Multiple sequence alignment - TraesCS3B01G592400

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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 TraesCS3B01G592400 chr3B 100.000 3840 0 0 1 3840 816522015 816518176 0.000000e+00 7092
1 TraesCS3B01G592400 chr3D 91.558 1682 98 24 2188 3840 607064498 607062832 0.000000e+00 2279
2 TraesCS3B01G592400 chr3D 95.462 1190 45 3 19 1202 607066675 607065489 0.000000e+00 1890
3 TraesCS3B01G592400 chr3D 85.833 840 79 14 1195 2007 607065462 607064636 0.000000e+00 856
4 TraesCS3B01G592400 chr3A 91.708 1218 78 12 2 1200 739520141 739518928 0.000000e+00 1668
5 TraesCS3B01G592400 chr3A 94.222 675 29 9 3172 3840 739517055 739516385 0.000000e+00 1022
6 TraesCS3B01G592400 chr3A 84.746 826 82 30 1195 1999 739518899 739518097 0.000000e+00 787
7 TraesCS3B01G592400 chr3A 82.109 844 65 39 2174 3012 739517968 739517206 0.000000e+00 643
8 TraesCS3B01G592400 chr3A 94.068 118 5 1 3017 3132 739517168 739517051 1.100000e-40 178
9 TraesCS3B01G592400 chr1A 93.902 82 5 0 3615 3696 12157669 12157750 1.450000e-24 124
10 TraesCS3B01G592400 chr2B 78.534 191 26 12 1824 2008 145540101 145539920 1.130000e-20 111


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 TraesCS3B01G592400 chr3B 816518176 816522015 3839 True 7092.0 7092 100.0000 1 3840 1 chr3B.!!$R1 3839
1 TraesCS3B01G592400 chr3D 607062832 607066675 3843 True 1675.0 2279 90.9510 19 3840 3 chr3D.!!$R1 3821
2 TraesCS3B01G592400 chr3A 739516385 739520141 3756 True 859.6 1668 89.3706 2 3840 5 chr3A.!!$R1 3838

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
330 332 0.110486 TGGAAAGGTGAGTCCCAAGC 59.890 55.0 1.17 0.0 36.75 4.01 F
584 591 0.250901 GCCATGTGGGAGACAAGTGT 60.251 55.0 0.54 0.0 38.36 3.55 F
2089 2236 0.034337 AAACAGAGCTACCCGCGAAA 59.966 50.0 8.23 0.0 45.59 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2071 2218 0.034337 TTTTCGCGGGTAGCTCTGTT 59.966 50.0 6.13 0.00 45.59 3.16 R
2292 2442 0.806868 AATGCGCAGACATGTCCTTG 59.193 50.0 22.21 15.59 0.00 3.61 R
3137 3374 0.108041 TCGCCCATTTTACTCCGGTC 60.108 55.0 0.00 0.00 0.00 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
283 285 4.142403 ACATGCCGTTGAAATACAATCCAG 60.142 41.667 0.00 0.00 40.76 3.86
330 332 0.110486 TGGAAAGGTGAGTCCCAAGC 59.890 55.000 1.17 0.00 36.75 4.01
402 409 6.770785 AGTGGAGTAGCAAAAACAACTCATTA 59.229 34.615 3.97 0.00 40.09 1.90
479 486 2.437413 GTTTTCCAGAAGGGCGAGATT 58.563 47.619 0.00 0.00 36.21 2.40
488 495 0.811616 AGGGCGAGATTGTGCGATTC 60.812 55.000 0.00 0.00 0.00 2.52
516 523 2.173669 CACGGGCGGTATCTTGCTG 61.174 63.158 0.00 0.00 0.00 4.41
517 524 2.186903 CGGGCGGTATCTTGCTGT 59.813 61.111 0.00 0.00 0.00 4.40
584 591 0.250901 GCCATGTGGGAGACAAGTGT 60.251 55.000 0.54 0.00 38.36 3.55
664 677 1.142688 ACCCCTTCAGATGCCAAGGT 61.143 55.000 0.00 0.00 38.01 3.50
665 678 0.682209 CCCCTTCAGATGCCAAGGTG 60.682 60.000 0.00 0.00 38.01 4.00
728 747 7.712639 CCTCAACTCATACAGCAACATAACTAT 59.287 37.037 0.00 0.00 0.00 2.12
840 860 3.007290 GCATCCTCCTTTTGCCTTCTTTT 59.993 43.478 0.00 0.00 0.00 2.27
864 884 3.594134 CCTGCTCCTACTTTTGAGTCAG 58.406 50.000 0.00 0.00 34.95 3.51
867 887 2.999355 GCTCCTACTTTTGAGTCAGCAG 59.001 50.000 0.00 0.00 0.00 4.24
873 893 2.754552 ACTTTTGAGTCAGCAGCAACAA 59.245 40.909 0.00 0.00 0.00 2.83
880 901 4.082300 TGAGTCAGCAGCAACAAAGAAAAA 60.082 37.500 0.00 0.00 0.00 1.94
974 995 0.984230 GTGATCCACCTCCAACCTCA 59.016 55.000 0.00 0.00 0.00 3.86
1136 1157 0.642156 TATGGCTTCCTCCCTCCAGA 59.358 55.000 0.00 0.00 31.36 3.86
1196 1217 3.411446 CAGGTATGTTGTTCCTTGCTCA 58.589 45.455 0.00 0.00 0.00 4.26
1214 1268 2.031012 CTGCTGAGAACACCCGCA 59.969 61.111 0.00 0.00 0.00 5.69
1252 1306 3.850092 GACGCGTTGCCGTTTGGTC 62.850 63.158 15.53 0.00 42.24 4.02
1276 1330 6.013032 TCTCTGATCTGATCCTTGGTTTCTTT 60.013 38.462 14.71 0.00 0.00 2.52
1278 1332 7.106239 TCTGATCTGATCCTTGGTTTCTTTAC 58.894 38.462 14.71 0.00 0.00 2.01
1283 1337 4.758165 TGATCCTTGGTTTCTTTACGGTTC 59.242 41.667 0.00 0.00 0.00 3.62
1307 1361 2.761767 TGGGTCCATTCATTCATGCTTG 59.238 45.455 0.00 0.00 0.00 4.01
1308 1362 2.482490 GGGTCCATTCATTCATGCTTGC 60.482 50.000 0.00 0.00 0.00 4.01
1309 1363 2.429610 GGTCCATTCATTCATGCTTGCT 59.570 45.455 0.00 0.00 0.00 3.91
1310 1364 3.444916 GTCCATTCATTCATGCTTGCTG 58.555 45.455 0.00 0.00 0.00 4.41
1321 1375 1.971481 TGCTTGCTGCTCTTGAGAAA 58.029 45.000 0.00 0.00 43.37 2.52
1324 1378 3.048501 GCTTGCTGCTCTTGAGAAAAAC 58.951 45.455 0.00 0.00 38.95 2.43
1325 1379 3.243334 GCTTGCTGCTCTTGAGAAAAACT 60.243 43.478 0.00 0.00 38.95 2.66
1328 1382 5.329035 TGCTGCTCTTGAGAAAAACTTTT 57.671 34.783 0.00 0.00 0.00 2.27
1348 1402 1.538047 TTCTCCGCGGTTACTACTGT 58.462 50.000 27.15 0.00 32.95 3.55
1371 1425 3.304928 CCTGTGACAGGTTCTTGCATTTC 60.305 47.826 23.27 0.00 45.82 2.17
1372 1427 3.286353 TGTGACAGGTTCTTGCATTTCA 58.714 40.909 0.00 0.00 0.00 2.69
1401 1456 7.126726 CTGTTTATCAGGATTGCTGCTATAC 57.873 40.000 0.00 0.00 40.23 1.47
1406 1461 2.551459 CAGGATTGCTGCTATACTTGCC 59.449 50.000 6.06 0.00 0.00 4.52
1407 1462 1.882623 GGATTGCTGCTATACTTGCCC 59.117 52.381 0.00 0.00 0.00 5.36
1421 1476 4.657814 ACTTGCCCTTGAATCTTTCCTA 57.342 40.909 0.00 0.00 0.00 2.94
1470 1525 6.095580 TGTTACATCTGTTTTTGTGGTTGCTA 59.904 34.615 0.00 0.00 0.00 3.49
1476 1531 4.180057 TGTTTTTGTGGTTGCTAGCAAAG 58.820 39.130 30.83 0.00 37.70 2.77
1482 1537 4.870363 TGTGGTTGCTAGCAAAGAAATTC 58.130 39.130 30.83 16.42 37.70 2.17
1484 1539 4.919754 GTGGTTGCTAGCAAAGAAATTCAG 59.080 41.667 30.83 0.00 37.70 3.02
1485 1540 4.826733 TGGTTGCTAGCAAAGAAATTCAGA 59.173 37.500 30.83 2.15 37.70 3.27
1486 1541 5.301551 TGGTTGCTAGCAAAGAAATTCAGAA 59.698 36.000 30.83 1.92 37.70 3.02
1488 1543 5.051891 TGCTAGCAAAGAAATTCAGAAGC 57.948 39.130 16.84 0.00 0.00 3.86
1493 1551 5.850614 AGCAAAGAAATTCAGAAGCATTGT 58.149 33.333 0.00 0.00 0.00 2.71
1520 1578 5.910614 TGGTCATGTCTTGATCAGATGTAG 58.089 41.667 0.00 0.00 40.61 2.74
1521 1579 5.658190 TGGTCATGTCTTGATCAGATGTAGA 59.342 40.000 0.00 0.00 40.61 2.59
1530 1588 8.663911 GTCTTGATCAGATGTAGAAAGGAAAAG 58.336 37.037 0.00 0.00 32.60 2.27
1532 1590 7.912056 TGATCAGATGTAGAAAGGAAAAGTG 57.088 36.000 0.00 0.00 0.00 3.16
1533 1591 7.453393 TGATCAGATGTAGAAAGGAAAAGTGT 58.547 34.615 0.00 0.00 0.00 3.55
1534 1592 7.939039 TGATCAGATGTAGAAAGGAAAAGTGTT 59.061 33.333 0.00 0.00 0.00 3.32
1535 1593 8.697507 ATCAGATGTAGAAAGGAAAAGTGTTT 57.302 30.769 0.00 0.00 0.00 2.83
1536 1594 8.519799 TCAGATGTAGAAAGGAAAAGTGTTTT 57.480 30.769 0.00 0.00 35.12 2.43
1537 1595 8.966868 TCAGATGTAGAAAGGAAAAGTGTTTTT 58.033 29.630 0.00 0.00 39.16 1.94
1589 1647 9.823647 TGGAATACAAGAGAATGATCTAAAGTC 57.176 33.333 0.00 0.00 35.54 3.01
1606 1664 2.699954 AGTCGGGTGCTTTAGTCATTG 58.300 47.619 0.00 0.00 0.00 2.82
1634 1692 2.011222 TGAAAAAGTTTCCACGTCGCT 58.989 42.857 0.00 0.00 0.00 4.93
1662 1721 4.816385 TGAGAAGTTGACTGCACCTTTTAG 59.184 41.667 0.00 0.00 25.70 1.85
1713 1783 4.712829 AGATCATGTTGGATTGGATTTGCA 59.287 37.500 0.00 0.00 0.00 4.08
1774 1844 5.970592 TGATGTTACTCAGAAGATGGTGAG 58.029 41.667 0.00 0.00 44.92 3.51
1798 1868 1.221021 GGAGTACTTCCCTTGCCCG 59.779 63.158 0.00 0.00 40.37 6.13
1934 2026 9.586435 GGAATTACTGCTATGCAAATTAACTTT 57.414 29.630 0.00 0.00 38.41 2.66
1941 2033 9.571810 CTGCTATGCAAATTAACTTTGATTACA 57.428 29.630 11.94 4.11 45.96 2.41
1974 2066 8.028938 TTTTGATCAAAACATAGCCTTAAGCTC 58.971 33.333 26.01 0.00 42.23 4.09
2004 2096 2.509569 TCCTGCTGGAAATGCGTTTAA 58.490 42.857 10.32 0.00 39.87 1.52
2007 2099 4.054671 CCTGCTGGAAATGCGTTTAAAAA 58.945 39.130 2.92 0.00 34.57 1.94
2008 2100 4.690280 CCTGCTGGAAATGCGTTTAAAAAT 59.310 37.500 2.92 0.00 34.57 1.82
2009 2101 5.389725 CCTGCTGGAAATGCGTTTAAAAATG 60.390 40.000 2.92 0.00 34.57 2.32
2010 2102 8.727889 CCTGCTGGAAATGCGTTTAAAAATGC 62.728 42.308 2.92 11.79 42.20 3.56
2022 2169 7.871583 GCGTTTAAAAATGCTACTGTATGTTC 58.128 34.615 11.49 0.00 45.18 3.18
2023 2170 7.749126 GCGTTTAAAAATGCTACTGTATGTTCT 59.251 33.333 11.49 0.00 45.18 3.01
2044 2191 9.528489 TGTTCTTTTATAAAATCCCAAGCTACT 57.472 29.630 10.97 0.00 0.00 2.57
2046 2193 8.747538 TCTTTTATAAAATCCCAAGCTACTCC 57.252 34.615 10.97 0.00 0.00 3.85
2065 2212 8.573035 GCTACTCCATTATATAGCTCCTGATAC 58.427 40.741 0.00 0.00 37.62 2.24
2068 2215 9.499369 ACTCCATTATATAGCTCCTGATACAAT 57.501 33.333 0.00 0.00 0.00 2.71
2069 2216 9.761504 CTCCATTATATAGCTCCTGATACAATG 57.238 37.037 0.00 0.00 0.00 2.82
2076 2223 5.426689 AGCTCCTGATACAATGAAACAGA 57.573 39.130 0.00 0.00 0.00 3.41
2077 2224 5.426504 AGCTCCTGATACAATGAAACAGAG 58.573 41.667 0.00 0.00 0.00 3.35
2078 2225 4.034975 GCTCCTGATACAATGAAACAGAGC 59.965 45.833 0.00 0.00 0.00 4.09
2079 2226 5.426504 CTCCTGATACAATGAAACAGAGCT 58.573 41.667 0.00 0.00 0.00 4.09
2080 2227 6.544928 TCCTGATACAATGAAACAGAGCTA 57.455 37.500 0.00 0.00 0.00 3.32
2081 2228 6.341316 TCCTGATACAATGAAACAGAGCTAC 58.659 40.000 0.00 0.00 0.00 3.58
2082 2229 5.525378 CCTGATACAATGAAACAGAGCTACC 59.475 44.000 0.00 0.00 0.00 3.18
2083 2230 5.428253 TGATACAATGAAACAGAGCTACCC 58.572 41.667 0.00 0.00 0.00 3.69
2084 2231 2.699954 ACAATGAAACAGAGCTACCCG 58.300 47.619 0.00 0.00 0.00 5.28
2085 2232 1.398390 CAATGAAACAGAGCTACCCGC 59.602 52.381 0.00 0.00 39.57 6.13
2086 2233 0.460284 ATGAAACAGAGCTACCCGCG 60.460 55.000 0.00 0.00 45.59 6.46
2087 2234 1.214589 GAAACAGAGCTACCCGCGA 59.785 57.895 8.23 0.00 45.59 5.87
2088 2235 0.389426 GAAACAGAGCTACCCGCGAA 60.389 55.000 8.23 0.00 45.59 4.70
2089 2236 0.034337 AAACAGAGCTACCCGCGAAA 59.966 50.000 8.23 0.00 45.59 3.46
2090 2237 0.034337 AACAGAGCTACCCGCGAAAA 59.966 50.000 8.23 0.00 45.59 2.29
2091 2238 0.034337 ACAGAGCTACCCGCGAAAAA 59.966 50.000 8.23 0.00 45.59 1.94
2113 2260 7.679659 AAAAGCGAAACAGAGTAATTTTGTC 57.320 32.000 0.00 0.00 0.00 3.18
2122 2269 4.938226 CAGAGTAATTTTGTCTGTCCCTCC 59.062 45.833 4.13 0.00 34.24 4.30
2126 2273 3.903530 ATTTTGTCTGTCCCTCCCTTT 57.096 42.857 0.00 0.00 0.00 3.11
2129 2276 5.333566 TTTTGTCTGTCCCTCCCTTTAAT 57.666 39.130 0.00 0.00 0.00 1.40
2134 2283 4.037927 TCTGTCCCTCCCTTTAATAGTGG 58.962 47.826 0.00 0.00 0.00 4.00
2137 2286 3.053917 GTCCCTCCCTTTAATAGTGGCAA 60.054 47.826 0.00 0.00 0.00 4.52
2158 2307 6.461927 GGCAAATGGCTTGATTGATTCTATGA 60.462 38.462 0.00 0.00 44.01 2.15
2159 2308 6.982141 GCAAATGGCTTGATTGATTCTATGAA 59.018 34.615 0.00 0.00 40.25 2.57
2160 2309 7.493320 GCAAATGGCTTGATTGATTCTATGAAA 59.507 33.333 0.00 0.00 40.25 2.69
2161 2310 9.373603 CAAATGGCTTGATTGATTCTATGAAAA 57.626 29.630 0.00 0.00 37.17 2.29
2162 2311 9.947433 AAATGGCTTGATTGATTCTATGAAAAA 57.053 25.926 0.00 0.00 0.00 1.94
2180 2329 4.335400 AAAAAGAAATGCGGGTGTGATT 57.665 36.364 0.00 0.00 0.00 2.57
2181 2330 3.302365 AAAGAAATGCGGGTGTGATTG 57.698 42.857 0.00 0.00 0.00 2.67
2182 2331 2.198827 AGAAATGCGGGTGTGATTGA 57.801 45.000 0.00 0.00 0.00 2.57
2183 2332 2.726821 AGAAATGCGGGTGTGATTGAT 58.273 42.857 0.00 0.00 0.00 2.57
2184 2333 3.091545 AGAAATGCGGGTGTGATTGATT 58.908 40.909 0.00 0.00 0.00 2.57
2185 2334 3.511146 AGAAATGCGGGTGTGATTGATTT 59.489 39.130 0.00 0.00 0.00 2.17
2186 2335 3.959535 AATGCGGGTGTGATTGATTTT 57.040 38.095 0.00 0.00 0.00 1.82
2187 2336 3.959535 ATGCGGGTGTGATTGATTTTT 57.040 38.095 0.00 0.00 0.00 1.94
2188 2337 5.398603 AATGCGGGTGTGATTGATTTTTA 57.601 34.783 0.00 0.00 0.00 1.52
2189 2338 5.596836 ATGCGGGTGTGATTGATTTTTAT 57.403 34.783 0.00 0.00 0.00 1.40
2190 2339 6.707440 ATGCGGGTGTGATTGATTTTTATA 57.293 33.333 0.00 0.00 0.00 0.98
2228 2377 3.000322 CACGATTTCTCTGTTACGATGCC 60.000 47.826 0.00 0.00 0.00 4.40
2231 2380 2.273370 TTCTCTGTTACGATGCCGAC 57.727 50.000 0.00 0.00 39.50 4.79
2238 2387 2.686405 TGTTACGATGCCGACTCACTAT 59.314 45.455 0.00 0.00 39.50 2.12
2243 2393 1.139058 GATGCCGACTCACTATTGGGT 59.861 52.381 0.00 0.00 40.13 4.51
2280 2430 2.186826 GGTTTGCCCGATATGCGCT 61.187 57.895 9.73 0.00 39.11 5.92
2289 2439 2.164422 CCCGATATGCGCTGAGAATCTA 59.836 50.000 9.73 0.00 39.11 1.98
2292 2442 2.732412 TATGCGCTGAGAATCTAGGC 57.268 50.000 9.73 0.00 34.92 3.93
2304 2454 4.036518 AGAATCTAGGCAAGGACATGTCT 58.963 43.478 24.50 8.73 39.04 3.41
2319 2469 3.192001 ACATGTCTGCGCATTTCAGATTT 59.808 39.130 12.24 0.00 41.93 2.17
2322 2472 3.120095 TGTCTGCGCATTTCAGATTTCAG 60.120 43.478 12.24 0.00 41.93 3.02
2385 2541 0.317103 CTCCTACGTGAGAATCGGCG 60.317 60.000 0.00 0.00 40.88 6.46
2415 2572 4.737054 GGCACGAAAAACTCATCATCATT 58.263 39.130 0.00 0.00 0.00 2.57
2554 2713 2.607750 GACCCTGAGCCTGACCCA 60.608 66.667 0.00 0.00 0.00 4.51
2576 2735 0.463474 GCTCTCCCAGTTCATCTGCC 60.463 60.000 0.00 0.00 42.38 4.85
2577 2736 0.179089 CTCTCCCAGTTCATCTGCCG 60.179 60.000 0.00 0.00 42.38 5.69
2578 2737 1.817099 CTCCCAGTTCATCTGCCGC 60.817 63.158 0.00 0.00 42.38 6.53
2608 2767 1.894756 CCAAACCGAAACCGAGCCA 60.895 57.895 0.00 0.00 0.00 4.75
2750 2910 0.392336 GCAATGGTGGTGCCTTTTGA 59.608 50.000 0.00 0.00 38.35 2.69
2800 2960 0.560193 AGGAGAGGCTGCAGAGGATA 59.440 55.000 20.43 0.00 0.00 2.59
2814 2974 1.698506 AGGATAGAGTTCCTCAGCGG 58.301 55.000 0.00 0.00 42.71 5.52
2870 3055 9.890629 TTATAAGCTCTAATTGTGTTGATGTCT 57.109 29.630 0.00 0.00 0.00 3.41
2872 3057 7.840342 AAGCTCTAATTGTGTTGATGTCTAG 57.160 36.000 0.00 0.00 0.00 2.43
2873 3058 6.344500 AGCTCTAATTGTGTTGATGTCTAGG 58.656 40.000 0.00 0.00 0.00 3.02
2874 3059 5.525378 GCTCTAATTGTGTTGATGTCTAGGG 59.475 44.000 0.00 0.00 0.00 3.53
2875 3060 6.620877 TCTAATTGTGTTGATGTCTAGGGT 57.379 37.500 0.00 0.00 0.00 4.34
2876 3061 7.016153 TCTAATTGTGTTGATGTCTAGGGTT 57.984 36.000 0.00 0.00 0.00 4.11
2877 3062 7.458397 TCTAATTGTGTTGATGTCTAGGGTTT 58.542 34.615 0.00 0.00 0.00 3.27
2878 3063 6.575162 AATTGTGTTGATGTCTAGGGTTTC 57.425 37.500 0.00 0.00 0.00 2.78
2879 3064 4.974645 TGTGTTGATGTCTAGGGTTTCT 57.025 40.909 0.00 0.00 0.00 2.52
2880 3065 5.304686 TGTGTTGATGTCTAGGGTTTCTT 57.695 39.130 0.00 0.00 0.00 2.52
2881 3066 5.063204 TGTGTTGATGTCTAGGGTTTCTTG 58.937 41.667 0.00 0.00 0.00 3.02
2882 3067 5.163248 TGTGTTGATGTCTAGGGTTTCTTGA 60.163 40.000 0.00 0.00 0.00 3.02
2883 3068 5.409826 GTGTTGATGTCTAGGGTTTCTTGAG 59.590 44.000 0.00 0.00 0.00 3.02
2884 3069 4.207891 TGATGTCTAGGGTTTCTTGAGC 57.792 45.455 0.00 0.00 0.00 4.26
2885 3070 3.582647 TGATGTCTAGGGTTTCTTGAGCA 59.417 43.478 0.00 0.00 0.00 4.26
2886 3071 3.685139 TGTCTAGGGTTTCTTGAGCAG 57.315 47.619 0.00 0.00 0.00 4.24
2887 3072 2.972713 TGTCTAGGGTTTCTTGAGCAGT 59.027 45.455 0.00 0.00 0.00 4.40
2888 3073 3.391296 TGTCTAGGGTTTCTTGAGCAGTT 59.609 43.478 0.00 0.00 0.00 3.16
2889 3074 4.141482 TGTCTAGGGTTTCTTGAGCAGTTT 60.141 41.667 0.00 0.00 0.00 2.66
3056 3276 5.634118 TCAGTGTTCCATTGAGATTTTCCT 58.366 37.500 0.00 0.00 0.00 3.36
3061 3281 5.243730 TGTTCCATTGAGATTTTCCTGAACC 59.756 40.000 0.00 0.00 0.00 3.62
3087 3307 1.069973 TCATTTGCTTGCGACGTCAAG 60.070 47.619 17.16 20.50 44.63 3.02
3126 3363 4.516365 ACAACTCGAGGAAACGAATAGT 57.484 40.909 18.41 0.00 41.67 2.12
3127 3364 5.633830 ACAACTCGAGGAAACGAATAGTA 57.366 39.130 18.41 0.00 41.67 1.82
3128 3365 6.017400 ACAACTCGAGGAAACGAATAGTAA 57.983 37.500 18.41 0.00 41.67 2.24
3129 3366 6.449698 ACAACTCGAGGAAACGAATAGTAAA 58.550 36.000 18.41 0.00 41.67 2.01
3130 3367 6.925165 ACAACTCGAGGAAACGAATAGTAAAA 59.075 34.615 18.41 0.00 41.67 1.52
3131 3368 7.601508 ACAACTCGAGGAAACGAATAGTAAAAT 59.398 33.333 18.41 0.00 41.67 1.82
3132 3369 9.079833 CAACTCGAGGAAACGAATAGTAAAATA 57.920 33.333 18.41 0.00 41.67 1.40
3133 3370 9.643693 AACTCGAGGAAACGAATAGTAAAATAA 57.356 29.630 18.41 0.00 41.67 1.40
3134 3371 9.080915 ACTCGAGGAAACGAATAGTAAAATAAC 57.919 33.333 18.41 0.00 41.67 1.89
3135 3372 8.411318 TCGAGGAAACGAATAGTAAAATAACC 57.589 34.615 0.00 0.00 39.34 2.85
3136 3373 7.220683 TCGAGGAAACGAATAGTAAAATAACCG 59.779 37.037 0.00 0.00 39.34 4.44
3137 3374 7.515684 CGAGGAAACGAATAGTAAAATAACCGG 60.516 40.741 0.00 0.00 35.09 5.28
3138 3375 7.330262 AGGAAACGAATAGTAAAATAACCGGA 58.670 34.615 9.46 0.00 0.00 5.14
3139 3376 7.278646 AGGAAACGAATAGTAAAATAACCGGAC 59.721 37.037 9.46 0.00 0.00 4.79
3140 3377 6.908870 AACGAATAGTAAAATAACCGGACC 57.091 37.500 9.46 0.00 0.00 4.46
3141 3378 5.043248 ACGAATAGTAAAATAACCGGACCG 58.957 41.667 9.46 6.99 0.00 4.79
3154 3391 1.093496 CGGACCGGAGTAAAATGGGC 61.093 60.000 9.46 0.00 0.00 5.36
3181 3418 0.971386 ATGCACAGCAAAAAGGGAGG 59.029 50.000 0.00 0.00 43.62 4.30
3223 3460 5.330233 AGGGAGGTAACAAAATTAACCTGG 58.670 41.667 0.00 0.00 42.40 4.45
3347 3585 1.152383 GGAGGATTAACAGCGGCGAC 61.152 60.000 12.98 1.23 0.00 5.19
3390 3631 1.955451 ATGTTACGTTGGGAGGGGTA 58.045 50.000 0.00 0.00 0.00 3.69
3811 4054 5.999205 ATATCAATGTTTTGACAAGGGCA 57.001 34.783 0.00 0.00 44.36 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.219674 GTCTCGTTGTCTTTGCTCTGTG 59.780 50.000 0.00 0.00 0.00 3.66
16 17 0.738762 CACCACTCTGGCATGTCTCG 60.739 60.000 0.00 0.00 42.67 4.04
17 18 0.610174 TCACCACTCTGGCATGTCTC 59.390 55.000 0.00 0.00 42.67 3.36
283 285 4.240096 CAATCCAACCTGAAAGCAATGTC 58.760 43.478 0.00 0.00 0.00 3.06
330 332 2.516695 TGCTGGTGCACACAGTGG 60.517 61.111 26.07 11.01 45.31 4.00
402 409 3.127425 AGCGAGTAAACAAGGAAAGCT 57.873 42.857 0.00 0.00 0.00 3.74
504 511 1.393539 CACCGAAACAGCAAGATACCG 59.606 52.381 0.00 0.00 0.00 4.02
516 523 5.616204 CGGAAATTAACTTCTCCACCGAAAC 60.616 44.000 0.00 0.00 40.16 2.78
517 524 4.453136 CGGAAATTAACTTCTCCACCGAAA 59.547 41.667 0.00 0.00 40.16 3.46
562 569 0.679002 CTTGTCTCCCACATGGCCAG 60.679 60.000 13.05 6.08 33.90 4.85
664 677 5.540337 CCTAGAAGTCCTAAGCATATCACCA 59.460 44.000 0.00 0.00 0.00 4.17
665 678 5.775701 TCCTAGAAGTCCTAAGCATATCACC 59.224 44.000 0.00 0.00 0.00 4.02
693 706 5.055265 TGTATGAGTTGAGGAAAAACCCA 57.945 39.130 0.00 0.00 40.05 4.51
728 747 8.798975 ATGGGAAATAGGAGTTTCAGAGTATA 57.201 34.615 2.32 0.00 39.33 1.47
840 860 1.909302 CTCAAAAGTAGGAGCAGGGGA 59.091 52.381 0.00 0.00 0.00 4.81
880 901 6.662755 TGCCTTCTCTGTCCACATAATTATT 58.337 36.000 0.00 0.00 0.00 1.40
881 902 6.100279 TCTGCCTTCTCTGTCCACATAATTAT 59.900 38.462 0.00 0.00 0.00 1.28
952 973 1.073923 AGGTTGGAGGTGGATCACAAC 59.926 52.381 0.00 0.00 40.35 3.32
974 995 4.660168 AGCAAGTGATCACAGAGGAATTT 58.340 39.130 27.02 7.69 0.00 1.82
1020 1041 1.378124 GAAGAGGAGGAGACGGGTCG 61.378 65.000 0.00 0.00 34.09 4.79
1083 1104 2.520260 GCATCCACCTCCATGGCC 60.520 66.667 6.96 0.00 39.85 5.36
1196 1217 2.031163 GCGGGTGTTCTCAGCAGT 59.969 61.111 0.00 0.00 43.00 4.40
1252 1306 5.356291 AGAAACCAAGGATCAGATCAGAG 57.644 43.478 12.66 1.05 0.00 3.35
1276 1330 2.306219 TGAATGGACCCAATGAACCGTA 59.694 45.455 0.00 0.00 0.00 4.02
1278 1332 1.832883 TGAATGGACCCAATGAACCG 58.167 50.000 0.00 0.00 0.00 4.44
1283 1337 3.386726 AGCATGAATGAATGGACCCAATG 59.613 43.478 0.00 0.00 0.00 2.82
1328 1382 1.888512 ACAGTAGTAACCGCGGAGAAA 59.111 47.619 35.90 11.00 0.00 2.52
1334 1388 0.524862 ACAGGACAGTAGTAACCGCG 59.475 55.000 0.00 0.00 0.00 6.46
1335 1389 1.542915 TCACAGGACAGTAGTAACCGC 59.457 52.381 0.00 0.00 0.00 5.68
1390 1445 2.026356 TCAAGGGCAAGTATAGCAGCAA 60.026 45.455 0.00 0.00 0.00 3.91
1394 1449 4.778213 AGATTCAAGGGCAAGTATAGCA 57.222 40.909 0.00 0.00 0.00 3.49
1401 1456 4.158579 GGTTAGGAAAGATTCAAGGGCAAG 59.841 45.833 0.00 0.00 0.00 4.01
1437 1492 8.586273 CACAAAAACAGATGTAACAGAAAACAG 58.414 33.333 0.00 0.00 0.00 3.16
1451 1506 3.636300 TGCTAGCAACCACAAAAACAGAT 59.364 39.130 16.84 0.00 0.00 2.90
1470 1525 5.850614 ACAATGCTTCTGAATTTCTTTGCT 58.149 33.333 0.00 0.00 0.00 3.91
1476 1531 7.011295 TGACCAAAAACAATGCTTCTGAATTTC 59.989 33.333 0.00 0.00 0.00 2.17
1482 1537 5.051816 ACATGACCAAAAACAATGCTTCTG 58.948 37.500 0.00 0.00 0.00 3.02
1484 1539 5.291971 AGACATGACCAAAAACAATGCTTC 58.708 37.500 0.00 0.00 0.00 3.86
1485 1540 5.280654 AGACATGACCAAAAACAATGCTT 57.719 34.783 0.00 0.00 0.00 3.91
1486 1541 4.942761 AGACATGACCAAAAACAATGCT 57.057 36.364 0.00 0.00 0.00 3.79
1488 1543 6.924612 TGATCAAGACATGACCAAAAACAATG 59.075 34.615 0.00 0.00 41.93 2.82
1493 1551 6.491062 ACATCTGATCAAGACATGACCAAAAA 59.509 34.615 0.00 0.00 41.93 1.94
1542 1600 9.836864 ATTCCAAGAAAACTAAAAGCAAGAAAT 57.163 25.926 0.00 0.00 0.00 2.17
1566 1624 7.928706 CCCGACTTTAGATCATTCTCTTGTATT 59.071 37.037 0.00 0.00 33.17 1.89
1589 1647 2.351726 GCTACAATGACTAAAGCACCCG 59.648 50.000 0.00 0.00 33.38 5.28
1606 1664 5.147162 CGTGGAAACTTTTTCATGAGCTAC 58.853 41.667 0.00 0.00 35.16 3.58
1634 1692 4.284490 AGGTGCAGTCAACTTCTCAATCTA 59.716 41.667 0.00 0.00 36.74 1.98
1662 1721 5.405797 GGATCCTTCTGTCTTGATTTTTGC 58.594 41.667 3.84 0.00 0.00 3.68
1740 1810 6.781138 TCTGAGTAACATCAACAACAACAAC 58.219 36.000 0.00 0.00 0.00 3.32
1743 1813 7.246674 TCTTCTGAGTAACATCAACAACAAC 57.753 36.000 0.00 0.00 0.00 3.32
1744 1814 7.041167 CCATCTTCTGAGTAACATCAACAACAA 60.041 37.037 0.00 0.00 0.00 2.83
1745 1815 6.427853 CCATCTTCTGAGTAACATCAACAACA 59.572 38.462 0.00 0.00 0.00 3.33
1746 1816 6.428159 ACCATCTTCTGAGTAACATCAACAAC 59.572 38.462 0.00 0.00 0.00 3.32
1798 1868 1.400846 TCGACCTCGATGTAGCAGAAC 59.599 52.381 0.00 0.00 44.22 3.01
1969 2061 4.260170 CAGCAGGAAGAGTTTATGAGCTT 58.740 43.478 0.00 0.00 0.00 3.74
2022 2169 8.519799 TGGAGTAGCTTGGGATTTTATAAAAG 57.480 34.615 15.45 2.89 0.00 2.27
2023 2170 9.487442 AATGGAGTAGCTTGGGATTTTATAAAA 57.513 29.630 12.85 12.85 0.00 1.52
2030 2177 8.049721 GCTATATAATGGAGTAGCTTGGGATTT 58.950 37.037 0.00 0.00 37.25 2.17
2039 2186 7.595819 ATCAGGAGCTATATAATGGAGTAGC 57.404 40.000 0.00 0.00 39.77 3.58
2042 2189 8.901472 TTGTATCAGGAGCTATATAATGGAGT 57.099 34.615 0.00 0.00 0.00 3.85
2043 2190 9.761504 CATTGTATCAGGAGCTATATAATGGAG 57.238 37.037 12.49 0.00 35.34 3.86
2044 2191 9.492730 TCATTGTATCAGGAGCTATATAATGGA 57.507 33.333 17.03 7.32 37.57 3.41
2065 2212 1.398390 GCGGGTAGCTCTGTTTCATTG 59.602 52.381 0.00 0.00 44.04 2.82
2068 2215 1.080093 CGCGGGTAGCTCTGTTTCA 60.080 57.895 0.00 0.00 45.59 2.69
2069 2216 0.389426 TTCGCGGGTAGCTCTGTTTC 60.389 55.000 6.13 0.00 45.59 2.78
2071 2218 0.034337 TTTTCGCGGGTAGCTCTGTT 59.966 50.000 6.13 0.00 45.59 3.16
2073 2220 2.835605 TTTTTCGCGGGTAGCTCTG 58.164 52.632 6.13 0.00 45.59 3.35
2088 2235 7.973944 AGACAAAATTACTCTGTTTCGCTTTTT 59.026 29.630 0.00 0.00 0.00 1.94
2089 2236 7.432252 CAGACAAAATTACTCTGTTTCGCTTTT 59.568 33.333 0.00 0.00 0.00 2.27
2090 2237 6.912591 CAGACAAAATTACTCTGTTTCGCTTT 59.087 34.615 0.00 0.00 0.00 3.51
2091 2238 6.038271 ACAGACAAAATTACTCTGTTTCGCTT 59.962 34.615 6.72 0.00 41.53 4.68
2092 2239 5.527582 ACAGACAAAATTACTCTGTTTCGCT 59.472 36.000 6.72 0.00 41.53 4.93
2093 2240 5.748592 ACAGACAAAATTACTCTGTTTCGC 58.251 37.500 6.72 0.00 41.53 4.70
2094 2241 6.363473 GGACAGACAAAATTACTCTGTTTCG 58.637 40.000 11.78 0.00 43.75 3.46
2095 2242 6.486993 AGGGACAGACAAAATTACTCTGTTTC 59.513 38.462 11.78 8.65 43.75 2.78
2105 2252 3.903530 AAGGGAGGGACAGACAAAATT 57.096 42.857 0.00 0.00 0.00 1.82
2113 2260 3.433740 GCCACTATTAAAGGGAGGGACAG 60.434 52.174 0.00 0.00 0.00 3.51
2122 2269 5.105392 TCAAGCCATTTGCCACTATTAAAGG 60.105 40.000 0.00 0.00 42.71 3.11
2126 2273 5.655974 TCAATCAAGCCATTTGCCACTATTA 59.344 36.000 0.00 0.00 42.71 0.98
2129 2276 3.429492 TCAATCAAGCCATTTGCCACTA 58.571 40.909 0.00 0.00 42.71 2.74
2134 2283 6.509656 TCATAGAATCAATCAAGCCATTTGC 58.490 36.000 0.00 0.00 36.70 3.68
2159 2308 4.057432 CAATCACACCCGCATTTCTTTTT 58.943 39.130 0.00 0.00 0.00 1.94
2160 2309 3.320541 TCAATCACACCCGCATTTCTTTT 59.679 39.130 0.00 0.00 0.00 2.27
2161 2310 2.890311 TCAATCACACCCGCATTTCTTT 59.110 40.909 0.00 0.00 0.00 2.52
2162 2311 2.513753 TCAATCACACCCGCATTTCTT 58.486 42.857 0.00 0.00 0.00 2.52
2163 2312 2.198827 TCAATCACACCCGCATTTCT 57.801 45.000 0.00 0.00 0.00 2.52
2164 2313 3.508744 AATCAATCACACCCGCATTTC 57.491 42.857 0.00 0.00 0.00 2.17
2165 2314 3.959535 AAATCAATCACACCCGCATTT 57.040 38.095 0.00 0.00 0.00 2.32
2166 2315 3.959535 AAAATCAATCACACCCGCATT 57.040 38.095 0.00 0.00 0.00 3.56
2167 2316 3.959535 AAAAATCAATCACACCCGCAT 57.040 38.095 0.00 0.00 0.00 4.73
2168 2317 6.516739 TTATAAAAATCAATCACACCCGCA 57.483 33.333 0.00 0.00 0.00 5.69
2169 2318 8.964150 GTTATTATAAAAATCAATCACACCCGC 58.036 33.333 0.00 0.00 0.00 6.13
2188 2337 9.916397 GAAATCGTGATTTCGAACTGTTATTAT 57.084 29.630 16.91 0.00 44.68 1.28
2203 2352 5.005779 GCATCGTAACAGAGAAATCGTGATT 59.994 40.000 0.00 0.00 0.00 2.57
2214 2363 1.132453 TGAGTCGGCATCGTAACAGAG 59.868 52.381 0.00 0.00 37.69 3.35
2215 2364 1.135489 GTGAGTCGGCATCGTAACAGA 60.135 52.381 0.00 0.00 37.69 3.41
2216 2365 1.135373 AGTGAGTCGGCATCGTAACAG 60.135 52.381 0.00 0.00 37.69 3.16
2217 2366 0.885879 AGTGAGTCGGCATCGTAACA 59.114 50.000 0.00 0.00 37.69 2.41
2218 2367 2.838386 TAGTGAGTCGGCATCGTAAC 57.162 50.000 0.00 0.00 37.69 2.50
2219 2368 3.490249 CCAATAGTGAGTCGGCATCGTAA 60.490 47.826 0.00 0.00 37.69 3.18
2228 2377 5.929992 TCAAGTAAAACCCAATAGTGAGTCG 59.070 40.000 0.00 0.00 0.00 4.18
2231 2380 7.921786 TCATCAAGTAAAACCCAATAGTGAG 57.078 36.000 0.00 0.00 0.00 3.51
2238 2387 6.434028 CCTGAAGATCATCAAGTAAAACCCAA 59.566 38.462 1.81 0.00 0.00 4.12
2243 2393 7.370383 GCAAACCTGAAGATCATCAAGTAAAA 58.630 34.615 2.78 0.00 0.00 1.52
2280 2430 3.776969 ACATGTCCTTGCCTAGATTCTCA 59.223 43.478 0.00 0.00 0.00 3.27
2289 2439 1.376424 CGCAGACATGTCCTTGCCT 60.376 57.895 25.79 5.95 0.00 4.75
2292 2442 0.806868 AATGCGCAGACATGTCCTTG 59.193 50.000 22.21 15.59 0.00 3.61
2304 2454 1.540707 TGCTGAAATCTGAAATGCGCA 59.459 42.857 14.96 14.96 0.00 6.09
2319 2469 1.942776 TGAGAAGATGGGAGTGCTGA 58.057 50.000 0.00 0.00 0.00 4.26
2322 2472 1.280421 ACCTTGAGAAGATGGGAGTGC 59.720 52.381 0.00 0.00 0.00 4.40
2415 2572 3.008049 CCTCTGCCATGATCAGATGATGA 59.992 47.826 11.20 0.00 43.70 2.92
2554 2713 1.554160 CAGATGAACTGGGAGAGCAGT 59.446 52.381 0.00 0.00 42.39 4.40
2577 2736 3.959975 TTTGGTTGTCGCTGCCGC 61.960 61.111 0.00 0.00 0.00 6.53
2578 2737 2.051345 GTTTGGTTGTCGCTGCCG 60.051 61.111 0.00 0.00 0.00 5.69
2586 2745 1.018910 CTCGGTTTCGGTTTGGTTGT 58.981 50.000 0.00 0.00 36.95 3.32
2587 2746 0.317519 GCTCGGTTTCGGTTTGGTTG 60.318 55.000 0.00 0.00 36.95 3.77
2588 2747 1.449726 GGCTCGGTTTCGGTTTGGTT 61.450 55.000 0.00 0.00 36.95 3.67
2665 2824 0.836400 TTCCTCACCTCTGGACACCC 60.836 60.000 0.00 0.00 31.24 4.61
2769 2929 2.364842 TCTCCTCCAGCTCCAGCC 60.365 66.667 0.00 0.00 43.38 4.85
2812 2972 2.330440 TGGTTGATGTGATGATCCCG 57.670 50.000 0.00 0.00 0.00 5.14
2814 2974 6.461110 AAAGAATGGTTGATGTGATGATCC 57.539 37.500 0.00 0.00 0.00 3.36
2844 3004 9.890629 AGACATCAACACAATTAGAGCTTATAA 57.109 29.630 0.00 0.00 0.00 0.98
2864 3049 4.187694 CTGCTCAAGAAACCCTAGACATC 58.812 47.826 0.00 0.00 0.00 3.06
2865 3050 3.584848 ACTGCTCAAGAAACCCTAGACAT 59.415 43.478 0.00 0.00 0.00 3.06
2866 3051 2.972713 ACTGCTCAAGAAACCCTAGACA 59.027 45.455 0.00 0.00 0.00 3.41
2867 3052 3.686916 ACTGCTCAAGAAACCCTAGAC 57.313 47.619 0.00 0.00 0.00 2.59
2868 3053 4.706842 AAACTGCTCAAGAAACCCTAGA 57.293 40.909 0.00 0.00 0.00 2.43
2869 3054 6.568653 GCTTAAAACTGCTCAAGAAACCCTAG 60.569 42.308 0.00 0.00 0.00 3.02
2870 3055 5.240844 GCTTAAAACTGCTCAAGAAACCCTA 59.759 40.000 0.00 0.00 0.00 3.53
2871 3056 4.038042 GCTTAAAACTGCTCAAGAAACCCT 59.962 41.667 0.00 0.00 0.00 4.34
2872 3057 4.299155 GCTTAAAACTGCTCAAGAAACCC 58.701 43.478 0.00 0.00 0.00 4.11
2873 3058 4.038042 AGGCTTAAAACTGCTCAAGAAACC 59.962 41.667 0.00 0.00 0.00 3.27
2874 3059 4.978580 CAGGCTTAAAACTGCTCAAGAAAC 59.021 41.667 0.00 0.00 0.00 2.78
2875 3060 4.644685 ACAGGCTTAAAACTGCTCAAGAAA 59.355 37.500 6.09 0.00 38.25 2.52
2876 3061 4.036734 CACAGGCTTAAAACTGCTCAAGAA 59.963 41.667 6.09 0.00 38.25 2.52
2877 3062 3.565482 CACAGGCTTAAAACTGCTCAAGA 59.435 43.478 6.09 0.00 38.25 3.02
2878 3063 3.316308 ACACAGGCTTAAAACTGCTCAAG 59.684 43.478 6.09 0.00 38.25 3.02
2879 3064 3.287222 ACACAGGCTTAAAACTGCTCAA 58.713 40.909 6.09 0.00 38.25 3.02
2880 3065 2.930950 ACACAGGCTTAAAACTGCTCA 58.069 42.857 6.09 0.00 38.25 4.26
2881 3066 3.990318 AACACAGGCTTAAAACTGCTC 57.010 42.857 6.09 0.00 38.25 4.26
2882 3067 4.736126 AAAACACAGGCTTAAAACTGCT 57.264 36.364 6.09 0.00 38.25 4.24
2883 3068 5.405269 CCATAAAACACAGGCTTAAAACTGC 59.595 40.000 6.09 0.00 38.25 4.40
2884 3069 6.512297 ACCATAAAACACAGGCTTAAAACTG 58.488 36.000 4.90 4.90 40.48 3.16
2885 3070 6.239204 GGACCATAAAACACAGGCTTAAAACT 60.239 38.462 0.00 0.00 0.00 2.66
2886 3071 5.924254 GGACCATAAAACACAGGCTTAAAAC 59.076 40.000 0.00 0.00 0.00 2.43
2887 3072 5.598830 TGGACCATAAAACACAGGCTTAAAA 59.401 36.000 0.00 0.00 0.00 1.52
2888 3073 5.141182 TGGACCATAAAACACAGGCTTAAA 58.859 37.500 0.00 0.00 0.00 1.52
2889 3074 4.730966 TGGACCATAAAACACAGGCTTAA 58.269 39.130 0.00 0.00 0.00 1.85
2943 3128 9.787532 GTATGCAAATGTTGTTGTATTGATAGT 57.212 29.630 0.00 0.00 35.70 2.12
2946 3131 9.709495 AAAGTATGCAAATGTTGTTGTATTGAT 57.291 25.926 0.00 0.00 35.70 2.57
2947 3132 8.976471 CAAAGTATGCAAATGTTGTTGTATTGA 58.024 29.630 0.00 0.00 35.70 2.57
3056 3276 3.740321 GCAAGCAAATGAAAATCGGTTCA 59.260 39.130 0.00 0.63 41.59 3.18
3061 3281 2.025571 CGTCGCAAGCAAATGAAAATCG 59.974 45.455 0.00 0.00 37.18 3.34
3087 3307 9.872757 TCGAGTTGTATTTTGAACTGAAATTAC 57.127 29.630 0.00 0.00 32.47 1.89
3109 3329 8.538039 GGTTATTTTACTATTCGTTTCCTCGAG 58.462 37.037 5.13 5.13 40.86 4.04
3135 3372 1.093496 GCCCATTTTACTCCGGTCCG 61.093 60.000 3.60 3.60 0.00 4.79
3136 3373 1.093496 CGCCCATTTTACTCCGGTCC 61.093 60.000 0.00 0.00 0.00 4.46
3137 3374 0.108041 TCGCCCATTTTACTCCGGTC 60.108 55.000 0.00 0.00 0.00 4.79
3138 3375 0.325602 TTCGCCCATTTTACTCCGGT 59.674 50.000 0.00 0.00 0.00 5.28
3139 3376 1.014352 CTTCGCCCATTTTACTCCGG 58.986 55.000 0.00 0.00 0.00 5.14
3140 3377 0.377203 GCTTCGCCCATTTTACTCCG 59.623 55.000 0.00 0.00 0.00 4.63
3141 3378 1.459450 TGCTTCGCCCATTTTACTCC 58.541 50.000 0.00 0.00 0.00 3.85
3142 3379 4.787598 CATATGCTTCGCCCATTTTACTC 58.212 43.478 0.00 0.00 0.00 2.59
3154 3391 2.547913 TTTGCTGTGCATATGCTTCG 57.452 45.000 27.13 15.77 38.76 3.79
3164 3401 1.000171 CTTCCTCCCTTTTTGCTGTGC 60.000 52.381 0.00 0.00 0.00 4.57
3181 3418 2.031333 CCTTTTCTGCTCTGTGTGCTTC 60.031 50.000 0.00 0.00 0.00 3.86
3223 3460 8.690884 AGAGCATACACAGATATCATACCATAC 58.309 37.037 5.32 0.00 0.00 2.39
3390 3631 2.910688 ATTACGAGATGATGGGCGTT 57.089 45.000 0.00 0.00 38.09 4.84
3527 3768 6.212791 ACTTACTACCAAACTCATTCCTGCTA 59.787 38.462 0.00 0.00 0.00 3.49
3768 4011 3.870633 ATTTCTGACTACGTCCACTCC 57.129 47.619 0.00 0.00 0.00 3.85
3769 4012 7.872881 TGATATATTTCTGACTACGTCCACTC 58.127 38.462 0.00 0.00 0.00 3.51
3771 4014 8.916654 CATTGATATATTTCTGACTACGTCCAC 58.083 37.037 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.