Multiple sequence alignment - TraesCS6B01G345700

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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 TraesCS6B01G345700 chr6B 100.000 3824 0 0 1 3824 609371868 609375691 0.000000e+00 7062.0
1 TraesCS6B01G345700 chr6A 94.878 3202 122 19 525 3711 551834272 551837446 0.000000e+00 4966.0
2 TraesCS6B01G345700 chr6A 91.525 59 5 0 2879 2937 551836684 551836742 8.800000e-12 82.4
3 TraesCS6B01G345700 chr6D 95.359 2887 92 17 576 3460 405471739 405474585 0.000000e+00 4551.0
4 TraesCS6B01G345700 chr6D 86.538 312 18 9 3517 3824 405474584 405474875 4.770000e-84 322.0
5 TraesCS6B01G345700 chr3B 88.824 510 46 7 1 507 397296405 397295904 1.950000e-172 616.0
6 TraesCS6B01G345700 chr4A 80.176 227 33 9 1 224 623390372 623390589 3.950000e-35 159.0
7 TraesCS6B01G345700 chr5D 79.204 226 35 8 1 224 545936563 545936348 3.080000e-31 147.0
8 TraesCS6B01G345700 chrUn 88.679 53 5 1 173 224 293179473 293179421 3.190000e-06 63.9
9 TraesCS6B01G345700 chrUn 88.679 53 5 1 173 224 293184890 293184838 3.190000e-06 63.9
10 TraesCS6B01G345700 chr5B 88.679 53 5 1 173 224 688991393 688991341 3.190000e-06 63.9
11 TraesCS6B01G345700 chr5B 88.679 53 5 1 173 224 689078847 689078795 3.190000e-06 63.9


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 TraesCS6B01G345700 chr6B 609371868 609375691 3823 False 7062.0 7062 100.0000 1 3824 1 chr6B.!!$F1 3823
1 TraesCS6B01G345700 chr6A 551834272 551837446 3174 False 2524.2 4966 93.2015 525 3711 2 chr6A.!!$F1 3186
2 TraesCS6B01G345700 chr6D 405471739 405474875 3136 False 2436.5 4551 90.9485 576 3824 2 chr6D.!!$F1 3248
3 TraesCS6B01G345700 chr3B 397295904 397296405 501 True 616.0 616 88.8240 1 507 1 chr3B.!!$R1 506

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
81 83 0.895530 TCGGTCATCTCAACCCTGTC 59.104 55.000 0.0 0.00 32.89 3.51 F
140 142 1.202211 TGCATCGATGAAGTTGCATGC 60.202 47.619 29.2 11.82 40.59 4.06 F
1233 1248 1.422531 CCTTCCCTGAGATCCTCCTG 58.577 60.000 0.0 0.00 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1587 1602 0.877071 CACCAGAATTGAACGCTGCT 59.123 50.000 0.00 0.0 0.0 4.24 R
1824 1839 1.065199 CCATCAGCTGCCAACCTCTTA 60.065 52.381 9.47 0.0 0.0 2.10 R
3100 3118 2.093500 TCATGGATCCCGTCACAAAGAG 60.093 50.000 9.90 0.0 0.0 2.85 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 66 2.031683 GGACACAGTTGTTGAAGGTTCG 59.968 50.000 0.00 0.00 35.47 3.95
65 67 2.014128 ACACAGTTGTTGAAGGTTCGG 58.986 47.619 0.00 0.00 28.43 4.30
81 83 0.895530 TCGGTCATCTCAACCCTGTC 59.104 55.000 0.00 0.00 32.89 3.51
93 95 6.721318 TCTCAACCCTGTCAAATAGCTAAAT 58.279 36.000 0.00 0.00 0.00 1.40
97 99 7.885922 TCAACCCTGTCAAATAGCTAAATGTTA 59.114 33.333 0.00 0.00 0.00 2.41
140 142 1.202211 TGCATCGATGAAGTTGCATGC 60.202 47.619 29.20 11.82 40.59 4.06
146 148 3.125146 TCGATGAAGTTGCATGCAGTAAC 59.875 43.478 21.50 16.39 42.39 2.50
151 153 5.599732 TGAAGTTGCATGCAGTAACAAAAT 58.400 33.333 21.50 0.00 44.22 1.82
152 154 5.462729 TGAAGTTGCATGCAGTAACAAAATG 59.537 36.000 21.50 0.00 44.22 2.32
153 155 5.199024 AGTTGCATGCAGTAACAAAATGA 57.801 34.783 21.50 0.00 44.22 2.57
156 158 6.707161 AGTTGCATGCAGTAACAAAATGATTT 59.293 30.769 21.50 0.00 44.22 2.17
157 159 7.227116 AGTTGCATGCAGTAACAAAATGATTTT 59.773 29.630 21.50 0.00 44.22 1.82
158 160 8.494347 GTTGCATGCAGTAACAAAATGATTTTA 58.506 29.630 21.50 0.00 41.77 1.52
159 161 8.016497 TGCATGCAGTAACAAAATGATTTTAC 57.984 30.769 18.46 0.00 0.00 2.01
160 162 7.654923 TGCATGCAGTAACAAAATGATTTTACA 59.345 29.630 18.46 0.00 0.00 2.41
161 163 8.494347 GCATGCAGTAACAAAATGATTTTACAA 58.506 29.630 14.21 0.00 0.00 2.41
191 193 7.816995 ACAACACATGTAATCAAAACACACTTT 59.183 29.630 0.00 0.00 41.63 2.66
208 212 6.038271 ACACACTTTTTGAGGTAGAACATGAC 59.962 38.462 0.00 0.00 0.00 3.06
210 214 6.772716 ACACTTTTTGAGGTAGAACATGACAT 59.227 34.615 0.00 0.00 0.00 3.06
212 216 6.147821 ACTTTTTGAGGTAGAACATGACATCG 59.852 38.462 0.00 0.00 0.00 3.84
229 233 4.414852 ACATCGTTGTAATCTTGCAATGC 58.585 39.130 0.00 0.00 38.93 3.56
237 241 4.332543 TGTAATCTTGCAATGCTCTAACGG 59.667 41.667 6.82 0.00 0.00 4.44
247 251 2.790433 TGCTCTAACGGCCATTTTTCT 58.210 42.857 2.24 0.00 0.00 2.52
248 252 2.747446 TGCTCTAACGGCCATTTTTCTC 59.253 45.455 2.24 0.00 0.00 2.87
249 253 2.097629 GCTCTAACGGCCATTTTTCTCC 59.902 50.000 2.24 0.00 0.00 3.71
250 254 3.610911 CTCTAACGGCCATTTTTCTCCT 58.389 45.455 2.24 0.00 0.00 3.69
251 255 4.766375 CTCTAACGGCCATTTTTCTCCTA 58.234 43.478 2.24 0.00 0.00 2.94
253 257 5.751586 TCTAACGGCCATTTTTCTCCTATT 58.248 37.500 2.24 0.00 0.00 1.73
254 258 6.891388 TCTAACGGCCATTTTTCTCCTATTA 58.109 36.000 2.24 0.00 0.00 0.98
255 259 7.340256 TCTAACGGCCATTTTTCTCCTATTAA 58.660 34.615 2.24 0.00 0.00 1.40
263 267 9.914131 GCCATTTTTCTCCTATTAATACCATTC 57.086 33.333 0.00 0.00 0.00 2.67
278 282 2.427453 ACCATTCTACCGCTACACTCAG 59.573 50.000 0.00 0.00 0.00 3.35
297 301 4.019174 TCAGAACCCCTAACCTAAGTACG 58.981 47.826 0.00 0.00 0.00 3.67
350 354 4.210832 TCTAATGATCAGCAGTCGTACG 57.789 45.455 9.53 9.53 0.00 3.67
404 408 4.576463 GTGAACCATTTCTTCTGTCACTGT 59.424 41.667 0.00 0.00 32.36 3.55
406 410 6.260050 GTGAACCATTTCTTCTGTCACTGTTA 59.740 38.462 0.00 0.00 32.36 2.41
430 434 9.995003 TTAATTTACAAAATTTGACCATGCTCT 57.005 25.926 13.19 0.00 0.00 4.09
435 439 1.760192 ATTTGACCATGCTCTCAGGC 58.240 50.000 0.00 0.00 0.00 4.85
457 461 5.592688 GGCAAGCTTAACATGGGTATTAAGA 59.407 40.000 14.51 0.00 39.68 2.10
722 732 7.961326 AGCCTAATAACATCCAACAAAGAAT 57.039 32.000 0.00 0.00 0.00 2.40
761 771 2.702478 CAGTCCTGAAGCCTGATATCCA 59.298 50.000 0.00 0.00 0.00 3.41
926 941 2.192263 CCAAACCCTAGCTTCTCCTCT 58.808 52.381 0.00 0.00 0.00 3.69
951 966 4.363990 CCGATCTCCATCCGGCGG 62.364 72.222 22.51 22.51 36.62 6.13
988 1003 3.390521 AGATCCGCGGCAACTCCA 61.391 61.111 23.51 0.16 34.01 3.86
1038 1053 2.183555 CTACCGTCGCCCAAGACC 59.816 66.667 0.00 0.00 37.85 3.85
1233 1248 1.422531 CCTTCCCTGAGATCCTCCTG 58.577 60.000 0.00 0.00 0.00 3.86
1407 1422 2.359850 GTGCCCAAGATCGCCACA 60.360 61.111 0.00 0.00 0.00 4.17
1503 1518 2.549754 CCTGCAGAAGATTGTCAACGTT 59.450 45.455 17.39 0.00 0.00 3.99
1587 1602 2.225791 ATAAGCCGTCGCAGCAGTCA 62.226 55.000 0.00 0.00 37.52 3.41
1602 1617 1.802960 CAGTCAGCAGCGTTCAATTCT 59.197 47.619 0.00 0.00 0.00 2.40
1704 1719 4.758251 CGTGCATCTGGGTCGCCA 62.758 66.667 0.00 0.00 0.00 5.69
1746 1761 2.111043 CCACGGCCTGTCACAGTT 59.889 61.111 3.56 0.00 0.00 3.16
1824 1839 3.333680 AGGGTTACACAATCCCACTTGAT 59.666 43.478 0.00 0.00 43.31 2.57
2358 2376 4.452733 GGTGCGAAGACCGGGGAG 62.453 72.222 6.32 0.00 39.04 4.30
2414 2432 1.546029 GGGAATGGACTCTGGTTTTGC 59.454 52.381 0.00 0.00 0.00 3.68
2434 2452 2.283617 GCTGCTGATGATCAGTACAACG 59.716 50.000 22.23 8.44 45.94 4.10
2436 2454 3.511699 TGCTGATGATCAGTACAACGTC 58.488 45.455 22.23 5.10 45.94 4.34
2619 2637 1.220477 GAGGGCTGGCAAGAGAGAC 59.780 63.158 2.88 0.00 0.00 3.36
2887 2905 6.749118 GTCCTCAGTGCATTTTCAAATATCAC 59.251 38.462 0.00 7.98 34.26 3.06
2927 2945 6.749139 TGGAGAATATGATCCTTCTTACACG 58.251 40.000 7.73 0.00 36.50 4.49
2942 2960 1.878953 ACACGAGGAAGAACGCAAAT 58.121 45.000 0.00 0.00 0.00 2.32
3025 3043 3.329520 TGGTTTAGTTGCTGTGATAGGGT 59.670 43.478 0.00 0.00 0.00 4.34
3100 3118 4.212847 CCTATGATGCTTGTATGCTGTGTC 59.787 45.833 0.00 0.00 0.00 3.67
3218 3236 0.764890 TGGCTGGACTGGGTATATGC 59.235 55.000 0.00 0.00 0.00 3.14
3282 3300 4.443063 GTGGTCGTTTTCCAAAATAAGCAC 59.557 41.667 12.17 12.17 36.96 4.40
3332 3350 1.786579 CCTTGCTTGCGCTTGTTTTAC 59.213 47.619 9.73 0.00 36.97 2.01
3361 3380 0.825840 TGGGCGGCTTAAACTTGCTT 60.826 50.000 9.56 0.00 0.00 3.91
3379 3398 8.947055 ACTTGCTTTGAAATTCTGTTTGTTAT 57.053 26.923 0.00 0.00 0.00 1.89
3398 3417 8.764524 TTGTTATATAATTGGTGGTTTGTTGC 57.235 30.769 0.00 0.00 0.00 4.17
3401 3420 4.906747 ATAATTGGTGGTTTGTTGCCAT 57.093 36.364 0.00 0.00 38.40 4.40
3411 3430 4.701651 TGGTTTGTTGCCATATCTTCTCTG 59.298 41.667 0.00 0.00 0.00 3.35
3412 3431 4.096984 GGTTTGTTGCCATATCTTCTCTGG 59.903 45.833 0.00 0.00 0.00 3.86
3413 3432 4.574674 TTGTTGCCATATCTTCTCTGGT 57.425 40.909 0.00 0.00 32.42 4.00
3414 3433 3.877559 TGTTGCCATATCTTCTCTGGTG 58.122 45.455 0.00 0.00 32.42 4.17
3415 3434 3.519107 TGTTGCCATATCTTCTCTGGTGA 59.481 43.478 0.00 0.00 32.42 4.02
3416 3435 3.827008 TGCCATATCTTCTCTGGTGAC 57.173 47.619 0.00 0.00 32.42 3.67
3417 3436 3.378512 TGCCATATCTTCTCTGGTGACT 58.621 45.455 0.00 0.00 32.42 3.41
3463 3482 4.344679 TCCTCAATTGTTCTTGTTTGGCAT 59.655 37.500 5.13 0.00 0.00 4.40
3478 3497 0.889186 GGCATTGTCGACAGGTTGGT 60.889 55.000 19.11 0.00 0.00 3.67
3487 3506 1.337260 CGACAGGTTGGTCTGAAGGAG 60.337 57.143 0.00 0.00 38.11 3.69
3527 3546 4.329392 TCATGTAACTCTGTACTGACCGA 58.671 43.478 0.00 0.00 0.00 4.69
3530 3549 5.306532 TGTAACTCTGTACTGACCGATTC 57.693 43.478 0.00 0.00 0.00 2.52
3560 3579 5.860941 TTTAGCTGGGTTTGTTGATTTGA 57.139 34.783 0.00 0.00 0.00 2.69
3565 3584 5.055812 GCTGGGTTTGTTGATTTGATTTGA 58.944 37.500 0.00 0.00 0.00 2.69
3622 3641 0.875059 CAAGAGTCCTCGGCCAAAAC 59.125 55.000 2.24 0.00 34.09 2.43
3625 3644 0.250770 GAGTCCTCGGCCAAAACCTT 60.251 55.000 2.24 0.00 0.00 3.50
3638 3657 4.211164 GCCAAAACCTTATTGCTGTGTTTC 59.789 41.667 0.00 0.00 0.00 2.78
3646 3665 3.626028 ATTGCTGTGTTTCGGAACTTC 57.374 42.857 8.32 1.95 36.70 3.01
3656 3675 2.231716 TCGGAACTTCAGAGGGATGA 57.768 50.000 0.00 0.00 0.00 2.92
3727 3747 9.950680 TCAAAACAAACTAATGATTTGTCTCTC 57.049 29.630 3.76 0.00 46.88 3.20
3736 3756 9.702253 ACTAATGATTTGTCTCTCTAGGAGTAA 57.298 33.333 7.76 3.71 42.40 2.24
3741 3761 9.877178 TGATTTGTCTCTCTAGGAGTAAAAATC 57.123 33.333 20.47 20.47 42.40 2.17
3771 3792 4.360951 TCGAGGAGTACAATTTTGGGTT 57.639 40.909 0.00 0.00 0.00 4.11
3780 3801 6.607019 AGTACAATTTTGGGTTGGAAGTAGA 58.393 36.000 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 6.130298 TCAACAACTGTGTCCAAAATACTG 57.870 37.500 0.00 0.00 36.80 2.74
35 36 6.183360 CCTTCAACAACTGTGTCCAAAATACT 60.183 38.462 0.00 0.00 36.80 2.12
36 37 5.977129 CCTTCAACAACTGTGTCCAAAATAC 59.023 40.000 0.00 0.00 36.80 1.89
45 47 2.014128 CCGAACCTTCAACAACTGTGT 58.986 47.619 0.00 0.00 40.75 3.72
48 50 2.285083 TGACCGAACCTTCAACAACTG 58.715 47.619 0.00 0.00 0.00 3.16
64 66 2.859165 TTGACAGGGTTGAGATGACC 57.141 50.000 0.00 0.00 36.41 4.02
65 67 4.333926 GCTATTTGACAGGGTTGAGATGAC 59.666 45.833 0.00 0.00 0.00 3.06
93 95 9.214957 CCAAGACAAATGTATCAAGTACTAACA 57.785 33.333 0.00 0.00 34.27 2.41
97 99 6.149474 GCACCAAGACAAATGTATCAAGTACT 59.851 38.462 0.00 0.00 34.27 2.73
114 116 2.743664 CAACTTCATCGATGCACCAAGA 59.256 45.455 23.76 4.43 0.00 3.02
191 193 5.147330 ACGATGTCATGTTCTACCTCAAA 57.853 39.130 0.00 0.00 0.00 2.69
208 212 4.665212 AGCATTGCAAGATTACAACGATG 58.335 39.130 11.91 0.00 0.00 3.84
210 214 4.002982 AGAGCATTGCAAGATTACAACGA 58.997 39.130 11.91 0.00 0.00 3.85
212 216 5.734498 CGTTAGAGCATTGCAAGATTACAAC 59.266 40.000 11.91 4.66 0.00 3.32
229 233 3.610911 AGGAGAAAAATGGCCGTTAGAG 58.389 45.455 11.50 0.00 0.00 2.43
237 241 9.914131 GAATGGTATTAATAGGAGAAAAATGGC 57.086 33.333 0.00 0.00 0.00 4.40
247 251 7.670979 TGTAGCGGTAGAATGGTATTAATAGGA 59.329 37.037 0.00 0.00 0.00 2.94
248 252 7.758528 GTGTAGCGGTAGAATGGTATTAATAGG 59.241 40.741 0.00 0.00 0.00 2.57
249 253 8.521176 AGTGTAGCGGTAGAATGGTATTAATAG 58.479 37.037 0.00 0.00 0.00 1.73
250 254 8.413309 AGTGTAGCGGTAGAATGGTATTAATA 57.587 34.615 0.00 0.00 0.00 0.98
251 255 7.014905 TGAGTGTAGCGGTAGAATGGTATTAAT 59.985 37.037 0.00 0.00 0.00 1.40
253 257 5.829391 TGAGTGTAGCGGTAGAATGGTATTA 59.171 40.000 0.00 0.00 0.00 0.98
254 258 4.647853 TGAGTGTAGCGGTAGAATGGTATT 59.352 41.667 0.00 0.00 0.00 1.89
255 259 4.212716 TGAGTGTAGCGGTAGAATGGTAT 58.787 43.478 0.00 0.00 0.00 2.73
263 267 1.134560 GGGTTCTGAGTGTAGCGGTAG 59.865 57.143 0.00 0.00 0.00 3.18
278 282 2.762887 AGCGTACTTAGGTTAGGGGTTC 59.237 50.000 0.00 0.00 0.00 3.62
335 339 2.690173 ATAGCGTACGACTGCTGATC 57.310 50.000 21.65 0.00 42.46 2.92
372 376 7.147312 CAGAAGAAATGGTTCACATGCTTTAA 58.853 34.615 0.00 0.00 40.44 1.52
373 377 6.265196 ACAGAAGAAATGGTTCACATGCTTTA 59.735 34.615 0.00 0.00 40.44 1.85
404 408 9.995003 AGAGCATGGTCAAATTTTGTAAATTAA 57.005 25.926 25.71 0.00 0.00 1.40
406 410 8.149647 TGAGAGCATGGTCAAATTTTGTAAATT 58.850 29.630 25.71 0.48 0.00 1.82
419 423 0.035725 CTTGCCTGAGAGCATGGTCA 60.036 55.000 25.71 6.89 43.64 4.02
425 429 1.072173 TGTTAAGCTTGCCTGAGAGCA 59.928 47.619 9.86 0.00 41.31 4.26
430 434 1.075374 ACCCATGTTAAGCTTGCCTGA 59.925 47.619 9.86 0.00 0.00 3.86
761 771 0.178924 AGGCCTCCCAAGTGCAATTT 60.179 50.000 0.00 0.00 0.00 1.82
951 966 4.893601 GCTAGGGTTCCGGCGAGC 62.894 72.222 9.30 3.04 0.00 5.03
988 1003 4.511246 CCCCATGGCTGATGCGGT 62.511 66.667 6.09 0.00 40.82 5.68
994 1009 0.988145 CTAAGGGTCCCCATGGCTGA 60.988 60.000 6.09 1.61 38.92 4.26
1023 1038 3.692406 GAGGTCTTGGGCGACGGT 61.692 66.667 0.00 0.00 34.75 4.83
1221 1236 2.364186 TGCGCCAGGAGGATCTCA 60.364 61.111 4.18 0.00 36.89 3.27
1433 1448 1.538512 CGACCAACTTCTCGTACTCCA 59.461 52.381 0.00 0.00 0.00 3.86
1463 1478 4.554363 CAGCTACGGTCCGCTCGG 62.554 72.222 12.28 1.14 33.45 4.63
1587 1602 0.877071 CACCAGAATTGAACGCTGCT 59.123 50.000 0.00 0.00 0.00 4.24
1602 1617 1.965414 TAATCCTCTCCTTGGCACCA 58.035 50.000 0.00 0.00 0.00 4.17
1725 1740 4.250305 GTGACAGGCCGTGGTGGT 62.250 66.667 4.94 0.00 41.21 4.16
1746 1761 1.965414 TCCAATCCTGCTGGTCCTTA 58.035 50.000 9.73 0.00 35.30 2.69
1824 1839 1.065199 CCATCAGCTGCCAACCTCTTA 60.065 52.381 9.47 0.00 0.00 2.10
2434 2452 3.100658 GAAGAGGCCCTTCGAATAGAC 57.899 52.381 15.46 0.00 41.54 2.59
2619 2637 3.262420 CTTATCAAACTCCACGGGTCTG 58.738 50.000 0.00 0.00 0.00 3.51
2887 2905 4.307032 TCTCCAAAGAAATCCTTCAGGG 57.693 45.455 0.00 0.00 33.02 4.45
2927 2945 6.876257 AGGATGATATATTTGCGTTCTTCCTC 59.124 38.462 0.00 0.00 36.70 3.71
3025 3043 4.138290 TCCGGTTGAAATAGAACAAGCAA 58.862 39.130 0.00 0.00 42.25 3.91
3100 3118 2.093500 TCATGGATCCCGTCACAAAGAG 60.093 50.000 9.90 0.00 0.00 2.85
3238 3256 4.821805 CACAAACTCATCCAACCAGTAAGT 59.178 41.667 0.00 0.00 0.00 2.24
3282 3300 4.437930 GGCATTCTTCTTCAAACATCTCCG 60.438 45.833 0.00 0.00 0.00 4.63
3332 3350 1.392589 AAGCCGCCCATACAAATGAG 58.607 50.000 0.00 0.00 34.84 2.90
3398 3417 3.708631 ACCAGTCACCAGAGAAGATATGG 59.291 47.826 0.00 0.00 46.41 2.74
3401 3420 3.099905 CCACCAGTCACCAGAGAAGATA 58.900 50.000 0.00 0.00 0.00 1.98
3411 3430 0.035458 CAACTCCTCCACCAGTCACC 59.965 60.000 0.00 0.00 0.00 4.02
3412 3431 1.048601 TCAACTCCTCCACCAGTCAC 58.951 55.000 0.00 0.00 0.00 3.67
3413 3432 1.625315 CATCAACTCCTCCACCAGTCA 59.375 52.381 0.00 0.00 0.00 3.41
3414 3433 1.677217 GCATCAACTCCTCCACCAGTC 60.677 57.143 0.00 0.00 0.00 3.51
3415 3434 0.326264 GCATCAACTCCTCCACCAGT 59.674 55.000 0.00 0.00 0.00 4.00
3416 3435 0.393537 GGCATCAACTCCTCCACCAG 60.394 60.000 0.00 0.00 0.00 4.00
3417 3436 1.685224 GGCATCAACTCCTCCACCA 59.315 57.895 0.00 0.00 0.00 4.17
3463 3482 1.116308 TCAGACCAACCTGTCGACAA 58.884 50.000 20.49 3.60 40.26 3.18
3478 3497 2.965147 TGATCACACACACTCCTTCAGA 59.035 45.455 0.00 0.00 0.00 3.27
3503 3522 5.242171 TCGGTCAGTACAGAGTTACATGAAA 59.758 40.000 0.00 0.00 0.00 2.69
3510 3529 4.338012 TGGAATCGGTCAGTACAGAGTTA 58.662 43.478 0.00 0.00 33.17 2.24
3565 3584 6.262585 TGCATGGCTTTTGCAAGATCAAAAT 61.263 36.000 0.00 0.00 46.48 1.82
3622 3641 3.502211 AGTTCCGAAACACAGCAATAAGG 59.498 43.478 0.00 0.00 37.88 2.69
3625 3644 4.130857 TGAAGTTCCGAAACACAGCAATA 58.869 39.130 0.00 0.00 37.88 1.90
3638 3657 2.622436 GTTCATCCCTCTGAAGTTCCG 58.378 52.381 0.00 0.00 35.88 4.30
3664 3683 3.888930 CTGCCTGACCCTTGAAACTTTTA 59.111 43.478 0.00 0.00 0.00 1.52
3668 3687 1.140312 TCTGCCTGACCCTTGAAACT 58.860 50.000 0.00 0.00 0.00 2.66
3669 3688 1.239347 GTCTGCCTGACCCTTGAAAC 58.761 55.000 0.00 0.00 39.69 2.78
3670 3689 3.725754 GTCTGCCTGACCCTTGAAA 57.274 52.632 0.00 0.00 39.69 2.69
3743 3763 7.067008 CCCAAAATTGTACTCCTCGAACAATAT 59.933 37.037 11.68 3.53 41.67 1.28
3745 3765 5.183140 CCCAAAATTGTACTCCTCGAACAAT 59.817 40.000 6.59 6.59 43.74 2.71
3746 3766 4.517453 CCCAAAATTGTACTCCTCGAACAA 59.483 41.667 2.34 2.34 37.51 2.83
3747 3767 4.069304 CCCAAAATTGTACTCCTCGAACA 58.931 43.478 0.00 0.00 0.00 3.18
3771 3792 4.026744 CTGGGAGATGAACTCTACTTCCA 58.973 47.826 0.00 0.00 44.37 3.53
3780 3801 4.264172 ACTGTACTCTCTGGGAGATGAACT 60.264 45.833 12.39 0.00 44.45 3.01


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

AutoCloner maintained by Alex Coulton.