Multiple sequence alignment - TraesCS2A01G150400

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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 TraesCS2A01G150400 chr2A 100.000 3696 0 0 1 3696 98137799 98134104 0.000000e+00 6826.0
1 TraesCS2A01G150400 chr2A 92.825 223 16 0 1842 2064 475252 475030 1.280000e-84 324.0
2 TraesCS2A01G150400 chr2A 91.703 229 17 2 1837 2064 133765087 133765314 2.140000e-82 316.0
3 TraesCS2A01G150400 chr2B 92.608 1867 85 20 1 1844 150711421 150709585 0.000000e+00 2634.0
4 TraesCS2A01G150400 chr2B 92.620 664 22 10 2070 2728 150709587 150708946 0.000000e+00 929.0
5 TraesCS2A01G150400 chr2B 97.161 317 8 1 2885 3200 790409928 790409612 5.430000e-148 534.0
6 TraesCS2A01G150400 chr2B 91.156 147 4 3 2738 2884 150708898 150708761 1.350000e-44 191.0
7 TraesCS2A01G150400 chr2D 94.369 1101 44 13 1 1086 99133354 99132257 0.000000e+00 1674.0
8 TraesCS2A01G150400 chr2D 91.404 826 40 11 2070 2884 99131162 99130357 0.000000e+00 1103.0
9 TraesCS2A01G150400 chr2D 98.083 313 5 1 2885 3196 59846763 59846451 9.030000e-151 544.0
10 TraesCS2A01G150400 chr2D 91.159 328 23 5 1143 1466 99131867 99131542 1.220000e-119 440.0
11 TraesCS2A01G150400 chr2D 85.308 422 35 10 1423 1844 99131554 99131160 9.550000e-111 411.0
12 TraesCS2A01G150400 chr2D 90.041 241 14 6 3197 3432 196351128 196351363 1.670000e-78 303.0
13 TraesCS2A01G150400 chr3D 95.298 638 16 11 38 675 284205043 284204420 0.000000e+00 1000.0
14 TraesCS2A01G150400 chr3D 98.722 313 3 1 2885 3196 103776867 103776555 4.170000e-154 555.0
15 TraesCS2A01G150400 chr3D 92.478 226 16 1 1839 2064 386614001 386614225 4.600000e-84 322.0
16 TraesCS2A01G150400 chr6A 98.746 558 5 2 2640 3196 24832862 24833418 0.000000e+00 990.0
17 TraesCS2A01G150400 chr6A 98.089 314 4 2 2885 3196 50257637 50257950 2.510000e-151 545.0
18 TraesCS2A01G150400 chr6A 91.703 229 17 2 1837 2064 522884517 522884290 2.140000e-82 316.0
19 TraesCS2A01G150400 chr6A 91.703 229 18 1 1836 2064 591650328 591650101 2.140000e-82 316.0
20 TraesCS2A01G150400 chr6A 98.837 172 2 0 897 1068 24832422 24832593 1.290000e-79 307.0
21 TraesCS2A01G150400 chr6A 99.194 124 1 0 2430 2553 24832741 24832864 1.340000e-54 224.0
22 TraesCS2A01G150400 chr6A 100.000 97 0 0 1292 1388 24832590 24832686 2.930000e-41 180.0
23 TraesCS2A01G150400 chr6A 100.000 37 0 0 2167 2203 24832681 24832717 6.620000e-08 69.4
24 TraesCS2A01G150400 chr6A 100.000 28 0 0 2326 2353 24832715 24832742 7.000000e-03 52.8
25 TraesCS2A01G150400 chr7B 93.417 638 28 10 38 675 29704457 29705080 0.000000e+00 933.0
26 TraesCS2A01G150400 chr5A 98.603 501 7 0 3196 3696 671174981 671174481 0.000000e+00 887.0
27 TraesCS2A01G150400 chr4A 98.403 501 5 3 3197 3696 278349857 278350355 0.000000e+00 878.0
28 TraesCS2A01G150400 chr4A 95.800 500 18 3 3197 3696 257019849 257020345 0.000000e+00 804.0
29 TraesCS2A01G150400 chr4A 92.277 505 36 3 3193 3695 321128212 321127709 0.000000e+00 713.0
30 TraesCS2A01G150400 chr3B 93.986 582 21 11 94 675 245914580 245914013 0.000000e+00 869.0
31 TraesCS2A01G150400 chr3B 92.444 225 16 1 1838 2062 154190318 154190541 1.660000e-83 320.0
32 TraesCS2A01G150400 chr1A 97.000 500 14 1 3197 3696 29790080 29790578 0.000000e+00 839.0
33 TraesCS2A01G150400 chr1A 91.703 229 17 2 1837 2064 155490609 155490836 2.140000e-82 316.0
34 TraesCS2A01G150400 chr7D 97.452 314 6 2 2885 3197 9414361 9414673 5.430000e-148 534.0
35 TraesCS2A01G150400 chr7D 90.083 242 13 7 3196 3432 554145805 554146040 1.670000e-78 303.0
36 TraesCS2A01G150400 chr5B 97.161 317 8 1 2885 3200 11471930 11471614 5.430000e-148 534.0
37 TraesCS2A01G150400 chr5B 97.452 314 7 1 2885 3197 520116951 520117264 5.430000e-148 534.0
38 TraesCS2A01G150400 chr3A 97.452 314 7 1 2885 3197 587595681 587595994 5.430000e-148 534.0
39 TraesCS2A01G150400 chr6B 92.760 221 16 0 1844 2064 560197118 560196898 1.660000e-83 320.0
40 TraesCS2A01G150400 chr7A 92.035 226 16 2 1840 2064 307960201 307959977 2.140000e-82 316.0
41 TraesCS2A01G150400 chr4D 90.041 241 13 8 3197 3428 508665154 508665392 6.000000e-78 302.0
42 TraesCS2A01G150400 chr5D 91.403 221 10 5 3197 3411 395736442 395736659 1.000000e-75 294.0
43 TraesCS2A01G150400 chr5D 96.970 33 1 0 2852 2884 284110142 284110110 5.160000e-04 56.5


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 TraesCS2A01G150400 chr2A 98134104 98137799 3695 True 6826.000000 6826 100.000000 1 3696 1 chr2A.!!$R2 3695
1 TraesCS2A01G150400 chr2B 150708761 150711421 2660 True 1251.333333 2634 92.128000 1 2884 3 chr2B.!!$R2 2883
2 TraesCS2A01G150400 chr2D 99130357 99133354 2997 True 907.000000 1674 90.560000 1 2884 4 chr2D.!!$R2 2883
3 TraesCS2A01G150400 chr3D 284204420 284205043 623 True 1000.000000 1000 95.298000 38 675 1 chr3D.!!$R2 637
4 TraesCS2A01G150400 chr6A 24832422 24833418 996 False 303.866667 990 99.462833 897 3196 6 chr6A.!!$F2 2299
5 TraesCS2A01G150400 chr7B 29704457 29705080 623 False 933.000000 933 93.417000 38 675 1 chr7B.!!$F1 637
6 TraesCS2A01G150400 chr5A 671174481 671174981 500 True 887.000000 887 98.603000 3196 3696 1 chr5A.!!$R1 500
7 TraesCS2A01G150400 chr4A 321127709 321128212 503 True 713.000000 713 92.277000 3193 3695 1 chr4A.!!$R1 502
8 TraesCS2A01G150400 chr3B 245914013 245914580 567 True 869.000000 869 93.986000 94 675 1 chr3B.!!$R1 581

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
888 911 1.303074 CTTGGCTGCTCCTGCTTCA 60.303 57.895 0.0 0.00 40.48 3.02 F
1071 1113 0.754217 CGTCCCCTTCCGAGGTATCA 60.754 60.000 0.0 0.00 41.85 2.15 F
1192 1568 0.802607 GTCCGGCTAGTTCTTGCTCG 60.803 60.000 0.0 7.75 0.00 5.03 F
2068 2477 1.074889 TCCTACAAACCAAAGGAGGCC 59.925 52.381 0.0 0.00 34.46 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2065 2474 0.243636 CGGAAAACCACATTCAGGCC 59.756 55.000 0.0 0.0 0.00 5.19 R
2069 2478 0.309302 CGTGCGGAAAACCACATTCA 59.691 50.000 0.0 0.0 32.37 2.57 R
2070 2479 0.589223 TCGTGCGGAAAACCACATTC 59.411 50.000 0.0 0.0 32.37 2.67 R
3400 3864 1.377333 CGGACAAAGGAGAAGGCCC 60.377 63.158 0.0 0.0 0.00 5.80 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
376 377 4.415332 GCGGTGCGGACGAAGAGA 62.415 66.667 0.00 0.00 0.00 3.10
821 836 2.685017 AGGCTGGATCTGACGGCA 60.685 61.111 0.00 0.00 41.96 5.69
871 887 1.449601 CAAATACGTGGAGCGGCCT 60.450 57.895 0.00 0.00 46.52 5.19
888 911 1.303074 CTTGGCTGCTCCTGCTTCA 60.303 57.895 0.00 0.00 40.48 3.02
976 1011 1.817941 CGATTTGTCCGGCGGGATT 60.818 57.895 27.98 8.90 46.14 3.01
1070 1112 1.461911 CCGTCCCCTTCCGAGGTATC 61.462 65.000 0.00 0.00 41.85 2.24
1071 1113 0.754217 CGTCCCCTTCCGAGGTATCA 60.754 60.000 0.00 0.00 41.85 2.15
1072 1114 1.718280 GTCCCCTTCCGAGGTATCAT 58.282 55.000 0.00 0.00 41.85 2.45
1112 1154 3.787001 CGACCCCTTCCTCCCTGC 61.787 72.222 0.00 0.00 0.00 4.85
1138 1180 1.679898 CTCCCCCTGCGAATATCCC 59.320 63.158 0.00 0.00 0.00 3.85
1141 1183 1.301716 CCCCTGCGAATATCCCACG 60.302 63.158 0.00 0.00 0.00 4.94
1146 1522 2.732016 CGAATATCCCACGGCGGA 59.268 61.111 13.24 0.00 36.56 5.54
1166 1542 3.513515 GGATCATCTCAGGATGGTAGTCC 59.486 52.174 6.22 5.85 46.70 3.85
1192 1568 0.802607 GTCCGGCTAGTTCTTGCTCG 60.803 60.000 0.00 7.75 0.00 5.03
1207 1583 3.171705 CTCGGACGAGCTAATCTGC 57.828 57.895 8.93 0.00 35.31 4.26
1212 1588 1.338337 GGACGAGCTAATCTGCTAGCA 59.662 52.381 18.22 18.22 45.69 3.49
1213 1589 2.606795 GGACGAGCTAATCTGCTAGCAG 60.607 54.545 34.48 34.48 45.69 4.24
1231 1607 2.680577 CAGTTTCTGCTGGATTTTGGC 58.319 47.619 0.00 0.00 33.11 4.52
1232 1608 2.298163 CAGTTTCTGCTGGATTTTGGCT 59.702 45.455 0.00 0.00 33.11 4.75
1239 1615 2.625790 TGCTGGATTTTGGCTAAACGTT 59.374 40.909 0.00 0.00 0.00 3.99
1244 1620 3.243602 GGATTTTGGCTAAACGTTGGTGT 60.244 43.478 0.00 0.00 0.00 4.16
1253 1629 1.892209 AACGTTGGTGTCAATCTCCC 58.108 50.000 0.00 0.00 35.10 4.30
1394 1770 5.009610 GTCAAAATTCAAGCAGGTCAGGTAA 59.990 40.000 0.00 0.00 0.00 2.85
1395 1771 5.774690 TCAAAATTCAAGCAGGTCAGGTAAT 59.225 36.000 0.00 0.00 0.00 1.89
1401 1780 1.478510 AGCAGGTCAGGTAATCAGTCG 59.521 52.381 0.00 0.00 0.00 4.18
1410 1789 2.233922 AGGTAATCAGTCGTGGTGAAGG 59.766 50.000 0.00 0.00 0.00 3.46
1493 1902 6.851222 CATGAAAGGCAATTAGACGAGTAT 57.149 37.500 0.00 0.00 0.00 2.12
1541 1950 7.801716 TTAAGCAACCTTTATACCATGCTAG 57.198 36.000 0.00 0.00 42.82 3.42
1563 1972 8.347771 GCTAGTTGCTCATTCATAATTGAATCA 58.652 33.333 0.00 0.00 43.09 2.57
1592 2001 8.913487 ATGTCAAAATGAGCATAGATGTGATA 57.087 30.769 0.00 0.00 0.00 2.15
1654 2063 4.935352 TGGATTTACCATGCTAATTGCC 57.065 40.909 0.00 0.00 44.64 4.52
1728 2137 3.686916 AGTTCCTGAGCTTTAGGTGAC 57.313 47.619 15.25 14.42 36.67 3.67
1749 2158 5.028549 ACCTGTTCAGCTTATGGACATAG 57.971 43.478 0.00 0.00 46.64 2.23
1750 2159 4.471386 ACCTGTTCAGCTTATGGACATAGT 59.529 41.667 0.00 0.00 46.64 2.12
1751 2160 5.661312 ACCTGTTCAGCTTATGGACATAGTA 59.339 40.000 0.00 0.00 46.64 1.82
1766 2175 6.183361 TGGACATAGTATATTTGGCATTCCCA 60.183 38.462 0.00 0.00 43.51 4.37
1780 2189 1.830279 TTCCCAAGCATGCAAGAGAG 58.170 50.000 21.98 3.24 0.00 3.20
1784 2193 2.094854 CCCAAGCATGCAAGAGAGTTTC 60.095 50.000 21.98 0.00 0.00 2.78
1814 2223 6.494893 TTTGAATGTGCTAACACTCATACC 57.505 37.500 0.00 0.00 41.80 2.73
1828 2237 4.154918 CACTCATACCTTTTCCAGTTGAGC 59.845 45.833 0.00 0.00 34.00 4.26
1844 2253 8.397906 TCCAGTTGAGCGAATATTAAATTTGAG 58.602 33.333 0.00 0.00 0.00 3.02
1845 2254 7.645340 CCAGTTGAGCGAATATTAAATTTGAGG 59.355 37.037 0.00 0.00 0.00 3.86
1846 2255 7.166473 CAGTTGAGCGAATATTAAATTTGAGGC 59.834 37.037 0.00 0.00 0.00 4.70
1847 2256 6.691754 TGAGCGAATATTAAATTTGAGGCA 57.308 33.333 0.00 0.00 0.00 4.75
1848 2257 7.275888 TGAGCGAATATTAAATTTGAGGCAT 57.724 32.000 0.00 0.00 0.00 4.40
1849 2258 7.715657 TGAGCGAATATTAAATTTGAGGCATT 58.284 30.769 0.00 0.00 0.00 3.56
1850 2259 7.862372 TGAGCGAATATTAAATTTGAGGCATTC 59.138 33.333 0.00 3.44 0.00 2.67
1851 2260 7.945134 AGCGAATATTAAATTTGAGGCATTCT 58.055 30.769 0.00 0.00 0.00 2.40
1852 2261 8.416329 AGCGAATATTAAATTTGAGGCATTCTT 58.584 29.630 0.00 0.00 0.00 2.52
1853 2262 9.034544 GCGAATATTAAATTTGAGGCATTCTTT 57.965 29.630 0.00 0.00 0.00 2.52
1858 2267 7.961325 TTAAATTTGAGGCATTCTTTGGTTC 57.039 32.000 0.00 0.00 0.00 3.62
1859 2268 5.549742 AATTTGAGGCATTCTTTGGTTCA 57.450 34.783 0.00 0.00 0.00 3.18
1860 2269 5.750352 ATTTGAGGCATTCTTTGGTTCAT 57.250 34.783 0.00 0.00 0.00 2.57
1861 2270 6.855763 ATTTGAGGCATTCTTTGGTTCATA 57.144 33.333 0.00 0.00 0.00 2.15
1862 2271 5.902613 TTGAGGCATTCTTTGGTTCATAG 57.097 39.130 0.00 0.00 0.00 2.23
1863 2272 4.272489 TGAGGCATTCTTTGGTTCATAGG 58.728 43.478 0.00 0.00 0.00 2.57
1864 2273 4.018506 TGAGGCATTCTTTGGTTCATAGGA 60.019 41.667 0.00 0.00 0.00 2.94
1865 2274 5.134725 AGGCATTCTTTGGTTCATAGGAT 57.865 39.130 0.00 0.00 0.00 3.24
1866 2275 6.126507 TGAGGCATTCTTTGGTTCATAGGATA 60.127 38.462 0.00 0.00 0.00 2.59
1867 2276 6.302269 AGGCATTCTTTGGTTCATAGGATAG 58.698 40.000 0.00 0.00 0.00 2.08
1868 2277 5.474876 GGCATTCTTTGGTTCATAGGATAGG 59.525 44.000 0.00 0.00 0.00 2.57
1869 2278 6.299141 GCATTCTTTGGTTCATAGGATAGGA 58.701 40.000 0.00 0.00 0.00 2.94
1870 2279 6.772716 GCATTCTTTGGTTCATAGGATAGGAA 59.227 38.462 0.00 0.00 39.27 3.36
1871 2280 7.449704 GCATTCTTTGGTTCATAGGATAGGAAT 59.550 37.037 0.00 0.00 43.72 3.01
1875 2284 9.392506 TCTTTGGTTCATAGGATAGGAATATCA 57.607 33.333 0.00 0.00 43.72 2.15
1879 2288 9.439461 TGGTTCATAGGATAGGAATATCATAGG 57.561 37.037 0.00 0.00 43.72 2.57
1880 2289 9.661954 GGTTCATAGGATAGGAATATCATAGGA 57.338 37.037 1.54 1.54 43.72 2.94
1882 2291 8.948401 TCATAGGATAGGAATATCATAGGAGC 57.052 38.462 1.54 0.00 31.49 4.70
1883 2292 8.514504 TCATAGGATAGGAATATCATAGGAGCA 58.485 37.037 1.54 0.00 31.49 4.26
1884 2293 9.152327 CATAGGATAGGAATATCATAGGAGCAA 57.848 37.037 0.00 0.00 29.41 3.91
1885 2294 7.673641 AGGATAGGAATATCATAGGAGCAAG 57.326 40.000 0.00 0.00 0.00 4.01
1886 2295 7.425834 AGGATAGGAATATCATAGGAGCAAGA 58.574 38.462 0.00 0.00 0.00 3.02
1887 2296 7.903481 AGGATAGGAATATCATAGGAGCAAGAA 59.097 37.037 0.00 0.00 0.00 2.52
1888 2297 8.543774 GGATAGGAATATCATAGGAGCAAGAAA 58.456 37.037 0.00 0.00 0.00 2.52
1889 2298 9.950496 GATAGGAATATCATAGGAGCAAGAAAA 57.050 33.333 0.00 0.00 0.00 2.29
1891 2300 8.860780 AGGAATATCATAGGAGCAAGAAAATC 57.139 34.615 0.00 0.00 0.00 2.17
1892 2301 8.443176 AGGAATATCATAGGAGCAAGAAAATCA 58.557 33.333 0.00 0.00 0.00 2.57
1893 2302 9.240734 GGAATATCATAGGAGCAAGAAAATCAT 57.759 33.333 0.00 0.00 0.00 2.45
1896 2305 9.902684 ATATCATAGGAGCAAGAAAATCATAGG 57.097 33.333 0.00 0.00 0.00 2.57
1897 2306 7.379059 TCATAGGAGCAAGAAAATCATAGGA 57.621 36.000 0.00 0.00 0.00 2.94
1898 2307 7.805163 TCATAGGAGCAAGAAAATCATAGGAA 58.195 34.615 0.00 0.00 0.00 3.36
1899 2308 7.935755 TCATAGGAGCAAGAAAATCATAGGAAG 59.064 37.037 0.00 0.00 0.00 3.46
1900 2309 6.072199 AGGAGCAAGAAAATCATAGGAAGT 57.928 37.500 0.00 0.00 0.00 3.01
1901 2310 5.884792 AGGAGCAAGAAAATCATAGGAAGTG 59.115 40.000 0.00 0.00 0.00 3.16
1902 2311 5.882557 GGAGCAAGAAAATCATAGGAAGTGA 59.117 40.000 0.00 0.00 0.00 3.41
1903 2312 6.038050 GGAGCAAGAAAATCATAGGAAGTGAG 59.962 42.308 0.00 0.00 0.00 3.51
1904 2313 6.715280 AGCAAGAAAATCATAGGAAGTGAGA 58.285 36.000 0.00 0.00 0.00 3.27
1905 2314 7.344913 AGCAAGAAAATCATAGGAAGTGAGAT 58.655 34.615 0.00 0.00 0.00 2.75
1906 2315 7.282675 AGCAAGAAAATCATAGGAAGTGAGATG 59.717 37.037 0.00 0.00 0.00 2.90
1907 2316 7.281774 GCAAGAAAATCATAGGAAGTGAGATGA 59.718 37.037 0.00 0.00 33.09 2.92
1908 2317 8.610896 CAAGAAAATCATAGGAAGTGAGATGAC 58.389 37.037 0.00 0.00 31.41 3.06
1909 2318 7.855375 AGAAAATCATAGGAAGTGAGATGACA 58.145 34.615 0.00 0.00 31.41 3.58
1910 2319 8.492782 AGAAAATCATAGGAAGTGAGATGACAT 58.507 33.333 0.00 0.00 31.41 3.06
1911 2320 8.447924 AAAATCATAGGAAGTGAGATGACATG 57.552 34.615 0.00 0.00 31.41 3.21
1912 2321 4.953667 TCATAGGAAGTGAGATGACATGC 58.046 43.478 0.00 0.00 0.00 4.06
1913 2322 4.406649 TCATAGGAAGTGAGATGACATGCA 59.593 41.667 0.00 0.00 0.00 3.96
1914 2323 3.928005 AGGAAGTGAGATGACATGCAT 57.072 42.857 0.00 0.00 40.77 3.96
1929 2338 6.470278 TGACATGCATCTCAATTCCTATAGG 58.530 40.000 13.07 13.07 0.00 2.57
1930 2339 5.813383 ACATGCATCTCAATTCCTATAGGG 58.187 41.667 18.97 2.67 35.41 3.53
1931 2340 5.549228 ACATGCATCTCAATTCCTATAGGGA 59.451 40.000 18.97 11.08 43.41 4.20
1945 2354 7.937700 TCCTATAGGGAAAGAGATGTCATTT 57.062 36.000 18.97 0.00 41.91 2.32
1946 2355 7.739825 TCCTATAGGGAAAGAGATGTCATTTG 58.260 38.462 18.97 0.00 41.91 2.32
1947 2356 7.568738 TCCTATAGGGAAAGAGATGTCATTTGA 59.431 37.037 18.97 0.00 41.91 2.69
1948 2357 8.381636 CCTATAGGGAAAGAGATGTCATTTGAT 58.618 37.037 11.33 0.00 37.23 2.57
1949 2358 9.217278 CTATAGGGAAAGAGATGTCATTTGATG 57.783 37.037 0.00 0.00 0.00 3.07
1950 2359 4.643784 AGGGAAAGAGATGTCATTTGATGC 59.356 41.667 0.00 0.00 0.00 3.91
1951 2360 4.400251 GGGAAAGAGATGTCATTTGATGCA 59.600 41.667 0.00 0.00 0.00 3.96
1952 2361 5.068723 GGGAAAGAGATGTCATTTGATGCAT 59.931 40.000 0.00 0.00 32.43 3.96
1953 2362 6.263842 GGGAAAGAGATGTCATTTGATGCATA 59.736 38.462 0.00 0.00 30.80 3.14
1954 2363 7.361127 GGAAAGAGATGTCATTTGATGCATAG 58.639 38.462 0.00 0.00 30.80 2.23
1955 2364 6.879276 AAGAGATGTCATTTGATGCATAGG 57.121 37.500 0.00 0.00 30.80 2.57
1956 2365 6.183810 AGAGATGTCATTTGATGCATAGGA 57.816 37.500 0.00 0.00 30.80 2.94
1957 2366 6.780901 AGAGATGTCATTTGATGCATAGGAT 58.219 36.000 0.00 0.00 30.80 3.24
1958 2367 7.914859 AGAGATGTCATTTGATGCATAGGATA 58.085 34.615 0.00 0.00 30.80 2.59
1959 2368 8.041919 AGAGATGTCATTTGATGCATAGGATAG 58.958 37.037 0.00 0.00 30.80 2.08
1960 2369 7.110810 AGATGTCATTTGATGCATAGGATAGG 58.889 38.462 0.00 0.00 30.80 2.57
1961 2370 6.438186 TGTCATTTGATGCATAGGATAGGA 57.562 37.500 0.00 0.00 0.00 2.94
1962 2371 6.840527 TGTCATTTGATGCATAGGATAGGAA 58.159 36.000 0.00 0.00 0.00 3.36
1963 2372 7.464273 TGTCATTTGATGCATAGGATAGGAAT 58.536 34.615 0.00 0.00 0.00 3.01
1964 2373 7.946219 TGTCATTTGATGCATAGGATAGGAATT 59.054 33.333 0.00 0.00 0.00 2.17
1965 2374 8.800332 GTCATTTGATGCATAGGATAGGAATTT 58.200 33.333 0.00 0.00 0.00 1.82
1966 2375 9.370930 TCATTTGATGCATAGGATAGGAATTTT 57.629 29.630 0.00 0.00 0.00 1.82
1967 2376 9.991906 CATTTGATGCATAGGATAGGAATTTTT 57.008 29.630 0.00 0.00 0.00 1.94
1988 2397 9.700831 ATTTTTCCATTAAGTCTAGGCTAATGT 57.299 29.630 17.62 0.21 0.00 2.71
1989 2398 8.732746 TTTTCCATTAAGTCTAGGCTAATGTC 57.267 34.615 17.62 0.00 0.00 3.06
1990 2399 7.676683 TTCCATTAAGTCTAGGCTAATGTCT 57.323 36.000 17.62 0.00 0.00 3.41
1991 2400 7.676683 TCCATTAAGTCTAGGCTAATGTCTT 57.323 36.000 17.62 0.00 0.00 3.01
1992 2401 8.090788 TCCATTAAGTCTAGGCTAATGTCTTT 57.909 34.615 17.62 0.00 0.00 2.52
1993 2402 8.548877 TCCATTAAGTCTAGGCTAATGTCTTTT 58.451 33.333 17.62 0.00 0.00 2.27
1994 2403 9.178758 CCATTAAGTCTAGGCTAATGTCTTTTT 57.821 33.333 17.62 0.00 0.00 1.94
2016 2425 8.436046 TTTTTCCTTTGAAATGTGAAGGATTG 57.564 30.769 5.03 0.00 45.99 2.67
2017 2426 6.975196 TTCCTTTGAAATGTGAAGGATTGA 57.025 33.333 5.03 0.00 45.99 2.57
2018 2427 7.543359 TTCCTTTGAAATGTGAAGGATTGAT 57.457 32.000 5.03 0.00 45.99 2.57
2019 2428 7.543359 TCCTTTGAAATGTGAAGGATTGATT 57.457 32.000 0.15 0.00 42.90 2.57
2020 2429 7.605449 TCCTTTGAAATGTGAAGGATTGATTC 58.395 34.615 0.15 0.00 42.90 2.52
2021 2430 6.815142 CCTTTGAAATGTGAAGGATTGATTCC 59.185 38.462 0.00 0.00 45.85 3.01
2063 2472 5.965922 GAATCCATTCCTACAAACCAAAGG 58.034 41.667 0.00 0.00 0.00 3.11
2064 2473 4.733077 TCCATTCCTACAAACCAAAGGA 57.267 40.909 0.00 0.00 37.64 3.36
2065 2474 4.662278 TCCATTCCTACAAACCAAAGGAG 58.338 43.478 0.00 0.00 40.43 3.69
2066 2475 3.763897 CCATTCCTACAAACCAAAGGAGG 59.236 47.826 0.00 0.00 40.43 4.30
2067 2476 2.579410 TCCTACAAACCAAAGGAGGC 57.421 50.000 0.00 0.00 34.46 4.70
2068 2477 1.074889 TCCTACAAACCAAAGGAGGCC 59.925 52.381 0.00 0.00 34.46 5.19
2069 2478 1.075536 CCTACAAACCAAAGGAGGCCT 59.924 52.381 3.86 3.86 33.87 5.19
2070 2479 2.162681 CTACAAACCAAAGGAGGCCTG 58.837 52.381 12.00 0.00 32.13 4.85
2071 2480 0.555769 ACAAACCAAAGGAGGCCTGA 59.444 50.000 12.00 0.00 32.13 3.86
2106 2515 4.672542 CGCACGAGGATCACAATCAATTTT 60.673 41.667 0.00 0.00 33.21 1.82
2110 2519 5.032863 CGAGGATCACAATCAATTTTCTGC 58.967 41.667 0.00 0.00 33.21 4.26
2126 2535 9.807386 CAATTTTCTGCATTTGATTTCTTTCTC 57.193 29.630 0.00 0.00 0.00 2.87
2170 2579 4.943142 AATTGTGTTTGTGTTTTGCAGG 57.057 36.364 0.00 0.00 0.00 4.85
2247 2660 6.591448 CCAGCCTTTGTTTTTCCTTTATCATC 59.409 38.462 0.00 0.00 0.00 2.92
2263 2676 0.729116 CATCTGGCACCTAAGTTGCG 59.271 55.000 0.00 0.00 0.00 4.85
2264 2677 0.392998 ATCTGGCACCTAAGTTGCGG 60.393 55.000 0.00 0.00 0.00 5.69
2265 2678 1.302511 CTGGCACCTAAGTTGCGGT 60.303 57.895 0.00 0.00 0.00 5.68
2266 2679 0.889186 CTGGCACCTAAGTTGCGGTT 60.889 55.000 0.00 0.00 0.00 4.44
2267 2680 0.466555 TGGCACCTAAGTTGCGGTTT 60.467 50.000 0.00 0.00 0.00 3.27
2268 2681 1.202782 TGGCACCTAAGTTGCGGTTTA 60.203 47.619 0.00 0.00 0.00 2.01
2269 2682 2.089201 GGCACCTAAGTTGCGGTTTAT 58.911 47.619 0.00 0.00 0.00 1.40
2270 2683 2.159435 GGCACCTAAGTTGCGGTTTATG 60.159 50.000 0.00 0.00 0.00 1.90
2271 2684 2.159435 GCACCTAAGTTGCGGTTTATGG 60.159 50.000 0.00 0.00 0.00 2.74
2272 2685 3.078837 CACCTAAGTTGCGGTTTATGGT 58.921 45.455 0.00 0.00 0.00 3.55
2273 2686 4.255301 CACCTAAGTTGCGGTTTATGGTA 58.745 43.478 0.00 0.00 0.00 3.25
2274 2687 4.879545 CACCTAAGTTGCGGTTTATGGTAT 59.120 41.667 0.00 0.00 0.00 2.73
2275 2688 5.355910 CACCTAAGTTGCGGTTTATGGTATT 59.644 40.000 0.00 0.00 0.00 1.89
2276 2689 5.355910 ACCTAAGTTGCGGTTTATGGTATTG 59.644 40.000 0.00 0.00 0.00 1.90
2277 2690 4.712122 AAGTTGCGGTTTATGGTATTGG 57.288 40.909 0.00 0.00 0.00 3.16
2278 2691 3.692690 AGTTGCGGTTTATGGTATTGGT 58.307 40.909 0.00 0.00 0.00 3.67
2279 2692 4.083565 AGTTGCGGTTTATGGTATTGGTT 58.916 39.130 0.00 0.00 0.00 3.67
2284 2697 5.886474 TGCGGTTTATGGTATTGGTTATTGA 59.114 36.000 0.00 0.00 0.00 2.57
2311 2726 5.073554 TGACTGATGGGATTATGGTATGCTT 59.926 40.000 0.00 0.00 0.00 3.91
3154 3616 6.241385 GCAATATGCGGACGATACTATTTTC 58.759 40.000 0.00 0.00 31.71 2.29
3531 3995 0.817654 ACGCTCGATCTCCATCAACA 59.182 50.000 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
195 196 3.652539 TTCGACGGAATGCGGGACC 62.653 63.158 0.00 0.00 0.00 4.46
821 836 2.046507 CTCGCTGGCAGCTTCCTT 60.047 61.111 34.17 0.00 39.60 3.36
851 867 2.106683 GCCGCTCCACGTATTTGCT 61.107 57.895 0.00 0.00 41.42 3.91
871 887 0.251474 AATGAAGCAGGAGCAGCCAA 60.251 50.000 0.00 0.00 45.49 4.52
976 1011 0.321671 CTCCCTTTCTTCCTCGTGCA 59.678 55.000 0.00 0.00 0.00 4.57
1070 1112 1.901591 CGGAATTGGGGAGATGGATG 58.098 55.000 0.00 0.00 0.00 3.51
1071 1113 0.111253 GCGGAATTGGGGAGATGGAT 59.889 55.000 0.00 0.00 0.00 3.41
1072 1114 1.531748 GCGGAATTGGGGAGATGGA 59.468 57.895 0.00 0.00 0.00 3.41
1096 1138 3.412408 GGCAGGGAGGAAGGGGTC 61.412 72.222 0.00 0.00 0.00 4.46
1116 1158 2.403132 ATATTCGCAGGGGGAGCAGC 62.403 60.000 0.00 0.00 0.00 5.25
1117 1159 0.321122 GATATTCGCAGGGGGAGCAG 60.321 60.000 0.00 0.00 0.00 4.24
1138 1180 1.300465 CCTGAGATGATCCGCCGTG 60.300 63.158 0.00 0.00 0.00 4.94
1166 1542 1.079503 GAACTAGCCGGACAAAGCTG 58.920 55.000 5.05 0.00 40.28 4.24
1176 1552 0.802607 GTCCGAGCAAGAACTAGCCG 60.803 60.000 0.00 0.00 0.00 5.52
1192 1568 1.338337 TGCTAGCAGATTAGCTCGTCC 59.662 52.381 14.93 0.00 45.26 4.79
1212 1588 2.601905 AGCCAAAATCCAGCAGAAACT 58.398 42.857 0.00 0.00 0.00 2.66
1213 1589 4.519540 TTAGCCAAAATCCAGCAGAAAC 57.480 40.909 0.00 0.00 0.00 2.78
1231 1607 3.435671 GGGAGATTGACACCAACGTTTAG 59.564 47.826 0.00 0.00 34.72 1.85
1232 1608 3.181453 TGGGAGATTGACACCAACGTTTA 60.181 43.478 0.00 0.00 34.72 2.01
1239 1615 4.478203 TCAAATTTGGGAGATTGACACCA 58.522 39.130 17.90 0.00 0.00 4.17
1244 1620 8.827832 ATATGAACTCAAATTTGGGAGATTGA 57.172 30.769 24.78 3.33 35.17 2.57
1394 1770 1.971357 AGTTCCTTCACCACGACTGAT 59.029 47.619 0.00 0.00 0.00 2.90
1395 1771 1.410004 AGTTCCTTCACCACGACTGA 58.590 50.000 0.00 0.00 0.00 3.41
1401 1780 1.239347 GCCTGAAGTTCCTTCACCAC 58.761 55.000 0.00 0.00 44.27 4.16
1430 1809 6.700960 TGAACAAGGAACATGCAAATAACAAG 59.299 34.615 0.00 0.00 0.00 3.16
1518 1927 6.895782 ACTAGCATGGTATAAAGGTTGCTTA 58.104 36.000 4.84 0.00 40.60 3.09
1563 1972 6.827251 ACATCTATGCTCATTTTGACATCAGT 59.173 34.615 0.00 0.00 0.00 3.41
1592 2001 8.792830 TTCTAAAGCTCAGCAAGTACATTAAT 57.207 30.769 0.00 0.00 0.00 1.40
1654 2063 8.620416 TGATATCAACGATTTAATTGTGGAAGG 58.380 33.333 1.98 0.00 30.52 3.46
1684 2093 9.794685 ACTACATTAAGATCACATATATGCTCG 57.205 33.333 12.79 2.12 0.00 5.03
1692 2101 8.144478 GCTCAGGAACTACATTAAGATCACATA 58.856 37.037 0.00 0.00 36.02 2.29
1728 2137 5.028549 ACTATGTCCATAAGCTGAACAGG 57.971 43.478 3.99 0.00 0.00 4.00
1749 2158 4.935352 TGCTTGGGAATGCCAAATATAC 57.065 40.909 7.79 0.00 35.15 1.47
1750 2159 4.262549 GCATGCTTGGGAATGCCAAATATA 60.263 41.667 11.37 0.00 46.20 0.86
1751 2160 3.495453 GCATGCTTGGGAATGCCAAATAT 60.495 43.478 11.37 2.21 46.20 1.28
1766 2175 2.228343 GCAGAAACTCTCTTGCATGCTT 59.772 45.455 20.33 1.21 31.98 3.91
1780 2189 5.662211 AGCACATTCAAATTTGCAGAAAC 57.338 34.783 13.54 2.12 42.86 2.78
1784 2193 5.908106 GTGTTAGCACATTCAAATTTGCAG 58.092 37.500 13.54 7.87 42.86 4.41
1814 2223 9.573133 AATTTAATATTCGCTCAACTGGAAAAG 57.427 29.630 0.00 0.00 0.00 2.27
1844 2253 5.474876 CCTATCCTATGAACCAAAGAATGCC 59.525 44.000 0.00 0.00 0.00 4.40
1845 2254 6.299141 TCCTATCCTATGAACCAAAGAATGC 58.701 40.000 0.00 0.00 0.00 3.56
1846 2255 8.930846 ATTCCTATCCTATGAACCAAAGAATG 57.069 34.615 0.00 0.00 0.00 2.67
1849 2258 9.392506 TGATATTCCTATCCTATGAACCAAAGA 57.607 33.333 0.00 0.00 34.03 2.52
1853 2262 9.439461 CCTATGATATTCCTATCCTATGAACCA 57.561 37.037 0.00 0.00 34.03 3.67
1854 2263 9.661954 TCCTATGATATTCCTATCCTATGAACC 57.338 37.037 0.00 0.00 34.03 3.62
1856 2265 9.373450 GCTCCTATGATATTCCTATCCTATGAA 57.627 37.037 0.00 0.00 34.03 2.57
1857 2266 8.514504 TGCTCCTATGATATTCCTATCCTATGA 58.485 37.037 0.00 0.00 34.03 2.15
1858 2267 8.718158 TGCTCCTATGATATTCCTATCCTATG 57.282 38.462 0.00 0.00 34.03 2.23
1859 2268 9.378504 CTTGCTCCTATGATATTCCTATCCTAT 57.621 37.037 0.00 0.00 34.03 2.57
1860 2269 8.569596 TCTTGCTCCTATGATATTCCTATCCTA 58.430 37.037 0.00 0.00 34.03 2.94
1861 2270 7.425834 TCTTGCTCCTATGATATTCCTATCCT 58.574 38.462 0.00 0.00 34.03 3.24
1862 2271 7.667575 TCTTGCTCCTATGATATTCCTATCC 57.332 40.000 0.00 0.00 34.03 2.59
1863 2272 9.950496 TTTTCTTGCTCCTATGATATTCCTATC 57.050 33.333 0.00 0.00 35.30 2.08
1865 2274 9.950496 GATTTTCTTGCTCCTATGATATTCCTA 57.050 33.333 0.00 0.00 0.00 2.94
1866 2275 8.443176 TGATTTTCTTGCTCCTATGATATTCCT 58.557 33.333 0.00 0.00 0.00 3.36
1867 2276 8.627208 TGATTTTCTTGCTCCTATGATATTCC 57.373 34.615 0.00 0.00 0.00 3.01
1870 2279 9.902684 CCTATGATTTTCTTGCTCCTATGATAT 57.097 33.333 0.00 0.00 0.00 1.63
1871 2280 9.104713 TCCTATGATTTTCTTGCTCCTATGATA 57.895 33.333 0.00 0.00 0.00 2.15
1872 2281 7.982252 TCCTATGATTTTCTTGCTCCTATGAT 58.018 34.615 0.00 0.00 0.00 2.45
1873 2282 7.379059 TCCTATGATTTTCTTGCTCCTATGA 57.621 36.000 0.00 0.00 0.00 2.15
1874 2283 7.718753 ACTTCCTATGATTTTCTTGCTCCTATG 59.281 37.037 0.00 0.00 0.00 2.23
1875 2284 7.718753 CACTTCCTATGATTTTCTTGCTCCTAT 59.281 37.037 0.00 0.00 0.00 2.57
1876 2285 7.050377 CACTTCCTATGATTTTCTTGCTCCTA 58.950 38.462 0.00 0.00 0.00 2.94
1877 2286 5.884792 CACTTCCTATGATTTTCTTGCTCCT 59.115 40.000 0.00 0.00 0.00 3.69
1878 2287 5.882557 TCACTTCCTATGATTTTCTTGCTCC 59.117 40.000 0.00 0.00 0.00 4.70
1879 2288 6.820656 TCTCACTTCCTATGATTTTCTTGCTC 59.179 38.462 0.00 0.00 0.00 4.26
1880 2289 6.715280 TCTCACTTCCTATGATTTTCTTGCT 58.285 36.000 0.00 0.00 0.00 3.91
1881 2290 6.992063 TCTCACTTCCTATGATTTTCTTGC 57.008 37.500 0.00 0.00 0.00 4.01
1882 2291 8.610896 GTCATCTCACTTCCTATGATTTTCTTG 58.389 37.037 0.00 0.00 31.49 3.02
1883 2292 8.324306 TGTCATCTCACTTCCTATGATTTTCTT 58.676 33.333 0.00 0.00 31.49 2.52
1884 2293 7.855375 TGTCATCTCACTTCCTATGATTTTCT 58.145 34.615 0.00 0.00 31.49 2.52
1885 2294 8.557864 CATGTCATCTCACTTCCTATGATTTTC 58.442 37.037 0.00 0.00 31.49 2.29
1886 2295 7.013083 GCATGTCATCTCACTTCCTATGATTTT 59.987 37.037 0.00 0.00 31.49 1.82
1887 2296 6.485984 GCATGTCATCTCACTTCCTATGATTT 59.514 38.462 0.00 0.00 31.49 2.17
1888 2297 5.996513 GCATGTCATCTCACTTCCTATGATT 59.003 40.000 0.00 0.00 31.49 2.57
1889 2298 5.071384 TGCATGTCATCTCACTTCCTATGAT 59.929 40.000 0.00 0.00 31.49 2.45
1890 2299 4.406649 TGCATGTCATCTCACTTCCTATGA 59.593 41.667 0.00 0.00 0.00 2.15
1891 2300 4.700700 TGCATGTCATCTCACTTCCTATG 58.299 43.478 0.00 0.00 0.00 2.23
1892 2301 5.549347 GATGCATGTCATCTCACTTCCTAT 58.451 41.667 2.46 0.00 46.29 2.57
1893 2302 4.953667 GATGCATGTCATCTCACTTCCTA 58.046 43.478 2.46 0.00 46.29 2.94
1894 2303 3.806380 GATGCATGTCATCTCACTTCCT 58.194 45.455 2.46 0.00 46.29 3.36
1903 2312 7.280428 CCTATAGGAATTGAGATGCATGTCATC 59.720 40.741 25.41 20.01 43.91 2.92
1904 2313 7.110810 CCTATAGGAATTGAGATGCATGTCAT 58.889 38.462 25.41 13.07 36.10 3.06
1905 2314 6.470278 CCTATAGGAATTGAGATGCATGTCA 58.530 40.000 21.70 21.70 37.39 3.58
1906 2315 5.879223 CCCTATAGGAATTGAGATGCATGTC 59.121 44.000 21.07 16.63 38.24 3.06
1907 2316 5.549228 TCCCTATAGGAATTGAGATGCATGT 59.451 40.000 21.07 0.00 43.78 3.21
1908 2317 6.058553 TCCCTATAGGAATTGAGATGCATG 57.941 41.667 21.07 0.00 43.78 4.06
1921 2330 7.568738 TCAAATGACATCTCTTTCCCTATAGGA 59.431 37.037 21.07 3.60 45.68 2.94
1922 2331 7.739825 TCAAATGACATCTCTTTCCCTATAGG 58.260 38.462 12.27 12.27 0.00 2.57
1923 2332 9.217278 CATCAAATGACATCTCTTTCCCTATAG 57.783 37.037 0.00 0.00 0.00 1.31
1924 2333 7.663081 GCATCAAATGACATCTCTTTCCCTATA 59.337 37.037 0.00 0.00 0.00 1.31
1925 2334 6.489361 GCATCAAATGACATCTCTTTCCCTAT 59.511 38.462 0.00 0.00 0.00 2.57
1926 2335 5.824624 GCATCAAATGACATCTCTTTCCCTA 59.175 40.000 0.00 0.00 0.00 3.53
1927 2336 4.643784 GCATCAAATGACATCTCTTTCCCT 59.356 41.667 0.00 0.00 0.00 4.20
1928 2337 4.400251 TGCATCAAATGACATCTCTTTCCC 59.600 41.667 0.00 0.00 0.00 3.97
1929 2338 5.571784 TGCATCAAATGACATCTCTTTCC 57.428 39.130 0.00 0.00 0.00 3.13
1930 2339 7.228108 TCCTATGCATCAAATGACATCTCTTTC 59.772 37.037 0.19 0.00 32.25 2.62
1931 2340 7.058525 TCCTATGCATCAAATGACATCTCTTT 58.941 34.615 0.19 0.00 32.25 2.52
1932 2341 6.598503 TCCTATGCATCAAATGACATCTCTT 58.401 36.000 0.19 0.00 32.25 2.85
1933 2342 6.183810 TCCTATGCATCAAATGACATCTCT 57.816 37.500 0.19 0.00 32.25 3.10
1934 2343 7.280428 CCTATCCTATGCATCAAATGACATCTC 59.720 40.741 0.19 0.00 32.25 2.75
1935 2344 7.037802 TCCTATCCTATGCATCAAATGACATCT 60.038 37.037 0.19 0.00 32.25 2.90
1936 2345 7.108194 TCCTATCCTATGCATCAAATGACATC 58.892 38.462 0.19 0.00 32.25 3.06
1937 2346 7.024345 TCCTATCCTATGCATCAAATGACAT 57.976 36.000 0.19 0.00 33.67 3.06
1938 2347 6.438186 TCCTATCCTATGCATCAAATGACA 57.562 37.500 0.19 0.00 0.00 3.58
1939 2348 7.934855 ATTCCTATCCTATGCATCAAATGAC 57.065 36.000 0.19 0.00 0.00 3.06
1940 2349 8.945195 AAATTCCTATCCTATGCATCAAATGA 57.055 30.769 0.19 0.00 0.00 2.57
1941 2350 9.991906 AAAAATTCCTATCCTATGCATCAAATG 57.008 29.630 0.19 0.00 0.00 2.32
1943 2352 8.641541 GGAAAAATTCCTATCCTATGCATCAAA 58.358 33.333 0.19 0.00 46.57 2.69
1944 2353 8.181904 GGAAAAATTCCTATCCTATGCATCAA 57.818 34.615 0.19 0.00 46.57 2.57
1945 2354 7.765695 GGAAAAATTCCTATCCTATGCATCA 57.234 36.000 0.19 0.00 46.57 3.07
1962 2371 9.700831 ACATTAGCCTAGACTTAATGGAAAAAT 57.299 29.630 17.48 0.00 33.73 1.82
1963 2372 9.174166 GACATTAGCCTAGACTTAATGGAAAAA 57.826 33.333 17.48 0.00 33.73 1.94
1964 2373 8.548877 AGACATTAGCCTAGACTTAATGGAAAA 58.451 33.333 17.48 0.00 33.73 2.29
1965 2374 8.090788 AGACATTAGCCTAGACTTAATGGAAA 57.909 34.615 17.48 0.00 33.73 3.13
1966 2375 7.676683 AGACATTAGCCTAGACTTAATGGAA 57.323 36.000 17.48 0.00 33.73 3.53
1967 2376 7.676683 AAGACATTAGCCTAGACTTAATGGA 57.323 36.000 17.48 0.00 33.73 3.41
1968 2377 8.738645 AAAAGACATTAGCCTAGACTTAATGG 57.261 34.615 17.48 0.00 33.73 3.16
1996 2405 6.815142 GGAATCAATCCTTCACATTTCAAAGG 59.185 38.462 0.00 0.00 45.56 3.11
1997 2406 7.823149 GGAATCAATCCTTCACATTTCAAAG 57.177 36.000 0.00 0.00 45.56 2.77
2040 2449 5.714806 TCCTTTGGTTTGTAGGAATGGATTC 59.285 40.000 0.00 0.00 35.20 2.52
2041 2450 5.650283 TCCTTTGGTTTGTAGGAATGGATT 58.350 37.500 0.00 0.00 35.20 3.01
2042 2451 5.264395 CTCCTTTGGTTTGTAGGAATGGAT 58.736 41.667 0.00 0.00 37.61 3.41
2043 2452 4.508405 CCTCCTTTGGTTTGTAGGAATGGA 60.508 45.833 0.00 0.00 37.61 3.41
2044 2453 3.763897 CCTCCTTTGGTTTGTAGGAATGG 59.236 47.826 0.00 0.00 37.61 3.16
2045 2454 3.193479 GCCTCCTTTGGTTTGTAGGAATG 59.807 47.826 0.00 0.00 37.61 2.67
2046 2455 3.431415 GCCTCCTTTGGTTTGTAGGAAT 58.569 45.455 0.00 0.00 37.61 3.01
2047 2456 2.490168 GGCCTCCTTTGGTTTGTAGGAA 60.490 50.000 0.00 0.00 37.61 3.36
2048 2457 1.074889 GGCCTCCTTTGGTTTGTAGGA 59.925 52.381 0.00 0.00 36.65 2.94
2049 2458 1.075536 AGGCCTCCTTTGGTTTGTAGG 59.924 52.381 0.00 0.00 0.00 3.18
2050 2459 2.162681 CAGGCCTCCTTTGGTTTGTAG 58.837 52.381 0.00 0.00 0.00 2.74
2051 2460 1.777878 TCAGGCCTCCTTTGGTTTGTA 59.222 47.619 0.00 0.00 0.00 2.41
2052 2461 0.555769 TCAGGCCTCCTTTGGTTTGT 59.444 50.000 0.00 0.00 0.00 2.83
2053 2462 1.703411 TTCAGGCCTCCTTTGGTTTG 58.297 50.000 0.00 0.00 0.00 2.93
2054 2463 2.250924 CATTCAGGCCTCCTTTGGTTT 58.749 47.619 0.00 0.00 0.00 3.27
2055 2464 1.147817 ACATTCAGGCCTCCTTTGGTT 59.852 47.619 0.00 0.00 0.00 3.67
2056 2465 0.779997 ACATTCAGGCCTCCTTTGGT 59.220 50.000 0.00 0.00 0.00 3.67
2057 2466 1.180029 CACATTCAGGCCTCCTTTGG 58.820 55.000 0.00 0.00 0.00 3.28
2058 2467 1.180029 CCACATTCAGGCCTCCTTTG 58.820 55.000 0.00 0.46 0.00 2.77
2059 2468 0.779997 ACCACATTCAGGCCTCCTTT 59.220 50.000 0.00 0.00 0.00 3.11
2060 2469 0.779997 AACCACATTCAGGCCTCCTT 59.220 50.000 0.00 0.00 0.00 3.36
2061 2470 0.779997 AAACCACATTCAGGCCTCCT 59.220 50.000 0.00 0.00 0.00 3.69
2062 2471 1.546029 GAAAACCACATTCAGGCCTCC 59.454 52.381 0.00 0.00 0.00 4.30
2063 2472 1.546029 GGAAAACCACATTCAGGCCTC 59.454 52.381 0.00 0.00 0.00 4.70
2064 2473 1.632589 GGAAAACCACATTCAGGCCT 58.367 50.000 0.00 0.00 0.00 5.19
2065 2474 0.243636 CGGAAAACCACATTCAGGCC 59.756 55.000 0.00 0.00 0.00 5.19
2066 2475 0.388520 GCGGAAAACCACATTCAGGC 60.389 55.000 0.00 0.00 0.00 4.85
2067 2476 0.958091 TGCGGAAAACCACATTCAGG 59.042 50.000 0.00 0.00 0.00 3.86
2068 2477 1.662876 CGTGCGGAAAACCACATTCAG 60.663 52.381 0.00 0.00 32.37 3.02
2069 2478 0.309302 CGTGCGGAAAACCACATTCA 59.691 50.000 0.00 0.00 32.37 2.57
2070 2479 0.589223 TCGTGCGGAAAACCACATTC 59.411 50.000 0.00 0.00 32.37 2.67
2071 2480 0.591170 CTCGTGCGGAAAACCACATT 59.409 50.000 0.00 0.00 32.37 2.71
2085 2494 6.025896 CAGAAAATTGATTGTGATCCTCGTG 58.974 40.000 0.00 0.00 0.00 4.35
2106 2515 6.638096 TGTGAGAAAGAAATCAAATGCAGA 57.362 33.333 0.00 0.00 0.00 4.26
2145 2554 6.312426 CCTGCAAAACACAAACACAATTAAGA 59.688 34.615 0.00 0.00 0.00 2.10
2247 2660 0.889186 AACCGCAACTTAGGTGCCAG 60.889 55.000 17.22 10.88 41.21 4.85
2267 2680 9.913310 TCAGTCAAATCAATAACCAATACCATA 57.087 29.630 0.00 0.00 0.00 2.74
2268 2681 8.821686 TCAGTCAAATCAATAACCAATACCAT 57.178 30.769 0.00 0.00 0.00 3.55
2269 2682 8.685427 CATCAGTCAAATCAATAACCAATACCA 58.315 33.333 0.00 0.00 0.00 3.25
2270 2683 8.137437 CCATCAGTCAAATCAATAACCAATACC 58.863 37.037 0.00 0.00 0.00 2.73
2271 2684 8.137437 CCCATCAGTCAAATCAATAACCAATAC 58.863 37.037 0.00 0.00 0.00 1.89
2272 2685 8.058235 TCCCATCAGTCAAATCAATAACCAATA 58.942 33.333 0.00 0.00 0.00 1.90
2273 2686 6.896860 TCCCATCAGTCAAATCAATAACCAAT 59.103 34.615 0.00 0.00 0.00 3.16
2274 2687 6.252233 TCCCATCAGTCAAATCAATAACCAA 58.748 36.000 0.00 0.00 0.00 3.67
2275 2688 5.825532 TCCCATCAGTCAAATCAATAACCA 58.174 37.500 0.00 0.00 0.00 3.67
2276 2689 6.966534 ATCCCATCAGTCAAATCAATAACC 57.033 37.500 0.00 0.00 0.00 2.85
2277 2690 9.903682 CATAATCCCATCAGTCAAATCAATAAC 57.096 33.333 0.00 0.00 0.00 1.89
2278 2691 9.081204 CCATAATCCCATCAGTCAAATCAATAA 57.919 33.333 0.00 0.00 0.00 1.40
2279 2692 8.226810 ACCATAATCCCATCAGTCAAATCAATA 58.773 33.333 0.00 0.00 0.00 1.90
2284 2697 6.435277 GCATACCATAATCCCATCAGTCAAAT 59.565 38.462 0.00 0.00 0.00 2.32
2432 2847 2.991250 ACACCAGACCTCATTACATGC 58.009 47.619 0.00 0.00 0.00 4.06
2574 2989 7.810658 TGTAGATCTTGATGTTTTTCTCTTGC 58.189 34.615 0.00 0.00 0.00 4.01
2782 3241 3.763360 TGATTGGTGCCTTTATTCAGTGG 59.237 43.478 0.00 0.00 0.00 4.00
2922 3383 5.417580 TGATGGCAACCTTTCCATTACTAAC 59.582 40.000 0.00 0.00 42.74 2.34
2930 3391 3.737559 ATAGTGATGGCAACCTTTCCA 57.262 42.857 0.00 0.00 36.70 3.53
3154 3616 4.217118 CCCTCAAGGTCATCTTCAAAACAG 59.783 45.833 0.00 0.00 32.41 3.16
3400 3864 1.377333 CGGACAAAGGAGAAGGCCC 60.377 63.158 0.00 0.00 0.00 5.80
3531 3995 2.035312 AGAGTAGCGACCACGGGT 59.965 61.111 0.00 0.00 39.44 5.28
3618 4082 4.101448 GGCAGCTGGATCGTGGGT 62.101 66.667 17.12 0.00 0.00 4.51


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

AutoCloner maintained by Alex Coulton.