Multiple sequence alignment - TraesCS6B01G289400

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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 TraesCS6B01G289400 chr6B 100.000 2455 0 0 1 2455 520779416 520776962 0.000000e+00 4534.0
1 TraesCS6B01G289400 chr6A 91.281 1858 104 30 4 1819 485325784 485323943 0.000000e+00 2481.0
2 TraesCS6B01G289400 chr6A 97.297 37 1 0 1272 1308 484909321 484909285 2.040000e-06 63.9
3 TraesCS6B01G289400 chr6D 91.758 1650 89 24 386 2006 344916683 344915052 0.000000e+00 2250.0
4 TraesCS6B01G289400 chr6D 89.610 462 38 6 1997 2455 344914371 344913917 1.640000e-161 579.0
5 TraesCS6B01G289400 chr6D 89.286 364 20 4 4 356 344917311 344916956 2.900000e-119 438.0
6 TraesCS6B01G289400 chr6D 97.297 37 1 0 1272 1308 344353812 344353776 2.040000e-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 TraesCS6B01G289400 chr6B 520776962 520779416 2454 True 4534 4534 100.000 1 2455 1 chr6B.!!$R1 2454
1 TraesCS6B01G289400 chr6A 485323943 485325784 1841 True 2481 2481 91.281 4 1819 1 chr6A.!!$R2 1815
2 TraesCS6B01G289400 chr6D 344913917 344917311 3394 True 1089 2250 90.218 4 2455 3 chr6D.!!$R2 2451

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
854 1122 0.108186 CGTCCTGCACCATAGCTCAA 60.108 55.0 0.0 0.0 34.99 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 2184 0.251742 TTGCCCATGGAACCTCTTGG 60.252 55.0 15.22 0.0 39.83 3.61 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
102 108 4.748798 CCACCCCCTCCCTGCTCT 62.749 72.222 0.00 0.00 0.00 4.09
133 139 2.299297 GTTTCCTCTCCCTTTCTCGTCA 59.701 50.000 0.00 0.00 0.00 4.35
134 140 2.534042 TCCTCTCCCTTTCTCGTCAT 57.466 50.000 0.00 0.00 0.00 3.06
147 153 4.703645 TCTCGTCATTTTCTCTGTCGAT 57.296 40.909 0.00 0.00 34.60 3.59
167 173 3.452786 CCCGAGCCAAGAGAGCGA 61.453 66.667 0.00 0.00 34.64 4.93
203 209 2.946785 GGCTCTAGAAGGCTAGGTACA 58.053 52.381 4.19 0.00 46.82 2.90
211 224 0.618981 AGGCTAGGTACAGGGCAAAC 59.381 55.000 0.00 0.00 0.00 2.93
221 234 3.959535 ACAGGGCAAACAACCATATTG 57.040 42.857 0.00 0.00 0.00 1.90
327 340 1.413812 CCCGCTAATAAACTACCCGGT 59.586 52.381 0.00 0.00 32.86 5.28
358 371 3.859411 TTCCGCGGCATTTTTCTATTT 57.141 38.095 23.51 0.00 0.00 1.40
359 372 3.859411 TCCGCGGCATTTTTCTATTTT 57.141 38.095 23.51 0.00 0.00 1.82
361 374 2.857748 CCGCGGCATTTTTCTATTTTCC 59.142 45.455 14.67 0.00 0.00 3.13
373 624 8.555896 TTTTTCTATTTTCCTAAACAAGGGGT 57.444 30.769 0.00 0.00 46.55 4.95
374 625 9.657728 TTTTTCTATTTTCCTAAACAAGGGGTA 57.342 29.630 0.00 0.00 46.55 3.69
377 628 7.992295 TCTATTTTCCTAAACAAGGGGTAAGT 58.008 34.615 0.00 0.00 46.55 2.24
382 633 4.412858 TCCTAAACAAGGGGTAAGTGTGAA 59.587 41.667 0.00 0.00 46.55 3.18
384 635 2.651382 ACAAGGGGTAAGTGTGAACC 57.349 50.000 0.00 0.00 34.85 3.62
423 679 9.710900 AGAAGCCAAAGGTTTTTCTTTATTATG 57.289 29.630 0.00 0.00 35.44 1.90
424 680 8.846943 AAGCCAAAGGTTTTTCTTTATTATGG 57.153 30.769 0.00 0.00 35.44 2.74
425 681 8.201242 AGCCAAAGGTTTTTCTTTATTATGGA 57.799 30.769 0.00 0.00 35.44 3.41
427 683 8.717821 GCCAAAGGTTTTTCTTTATTATGGAAC 58.282 33.333 0.00 0.00 35.44 3.62
465 724 7.620880 AGGTTCAAAGTATATTCAGTGCTGTA 58.379 34.615 0.00 0.00 0.00 2.74
484 743 6.033966 GCTGTACTGCCAATTTGTATTTACC 58.966 40.000 13.37 0.00 0.00 2.85
505 764 5.590818 ACCCTCTAATCTGAAGTGTCCTAA 58.409 41.667 0.00 0.00 0.00 2.69
513 772 1.816835 TGAAGTGTCCTAATCTCGCGT 59.183 47.619 5.77 0.00 0.00 6.01
567 829 6.316390 ACAAGAACTCACCAATAAATCCGATC 59.684 38.462 0.00 0.00 0.00 3.69
656 918 4.003788 CACCGGCAGGAACGAGGT 62.004 66.667 10.86 0.00 41.02 3.85
794 1059 2.750948 GTCGTGTACAAGAGAAGCCAA 58.249 47.619 11.99 0.00 0.00 4.52
854 1122 0.108186 CGTCCTGCACCATAGCTCAA 60.108 55.000 0.00 0.00 34.99 3.02
1180 1452 4.022329 CGGGTCTGTTTGCTCCTTTAATTT 60.022 41.667 0.00 0.00 0.00 1.82
1184 1456 5.631096 GTCTGTTTGCTCCTTTAATTTGCTC 59.369 40.000 0.00 0.00 0.00 4.26
1323 1595 0.463295 CAGGGCTGTGCAGATCGATT 60.463 55.000 0.00 0.00 0.00 3.34
1358 1630 5.178797 CGTGAGAGGATTAACACCAAGATT 58.821 41.667 0.00 0.00 0.00 2.40
1480 1753 0.029035 CGCTCAAGGAAGCATGCATC 59.971 55.000 21.98 18.04 42.62 3.91
1487 1760 4.445710 AAGCATGCATCCGCCCCA 62.446 61.111 21.98 0.00 37.32 4.96
1488 1761 3.961225 AAGCATGCATCCGCCCCAA 62.961 57.895 21.98 0.00 37.32 4.12
1494 1767 1.976474 GCATCCGCCCCAACTTCAA 60.976 57.895 0.00 0.00 0.00 2.69
1504 1777 4.556233 GCCCCAACTTCAACAGAAATAAC 58.444 43.478 0.00 0.00 0.00 1.89
1513 1786 2.890311 CAACAGAAATAACAGGGGCACA 59.110 45.455 0.00 0.00 0.00 4.57
1533 1808 4.462834 CACAGGATATACTAGCCATCCGAA 59.537 45.833 10.59 0.00 42.60 4.30
1596 1883 0.690762 AGCTGGGGTTTCTTTCGCTA 59.309 50.000 0.00 0.00 0.00 4.26
1670 1957 2.065906 TACTGTGCGTGTGAGCGTCA 62.066 55.000 0.00 0.00 40.67 4.35
1730 2017 4.136051 ACAATGCATGTTTTGGAAAAGGG 58.864 39.130 0.00 0.00 40.06 3.95
1731 2018 4.141528 ACAATGCATGTTTTGGAAAAGGGA 60.142 37.500 0.00 0.00 40.06 4.20
1732 2019 4.703379 ATGCATGTTTTGGAAAAGGGAA 57.297 36.364 0.00 0.00 0.00 3.97
1733 2020 4.494091 TGCATGTTTTGGAAAAGGGAAA 57.506 36.364 0.00 0.00 0.00 3.13
1752 2039 4.142160 GGAAATAATGGGAACTTGCTGGTC 60.142 45.833 0.00 0.00 0.00 4.02
1791 2081 1.507174 GACGTAGCAGCGGAGTCTT 59.493 57.895 9.10 0.00 35.98 3.01
1816 2106 2.132686 ACTAGGTGTTTGGGTCCTTGT 58.867 47.619 0.00 0.00 33.86 3.16
1827 2117 2.976185 TGGGTCCTTGTGTGTCTGAATA 59.024 45.455 0.00 0.00 0.00 1.75
1830 2120 4.825085 GGGTCCTTGTGTGTCTGAATAAAA 59.175 41.667 0.00 0.00 0.00 1.52
1831 2121 5.278315 GGGTCCTTGTGTGTCTGAATAAAAC 60.278 44.000 0.00 0.00 0.00 2.43
1832 2122 5.298276 GGTCCTTGTGTGTCTGAATAAAACA 59.702 40.000 0.00 0.00 0.00 2.83
1833 2123 6.199393 GTCCTTGTGTGTCTGAATAAAACAC 58.801 40.000 0.00 0.00 42.80 3.32
1858 2148 2.523245 TGTTGTATGGCTCCAATGCAA 58.477 42.857 0.00 0.00 34.04 4.08
1866 2156 1.067354 GGCTCCAATGCAAAAGAGGTG 60.067 52.381 10.99 2.82 34.04 4.00
1879 2169 8.506168 TGCAAAAGAGGTGTATAATAAAGAGG 57.494 34.615 0.00 0.00 0.00 3.69
1902 2193 2.101640 AAAACATGGCCCAAGAGGTT 57.898 45.000 0.00 0.00 38.26 3.50
1903 2194 1.632589 AAACATGGCCCAAGAGGTTC 58.367 50.000 0.00 0.00 38.26 3.62
1931 2222 4.925646 GGCAAAAGTTCTTGATTGATCCAC 59.074 41.667 0.00 0.00 0.00 4.02
1938 2229 0.804364 TTGATTGATCCACTGCGTGC 59.196 50.000 3.56 0.00 31.34 5.34
1940 2231 2.637715 GATTGATCCACTGCGTGCGC 62.638 60.000 9.85 9.85 42.35 6.09
2003 2985 2.422127 ACAAAGTTTGACAACCTCACCG 59.578 45.455 22.23 0.00 32.70 4.94
2015 2997 3.144120 CTCACCGAGGCCTGATCCG 62.144 68.421 12.00 7.44 0.00 4.18
2018 3000 2.519541 CCGAGGCCTGATCCGAGA 60.520 66.667 12.00 0.00 0.00 4.04
2023 3005 1.271102 GAGGCCTGATCCGAGACATAC 59.729 57.143 12.00 0.00 0.00 2.39
2024 3006 1.133325 AGGCCTGATCCGAGACATACT 60.133 52.381 3.11 0.00 0.00 2.12
2035 3017 1.475280 GAGACATACTGTGGTACGCCA 59.525 52.381 0.00 0.00 43.73 5.69
2079 3061 7.752239 CGGCTATTGAATGGCTTATAAGATTTG 59.248 37.037 16.85 0.00 36.91 2.32
2161 3143 7.537715 TCACAAACAATAAAGCTATGATGTGG 58.462 34.615 19.21 10.09 36.14 4.17
2163 3145 7.274033 CACAAACAATAAAGCTATGATGTGGTG 59.726 37.037 15.71 13.24 32.87 4.17
2167 3149 6.094048 ACAATAAAGCTATGATGTGGTGTGTC 59.906 38.462 0.00 0.00 0.00 3.67
2173 3155 5.010516 AGCTATGATGTGGTGTGTCTAGATC 59.989 44.000 0.00 0.00 0.00 2.75
2191 3173 8.789762 GTCTAGATCTCCCTTCACTAGATTAAC 58.210 40.741 0.00 0.00 40.58 2.01
2193 3175 7.595819 AGATCTCCCTTCACTAGATTAACAG 57.404 40.000 0.00 0.00 30.19 3.16
2194 3176 7.129425 AGATCTCCCTTCACTAGATTAACAGT 58.871 38.462 0.00 0.00 30.19 3.55
2205 3187 7.032580 CACTAGATTAACAGTCTCCTCAACAG 58.967 42.308 0.00 0.00 0.00 3.16
2206 3188 6.948886 ACTAGATTAACAGTCTCCTCAACAGA 59.051 38.462 0.00 0.00 0.00 3.41
2233 3215 4.122776 GAGCGATGACTCCATTGTAATGT 58.877 43.478 4.12 0.00 36.70 2.71
2234 3216 3.873361 AGCGATGACTCCATTGTAATGTG 59.127 43.478 4.12 0.05 36.70 3.21
2245 3229 4.163078 CCATTGTAATGTGAGAGAGTCCCT 59.837 45.833 4.12 0.00 34.60 4.20
2247 3231 5.825593 TTGTAATGTGAGAGAGTCCCTTT 57.174 39.130 0.00 0.00 0.00 3.11
2260 3244 6.950619 AGAGAGTCCCTTTTTAATTGCAGATT 59.049 34.615 0.00 0.00 0.00 2.40
2315 3299 7.707035 AGAAAAGACACATCCGTGATAATACTC 59.293 37.037 0.00 0.00 46.80 2.59
2320 3304 5.163591 ACACATCCGTGATAATACTCGTTCA 60.164 40.000 0.00 0.00 46.80 3.18
2321 3305 5.920840 CACATCCGTGATAATACTCGTTCAT 59.079 40.000 0.00 0.00 46.80 2.57
2326 3310 7.527457 TCCGTGATAATACTCGTTCATCATAG 58.473 38.462 0.00 0.00 0.00 2.23
2338 3322 5.045869 TCGTTCATCATAGAAGGTCCCTTTT 60.046 40.000 0.00 0.00 36.26 2.27
2362 3346 2.368221 TGGTCATCGATGTGCATCCATA 59.632 45.455 24.09 0.00 34.40 2.74
2364 3348 3.187227 GGTCATCGATGTGCATCCATAAC 59.813 47.826 24.09 11.02 34.40 1.89
2371 3355 5.237127 TCGATGTGCATCCATAACAGATTTC 59.763 40.000 6.60 0.00 34.40 2.17
2375 3359 5.355071 TGTGCATCCATAACAGATTTCTGAC 59.645 40.000 14.29 0.00 46.59 3.51
2392 3376 9.339492 GATTTCTGACAAAATCAAGAATCTCAC 57.661 33.333 13.59 0.00 42.59 3.51
2400 3384 4.959596 ATCAAGAATCTCACACATGTGC 57.040 40.909 25.68 7.49 45.25 4.57
2401 3385 3.076621 TCAAGAATCTCACACATGTGCC 58.923 45.455 25.68 6.42 45.25 5.01
2412 3397 1.870402 CACATGTGCCGTTGTAGTCAA 59.130 47.619 13.94 0.00 0.00 3.18
2429 3414 7.792925 TGTAGTCAATTCTACAACAAATGTCG 58.207 34.615 4.89 0.00 44.54 4.35
2434 3419 8.259194 GTCAATTCTACAACAAATGTCGTTTTG 58.741 33.333 6.67 6.67 42.70 2.44
2437 3422 5.031578 TCTACAACAAATGTCGTTTTGTGC 58.968 37.500 12.26 0.00 46.33 4.57
2438 3423 2.596419 ACAACAAATGTCGTTTTGTGCG 59.404 40.909 12.26 10.03 46.33 5.34
2439 3424 2.553079 ACAAATGTCGTTTTGTGCGT 57.447 40.000 11.22 0.00 45.55 5.24
2441 3426 2.181205 CAAATGTCGTTTTGTGCGTGT 58.819 42.857 0.00 0.00 32.99 4.49
2442 3427 2.099633 AATGTCGTTTTGTGCGTGTC 57.900 45.000 0.00 0.00 0.00 3.67
2444 3429 1.010580 TGTCGTTTTGTGCGTGTCAT 58.989 45.000 0.00 0.00 0.00 3.06
2446 3431 0.306228 TCGTTTTGTGCGTGTCATGG 59.694 50.000 0.00 0.00 0.00 3.66
2448 3433 1.268285 CGTTTTGTGCGTGTCATGGAA 60.268 47.619 0.00 0.00 0.00 3.53
2450 3435 1.674359 TTTGTGCGTGTCATGGAAGT 58.326 45.000 0.00 0.00 0.00 3.01
2451 3436 2.535012 TTGTGCGTGTCATGGAAGTA 57.465 45.000 0.00 0.00 0.00 2.24
2452 3437 2.760634 TGTGCGTGTCATGGAAGTAT 57.239 45.000 0.00 0.00 0.00 2.12
2453 3438 2.345876 TGTGCGTGTCATGGAAGTATG 58.654 47.619 0.00 0.00 0.00 2.39
2454 3439 1.062587 GTGCGTGTCATGGAAGTATGC 59.937 52.381 0.00 0.00 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.670326 CGTTGTACTTTTTGCTCGCC 58.330 50.000 0.00 0.00 0.00 5.54
102 108 2.970324 GAGGAAACCGTGCGCACA 60.970 61.111 37.03 1.33 0.00 4.57
133 139 3.024547 TCGGGAGATCGACAGAGAAAAT 58.975 45.455 0.00 0.00 33.92 1.82
134 140 2.423892 CTCGGGAGATCGACAGAGAAAA 59.576 50.000 12.13 0.00 38.80 2.29
147 153 2.055042 GCTCTCTTGGCTCGGGAGA 61.055 63.158 7.52 4.08 35.25 3.71
203 209 4.972751 AAACAATATGGTTGTTTGCCCT 57.027 36.364 17.65 0.59 46.95 5.19
211 224 3.428862 GCTCCGGGAAAACAATATGGTTG 60.429 47.826 0.00 0.00 0.00 3.77
221 234 2.561373 CGCTTGCTCCGGGAAAAC 59.439 61.111 0.00 0.00 0.00 2.43
339 352 3.428316 GGAAAATAGAAAAATGCCGCGGA 60.428 43.478 33.48 15.19 0.00 5.54
361 374 4.517832 GGTTCACACTTACCCCTTGTTTAG 59.482 45.833 0.00 0.00 0.00 1.85
373 624 0.602638 CAGCGCAGGGTTCACACTTA 60.603 55.000 11.47 0.00 0.00 2.24
374 625 1.893808 CAGCGCAGGGTTCACACTT 60.894 57.895 11.47 0.00 0.00 3.16
377 628 2.591429 CACAGCGCAGGGTTCACA 60.591 61.111 11.47 0.00 0.00 3.58
382 633 0.320771 CTTCTAACACAGCGCAGGGT 60.321 55.000 11.47 5.80 0.00 4.34
384 635 1.639298 GGCTTCTAACACAGCGCAGG 61.639 60.000 11.47 3.29 36.85 4.85
421 677 2.040145 CCTTGGCATTTTTGGGTTCCAT 59.960 45.455 0.00 0.00 31.53 3.41
423 679 1.419762 ACCTTGGCATTTTTGGGTTCC 59.580 47.619 0.00 0.00 0.00 3.62
424 680 2.928801 ACCTTGGCATTTTTGGGTTC 57.071 45.000 0.00 0.00 0.00 3.62
425 681 2.507471 TGAACCTTGGCATTTTTGGGTT 59.493 40.909 0.00 0.00 39.38 4.11
427 683 2.926778 TGAACCTTGGCATTTTTGGG 57.073 45.000 0.00 0.00 0.00 4.12
435 694 6.150976 CACTGAATATACTTTGAACCTTGGCA 59.849 38.462 0.00 0.00 0.00 4.92
465 724 5.580022 AGAGGGTAAATACAAATTGGCAGT 58.420 37.500 0.00 0.00 0.00 4.40
484 743 7.521423 CGAGATTAGGACACTTCAGATTAGAGG 60.521 44.444 0.00 0.00 0.00 3.69
505 764 3.862124 GTGTTGAGCACGCGAGAT 58.138 55.556 15.93 2.03 38.45 2.75
513 772 2.899838 GTGGCCACGTGTTGAGCA 60.900 61.111 22.49 0.00 0.00 4.26
537 796 5.471556 TTATTGGTGAGTTCTTGTACCGA 57.528 39.130 0.00 0.00 35.98 4.69
542 801 5.556915 TCGGATTTATTGGTGAGTTCTTGT 58.443 37.500 0.00 0.00 0.00 3.16
656 918 0.033504 GTCTCAACCCTCAACTCGCA 59.966 55.000 0.00 0.00 0.00 5.10
719 981 0.758685 CCAGGGCCAACAAGAAACCA 60.759 55.000 6.18 0.00 0.00 3.67
770 1032 1.714460 CTTCTCTTGTACACGACGCAC 59.286 52.381 0.00 0.00 0.00 5.34
854 1122 5.745227 AGATCGAGGAAAATATGTGGTTGT 58.255 37.500 0.00 0.00 0.00 3.32
1180 1452 0.976590 ATCTGAGAGCAGCAGGAGCA 60.977 55.000 0.00 0.00 45.49 4.26
1184 1456 1.592131 GCGATCTGAGAGCAGCAGG 60.592 63.158 9.04 0.00 42.01 4.85
1358 1630 1.664649 CGCAGCACGTTCCTTCAGA 60.665 57.895 0.00 0.00 36.87 3.27
1409 1681 2.350895 CGGGTGATGTTGGGCTCA 59.649 61.111 0.00 0.00 0.00 4.26
1480 1753 0.821711 TTCTGTTGAAGTTGGGGCGG 60.822 55.000 0.00 0.00 0.00 6.13
1487 1760 4.280929 GCCCCTGTTATTTCTGTTGAAGTT 59.719 41.667 0.00 0.00 33.28 2.66
1488 1761 3.826729 GCCCCTGTTATTTCTGTTGAAGT 59.173 43.478 0.00 0.00 33.28 3.01
1494 1767 2.555227 CCTGTGCCCCTGTTATTTCTGT 60.555 50.000 0.00 0.00 0.00 3.41
1504 1777 2.234908 GCTAGTATATCCTGTGCCCCTG 59.765 54.545 0.00 0.00 0.00 4.45
1513 1786 4.024670 GGTTCGGATGGCTAGTATATCCT 58.975 47.826 15.41 0.00 38.55 3.24
1533 1808 2.900546 ACAGAAGAGTTTCTCCATCGGT 59.099 45.455 0.00 0.00 41.71 4.69
1562 1837 2.573369 CCAGCTTGCTTGCTCATATCT 58.427 47.619 1.17 0.00 41.98 1.98
1565 1852 0.394762 CCCCAGCTTGCTTGCTCATA 60.395 55.000 1.17 0.00 41.98 2.15
1670 1957 5.014858 TCACCTGAGGTAGACGAAGTTATT 58.985 41.667 2.59 0.00 35.04 1.40
1728 2015 3.132824 CCAGCAAGTTCCCATTATTTCCC 59.867 47.826 0.00 0.00 0.00 3.97
1729 2016 3.769300 ACCAGCAAGTTCCCATTATTTCC 59.231 43.478 0.00 0.00 0.00 3.13
1730 2017 4.462483 TGACCAGCAAGTTCCCATTATTTC 59.538 41.667 0.00 0.00 0.00 2.17
1731 2018 4.415596 TGACCAGCAAGTTCCCATTATTT 58.584 39.130 0.00 0.00 0.00 1.40
1732 2019 4.046286 TGACCAGCAAGTTCCCATTATT 57.954 40.909 0.00 0.00 0.00 1.40
1733 2020 3.737559 TGACCAGCAAGTTCCCATTAT 57.262 42.857 0.00 0.00 0.00 1.28
1776 2063 0.528470 ACTCAAGACTCCGCTGCTAC 59.472 55.000 0.00 0.00 0.00 3.58
1791 2081 2.901839 GGACCCAAACACCTAGTACTCA 59.098 50.000 0.00 0.00 0.00 3.41
1830 2120 2.346803 GAGCCATACAACATCGTGTGT 58.653 47.619 0.00 0.00 44.84 3.72
1831 2121 1.665679 GGAGCCATACAACATCGTGTG 59.334 52.381 0.00 0.00 32.75 3.82
1832 2122 1.277842 TGGAGCCATACAACATCGTGT 59.722 47.619 0.00 0.00 35.43 4.49
1833 2123 2.022764 TGGAGCCATACAACATCGTG 57.977 50.000 0.00 0.00 0.00 4.35
1834 2124 2.779755 TTGGAGCCATACAACATCGT 57.220 45.000 0.00 0.00 0.00 3.73
1835 2125 2.287188 GCATTGGAGCCATACAACATCG 60.287 50.000 0.00 0.00 29.95 3.84
1836 2126 2.689471 TGCATTGGAGCCATACAACATC 59.311 45.455 0.00 0.00 29.95 3.06
1837 2127 2.737544 TGCATTGGAGCCATACAACAT 58.262 42.857 0.00 0.00 29.95 2.71
1889 2180 1.383799 CATGGAACCTCTTGGGCCA 59.616 57.895 0.00 0.00 43.00 5.36
1893 2184 0.251742 TTGCCCATGGAACCTCTTGG 60.252 55.000 15.22 0.00 39.83 3.61
1895 2186 2.250924 CTTTTGCCCATGGAACCTCTT 58.749 47.619 15.22 0.00 0.00 2.85
1902 2193 2.956132 TCAAGAACTTTTGCCCATGGA 58.044 42.857 15.22 0.00 0.00 3.41
1903 2194 3.967332 ATCAAGAACTTTTGCCCATGG 57.033 42.857 4.14 4.14 0.00 3.66
1945 2236 4.544689 TTTGGTGTGTGTGCGCGC 62.545 61.111 27.26 27.26 35.09 6.86
1946 2237 0.869454 ATTTTTGGTGTGTGTGCGCG 60.869 50.000 0.00 0.00 0.00 6.86
1947 2238 0.852136 GATTTTTGGTGTGTGTGCGC 59.148 50.000 0.00 0.00 0.00 6.09
1948 2239 2.033299 AGAGATTTTTGGTGTGTGTGCG 59.967 45.455 0.00 0.00 0.00 5.34
1949 2240 3.715628 AGAGATTTTTGGTGTGTGTGC 57.284 42.857 0.00 0.00 0.00 4.57
1951 2242 6.545666 TGATTGTAGAGATTTTTGGTGTGTGT 59.454 34.615 0.00 0.00 0.00 3.72
1952 2243 6.969366 TGATTGTAGAGATTTTTGGTGTGTG 58.031 36.000 0.00 0.00 0.00 3.82
1953 2244 6.294176 GCTGATTGTAGAGATTTTTGGTGTGT 60.294 38.462 0.00 0.00 0.00 3.72
1955 2246 5.183904 GGCTGATTGTAGAGATTTTTGGTGT 59.816 40.000 0.00 0.00 0.00 4.16
1957 2248 5.574188 AGGCTGATTGTAGAGATTTTTGGT 58.426 37.500 0.00 0.00 0.00 3.67
2003 2985 1.271102 GTATGTCTCGGATCAGGCCTC 59.729 57.143 0.00 0.00 0.00 4.70
2035 3017 3.646637 AGCCGCTTATGGTAGGAATAGTT 59.353 43.478 0.00 0.00 0.00 2.24
2079 3061 1.986378 CACTCACATTCGACGAACTCC 59.014 52.381 13.38 0.00 0.00 3.85
2161 3143 4.020543 AGTGAAGGGAGATCTAGACACAC 58.979 47.826 0.00 4.59 0.00 3.82
2163 3145 5.686753 TCTAGTGAAGGGAGATCTAGACAC 58.313 45.833 0.00 2.80 34.27 3.67
2167 3149 8.698973 TGTTAATCTAGTGAAGGGAGATCTAG 57.301 38.462 0.00 0.00 0.00 2.43
2173 3155 6.183360 GGAGACTGTTAATCTAGTGAAGGGAG 60.183 46.154 0.00 0.00 0.00 4.30
2194 3176 2.166829 GCTCTGTCTCTGTTGAGGAGA 58.833 52.381 0.00 0.00 40.58 3.71
2205 3187 1.098869 TGGAGTCATCGCTCTGTCTC 58.901 55.000 0.00 2.51 35.89 3.36
2206 3188 1.774110 ATGGAGTCATCGCTCTGTCT 58.226 50.000 0.00 0.00 35.89 3.41
2213 3195 3.871006 TCACATTACAATGGAGTCATCGC 59.129 43.478 6.87 0.00 40.70 4.58
2233 3215 5.630121 TGCAATTAAAAAGGGACTCTCTCA 58.370 37.500 0.00 0.00 38.49 3.27
2234 3216 5.940470 TCTGCAATTAAAAAGGGACTCTCTC 59.060 40.000 0.00 0.00 38.49 3.20
2247 3231 9.357652 GCTTTAATCTGACAATCTGCAATTAAA 57.642 29.630 6.86 6.86 0.00 1.52
2289 3273 7.556844 AGTATTATCACGGATGTGTCTTTTCT 58.443 34.615 0.00 0.00 46.49 2.52
2315 3299 4.408182 AAGGGACCTTCTATGATGAACG 57.592 45.455 0.00 0.00 0.00 3.95
2338 3322 2.423185 GGATGCACATCGATGACCAAAA 59.577 45.455 31.33 10.76 38.69 2.44
2341 3325 0.540923 TGGATGCACATCGATGACCA 59.459 50.000 31.33 24.39 38.69 4.02
2342 3326 1.888215 ATGGATGCACATCGATGACC 58.112 50.000 31.33 22.15 38.69 4.02
2362 3346 9.688592 GATTCTTGATTTTGTCAGAAATCTGTT 57.311 29.630 10.06 0.00 43.28 3.16
2364 3348 9.557338 GAGATTCTTGATTTTGTCAGAAATCTG 57.443 33.333 15.55 3.99 43.09 2.90
2371 3355 6.962686 TGTGTGAGATTCTTGATTTTGTCAG 58.037 36.000 0.00 0.00 38.29 3.51
2392 3376 1.507562 TGACTACAACGGCACATGTG 58.492 50.000 21.83 21.83 30.62 3.21
2429 3414 2.223479 ACTTCCATGACACGCACAAAAC 60.223 45.455 0.00 0.00 0.00 2.43
2434 3419 1.062587 GCATACTTCCATGACACGCAC 59.937 52.381 0.00 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.