Multiple sequence alignment - TraesCS7D01G242200

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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 TraesCS7D01G242200 chr7D 100.000 2798 0 0 1 2798 206610421 206607624 0.000000e+00 5168
1 TraesCS7D01G242200 chr7B 93.774 2313 102 21 1 2295 194755495 194757783 0.000000e+00 3435
2 TraesCS7D01G242200 chr7B 93.651 315 13 4 2409 2719 194757838 194758149 5.460000e-127 464
3 TraesCS7D01G242200 chr7B 96.591 88 3 0 2711 2798 194758543 194758630 2.250000e-31 147
4 TraesCS7D01G242200 chr7A 94.379 2028 91 12 1 2024 219033669 219031661 0.000000e+00 3092
5 TraesCS7D01G242200 chr4D 84.404 218 29 5 2085 2299 56953366 56953581 2.820000e-50 209
6 TraesCS7D01G242200 chrUn 82.273 220 25 6 2085 2303 268461 268667 7.960000e-41 178
7 TraesCS7D01G242200 chr4A 81.057 227 31 11 2080 2301 38228079 38228298 1.330000e-38 171
8 TraesCS7D01G242200 chr1A 81.279 219 26 7 2085 2303 23211671 23211874 2.230000e-36 163


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 TraesCS7D01G242200 chr7D 206607624 206610421 2797 True 5168.000000 5168 100.000 1 2798 1 chr7D.!!$R1 2797
1 TraesCS7D01G242200 chr7B 194755495 194758630 3135 False 1348.666667 3435 94.672 1 2798 3 chr7B.!!$F1 2797
2 TraesCS7D01G242200 chr7A 219031661 219033669 2008 True 3092.000000 3092 94.379 1 2024 1 chr7A.!!$R1 2023

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
476 480 0.741326 GCTGAGATCTGCAGGACGTA 59.259 55.0 15.13 0.0 40.06 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2461 2493 0.315251 GGCTCTTTGGTGCTTCAACC 59.685 55.0 0.0 0.0 40.94 3.77 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
29 30 2.364002 GCACACTCCCTCTTATCTCTCC 59.636 54.545 0.00 0.00 0.00 3.71
78 80 2.033141 TGCTGCCTTCACTGCTCC 59.967 61.111 0.00 0.00 35.70 4.70
166 168 3.548587 CGCAAATGCTCAAATATCCTCG 58.451 45.455 3.63 0.00 39.32 4.63
170 172 0.880278 TGCTCAAATATCCTCGCGCC 60.880 55.000 0.00 0.00 0.00 6.53
207 210 3.503363 TGTGTTTGCAATCTGAGCTTAGG 59.497 43.478 5.56 0.00 0.00 2.69
272 275 3.618351 CTGCATTTGGATCTGTTCTCCT 58.382 45.455 0.00 0.00 33.69 3.69
322 325 2.099592 TCTCGTTGTGTACTTTCGTGGT 59.900 45.455 0.00 0.00 0.00 4.16
389 393 1.224965 GCTCTCGGATTCAGGAATGC 58.775 55.000 0.00 1.21 36.04 3.56
476 480 0.741326 GCTGAGATCTGCAGGACGTA 59.259 55.000 15.13 0.00 40.06 3.57
481 485 2.946329 GAGATCTGCAGGACGTAAGAGA 59.054 50.000 15.13 0.00 43.62 3.10
551 557 3.343941 TTGGTAGGTAGCACATGTTCC 57.656 47.619 0.00 0.00 32.83 3.62
655 663 2.043227 AGGCCCAGTACATTAGCTCTC 58.957 52.381 0.00 0.00 0.00 3.20
764 772 2.415893 CGCCTTGCAATTCTCGGAAATT 60.416 45.455 0.00 0.00 0.00 1.82
840 849 8.872845 CCACAATTTAAAATCTCCTGTTATTGC 58.127 33.333 0.00 0.00 0.00 3.56
886 895 4.208253 CGTTTTTGTGGGTGTAGAATTTGC 59.792 41.667 0.00 0.00 0.00 3.68
888 897 4.582701 TTTGTGGGTGTAGAATTTGCAG 57.417 40.909 0.00 0.00 0.00 4.41
891 900 2.488153 GTGGGTGTAGAATTTGCAGACC 59.512 50.000 0.00 0.00 0.00 3.85
914 923 5.534654 CCAGGTAATTCAGGTTCTTGTGAAA 59.465 40.000 0.00 0.00 36.31 2.69
915 924 6.209391 CCAGGTAATTCAGGTTCTTGTGAAAT 59.791 38.462 0.00 0.00 36.31 2.17
917 926 8.454106 CAGGTAATTCAGGTTCTTGTGAAATAG 58.546 37.037 0.00 0.00 36.31 1.73
918 927 7.121315 AGGTAATTCAGGTTCTTGTGAAATAGC 59.879 37.037 0.00 0.00 37.05 2.97
981 990 1.000896 ACCTCAGGGATTTTGGGCG 60.001 57.895 0.00 0.00 36.25 6.13
1023 1032 4.084287 TGAAGCTCAGATCAGGCATTTTT 58.916 39.130 0.00 0.00 0.00 1.94
1024 1033 5.255687 TGAAGCTCAGATCAGGCATTTTTA 58.744 37.500 0.00 0.00 0.00 1.52
1071 1080 3.008517 TCCTCCCCAGCATTCGCA 61.009 61.111 0.00 0.00 42.27 5.10
1233 1242 0.178958 AGACCAACGTCCTGGAGACT 60.179 55.000 13.22 6.46 43.91 3.24
1395 1404 0.179108 CCAAGTACTACTCGCTGGCC 60.179 60.000 0.00 0.00 0.00 5.36
1791 1800 1.890979 CGGTGGCCTGATGATGCTC 60.891 63.158 3.32 0.00 0.00 4.26
1799 1808 2.680221 GCCTGATGATGCTCTTGTGAGT 60.680 50.000 0.00 0.00 42.13 3.41
1805 1814 2.233186 TGATGCTCTTGTGAGTGAGAGG 59.767 50.000 2.93 0.00 42.13 3.69
1901 1910 4.119442 TCTTTGGACATAGTAGGCGTTC 57.881 45.455 0.00 0.00 0.00 3.95
2079 2092 3.577805 AGGAGGATTACCCGGAAAATG 57.422 47.619 0.73 0.00 40.87 2.32
2092 2105 0.449388 GAAAATGCACAGGAGCTCCG 59.551 55.000 26.95 22.44 42.08 4.63
2170 2183 5.433051 AGAATCTTGGGATATCAAACCTGGA 59.567 40.000 0.00 0.86 0.00 3.86
2184 2197 5.014123 TCAAACCTGGATGTCCAATCTACTT 59.986 40.000 0.00 0.00 46.97 2.24
2186 2199 3.456277 ACCTGGATGTCCAATCTACTTCC 59.544 47.826 0.00 0.00 46.97 3.46
2205 2218 5.762045 CTTCCATGTGAAGTTTCGTGAAAT 58.238 37.500 13.02 0.00 44.59 2.17
2210 2223 9.004717 TCCATGTGAAGTTTCGTGAAATAATAA 57.995 29.630 0.00 0.00 32.36 1.40
2240 2254 5.829829 AGGTATCCGAGACGAAGAAAATAC 58.170 41.667 0.00 0.00 0.00 1.89
2246 2260 3.671433 CGAGACGAAGAAAATACGGTCCA 60.671 47.826 0.00 0.00 0.00 4.02
2270 2284 4.202673 ACCTATGATCCACCCAAACAGTTT 60.203 41.667 0.00 0.00 0.00 2.66
2318 2336 9.959749 TGTCTTTTTACAAATGTCATTTCTACC 57.040 29.630 7.87 0.00 0.00 3.18
2319 2337 9.406828 GTCTTTTTACAAATGTCATTTCTACCC 57.593 33.333 7.87 0.00 0.00 3.69
2320 2338 8.293867 TCTTTTTACAAATGTCATTTCTACCCG 58.706 33.333 7.87 0.00 0.00 5.28
2321 2339 6.503589 TTTACAAATGTCATTTCTACCCGG 57.496 37.500 7.87 0.00 0.00 5.73
2322 2340 4.028993 ACAAATGTCATTTCTACCCGGT 57.971 40.909 7.87 0.00 0.00 5.28
2323 2341 3.756434 ACAAATGTCATTTCTACCCGGTG 59.244 43.478 7.87 0.00 0.00 4.94
2324 2342 2.710096 ATGTCATTTCTACCCGGTGG 57.290 50.000 0.00 0.00 37.80 4.61
2326 2344 2.538222 TGTCATTTCTACCCGGTGGTA 58.462 47.619 0.00 0.00 45.45 3.25
2327 2345 2.234414 TGTCATTTCTACCCGGTGGTAC 59.766 50.000 0.00 0.00 45.45 3.34
2328 2346 2.234414 GTCATTTCTACCCGGTGGTACA 59.766 50.000 0.00 0.00 45.45 2.90
2329 2347 3.109151 TCATTTCTACCCGGTGGTACAT 58.891 45.455 0.00 0.00 45.45 2.29
2330 2348 4.099881 GTCATTTCTACCCGGTGGTACATA 59.900 45.833 0.00 0.00 45.45 2.29
2331 2349 4.342951 TCATTTCTACCCGGTGGTACATAG 59.657 45.833 0.00 0.00 45.45 2.23
2332 2350 2.369983 TCTACCCGGTGGTACATAGG 57.630 55.000 0.00 0.00 45.45 2.57
2333 2351 1.852309 TCTACCCGGTGGTACATAGGA 59.148 52.381 0.00 0.00 45.45 2.94
2334 2352 2.448194 TCTACCCGGTGGTACATAGGAT 59.552 50.000 0.00 0.00 45.45 3.24
2335 2353 2.185663 ACCCGGTGGTACATAGGATT 57.814 50.000 0.00 0.00 45.45 3.01
2336 2354 2.484602 ACCCGGTGGTACATAGGATTT 58.515 47.619 0.00 0.00 45.45 2.17
2337 2355 2.848071 ACCCGGTGGTACATAGGATTTT 59.152 45.455 0.00 0.00 45.45 1.82
2338 2356 3.267551 ACCCGGTGGTACATAGGATTTTT 59.732 43.478 0.00 0.00 45.45 1.94
2389 2421 3.689649 GTCATTTGCACGGGAGTAGATTT 59.310 43.478 0.00 0.00 44.67 2.17
2399 2431 2.092914 GGGAGTAGATTTGACACCCAGG 60.093 54.545 3.71 0.00 44.62 4.45
2402 2434 4.506802 GGAGTAGATTTGACACCCAGGTTT 60.507 45.833 0.00 0.00 0.00 3.27
2403 2435 4.398319 AGTAGATTTGACACCCAGGTTTG 58.602 43.478 0.00 0.00 0.00 2.93
2404 2436 3.593442 AGATTTGACACCCAGGTTTGA 57.407 42.857 0.00 0.00 0.00 2.69
2405 2437 4.118168 AGATTTGACACCCAGGTTTGAT 57.882 40.909 0.00 0.00 0.00 2.57
2406 2438 5.255397 AGATTTGACACCCAGGTTTGATA 57.745 39.130 0.00 0.00 0.00 2.15
2407 2439 5.831103 AGATTTGACACCCAGGTTTGATAT 58.169 37.500 0.00 0.00 0.00 1.63
2408 2440 5.888161 AGATTTGACACCCAGGTTTGATATC 59.112 40.000 0.00 0.00 0.00 1.63
2409 2441 3.644966 TGACACCCAGGTTTGATATCC 57.355 47.619 0.00 0.00 0.00 2.59
2410 2442 2.241176 TGACACCCAGGTTTGATATCCC 59.759 50.000 0.00 0.00 0.00 3.85
2411 2443 2.241176 GACACCCAGGTTTGATATCCCA 59.759 50.000 0.00 0.00 0.00 4.37
2412 2444 2.242196 ACACCCAGGTTTGATATCCCAG 59.758 50.000 0.00 0.00 0.00 4.45
2413 2445 2.509548 CACCCAGGTTTGATATCCCAGA 59.490 50.000 0.00 0.00 0.00 3.86
2466 2498 9.928618 TGAATTTAATGTTCATATAGGGGTTGA 57.071 29.630 0.98 0.00 31.07 3.18
2469 2501 7.817418 TTAATGTTCATATAGGGGTTGAAGC 57.183 36.000 0.00 0.00 30.50 3.86
2470 2502 4.853468 TGTTCATATAGGGGTTGAAGCA 57.147 40.909 0.00 0.00 30.50 3.91
2471 2503 4.523083 TGTTCATATAGGGGTTGAAGCAC 58.477 43.478 0.00 0.00 30.50 4.40
2475 2507 2.990740 ATAGGGGTTGAAGCACCAAA 57.009 45.000 0.00 0.00 38.79 3.28
2488 2520 2.967887 AGCACCAAAGAGCCAAAAATCT 59.032 40.909 0.00 0.00 0.00 2.40
2501 2533 5.009010 AGCCAAAAATCTGCGTCCATATTAG 59.991 40.000 0.00 0.00 0.00 1.73
2537 2569 1.779025 GATGCACATAGCCACAGCCG 61.779 60.000 0.00 0.00 44.83 5.52
2561 2593 7.043125 CCGTTACTTCTCATGTACATGATCTTG 60.043 40.741 32.97 22.93 45.74 3.02
2587 2620 9.577110 GAAGAAGAAAATGACATGCATATGAAA 57.423 29.630 6.97 0.00 35.78 2.69
2616 2649 6.317893 TCCCTCGTTTTCAAAATATAAGGAGC 59.682 38.462 0.00 0.00 33.47 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 43 1.553690 CGAACAGGGTGAGGTGGGAT 61.554 60.000 0.00 0.00 0.00 3.85
166 168 3.125573 GGAGACCCGAAAAGGCGC 61.126 66.667 0.00 0.00 39.21 6.53
170 172 2.185004 ACACATGGAGACCCGAAAAG 57.815 50.000 0.00 0.00 34.29 2.27
227 230 0.734942 GTACGCGCCTGTGAGCTAAA 60.735 55.000 5.73 0.00 34.82 1.85
234 237 2.098298 GCAATGTACGCGCCTGTG 59.902 61.111 5.73 0.00 0.00 3.66
272 275 2.344592 TCTTCCTTGGGCCAAGAACTA 58.655 47.619 40.88 23.26 43.42 2.24
322 325 4.612712 CGTTGCTTCGGCTGAAAATAAGAA 60.613 41.667 9.73 0.00 42.37 2.52
389 393 2.543430 CAGGGAAAACCAACAAATTGCG 59.457 45.455 0.00 0.00 43.89 4.85
551 557 1.268032 GCAGAATTGACCGGCATTACG 60.268 52.381 0.00 0.00 0.00 3.18
655 663 7.307493 TGTGGTTCAATTAGATCTTTCATCG 57.693 36.000 0.00 0.00 0.00 3.84
764 772 2.151202 GGTTCTTCCGATTTCTGCACA 58.849 47.619 0.00 0.00 0.00 4.57
784 792 0.666274 TGCAGGAACAGTAACTCGCG 60.666 55.000 0.00 0.00 0.00 5.87
840 849 6.258507 ACGCGGTAATTACTTAATTTACTGGG 59.741 38.462 12.47 13.23 37.16 4.45
886 895 4.559862 AGAACCTGAATTACCTGGTCTG 57.440 45.455 0.63 0.00 37.39 3.51
888 897 4.455877 CACAAGAACCTGAATTACCTGGTC 59.544 45.833 0.63 0.00 37.39 4.02
891 900 6.633500 TTTCACAAGAACCTGAATTACCTG 57.367 37.500 0.00 0.00 32.39 4.00
914 923 5.088739 CACTGAATTTTCTTTTCGCGCTAT 58.911 37.500 5.56 0.00 0.00 2.97
915 924 4.463209 CACTGAATTTTCTTTTCGCGCTA 58.537 39.130 5.56 0.00 0.00 4.26
917 926 2.160104 GCACTGAATTTTCTTTTCGCGC 60.160 45.455 0.00 0.00 0.00 6.86
918 927 3.300009 AGCACTGAATTTTCTTTTCGCG 58.700 40.909 0.00 0.00 0.00 5.87
981 990 1.207791 TCCTGAAGATCCCCTGCTTC 58.792 55.000 0.00 0.00 40.62 3.86
1012 1021 0.885196 GCCACGGTAAAAATGCCTGA 59.115 50.000 0.00 0.00 0.00 3.86
1023 1032 4.830765 GCGAGCATGGCCACGGTA 62.831 66.667 8.16 0.00 31.66 4.02
1071 1080 1.545706 GGGGGCTCTTCGTCTTCTGT 61.546 60.000 0.00 0.00 0.00 3.41
1233 1242 1.227999 CGTTCGCCTTGCTCTGGAAA 61.228 55.000 0.00 0.00 0.00 3.13
1395 1404 1.194098 CTGCTCAGCTTGTTGAACTCG 59.806 52.381 0.00 0.00 0.00 4.18
1791 1800 4.159321 TCTCATTAGCCTCTCACTCACAAG 59.841 45.833 0.00 0.00 0.00 3.16
1799 1808 3.053320 TGACCTCTCTCATTAGCCTCTCA 60.053 47.826 0.00 0.00 0.00 3.27
1805 1814 2.482839 GCCACTGACCTCTCTCATTAGC 60.483 54.545 0.00 0.00 0.00 3.09
1869 1878 7.009179 ACTATGTCCAAAGAATGAACTCAGA 57.991 36.000 0.00 0.00 0.00 3.27
1901 1910 6.542735 AGCATATATGATGCAAATCCTAGCAG 59.457 38.462 17.10 0.00 46.77 4.24
2060 2073 1.954382 GCATTTTCCGGGTAATCCTCC 59.046 52.381 0.00 0.00 0.00 4.30
2063 2076 2.096248 TGTGCATTTTCCGGGTAATCC 58.904 47.619 0.00 0.00 0.00 3.01
2092 2105 9.466497 TTGAATTTGATATTCATATAGGAGGGC 57.534 33.333 0.00 0.00 37.79 5.19
2146 2159 5.433051 TCCAGGTTTGATATCCCAAGATTCT 59.567 40.000 0.00 0.00 33.67 2.40
2164 2177 6.352907 ATGGAAGTAGATTGGACATCCAGGT 61.353 44.000 0.00 0.00 45.16 4.00
2165 2178 4.103785 ATGGAAGTAGATTGGACATCCAGG 59.896 45.833 0.00 0.00 45.16 4.45
2170 2183 5.698741 TCACATGGAAGTAGATTGGACAT 57.301 39.130 0.00 0.00 0.00 3.06
2184 2197 6.869315 TTATTTCACGAAACTTCACATGGA 57.131 33.333 0.00 0.00 32.51 3.41
2186 2199 9.605955 TGTTATTATTTCACGAAACTTCACATG 57.394 29.630 0.00 0.00 32.51 3.21
2218 2232 4.674211 CGTATTTTCTTCGTCTCGGATACC 59.326 45.833 0.00 0.00 0.00 2.73
2240 2254 1.202651 GGTGGATCATAGGTTGGACCG 60.203 57.143 0.00 0.00 44.90 4.79
2246 2260 3.333680 ACTGTTTGGGTGGATCATAGGTT 59.666 43.478 0.00 0.00 0.00 3.50
2295 2313 7.540745 CCGGGTAGAAATGACATTTGTAAAAAG 59.459 37.037 18.00 9.96 31.01 2.27
2296 2314 7.014422 ACCGGGTAGAAATGACATTTGTAAAAA 59.986 33.333 18.00 0.00 31.01 1.94
2297 2315 6.490721 ACCGGGTAGAAATGACATTTGTAAAA 59.509 34.615 18.00 0.00 31.01 1.52
2298 2316 6.005198 ACCGGGTAGAAATGACATTTGTAAA 58.995 36.000 18.00 0.00 31.01 2.01
2299 2317 5.413213 CACCGGGTAGAAATGACATTTGTAA 59.587 40.000 18.00 0.77 31.01 2.41
2300 2318 4.938832 CACCGGGTAGAAATGACATTTGTA 59.061 41.667 18.00 14.98 31.47 2.41
2301 2319 3.756434 CACCGGGTAGAAATGACATTTGT 59.244 43.478 18.00 16.00 31.47 2.83
2302 2320 3.128589 CCACCGGGTAGAAATGACATTTG 59.871 47.826 18.00 4.61 31.47 2.32
2303 2321 3.352648 CCACCGGGTAGAAATGACATTT 58.647 45.455 13.24 13.24 34.64 2.32
2304 2322 2.999331 CCACCGGGTAGAAATGACATT 58.001 47.619 6.32 0.00 0.00 2.71
2305 2323 2.710096 CCACCGGGTAGAAATGACAT 57.290 50.000 6.32 0.00 0.00 3.06
2317 2335 3.570912 AAAATCCTATGTACCACCGGG 57.429 47.619 6.32 0.00 41.29 5.73
2336 2354 8.223177 TGGTAATCTCCGTAAAAAGACAAAAA 57.777 30.769 0.00 0.00 0.00 1.94
2337 2355 7.804843 TGGTAATCTCCGTAAAAAGACAAAA 57.195 32.000 0.00 0.00 0.00 2.44
2338 2356 7.662258 TCATGGTAATCTCCGTAAAAAGACAAA 59.338 33.333 0.00 0.00 0.00 2.83
2339 2357 7.162761 TCATGGTAATCTCCGTAAAAAGACAA 58.837 34.615 0.00 0.00 0.00 3.18
2340 2358 6.703319 TCATGGTAATCTCCGTAAAAAGACA 58.297 36.000 0.00 0.00 0.00 3.41
2341 2359 7.605410 TTCATGGTAATCTCCGTAAAAAGAC 57.395 36.000 0.00 0.00 0.00 3.01
2342 2360 7.827236 ACATTCATGGTAATCTCCGTAAAAAGA 59.173 33.333 0.00 0.00 0.00 2.52
2343 2361 7.985476 ACATTCATGGTAATCTCCGTAAAAAG 58.015 34.615 0.00 0.00 0.00 2.27
2344 2362 7.608376 TGACATTCATGGTAATCTCCGTAAAAA 59.392 33.333 0.00 0.00 0.00 1.94
2345 2363 7.106890 TGACATTCATGGTAATCTCCGTAAAA 58.893 34.615 0.00 0.00 0.00 1.52
2346 2364 6.645306 TGACATTCATGGTAATCTCCGTAAA 58.355 36.000 0.00 0.00 0.00 2.01
2347 2365 6.228616 TGACATTCATGGTAATCTCCGTAA 57.771 37.500 0.00 0.00 0.00 3.18
2348 2366 5.862678 TGACATTCATGGTAATCTCCGTA 57.137 39.130 0.00 0.00 0.00 4.02
2349 2367 4.753516 TGACATTCATGGTAATCTCCGT 57.246 40.909 0.00 0.00 0.00 4.69
2350 2368 6.432936 CAAATGACATTCATGGTAATCTCCG 58.567 40.000 0.05 0.00 37.15 4.63
2351 2369 6.183360 TGCAAATGACATTCATGGTAATCTCC 60.183 38.462 0.05 0.00 37.15 3.71
2352 2370 6.694411 GTGCAAATGACATTCATGGTAATCTC 59.306 38.462 0.05 0.00 37.15 2.75
2353 2371 6.567050 GTGCAAATGACATTCATGGTAATCT 58.433 36.000 0.05 0.00 37.15 2.40
2356 2374 4.380339 CCGTGCAAATGACATTCATGGTAA 60.380 41.667 15.40 0.00 37.15 2.85
2389 2421 2.241176 GGGATATCAAACCTGGGTGTCA 59.759 50.000 4.83 0.00 0.00 3.58
2440 2472 9.928618 TCAACCCCTATATGAACATTAAATTCA 57.071 29.630 7.70 7.70 40.25 2.57
2454 2486 4.229582 TCTTTGGTGCTTCAACCCCTATAT 59.770 41.667 0.00 0.00 39.70 0.86
2461 2493 0.315251 GGCTCTTTGGTGCTTCAACC 59.685 55.000 0.00 0.00 40.94 3.77
2463 2495 1.774110 TTGGCTCTTTGGTGCTTCAA 58.226 45.000 0.00 0.00 33.10 2.69
2464 2496 1.774110 TTTGGCTCTTTGGTGCTTCA 58.226 45.000 0.00 0.00 33.10 3.02
2465 2497 2.888834 TTTTGGCTCTTTGGTGCTTC 57.111 45.000 0.00 0.00 33.10 3.86
2466 2498 3.389002 AGATTTTTGGCTCTTTGGTGCTT 59.611 39.130 0.00 0.00 33.10 3.91
2468 2500 3.062042 CAGATTTTTGGCTCTTTGGTGC 58.938 45.455 0.00 0.00 0.00 5.01
2469 2501 3.062042 GCAGATTTTTGGCTCTTTGGTG 58.938 45.455 0.00 0.00 0.00 4.17
2470 2502 2.288395 CGCAGATTTTTGGCTCTTTGGT 60.288 45.455 0.00 0.00 0.00 3.67
2471 2503 2.288395 ACGCAGATTTTTGGCTCTTTGG 60.288 45.455 0.00 0.00 0.00 3.28
2475 2507 1.168714 GGACGCAGATTTTTGGCTCT 58.831 50.000 0.00 0.00 0.00 4.09
2488 2520 0.685097 GAGGGGCTAATATGGACGCA 59.315 55.000 2.59 0.00 0.00 5.24
2501 2533 3.008375 TGCATCACTTGATATAGAGGGGC 59.992 47.826 0.00 0.00 32.63 5.80
2561 2593 9.577110 TTTCATATGCATGTCATTTTCTTCTTC 57.423 29.630 10.16 0.00 36.63 2.87
2587 2620 9.338622 CCTTATATTTTGAAAACGAGGGAGTAT 57.661 33.333 0.00 0.00 0.00 2.12
2590 2623 7.467403 GCTCCTTATATTTTGAAAACGAGGGAG 60.467 40.741 15.92 15.92 37.66 4.30
2644 2677 9.853555 TTTTGCGATAAACTTGATCAAACATAT 57.146 25.926 9.88 7.75 0.00 1.78


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

AutoCloner maintained by Alex Coulton.