Multiple sequence alignment - TraesCS2A01G427700

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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 TraesCS2A01G427700 chr2A 100.000 2633 0 0 1 2633 680358783 680356151 0.000000e+00 4863.0
1 TraesCS2A01G427700 chr2B 87.500 2744 129 82 10 2633 640766378 640763729 0.000000e+00 2970.0
2 TraesCS2A01G427700 chr2D 91.333 1696 71 36 583 2228 538055763 538054094 0.000000e+00 2248.0
3 TraesCS2A01G427700 chr2D 82.278 632 27 30 1 583 538056480 538055885 3.970000e-128 468.0
4 TraesCS2A01G427700 chr2D 88.064 377 16 13 2258 2631 538054092 538053742 1.130000e-113 420.0
5 TraesCS2A01G427700 chr2D 82.468 154 21 5 1056 1206 367089160 367089310 2.130000e-26 130.0
6 TraesCS2A01G427700 chr2D 100.000 28 0 0 1023 1050 629373189 629373216 5.000000e-03 52.8
7 TraesCS2A01G427700 chr6D 91.954 174 12 2 1059 1231 139916323 139916495 2.620000e-60 243.0
8 TraesCS2A01G427700 chr6B 91.525 177 13 2 1056 1231 239729257 239729432 2.620000e-60 243.0
9 TraesCS2A01G427700 chr6A 91.525 177 13 2 1056 1231 183188183 183188358 2.620000e-60 243.0
10 TraesCS2A01G427700 chr1B 82.955 264 28 14 1063 1319 552474257 552474004 3.410000e-54 222.0
11 TraesCS2A01G427700 chr1D 87.166 187 22 2 1063 1248 410072045 410071860 7.380000e-51 211.0
12 TraesCS2A01G427700 chr1A 82.022 267 28 15 1063 1319 505925841 505925585 2.660000e-50 209.0


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 TraesCS2A01G427700 chr2A 680356151 680358783 2632 True 4863.000000 4863 100.000 1 2633 1 chr2A.!!$R1 2632
1 TraesCS2A01G427700 chr2B 640763729 640766378 2649 True 2970.000000 2970 87.500 10 2633 1 chr2B.!!$R1 2623
2 TraesCS2A01G427700 chr2D 538053742 538056480 2738 True 1045.333333 2248 87.225 1 2631 3 chr2D.!!$R1 2630

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
119 125 0.040958 CCGTTGCTGTCTGTCTTTGC 60.041 55.0 0.0 0.0 0.0 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2077 2367 1.410517 GGCAGATCCACGAATCAGAGA 59.589 52.381 0.0 0.0 34.01 3.1 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
49 55 4.593864 GTGGAGAGCGATCGGGGC 62.594 72.222 18.30 0.00 0.00 5.80
119 125 0.040958 CCGTTGCTGTCTGTCTTTGC 60.041 55.000 0.00 0.00 0.00 3.68
160 170 3.112075 CACCGAATCGCACGCACT 61.112 61.111 0.00 0.00 0.00 4.40
161 171 1.803922 CACCGAATCGCACGCACTA 60.804 57.895 0.00 0.00 0.00 2.74
162 172 1.516386 ACCGAATCGCACGCACTAG 60.516 57.895 0.00 0.00 0.00 2.57
221 251 1.666553 ACGACCGACCACGTACGTA 60.667 57.895 22.34 0.00 42.87 3.57
222 252 1.225745 CGACCGACCACGTACGTAC 60.226 63.158 22.34 15.90 37.88 3.67
313 346 1.597445 CGGTAGAGGAAGACGCGATTC 60.597 57.143 15.93 16.50 0.00 2.52
314 347 1.269154 GGTAGAGGAAGACGCGATTCC 60.269 57.143 28.59 28.59 45.56 3.01
319 352 1.129326 GGAAGACGCGATTCCGTATG 58.871 55.000 24.52 0.00 42.24 2.39
320 353 1.129326 GAAGACGCGATTCCGTATGG 58.871 55.000 15.93 0.00 42.24 2.74
321 354 0.458669 AAGACGCGATTCCGTATGGT 59.541 50.000 15.93 0.00 42.24 3.55
343 379 1.596260 GGTAATTACCTTTCGCCGCTC 59.404 52.381 24.79 0.00 43.10 5.03
344 380 1.257155 GTAATTACCTTTCGCCGCTCG 59.743 52.381 4.11 0.00 40.15 5.03
358 394 4.889427 CTCGATCGGTGAGCACAA 57.111 55.556 16.41 0.00 0.00 3.33
359 395 2.658538 CTCGATCGGTGAGCACAAG 58.341 57.895 16.41 0.00 0.00 3.16
360 396 1.416813 CTCGATCGGTGAGCACAAGC 61.417 60.000 16.41 0.00 42.56 4.01
379 416 5.244626 ACAAGCTTGGCAAGTGATTAAATCT 59.755 36.000 29.18 10.29 0.00 2.40
387 424 5.393962 GCAAGTGATTAAATCTGTGGACAC 58.606 41.667 0.00 0.00 0.00 3.67
395 432 2.743636 ATCTGTGGACACTGGTAACG 57.256 50.000 9.05 0.00 42.51 3.18
496 534 1.226030 ACCGAACCAACTAACGCTGC 61.226 55.000 0.00 0.00 0.00 5.25
523 561 0.733909 GTACGACGAGGGGAAAACGG 60.734 60.000 0.00 0.00 0.00 4.44
578 626 1.816224 TCCACGGCCAGAATAAAAAGC 59.184 47.619 2.24 0.00 0.00 3.51
595 768 1.790387 GCTGTAAAGAGCTGCACGG 59.210 57.895 1.02 0.00 35.95 4.94
624 804 2.029221 GGCGTAGAGAATCGGGGC 59.971 66.667 0.00 0.00 42.67 5.80
639 819 2.267961 GGCACCTCACCCTAACCG 59.732 66.667 0.00 0.00 0.00 4.44
663 843 3.634448 ACCAGCACTGCTCAGTATAGTAG 59.366 47.826 0.00 0.00 40.20 2.57
671 856 6.202762 CACTGCTCAGTATAGTAGAGAGTGAG 59.797 46.154 18.86 8.83 45.83 3.51
933 1127 2.674380 CCAGCTCCAACCAGCCAC 60.674 66.667 0.00 0.00 40.65 5.01
1018 1240 3.976701 ATGGCTCCCAAGAACGCGG 62.977 63.158 12.47 0.00 36.95 6.46
1317 1545 4.057428 AGCAGCACCGTCGAGTCC 62.057 66.667 0.00 0.00 0.00 3.85
1434 1692 1.003718 GTTCCTGTTCCTGGACCCG 60.004 63.158 0.00 0.00 31.34 5.28
1514 1778 1.660560 ATCAGCGGCATGAACAAGGC 61.661 55.000 1.45 0.00 31.76 4.35
1545 1809 2.202544 GAGGAGCAGAGCGACACG 60.203 66.667 0.00 0.00 0.00 4.49
1705 1969 3.428316 CGAAGCTCTCTCTTGGGTAGAAC 60.428 52.174 0.00 0.00 30.91 3.01
1818 2086 1.129326 GGTGTACATAGATCGCGTGC 58.871 55.000 5.77 0.00 0.00 5.34
1819 2087 0.770590 GTGTACATAGATCGCGTGCG 59.229 55.000 5.77 8.14 41.35 5.34
1820 2088 0.379316 TGTACATAGATCGCGTGCGT 59.621 50.000 14.47 1.52 40.74 5.24
1821 2089 0.770590 GTACATAGATCGCGTGCGTG 59.229 55.000 14.47 7.17 40.74 5.34
1883 2151 1.898472 ACATCCATCTATCTGCTCCCG 59.102 52.381 0.00 0.00 0.00 5.14
1920 2188 7.801716 ATTTCCTTAAAAGCAAGGGAAAAAC 57.198 32.000 9.08 0.00 44.62 2.43
1921 2189 5.941555 TCCTTAAAAGCAAGGGAAAAACA 57.058 34.783 2.23 0.00 44.53 2.83
1922 2190 6.301169 TCCTTAAAAGCAAGGGAAAAACAA 57.699 33.333 2.23 0.00 44.53 2.83
1923 2191 6.712276 TCCTTAAAAGCAAGGGAAAAACAAA 58.288 32.000 2.23 0.00 44.53 2.83
1932 2200 6.658816 AGCAAGGGAAAAACAAAGACAAAAAT 59.341 30.769 0.00 0.00 0.00 1.82
1986 2254 8.948631 TCTTCAGTGTACAATATTTGATCTCC 57.051 34.615 0.00 0.00 0.00 3.71
2038 2311 5.581126 TTCCATTCTTATCCATGTGTTGC 57.419 39.130 0.00 0.00 0.00 4.17
2044 2317 4.517285 TCTTATCCATGTGTTGCTCTTCC 58.483 43.478 0.00 0.00 0.00 3.46
2047 2320 4.574674 ATCCATGTGTTGCTCTTCCTTA 57.425 40.909 0.00 0.00 0.00 2.69
2071 2361 2.351418 CGGTGTATGGCTGTTGTGTATG 59.649 50.000 0.00 0.00 0.00 2.39
2072 2362 3.605634 GGTGTATGGCTGTTGTGTATGA 58.394 45.455 0.00 0.00 0.00 2.15
2073 2363 4.199310 GGTGTATGGCTGTTGTGTATGAT 58.801 43.478 0.00 0.00 0.00 2.45
2074 2364 4.640201 GGTGTATGGCTGTTGTGTATGATT 59.360 41.667 0.00 0.00 0.00 2.57
2075 2365 5.125417 GGTGTATGGCTGTTGTGTATGATTT 59.875 40.000 0.00 0.00 0.00 2.17
2076 2366 6.258160 GTGTATGGCTGTTGTGTATGATTTC 58.742 40.000 0.00 0.00 0.00 2.17
2077 2367 6.094048 GTGTATGGCTGTTGTGTATGATTTCT 59.906 38.462 0.00 0.00 0.00 2.52
2078 2368 5.824904 ATGGCTGTTGTGTATGATTTCTC 57.175 39.130 0.00 0.00 0.00 2.87
2079 2369 4.910195 TGGCTGTTGTGTATGATTTCTCT 58.090 39.130 0.00 0.00 0.00 3.10
2080 2370 4.937620 TGGCTGTTGTGTATGATTTCTCTC 59.062 41.667 0.00 0.00 0.00 3.20
2081 2371 5.181748 GGCTGTTGTGTATGATTTCTCTCT 58.818 41.667 0.00 0.00 0.00 3.10
2086 2376 8.484641 TGTTGTGTATGATTTCTCTCTGATTC 57.515 34.615 0.00 0.00 0.00 2.52
2089 2379 6.753744 TGTGTATGATTTCTCTCTGATTCGTG 59.246 38.462 0.00 0.00 0.00 4.35
2096 2386 2.360483 TCTCTCTGATTCGTGGATCTGC 59.640 50.000 0.00 0.00 0.00 4.26
2102 2392 2.208431 GATTCGTGGATCTGCCTTGAG 58.792 52.381 0.00 0.00 37.63 3.02
2123 2413 4.759782 AGTACTTACTGGCATGCTAACAG 58.240 43.478 18.92 18.17 34.72 3.16
2168 2458 9.059260 TGTTTTGGGTATCTACTAACTTGTTTC 57.941 33.333 0.00 0.00 0.00 2.78
2185 2475 4.895224 GTTTCTCGAAGGAAACTGGTTT 57.105 40.909 18.18 0.00 46.55 3.27
2205 2508 6.770785 TGGTTTGTAGCAAGTTCTTATGTTCT 59.229 34.615 0.00 0.00 0.00 3.01
2234 2537 5.235831 AGCAAAAGAAACTACTCCGTGTTAC 59.764 40.000 0.00 0.00 0.00 2.50
2241 2544 4.234530 ACTACTCCGTGTTACTGTGTTC 57.765 45.455 0.00 0.00 0.00 3.18
2244 2547 1.784856 CTCCGTGTTACTGTGTTCGTG 59.215 52.381 0.00 0.00 0.00 4.35
2245 2548 1.134753 TCCGTGTTACTGTGTTCGTGT 59.865 47.619 0.00 0.00 0.00 4.49
2256 2559 0.594028 TGTTCGTGTCGTGCAGAGAC 60.594 55.000 13.63 13.63 39.52 3.36
2273 2576 2.067414 GACGTTCAGTCCTTCTGGTC 57.933 55.000 0.00 0.00 43.95 4.02
2293 2596 3.196685 GTCTGACTGCTGAAGATTACCCT 59.803 47.826 0.00 0.00 0.00 4.34
2294 2597 3.840666 TCTGACTGCTGAAGATTACCCTT 59.159 43.478 0.00 0.00 0.00 3.95
2295 2598 3.937706 CTGACTGCTGAAGATTACCCTTG 59.062 47.826 0.00 0.00 0.00 3.61
2296 2599 3.274288 GACTGCTGAAGATTACCCTTGG 58.726 50.000 0.00 0.00 0.00 3.61
2356 2666 3.813073 GCAGAAATGCGTAGTACGTAC 57.187 47.619 22.81 18.10 44.73 3.67
2385 2695 1.932160 CGTCGTTGAATTGAACGGTG 58.068 50.000 26.10 16.48 46.93 4.94
2387 2697 1.263217 GTCGTTGAATTGAACGGTGCT 59.737 47.619 26.10 0.00 46.93 4.40
2478 2788 1.456518 CGGGGCATCCTGAGAGAGA 60.457 63.158 0.00 0.00 42.08 3.10
2479 2789 1.462731 CGGGGCATCCTGAGAGAGAG 61.463 65.000 0.00 0.00 42.08 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
138 144 4.166011 GTGCGATTCGGTGGCAGC 62.166 66.667 6.62 6.62 42.49 5.25
221 251 1.982938 GACTGGGCCTGAGGTACGT 60.983 63.158 18.12 0.00 0.00 3.57
222 252 2.893398 GACTGGGCCTGAGGTACG 59.107 66.667 18.12 0.00 0.00 3.67
223 253 1.946475 GACGACTGGGCCTGAGGTAC 61.946 65.000 18.12 0.00 0.00 3.34
224 254 1.681327 GACGACTGGGCCTGAGGTA 60.681 63.158 18.12 0.00 0.00 3.08
300 333 1.129326 CATACGGAATCGCGTCTTCC 58.871 55.000 24.11 24.11 40.63 3.46
343 379 3.084579 GCTTGTGCTCACCGATCG 58.915 61.111 8.51 8.51 36.03 3.69
353 389 0.316204 ATCACTTGCCAAGCTTGTGC 59.684 50.000 24.35 24.45 34.56 4.57
354 390 2.806608 AATCACTTGCCAAGCTTGTG 57.193 45.000 24.35 15.51 35.31 3.33
355 391 4.935352 TTTAATCACTTGCCAAGCTTGT 57.065 36.364 24.35 3.04 0.00 3.16
356 392 5.575606 CAGATTTAATCACTTGCCAAGCTTG 59.424 40.000 19.93 19.93 0.00 4.01
357 393 5.244626 ACAGATTTAATCACTTGCCAAGCTT 59.755 36.000 3.88 0.00 0.00 3.74
358 394 4.768968 ACAGATTTAATCACTTGCCAAGCT 59.231 37.500 3.88 0.00 0.00 3.74
359 395 4.860907 CACAGATTTAATCACTTGCCAAGC 59.139 41.667 3.88 0.00 0.00 4.01
360 396 5.183713 TCCACAGATTTAATCACTTGCCAAG 59.816 40.000 7.74 2.11 0.00 3.61
361 397 5.048083 GTCCACAGATTTAATCACTTGCCAA 60.048 40.000 7.74 0.00 0.00 4.52
362 398 4.458989 GTCCACAGATTTAATCACTTGCCA 59.541 41.667 7.74 0.00 0.00 4.92
363 399 4.458989 TGTCCACAGATTTAATCACTTGCC 59.541 41.667 7.74 0.00 0.00 4.52
364 400 5.182001 AGTGTCCACAGATTTAATCACTTGC 59.818 40.000 7.74 0.00 32.15 4.01
365 401 6.348786 CCAGTGTCCACAGATTTAATCACTTG 60.349 42.308 7.74 0.00 33.54 3.16
379 416 0.831966 AACCGTTACCAGTGTCCACA 59.168 50.000 0.00 0.00 0.00 4.17
387 424 0.736325 CCGAGAGCAACCGTTACCAG 60.736 60.000 0.00 0.00 0.00 4.00
395 432 1.138266 TGGCTTATACCGAGAGCAACC 59.862 52.381 0.00 0.00 38.14 3.77
458 496 3.057734 GGTATTCGTATGTAGCAGCACC 58.942 50.000 0.00 0.00 0.00 5.01
463 501 3.380954 TGGTTCGGTATTCGTATGTAGCA 59.619 43.478 0.00 0.00 40.32 3.49
464 502 3.968649 TGGTTCGGTATTCGTATGTAGC 58.031 45.455 0.00 0.00 40.32 3.58
465 503 5.585390 AGTTGGTTCGGTATTCGTATGTAG 58.415 41.667 0.00 0.00 40.32 2.74
466 504 5.581126 AGTTGGTTCGGTATTCGTATGTA 57.419 39.130 0.00 0.00 40.32 2.29
523 561 2.127232 GCGCACGTTTCAGGCTTC 60.127 61.111 0.30 0.00 0.00 3.86
578 626 1.790387 GCCGTGCAGCTCTTTACAG 59.210 57.895 0.00 0.00 0.00 2.74
590 763 2.468532 CGTTAGTTCACGCCGTGC 59.531 61.111 13.39 0.00 32.98 5.34
595 768 0.454957 TCTACGCCGTTAGTTCACGC 60.455 55.000 0.00 0.00 38.93 5.34
624 804 0.036671 GGTTCGGTTAGGGTGAGGTG 60.037 60.000 0.00 0.00 0.00 4.00
639 819 2.393271 ATACTGAGCAGTGCTGGTTC 57.607 50.000 25.35 8.92 42.52 3.62
663 843 0.319900 TTGGTCGCTTGCTCACTCTC 60.320 55.000 0.00 0.00 0.00 3.20
671 856 2.335011 GGTTGGTTGGTCGCTTGC 59.665 61.111 0.00 0.00 0.00 4.01
723 908 3.840890 TTCGATTATTTGGTGGTGTGC 57.159 42.857 0.00 0.00 0.00 4.57
901 1095 4.779733 TGGGGGAGGAGAGGCGAC 62.780 72.222 0.00 0.00 0.00 5.19
933 1127 2.415426 GGCGTTGGTTGGTTGGTG 59.585 61.111 0.00 0.00 0.00 4.17
961 1155 3.215568 TTGTTGTGGCGGTGGCTG 61.216 61.111 0.00 0.00 39.81 4.85
962 1156 3.216292 GTTGTTGTGGCGGTGGCT 61.216 61.111 0.00 0.00 39.81 4.75
971 1165 4.659874 GACGCGGCGGTTGTTGTG 62.660 66.667 27.37 0.00 0.00 3.33
1530 1794 4.803426 CCCGTGTCGCTCTGCTCC 62.803 72.222 0.00 0.00 0.00 4.70
1678 1942 1.731160 CCAAGAGAGAGCTTCGCTTTG 59.269 52.381 10.52 5.93 42.38 2.77
1684 1948 3.767131 AGTTCTACCCAAGAGAGAGCTTC 59.233 47.826 0.00 0.00 35.05 3.86
1705 1969 6.899114 ACACGCCATTCTTCTAAACTTTAAG 58.101 36.000 0.00 0.00 0.00 1.85
1857 2125 4.229639 AGCAGATAGATGGATGTTCCTCA 58.770 43.478 0.00 0.00 37.46 3.86
1858 2126 4.322650 GGAGCAGATAGATGGATGTTCCTC 60.323 50.000 0.00 0.00 39.26 3.71
1859 2127 3.582208 GGAGCAGATAGATGGATGTTCCT 59.418 47.826 0.00 0.00 39.26 3.36
1860 2128 3.307339 GGGAGCAGATAGATGGATGTTCC 60.307 52.174 0.00 0.00 40.98 3.62
1861 2129 3.616076 CGGGAGCAGATAGATGGATGTTC 60.616 52.174 0.00 0.00 0.00 3.18
1920 2188 5.358922 TGGCTTCTTCCATTTTTGTCTTTG 58.641 37.500 0.00 0.00 0.00 2.77
1921 2189 5.129320 ACTGGCTTCTTCCATTTTTGTCTTT 59.871 36.000 0.00 0.00 35.22 2.52
1922 2190 4.651045 ACTGGCTTCTTCCATTTTTGTCTT 59.349 37.500 0.00 0.00 35.22 3.01
1923 2191 4.218312 ACTGGCTTCTTCCATTTTTGTCT 58.782 39.130 0.00 0.00 35.22 3.41
1932 2200 2.761208 GCTCTACTACTGGCTTCTTCCA 59.239 50.000 0.00 0.00 34.42 3.53
2024 2292 4.574674 AGGAAGAGCAACACATGGATAA 57.425 40.909 0.00 0.00 0.00 1.75
2025 2293 4.574674 AAGGAAGAGCAACACATGGATA 57.425 40.909 0.00 0.00 0.00 2.59
2026 2294 3.446442 AAGGAAGAGCAACACATGGAT 57.554 42.857 0.00 0.00 0.00 3.41
2030 2303 3.941483 CCGAATAAGGAAGAGCAACACAT 59.059 43.478 0.00 0.00 0.00 3.21
2038 2311 4.058817 GCCATACACCGAATAAGGAAGAG 58.941 47.826 0.00 0.00 34.73 2.85
2044 2317 3.938963 ACAACAGCCATACACCGAATAAG 59.061 43.478 0.00 0.00 0.00 1.73
2047 2320 2.083774 CACAACAGCCATACACCGAAT 58.916 47.619 0.00 0.00 0.00 3.34
2071 2361 5.691305 CAGATCCACGAATCAGAGAGAAATC 59.309 44.000 0.00 0.00 0.00 2.17
2072 2362 5.599732 CAGATCCACGAATCAGAGAGAAAT 58.400 41.667 0.00 0.00 0.00 2.17
2073 2363 4.679106 GCAGATCCACGAATCAGAGAGAAA 60.679 45.833 0.00 0.00 0.00 2.52
2074 2364 3.181482 GCAGATCCACGAATCAGAGAGAA 60.181 47.826 0.00 0.00 0.00 2.87
2075 2365 2.360483 GCAGATCCACGAATCAGAGAGA 59.640 50.000 0.00 0.00 0.00 3.10
2076 2366 2.545532 GGCAGATCCACGAATCAGAGAG 60.546 54.545 0.00 0.00 34.01 3.20
2077 2367 1.410517 GGCAGATCCACGAATCAGAGA 59.589 52.381 0.00 0.00 34.01 3.10
2078 2368 1.411977 AGGCAGATCCACGAATCAGAG 59.588 52.381 0.00 0.00 37.29 3.35
2079 2369 1.489481 AGGCAGATCCACGAATCAGA 58.511 50.000 0.00 0.00 37.29 3.27
2080 2370 1.938577 CAAGGCAGATCCACGAATCAG 59.061 52.381 0.00 0.00 37.29 2.90
2081 2371 1.554617 TCAAGGCAGATCCACGAATCA 59.445 47.619 0.00 0.00 37.29 2.57
2086 2376 1.478510 AGTACTCAAGGCAGATCCACG 59.521 52.381 0.00 0.00 37.29 4.94
2089 2379 4.442192 CCAGTAAGTACTCAAGGCAGATCC 60.442 50.000 0.00 0.00 33.46 3.36
2096 2386 2.939103 GCATGCCAGTAAGTACTCAAGG 59.061 50.000 6.36 0.00 33.46 3.61
2102 2392 4.504858 ACTGTTAGCATGCCAGTAAGTAC 58.495 43.478 21.84 1.86 37.66 2.73
2143 2433 9.281371 AGAAACAAGTTAGTAGATACCCAAAAC 57.719 33.333 0.00 0.00 0.00 2.43
2168 2458 3.186613 GCTACAAACCAGTTTCCTTCGAG 59.813 47.826 0.00 0.00 0.00 4.04
2185 2475 5.932303 GGTCAGAACATAAGAACTTGCTACA 59.068 40.000 0.00 0.00 0.00 2.74
2205 2508 4.134563 GGAGTAGTTTCTTTTGCTGGTCA 58.865 43.478 0.00 0.00 0.00 4.02
2234 2537 0.869880 TCTGCACGACACGAACACAG 60.870 55.000 0.00 0.00 0.00 3.66
2241 2544 1.597700 GAACGTCTCTGCACGACACG 61.598 60.000 10.89 10.75 42.69 4.49
2244 2547 0.317938 ACTGAACGTCTCTGCACGAC 60.318 55.000 1.06 1.63 42.69 4.34
2245 2548 0.040336 GACTGAACGTCTCTGCACGA 60.040 55.000 1.06 0.00 42.69 4.35
2266 2569 2.319844 TCTTCAGCAGTCAGACCAGAA 58.680 47.619 0.00 0.00 0.00 3.02
2273 2576 3.902881 AGGGTAATCTTCAGCAGTCAG 57.097 47.619 0.00 0.00 0.00 3.51
2293 2596 1.310904 GAACGTGCCTTGGTAACCAA 58.689 50.000 0.00 0.00 41.69 3.67
2294 2597 0.180642 TGAACGTGCCTTGGTAACCA 59.819 50.000 0.00 0.00 0.00 3.67
2295 2598 1.467342 GATGAACGTGCCTTGGTAACC 59.533 52.381 0.00 0.00 0.00 2.85
2296 2599 1.127951 CGATGAACGTGCCTTGGTAAC 59.872 52.381 0.00 0.00 37.22 2.50
2347 2657 2.435685 GCGTAACAGCGTACGTACTA 57.564 50.000 22.55 5.89 46.74 1.82
2357 2667 0.437295 ATTCAACGACGCGTAACAGC 59.563 50.000 13.97 0.00 39.99 4.40
2358 2668 2.154198 TCAATTCAACGACGCGTAACAG 59.846 45.455 13.97 6.86 39.99 3.16
2359 2669 2.125685 TCAATTCAACGACGCGTAACA 58.874 42.857 13.97 0.00 39.99 2.41
2360 2670 2.841070 TCAATTCAACGACGCGTAAC 57.159 45.000 13.97 0.00 39.99 2.50
2361 2671 3.158103 GTTCAATTCAACGACGCGTAA 57.842 42.857 13.97 1.81 39.99 3.18
2385 2695 1.300697 AGTTTCGTCGACCCACAGC 60.301 57.895 10.58 0.00 0.00 4.40
2387 2697 1.593209 GCAGTTTCGTCGACCCACA 60.593 57.895 10.58 0.00 0.00 4.17
2478 2788 3.739613 GGTTTCCCCCGCCATCCT 61.740 66.667 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.