Multiple sequence alignment - TraesCS1A01G063800

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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 TraesCS1A01G063800 chr1A 100.000 2270 0 0 1 2270 45499411 45497142 0.000000e+00 4193.0
1 TraesCS1A01G063800 chr1A 93.667 1358 84 2 5 1361 276580967 276579611 0.000000e+00 2030.0
2 TraesCS1A01G063800 chr3A 97.498 1359 33 1 1 1359 60239477 60240834 0.000000e+00 2320.0
3 TraesCS1A01G063800 chr3A 95.643 1354 59 0 1 1354 601614736 601613383 0.000000e+00 2174.0
4 TraesCS1A01G063800 chr6B 97.394 1343 34 1 1 1342 527578811 527580153 0.000000e+00 2285.0
5 TraesCS1A01G063800 chr6B 71.363 653 153 26 1630 2264 21131635 21130999 3.040000e-29 139.0
6 TraesCS1A01G063800 chr4B 95.511 1359 61 0 1 1359 140204110 140202752 0.000000e+00 2172.0
7 TraesCS1A01G063800 chr7B 95.147 1360 66 0 1 1360 504491296 504492655 0.000000e+00 2146.0
8 TraesCS1A01G063800 chr6A 95.000 1360 68 0 1 1360 181515468 181514109 0.000000e+00 2135.0
9 TraesCS1A01G063800 chr6A 84.058 69 9 2 1626 1693 12469558 12469491 5.230000e-07 65.8
10 TraesCS1A01G063800 chr6A 88.636 44 5 0 1906 1949 529573448 529573491 1.000000e-03 54.7
11 TraesCS1A01G063800 chr2A 94.702 1359 70 2 1 1359 371722290 371723646 0.000000e+00 2109.0
12 TraesCS1A01G063800 chr2D 93.324 1363 88 3 1 1360 647883825 647885187 0.000000e+00 2010.0
13 TraesCS1A01G063800 chr7D 93.013 687 47 1 1439 2125 178935786 178935101 0.000000e+00 1002.0
14 TraesCS1A01G063800 chr7D 94.118 153 7 1 2118 2270 178930080 178929930 4.880000e-57 231.0
15 TraesCS1A01G063800 chr3B 72.642 212 54 3 1902 2111 798315891 798316100 1.460000e-07 67.6


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 TraesCS1A01G063800 chr1A 45497142 45499411 2269 True 4193 4193 100.000 1 2270 1 chr1A.!!$R1 2269
1 TraesCS1A01G063800 chr1A 276579611 276580967 1356 True 2030 2030 93.667 5 1361 1 chr1A.!!$R2 1356
2 TraesCS1A01G063800 chr3A 60239477 60240834 1357 False 2320 2320 97.498 1 1359 1 chr3A.!!$F1 1358
3 TraesCS1A01G063800 chr3A 601613383 601614736 1353 True 2174 2174 95.643 1 1354 1 chr3A.!!$R1 1353
4 TraesCS1A01G063800 chr6B 527578811 527580153 1342 False 2285 2285 97.394 1 1342 1 chr6B.!!$F1 1341
5 TraesCS1A01G063800 chr4B 140202752 140204110 1358 True 2172 2172 95.511 1 1359 1 chr4B.!!$R1 1358
6 TraesCS1A01G063800 chr7B 504491296 504492655 1359 False 2146 2146 95.147 1 1360 1 chr7B.!!$F1 1359
7 TraesCS1A01G063800 chr6A 181514109 181515468 1359 True 2135 2135 95.000 1 1360 1 chr6A.!!$R2 1359
8 TraesCS1A01G063800 chr2A 371722290 371723646 1356 False 2109 2109 94.702 1 1359 1 chr2A.!!$F1 1358
9 TraesCS1A01G063800 chr2D 647883825 647885187 1362 False 2010 2010 93.324 1 1360 1 chr2D.!!$F1 1359
10 TraesCS1A01G063800 chr7D 178935101 178935786 685 True 1002 1002 93.013 1439 2125 1 chr7D.!!$R2 686

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
509 512 0.539051 CTCTGCCCCTGTGACTTAGG 59.461 60.0 0.0 0.0 35.01 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2194 2199 0.112025 TCACATGCCCCACATCAACA 59.888 50.0 0.0 0.0 36.64 3.33 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 3.731728 GCTCCCACCATGGCAGGA 61.732 66.667 22.20 20.87 35.79 3.86
110 111 1.305201 CGTGTGGTGCTTGTAAAGGT 58.695 50.000 0.00 0.00 46.35 3.50
185 186 5.055144 GGAGATCCTTAACGTAATTGACCC 58.945 45.833 0.00 0.00 0.00 4.46
260 261 1.672881 CAAGATCAATTGGGACCTCGC 59.327 52.381 5.42 0.00 0.00 5.03
345 347 3.016736 CCGACTTTGATGGCTATGGTTT 58.983 45.455 0.00 0.00 0.00 3.27
416 419 1.463528 CGAGGACGACCGCAAATTTTC 60.464 52.381 8.46 0.00 42.66 2.29
426 429 1.629345 GCAAATTTTCTGCGGCTGCC 61.629 55.000 16.57 9.11 41.78 4.85
509 512 0.539051 CTCTGCCCCTGTGACTTAGG 59.461 60.000 0.00 0.00 35.01 2.69
677 680 5.485209 TCCATGATCTCTCTGAATGATGG 57.515 43.478 0.00 0.00 33.50 3.51
698 701 4.907269 TGGCATAGAAGATTCCATCACCTA 59.093 41.667 0.00 0.00 0.00 3.08
874 879 3.421844 TGGACATCGGATCGTCTCATAT 58.578 45.455 15.32 0.00 32.57 1.78
935 940 2.596851 AATGCCAGGAGTCAGCGGT 61.597 57.895 0.00 0.00 0.00 5.68
948 953 0.970937 CAGCGGTCCACCTCCTCTTA 60.971 60.000 0.00 0.00 0.00 2.10
1060 1065 1.474320 CGGTGAAAGACTGGTGGAACA 60.474 52.381 0.00 0.00 39.98 3.18
1098 1103 3.798511 GGCTCCCCTAAGGCGCTT 61.799 66.667 7.64 0.00 46.27 4.68
1099 1104 2.272471 GCTCCCCTAAGGCGCTTT 59.728 61.111 10.47 10.47 43.49 3.51
1239 1244 3.910490 GCAGTGGCGGGTGCAAAA 61.910 61.111 0.00 0.00 45.35 2.44
1284 1289 5.348997 GCGAGAGTAGACACTTTATTTTGCT 59.651 40.000 0.00 0.00 34.21 3.91
1376 1381 2.094762 AAATCGACAGGAAGAACGGG 57.905 50.000 0.00 0.00 0.00 5.28
1377 1382 0.974383 AATCGACAGGAAGAACGGGT 59.026 50.000 0.00 0.00 0.00 5.28
1378 1383 0.531200 ATCGACAGGAAGAACGGGTC 59.469 55.000 0.00 0.00 0.00 4.46
1379 1384 0.538977 TCGACAGGAAGAACGGGTCT 60.539 55.000 0.00 0.00 38.69 3.85
1380 1385 1.171308 CGACAGGAAGAACGGGTCTA 58.829 55.000 0.00 0.00 34.56 2.59
1381 1386 1.135460 CGACAGGAAGAACGGGTCTAC 60.135 57.143 0.00 0.00 34.56 2.59
1382 1387 2.169330 GACAGGAAGAACGGGTCTACT 58.831 52.381 0.00 0.00 34.56 2.57
1383 1388 2.561858 GACAGGAAGAACGGGTCTACTT 59.438 50.000 0.00 0.00 34.56 2.24
1384 1389 3.760684 GACAGGAAGAACGGGTCTACTTA 59.239 47.826 0.00 0.00 34.56 2.24
1385 1390 4.154942 ACAGGAAGAACGGGTCTACTTAA 58.845 43.478 0.00 0.00 34.56 1.85
1386 1391 4.021632 ACAGGAAGAACGGGTCTACTTAAC 60.022 45.833 0.00 0.00 34.56 2.01
1387 1392 4.021719 CAGGAAGAACGGGTCTACTTAACA 60.022 45.833 0.00 0.00 34.56 2.41
1388 1393 4.590222 AGGAAGAACGGGTCTACTTAACAA 59.410 41.667 0.00 0.00 34.56 2.83
1389 1394 5.070847 AGGAAGAACGGGTCTACTTAACAAA 59.929 40.000 0.00 0.00 34.56 2.83
1390 1395 5.178252 GGAAGAACGGGTCTACTTAACAAAC 59.822 44.000 0.00 0.00 34.56 2.93
1391 1396 5.541953 AGAACGGGTCTACTTAACAAACT 57.458 39.130 0.00 0.00 33.56 2.66
1392 1397 6.655078 AGAACGGGTCTACTTAACAAACTA 57.345 37.500 0.00 0.00 33.56 2.24
1393 1398 7.237209 AGAACGGGTCTACTTAACAAACTAT 57.763 36.000 0.00 0.00 33.56 2.12
1394 1399 7.674120 AGAACGGGTCTACTTAACAAACTATT 58.326 34.615 0.00 0.00 33.56 1.73
1395 1400 8.152898 AGAACGGGTCTACTTAACAAACTATTT 58.847 33.333 0.00 0.00 33.56 1.40
1396 1401 8.681486 AACGGGTCTACTTAACAAACTATTTT 57.319 30.769 0.00 0.00 0.00 1.82
1397 1402 9.777297 AACGGGTCTACTTAACAAACTATTTTA 57.223 29.630 0.00 0.00 0.00 1.52
1398 1403 9.777297 ACGGGTCTACTTAACAAACTATTTTAA 57.223 29.630 0.00 0.00 0.00 1.52
1419 1424 9.950680 TTTTAAAATCTGAAGTGTCTTAGCAAG 57.049 29.630 0.00 0.00 0.00 4.01
1420 1425 5.619625 AAATCTGAAGTGTCTTAGCAAGC 57.380 39.130 0.00 0.00 0.00 4.01
1421 1426 3.045601 TCTGAAGTGTCTTAGCAAGCC 57.954 47.619 0.00 0.00 0.00 4.35
1422 1427 2.368548 TCTGAAGTGTCTTAGCAAGCCA 59.631 45.455 0.00 0.00 0.00 4.75
1423 1428 3.141398 CTGAAGTGTCTTAGCAAGCCAA 58.859 45.455 0.00 0.00 0.00 4.52
1424 1429 3.754965 TGAAGTGTCTTAGCAAGCCAAT 58.245 40.909 0.00 0.00 0.00 3.16
1425 1430 3.503363 TGAAGTGTCTTAGCAAGCCAATG 59.497 43.478 0.00 0.00 0.00 2.82
1426 1431 1.815003 AGTGTCTTAGCAAGCCAATGC 59.185 47.619 0.00 0.00 46.78 3.56
1437 1442 2.992689 CCAATGCTGGCTGGCACA 60.993 61.111 0.00 4.40 45.36 4.57
1471 1476 4.122046 GGGTGACGGTTAGCGTAATTTAT 58.878 43.478 10.04 0.00 0.00 1.40
1479 1484 5.121105 GGTTAGCGTAATTTATGGAGTGGT 58.879 41.667 0.00 0.00 0.00 4.16
1485 1490 5.047847 CGTAATTTATGGAGTGGTGATCGT 58.952 41.667 0.00 0.00 0.00 3.73
1500 1505 1.526225 TCGTGAGGCGATCCGATCT 60.526 57.895 6.81 0.00 45.68 2.75
1516 1521 2.223688 CGATCTCGATCTGCCTTGTTCT 60.224 50.000 5.47 0.00 43.02 3.01
1517 1522 2.949451 TCTCGATCTGCCTTGTTCTC 57.051 50.000 0.00 0.00 0.00 2.87
1523 1528 2.440539 TCTGCCTTGTTCTCGTCTTC 57.559 50.000 0.00 0.00 0.00 2.87
1526 1531 1.627550 GCCTTGTTCTCGTCTTCGGC 61.628 60.000 0.00 0.00 37.69 5.54
1567 1572 0.605589 CTCTCGGTGTTGCTCCTCTT 59.394 55.000 0.00 0.00 0.00 2.85
1568 1573 1.001406 CTCTCGGTGTTGCTCCTCTTT 59.999 52.381 0.00 0.00 0.00 2.52
1571 1576 0.535102 CGGTGTTGCTCCTCTTTGGT 60.535 55.000 0.00 0.00 37.07 3.67
1611 1616 1.066143 CCCTACAGATCCCACACACAC 60.066 57.143 0.00 0.00 0.00 3.82
1612 1617 1.623311 CCTACAGATCCCACACACACA 59.377 52.381 0.00 0.00 0.00 3.72
1628 1633 4.932799 CACACACATCAAGTATCCCGTAAA 59.067 41.667 0.00 0.00 0.00 2.01
1660 1665 1.371183 CCTTCTGTGCGGTTCTGGA 59.629 57.895 0.00 0.00 0.00 3.86
1724 1729 4.329545 GTCGAGGGTGGGCAGCAA 62.330 66.667 0.00 0.00 0.00 3.91
1730 1735 3.384532 GGTGGGCAGCAACCATGG 61.385 66.667 11.19 11.19 40.70 3.66
1733 1738 2.356278 GGGCAGCAACCATGGAGA 59.644 61.111 21.47 0.00 0.00 3.71
1735 1740 0.685458 GGGCAGCAACCATGGAGAAT 60.685 55.000 21.47 0.00 0.00 2.40
1767 1772 6.015940 GGATTGATGAAAGGTCTGAAGTTGTT 60.016 38.462 0.00 0.00 0.00 2.83
1786 1791 0.392998 TGGAAGCGGAGATGAAAGGC 60.393 55.000 0.00 0.00 0.00 4.35
1800 1805 1.478105 GAAAGGCATCAAAATCGGGCT 59.522 47.619 0.00 0.00 37.82 5.19
1801 1806 0.819582 AAGGCATCAAAATCGGGCTG 59.180 50.000 0.00 0.00 36.19 4.85
1846 1851 4.388499 GCACCGGACGACCCACAT 62.388 66.667 9.46 0.00 34.14 3.21
1887 1892 3.641986 GAAACCGACGCGTGCCAA 61.642 61.111 20.70 0.00 0.00 4.52
1952 1957 2.100916 GGAGTAGATTGCACGGAGCTAA 59.899 50.000 3.79 0.00 45.94 3.09
1953 1958 3.243907 GGAGTAGATTGCACGGAGCTAAT 60.244 47.826 3.79 0.00 45.94 1.73
1954 1959 4.022242 GGAGTAGATTGCACGGAGCTAATA 60.022 45.833 3.79 0.00 45.94 0.98
1963 1968 4.570772 TGCACGGAGCTAATAGAAAATGTC 59.429 41.667 3.79 0.00 45.94 3.06
1984 1989 3.380004 TCTTTTTGTTCACGTTCAGGCAT 59.620 39.130 0.00 0.00 0.00 4.40
1986 1991 0.310543 TTGTTCACGTTCAGGCATGC 59.689 50.000 9.90 9.90 0.00 4.06
1991 1996 0.167470 CACGTTCAGGCATGCTTCAG 59.833 55.000 18.92 7.22 0.00 3.02
2074 2079 3.509967 AGGAATTTGATCCGGACAAAACC 59.490 43.478 25.53 26.42 44.60 3.27
2081 2086 4.449391 CGGACAAAACCGTGGAGT 57.551 55.556 0.00 0.00 46.70 3.85
2089 2094 5.416271 ACAAAACCGTGGAGTAGTATGAT 57.584 39.130 0.00 0.00 0.00 2.45
2122 2127 2.045926 ATGTGGCTGCGGGTCTTC 60.046 61.111 0.00 0.00 0.00 2.87
2128 2133 4.821589 CTGCGGGTCTTCGGCCTC 62.822 72.222 0.00 0.00 40.48 4.70
2142 2147 3.411517 CCTCCCGCTGGGTTCCAT 61.412 66.667 12.46 0.00 44.74 3.41
2143 2148 2.124570 CTCCCGCTGGGTTCCATG 60.125 66.667 12.46 0.00 44.74 3.66
2144 2149 2.609299 TCCCGCTGGGTTCCATGA 60.609 61.111 12.46 0.00 44.74 3.07
2145 2150 2.196997 CTCCCGCTGGGTTCCATGAA 62.197 60.000 12.46 0.00 44.74 2.57
2146 2151 1.076777 CCCGCTGGGTTCCATGAAT 60.077 57.895 0.00 0.00 38.25 2.57
2147 2152 0.182537 CCCGCTGGGTTCCATGAATA 59.817 55.000 0.00 0.00 38.25 1.75
2148 2153 1.597742 CCGCTGGGTTCCATGAATAG 58.402 55.000 0.00 0.00 30.82 1.73
2149 2154 1.597742 CGCTGGGTTCCATGAATAGG 58.402 55.000 0.00 0.00 30.82 2.57
2150 2155 1.815408 CGCTGGGTTCCATGAATAGGG 60.815 57.143 0.00 0.00 30.82 3.53
2151 2156 1.986882 CTGGGTTCCATGAATAGGGC 58.013 55.000 0.00 0.00 30.82 5.19
2152 2157 1.215173 CTGGGTTCCATGAATAGGGCA 59.785 52.381 0.00 0.00 30.82 5.36
2153 2158 1.643286 TGGGTTCCATGAATAGGGCAA 59.357 47.619 0.00 0.00 0.00 4.52
2154 2159 2.247111 TGGGTTCCATGAATAGGGCAAT 59.753 45.455 0.00 0.00 0.00 3.56
2155 2160 2.629617 GGGTTCCATGAATAGGGCAATG 59.370 50.000 0.00 0.00 0.00 2.82
2156 2161 2.629617 GGTTCCATGAATAGGGCAATGG 59.370 50.000 0.00 0.00 0.00 3.16
2157 2162 2.629617 GTTCCATGAATAGGGCAATGGG 59.370 50.000 0.00 0.00 0.00 4.00
2158 2163 2.142756 TCCATGAATAGGGCAATGGGA 58.857 47.619 0.00 0.00 0.00 4.37
2159 2164 2.108776 TCCATGAATAGGGCAATGGGAG 59.891 50.000 0.00 0.00 0.00 4.30
2160 2165 2.108776 CCATGAATAGGGCAATGGGAGA 59.891 50.000 0.00 0.00 0.00 3.71
2161 2166 3.418995 CATGAATAGGGCAATGGGAGAG 58.581 50.000 0.00 0.00 0.00 3.20
2162 2167 2.775418 TGAATAGGGCAATGGGAGAGA 58.225 47.619 0.00 0.00 0.00 3.10
2163 2168 3.330198 TGAATAGGGCAATGGGAGAGAT 58.670 45.455 0.00 0.00 0.00 2.75
2164 2169 3.073503 TGAATAGGGCAATGGGAGAGATG 59.926 47.826 0.00 0.00 0.00 2.90
2165 2170 2.494888 TAGGGCAATGGGAGAGATGA 57.505 50.000 0.00 0.00 0.00 2.92
2166 2171 1.830486 AGGGCAATGGGAGAGATGAT 58.170 50.000 0.00 0.00 0.00 2.45
2167 2172 2.995746 AGGGCAATGGGAGAGATGATA 58.004 47.619 0.00 0.00 0.00 2.15
2168 2173 2.911636 AGGGCAATGGGAGAGATGATAG 59.088 50.000 0.00 0.00 0.00 2.08
2169 2174 2.026449 GGGCAATGGGAGAGATGATAGG 60.026 54.545 0.00 0.00 0.00 2.57
2170 2175 2.641815 GGCAATGGGAGAGATGATAGGT 59.358 50.000 0.00 0.00 0.00 3.08
2171 2176 3.307339 GGCAATGGGAGAGATGATAGGTC 60.307 52.174 0.00 0.00 0.00 3.85
2172 2177 3.326006 GCAATGGGAGAGATGATAGGTCA 59.674 47.826 0.00 0.00 39.04 4.02
2173 2178 4.202398 GCAATGGGAGAGATGATAGGTCAA 60.202 45.833 0.00 0.00 38.01 3.18
2174 2179 5.549347 CAATGGGAGAGATGATAGGTCAAG 58.451 45.833 0.00 0.00 38.01 3.02
2175 2180 4.542906 TGGGAGAGATGATAGGTCAAGA 57.457 45.455 0.00 0.00 38.01 3.02
2176 2181 4.219115 TGGGAGAGATGATAGGTCAAGAC 58.781 47.826 0.00 0.00 38.01 3.01
2177 2182 4.078922 TGGGAGAGATGATAGGTCAAGACT 60.079 45.833 0.00 0.00 38.01 3.24
2178 2183 4.898861 GGGAGAGATGATAGGTCAAGACTT 59.101 45.833 0.00 0.00 38.01 3.01
2179 2184 5.365314 GGGAGAGATGATAGGTCAAGACTTT 59.635 44.000 0.00 0.00 38.01 2.66
2180 2185 6.462347 GGGAGAGATGATAGGTCAAGACTTTC 60.462 46.154 0.00 0.00 38.01 2.62
2181 2186 6.097554 GGAGAGATGATAGGTCAAGACTTTCA 59.902 42.308 0.00 2.26 38.01 2.69
2182 2187 6.872920 AGAGATGATAGGTCAAGACTTTCAC 58.127 40.000 0.00 0.00 38.01 3.18
2183 2188 5.655488 AGATGATAGGTCAAGACTTTCACG 58.345 41.667 0.00 0.00 38.01 4.35
2184 2189 5.419155 AGATGATAGGTCAAGACTTTCACGA 59.581 40.000 0.00 0.00 38.01 4.35
2185 2190 5.462530 TGATAGGTCAAGACTTTCACGAA 57.537 39.130 0.00 0.00 0.00 3.85
2186 2191 5.470368 TGATAGGTCAAGACTTTCACGAAG 58.530 41.667 0.00 0.00 41.32 3.79
2187 2192 6.295349 ATGATAGGTCAAGACTTTCACGAAGT 60.295 38.462 0.00 0.00 43.69 3.01
2195 2200 3.045601 ACTTTCACGAAGTCCTGGATG 57.954 47.619 0.00 0.00 45.40 3.51
2196 2201 2.368875 ACTTTCACGAAGTCCTGGATGT 59.631 45.455 0.00 0.00 45.40 3.06
2197 2202 3.181454 ACTTTCACGAAGTCCTGGATGTT 60.181 43.478 0.00 0.00 45.40 2.71
2198 2203 2.455674 TCACGAAGTCCTGGATGTTG 57.544 50.000 0.00 0.00 41.61 3.33
2199 2204 1.967779 TCACGAAGTCCTGGATGTTGA 59.032 47.619 0.00 0.00 41.61 3.18
2200 2205 2.567169 TCACGAAGTCCTGGATGTTGAT 59.433 45.455 0.00 0.00 41.61 2.57
2201 2206 2.674852 CACGAAGTCCTGGATGTTGATG 59.325 50.000 0.00 0.00 41.61 3.07
2202 2207 2.303022 ACGAAGTCCTGGATGTTGATGT 59.697 45.455 0.00 0.00 29.74 3.06
2203 2208 2.674852 CGAAGTCCTGGATGTTGATGTG 59.325 50.000 0.00 0.00 0.00 3.21
2204 2209 2.795231 AGTCCTGGATGTTGATGTGG 57.205 50.000 0.00 0.00 0.00 4.17
2205 2210 1.283029 AGTCCTGGATGTTGATGTGGG 59.717 52.381 0.00 0.00 0.00 4.61
2206 2211 0.625316 TCCTGGATGTTGATGTGGGG 59.375 55.000 0.00 0.00 0.00 4.96
2207 2212 1.039233 CCTGGATGTTGATGTGGGGC 61.039 60.000 0.00 0.00 0.00 5.80
2208 2213 0.323633 CTGGATGTTGATGTGGGGCA 60.324 55.000 0.00 0.00 0.00 5.36
2209 2214 0.335705 TGGATGTTGATGTGGGGCAT 59.664 50.000 0.00 0.00 41.24 4.40
2210 2215 0.748450 GGATGTTGATGTGGGGCATG 59.252 55.000 0.00 0.00 38.06 4.06
2211 2216 1.477553 GATGTTGATGTGGGGCATGT 58.522 50.000 0.00 0.00 38.06 3.21
2212 2217 1.135527 GATGTTGATGTGGGGCATGTG 59.864 52.381 0.00 0.00 38.06 3.21
2213 2218 0.112025 TGTTGATGTGGGGCATGTGA 59.888 50.000 0.00 0.00 38.06 3.58
2214 2219 1.272592 TGTTGATGTGGGGCATGTGAT 60.273 47.619 0.00 0.00 38.06 3.06
2215 2220 1.135527 GTTGATGTGGGGCATGTGATG 59.864 52.381 0.00 0.00 38.06 3.07
2216 2221 0.396001 TGATGTGGGGCATGTGATGG 60.396 55.000 0.00 0.00 38.06 3.51
2217 2222 1.075822 ATGTGGGGCATGTGATGGG 60.076 57.895 0.00 0.00 36.26 4.00
2218 2223 1.582853 ATGTGGGGCATGTGATGGGA 61.583 55.000 0.00 0.00 36.26 4.37
2219 2224 1.000233 GTGGGGCATGTGATGGGAA 60.000 57.895 0.00 0.00 0.00 3.97
2220 2225 0.614415 GTGGGGCATGTGATGGGAAA 60.614 55.000 0.00 0.00 0.00 3.13
2221 2226 0.614415 TGGGGCATGTGATGGGAAAC 60.614 55.000 0.00 0.00 0.00 2.78
2222 2227 0.324645 GGGGCATGTGATGGGAAACT 60.325 55.000 0.00 0.00 0.00 2.66
2223 2228 1.064017 GGGGCATGTGATGGGAAACTA 60.064 52.381 0.00 0.00 0.00 2.24
2224 2229 2.301346 GGGCATGTGATGGGAAACTAG 58.699 52.381 0.00 0.00 0.00 2.57
2225 2230 2.357154 GGGCATGTGATGGGAAACTAGT 60.357 50.000 0.00 0.00 0.00 2.57
2226 2231 2.684881 GGCATGTGATGGGAAACTAGTG 59.315 50.000 0.00 0.00 0.00 2.74
2227 2232 2.684881 GCATGTGATGGGAAACTAGTGG 59.315 50.000 0.00 0.00 0.00 4.00
2228 2233 3.282021 CATGTGATGGGAAACTAGTGGG 58.718 50.000 0.00 0.00 0.00 4.61
2229 2234 1.004277 TGTGATGGGAAACTAGTGGGC 59.996 52.381 0.00 0.00 0.00 5.36
2230 2235 1.004277 GTGATGGGAAACTAGTGGGCA 59.996 52.381 0.00 0.00 0.00 5.36
2231 2236 1.707989 TGATGGGAAACTAGTGGGCAA 59.292 47.619 0.00 0.00 0.00 4.52
2232 2237 2.290896 TGATGGGAAACTAGTGGGCAAG 60.291 50.000 0.00 0.00 0.00 4.01
2233 2238 1.145571 TGGGAAACTAGTGGGCAAGT 58.854 50.000 0.00 0.00 0.00 3.16
2234 2239 1.497286 TGGGAAACTAGTGGGCAAGTT 59.503 47.619 0.00 0.00 37.54 2.66
2235 2240 2.160205 GGGAAACTAGTGGGCAAGTTC 58.840 52.381 0.00 0.00 34.91 3.01
2236 2241 2.224793 GGGAAACTAGTGGGCAAGTTCT 60.225 50.000 0.00 0.00 34.91 3.01
2237 2242 3.487372 GGAAACTAGTGGGCAAGTTCTT 58.513 45.455 0.00 0.00 34.91 2.52
2238 2243 4.506095 GGGAAACTAGTGGGCAAGTTCTTA 60.506 45.833 0.00 0.00 34.91 2.10
2239 2244 4.454847 GGAAACTAGTGGGCAAGTTCTTAC 59.545 45.833 0.00 0.00 34.91 2.34
2240 2245 3.314541 ACTAGTGGGCAAGTTCTTACG 57.685 47.619 0.00 0.00 0.00 3.18
2241 2246 2.631545 ACTAGTGGGCAAGTTCTTACGT 59.368 45.455 0.00 0.00 0.00 3.57
2242 2247 1.878953 AGTGGGCAAGTTCTTACGTG 58.121 50.000 0.00 0.00 36.91 4.49
2243 2248 1.140252 AGTGGGCAAGTTCTTACGTGT 59.860 47.619 0.00 0.00 36.33 4.49
2244 2249 1.263217 GTGGGCAAGTTCTTACGTGTG 59.737 52.381 0.00 0.00 36.33 3.82
2245 2250 1.139256 TGGGCAAGTTCTTACGTGTGA 59.861 47.619 0.00 0.00 36.33 3.58
2246 2251 2.215196 GGGCAAGTTCTTACGTGTGAA 58.785 47.619 0.00 0.00 36.33 3.18
2247 2252 2.223377 GGGCAAGTTCTTACGTGTGAAG 59.777 50.000 0.00 0.00 36.33 3.02
2248 2253 2.223377 GGCAAGTTCTTACGTGTGAAGG 59.777 50.000 0.00 0.00 36.33 3.46
2249 2254 2.870411 GCAAGTTCTTACGTGTGAAGGT 59.130 45.455 0.00 0.00 36.33 3.50
2250 2255 3.303132 GCAAGTTCTTACGTGTGAAGGTG 60.303 47.826 0.00 4.86 36.33 4.00
2251 2256 4.116961 CAAGTTCTTACGTGTGAAGGTGA 58.883 43.478 0.00 0.00 0.00 4.02
2252 2257 4.395959 AGTTCTTACGTGTGAAGGTGAA 57.604 40.909 0.00 0.00 0.00 3.18
2253 2258 4.761975 AGTTCTTACGTGTGAAGGTGAAA 58.238 39.130 0.00 0.00 0.00 2.69
2254 2259 4.569564 AGTTCTTACGTGTGAAGGTGAAAC 59.430 41.667 0.00 0.00 0.00 2.78
2255 2260 4.395959 TCTTACGTGTGAAGGTGAAACT 57.604 40.909 0.00 0.00 36.74 2.66
2256 2261 4.761975 TCTTACGTGTGAAGGTGAAACTT 58.238 39.130 0.00 0.00 36.74 2.66
2257 2262 4.569162 TCTTACGTGTGAAGGTGAAACTTG 59.431 41.667 0.00 0.00 36.74 3.16
2258 2263 2.980568 ACGTGTGAAGGTGAAACTTGA 58.019 42.857 0.00 0.00 36.74 3.02
2259 2264 3.541632 ACGTGTGAAGGTGAAACTTGAT 58.458 40.909 0.00 0.00 36.74 2.57
2260 2265 4.699637 ACGTGTGAAGGTGAAACTTGATA 58.300 39.130 0.00 0.00 36.74 2.15
2261 2266 5.305585 ACGTGTGAAGGTGAAACTTGATAT 58.694 37.500 0.00 0.00 36.74 1.63
2262 2267 5.763204 ACGTGTGAAGGTGAAACTTGATATT 59.237 36.000 0.00 0.00 36.74 1.28
2263 2268 6.932400 ACGTGTGAAGGTGAAACTTGATATTA 59.068 34.615 0.00 0.00 36.74 0.98
2264 2269 7.095355 ACGTGTGAAGGTGAAACTTGATATTAC 60.095 37.037 0.00 0.00 36.74 1.89
2265 2270 7.527457 GTGTGAAGGTGAAACTTGATATTACC 58.473 38.462 0.00 0.00 36.74 2.85
2266 2271 7.174253 GTGTGAAGGTGAAACTTGATATTACCA 59.826 37.037 0.00 0.00 36.74 3.25
2267 2272 7.721842 TGTGAAGGTGAAACTTGATATTACCAA 59.278 33.333 0.00 0.00 36.74 3.67
2268 2273 8.573035 GTGAAGGTGAAACTTGATATTACCAAA 58.427 33.333 0.00 0.00 36.74 3.28
2269 2274 8.573035 TGAAGGTGAAACTTGATATTACCAAAC 58.427 33.333 0.00 0.00 36.74 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 2.810486 GCAGTAGCGACGTGTCTTT 58.190 52.632 0.00 0.00 0.00 2.52
185 186 0.949105 AAGGTAAGCACGCCGAAGTG 60.949 55.000 0.00 5.97 44.47 3.16
260 261 2.288395 CCAAACTGTTTAGGCTTGCAGG 60.288 50.000 5.31 0.00 33.62 4.85
345 347 0.257328 TGCTTTTGTCCACCCACTCA 59.743 50.000 0.00 0.00 0.00 3.41
426 429 1.072173 TCTCCCACAATCACCACTGTG 59.928 52.381 0.00 0.00 44.18 3.66
509 512 3.256558 GAGATGGCAAAAATGTTCAGCC 58.743 45.455 5.33 5.33 45.41 4.85
512 515 2.230992 CGGGAGATGGCAAAAATGTTCA 59.769 45.455 0.00 0.00 0.00 3.18
677 680 6.352016 TCTAGGTGATGGAATCTTCTATGC 57.648 41.667 0.00 0.00 45.81 3.14
698 701 1.355720 CCCCATCCTTGGTGAACTTCT 59.644 52.381 0.00 0.00 41.91 2.85
874 879 3.053291 GTTTGGCCATCCGCGACA 61.053 61.111 6.09 0.00 38.94 4.35
935 940 1.559682 GGCATTGTAAGAGGAGGTGGA 59.440 52.381 0.00 0.00 0.00 4.02
948 953 1.315257 GGATGGTGAAGCGGCATTGT 61.315 55.000 1.45 0.00 0.00 2.71
1060 1065 0.326264 AGGCGAATCTGAAGGTTGCT 59.674 50.000 0.00 0.00 0.00 3.91
1098 1103 5.367644 TGAGATAAGCATCATCAAGGAGGAA 59.632 40.000 0.00 0.00 33.21 3.36
1099 1104 4.903649 TGAGATAAGCATCATCAAGGAGGA 59.096 41.667 0.00 0.00 33.21 3.71
1158 1163 0.609131 AAGGGATGGCTGTGTTTCGG 60.609 55.000 0.00 0.00 0.00 4.30
1239 1244 2.086869 GGCATTACAGCACTCATGTGT 58.913 47.619 0.00 0.00 45.44 3.72
1360 1365 0.538977 AGACCCGTTCTTCCTGTCGA 60.539 55.000 0.00 0.00 0.00 4.20
1361 1366 1.135460 GTAGACCCGTTCTTCCTGTCG 60.135 57.143 0.00 0.00 35.55 4.35
1362 1367 2.169330 AGTAGACCCGTTCTTCCTGTC 58.831 52.381 0.00 0.00 35.55 3.51
1363 1368 2.305858 AGTAGACCCGTTCTTCCTGT 57.694 50.000 0.00 0.00 35.55 4.00
1364 1369 4.021719 TGTTAAGTAGACCCGTTCTTCCTG 60.022 45.833 0.00 0.00 35.55 3.86
1365 1370 4.154942 TGTTAAGTAGACCCGTTCTTCCT 58.845 43.478 0.00 0.00 35.55 3.36
1366 1371 4.525912 TGTTAAGTAGACCCGTTCTTCC 57.474 45.455 0.00 0.00 35.55 3.46
1367 1372 5.987953 AGTTTGTTAAGTAGACCCGTTCTTC 59.012 40.000 0.00 0.00 35.55 2.87
1368 1373 5.922053 AGTTTGTTAAGTAGACCCGTTCTT 58.078 37.500 0.00 0.00 35.55 2.52
1369 1374 5.541953 AGTTTGTTAAGTAGACCCGTTCT 57.458 39.130 0.00 0.00 38.51 3.01
1370 1375 7.895975 AATAGTTTGTTAAGTAGACCCGTTC 57.104 36.000 0.00 0.00 0.00 3.95
1371 1376 8.681486 AAAATAGTTTGTTAAGTAGACCCGTT 57.319 30.769 0.00 0.00 0.00 4.44
1372 1377 9.777297 TTAAAATAGTTTGTTAAGTAGACCCGT 57.223 29.630 0.00 0.00 0.00 5.28
1393 1398 9.950680 CTTGCTAAGACACTTCAGATTTTAAAA 57.049 29.630 2.51 2.51 0.00 1.52
1394 1399 8.076178 GCTTGCTAAGACACTTCAGATTTTAAA 58.924 33.333 0.00 0.00 0.00 1.52
1395 1400 7.308589 GGCTTGCTAAGACACTTCAGATTTTAA 60.309 37.037 0.00 0.00 36.21 1.52
1396 1401 6.149474 GGCTTGCTAAGACACTTCAGATTTTA 59.851 38.462 0.00 0.00 36.21 1.52
1397 1402 5.048434 GGCTTGCTAAGACACTTCAGATTTT 60.048 40.000 0.00 0.00 36.21 1.82
1398 1403 4.457257 GGCTTGCTAAGACACTTCAGATTT 59.543 41.667 0.00 0.00 36.21 2.17
1399 1404 4.006319 GGCTTGCTAAGACACTTCAGATT 58.994 43.478 0.00 0.00 36.21 2.40
1400 1405 3.008375 TGGCTTGCTAAGACACTTCAGAT 59.992 43.478 0.88 0.00 42.97 2.90
1401 1406 2.368548 TGGCTTGCTAAGACACTTCAGA 59.631 45.455 0.88 0.00 42.97 3.27
1402 1407 2.771089 TGGCTTGCTAAGACACTTCAG 58.229 47.619 0.88 0.00 42.97 3.02
1403 1408 2.928801 TGGCTTGCTAAGACACTTCA 57.071 45.000 0.88 0.00 42.97 3.02
1420 1425 2.992689 TGTGCCAGCCAGCATTGG 60.993 61.111 1.10 0.00 46.24 3.16
1421 1426 2.209064 GACTGTGCCAGCCAGCATTG 62.209 60.000 1.10 1.17 46.24 2.82
1422 1427 1.975407 GACTGTGCCAGCCAGCATT 60.975 57.895 1.10 0.00 46.24 3.56
1423 1428 2.360852 GACTGTGCCAGCCAGCAT 60.361 61.111 1.10 0.00 46.24 3.79
1424 1429 4.648626 GGACTGTGCCAGCCAGCA 62.649 66.667 7.70 0.00 41.46 4.41
1426 1431 4.320456 ACGGACTGTGCCAGCCAG 62.320 66.667 2.50 6.59 34.37 4.85
1427 1432 4.314440 GACGGACTGTGCCAGCCA 62.314 66.667 0.00 0.00 34.37 4.75
1471 1476 1.888436 GCCTCACGATCACCACTCCA 61.888 60.000 0.00 0.00 0.00 3.86
1485 1490 0.606673 ATCGAGATCGGATCGCCTCA 60.607 55.000 14.79 1.53 39.98 3.86
1497 1502 2.223688 CGAGAACAAGGCAGATCGAGAT 60.224 50.000 0.00 0.00 32.13 2.75
1500 1505 0.888619 ACGAGAACAAGGCAGATCGA 59.111 50.000 0.00 0.00 34.46 3.59
1539 1544 2.125912 CACCGAGAGAACCAGGCG 60.126 66.667 0.00 0.00 0.00 5.52
1541 1546 0.951040 GCAACACCGAGAGAACCAGG 60.951 60.000 0.00 0.00 0.00 4.45
1571 1576 1.345415 GTTGGTGAACTCGGTTAGGGA 59.655 52.381 0.00 0.00 0.00 4.20
1583 1588 1.913419 GGGATCTGTAGGGTTGGTGAA 59.087 52.381 0.00 0.00 0.00 3.18
1611 1616 4.755123 GGATGGTTTACGGGATACTTGATG 59.245 45.833 0.00 0.00 0.00 3.07
1612 1617 4.410883 TGGATGGTTTACGGGATACTTGAT 59.589 41.667 0.00 0.00 0.00 2.57
1628 1633 1.492176 CAGAAGGCCTATGTGGATGGT 59.508 52.381 5.16 0.00 38.35 3.55
1660 1665 0.601576 TGTTTGTACGACCATGCGCT 60.602 50.000 9.73 0.00 33.86 5.92
1666 1671 3.119566 GGTTTTTGGTGTTTGTACGACCA 60.120 43.478 0.00 0.00 35.24 4.02
1711 1716 3.593680 ATGGTTGCTGCCCACCCT 61.594 61.111 13.81 3.44 34.07 4.34
1712 1717 3.384532 CATGGTTGCTGCCCACCC 61.385 66.667 13.81 2.12 34.07 4.61
1724 1729 2.278245 TCCTTCCACATTCTCCATGGT 58.722 47.619 12.58 0.00 37.17 3.55
1730 1735 6.183360 CCTTTCATCAATCCTTCCACATTCTC 60.183 42.308 0.00 0.00 0.00 2.87
1733 1738 5.336102 ACCTTTCATCAATCCTTCCACATT 58.664 37.500 0.00 0.00 0.00 2.71
1735 1740 4.043310 AGACCTTTCATCAATCCTTCCACA 59.957 41.667 0.00 0.00 0.00 4.17
1767 1772 0.392998 GCCTTTCATCTCCGCTTCCA 60.393 55.000 0.00 0.00 0.00 3.53
1786 1791 0.383231 GCTCCAGCCCGATTTTGATG 59.617 55.000 0.00 0.00 34.31 3.07
1792 1797 1.222936 CTTCTGCTCCAGCCCGATT 59.777 57.895 0.00 0.00 41.18 3.34
1800 1805 0.112412 GGTTTTCCCCTTCTGCTCCA 59.888 55.000 0.00 0.00 0.00 3.86
1801 1806 0.405973 AGGTTTTCCCCTTCTGCTCC 59.594 55.000 0.00 0.00 41.86 4.70
1834 1839 2.034879 CACTGCATGTGGGTCGTCC 61.035 63.158 8.03 0.00 42.68 4.79
1938 1943 5.590259 ACATTTTCTATTAGCTCCGTGCAAT 59.410 36.000 0.00 0.00 45.94 3.56
1952 1957 9.233232 GAACGTGAACAAAAAGACATTTTCTAT 57.767 29.630 0.00 0.00 39.20 1.98
1953 1958 8.237949 TGAACGTGAACAAAAAGACATTTTCTA 58.762 29.630 0.00 0.00 39.20 2.10
1954 1959 7.087639 TGAACGTGAACAAAAAGACATTTTCT 58.912 30.769 0.00 0.00 39.20 2.52
1963 1968 3.143807 TGCCTGAACGTGAACAAAAAG 57.856 42.857 0.00 0.00 0.00 2.27
1984 1989 1.492133 CCCTCCTCCAACCTGAAGCA 61.492 60.000 0.00 0.00 0.00 3.91
1986 1991 1.204113 AGCCCTCCTCCAACCTGAAG 61.204 60.000 0.00 0.00 0.00 3.02
1991 1996 1.304464 CCAAAGCCCTCCTCCAACC 60.304 63.158 0.00 0.00 0.00 3.77
2074 2079 7.203218 TCAGATTGAAATCATACTACTCCACG 58.797 38.462 5.86 0.00 37.89 4.94
2081 2086 7.539034 TCGGGATCAGATTGAAATCATACTA 57.461 36.000 5.86 0.00 37.89 1.82
2089 2094 3.544684 CCACATCGGGATCAGATTGAAA 58.455 45.455 0.00 0.00 0.00 2.69
2129 2134 1.597742 CTATTCATGGAACCCAGCGG 58.402 55.000 0.00 0.00 36.75 5.52
2130 2135 1.597742 CCTATTCATGGAACCCAGCG 58.402 55.000 0.00 0.00 36.75 5.18
2131 2136 1.986882 CCCTATTCATGGAACCCAGC 58.013 55.000 0.00 0.00 36.75 4.85
2132 2137 1.215173 TGCCCTATTCATGGAACCCAG 59.785 52.381 0.00 0.00 36.75 4.45
2133 2138 1.303898 TGCCCTATTCATGGAACCCA 58.696 50.000 0.00 0.00 38.19 4.51
2134 2139 2.452600 TTGCCCTATTCATGGAACCC 57.547 50.000 0.00 0.00 0.00 4.11
2135 2140 2.629617 CCATTGCCCTATTCATGGAACC 59.370 50.000 0.00 0.00 0.00 3.62
2136 2141 2.629617 CCCATTGCCCTATTCATGGAAC 59.370 50.000 0.00 0.00 0.00 3.62
2137 2142 2.517553 TCCCATTGCCCTATTCATGGAA 59.482 45.455 0.00 0.00 0.00 3.53
2138 2143 2.108776 CTCCCATTGCCCTATTCATGGA 59.891 50.000 0.00 0.00 0.00 3.41
2139 2144 2.108776 TCTCCCATTGCCCTATTCATGG 59.891 50.000 0.00 0.00 0.00 3.66
2140 2145 3.073503 TCTCTCCCATTGCCCTATTCATG 59.926 47.826 0.00 0.00 0.00 3.07
2141 2146 3.330198 TCTCTCCCATTGCCCTATTCAT 58.670 45.455 0.00 0.00 0.00 2.57
2142 2147 2.775418 TCTCTCCCATTGCCCTATTCA 58.225 47.619 0.00 0.00 0.00 2.57
2143 2148 3.328931 TCATCTCTCCCATTGCCCTATTC 59.671 47.826 0.00 0.00 0.00 1.75
2144 2149 3.330198 TCATCTCTCCCATTGCCCTATT 58.670 45.455 0.00 0.00 0.00 1.73
2145 2150 2.995746 TCATCTCTCCCATTGCCCTAT 58.004 47.619 0.00 0.00 0.00 2.57
2146 2151 2.494888 TCATCTCTCCCATTGCCCTA 57.505 50.000 0.00 0.00 0.00 3.53
2147 2152 1.830486 ATCATCTCTCCCATTGCCCT 58.170 50.000 0.00 0.00 0.00 5.19
2148 2153 2.026449 CCTATCATCTCTCCCATTGCCC 60.026 54.545 0.00 0.00 0.00 5.36
2149 2154 2.641815 ACCTATCATCTCTCCCATTGCC 59.358 50.000 0.00 0.00 0.00 4.52
2150 2155 3.326006 TGACCTATCATCTCTCCCATTGC 59.674 47.826 0.00 0.00 0.00 3.56
2151 2156 5.306419 TCTTGACCTATCATCTCTCCCATTG 59.694 44.000 0.00 0.00 33.85 2.82
2152 2157 5.306678 GTCTTGACCTATCATCTCTCCCATT 59.693 44.000 0.00 0.00 33.85 3.16
2153 2158 4.837860 GTCTTGACCTATCATCTCTCCCAT 59.162 45.833 0.00 0.00 33.85 4.00
2154 2159 4.078922 AGTCTTGACCTATCATCTCTCCCA 60.079 45.833 0.00 0.00 33.85 4.37
2155 2160 4.479158 AGTCTTGACCTATCATCTCTCCC 58.521 47.826 0.00 0.00 33.85 4.30
2156 2161 6.097554 TGAAAGTCTTGACCTATCATCTCTCC 59.902 42.308 0.00 0.00 33.85 3.71
2157 2162 6.978080 GTGAAAGTCTTGACCTATCATCTCTC 59.022 42.308 0.00 0.00 33.85 3.20
2158 2163 6.405286 CGTGAAAGTCTTGACCTATCATCTCT 60.405 42.308 0.00 0.00 33.85 3.10
2159 2164 5.746245 CGTGAAAGTCTTGACCTATCATCTC 59.254 44.000 0.00 0.00 33.85 2.75
2160 2165 5.419155 TCGTGAAAGTCTTGACCTATCATCT 59.581 40.000 0.00 0.00 33.85 2.90
2161 2166 5.651530 TCGTGAAAGTCTTGACCTATCATC 58.348 41.667 0.00 0.00 33.85 2.92
2162 2167 5.661056 TCGTGAAAGTCTTGACCTATCAT 57.339 39.130 0.00 0.00 33.85 2.45
2163 2168 5.010719 ACTTCGTGAAAGTCTTGACCTATCA 59.989 40.000 0.00 0.00 45.28 2.15
2164 2169 5.471257 ACTTCGTGAAAGTCTTGACCTATC 58.529 41.667 0.00 0.00 45.28 2.08
2165 2170 5.470047 ACTTCGTGAAAGTCTTGACCTAT 57.530 39.130 0.00 0.00 45.28 2.57
2166 2171 4.931661 ACTTCGTGAAAGTCTTGACCTA 57.068 40.909 0.00 0.00 45.28 3.08
2167 2172 3.821421 ACTTCGTGAAAGTCTTGACCT 57.179 42.857 0.00 0.00 45.28 3.85
2176 2181 3.045601 ACATCCAGGACTTCGTGAAAG 57.954 47.619 0.00 0.00 41.08 2.62
2177 2182 3.138304 CAACATCCAGGACTTCGTGAAA 58.862 45.455 0.00 0.00 33.92 2.69
2178 2183 2.367241 TCAACATCCAGGACTTCGTGAA 59.633 45.455 0.00 0.00 33.92 3.18
2179 2184 1.967779 TCAACATCCAGGACTTCGTGA 59.032 47.619 0.00 0.00 33.92 4.35
2180 2185 2.455674 TCAACATCCAGGACTTCGTG 57.544 50.000 0.00 0.00 0.00 4.35
2181 2186 2.303022 ACATCAACATCCAGGACTTCGT 59.697 45.455 0.00 0.00 0.00 3.85
2182 2187 2.674852 CACATCAACATCCAGGACTTCG 59.325 50.000 0.00 0.00 0.00 3.79
2183 2188 3.012518 CCACATCAACATCCAGGACTTC 58.987 50.000 0.00 0.00 0.00 3.01
2184 2189 2.291153 CCCACATCAACATCCAGGACTT 60.291 50.000 0.00 0.00 0.00 3.01
2185 2190 1.283029 CCCACATCAACATCCAGGACT 59.717 52.381 0.00 0.00 0.00 3.85
2186 2191 1.683011 CCCCACATCAACATCCAGGAC 60.683 57.143 0.00 0.00 0.00 3.85
2187 2192 0.625316 CCCCACATCAACATCCAGGA 59.375 55.000 0.00 0.00 0.00 3.86
2188 2193 1.039233 GCCCCACATCAACATCCAGG 61.039 60.000 0.00 0.00 0.00 4.45
2189 2194 0.323633 TGCCCCACATCAACATCCAG 60.324 55.000 0.00 0.00 0.00 3.86
2190 2195 0.335705 ATGCCCCACATCAACATCCA 59.664 50.000 0.00 0.00 31.52 3.41
2191 2196 0.748450 CATGCCCCACATCAACATCC 59.252 55.000 0.00 0.00 36.64 3.51
2192 2197 1.135527 CACATGCCCCACATCAACATC 59.864 52.381 0.00 0.00 36.64 3.06
2193 2198 1.187974 CACATGCCCCACATCAACAT 58.812 50.000 0.00 0.00 36.64 2.71
2194 2199 0.112025 TCACATGCCCCACATCAACA 59.888 50.000 0.00 0.00 36.64 3.33
2195 2200 1.135527 CATCACATGCCCCACATCAAC 59.864 52.381 0.00 0.00 36.64 3.18
2196 2201 1.476477 CATCACATGCCCCACATCAA 58.524 50.000 0.00 0.00 36.64 2.57
2197 2202 0.396001 CCATCACATGCCCCACATCA 60.396 55.000 0.00 0.00 36.64 3.07
2198 2203 1.111116 CCCATCACATGCCCCACATC 61.111 60.000 0.00 0.00 36.64 3.06
2199 2204 1.075822 CCCATCACATGCCCCACAT 60.076 57.895 0.00 0.00 40.66 3.21
2200 2205 1.798087 TTCCCATCACATGCCCCACA 61.798 55.000 0.00 0.00 0.00 4.17
2201 2206 0.614415 TTTCCCATCACATGCCCCAC 60.614 55.000 0.00 0.00 0.00 4.61
2202 2207 0.614415 GTTTCCCATCACATGCCCCA 60.614 55.000 0.00 0.00 0.00 4.96
2203 2208 0.324645 AGTTTCCCATCACATGCCCC 60.325 55.000 0.00 0.00 0.00 5.80
2204 2209 2.301346 CTAGTTTCCCATCACATGCCC 58.699 52.381 0.00 0.00 0.00 5.36
2205 2210 2.684881 CACTAGTTTCCCATCACATGCC 59.315 50.000 0.00 0.00 0.00 4.40
2206 2211 2.684881 CCACTAGTTTCCCATCACATGC 59.315 50.000 0.00 0.00 0.00 4.06
2207 2212 3.282021 CCCACTAGTTTCCCATCACATG 58.718 50.000 0.00 0.00 0.00 3.21
2208 2213 2.357154 GCCCACTAGTTTCCCATCACAT 60.357 50.000 0.00 0.00 0.00 3.21
2209 2214 1.004277 GCCCACTAGTTTCCCATCACA 59.996 52.381 0.00 0.00 0.00 3.58
2210 2215 1.004277 TGCCCACTAGTTTCCCATCAC 59.996 52.381 0.00 0.00 0.00 3.06
2211 2216 1.367346 TGCCCACTAGTTTCCCATCA 58.633 50.000 0.00 0.00 0.00 3.07
2212 2217 2.290960 ACTTGCCCACTAGTTTCCCATC 60.291 50.000 0.00 0.00 0.00 3.51
2213 2218 1.710809 ACTTGCCCACTAGTTTCCCAT 59.289 47.619 0.00 0.00 0.00 4.00
2214 2219 1.145571 ACTTGCCCACTAGTTTCCCA 58.854 50.000 0.00 0.00 0.00 4.37
2215 2220 2.160205 GAACTTGCCCACTAGTTTCCC 58.840 52.381 0.00 0.00 41.12 3.97
2216 2221 3.141767 AGAACTTGCCCACTAGTTTCC 57.858 47.619 0.00 0.00 41.12 3.13
2217 2222 4.151867 CGTAAGAACTTGCCCACTAGTTTC 59.848 45.833 0.00 0.00 41.12 2.78
2218 2223 4.062991 CGTAAGAACTTGCCCACTAGTTT 58.937 43.478 0.00 0.00 41.12 2.66
2219 2224 3.070590 ACGTAAGAACTTGCCCACTAGTT 59.929 43.478 0.00 0.00 43.25 2.24
2220 2225 2.631545 ACGTAAGAACTTGCCCACTAGT 59.368 45.455 0.00 0.00 43.62 2.57
2221 2226 2.993899 CACGTAAGAACTTGCCCACTAG 59.006 50.000 0.00 0.00 43.62 2.57
2222 2227 2.366266 ACACGTAAGAACTTGCCCACTA 59.634 45.455 0.00 0.00 43.62 2.74
2223 2228 1.140252 ACACGTAAGAACTTGCCCACT 59.860 47.619 0.00 0.00 43.62 4.00
2224 2229 1.263217 CACACGTAAGAACTTGCCCAC 59.737 52.381 0.00 0.00 43.62 4.61
2225 2230 1.139256 TCACACGTAAGAACTTGCCCA 59.861 47.619 0.00 0.00 43.62 5.36
2226 2231 1.873698 TCACACGTAAGAACTTGCCC 58.126 50.000 0.00 0.00 43.62 5.36
2227 2232 2.223377 CCTTCACACGTAAGAACTTGCC 59.777 50.000 0.00 0.00 43.62 4.52
2228 2233 2.870411 ACCTTCACACGTAAGAACTTGC 59.130 45.455 0.00 0.00 43.62 4.01
2229 2234 4.116961 TCACCTTCACACGTAAGAACTTG 58.883 43.478 0.00 0.18 43.62 3.16
2230 2235 4.395959 TCACCTTCACACGTAAGAACTT 57.604 40.909 0.00 0.00 43.62 2.66
2231 2236 4.395959 TTCACCTTCACACGTAAGAACT 57.604 40.909 0.00 0.00 43.62 3.01
2232 2237 4.569564 AGTTTCACCTTCACACGTAAGAAC 59.430 41.667 0.00 0.00 43.62 3.01
2233 2238 4.761975 AGTTTCACCTTCACACGTAAGAA 58.238 39.130 0.00 0.39 43.62 2.52
2234 2239 4.395959 AGTTTCACCTTCACACGTAAGA 57.604 40.909 0.00 0.00 43.62 2.10
2236 2241 4.505808 TCAAGTTTCACCTTCACACGTAA 58.494 39.130 0.00 0.00 0.00 3.18
2237 2242 4.126208 TCAAGTTTCACCTTCACACGTA 57.874 40.909 0.00 0.00 0.00 3.57
2238 2243 2.980568 TCAAGTTTCACCTTCACACGT 58.019 42.857 0.00 0.00 0.00 4.49
2239 2244 5.862924 ATATCAAGTTTCACCTTCACACG 57.137 39.130 0.00 0.00 0.00 4.49
2240 2245 7.174253 TGGTAATATCAAGTTTCACCTTCACAC 59.826 37.037 0.00 0.00 0.00 3.82
2241 2246 7.227873 TGGTAATATCAAGTTTCACCTTCACA 58.772 34.615 0.00 0.00 0.00 3.58
2242 2247 7.681939 TGGTAATATCAAGTTTCACCTTCAC 57.318 36.000 0.00 0.00 0.00 3.18
2243 2248 8.573035 GTTTGGTAATATCAAGTTTCACCTTCA 58.427 33.333 0.00 0.00 0.00 3.02
2244 2249 8.965986 GTTTGGTAATATCAAGTTTCACCTTC 57.034 34.615 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.