Multiple sequence alignment - TraesCS2B01G272900

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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 TraesCS2B01G272900 chr2B 100.000 3714 0 0 1 3714 374210500 374206787 0.000000e+00 6859.0
1 TraesCS2B01G272900 chr2D 92.055 1825 103 18 850 2663 306253436 306251643 0.000000e+00 2529.0
2 TraesCS2B01G272900 chr2D 98.013 1057 17 1 2662 3714 306251528 306250472 0.000000e+00 1832.0
3 TraesCS2B01G272900 chr2D 88.710 186 15 5 1910 2093 553358624 553358805 4.830000e-54 222.0
4 TraesCS2B01G272900 chr2D 100.000 32 0 0 361 392 306253464 306253433 4.010000e-05 60.2
5 TraesCS2B01G272900 chr2A 97.374 1371 29 3 2348 3714 385003597 385004964 0.000000e+00 2326.0
6 TraesCS2B01G272900 chr2A 93.375 1268 61 15 27 1283 384989967 384991222 0.000000e+00 1855.0
7 TraesCS2B01G272900 chr2A 91.529 425 11 2 1910 2334 385003051 385003450 2.500000e-156 562.0
8 TraesCS2B01G272900 chr2A 95.283 318 11 2 1393 1707 385002385 385002701 5.540000e-138 501.0
9 TraesCS2B01G272900 chr2A 95.652 138 4 2 1707 1842 385002785 385002922 1.740000e-53 220.0
10 TraesCS2B01G272900 chr2A 96.094 128 5 0 1270 1397 384997696 384997823 3.760000e-50 209.0
11 TraesCS2B01G272900 chr2A 91.724 145 11 1 1913 2056 235712200 235712056 2.260000e-47 200.0
12 TraesCS2B01G272900 chr2A 96.970 33 1 0 1672 1704 235712285 235712253 5.180000e-04 56.5
13 TraesCS2B01G272900 chr5D 86.364 198 14 7 1910 2095 6116073 6115877 1.750000e-48 204.0
14 TraesCS2B01G272900 chr5D 96.970 33 1 0 1672 1704 6116155 6116123 5.180000e-04 56.5


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 TraesCS2B01G272900 chr2B 374206787 374210500 3713 True 6859.000000 6859 100.000000 1 3714 1 chr2B.!!$R1 3713
1 TraesCS2B01G272900 chr2D 306250472 306253464 2992 True 1473.733333 2529 96.689333 361 3714 3 chr2D.!!$R1 3353
2 TraesCS2B01G272900 chr2A 384989967 384991222 1255 False 1855.000000 1855 93.375000 27 1283 1 chr2A.!!$F1 1256
3 TraesCS2B01G272900 chr2A 385002385 385004964 2579 False 902.250000 2326 94.959500 1393 3714 4 chr2A.!!$F3 2321

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
503 511 0.036022 GATGCCAGGATGCTACTCCC 59.964 60.0 0.00 0.0 35.79 4.30 F
644 654 0.331278 ACAATGATGGAAAGGCCGGA 59.669 50.0 5.05 0.0 40.66 5.14 F
2099 2289 0.108138 AAAGCTCTCGCCGCTACATT 60.108 50.0 0.00 0.0 36.56 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1806 1906 1.004277 TGGGGTGAATGTTCTACCTGC 59.996 52.381 11.45 0.0 34.87 4.85 R
2179 2369 1.152777 CCACCCAGAGCAACAACCA 60.153 57.895 0.00 0.0 0.00 3.67 R
3092 3536 2.909006 ACACACTGGAGTCCATCAAGAT 59.091 45.455 13.56 0.0 32.65 2.40 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
17 18 3.307906 TACGCGGTTGGAGCAGGT 61.308 61.111 12.47 0.00 34.19 4.00
18 19 3.583276 TACGCGGTTGGAGCAGGTG 62.583 63.158 12.47 0.00 34.19 4.00
22 23 4.284550 GGTTGGAGCAGGTGGCCA 62.285 66.667 0.00 0.00 46.50 5.36
23 24 2.674380 GTTGGAGCAGGTGGCCAG 60.674 66.667 5.11 0.00 46.50 4.85
24 25 2.853542 TTGGAGCAGGTGGCCAGA 60.854 61.111 5.11 0.00 46.50 3.86
25 26 2.898933 TTGGAGCAGGTGGCCAGAG 61.899 63.158 5.11 0.00 46.50 3.35
87 88 0.895530 TCCATCACCTCCTTCGACAC 59.104 55.000 0.00 0.00 0.00 3.67
95 96 1.207089 CCTCCTTCGACACAGGCATAA 59.793 52.381 0.00 0.00 0.00 1.90
103 104 2.356135 GACACAGGCATAATGTCGGTT 58.644 47.619 0.00 0.00 33.94 4.44
181 182 2.033299 ACTGTCGAATTTTGGCTGTGTG 59.967 45.455 0.45 0.00 0.00 3.82
191 192 0.890542 TGGCTGTGTGCATCTTGGTC 60.891 55.000 0.00 0.00 45.15 4.02
203 204 1.999648 TCTTGGTCATGCAAAAGCCT 58.000 45.000 0.00 0.00 0.00 4.58
239 242 4.635765 TGCTTTGTATCCACTTGATGCTAC 59.364 41.667 0.00 0.00 37.04 3.58
241 244 5.447818 GCTTTGTATCCACTTGATGCTACAC 60.448 44.000 0.00 0.00 37.04 2.90
250 253 6.770785 TCCACTTGATGCTACACTTTAAGTTT 59.229 34.615 0.00 0.00 32.12 2.66
401 409 1.556911 TGTCCAAGATGCTTCTCCTCC 59.443 52.381 2.09 0.00 0.00 4.30
403 411 1.836166 TCCAAGATGCTTCTCCTCCAG 59.164 52.381 2.09 0.00 0.00 3.86
443 451 6.586344 AGTCTATGTGGATAAATGTGGTGAG 58.414 40.000 0.00 0.00 0.00 3.51
503 511 0.036022 GATGCCAGGATGCTACTCCC 59.964 60.000 0.00 0.00 35.79 4.30
541 551 9.418839 TCCATCATCATAAATTCATAACCACAA 57.581 29.630 0.00 0.00 0.00 3.33
576 586 7.305418 CGTTTTGTTGCAAGATCAAAAGACTAC 60.305 37.037 20.50 11.98 40.21 2.73
591 601 9.280174 TCAAAAGACTACGATACTTTCCATTTT 57.720 29.630 0.00 0.00 33.58 1.82
592 602 9.893305 CAAAAGACTACGATACTTTCCATTTTT 57.107 29.630 0.00 0.00 33.58 1.94
644 654 0.331278 ACAATGATGGAAAGGCCGGA 59.669 50.000 5.05 0.00 40.66 5.14
651 661 2.588464 TGGAAAGGCCGGATTTAACA 57.412 45.000 5.05 5.54 40.66 2.41
703 713 4.776308 GGAGTAGAAAGTTTCCTACCCTCA 59.224 45.833 12.05 0.00 36.74 3.86
713 723 8.849543 AAGTTTCCTACCCTCATGTATACTAA 57.150 34.615 4.17 0.00 0.00 2.24
1076 1089 5.468746 CACGACCTAGATGTTTCCTTCAAAA 59.531 40.000 0.00 0.00 0.00 2.44
1113 1126 3.738982 TGGTCATGTGAAGAACAACGAT 58.261 40.909 0.00 0.00 43.61 3.73
1666 1682 1.005097 TGTTGATGCATCTGGAAGGCT 59.995 47.619 26.32 0.00 0.00 4.58
1806 1906 1.559368 TGGAGCAAATGTTGATGGGG 58.441 50.000 0.00 0.00 0.00 4.96
1824 1925 1.682087 GGGCAGGTAGAACATTCACCC 60.682 57.143 8.65 0.00 32.39 4.61
1830 1940 5.694995 CAGGTAGAACATTCACCCCAATAT 58.305 41.667 8.65 0.00 32.39 1.28
1885 1995 4.559862 AAGCAGGCTGTACTGTTTAGAT 57.440 40.909 17.16 0.00 39.63 1.98
1886 1996 3.866651 AGCAGGCTGTACTGTTTAGATG 58.133 45.455 17.16 0.00 40.59 2.90
1887 1997 3.515502 AGCAGGCTGTACTGTTTAGATGA 59.484 43.478 17.16 0.00 40.59 2.92
1895 2059 9.722056 GGCTGTACTGTTTAGATGATAAAAATG 57.278 33.333 1.46 0.00 0.00 2.32
2091 2281 3.873952 ACAATGATCTTAAAGCTCTCGCC 59.126 43.478 0.00 0.00 36.60 5.54
2092 2282 2.209838 TGATCTTAAAGCTCTCGCCG 57.790 50.000 0.00 0.00 36.60 6.46
2093 2283 0.855995 GATCTTAAAGCTCTCGCCGC 59.144 55.000 0.00 0.00 36.60 6.53
2094 2284 0.461961 ATCTTAAAGCTCTCGCCGCT 59.538 50.000 0.00 0.00 39.94 5.52
2095 2285 1.100510 TCTTAAAGCTCTCGCCGCTA 58.899 50.000 0.00 0.00 36.56 4.26
2096 2286 1.201343 CTTAAAGCTCTCGCCGCTAC 58.799 55.000 0.00 0.00 36.56 3.58
2097 2287 0.528924 TTAAAGCTCTCGCCGCTACA 59.471 50.000 0.00 0.00 36.56 2.74
2098 2288 0.744874 TAAAGCTCTCGCCGCTACAT 59.255 50.000 0.00 0.00 36.56 2.29
2099 2289 0.108138 AAAGCTCTCGCCGCTACATT 60.108 50.000 0.00 0.00 36.56 2.71
2100 2290 0.108138 AAGCTCTCGCCGCTACATTT 60.108 50.000 0.00 0.00 36.56 2.32
2101 2291 0.744874 AGCTCTCGCCGCTACATTTA 59.255 50.000 0.00 0.00 35.63 1.40
2102 2292 1.136305 AGCTCTCGCCGCTACATTTAA 59.864 47.619 0.00 0.00 35.63 1.52
2103 2293 1.931172 GCTCTCGCCGCTACATTTAAA 59.069 47.619 0.00 0.00 0.00 1.52
2104 2294 2.544267 GCTCTCGCCGCTACATTTAAAT 59.456 45.455 0.00 0.00 0.00 1.40
2105 2295 3.739300 GCTCTCGCCGCTACATTTAAATA 59.261 43.478 0.00 0.00 0.00 1.40
2106 2296 4.210537 GCTCTCGCCGCTACATTTAAATAA 59.789 41.667 0.00 0.00 0.00 1.40
2107 2297 5.277154 GCTCTCGCCGCTACATTTAAATAAA 60.277 40.000 0.00 0.00 0.00 1.40
2108 2298 6.565999 GCTCTCGCCGCTACATTTAAATAAAT 60.566 38.462 0.00 0.00 36.39 1.40
2109 2299 7.359765 GCTCTCGCCGCTACATTTAAATAAATA 60.360 37.037 0.00 0.00 34.36 1.40
2110 2300 8.014322 TCTCGCCGCTACATTTAAATAAATAG 57.986 34.615 0.00 4.95 34.36 1.73
2111 2301 7.117236 TCTCGCCGCTACATTTAAATAAATAGG 59.883 37.037 0.00 3.96 34.36 2.57
2112 2302 5.793457 CGCCGCTACATTTAAATAAATAGGC 59.207 40.000 18.46 18.46 34.36 3.93
2113 2303 5.793457 GCCGCTACATTTAAATAAATAGGCG 59.207 40.000 19.91 19.91 41.22 5.52
2114 2304 6.567132 GCCGCTACATTTAAATAAATAGGCGT 60.567 38.462 22.23 11.61 40.70 5.68
2141 2331 4.655649 AGTTGCCTCTTTTCTTTGGGAAAT 59.344 37.500 0.00 0.00 42.63 2.17
2179 2369 4.463891 CCTTGGTTTATGCAGGAAAGACAT 59.536 41.667 0.00 0.00 0.00 3.06
2278 2468 2.555199 CTTCTTGAAGCCTGGTATCGG 58.445 52.381 0.00 0.00 0.00 4.18
2326 2516 8.980832 AGGATTTACATCATCTAGGGTAGATT 57.019 34.615 0.00 0.00 42.70 2.40
2336 2526 3.703052 TCTAGGGTAGATTTTCGGACACC 59.297 47.826 0.00 0.00 0.00 4.16
2470 2793 3.476552 CTTCAACTAACAAGGCAGTGGA 58.523 45.455 0.00 0.00 0.00 4.02
2471 2794 3.788227 TCAACTAACAAGGCAGTGGAT 57.212 42.857 0.00 0.00 0.00 3.41
2488 2811 3.993081 GTGGATATATGAGTGCACAGAGC 59.007 47.826 21.04 5.85 45.96 4.09
2499 2822 1.072806 TGCACAGAGCCTGACTTGAAT 59.927 47.619 8.91 0.00 44.83 2.57
2620 2943 0.938713 TTTGGTTCCAGCGTGTTACG 59.061 50.000 0.00 0.00 45.88 3.18
2631 2954 4.565166 CCAGCGTGTTACGAAGAATCAATA 59.435 41.667 5.44 0.00 46.05 1.90
2721 3165 7.931015 ATTTCAGTATATTGTAGGGACCTCA 57.069 36.000 0.00 0.00 0.00 3.86
2783 3227 0.250124 TGTTGTTAGCTGGACACCCG 60.250 55.000 0.00 0.00 34.29 5.28
2809 3253 6.591448 CCCTATTCATTTTGCTTGAAACTTCC 59.409 38.462 0.00 0.00 36.72 3.46
2956 3400 1.338579 GGCTTCAGTTGAGGGTCTGAG 60.339 57.143 0.00 0.00 40.91 3.35
3064 3508 1.450312 GTTCACCCCCTCATCTGCG 60.450 63.158 0.00 0.00 0.00 5.18
3092 3536 6.293081 GCATTTTTCTGCTATCTCGCTGAATA 60.293 38.462 6.05 0.22 43.93 1.75
3427 3871 1.652563 GGCAACAAGGTTGTCGTCC 59.347 57.895 10.44 0.33 41.31 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.307906 ACCTGCTCCAACCGCGTA 61.308 61.111 4.92 0.00 0.00 4.42
1 2 4.988598 CACCTGCTCCAACCGCGT 62.989 66.667 4.92 0.00 0.00 6.01
5 6 4.284550 TGGCCACCTGCTCCAACC 62.285 66.667 0.00 0.00 40.92 3.77
6 7 2.674380 CTGGCCACCTGCTCCAAC 60.674 66.667 0.00 0.00 40.92 3.77
7 8 2.853542 TCTGGCCACCTGCTCCAA 60.854 61.111 0.00 0.00 40.92 3.53
8 9 3.324930 CTCTGGCCACCTGCTCCA 61.325 66.667 0.00 0.00 40.92 3.86
9 10 3.005539 TCTCTGGCCACCTGCTCC 61.006 66.667 0.00 0.00 40.92 4.70
10 11 2.583520 CTCTCTGGCCACCTGCTC 59.416 66.667 0.00 0.00 40.92 4.26
11 12 3.007920 CCTCTCTGGCCACCTGCT 61.008 66.667 0.00 0.00 40.92 4.24
12 13 2.417558 AAACCTCTCTGGCCACCTGC 62.418 60.000 0.00 0.00 40.22 4.85
13 14 0.607489 CAAACCTCTCTGGCCACCTG 60.607 60.000 0.00 0.00 40.22 4.00
14 15 1.062488 ACAAACCTCTCTGGCCACCT 61.062 55.000 0.00 0.00 40.22 4.00
15 16 0.690762 TACAAACCTCTCTGGCCACC 59.309 55.000 0.00 0.00 40.22 4.61
16 17 1.610886 GGTACAAACCTCTCTGGCCAC 60.611 57.143 0.00 0.00 43.08 5.01
17 18 0.690762 GGTACAAACCTCTCTGGCCA 59.309 55.000 4.71 4.71 43.08 5.36
18 19 0.035343 GGGTACAAACCTCTCTGGCC 60.035 60.000 0.00 0.00 45.95 5.36
19 20 0.690762 TGGGTACAAACCTCTCTGGC 59.309 55.000 0.00 0.00 45.95 4.85
20 21 3.502123 TTTGGGTACAAACCTCTCTGG 57.498 47.619 0.00 0.00 45.95 3.86
45 46 3.134623 ACGATCTGGAGATTATGTTGCCA 59.865 43.478 0.00 0.00 34.37 4.92
50 51 5.305386 TGATGGAACGATCTGGAGATTATGT 59.695 40.000 0.00 0.00 34.37 2.29
61 62 2.166907 AGGAGGTGATGGAACGATCT 57.833 50.000 0.00 0.00 0.00 2.75
87 88 4.955925 TGTAAAACCGACATTATGCCTG 57.044 40.909 0.00 0.00 0.00 4.85
95 96 7.064609 CACAATAGAGTCATGTAAAACCGACAT 59.935 37.037 0.00 0.00 38.05 3.06
103 104 5.435686 AGGCCACAATAGAGTCATGTAAA 57.564 39.130 5.01 0.00 0.00 2.01
141 142 7.709182 TCGACAGTCTGACAAAAGAAGATAAAA 59.291 33.333 10.88 0.00 0.00 1.52
161 162 2.653890 CACACAGCCAAAATTCGACAG 58.346 47.619 0.00 0.00 0.00 3.51
163 164 1.268999 TGCACACAGCCAAAATTCGAC 60.269 47.619 0.00 0.00 44.83 4.20
165 166 1.987770 GATGCACACAGCCAAAATTCG 59.012 47.619 0.00 0.00 44.83 3.34
181 182 1.997606 GCTTTTGCATGACCAAGATGC 59.002 47.619 0.00 0.00 45.45 3.91
337 345 4.222336 ACTCGAGGAGAATCATCTTGGAT 58.778 43.478 18.41 0.00 45.14 3.41
435 443 5.680619 ACAAGAGACAAATAACTCACCACA 58.319 37.500 0.00 0.00 35.83 4.17
437 445 7.639113 AAAACAAGAGACAAATAACTCACCA 57.361 32.000 0.00 0.00 35.83 4.17
468 476 7.233632 TCCTGGCATCAGCTATTTATTATTGT 58.766 34.615 0.00 0.00 41.70 2.71
469 477 7.692460 TCCTGGCATCAGCTATTTATTATTG 57.308 36.000 0.00 0.00 41.70 1.90
470 478 7.147949 GCATCCTGGCATCAGCTATTTATTATT 60.148 37.037 0.00 0.00 41.70 1.40
471 479 6.320672 GCATCCTGGCATCAGCTATTTATTAT 59.679 38.462 0.00 0.00 41.70 1.28
472 480 5.649395 GCATCCTGGCATCAGCTATTTATTA 59.351 40.000 0.00 0.00 41.70 0.98
473 481 4.461781 GCATCCTGGCATCAGCTATTTATT 59.538 41.667 0.00 0.00 41.70 1.40
474 482 4.015084 GCATCCTGGCATCAGCTATTTAT 58.985 43.478 0.00 0.00 41.70 1.40
475 483 3.073503 AGCATCCTGGCATCAGCTATTTA 59.926 43.478 2.64 0.00 41.70 1.40
476 484 2.158505 AGCATCCTGGCATCAGCTATTT 60.159 45.455 2.64 0.00 41.70 1.40
477 485 1.424302 AGCATCCTGGCATCAGCTATT 59.576 47.619 2.64 0.00 41.70 1.73
478 486 1.065647 AGCATCCTGGCATCAGCTAT 58.934 50.000 2.64 0.00 41.70 2.97
479 487 1.345741 GTAGCATCCTGGCATCAGCTA 59.654 52.381 6.89 6.89 41.70 3.32
481 489 0.108207 AGTAGCATCCTGGCATCAGC 59.892 55.000 0.00 0.00 39.61 4.26
482 490 1.270732 GGAGTAGCATCCTGGCATCAG 60.271 57.143 0.00 0.00 40.59 2.90
483 491 0.761187 GGAGTAGCATCCTGGCATCA 59.239 55.000 0.00 0.00 36.35 3.07
484 492 0.036022 GGGAGTAGCATCCTGGCATC 59.964 60.000 0.00 0.00 39.50 3.91
485 493 0.401105 AGGGAGTAGCATCCTGGCAT 60.401 55.000 0.00 0.00 39.50 4.40
486 494 1.003442 AGGGAGTAGCATCCTGGCA 59.997 57.895 3.06 0.00 39.50 4.92
541 551 2.417719 TGCAACAAAACGGCAAAACTT 58.582 38.095 0.00 0.00 34.05 2.66
591 601 7.047891 CAGCCATCCTAGTAAGTGACATAAAA 58.952 38.462 0.00 0.00 0.00 1.52
592 602 6.156256 ACAGCCATCCTAGTAAGTGACATAAA 59.844 38.462 0.00 0.00 0.00 1.40
599 609 3.525537 CACACAGCCATCCTAGTAAGTG 58.474 50.000 0.00 0.00 0.00 3.16
634 644 2.443416 AGGTGTTAAATCCGGCCTTTC 58.557 47.619 0.00 0.00 0.00 2.62
644 654 9.594478 ACATTCTTTTTCGAAAAGGTGTTAAAT 57.406 25.926 26.04 17.30 0.00 1.40
651 661 7.342769 AGGTAACATTCTTTTTCGAAAAGGT 57.657 32.000 26.04 15.23 41.41 3.50
814 826 3.829886 ATGATGCAACGTCGTGAATTT 57.170 38.095 0.00 0.00 0.00 1.82
1076 1089 6.990939 CACATGACCAACTGAAGATGATAGAT 59.009 38.462 0.00 0.00 0.00 1.98
1113 1126 5.708736 ATGGATTACTACCATGTGACCAA 57.291 39.130 0.00 0.00 45.05 3.67
1248 1261 5.551760 TTGCTGCTAGTCTAATTTGCTTC 57.448 39.130 0.00 0.00 0.00 3.86
1314 1327 3.007723 TCAGAGCCATAGAAGCCATGATC 59.992 47.826 0.00 0.00 0.00 2.92
1562 1578 7.662897 AGCTTTTGTAGGATATACTGAGCTAC 58.337 38.462 0.00 0.00 0.00 3.58
1666 1682 3.073946 AGCCTGAAAACTAACCTTGGCTA 59.926 43.478 0.00 0.00 46.30 3.93
1806 1906 1.004277 TGGGGTGAATGTTCTACCTGC 59.996 52.381 11.45 0.00 34.87 4.85
1858 1968 9.090103 TCTAAACAGTACAGCCTGCTTATATAT 57.910 33.333 0.00 0.00 35.83 0.86
1859 1969 8.473358 TCTAAACAGTACAGCCTGCTTATATA 57.527 34.615 0.00 0.00 35.83 0.86
1860 1970 7.361457 TCTAAACAGTACAGCCTGCTTATAT 57.639 36.000 0.00 0.00 35.83 0.86
1861 1971 6.785337 TCTAAACAGTACAGCCTGCTTATA 57.215 37.500 0.00 0.00 35.83 0.98
1862 1972 5.677319 TCTAAACAGTACAGCCTGCTTAT 57.323 39.130 0.00 0.00 35.83 1.73
1863 1973 5.186992 TCATCTAAACAGTACAGCCTGCTTA 59.813 40.000 0.00 0.00 35.83 3.09
1885 1995 7.894708 TGGCATCTTCTTGAACATTTTTATCA 58.105 30.769 0.00 0.00 0.00 2.15
1886 1996 8.031277 ACTGGCATCTTCTTGAACATTTTTATC 58.969 33.333 0.00 0.00 0.00 1.75
1887 1997 7.816031 CACTGGCATCTTCTTGAACATTTTTAT 59.184 33.333 0.00 0.00 0.00 1.40
1895 2059 4.836125 TTTCACTGGCATCTTCTTGAAC 57.164 40.909 0.00 0.00 0.00 3.18
1975 2165 7.672983 ATATTGGGCTACATTAAAGACATCG 57.327 36.000 0.00 0.00 0.00 3.84
1986 2176 7.461043 TCTTCTGGGTTATATATTGGGCTACAT 59.539 37.037 0.00 0.00 0.00 2.29
2091 2281 8.776680 AAACGCCTATTTATTTAAATGTAGCG 57.223 30.769 21.41 21.41 45.02 4.26
2092 2282 9.724839 TGAAACGCCTATTTATTTAAATGTAGC 57.275 29.630 11.05 4.60 36.62 3.58
2097 2287 9.083080 GCAACTGAAACGCCTATTTATTTAAAT 57.917 29.630 5.89 5.89 39.14 1.40
2098 2288 7.542824 GGCAACTGAAACGCCTATTTATTTAAA 59.457 33.333 0.00 0.00 42.78 1.52
2099 2289 7.030768 GGCAACTGAAACGCCTATTTATTTAA 58.969 34.615 0.00 0.00 42.78 1.52
2100 2290 6.557110 GGCAACTGAAACGCCTATTTATTTA 58.443 36.000 0.00 0.00 42.78 1.40
2101 2291 5.407502 GGCAACTGAAACGCCTATTTATTT 58.592 37.500 0.00 0.00 42.78 1.40
2102 2292 4.993905 GGCAACTGAAACGCCTATTTATT 58.006 39.130 0.00 0.00 42.78 1.40
2103 2293 4.632538 GGCAACTGAAACGCCTATTTAT 57.367 40.909 0.00 0.00 42.78 1.40
2114 2304 9.154264 TTTCCCAAAGAAAAGAGGCAACTGAAA 62.154 37.037 0.00 0.00 44.94 2.69
2141 2331 9.814899 CATAAACCAAGGCATGAATGTTATTTA 57.185 29.630 0.00 0.00 0.00 1.40
2179 2369 1.152777 CCACCCAGAGCAACAACCA 60.153 57.895 0.00 0.00 0.00 3.67
2326 2516 6.797707 AGTATAGGGATATAGGTGTCCGAAA 58.202 40.000 0.00 0.00 36.54 3.46
2447 2770 3.214328 CACTGCCTTGTTAGTTGAAGGT 58.786 45.455 0.00 0.00 40.89 3.50
2454 2777 6.327626 ACTCATATATCCACTGCCTTGTTAGT 59.672 38.462 0.00 0.00 0.00 2.24
2470 2793 3.899980 TCAGGCTCTGTGCACTCATATAT 59.100 43.478 19.41 0.00 45.15 0.86
2471 2794 3.068732 GTCAGGCTCTGTGCACTCATATA 59.931 47.826 19.41 0.00 45.15 0.86
2488 2811 8.044060 TGTTCAGCTATTTTATTCAAGTCAGG 57.956 34.615 0.00 0.00 0.00 3.86
2499 2822 7.443879 TCAGTTGTGTCATGTTCAGCTATTTTA 59.556 33.333 0.00 0.00 0.00 1.52
2721 3165 6.211587 TGTAGTACTGTAACGCCATATGTT 57.788 37.500 5.39 0.00 0.00 2.71
2783 3227 5.482006 AGTTTCAAGCAAAATGAATAGGGC 58.518 37.500 0.00 0.00 36.72 5.19
2809 3253 2.360165 GCCATGATACAGAAGGGCTTTG 59.640 50.000 0.00 0.00 38.37 2.77
3092 3536 2.909006 ACACACTGGAGTCCATCAAGAT 59.091 45.455 13.56 0.00 32.65 2.40


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

AutoCloner maintained by Alex Coulton.