Multiple sequence alignment - TraesCS3A01G128900

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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 TraesCS3A01G128900 chr3A 100.000 1992 0 0 772 2763 106433037 106435028 0.000000e+00 3679
1 TraesCS3A01G128900 chr3A 100.000 409 0 0 1 409 106432266 106432674 0.000000e+00 756
2 TraesCS3A01G128900 chr3B 88.113 1977 134 51 773 2706 139407524 139409442 0.000000e+00 2255
3 TraesCS3A01G128900 chr3B 83.047 407 26 14 35 406 139407006 139407404 2.050000e-86 329
4 TraesCS3A01G128900 chr3D 86.145 1992 141 64 773 2706 89896241 89898155 0.000000e+00 2025
5 TraesCS3A01G128900 chr3D 98.851 87 1 0 320 406 89895826 89895912 3.680000e-34 156


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 TraesCS3A01G128900 chr3A 106432266 106435028 2762 False 2217.5 3679 100.000 1 2763 2 chr3A.!!$F1 2762
1 TraesCS3A01G128900 chr3B 139407006 139409442 2436 False 1292.0 2255 85.580 35 2706 2 chr3B.!!$F1 2671
2 TraesCS3A01G128900 chr3D 89895826 89898155 2329 False 1090.5 2025 92.498 320 2706 2 chr3D.!!$F1 2386

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
137 141 0.304705 GTAGCATCATTTCCACGCGG 59.695 55.0 12.47 0.0 0.0 6.46 F
262 279 0.451135 CTCGCTCGAACGGCAAAAAG 60.451 55.0 8.55 0.0 0.0 2.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1623 1677 0.179048 TTCAGTATCGCCATGGCCAG 60.179 55.0 30.79 17.97 37.98 4.85 R
1811 1883 0.179124 GGTCAGATGAGCAGACGTCC 60.179 60.0 13.01 0.00 41.81 4.79 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 7.490962 TTTCTTTCTTTGTCACGTCATATGT 57.509 32.000 1.90 0.00 0.00 2.29
67 68 3.595173 TCTTTGTCACGTCATATGTGGG 58.405 45.455 1.90 0.00 35.86 4.61
87 88 3.334691 GGATTCACACGGTGATGAGAAA 58.665 45.455 16.29 1.28 42.40 2.52
88 89 3.751175 GGATTCACACGGTGATGAGAAAA 59.249 43.478 16.29 0.95 42.40 2.29
100 101 2.200373 TGAGAAAAGCAGGTTAGGCC 57.800 50.000 0.00 0.00 37.58 5.19
118 119 2.256461 GAGCCCACAAAGCGCAAG 59.744 61.111 11.47 0.19 43.44 4.01
126 127 1.197492 CACAAAGCGCAAGTAGCATCA 59.803 47.619 11.47 0.00 46.13 3.07
129 130 3.057315 ACAAAGCGCAAGTAGCATCATTT 60.057 39.130 11.47 0.00 46.13 2.32
137 141 0.304705 GTAGCATCATTTCCACGCGG 59.695 55.000 12.47 0.00 0.00 6.46
166 170 4.143115 ACGTTATGCGAATATATGCAGTGC 60.143 41.667 8.58 8.58 45.52 4.40
172 176 2.416747 GAATATATGCAGTGCAGCGGA 58.583 47.619 24.20 9.00 43.65 5.54
181 185 1.664965 GTGCAGCGGAGAGAAACGT 60.665 57.895 0.00 0.00 0.00 3.99
182 186 1.664649 TGCAGCGGAGAGAAACGTG 60.665 57.895 0.00 0.00 0.00 4.49
183 187 1.664965 GCAGCGGAGAGAAACGTGT 60.665 57.895 0.00 0.00 0.00 4.49
184 188 1.618640 GCAGCGGAGAGAAACGTGTC 61.619 60.000 0.00 0.00 0.00 3.67
187 191 0.599204 GCGGAGAGAAACGTGTCCAA 60.599 55.000 0.95 0.00 0.00 3.53
198 202 0.531090 CGTGTCCAACACCTTTCGGA 60.531 55.000 4.74 0.00 45.93 4.55
213 221 1.377725 CGGATCCTGTGGCAAAGCT 60.378 57.895 10.75 0.00 0.00 3.74
241 249 3.549873 GGATTTGTCACGTGTTGGTTTTG 59.450 43.478 16.51 0.00 0.00 2.44
242 250 3.644884 TTTGTCACGTGTTGGTTTTGT 57.355 38.095 16.51 0.00 0.00 2.83
244 252 2.428491 TGTCACGTGTTGGTTTTGTCT 58.572 42.857 16.51 0.00 0.00 3.41
246 254 1.661617 TCACGTGTTGGTTTTGTCTCG 59.338 47.619 16.51 0.00 0.00 4.04
256 273 1.554042 TTTTGTCTCGCTCGAACGGC 61.554 55.000 8.55 0.00 0.00 5.68
261 278 0.876777 TCTCGCTCGAACGGCAAAAA 60.877 50.000 8.55 0.00 0.00 1.94
262 279 0.451135 CTCGCTCGAACGGCAAAAAG 60.451 55.000 8.55 0.00 0.00 2.27
280 297 1.318576 AGAAAAGGAAGGTTGGCGTG 58.681 50.000 0.00 0.00 0.00 5.34
284 301 3.961414 GGAAGGTTGGCGTGGGGA 61.961 66.667 0.00 0.00 0.00 4.81
285 302 2.355115 GAAGGTTGGCGTGGGGAT 59.645 61.111 0.00 0.00 0.00 3.85
291 308 1.147376 TTGGCGTGGGGATAATCGG 59.853 57.895 0.00 0.00 0.00 4.18
816 852 1.953138 CGTCCGATCTGCATCTGCC 60.953 63.158 0.00 0.00 41.18 4.85
817 853 1.596477 GTCCGATCTGCATCTGCCC 60.596 63.158 0.00 0.00 41.18 5.36
818 854 2.281345 CCGATCTGCATCTGCCCC 60.281 66.667 0.00 0.00 41.18 5.80
819 855 2.664185 CGATCTGCATCTGCCCCG 60.664 66.667 0.00 0.00 41.18 5.73
837 873 3.855853 GCCCCCTTCTCTCTCCGC 61.856 72.222 0.00 0.00 0.00 5.54
849 885 1.343465 TCTCTCCGCCTTCTCGTTTTT 59.657 47.619 0.00 0.00 0.00 1.94
897 933 6.747280 AGTGTCAAGATTTGTGTTTCTTTTCG 59.253 34.615 0.00 0.00 29.85 3.46
898 934 6.526674 GTGTCAAGATTTGTGTTTCTTTTCGT 59.473 34.615 0.00 0.00 29.85 3.85
899 935 6.745450 TGTCAAGATTTGTGTTTCTTTTCGTC 59.255 34.615 0.00 0.00 29.85 4.20
901 937 4.844267 AGATTTGTGTTTCTTTTCGTCGG 58.156 39.130 0.00 0.00 0.00 4.79
902 938 4.573201 AGATTTGTGTTTCTTTTCGTCGGA 59.427 37.500 0.00 0.00 0.00 4.55
961 1004 2.091541 CAGGGAGATCTAGCTCGATCC 58.908 57.143 21.23 11.14 40.50 3.36
967 1010 1.302383 ATCTAGCTCGATCCGCCTCG 61.302 60.000 0.00 0.00 39.99 4.63
980 1023 1.003233 GCCTCGGTTCTTGGAGCTT 60.003 57.895 0.00 0.00 0.00 3.74
983 1026 1.270839 CCTCGGTTCTTGGAGCTTGAA 60.271 52.381 0.00 0.00 0.00 2.69
1102 1145 1.152830 GGCCCCAACAACCTCAAGA 59.847 57.895 0.00 0.00 0.00 3.02
1134 1177 3.203412 CGTCTCTCCGTCTCCCCG 61.203 72.222 0.00 0.00 0.00 5.73
1194 1245 1.516821 GCAGCTCAGCTCGAGAGTG 60.517 63.158 18.75 12.75 45.45 3.51
1211 1262 4.400109 GGAGACGCTGACGACGCA 62.400 66.667 0.00 0.00 43.93 5.24
1215 1266 3.059472 GACGCTGACGACGCATGTG 62.059 63.158 4.30 4.30 43.93 3.21
1216 1267 3.105782 CGCTGACGACGCATGTGT 61.106 61.111 12.68 12.68 43.93 3.72
1217 1268 1.799916 CGCTGACGACGCATGTGTA 60.800 57.895 12.82 0.00 43.93 2.90
1218 1269 1.702299 GCTGACGACGCATGTGTAC 59.298 57.895 12.82 7.72 0.00 2.90
1227 1278 2.603110 GACGCATGTGTACCTATGTGTG 59.397 50.000 22.52 10.16 45.13 3.82
1582 1633 1.069258 GCTCCGCCAGGTACCATAC 59.931 63.158 15.94 1.01 39.05 2.39
1605 1659 0.471591 AGCCTAGATCCTCCCAGCAG 60.472 60.000 0.00 0.00 0.00 4.24
1614 1668 1.988107 TCCTCCCAGCAGAATTGTCTT 59.012 47.619 0.00 0.00 28.78 3.01
1615 1669 2.376518 TCCTCCCAGCAGAATTGTCTTT 59.623 45.455 0.00 0.00 28.78 2.52
1617 1671 3.560882 CCTCCCAGCAGAATTGTCTTTCT 60.561 47.826 0.00 0.00 36.38 2.52
1623 1677 5.210715 CAGCAGAATTGTCTTTCTTGTCAC 58.789 41.667 0.00 0.00 33.69 3.67
1654 1708 2.661169 CGATACTGAATCTTGCATGCGC 60.661 50.000 14.09 0.00 33.48 6.09
1658 1712 1.135315 GAATCTTGCATGCGCGTGT 59.865 52.632 29.00 9.68 42.97 4.49
1796 1868 2.029288 CTGCTGCGACGATGGTTGT 61.029 57.895 0.00 0.00 0.00 3.32
1797 1869 1.568612 CTGCTGCGACGATGGTTGTT 61.569 55.000 0.00 0.00 0.00 2.83
1798 1870 1.154413 GCTGCGACGATGGTTGTTG 60.154 57.895 0.00 0.00 0.00 3.33
1811 1883 0.872388 GTTGTTGCTAGGAACCACCG 59.128 55.000 22.56 0.00 44.74 4.94
1812 1884 0.250553 TTGTTGCTAGGAACCACCGG 60.251 55.000 22.56 0.00 44.74 5.28
1860 1932 1.280066 CACTGCTGTTGTTGTTTGCC 58.720 50.000 0.00 0.00 0.00 4.52
1894 1966 2.096019 CGCTTGGCTTGTCTTCTTCTTC 60.096 50.000 0.00 0.00 0.00 2.87
1897 1969 4.037327 GCTTGGCTTGTCTTCTTCTTCTTT 59.963 41.667 0.00 0.00 0.00 2.52
1898 1970 5.451103 GCTTGGCTTGTCTTCTTCTTCTTTT 60.451 40.000 0.00 0.00 0.00 2.27
1899 1971 6.530019 TTGGCTTGTCTTCTTCTTCTTTTT 57.470 33.333 0.00 0.00 0.00 1.94
1900 1972 6.136541 TGGCTTGTCTTCTTCTTCTTTTTC 57.863 37.500 0.00 0.00 0.00 2.29
1901 1973 5.652014 TGGCTTGTCTTCTTCTTCTTTTTCA 59.348 36.000 0.00 0.00 0.00 2.69
1902 1974 5.974158 GGCTTGTCTTCTTCTTCTTTTTCAC 59.026 40.000 0.00 0.00 0.00 3.18
1903 1975 5.974158 GCTTGTCTTCTTCTTCTTTTTCACC 59.026 40.000 0.00 0.00 0.00 4.02
1904 1976 6.451064 TTGTCTTCTTCTTCTTTTTCACCC 57.549 37.500 0.00 0.00 0.00 4.61
1905 1977 5.755849 TGTCTTCTTCTTCTTTTTCACCCT 58.244 37.500 0.00 0.00 0.00 4.34
1906 1978 6.187682 TGTCTTCTTCTTCTTTTTCACCCTT 58.812 36.000 0.00 0.00 0.00 3.95
1907 1979 6.318900 TGTCTTCTTCTTCTTTTTCACCCTTC 59.681 38.462 0.00 0.00 0.00 3.46
1908 1980 6.544197 GTCTTCTTCTTCTTTTTCACCCTTCT 59.456 38.462 0.00 0.00 0.00 2.85
1909 1981 6.768381 TCTTCTTCTTCTTTTTCACCCTTCTC 59.232 38.462 0.00 0.00 0.00 2.87
1910 1982 6.253946 TCTTCTTCTTTTTCACCCTTCTCT 57.746 37.500 0.00 0.00 0.00 3.10
1911 1983 6.663734 TCTTCTTCTTTTTCACCCTTCTCTT 58.336 36.000 0.00 0.00 0.00 2.85
1915 1987 5.896073 TCTTTTTCACCCTTCTCTTCTCT 57.104 39.130 0.00 0.00 0.00 3.10
1991 2063 0.106268 TTGTGTGTGCCCTGTCCATT 60.106 50.000 0.00 0.00 0.00 3.16
2048 2120 6.312399 ACATTGGTTGTGTATTGTACTGTG 57.688 37.500 0.00 0.00 37.11 3.66
2052 2124 3.364964 GGTTGTGTATTGTACTGTGCTGC 60.365 47.826 0.00 0.00 0.00 5.25
2056 2128 3.614616 GTGTATTGTACTGTGCTGCTCTC 59.385 47.826 0.00 0.00 0.00 3.20
2057 2129 3.511540 TGTATTGTACTGTGCTGCTCTCT 59.488 43.478 0.00 0.00 0.00 3.10
2058 2130 3.692257 ATTGTACTGTGCTGCTCTCTT 57.308 42.857 0.00 0.00 0.00 2.85
2059 2131 2.732412 TGTACTGTGCTGCTCTCTTC 57.268 50.000 0.00 0.00 0.00 2.87
2060 2132 2.242926 TGTACTGTGCTGCTCTCTTCT 58.757 47.619 0.00 0.00 0.00 2.85
2089 2161 1.667510 CCACCGTTGCAATTTGGCC 60.668 57.895 0.59 0.00 0.00 5.36
2182 2254 1.283321 GGCCCAAGTGAAATCTCTCCT 59.717 52.381 0.00 0.00 0.00 3.69
2184 2256 3.054361 GGCCCAAGTGAAATCTCTCCTTA 60.054 47.826 0.00 0.00 0.00 2.69
2186 2258 5.163195 GGCCCAAGTGAAATCTCTCCTTATA 60.163 44.000 0.00 0.00 0.00 0.98
2187 2259 6.357367 GCCCAAGTGAAATCTCTCCTTATAA 58.643 40.000 0.00 0.00 0.00 0.98
2188 2260 6.484977 GCCCAAGTGAAATCTCTCCTTATAAG 59.515 42.308 5.43 5.43 0.00 1.73
2189 2261 7.569240 CCCAAGTGAAATCTCTCCTTATAAGT 58.431 38.462 11.50 0.00 0.00 2.24
2190 2262 7.497249 CCCAAGTGAAATCTCTCCTTATAAGTG 59.503 40.741 11.50 4.38 0.00 3.16
2197 2269 8.943909 AAATCTCTCCTTATAAGTGTAAACCG 57.056 34.615 11.50 0.00 0.00 4.44
2199 2271 5.361857 TCTCTCCTTATAAGTGTAAACCGGG 59.638 44.000 6.32 0.00 0.00 5.73
2222 2294 4.742201 GCACAGCGGCTTCGAGGA 62.742 66.667 0.00 0.00 35.61 3.71
2225 2297 2.351244 ACAGCGGCTTCGAGGATCA 61.351 57.895 0.00 0.00 35.61 2.92
2230 2302 1.590259 GGCTTCGAGGATCAGCGTC 60.590 63.158 0.00 0.00 35.19 5.19
2232 2306 0.593773 GCTTCGAGGATCAGCGTCTC 60.594 60.000 0.00 0.00 33.17 3.36
2254 2328 0.394762 TGATGATGGGAGGCAACAGC 60.395 55.000 0.00 0.00 41.41 4.40
2280 2354 9.370126 CGTTTCTATTATTTGCCTAGATTTTCG 57.630 33.333 0.00 0.00 0.00 3.46
2284 2358 9.391006 TCTATTATTTGCCTAGATTTTCGTGTT 57.609 29.630 0.00 0.00 0.00 3.32
2286 2360 8.687824 ATTATTTGCCTAGATTTTCGTGTTTG 57.312 30.769 0.00 0.00 0.00 2.93
2287 2361 5.508200 TTTGCCTAGATTTTCGTGTTTGT 57.492 34.783 0.00 0.00 0.00 2.83
2289 2363 5.600908 TGCCTAGATTTTCGTGTTTGTAC 57.399 39.130 0.00 0.00 0.00 2.90
2291 2365 5.703592 TGCCTAGATTTTCGTGTTTGTACAT 59.296 36.000 0.00 0.00 36.50 2.29
2292 2366 6.021596 GCCTAGATTTTCGTGTTTGTACATG 58.978 40.000 0.00 0.00 41.69 3.21
2294 2368 7.234384 CCTAGATTTTCGTGTTTGTACATGTC 58.766 38.462 0.00 0.00 41.20 3.06
2295 2369 6.612247 AGATTTTCGTGTTTGTACATGTCA 57.388 33.333 0.00 0.00 41.20 3.58
2296 2370 6.427150 AGATTTTCGTGTTTGTACATGTCAC 58.573 36.000 0.00 2.77 41.20 3.67
2297 2371 5.547181 TTTTCGTGTTTGTACATGTCACA 57.453 34.783 0.00 2.71 41.20 3.58
2299 2373 4.787381 TCGTGTTTGTACATGTCACAAG 57.213 40.909 0.00 4.45 41.20 3.16
2301 2375 3.628017 GTGTTTGTACATGTCACAAGGC 58.372 45.455 0.00 9.01 37.22 4.35
2302 2376 2.621055 TGTTTGTACATGTCACAAGGCC 59.379 45.455 0.00 0.00 37.22 5.19
2303 2377 2.621055 GTTTGTACATGTCACAAGGCCA 59.379 45.455 5.01 0.00 37.22 5.36
2304 2378 1.890876 TGTACATGTCACAAGGCCAC 58.109 50.000 5.01 0.00 0.00 5.01
2305 2379 1.141858 TGTACATGTCACAAGGCCACA 59.858 47.619 5.01 0.00 0.00 4.17
2306 2380 2.226330 GTACATGTCACAAGGCCACAA 58.774 47.619 5.01 0.00 0.00 3.33
2307 2381 1.321474 ACATGTCACAAGGCCACAAG 58.679 50.000 5.01 0.00 0.00 3.16
2308 2382 0.599558 CATGTCACAAGGCCACAAGG 59.400 55.000 5.01 0.00 38.23 3.61
2309 2383 0.478072 ATGTCACAAGGCCACAAGGA 59.522 50.000 5.01 0.00 36.89 3.36
2310 2384 0.257328 TGTCACAAGGCCACAAGGAA 59.743 50.000 5.01 0.00 36.89 3.36
2311 2385 1.341482 TGTCACAAGGCCACAAGGAAA 60.341 47.619 5.01 0.00 36.89 3.13
2312 2386 1.754226 GTCACAAGGCCACAAGGAAAA 59.246 47.619 5.01 0.00 36.89 2.29
2313 2387 2.167487 GTCACAAGGCCACAAGGAAAAA 59.833 45.455 5.01 0.00 36.89 1.94
2359 2433 2.549754 TGCTTAGTCAAAGAACAGCTGC 59.450 45.455 15.27 0.00 37.38 5.25
2383 2457 4.232221 CTGAAAATGCAAGCAGTTACTGG 58.768 43.478 14.63 0.00 32.85 4.00
2394 2468 2.699954 CAGTTACTGGCGAATTCACCT 58.300 47.619 13.51 0.00 0.00 4.00
2429 2508 1.804372 GCCGAGGAGCTACATGACTTG 60.804 57.143 0.00 0.00 0.00 3.16
2433 2512 2.935201 GAGGAGCTACATGACTTGCAAG 59.065 50.000 24.84 24.84 0.00 4.01
2434 2513 1.399791 GGAGCTACATGACTTGCAAGC 59.600 52.381 26.27 18.37 37.72 4.01
2435 2514 2.079158 GAGCTACATGACTTGCAAGCA 58.921 47.619 26.27 23.01 39.15 3.91
2443 2522 1.202794 TGACTTGCAAGCACCTGATGA 60.203 47.619 26.27 0.00 0.00 2.92
2455 2537 3.011818 CACCTGATGAATAAGCTGCACA 58.988 45.455 1.02 0.00 0.00 4.57
2487 2583 7.918076 AGGTATTGTAGAGGAATTTGACTTGA 58.082 34.615 0.00 0.00 0.00 3.02
2502 2599 4.774124 TGACTTGAAATATGCAGAGGGAG 58.226 43.478 0.00 0.00 0.00 4.30
2506 2603 6.248433 ACTTGAAATATGCAGAGGGAGAAAA 58.752 36.000 0.00 0.00 0.00 2.29
2507 2604 6.894103 ACTTGAAATATGCAGAGGGAGAAAAT 59.106 34.615 0.00 0.00 0.00 1.82
2512 2609 8.632906 AAATATGCAGAGGGAGAAAATATGAG 57.367 34.615 0.00 0.00 0.00 2.90
2516 2613 5.070180 TGCAGAGGGAGAAAATATGAGAGAG 59.930 44.000 0.00 0.00 0.00 3.20
2580 2683 1.896660 CCAACCCAACACAGACCCG 60.897 63.158 0.00 0.00 0.00 5.28
2582 2685 4.619227 ACCCAACACAGACCCGCG 62.619 66.667 0.00 0.00 0.00 6.46
2585 2688 3.345808 CAACACAGACCCGCGGTG 61.346 66.667 26.12 18.66 46.39 4.94
2610 2713 2.301738 GGAACAGTCAGGGAGGGGG 61.302 68.421 0.00 0.00 0.00 5.40
2631 2734 2.939103 GCCCTGATACAACAGTGCTAAG 59.061 50.000 0.00 0.00 38.03 2.18
2636 2739 4.245660 TGATACAACAGTGCTAAGCTGAC 58.754 43.478 0.00 0.00 37.40 3.51
2651 2760 5.904362 AAGCTGACCCACTTCATTTATTC 57.096 39.130 0.00 0.00 0.00 1.75
2699 2811 7.929245 TCAAATTACTAAGCCCCAAAACTTTTC 59.071 33.333 0.00 0.00 0.00 2.29
2702 2814 0.105964 AAGCCCCAAAACTTTTCCGC 59.894 50.000 0.00 0.00 0.00 5.54
2706 2818 0.953003 CCCAAAACTTTTCCGCCGTA 59.047 50.000 0.00 0.00 0.00 4.02
2707 2819 1.337387 CCCAAAACTTTTCCGCCGTAA 59.663 47.619 0.00 0.00 0.00 3.18
2708 2820 2.223758 CCCAAAACTTTTCCGCCGTAAA 60.224 45.455 0.00 0.00 0.00 2.01
2709 2821 3.047093 CCAAAACTTTTCCGCCGTAAAG 58.953 45.455 7.22 7.22 37.38 1.85
2710 2822 2.410785 AAACTTTTCCGCCGTAAAGC 57.589 45.000 8.34 0.00 35.31 3.51
2718 2830 2.506438 GCCGTAAAGCGAGCGACT 60.506 61.111 0.00 0.00 44.77 4.18
2719 2831 1.226491 GCCGTAAAGCGAGCGACTA 60.226 57.895 0.00 0.00 44.77 2.59
2720 2832 1.469912 GCCGTAAAGCGAGCGACTAC 61.470 60.000 0.00 0.00 44.77 2.73
2721 2833 0.098376 CCGTAAAGCGAGCGACTACT 59.902 55.000 0.00 0.00 44.77 2.57
2722 2834 1.328680 CCGTAAAGCGAGCGACTACTA 59.671 52.381 0.00 0.00 44.77 1.82
2723 2835 2.361407 CGTAAAGCGAGCGACTACTAC 58.639 52.381 0.00 0.00 44.77 2.73
2724 2836 2.714139 GTAAAGCGAGCGACTACTACC 58.286 52.381 0.00 0.00 0.00 3.18
2725 2837 1.171308 AAAGCGAGCGACTACTACCA 58.829 50.000 0.00 0.00 0.00 3.25
2726 2838 0.733729 AAGCGAGCGACTACTACCAG 59.266 55.000 0.00 0.00 0.00 4.00
2727 2839 1.096386 AGCGAGCGACTACTACCAGG 61.096 60.000 0.00 0.00 0.00 4.45
2728 2840 2.023318 CGAGCGACTACTACCAGGG 58.977 63.158 0.00 0.00 0.00 4.45
2729 2841 0.747283 CGAGCGACTACTACCAGGGT 60.747 60.000 0.00 0.00 0.00 4.34
2730 2842 1.472188 GAGCGACTACTACCAGGGTT 58.528 55.000 0.00 0.00 0.00 4.11
2731 2843 1.404748 GAGCGACTACTACCAGGGTTC 59.595 57.143 0.00 0.00 0.00 3.62
2732 2844 1.180029 GCGACTACTACCAGGGTTCA 58.820 55.000 0.00 0.00 0.00 3.18
2733 2845 1.134560 GCGACTACTACCAGGGTTCAG 59.865 57.143 0.00 0.00 0.00 3.02
2734 2846 2.444421 CGACTACTACCAGGGTTCAGT 58.556 52.381 0.00 0.00 0.00 3.41
2735 2847 2.824341 CGACTACTACCAGGGTTCAGTT 59.176 50.000 0.00 0.00 0.00 3.16
2736 2848 3.119566 CGACTACTACCAGGGTTCAGTTC 60.120 52.174 0.00 0.00 0.00 3.01
2737 2849 4.087907 GACTACTACCAGGGTTCAGTTCT 58.912 47.826 0.00 0.00 0.00 3.01
2738 2850 4.490706 ACTACTACCAGGGTTCAGTTCTT 58.509 43.478 0.00 0.00 0.00 2.52
2739 2851 4.906060 ACTACTACCAGGGTTCAGTTCTTT 59.094 41.667 0.00 0.00 0.00 2.52
2740 2852 4.353383 ACTACCAGGGTTCAGTTCTTTC 57.647 45.455 0.00 0.00 0.00 2.62
2741 2853 3.974642 ACTACCAGGGTTCAGTTCTTTCT 59.025 43.478 0.00 0.00 0.00 2.52
2742 2854 5.152934 ACTACCAGGGTTCAGTTCTTTCTA 58.847 41.667 0.00 0.00 0.00 2.10
2743 2855 4.353383 ACCAGGGTTCAGTTCTTTCTAC 57.647 45.455 0.00 0.00 0.00 2.59
2744 2856 3.714798 ACCAGGGTTCAGTTCTTTCTACA 59.285 43.478 0.00 0.00 0.00 2.74
2745 2857 4.351111 ACCAGGGTTCAGTTCTTTCTACAT 59.649 41.667 0.00 0.00 0.00 2.29
2746 2858 4.697352 CCAGGGTTCAGTTCTTTCTACATG 59.303 45.833 0.00 0.00 0.00 3.21
2747 2859 5.513094 CCAGGGTTCAGTTCTTTCTACATGA 60.513 44.000 0.00 0.00 0.00 3.07
2748 2860 6.176183 CAGGGTTCAGTTCTTTCTACATGAT 58.824 40.000 0.00 0.00 0.00 2.45
2749 2861 6.314896 CAGGGTTCAGTTCTTTCTACATGATC 59.685 42.308 0.00 0.00 0.00 2.92
2750 2862 5.586643 GGGTTCAGTTCTTTCTACATGATCC 59.413 44.000 0.00 0.00 0.00 3.36
2751 2863 6.410540 GGTTCAGTTCTTTCTACATGATCCT 58.589 40.000 0.00 0.00 0.00 3.24
2752 2864 6.881602 GGTTCAGTTCTTTCTACATGATCCTT 59.118 38.462 0.00 0.00 0.00 3.36
2753 2865 8.041323 GGTTCAGTTCTTTCTACATGATCCTTA 58.959 37.037 0.00 0.00 0.00 2.69
2754 2866 9.436957 GTTCAGTTCTTTCTACATGATCCTTAA 57.563 33.333 0.00 0.00 0.00 1.85
2755 2867 9.436957 TTCAGTTCTTTCTACATGATCCTTAAC 57.563 33.333 0.00 0.00 0.00 2.01
2756 2868 7.759886 TCAGTTCTTTCTACATGATCCTTAACG 59.240 37.037 0.00 0.00 0.00 3.18
2757 2869 7.759886 CAGTTCTTTCTACATGATCCTTAACGA 59.240 37.037 0.00 0.00 0.00 3.85
2758 2870 8.311836 AGTTCTTTCTACATGATCCTTAACGAA 58.688 33.333 0.00 0.00 0.00 3.85
2759 2871 8.381387 GTTCTTTCTACATGATCCTTAACGAAC 58.619 37.037 0.00 1.53 0.00 3.95
2760 2872 7.837863 TCTTTCTACATGATCCTTAACGAACT 58.162 34.615 0.00 0.00 0.00 3.01
2761 2873 8.963725 TCTTTCTACATGATCCTTAACGAACTA 58.036 33.333 0.00 0.00 0.00 2.24
2762 2874 8.922058 TTTCTACATGATCCTTAACGAACTAC 57.078 34.615 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 8.499162 CGTGACAAAGAAAGAAAATGAGTAGAT 58.501 33.333 0.00 0.00 0.00 1.98
31 32 7.494625 ACGTGACAAAGAAAGAAAATGAGTAGA 59.505 33.333 0.00 0.00 0.00 2.59
32 33 7.630924 ACGTGACAAAGAAAGAAAATGAGTAG 58.369 34.615 0.00 0.00 0.00 2.57
33 34 7.279090 TGACGTGACAAAGAAAGAAAATGAGTA 59.721 33.333 0.00 0.00 0.00 2.59
38 39 8.567948 ACATATGACGTGACAAAGAAAGAAAAT 58.432 29.630 10.38 0.00 0.00 1.82
45 46 4.000325 CCCACATATGACGTGACAAAGAA 59.000 43.478 10.38 0.00 36.43 2.52
51 52 3.555956 GTGAATCCCACATATGACGTGAC 59.444 47.826 10.38 0.00 45.03 3.67
64 65 0.980423 TCATCACCGTGTGAATCCCA 59.020 50.000 10.17 0.00 45.96 4.37
67 68 4.670221 GCTTTTCTCATCACCGTGTGAATC 60.670 45.833 10.17 0.00 45.96 2.52
87 88 2.269241 GCTCGGCCTAACCTGCTT 59.731 61.111 0.00 0.00 35.61 3.91
88 89 3.787001 GGCTCGGCCTAACCTGCT 61.787 66.667 0.00 0.00 46.69 4.24
112 113 1.401552 TGGAAATGATGCTACTTGCGC 59.598 47.619 0.00 0.00 46.63 6.09
113 114 2.537529 CGTGGAAATGATGCTACTTGCG 60.538 50.000 0.00 0.00 46.63 4.85
118 119 0.304705 CCGCGTGGAAATGATGCTAC 59.695 55.000 10.20 0.00 37.49 3.58
137 141 5.469387 CATATATTCGCATAACGTACGTGC 58.531 41.667 23.57 19.61 44.19 5.34
166 170 1.009389 GGACACGTTTCTCTCCGCTG 61.009 60.000 1.13 0.00 0.00 5.18
198 202 0.964358 GAGCAGCTTTGCCACAGGAT 60.964 55.000 0.00 0.00 34.90 3.24
213 221 0.948623 CACGTGACAAATCCCGAGCA 60.949 55.000 10.90 0.00 0.00 4.26
219 227 3.430333 AAACCAACACGTGACAAATCC 57.570 42.857 25.01 0.00 0.00 3.01
241 249 1.554042 TTTTGCCGTTCGAGCGAGAC 61.554 55.000 23.80 12.21 0.00 3.36
242 250 0.876777 TTTTTGCCGTTCGAGCGAGA 60.877 50.000 23.80 5.86 0.00 4.04
244 252 0.876777 TCTTTTTGCCGTTCGAGCGA 60.877 50.000 23.80 1.58 0.00 4.93
246 254 2.113910 TTTCTTTTTGCCGTTCGAGC 57.886 45.000 0.00 0.00 0.00 5.03
256 273 3.555547 CGCCAACCTTCCTTTTCTTTTTG 59.444 43.478 0.00 0.00 0.00 2.44
261 278 1.318576 CACGCCAACCTTCCTTTTCT 58.681 50.000 0.00 0.00 0.00 2.52
262 279 0.313987 CCACGCCAACCTTCCTTTTC 59.686 55.000 0.00 0.00 0.00 2.29
280 297 0.249398 CCGTCCATCCGATTATCCCC 59.751 60.000 0.00 0.00 0.00 4.81
284 301 1.292223 CGCCCGTCCATCCGATTAT 59.708 57.895 0.00 0.00 0.00 1.28
285 302 2.732016 CGCCCGTCCATCCGATTA 59.268 61.111 0.00 0.00 0.00 1.75
771 807 1.827399 GAGGGACAGAGCAACGGGAA 61.827 60.000 0.00 0.00 0.00 3.97
816 852 4.806339 AGAGAGAAGGGGGCCGGG 62.806 72.222 2.18 0.00 0.00 5.73
817 853 3.157949 GAGAGAGAAGGGGGCCGG 61.158 72.222 0.00 0.00 0.00 6.13
818 854 3.157949 GGAGAGAGAAGGGGGCCG 61.158 72.222 0.00 0.00 0.00 6.13
819 855 3.157949 CGGAGAGAGAAGGGGGCC 61.158 72.222 0.00 0.00 0.00 5.80
849 885 3.740115 CCAAGAACGAAGGGAGAAGAAA 58.260 45.455 0.00 0.00 0.00 2.52
852 888 1.270839 TGCCAAGAACGAAGGGAGAAG 60.271 52.381 0.00 0.00 0.00 2.85
853 889 0.762418 TGCCAAGAACGAAGGGAGAA 59.238 50.000 0.00 0.00 0.00 2.87
855 891 0.035458 ACTGCCAAGAACGAAGGGAG 59.965 55.000 0.00 0.00 45.26 4.30
856 892 0.250295 CACTGCCAAGAACGAAGGGA 60.250 55.000 0.00 0.00 0.00 4.20
857 893 0.535102 ACACTGCCAAGAACGAAGGG 60.535 55.000 0.00 0.00 0.00 3.95
868 904 2.653726 ACACAAATCTTGACACTGCCA 58.346 42.857 0.00 0.00 0.00 4.92
926 964 4.918201 CTGAATCTCCCGCCGCCC 62.918 72.222 0.00 0.00 0.00 6.13
961 1004 2.788191 AAGCTCCAAGAACCGAGGCG 62.788 60.000 0.00 0.00 0.00 5.52
967 1010 1.801178 CGTCTTCAAGCTCCAAGAACC 59.199 52.381 8.52 0.00 30.38 3.62
1011 1054 4.098722 GCCTGCTGCTCCTGCTCT 62.099 66.667 0.00 0.00 40.48 4.09
1194 1245 3.685214 ATGCGTCGTCAGCGTCTCC 62.685 63.158 0.00 0.00 39.49 3.71
1211 1262 5.178061 CACATCACACACATAGGTACACAT 58.822 41.667 0.00 0.00 0.00 3.21
1215 1266 3.932710 CACCACATCACACACATAGGTAC 59.067 47.826 0.00 0.00 0.00 3.34
1216 1267 3.055458 CCACCACATCACACACATAGGTA 60.055 47.826 0.00 0.00 0.00 3.08
1217 1268 2.290260 CCACCACATCACACACATAGGT 60.290 50.000 0.00 0.00 0.00 3.08
1218 1269 2.358957 CCACCACATCACACACATAGG 58.641 52.381 0.00 0.00 0.00 2.57
1227 1278 3.434319 CGCCTGCCACCACATCAC 61.434 66.667 0.00 0.00 0.00 3.06
1579 1630 3.668115 TGGGAGGATCTAGGCTAAGGTAT 59.332 47.826 0.00 0.00 33.73 2.73
1582 1633 2.534990 CTGGGAGGATCTAGGCTAAGG 58.465 57.143 0.00 0.00 33.73 2.69
1584 1635 1.220493 TGCTGGGAGGATCTAGGCTAA 59.780 52.381 0.00 0.00 33.73 3.09
1585 1636 0.860457 TGCTGGGAGGATCTAGGCTA 59.140 55.000 0.00 0.00 33.73 3.93
1586 1637 0.471591 CTGCTGGGAGGATCTAGGCT 60.472 60.000 0.00 0.00 33.73 4.58
1587 1638 0.470833 TCTGCTGGGAGGATCTAGGC 60.471 60.000 0.00 0.00 33.73 3.93
1590 1641 3.387962 ACAATTCTGCTGGGAGGATCTA 58.612 45.455 0.00 0.00 33.73 1.98
1591 1642 2.172293 GACAATTCTGCTGGGAGGATCT 59.828 50.000 0.00 0.00 33.73 2.75
1592 1643 2.172293 AGACAATTCTGCTGGGAGGATC 59.828 50.000 0.00 0.00 0.00 3.36
1593 1644 2.203584 AGACAATTCTGCTGGGAGGAT 58.796 47.619 0.00 0.00 0.00 3.24
1594 1645 1.661463 AGACAATTCTGCTGGGAGGA 58.339 50.000 0.00 0.00 0.00 3.71
1605 1659 4.540824 GCCAGTGACAAGAAAGACAATTC 58.459 43.478 0.00 0.00 0.00 2.17
1614 1668 0.895100 GCCATGGCCAGTGACAAGAA 60.895 55.000 27.24 0.00 34.56 2.52
1615 1669 1.303561 GCCATGGCCAGTGACAAGA 60.304 57.895 27.24 0.00 34.56 3.02
1617 1671 2.482796 ATCGCCATGGCCAGTGACAA 62.483 55.000 30.79 6.66 37.98 3.18
1623 1677 0.179048 TTCAGTATCGCCATGGCCAG 60.179 55.000 30.79 17.97 37.98 4.85
1654 1708 2.064573 TCAGTATCTGCACACACACG 57.935 50.000 0.00 0.00 0.00 4.49
1658 1712 4.058124 GTGTTCTTCAGTATCTGCACACA 58.942 43.478 0.00 0.00 32.96 3.72
1796 1868 1.675219 GTCCGGTGGTTCCTAGCAA 59.325 57.895 0.00 0.00 32.77 3.91
1797 1869 2.642254 CGTCCGGTGGTTCCTAGCA 61.642 63.158 0.00 0.00 0.00 3.49
1798 1870 2.183555 CGTCCGGTGGTTCCTAGC 59.816 66.667 0.00 0.00 0.00 3.42
1811 1883 0.179124 GGTCAGATGAGCAGACGTCC 60.179 60.000 13.01 0.00 41.81 4.79
1812 1884 0.528017 TGGTCAGATGAGCAGACGTC 59.472 55.000 7.70 7.70 46.24 4.34
1860 1932 4.012895 AAGCGTCAAACTGCGGCG 62.013 61.111 0.51 0.51 35.87 6.46
1894 1966 6.295249 AGAAGAGAAGAGAAGGGTGAAAAAG 58.705 40.000 0.00 0.00 0.00 2.27
1897 1969 5.151454 AGAGAAGAGAAGAGAAGGGTGAAA 58.849 41.667 0.00 0.00 0.00 2.69
1898 1970 4.746466 AGAGAAGAGAAGAGAAGGGTGAA 58.254 43.478 0.00 0.00 0.00 3.18
1899 1971 4.396357 AGAGAAGAGAAGAGAAGGGTGA 57.604 45.455 0.00 0.00 0.00 4.02
1900 1972 4.772100 AGAAGAGAAGAGAAGAGAAGGGTG 59.228 45.833 0.00 0.00 0.00 4.61
1901 1973 5.010708 AGAAGAGAAGAGAAGAGAAGGGT 57.989 43.478 0.00 0.00 0.00 4.34
1902 1974 4.402474 GGAGAAGAGAAGAGAAGAGAAGGG 59.598 50.000 0.00 0.00 0.00 3.95
1903 1975 5.016173 TGGAGAAGAGAAGAGAAGAGAAGG 58.984 45.833 0.00 0.00 0.00 3.46
1904 1976 5.391950 CGTGGAGAAGAGAAGAGAAGAGAAG 60.392 48.000 0.00 0.00 0.00 2.85
1905 1977 4.457603 CGTGGAGAAGAGAAGAGAAGAGAA 59.542 45.833 0.00 0.00 0.00 2.87
1906 1978 4.006989 CGTGGAGAAGAGAAGAGAAGAGA 58.993 47.826 0.00 0.00 0.00 3.10
1907 1979 3.128589 CCGTGGAGAAGAGAAGAGAAGAG 59.871 52.174 0.00 0.00 0.00 2.85
1908 1980 3.085533 CCGTGGAGAAGAGAAGAGAAGA 58.914 50.000 0.00 0.00 0.00 2.87
1909 1981 2.823154 ACCGTGGAGAAGAGAAGAGAAG 59.177 50.000 0.00 0.00 0.00 2.85
1910 1982 2.877866 ACCGTGGAGAAGAGAAGAGAA 58.122 47.619 0.00 0.00 0.00 2.87
1911 1983 2.558795 CAACCGTGGAGAAGAGAAGAGA 59.441 50.000 0.00 0.00 0.00 3.10
1915 1987 1.000955 GAGCAACCGTGGAGAAGAGAA 59.999 52.381 0.00 0.00 0.00 2.87
1946 2018 1.135859 GCAGTGAGACATCAAAAGCGG 60.136 52.381 0.00 0.00 37.14 5.52
1947 2019 1.135859 GGCAGTGAGACATCAAAAGCG 60.136 52.381 0.00 0.00 37.14 4.68
1948 2020 1.881973 TGGCAGTGAGACATCAAAAGC 59.118 47.619 0.00 0.00 37.14 3.51
1949 2021 3.058432 CAGTGGCAGTGAGACATCAAAAG 60.058 47.826 17.46 0.00 37.77 2.27
1991 2063 6.058833 TCAACATTCCTAACAACAAGCTACA 58.941 36.000 0.00 0.00 0.00 2.74
2048 2120 3.445096 AGAAGAGAAGAGAAGAGAGCAGC 59.555 47.826 0.00 0.00 0.00 5.25
2052 2124 4.399303 GGTGGAGAAGAGAAGAGAAGAGAG 59.601 50.000 0.00 0.00 0.00 3.20
2056 2128 2.823154 ACGGTGGAGAAGAGAAGAGAAG 59.177 50.000 0.00 0.00 0.00 2.85
2057 2129 2.877866 ACGGTGGAGAAGAGAAGAGAA 58.122 47.619 0.00 0.00 0.00 2.87
2058 2130 2.558795 CAACGGTGGAGAAGAGAAGAGA 59.441 50.000 0.00 0.00 0.00 3.10
2059 2131 2.928731 GCAACGGTGGAGAAGAGAAGAG 60.929 54.545 0.90 0.00 0.00 2.85
2060 2132 1.000955 GCAACGGTGGAGAAGAGAAGA 59.999 52.381 0.90 0.00 0.00 2.87
2089 2161 1.784062 CGACCAGCTTTGCGAAGAG 59.216 57.895 18.32 8.58 34.71 2.85
2182 2254 4.406649 CCTCCTCCCGGTTTACACTTATAA 59.593 45.833 0.00 0.00 0.00 0.98
2184 2256 2.770232 CCTCCTCCCGGTTTACACTTAT 59.230 50.000 0.00 0.00 0.00 1.73
2186 2258 0.981943 CCTCCTCCCGGTTTACACTT 59.018 55.000 0.00 0.00 0.00 3.16
2187 2259 1.551019 GCCTCCTCCCGGTTTACACT 61.551 60.000 0.00 0.00 0.00 3.55
2188 2260 1.078637 GCCTCCTCCCGGTTTACAC 60.079 63.158 0.00 0.00 0.00 2.90
2189 2261 1.536907 TGCCTCCTCCCGGTTTACA 60.537 57.895 0.00 0.00 0.00 2.41
2190 2262 1.078637 GTGCCTCCTCCCGGTTTAC 60.079 63.158 0.00 0.00 0.00 2.01
2192 2264 2.852075 TGTGCCTCCTCCCGGTTT 60.852 61.111 0.00 0.00 0.00 3.27
2199 2271 4.400961 AAGCCGCTGTGCCTCCTC 62.401 66.667 0.00 0.00 0.00 3.71
2212 2284 1.590259 GACGCTGATCCTCGAAGCC 60.590 63.158 10.14 0.00 33.24 4.35
2230 2302 1.301558 GCCTCCCATCATCAGCGAG 60.302 63.158 0.00 0.00 0.00 5.03
2232 2306 1.153107 TTGCCTCCCATCATCAGCG 60.153 57.895 0.00 0.00 0.00 5.18
2235 2309 0.394762 GCTGTTGCCTCCCATCATCA 60.395 55.000 0.00 0.00 0.00 3.07
2254 2328 9.370126 CGAAAATCTAGGCAAATAATAGAAACG 57.630 33.333 0.00 0.00 0.00 3.60
2280 2354 3.550030 GGCCTTGTGACATGTACAAACAC 60.550 47.826 17.47 17.47 38.78 3.32
2284 2358 2.226330 GTGGCCTTGTGACATGTACAA 58.774 47.619 3.32 15.45 36.66 2.41
2285 2359 1.141858 TGTGGCCTTGTGACATGTACA 59.858 47.619 3.32 0.00 0.00 2.90
2286 2360 1.890876 TGTGGCCTTGTGACATGTAC 58.109 50.000 3.32 0.00 0.00 2.90
2287 2361 2.503331 CTTGTGGCCTTGTGACATGTA 58.497 47.619 3.32 0.00 0.00 2.29
2289 2363 0.599558 CCTTGTGGCCTTGTGACATG 59.400 55.000 3.32 1.50 0.00 3.21
2291 2365 0.257328 TTCCTTGTGGCCTTGTGACA 59.743 50.000 3.32 0.00 0.00 3.58
2292 2366 1.398692 TTTCCTTGTGGCCTTGTGAC 58.601 50.000 3.32 0.00 0.00 3.67
2294 2368 2.977772 TTTTTCCTTGTGGCCTTGTG 57.022 45.000 3.32 0.00 0.00 3.33
2359 2433 2.825861 AACTGCTTGCATTTTCAGGG 57.174 45.000 0.00 0.00 0.00 4.45
2411 2485 1.134995 TGCAAGTCATGTAGCTCCTCG 60.135 52.381 0.00 0.00 0.00 4.63
2429 2508 2.686915 AGCTTATTCATCAGGTGCTTGC 59.313 45.455 0.00 0.00 0.00 4.01
2434 2513 3.011818 TGTGCAGCTTATTCATCAGGTG 58.988 45.455 0.00 0.00 40.76 4.00
2435 2514 3.354948 TGTGCAGCTTATTCATCAGGT 57.645 42.857 0.00 0.00 0.00 4.00
2443 2522 3.285484 CCTCCTCATTGTGCAGCTTATT 58.715 45.455 0.00 0.00 0.00 1.40
2455 2537 7.698163 AATTCCTCTACAATACCTCCTCATT 57.302 36.000 0.00 0.00 0.00 2.57
2487 2583 8.443176 TCTCATATTTTCTCCCTCTGCATATTT 58.557 33.333 0.00 0.00 0.00 1.40
2506 2603 8.481314 TGCATCTTCTTGTAAACTCTCTCATAT 58.519 33.333 0.00 0.00 0.00 1.78
2507 2604 7.840931 TGCATCTTCTTGTAAACTCTCTCATA 58.159 34.615 0.00 0.00 0.00 2.15
2512 2609 5.389935 CCGTTGCATCTTCTTGTAAACTCTC 60.390 44.000 0.00 0.00 0.00 3.20
2516 2613 3.058224 AGCCGTTGCATCTTCTTGTAAAC 60.058 43.478 0.00 0.00 41.13 2.01
2527 2624 0.799534 GCATGAACAGCCGTTGCATC 60.800 55.000 0.00 0.00 41.13 3.91
2529 2626 1.454572 AAGCATGAACAGCCGTTGCA 61.455 50.000 0.00 0.00 41.13 4.08
2580 2683 2.000447 GACTGTTCCTATTGACACCGC 59.000 52.381 0.00 0.00 0.00 5.68
2582 2685 3.600388 CCTGACTGTTCCTATTGACACC 58.400 50.000 0.00 0.00 0.00 4.16
2583 2686 3.260884 TCCCTGACTGTTCCTATTGACAC 59.739 47.826 0.00 0.00 0.00 3.67
2585 2688 3.118592 CCTCCCTGACTGTTCCTATTGAC 60.119 52.174 0.00 0.00 0.00 3.18
2619 2722 1.160137 GGGTCAGCTTAGCACTGTTG 58.840 55.000 7.07 0.00 36.50 3.33
2631 2734 5.221126 GGATGAATAAATGAAGTGGGTCAGC 60.221 44.000 0.00 0.00 0.00 4.26
2636 2739 3.569701 CCCGGATGAATAAATGAAGTGGG 59.430 47.826 0.73 0.00 0.00 4.61
2651 2760 2.429250 TGTACTGTGTGATACCCGGATG 59.571 50.000 0.73 0.00 0.00 3.51
2702 2814 0.098376 AGTAGTCGCTCGCTTTACGG 59.902 55.000 0.00 0.00 43.89 4.02
2706 2818 1.132643 CTGGTAGTAGTCGCTCGCTTT 59.867 52.381 0.00 0.00 0.00 3.51
2707 2819 0.733729 CTGGTAGTAGTCGCTCGCTT 59.266 55.000 0.00 0.00 0.00 4.68
2708 2820 1.096386 CCTGGTAGTAGTCGCTCGCT 61.096 60.000 0.00 0.00 0.00 4.93
2709 2821 1.355916 CCTGGTAGTAGTCGCTCGC 59.644 63.158 0.00 0.00 0.00 5.03
2710 2822 0.747283 ACCCTGGTAGTAGTCGCTCG 60.747 60.000 0.00 0.00 0.00 5.03
2711 2823 1.404748 GAACCCTGGTAGTAGTCGCTC 59.595 57.143 0.00 0.00 0.00 5.03
2712 2824 1.272313 TGAACCCTGGTAGTAGTCGCT 60.272 52.381 0.00 0.00 0.00 4.93
2713 2825 1.134560 CTGAACCCTGGTAGTAGTCGC 59.865 57.143 0.00 0.00 0.00 5.19
2714 2826 2.444421 ACTGAACCCTGGTAGTAGTCG 58.556 52.381 0.00 0.00 0.00 4.18
2715 2827 4.087907 AGAACTGAACCCTGGTAGTAGTC 58.912 47.826 0.00 0.00 0.00 2.59
2716 2828 4.129317 AGAACTGAACCCTGGTAGTAGT 57.871 45.455 0.00 0.00 0.00 2.73
2717 2829 5.246429 AGAAAGAACTGAACCCTGGTAGTAG 59.754 44.000 0.00 0.00 0.00 2.57
2718 2830 5.152934 AGAAAGAACTGAACCCTGGTAGTA 58.847 41.667 0.00 0.00 0.00 1.82
2719 2831 3.974642 AGAAAGAACTGAACCCTGGTAGT 59.025 43.478 0.00 0.00 0.00 2.73
2720 2832 4.625607 AGAAAGAACTGAACCCTGGTAG 57.374 45.455 0.00 0.00 0.00 3.18
2721 2833 4.903049 TGTAGAAAGAACTGAACCCTGGTA 59.097 41.667 0.00 0.00 0.00 3.25
2722 2834 3.714798 TGTAGAAAGAACTGAACCCTGGT 59.285 43.478 0.00 0.00 0.00 4.00
2723 2835 4.351874 TGTAGAAAGAACTGAACCCTGG 57.648 45.455 0.00 0.00 0.00 4.45
2724 2836 5.551233 TCATGTAGAAAGAACTGAACCCTG 58.449 41.667 0.00 0.00 0.00 4.45
2725 2837 5.825593 TCATGTAGAAAGAACTGAACCCT 57.174 39.130 0.00 0.00 0.00 4.34
2726 2838 5.586643 GGATCATGTAGAAAGAACTGAACCC 59.413 44.000 0.00 0.00 0.00 4.11
2727 2839 6.410540 AGGATCATGTAGAAAGAACTGAACC 58.589 40.000 0.00 0.00 0.00 3.62
2728 2840 7.913674 AAGGATCATGTAGAAAGAACTGAAC 57.086 36.000 0.00 0.00 0.00 3.18
2729 2841 9.436957 GTTAAGGATCATGTAGAAAGAACTGAA 57.563 33.333 0.00 0.00 0.00 3.02
2730 2842 7.759886 CGTTAAGGATCATGTAGAAAGAACTGA 59.240 37.037 0.00 0.00 0.00 3.41
2731 2843 7.759886 TCGTTAAGGATCATGTAGAAAGAACTG 59.240 37.037 0.00 0.00 0.00 3.16
2732 2844 7.837863 TCGTTAAGGATCATGTAGAAAGAACT 58.162 34.615 0.00 0.00 0.00 3.01
2733 2845 8.381387 GTTCGTTAAGGATCATGTAGAAAGAAC 58.619 37.037 0.00 2.10 0.00 3.01
2734 2846 8.311836 AGTTCGTTAAGGATCATGTAGAAAGAA 58.688 33.333 8.50 0.00 0.00 2.52
2735 2847 7.837863 AGTTCGTTAAGGATCATGTAGAAAGA 58.162 34.615 8.50 0.00 0.00 2.52
2736 2848 9.021863 GTAGTTCGTTAAGGATCATGTAGAAAG 57.978 37.037 8.50 0.00 0.00 2.62
2737 2849 8.922058 GTAGTTCGTTAAGGATCATGTAGAAA 57.078 34.615 8.50 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.