Multiple sequence alignment - TraesCS6A01G287700

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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 TraesCS6A01G287700 chr6A 100.000 2876 0 0 1 2876 520356857 520353982 0.000000e+00 5312
1 TraesCS6A01G287700 chr6D 92.256 1782 91 17 439 2193 378380169 378378408 0.000000e+00 2483
2 TraesCS6A01G287700 chr6D 89.130 230 23 1 2647 2876 378376939 378376712 4.690000e-73 285
3 TraesCS6A01G287700 chr6B 92.667 1650 76 15 729 2353 564994015 564992386 0.000000e+00 2335
4 TraesCS6A01G287700 chr6B 89.400 717 66 5 1 711 564996345 564995633 0.000000e+00 894
5 TraesCS6A01G287700 chr6B 90.437 481 42 4 2397 2876 564992314 564991837 5.230000e-177 630
6 TraesCS6A01G287700 chr7D 94.340 159 9 0 1147 1305 174992613 174992771 7.960000e-61 244
7 TraesCS6A01G287700 chr7A 94.340 159 9 0 1147 1305 177136163 177136321 7.960000e-61 244
8 TraesCS6A01G287700 chr7B 94.304 158 9 0 1148 1305 140652907 140653064 2.860000e-60 243
9 TraesCS6A01G287700 chr2A 91.477 176 15 0 1131 1306 35975998 35976173 2.860000e-60 243
10 TraesCS6A01G287700 chr2D 90.909 176 16 0 1131 1306 32763253 32763428 1.330000e-58 237
11 TraesCS6A01G287700 chr2B 89.773 176 18 0 1131 1306 54440321 54440496 2.880000e-55 226
12 TraesCS6A01G287700 chr2B 83.784 222 26 8 1115 1330 602763479 602763696 4.860000e-48 202


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 TraesCS6A01G287700 chr6A 520353982 520356857 2875 True 5312.000000 5312 100.000000 1 2876 1 chr6A.!!$R1 2875
1 TraesCS6A01G287700 chr6D 378376712 378380169 3457 True 1384.000000 2483 90.693000 439 2876 2 chr6D.!!$R1 2437
2 TraesCS6A01G287700 chr6B 564991837 564996345 4508 True 1286.333333 2335 90.834667 1 2876 3 chr6B.!!$R1 2875

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
65 67 0.174845 CCACGCTATTCACCTCCGAA 59.825 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2027 3661 0.032403 GCAGCCACAGAAATGCAACA 59.968 50.0 0.0 0.0 38.54 3.33 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
32 34 2.159435 ACGCAAAATCGCCTTATTCACC 60.159 45.455 0.00 0.00 0.00 4.02
43 45 3.377172 GCCTTATTCACCGTTGTTGCTAT 59.623 43.478 0.00 0.00 0.00 2.97
45 47 5.065474 GCCTTATTCACCGTTGTTGCTATTA 59.935 40.000 0.00 0.00 0.00 0.98
51 53 1.201987 CCGTTGTTGCTATTACCACGC 60.202 52.381 0.00 0.00 34.47 5.34
64 66 0.968901 ACCACGCTATTCACCTCCGA 60.969 55.000 0.00 0.00 0.00 4.55
65 67 0.174845 CCACGCTATTCACCTCCGAA 59.825 55.000 0.00 0.00 0.00 4.30
89 91 2.884012 TGTTTTCGTCACGTCTACCCTA 59.116 45.455 0.00 0.00 0.00 3.53
99 101 1.121378 GTCTACCCTAGCCAACCTCC 58.879 60.000 0.00 0.00 0.00 4.30
106 108 3.051264 ACCCTAGCCAACCTCCTATAACT 60.051 47.826 0.00 0.00 0.00 2.24
114 116 4.360563 CAACCTCCTATAACTGTAGCACG 58.639 47.826 0.00 0.00 0.00 5.34
119 121 5.221263 CCTCCTATAACTGTAGCACGTTGAT 60.221 44.000 0.00 0.00 0.00 2.57
129 131 0.719465 GCACGTTGATACCGTCCTTG 59.281 55.000 0.00 0.00 36.17 3.61
130 132 1.670674 GCACGTTGATACCGTCCTTGA 60.671 52.381 0.00 0.00 36.17 3.02
134 136 2.921754 CGTTGATACCGTCCTTGACTTC 59.078 50.000 0.00 0.00 0.00 3.01
142 144 3.060602 CCGTCCTTGACTTCTCTTCAAC 58.939 50.000 0.00 0.00 0.00 3.18
148 150 6.484977 GTCCTTGACTTCTCTTCAACAAATCT 59.515 38.462 0.00 0.00 0.00 2.40
169 171 2.016905 TTATCTAGCTCCCTCTGGGC 57.983 55.000 0.00 0.00 43.94 5.36
173 175 1.075674 TAGCTCCCTCTGGGCTCTG 60.076 63.158 0.00 0.00 43.94 3.35
176 178 2.363018 TCCCTCTGGGCTCTGACG 60.363 66.667 0.00 0.00 43.94 4.35
183 185 1.608717 CTGGGCTCTGACGGTAGCTT 61.609 60.000 0.00 0.00 38.80 3.74
232 234 0.179156 CTTGCATGCATCGACAACCC 60.179 55.000 23.37 0.00 0.00 4.11
252 254 7.451566 ACAACCCTAAGCTTCATAAACAAGATT 59.548 33.333 0.00 0.00 34.04 2.40
296 298 3.179443 TGTATCCGCTCTTCATTGACC 57.821 47.619 0.00 0.00 0.00 4.02
305 307 3.620719 GCTCTTCATTGACCATGACTCCA 60.621 47.826 0.00 0.00 41.98 3.86
306 308 3.937706 CTCTTCATTGACCATGACTCCAC 59.062 47.826 0.00 0.00 41.98 4.02
308 310 1.066215 TCATTGACCATGACTCCACCG 60.066 52.381 0.00 0.00 36.94 4.94
360 362 0.391927 CGTTAGGCAATCGGTGGGAA 60.392 55.000 0.00 0.00 0.00 3.97
381 383 5.351948 AAGAAGAAGCATAGGAGGAAGAC 57.648 43.478 0.00 0.00 0.00 3.01
382 384 4.357325 AGAAGAAGCATAGGAGGAAGACA 58.643 43.478 0.00 0.00 0.00 3.41
389 391 3.118445 GCATAGGAGGAAGACAAAGAGCT 60.118 47.826 0.00 0.00 0.00 4.09
424 426 7.551585 ACAAAAACACACACAATTTAGGATGA 58.448 30.769 0.00 0.00 0.00 2.92
436 438 8.866956 CACAATTTAGGATGAGAATTTGAAAGC 58.133 33.333 0.00 0.00 0.00 3.51
554 560 6.347402 GCTGCTTAACTTTTCGAGTAATGTCA 60.347 38.462 0.00 0.00 37.72 3.58
568 574 1.139989 ATGTCACGACAACAAGAGCG 58.860 50.000 3.61 0.00 45.41 5.03
571 577 2.108157 ACGACAACAAGAGCGCCA 59.892 55.556 2.29 0.00 0.00 5.69
574 582 1.771073 CGACAACAAGAGCGCCACAA 61.771 55.000 2.29 0.00 0.00 3.33
575 583 0.317020 GACAACAAGAGCGCCACAAC 60.317 55.000 2.29 0.00 0.00 3.32
692 701 0.721718 GTGCACATAGTGAAGCGTCC 59.278 55.000 13.17 0.00 35.23 4.79
738 2351 3.940657 ACACGCTAGTACGAGTACATC 57.059 47.619 14.83 3.62 38.48 3.06
898 2513 0.329261 TCATTGGGTGGAGCTCTTGG 59.671 55.000 14.64 0.00 0.00 3.61
951 2566 5.106157 ACAAAGCCACTGATAATAAGCACAC 60.106 40.000 0.00 0.00 0.00 3.82
990 2607 3.555917 AGTAGAACGTTCTGAACTCCG 57.444 47.619 35.24 7.99 38.19 4.63
1201 2818 5.535333 TCTGCTACTACAACAACTACAACC 58.465 41.667 0.00 0.00 0.00 3.77
1506 3123 1.569493 CAACTCCAACTCCAACGCG 59.431 57.895 3.53 3.53 0.00 6.01
1770 3387 3.195002 ATGGCGCCGTTCATGTCG 61.195 61.111 23.90 0.00 0.00 4.35
1881 3498 2.100418 CGTCTACCTACCCTAGTTTGGC 59.900 54.545 0.00 0.00 0.00 4.52
1967 3601 5.945155 CAGCTAGCTGGTAAGTACTATAGC 58.055 45.833 33.06 4.21 40.17 2.97
2025 3659 4.446719 CACTTGTACCGTACCTCTTTGTTC 59.553 45.833 6.23 0.00 0.00 3.18
2027 3661 4.942761 TGTACCGTACCTCTTTGTTCTT 57.057 40.909 6.23 0.00 0.00 2.52
2050 3684 0.245539 GCATTTCTGTGGCTGCACAT 59.754 50.000 0.50 0.00 34.25 3.21
2103 3739 2.671396 GTCGCTACAACCGAATCACATT 59.329 45.455 0.00 0.00 36.36 2.71
2118 3754 6.907212 CGAATCACATTACCACTTATTCTTGC 59.093 38.462 0.00 0.00 0.00 4.01
2120 3756 9.109393 GAATCACATTACCACTTATTCTTGCTA 57.891 33.333 0.00 0.00 0.00 3.49
2140 3776 7.601073 TGCTACTCTTTAGATTGTGATTGTG 57.399 36.000 0.00 0.00 0.00 3.33
2174 3810 5.104982 CCAATGCATGTTGTACCCCTAAATT 60.105 40.000 0.00 0.00 0.00 1.82
2176 3812 4.411927 TGCATGTTGTACCCCTAAATTGT 58.588 39.130 0.00 0.00 0.00 2.71
2178 3814 5.167845 GCATGTTGTACCCCTAAATTGTTG 58.832 41.667 0.00 0.00 0.00 3.33
2179 3815 5.719173 CATGTTGTACCCCTAAATTGTTGG 58.281 41.667 0.00 0.00 0.00 3.77
2180 3816 3.574826 TGTTGTACCCCTAAATTGTTGGC 59.425 43.478 0.00 0.00 0.00 4.52
2181 3817 2.810164 TGTACCCCTAAATTGTTGGCC 58.190 47.619 0.00 0.00 0.00 5.36
2275 4901 2.901249 ACATAGATTGCGGCGTAAAGT 58.099 42.857 15.55 7.44 0.00 2.66
2284 4910 1.326576 CGGCGTAAAGTTGTGCAATG 58.673 50.000 0.00 0.00 0.00 2.82
2289 4915 4.317769 GGCGTAAAGTTGTGCAATGTTTTC 60.318 41.667 0.00 0.00 0.00 2.29
2358 5015 5.867716 ACGCATATACCTCATCCGTAATTTC 59.132 40.000 0.00 0.00 0.00 2.17
2424 5183 7.759886 GGAGCTATATTTTGTCTTTCCAAAACC 59.240 37.037 1.58 0.00 44.51 3.27
2437 5196 2.685897 TCCAAAACCGGAAAGAGTGTTG 59.314 45.455 9.46 0.00 32.05 3.33
2442 5201 6.460399 CCAAAACCGGAAAGAGTGTTGAATAA 60.460 38.462 9.46 0.00 33.77 1.40
2473 5233 9.382244 AGAAAACATCGAGAAAGAAAATAAACG 57.618 29.630 0.00 0.00 0.00 3.60
2501 5261 6.743575 AAAATAGTTTGAGTCGGATCAAGG 57.256 37.500 0.00 0.00 40.16 3.61
2504 5264 0.035439 TTTGAGTCGGATCAAGGGGC 60.035 55.000 0.00 0.00 40.16 5.80
2521 5281 2.290960 GGGGCGCAATATTAATCTCCCT 60.291 50.000 10.83 0.00 33.18 4.20
2556 5316 7.634048 TGAAAATTTGATTTGTTTTTCTTCGCG 59.366 29.630 0.00 0.00 31.77 5.87
2572 5332 1.369091 CGCGACAAGGCCAAAGCTAT 61.369 55.000 5.01 0.00 39.73 2.97
2574 5334 2.222027 GCGACAAGGCCAAAGCTATAT 58.778 47.619 5.01 0.00 39.73 0.86
2586 5346 4.396166 CCAAAGCTATATAAGATTGGGGCG 59.604 45.833 10.28 0.00 40.53 6.13
2649 5409 0.453950 CGTCTGGTCGTAGTTCGGTG 60.454 60.000 0.00 0.00 40.32 4.94
2659 5419 2.412325 CGTAGTTCGGTGGTTGATTTGC 60.412 50.000 0.00 0.00 35.71 3.68
2682 5442 6.533723 TGCTGAGTTTATGTTAGGTTATCGTG 59.466 38.462 0.00 0.00 0.00 4.35
2702 5463 3.376234 GTGGTACTTAAATTTCGGGCCTC 59.624 47.826 0.84 0.00 0.00 4.70
2706 5467 2.027469 ACTTAAATTTCGGGCCTCTCGT 60.027 45.455 0.84 0.00 0.00 4.18
2744 5505 4.511246 ATGGGGATGGCACTGGCG 62.511 66.667 0.00 0.00 42.47 5.69
2792 5553 2.494471 TGGTTCTGTGTAGGGTACATCG 59.506 50.000 0.00 0.00 41.34 3.84
2815 5576 0.109919 CAGTACAGAGTGCGCGTACA 60.110 55.000 28.70 6.17 38.35 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 2.450160 GGTGAATAAGGCGATTTTGCG 58.550 47.619 0.00 0.00 35.06 4.85
16 17 3.078837 ACAACGGTGAATAAGGCGATTT 58.921 40.909 7.88 0.00 0.00 2.17
32 34 1.730064 AGCGTGGTAATAGCAACAACG 59.270 47.619 0.00 0.00 45.14 4.10
43 45 1.135527 CGGAGGTGAATAGCGTGGTAA 59.864 52.381 0.00 0.00 0.00 2.85
45 47 0.968901 TCGGAGGTGAATAGCGTGGT 60.969 55.000 0.00 0.00 0.00 4.16
51 53 5.005779 CGAAAACATCTTCGGAGGTGAATAG 59.994 44.000 12.03 0.00 43.51 1.73
64 66 3.985925 GGTAGACGTGACGAAAACATCTT 59.014 43.478 13.70 0.00 0.00 2.40
65 67 3.572584 GGTAGACGTGACGAAAACATCT 58.427 45.455 13.70 5.30 0.00 2.90
75 77 1.135170 GTTGGCTAGGGTAGACGTGAC 60.135 57.143 0.00 0.00 36.27 3.67
89 91 3.388350 GCTACAGTTATAGGAGGTTGGCT 59.612 47.826 0.00 0.00 0.00 4.75
99 101 5.624081 CGGTATCAACGTGCTACAGTTATAG 59.376 44.000 0.00 0.00 0.00 1.31
106 108 1.135315 GGACGGTATCAACGTGCTACA 60.135 52.381 0.75 0.00 46.89 2.74
114 116 4.082136 AGAGAAGTCAAGGACGGTATCAAC 60.082 45.833 0.00 0.00 37.67 3.18
119 121 3.493334 TGAAGAGAAGTCAAGGACGGTA 58.507 45.455 0.00 0.00 37.67 4.02
142 144 6.709846 CCAGAGGGAGCTAGATAAAAGATTTG 59.290 42.308 0.00 0.00 35.59 2.32
169 171 3.130516 TGGTTGATAAGCTACCGTCAGAG 59.869 47.826 0.00 0.00 44.17 3.35
176 178 4.101741 AGTGAGGATGGTTGATAAGCTACC 59.898 45.833 0.00 0.00 41.97 3.18
183 185 2.840038 AGTGCAGTGAGGATGGTTGATA 59.160 45.455 0.00 0.00 0.00 2.15
252 254 7.290014 ACATCATAGTTGGTGACCAGATATGTA 59.710 37.037 24.98 17.26 35.91 2.29
259 261 5.300752 GGATACATCATAGTTGGTGACCAG 58.699 45.833 3.77 0.00 35.91 4.00
261 263 4.307432 CGGATACATCATAGTTGGTGACC 58.693 47.826 0.00 0.00 35.91 4.02
296 298 1.577328 GGTGCAACGGTGGAGTCATG 61.577 60.000 0.90 0.00 38.12 3.07
305 307 2.113139 CTTGAGGGGTGCAACGGT 59.887 61.111 0.00 0.00 38.12 4.83
306 308 3.365265 GCTTGAGGGGTGCAACGG 61.365 66.667 0.00 0.00 38.12 4.44
308 310 0.032540 CTTTGCTTGAGGGGTGCAAC 59.967 55.000 0.00 0.00 0.00 4.17
360 362 4.357325 TGTCTTCCTCCTATGCTTCTTCT 58.643 43.478 0.00 0.00 0.00 2.85
405 407 7.765695 AATTCTCATCCTAAATTGTGTGTGT 57.234 32.000 0.00 0.00 0.00 3.72
406 408 8.298854 TCAAATTCTCATCCTAAATTGTGTGTG 58.701 33.333 0.00 0.00 0.00 3.82
408 410 9.695526 TTTCAAATTCTCATCCTAAATTGTGTG 57.304 29.630 0.00 0.00 0.00 3.82
463 465 2.882137 CGGGTATTTCTTGGTTGTGTGT 59.118 45.455 0.00 0.00 0.00 3.72
554 560 2.108157 TGGCGCTCTTGTTGTCGT 59.892 55.556 7.64 0.00 0.00 4.34
568 574 5.978814 TCCTTCTTCTAATAGAGTTGTGGC 58.021 41.667 0.00 0.00 0.00 5.01
619 628 9.412460 TCAGCTATGTTTTCTCCATTATGATTT 57.588 29.630 0.00 0.00 0.00 2.17
627 636 5.774690 TGGTTTTCAGCTATGTTTTCTCCAT 59.225 36.000 0.00 0.00 0.00 3.41
659 668 5.874810 ACTATGTGCACTCGTGTCATTATTT 59.125 36.000 19.41 0.00 32.84 1.40
660 669 5.291858 CACTATGTGCACTCGTGTCATTATT 59.708 40.000 19.41 0.00 32.84 1.40
661 670 4.805719 CACTATGTGCACTCGTGTCATTAT 59.194 41.667 19.41 1.18 32.84 1.28
662 671 4.082463 TCACTATGTGCACTCGTGTCATTA 60.082 41.667 19.41 3.67 32.98 1.90
663 672 2.995939 CACTATGTGCACTCGTGTCATT 59.004 45.455 19.41 0.00 32.84 2.57
692 701 2.225068 ACCTTGCATCTATCGAACGG 57.775 50.000 0.00 0.00 0.00 4.44
962 2579 7.474190 AGTTCAGAACGTTCTACTATAAGAGC 58.526 38.462 29.28 20.59 35.34 4.09
990 2607 2.677524 TCTTGCATGGGCTGGTGC 60.678 61.111 0.00 3.07 41.91 5.01
1506 3123 2.434359 CGGTTGGCGAAGGAGACC 60.434 66.667 0.00 0.00 0.00 3.85
1659 3276 0.319383 CGATCGCCTCCTCCATCTTG 60.319 60.000 0.26 0.00 0.00 3.02
1708 3325 2.757508 CTCCTCTGGCTCCTGCGA 60.758 66.667 0.00 0.00 40.82 5.10
1749 3366 2.824041 ATGAACGGCGCCATGTCC 60.824 61.111 28.98 5.32 0.00 4.02
1770 3387 4.162690 AAGATCCCCGCGTCCAGC 62.163 66.667 4.92 0.00 43.95 4.85
1881 3498 3.557595 GGCAATCGTGATGAGGAACTAAG 59.442 47.826 0.00 0.00 41.55 2.18
1967 3601 4.417100 CGTACACGTAGCATTACATGTG 57.583 45.455 9.11 0.00 36.89 3.21
2025 3659 2.400399 CAGCCACAGAAATGCAACAAG 58.600 47.619 0.00 0.00 0.00 3.16
2027 3661 0.032403 GCAGCCACAGAAATGCAACA 59.968 50.000 0.00 0.00 38.54 3.33
2103 3739 9.251440 TCTAAAGAGTAGCAAGAATAAGTGGTA 57.749 33.333 0.00 0.00 0.00 3.25
2118 3754 8.763049 TCACACAATCACAATCTAAAGAGTAG 57.237 34.615 0.00 0.00 0.00 2.57
2120 3756 7.716998 AGTTCACACAATCACAATCTAAAGAGT 59.283 33.333 0.00 0.00 0.00 3.24
2133 3769 4.022935 GCATTGGAGAAGTTCACACAATCA 60.023 41.667 5.50 0.00 0.00 2.57
2140 3776 4.232221 CAACATGCATTGGAGAAGTTCAC 58.768 43.478 5.50 0.00 0.00 3.18
2174 3810 2.906389 AGAATACTGAGACAGGCCAACA 59.094 45.455 5.01 0.00 35.51 3.33
2176 3812 3.445008 AGAGAATACTGAGACAGGCCAA 58.555 45.455 5.01 0.00 35.51 4.52
2178 3814 3.027412 TGAGAGAATACTGAGACAGGCC 58.973 50.000 0.00 0.00 35.51 5.19
2179 3815 4.935352 ATGAGAGAATACTGAGACAGGC 57.065 45.455 0.00 0.00 35.51 4.85
2180 3816 6.998074 AGAGTATGAGAGAATACTGAGACAGG 59.002 42.308 1.73 0.00 42.22 4.00
2181 3817 8.450578 AAGAGTATGAGAGAATACTGAGACAG 57.549 38.462 1.73 0.00 42.22 3.51
2253 4879 4.628074 ACTTTACGCCGCAATCTATGTAT 58.372 39.130 0.00 0.00 0.00 2.29
2254 4880 4.049546 ACTTTACGCCGCAATCTATGTA 57.950 40.909 0.00 0.00 0.00 2.29
2255 4881 2.901249 ACTTTACGCCGCAATCTATGT 58.099 42.857 0.00 0.00 0.00 2.29
2256 4882 3.063452 ACAACTTTACGCCGCAATCTATG 59.937 43.478 0.00 0.00 0.00 2.23
2257 4883 3.063452 CACAACTTTACGCCGCAATCTAT 59.937 43.478 0.00 0.00 0.00 1.98
2258 4884 2.413796 CACAACTTTACGCCGCAATCTA 59.586 45.455 0.00 0.00 0.00 1.98
2259 4885 1.196808 CACAACTTTACGCCGCAATCT 59.803 47.619 0.00 0.00 0.00 2.40
2260 4886 1.602191 CACAACTTTACGCCGCAATC 58.398 50.000 0.00 0.00 0.00 2.67
2261 4887 0.386731 GCACAACTTTACGCCGCAAT 60.387 50.000 0.00 0.00 0.00 3.56
2317 4943 1.556564 CGTGTATGACACCGTGATCC 58.443 55.000 5.28 0.00 45.93 3.36
2323 4949 2.984471 GGTATATGCGTGTATGACACCG 59.016 50.000 4.24 1.61 45.93 4.94
2376 5033 5.073144 TCCAACTTCCAAGTAGGTTCTGATT 59.927 40.000 0.00 0.00 38.57 2.57
2379 5036 4.319177 CTCCAACTTCCAAGTAGGTTCTG 58.681 47.826 0.00 0.00 38.57 3.02
2381 5038 3.075148 GCTCCAACTTCCAAGTAGGTTC 58.925 50.000 0.00 0.00 38.57 3.62
2385 5042 8.616076 CAAAATATAGCTCCAACTTCCAAGTAG 58.384 37.037 0.00 0.00 38.57 2.57
2386 5043 8.107095 ACAAAATATAGCTCCAACTTCCAAGTA 58.893 33.333 0.00 0.00 38.57 2.24
2387 5044 6.948309 ACAAAATATAGCTCCAACTTCCAAGT 59.052 34.615 0.00 0.00 42.04 3.16
2389 5046 7.175104 AGACAAAATATAGCTCCAACTTCCAA 58.825 34.615 0.00 0.00 0.00 3.53
2391 5048 7.631717 AAGACAAAATATAGCTCCAACTTCC 57.368 36.000 0.00 0.00 0.00 3.46
2393 5050 7.669722 TGGAAAGACAAAATATAGCTCCAACTT 59.330 33.333 0.00 0.00 0.00 2.66
2394 5051 7.175104 TGGAAAGACAAAATATAGCTCCAACT 58.825 34.615 0.00 0.00 0.00 3.16
2395 5052 7.391148 TGGAAAGACAAAATATAGCTCCAAC 57.609 36.000 0.00 0.00 0.00 3.77
2424 5183 8.703604 TCTAAGATTATTCAACACTCTTTCCG 57.296 34.615 0.00 0.00 0.00 4.30
2473 5233 8.029642 TGATCCGACTCAAACTATTTTTCTTC 57.970 34.615 0.00 0.00 0.00 2.87
2480 5240 4.384208 CCCCTTGATCCGACTCAAACTATT 60.384 45.833 0.00 0.00 34.86 1.73
2488 5248 2.107141 CGCCCCTTGATCCGACTC 59.893 66.667 0.00 0.00 0.00 3.36
2490 5250 3.840102 TATTGCGCCCCTTGATCCGAC 62.840 57.143 4.18 0.00 0.00 4.79
2501 5261 3.073274 AGGGAGATTAATATTGCGCCC 57.927 47.619 4.18 14.51 34.52 6.13
2504 5264 6.824305 ATGGAAAGGGAGATTAATATTGCG 57.176 37.500 0.00 0.00 0.00 4.85
2553 5313 1.369091 ATAGCTTTGGCCTTGTCGCG 61.369 55.000 3.32 0.00 39.73 5.87
2556 5316 7.308830 CCAATCTTATATAGCTTTGGCCTTGTC 60.309 40.741 3.32 0.00 39.73 3.18
2572 5332 7.662669 GGAAAACTATAACGCCCCAATCTTATA 59.337 37.037 0.00 0.00 0.00 0.98
2574 5334 5.824097 GGAAAACTATAACGCCCCAATCTTA 59.176 40.000 0.00 0.00 0.00 2.10
2586 5346 5.220359 GCGTTCTTCGGAGGAAAACTATAAC 60.220 44.000 3.96 0.00 40.26 1.89
2649 5409 7.029563 CCTAACATAAACTCAGCAAATCAACC 58.970 38.462 0.00 0.00 0.00 3.77
2659 5419 7.039882 ACCACGATAACCTAACATAAACTCAG 58.960 38.462 0.00 0.00 0.00 3.35
2682 5442 3.875727 GAGAGGCCCGAAATTTAAGTACC 59.124 47.826 0.00 0.00 0.00 3.34
2706 5467 0.841289 AACACAAACTCCCCGGAGAA 59.159 50.000 17.73 0.00 44.53 2.87
2792 5553 0.797249 CGCGCACTCTGTACTGTACC 60.797 60.000 14.91 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.