACCCATATGACTTCGTAC 58.583 41.667 3.65 0.00 0.00 3.67
1241 1294 4.920640 ACCCATATGACTTCGTACTCAG 57.079 45.455 3.65 0.00 0.00 3.35
1252 1305 4.280174 ACTTCGTACTCAGCCTTGAAGTAA 59.720 41.667 3.79 0.00 42.88 2.24
1265 1318 5.438761 CTTGAAGTAAAGGAACCAACCAG 57.561 43.478 0.00 0.00 0.00 4.00
1266 1319 4.781775 TGAAGTAAAGGAACCAACCAGA 57.218 40.909 0.00 0.00 0.00 3.86
1268 1321 4.165372 TGAAGTAAAGGAACCAACCAGAGT 59.835 41.667 0.00 0.00 0.00 3.24
1269 1322 4.790718 AGTAAAGGAACCAACCAGAGTT 57.209 40.909 0.00 0.00 36.33 3.01
1320 1373 7.222611 TCTGAAATTTTAAACTGCTTGCAAGTC 59.777 33.333 26.55 18.78 0.00 3.01
1337 1390 3.393089 AGTCGTAGCATCCATTCCATC 57.607 47.619 0.00 0.00 0.00 3.51
1349 1402 4.703897 TCCATTCCATCGGTAATCTTGTC 58.296 43.478 0.00 0.00 0.00 3.18
1384 1438 0.389948 ATTCGGTGTGGCTTCTCGTC 60.390 55.000 0.00 0.00 0.00 4.20
1395 1450 3.006859 TGGCTTCTCGTCTTCTGATTTCA 59.993 43.478 0.00 0.00 0.00 2.69
1412 1467 8.026026 TCTGATTTCATGCGCTACAAATTTAAA 58.974 29.630 9.73 0.00 0.00 1.52
1413 1468 8.700722 TGATTTCATGCGCTACAAATTTAAAT 57.299 26.923 9.73 0.00 0.00 1.40
1415 1470 9.623687 GATTTCATGCGCTACAAATTTAAATTC 57.376 29.630 13.68 0.78 0.00 2.17
1433 1488 1.803334 TCGTGCAATAGTGTTCACCC 58.197 50.000 0.00 0.00 0.00 4.61
1453 1512 2.105477 CCTGGTGTCTTATGATCCTGGG 59.895 54.545 14.63 9.02 36.08 4.45
1461 1520 3.969976 TCTTATGATCCTGGGAACTCCTG 59.030 47.826 0.00 0.00 36.20 3.86
1478 1558 4.042187 ACTCCTGCCAAGATAAAACTGTCT 59.958 41.667 0.00 0.00 0.00 3.41
1480 1560 4.041567 TCCTGCCAAGATAAAACTGTCTCA 59.958 41.667 0.00 0.00 0.00 3.27
1550 1632 0.176910 TGCAGGTCTGTCGTGAACAA 59.823 50.000 0.00 0.00 37.45 2.83
1562 1644 3.243177 GTCGTGAACAAGAAGTGTGAGAC 59.757 47.826 0.00 0.00 40.60 3.36
1563 1645 2.216488 CGTGAACAAGAAGTGTGAGACG 59.784 50.000 0.00 0.00 40.60 4.18
1564 1646 3.444916 GTGAACAAGAAGTGTGAGACGA 58.555 45.455 0.00 0.00 40.60 4.20
1575 1660 1.202758 TGTGAGACGAAGGTGCCAAAT 60.203 47.619 0.00 0.00 0.00 2.32
1584 1669 4.173256 CGAAGGTGCCAAATAAAATCCAC 58.827 43.478 0.00 0.00 0.00 4.02
1602 1687 1.203523 CACAAGTCGGAGAGGGAGAAG 59.796 57.143 0.00 0.00 36.95 2.85
1657 1742 1.918253 CTGGGAGCCATGCTAGGTT 59.082 57.895 0.00 0.00 39.88 3.50
1667 1752 5.308825 AGCCATGCTAGGTTTGTGTATATC 58.691 41.667 0.00 0.00 36.99 1.63
1668 1753 5.072329 AGCCATGCTAGGTTTGTGTATATCT 59.928 40.000 0.00 0.00 36.99 1.98
1720 1805 3.167485 ACAACATGATTTCTGGTGCCAT 58.833 40.909 0.00 0.00 34.60 4.40
1727 1812 0.250945 TTTCTGGTGCCATTACCGCA 60.251 50.000 0.00 0.00 43.87 5.69
1738 1823 3.769536 CCATTACCGCATTTGGAAGTTC 58.230 45.455 0.00 0.00 0.00 3.01
1740 1825 1.444836 TACCGCATTTGGAAGTTCCG 58.555 50.000 17.13 3.88 40.17 4.30
1754 1839 4.024809 GGAAGTTCCGTTATATGAGCTTGC 60.025 45.833 6.06 0.00 33.03 4.01
1755 1840 3.467803 AGTTCCGTTATATGAGCTTGCC 58.532 45.455 0.00 0.00 0.00 4.52
1757 1842 1.684450 TCCGTTATATGAGCTTGCCGA 59.316 47.619 0.00 0.00 0.00 5.54
1778 1863 6.929606 GCCGAGTGGTTATCTCTATGTAAAAT 59.070 38.462 0.00 0.00 37.67 1.82
1809 1894 2.628178 TGGTAGAGCTATTGGGTCATCG 59.372 50.000 1.98 0.00 44.16 3.84
1823 1908 1.869767 GTCATCGAAATGCTAGGCTGG 59.130 52.381 0.00 0.00 32.58 4.85
2422 2652 3.136626 ACTGCCCAGATAATACACTTCCC 59.863 47.826 1.69 0.00 0.00 3.97
2531 2761 2.736081 GCATGCTTCGCAATGAAATCCA 60.736 45.455 11.37 0.00 43.62 3.41
2655 2885 2.371841 AGTGTTCCCAGTACAGCATTCA 59.628 45.455 0.00 0.00 0.00 2.57
2732 2962 0.754217 CAATGCTATGCTGCCCCACT 60.754 55.000 0.00 0.00 0.00 4.00
2759 2989 0.324285 CTGCAGCTCTTCCCAGAAGT 59.676 55.000 0.00 0.00 0.00 3.01
2764 2994 2.810852 CAGCTCTTCCCAGAAGTTTCAC 59.189 50.000 4.38 0.00 0.00 3.18
2767 2997 3.008049 GCTCTTCCCAGAAGTTTCACCTA 59.992 47.826 4.38 0.00 0.00 3.08
2781 3011 5.249393 AGTTTCACCTACATCCACTGAAGAT 59.751 40.000 0.00 0.00 0.00 2.40
2803 3033 1.806623 GCGAACTGTCACAAGACCAGT 60.807 52.381 0.00 0.00 44.33 4.00
2855 3085 3.053896 GTACCCAACACCAGCGGC 61.054 66.667 0.00 0.00 0.00 6.53
2941 3171 1.135344 GCACTAGTGAGGAAGACGGTC 60.135 57.143 27.08 0.00 0.00 4.79
2942 3172 1.473278 CACTAGTGAGGAAGACGGTCC 59.527 57.143 18.45 0.00 38.03 4.46
2943 3173 1.075050 ACTAGTGAGGAAGACGGTCCA 59.925 52.381 4.14 0.00 40.48 4.02
3084 3314 6.378564 TCTGTCTCCGAATCTTGATCTTAACT 59.621 38.462 0.00 0.00 0.00 2.24
3155 3385 7.301868 TCTGATAACTGCACATGTATGGATA 57.698 36.000 0.00 0.00 0.00 2.59
3156 3386 7.734942 TCTGATAACTGCACATGTATGGATAA 58.265 34.615 0.00 0.00 0.00 1.75
3157 3387 8.377799 TCTGATAACTGCACATGTATGGATAAT 58.622 33.333 0.00 0.00 0.00 1.28
3158 3388 8.326680 TGATAACTGCACATGTATGGATAATG 57.673 34.615 0.00 0.00 0.00 1.90
3159 3389 7.391275 TGATAACTGCACATGTATGGATAATGG 59.609 37.037 0.00 0.00 0.00 3.16
3160 3390 5.308976 ACTGCACATGTATGGATAATGGA 57.691 39.130 0.00 0.00 0.00 3.41
3162 3392 6.309357 ACTGCACATGTATGGATAATGGATT 58.691 36.000 0.00 0.00 0.00 3.01
3163 3393 6.208007 ACTGCACATGTATGGATAATGGATTG 59.792 38.462 0.00 0.00 0.00 2.67
3164 3394 5.047872 TGCACATGTATGGATAATGGATTGC 60.048 40.000 0.00 0.00 0.00 3.56
3165 3395 5.184479 GCACATGTATGGATAATGGATTGCT 59.816 40.000 0.00 0.00 0.00 3.91
3166 3396 6.624423 GCACATGTATGGATAATGGATTGCTC 60.624 42.308 0.00 0.00 0.00 4.26
3212 3442 3.195610 TGATACTGCTGTTAGTCACCTGG 59.804 47.826 0.09 0.00 32.19 4.45
3216 3446 0.955919 GCTGTTAGTCACCTGGGCAC 60.956 60.000 0.00 0.00 0.00 5.01
3222 3452 0.396811 AGTCACCTGGGCACAAGTAC 59.603 55.000 0.00 0.00 0.00 2.73
3249 3479 0.798776 CATCGACAGTCCAACCTTGC 59.201 55.000 0.00 0.00 0.00 4.01
3304 3536 7.345914 AGCAAGGTTAGATATTAGGAAGACACT 59.654 37.037 0.00 0.00 0.00 3.55
3341 3573 1.611673 CCGCTTCTTTCCTGTCCATGT 60.612 52.381 0.00 0.00 0.00 3.21
3399 3631 1.304052 CATCCCAACGGCCTTCCAA 60.304 57.895 0.00 0.00 0.00 3.53
3418 3650 2.223537 ATGCATATGCGTTCGACAGA 57.776 45.000 22.21 2.10 45.83 3.41
3433 3665 6.276847 GTTCGACAGAAGAATGGTATCTGAT 58.723 40.000 8.84 0.00 42.48 2.90
3529 3761 2.226674 GGCTGCAAGTAAAGTTCTCCAC 59.773 50.000 0.50 0.00 35.30 4.02
3534 3766 3.146847 CAAGTAAAGTTCTCCACCCCAC 58.853 50.000 0.00 0.00 0.00 4.61
3643 3875 1.633774 AGTGTTCGGTGTGAGGAGAT 58.366 50.000 0.00 0.00 0.00 2.75
3645 3877 2.755655 AGTGTTCGGTGTGAGGAGATAG 59.244 50.000 0.00 0.00 0.00 2.08
3646 3878 2.100197 TGTTCGGTGTGAGGAGATAGG 58.900 52.381 0.00 0.00 0.00 2.57
3666 3898 1.979855 CCATATTTCCGGACCATGCA 58.020 50.000 1.83 0.00 0.00 3.96
3672 3904 1.822114 TTCCGGACCATGCACTCGAA 61.822 55.000 1.83 0.00 0.00 3.71
3733 3965 1.689959 CATTCAGCACCGCAAGAAAC 58.310 50.000 0.00 0.00 43.02 2.78
3763 3995 3.243434 CGTTAGGAGTGACACTGTCTTGT 60.243 47.826 14.14 0.00 33.15 3.16
3773 4005 2.033801 ACACTGTCTTGTTGCATTGAGC 59.966 45.455 0.00 0.00 45.96 4.26
3796 4028 0.392706 ACAAGGATATCGCGGCATCA 59.607 50.000 18.35 0.00 0.00 3.07
3802 4034 0.676184 ATATCGCGGCATCAGACTGT 59.324 50.000 6.13 0.00 0.00 3.55
3858 4090 1.221566 CCATCACATCCCTGTCGCA 59.778 57.895 0.00 0.00 31.62 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 7.392673 AGCATCTTCGGAGCATCAATTATTTAT 59.607 33.333 0.00 0.00 36.25 1.40
65 66 6.712095 AGCATCTTCGGAGCATCAATTATTTA 59.288 34.615 0.00 0.00 36.25 1.40
92 93 9.887406 ATCAATGCTTCAAAATGCTTTTAAAAG 57.113 25.926 21.32 21.32 39.03 2.27
134 135 5.195940 CCATATCACATTTGTGGAAGTCCT 58.804 41.667 10.60 0.00 45.65 3.85
157 158 2.733026 AGTGCTTGCAAATTTTCATCGC 59.267 40.909 0.00 0.00 0.00 4.58
187 188 1.153349 GAACGTGCTCCAGGGGATC 60.153 63.158 0.00 0.00 0.00 3.36
188 189 1.274703 ATGAACGTGCTCCAGGGGAT 61.275 55.000 0.00 0.00 0.00 3.85
189 190 1.918293 ATGAACGTGCTCCAGGGGA 60.918 57.895 0.00 0.00 0.00 4.81
190 191 1.746615 CATGAACGTGCTCCAGGGG 60.747 63.158 0.00 0.00 0.00 4.79
191 192 0.321564 TTCATGAACGTGCTCCAGGG 60.322 55.000 3.38 0.00 0.00 4.45
192 193 1.522668 TTTCATGAACGTGCTCCAGG 58.477 50.000 7.89 0.00 0.00 4.45
193 194 3.624326 TTTTTCATGAACGTGCTCCAG 57.376 42.857 7.89 0.00 0.00 3.86
196 197 6.251376 GGATGTAATTTTTCATGAACGTGCTC 59.749 38.462 7.89 0.00 0.00 4.26
197 198 6.092748 GGATGTAATTTTTCATGAACGTGCT 58.907 36.000 7.89 0.00 0.00 4.40
198 199 5.003402 CGGATGTAATTTTTCATGAACGTGC 59.997 40.000 7.89 2.20 0.00 5.34
199 200 5.511377 CCGGATGTAATTTTTCATGAACGTG 59.489 40.000 7.89 0.00 0.00 4.49
200 201 5.182380 ACCGGATGTAATTTTTCATGAACGT 59.818 36.000 9.46 0.00 0.00 3.99
202 203 5.288472 GCACCGGATGTAATTTTTCATGAAC 59.712 40.000 9.46 0.00 0.00 3.18
203 204 5.406649 GCACCGGATGTAATTTTTCATGAA 58.593 37.500 9.46 3.38 0.00 2.57
204 205 4.142271 GGCACCGGATGTAATTTTTCATGA 60.142 41.667 9.46 0.00 0.00 3.07
205 206 4.111916 GGCACCGGATGTAATTTTTCATG 58.888 43.478 9.46 0.00 0.00 3.07
207 208 3.157881 TGGCACCGGATGTAATTTTTCA 58.842 40.909 9.46 0.00 0.00 2.69
208 209 3.859411 TGGCACCGGATGTAATTTTTC 57.141 42.857 9.46 0.00 0.00 2.29
214 215 2.498644 TTTCATGGCACCGGATGTAA 57.501 45.000 9.46 0.00 0.00 2.41
216 217 1.626686 TTTTTCATGGCACCGGATGT 58.373 45.000 9.46 0.00 0.00 3.06
240 241 9.566624 CGCAAAAGTAAAAATCAAACAATACTG 57.433 29.630 0.00 0.00 0.00 2.74
241 242 9.522804 TCGCAAAAGTAAAAATCAAACAATACT 57.477 25.926 0.00 0.00 0.00 2.12
242 243 9.777843 CTCGCAAAAGTAAAAATCAAACAATAC 57.222 29.630 0.00 0.00 0.00 1.89
243 244 9.522804 ACTCGCAAAAGTAAAAATCAAACAATA 57.477 25.926 0.00 0.00 0.00 1.90
244 245 8.419076 ACTCGCAAAAGTAAAAATCAAACAAT 57.581 26.923 0.00 0.00 0.00 2.71
245 246 7.820044 ACTCGCAAAAGTAAAAATCAAACAA 57.180 28.000 0.00 0.00 0.00 2.83
246 247 7.820044 AACTCGCAAAAGTAAAAATCAAACA 57.180 28.000 0.00 0.00 0.00 2.83
247 248 9.614465 GTAAACTCGCAAAAGTAAAAATCAAAC 57.386 29.630 0.00 0.00 0.00 2.93
248 249 9.575783 AGTAAACTCGCAAAAGTAAAAATCAAA 57.424 25.926 0.00 0.00 0.00 2.69
249 250 9.015577 CAGTAAACTCGCAAAAGTAAAAATCAA 57.984 29.630 0.00 0.00 0.00 2.57
250 251 8.185505 ACAGTAAACTCGCAAAAGTAAAAATCA 58.814 29.630 0.00 0.00 0.00 2.57
253 254 8.238631 AGAACAGTAAACTCGCAAAAGTAAAAA 58.761 29.630 0.00 0.00 0.00 1.94
256 257 6.238266 CCAGAACAGTAAACTCGCAAAAGTAA 60.238 38.462 0.00 0.00 0.00 2.24
259 260 4.035208 ACCAGAACAGTAAACTCGCAAAAG 59.965 41.667 0.00 0.00 0.00 2.27
264 265 2.750948 TGACCAGAACAGTAAACTCGC 58.249 47.619 0.00 0.00 0.00 5.03
265 266 3.123621 GCATGACCAGAACAGTAAACTCG 59.876 47.826 0.00 0.00 0.00 4.18
268 269 3.123621 CGAGCATGACCAGAACAGTAAAC 59.876 47.826 0.00 0.00 0.00 2.01
279 280 3.995219 CTGCGCTCGAGCATGACCA 62.995 63.158 34.69 20.89 46.97 4.02
280 281 2.967929 ATCTGCGCTCGAGCATGACC 62.968 60.000 34.69 17.77 46.97 4.02
282 283 0.385390 TAATCTGCGCTCGAGCATGA 59.615 50.000 34.69 26.97 46.97 3.07
285 286 1.066422 CCTAATCTGCGCTCGAGCA 59.934 57.895 34.69 17.64 45.96 4.26
287 288 0.665835 AGTCCTAATCTGCGCTCGAG 59.334 55.000 9.73 8.45 0.00 4.04
288 289 1.065701 GAAGTCCTAATCTGCGCTCGA 59.934 52.381 9.73 5.59 0.00 4.04
295 300 8.393671 ATTAGTACTACGGAAGTCCTAATCTG 57.606 38.462 0.91 0.00 41.16 2.90
308 313 8.901793 ACTTCTAGAAAGGAATTAGTACTACGG 58.098 37.037 6.63 0.00 0.00 4.02
340 345 8.767085 TGCGAATTTTATATACGGAAGGTAAAG 58.233 33.333 0.00 0.00 34.09 1.85
342 347 8.659925 TTGCGAATTTTATATACGGAAGGTAA 57.340 30.769 0.00 0.00 34.09 2.85
343 348 8.714179 CATTGCGAATTTTATATACGGAAGGTA 58.286 33.333 0.00 0.00 37.65 3.08
350 355 7.422462 CGTGATCCATTGCGAATTTTATATACG 59.578 37.037 0.00 0.00 0.00 3.06
701 722 3.016971 TAGGGGGAGGACGACGGA 61.017 66.667 0.00 0.00 0.00 4.69
747 768 0.624254 GTAAAGGGGTGGGAGGGAAG 59.376 60.000 0.00 0.00 0.00 3.46
748 769 0.847758 GGTAAAGGGGTGGGAGGGAA 60.848 60.000 0.00 0.00 0.00 3.97
757 778 1.262640 ATCGCACGAGGTAAAGGGGT 61.263 55.000 0.00 0.00 0.00 4.95
758 779 0.529992 GATCGCACGAGGTAAAGGGG 60.530 60.000 0.00 0.00 0.00 4.79
771 792 2.101415 CCTATGGTTCTCAGTGATCGCA 59.899 50.000 9.33 0.00 0.00 5.10
780 801 5.189145 GGGTTTCTTCTACCTATGGTTCTCA 59.811 44.000 0.00 0.00 37.09 3.27
789 815 4.927049 TCTTCGAGGGTTTCTTCTACCTA 58.073 43.478 0.00 0.00 35.92 3.08
797 823 0.036858 GCTGCTCTTCGAGGGTTTCT 60.037 55.000 0.00 0.00 0.00 2.52
829 855 0.470268 GGGGGCTAGGATTCGAGAGT 60.470 60.000 0.00 0.00 0.00 3.24
833 859 0.326238 ACAAGGGGGCTAGGATTCGA 60.326 55.000 0.00 0.00 0.00 3.71
834 860 0.106894 GACAAGGGGGCTAGGATTCG 59.893 60.000 0.00 0.00 0.00 3.34
835 861 0.474614 GGACAAGGGGGCTAGGATTC 59.525 60.000 0.00 0.00 0.00 2.52
837 863 1.766461 CGGACAAGGGGGCTAGGAT 60.766 63.158 0.00 0.00 0.00 3.24
838 864 2.365105 CGGACAAGGGGGCTAGGA 60.365 66.667 0.00 0.00 0.00 2.94
840 866 2.595009 GAAGCGGACAAGGGGGCTAG 62.595 65.000 0.00 0.00 34.82 3.42
841 867 2.609610 AAGCGGACAAGGGGGCTA 60.610 61.111 0.00 0.00 34.82 3.93
844 870 0.611896 AATTGAAGCGGACAAGGGGG 60.612 55.000 0.00 0.00 0.00 5.40
845 871 0.527565 CAATTGAAGCGGACAAGGGG 59.472 55.000 0.00 0.00 0.00 4.79
851 877 2.396590 TACCTCCAATTGAAGCGGAC 57.603 50.000 7.12 0.00 0.00 4.79
852 878 3.541632 GATTACCTCCAATTGAAGCGGA 58.458 45.455 7.12 0.00 0.00 5.54
874 900 9.918630 AACATGAAGAAACAAATAAATCAGGAG 57.081 29.630 0.00 0.00 0.00 3.69
888 915 6.487103 ACAAGACGAAAGAACATGAAGAAAC 58.513 36.000 0.00 0.00 0.00 2.78
890 917 6.486248 CAACAAGACGAAAGAACATGAAGAA 58.514 36.000 0.00 0.00 0.00 2.52
894 921 3.876914 AGCAACAAGACGAAAGAACATGA 59.123 39.130 0.00 0.00 0.00 3.07
895 922 3.970610 CAGCAACAAGACGAAAGAACATG 59.029 43.478 0.00 0.00 0.00 3.21
905 932 3.726517 CCGCCCAGCAACAAGACG 61.727 66.667 0.00 0.00 0.00 4.18
926 953 3.787001 CAGTTCCTCCGCCTCCCC 61.787 72.222 0.00 0.00 0.00 4.81
928 955 1.144936 CATCAGTTCCTCCGCCTCC 59.855 63.158 0.00 0.00 0.00 4.30
929 956 1.144936 CCATCAGTTCCTCCGCCTC 59.855 63.158 0.00 0.00 0.00 4.70
930 957 1.306141 TCCATCAGTTCCTCCGCCT 60.306 57.895 0.00 0.00 0.00 5.52
931 958 1.153349 GTCCATCAGTTCCTCCGCC 60.153 63.158 0.00 0.00 0.00 6.13
932 959 1.153349 GGTCCATCAGTTCCTCCGC 60.153 63.158 0.00 0.00 0.00 5.54
933 960 0.905357 AAGGTCCATCAGTTCCTCCG 59.095 55.000 0.00 0.00 0.00 4.63
960 995 2.577593 GTACCCTCACCCTGCGAC 59.422 66.667 0.00 0.00 0.00 5.19
974 1010 1.139095 CAGAAGCTCGACCCGGTAC 59.861 63.158 0.00 0.00 0.00 3.34
981 1017 2.125350 CTGGCCCAGAAGCTCGAC 60.125 66.667 4.15 0.00 32.44 4.20
1035 1071 2.281761 CCTTGGACGTGCAGCCTT 60.282 61.111 10.41 0.00 0.00 4.35
1070 1106 9.709495 TCCCAAGACTGAAAAATAAATCAATTG 57.291 29.630 0.00 0.00 0.00 2.32
1075 1111 8.246871 CCTCTTCCCAAGACTGAAAAATAAATC 58.753 37.037 0.00 0.00 33.12 2.17
1103 1139 1.669795 CGGGCCAGTTCATTTTCTTGC 60.670 52.381 4.39 0.00 0.00 4.01
1129 1165 1.809547 TGAAAATCGCTGCGGAATTCA 59.190 42.857 23.03 23.05 0.00 2.57
1137 1173 1.398390 CTACAGGGTGAAAATCGCTGC 59.602 52.381 9.29 0.00 45.47 5.25
1138 1174 2.972625 TCTACAGGGTGAAAATCGCTG 58.027 47.619 8.10 8.10 46.45 5.18
1148 1201 4.113354 GCTCGAACTAATTCTACAGGGTG 58.887 47.826 0.00 0.00 32.12 4.61
1178 1231 5.574830 CACCCGCGATGATTTTATTGAAAAA 59.425 36.000 8.23 0.00 38.04 1.94
1190 1243 2.176045 TCCATATACACCCGCGATGAT 58.824 47.619 8.23 4.34 0.00 2.45
1193 1246 3.695830 ATTTCCATATACACCCGCGAT 57.304 42.857 8.23 0.00 0.00 4.58
1195 1248 3.678072 CAGTATTTCCATATACACCCGCG 59.322 47.826 0.00 0.00 34.19 6.46
1199 1252 7.057894 TGGGTTTCAGTATTTCCATATACACC 58.942 38.462 0.00 0.00 34.19 4.16
1225 1278 4.014406 TCAAGGCTGAGTACGAAGTCATA 58.986 43.478 5.43 0.00 43.93 2.15
1234 1287 5.148651 TCCTTTACTTCAAGGCTGAGTAC 57.851 43.478 5.47 0.00 42.97 2.73
1237 1290 3.753797 GGTTCCTTTACTTCAAGGCTGAG 59.246 47.826 0.00 0.00 42.97 3.35
1241 1294 3.005472 GGTTGGTTCCTTTACTTCAAGGC 59.995 47.826 0.00 0.00 42.97 4.35
1269 1322 6.487299 ACAATGGTTGTTTAGGGCTAAAAA 57.513 33.333 0.00 0.00 42.22 1.94
1286 1339 8.829612 AGCAGTTTAAAATTTCAGAAACAATGG 58.170 29.630 18.19 10.19 34.85 3.16
1303 1356 3.059188 GCTACGACTTGCAAGCAGTTTAA 60.059 43.478 26.27 10.32 35.05 1.52
1320 1373 1.270305 ACCGATGGAATGGATGCTACG 60.270 52.381 0.00 0.00 0.00 3.51
1337 1390 0.999406 CCACAGCGACAAGATTACCG 59.001 55.000 0.00 0.00 0.00 4.02
1349 1402 1.927174 CGAATTACCTCTTCCACAGCG 59.073 52.381 0.00 0.00 0.00 5.18
1384 1438 4.604843 TTGTAGCGCATGAAATCAGAAG 57.395 40.909 11.47 0.00 0.00 2.85
1395 1450 5.004345 GCACGAATTTAAATTTGTAGCGCAT 59.996 36.000 26.28 6.47 40.22 4.73
1412 1467 2.747446 GGGTGAACACTATTGCACGAAT 59.253 45.455 4.96 0.00 32.24 3.34
1413 1468 2.147958 GGGTGAACACTATTGCACGAA 58.852 47.619 4.96 0.00 32.24 3.85
1415 1470 1.464608 CAGGGTGAACACTATTGCACG 59.535 52.381 4.96 0.00 32.24 5.34
1433 1488 3.041211 TCCCAGGATCATAAGACACCAG 58.959 50.000 0.00 0.00 0.00 4.00
1453 1512 4.762251 ACAGTTTTATCTTGGCAGGAGTTC 59.238 41.667 5.31 0.00 0.00 3.01
1461 1520 6.985188 TGTATGAGACAGTTTTATCTTGGC 57.015 37.500 0.00 0.00 32.86 4.52
1478 1558 9.924650 CAGTCAGATGATATCAGAATTGTATGA 57.075 33.333 11.78 3.48 0.00 2.15
1497 1577 6.596309 ACATCAGTGTAAGAATCAGTCAGA 57.404 37.500 0.00 0.00 36.63 3.27
1550 1632 1.269831 GCACCTTCGTCTCACACTTCT 60.270 52.381 0.00 0.00 0.00 2.85
1562 1644 4.173256 GTGGATTTTATTTGGCACCTTCG 58.827 43.478 0.00 0.00 0.00 3.79
1563 1645 5.146010 TGTGGATTTTATTTGGCACCTTC 57.854 39.130 0.00 0.00 0.00 3.46
1564 1646 5.071653 ACTTGTGGATTTTATTTGGCACCTT 59.928 36.000 0.00 0.00 0.00 3.50
1575 1660 3.055385 CCCTCTCCGACTTGTGGATTTTA 60.055 47.826 0.00 0.00 34.32 1.52
1584 1669 0.174617 GCTTCTCCCTCTCCGACTTG 59.825 60.000 0.00 0.00 0.00 3.16
1667 1752 8.703604 TTGCTGCTTTGTACTAGTAAGATAAG 57.296 34.615 3.61 7.09 0.00 1.73
1668 1753 7.277981 GCTTGCTGCTTTGTACTAGTAAGATAA 59.722 37.037 3.61 0.00 35.68 1.75
1720 1805 1.807742 CGGAACTTCCAAATGCGGTAA 59.192 47.619 8.59 0.00 35.91 2.85
1727 1812 6.357367 AGCTCATATAACGGAACTTCCAAAT 58.643 36.000 8.59 1.07 35.91 2.32
1738 1823 2.061773 CTCGGCAAGCTCATATAACGG 58.938 52.381 0.00 0.00 0.00 4.44
1740 1825 2.802816 CCACTCGGCAAGCTCATATAAC 59.197 50.000 0.00 0.00 0.00 1.89
1754 1839 8.888579 AATTTTACATAGAGATAACCACTCGG 57.111 34.615 0.00 0.00 39.12 4.63
1798 1883 3.480470 CCTAGCATTTCGATGACCCAAT 58.520 45.455 0.00 0.00 0.00 3.16
1809 1894 6.546034 TCCTAATAAAACCAGCCTAGCATTTC 59.454 38.462 0.00 0.00 0.00 2.17
2030 2116 5.535783 TCTGAAAAGGAGATGTTTGCATTGA 59.464 36.000 0.00 0.00 35.07 2.57
2376 2468 9.899661 AGTGATAATAGTGTAAATTACTTGGCA 57.100 29.630 4.67 0.00 0.00 4.92
2405 2635 3.136443 TGCTGGGGAAGTGTATTATCTGG 59.864 47.826 0.00 0.00 0.00 3.86
2422 2652 1.400846 GCATCAGTGATGAAGTGCTGG 59.599 52.381 32.61 7.08 42.09 4.85
2655 2885 2.553028 GGTGATGACTGGTGAATGTGGT 60.553 50.000 0.00 0.00 0.00 4.16
2754 2984 4.593206 TCAGTGGATGTAGGTGAAACTTCT 59.407 41.667 0.00 0.00 36.74 2.85
2759 2989 5.762179 ATCTTCAGTGGATGTAGGTGAAA 57.238 39.130 0.00 0.00 0.00 2.69
2764 2994 3.570125 TCGCTATCTTCAGTGGATGTAGG 59.430 47.826 0.00 0.00 0.00 3.18
2767 2997 3.449018 AGTTCGCTATCTTCAGTGGATGT 59.551 43.478 0.00 0.00 0.00 3.06
2781 3011 1.684450 TGGTCTTGTGACAGTTCGCTA 59.316 47.619 0.00 0.00 44.61 4.26
2803 3033 5.417580 GCCTTGTTACACTATTGGAAATCCA 59.582 40.000 0.00 0.00 45.94 3.41
2855 3085 2.540515 ACTCATTTACTGGCGACATCG 58.459 47.619 0.00 0.00 41.51 3.84
2871 3101 3.439857 CTTGGAAGGATTGGGAACTCA 57.560 47.619 0.00 0.00 0.00 3.41
2941 3171 5.998981 TGTTATGTACTTAAACCCTGTGTGG 59.001 40.000 2.99 0.00 0.00 4.17
2942 3172 6.483974 TGTGTTATGTACTTAAACCCTGTGTG 59.516 38.462 2.99 0.00 0.00 3.82
2943 3173 6.593807 TGTGTTATGTACTTAAACCCTGTGT 58.406 36.000 2.99 0.00 0.00 3.72
3041 3271 3.436704 ACAGATTGGAGTTTACATGCACG 59.563 43.478 0.00 0.00 0.00 5.34
3108 3338 7.281774 CAGATACAAGATTCAGGTGTAAAGCAT 59.718 37.037 0.00 0.00 31.85 3.79
3117 3347 6.989169 GCAGTTATCAGATACAAGATTCAGGT 59.011 38.462 0.00 0.00 0.00 4.00
3163 3393 7.440556 TCATCTATACTGATTTTTGCTGAGAGC 59.559 37.037 0.00 0.00 42.82 4.09
3164 3394 8.883954 TCATCTATACTGATTTTTGCTGAGAG 57.116 34.615 0.00 0.00 0.00 3.20
3165 3395 9.269453 CATCATCTATACTGATTTTTGCTGAGA 57.731 33.333 0.00 0.00 31.00 3.27
3166 3396 9.269453 TCATCATCTATACTGATTTTTGCTGAG 57.731 33.333 0.00 0.00 31.00 3.35
3182 3412 8.303156 GTGACTAACAGCAGTATCATCATCTAT 58.697 37.037 0.00 0.00 0.00 1.98
3183 3413 7.255625 GGTGACTAACAGCAGTATCATCATCTA 60.256 40.741 0.00 0.00 45.12 1.98
3198 3428 0.396435 TGTGCCCAGGTGACTAACAG 59.604 55.000 0.00 0.00 40.21 3.16
3212 3442 2.697431 TGCGAAAATGTACTTGTGCC 57.303 45.000 0.00 0.00 0.00 5.01
3216 3446 4.143115 ACTGTCGATGCGAAAATGTACTTG 60.143 41.667 0.00 0.00 37.72 3.16
3222 3452 1.731709 TGGACTGTCGATGCGAAAATG 59.268 47.619 1.07 0.00 37.72 2.32
3249 3479 0.790207 CAACGACCACCAACTGATCG 59.210 55.000 0.00 0.00 38.71 3.69
3304 3536 1.679977 GGGCTGCAGCTCCATTGAA 60.680 57.895 35.82 0.00 41.70 2.69
3341 3573 2.673775 TCACAAGGGCAGAAAATGGA 57.326 45.000 0.00 0.00 0.00 3.41
3399 3631 2.223537 TCTGTCGAACGCATATGCAT 57.776 45.000 26.52 15.05 42.21 3.96
3418 3650 5.919348 ACCATCCATCAGATACCATTCTT 57.081 39.130 0.00 0.00 32.37 2.52
3433 3665 2.085118 CCATGGGCAATTACCATCCA 57.915 50.000 2.85 0.13 45.33 3.41
3454 3686 3.909662 GTGCAGGCACGATTGGAT 58.090 55.556 8.84 0.00 37.19 3.41
3529 3761 3.214123 CATGGCGATGCTGTGGGG 61.214 66.667 0.00 0.00 0.00 4.96
3534 3766 3.274586 CGTCCCATGGCGATGCTG 61.275 66.667 6.09 0.00 0.00 4.41
3643 3875 1.809133 TGGTCCGGAAATATGGCCTA 58.191 50.000 5.23 0.00 0.00 3.93
3645 3877 1.247567 CATGGTCCGGAAATATGGCC 58.752 55.000 5.23 0.88 0.00 5.36
3646 3878 0.598065 GCATGGTCCGGAAATATGGC 59.402 55.000 5.23 1.49 0.00 4.40
3677 3909 4.072839 GGGTTAGTGTTTGAAGGGAAGAG 58.927 47.826 0.00 0.00 0.00 2.85
3733 3965 2.485426 TGTCACTCCTAACGAGGTTACG 59.515 50.000 0.00 0.00 44.19 3.18
3756 3988 0.592637 CCGCTCAATGCAACAAGACA 59.407 50.000 0.00 0.00 43.06 3.41
3763 3995 0.597568 CCTTGTTCCGCTCAATGCAA 59.402 50.000 0.00 0.00 43.06 4.08
3773 4005 1.557443 GCCGCGATATCCTTGTTCCG 61.557 60.000 8.23 0.00 0.00 4.30
3775 4007 1.461127 GATGCCGCGATATCCTTGTTC 59.539 52.381 8.23 0.00 0.00 3.18
3780 4012 0.244994 GTCTGATGCCGCGATATCCT 59.755 55.000 8.23 0.00 0.00 3.24
3796 4028 2.041216 GTTGGGGGTTAATGGACAGTCT 59.959 50.000 0.00 0.00 0.00 3.24
3802 4034 0.780494 TGGGGTTGGGGGTTAATGGA 60.780 55.000 0.00 0.00 0.00 3.41
3858 4090 3.980646 TTGCAGTCTTTTACGCAATGT 57.019 38.095 0.00 0.00 40.30 2.71
3865 4097 3.507622 AGGAGGCAATTGCAGTCTTTTAC 59.492 43.478 30.32 10.73 44.36 2.01


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

AutoCloner maintained by Alex Coulton.