Multiple sequence alignment - TraesCS6B01G365200

Loading Multiple Alignment...

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 TraesCS6B01G365200 chr6B 100.000 2812 0 0 1 2812 636877321 636880132 0.000000e+00 5193.0
1 TraesCS6B01G365200 chr6D 88.498 2530 138 69 394 2812 422610477 422612964 0.000000e+00 2918.0
2 TraesCS6B01G365200 chr6D 85.171 263 27 6 100 356 422610125 422610381 2.780000e-65 259.0
3 TraesCS6B01G365200 chr6A 89.593 1499 72 32 660 2088 565391447 565392931 0.000000e+00 1827.0
4 TraesCS6B01G365200 chr6A 86.494 696 61 18 2043 2723 565393110 565393787 0.000000e+00 734.0
5 TraesCS6B01G365200 chr6A 82.048 752 67 36 1976 2682 565415665 565416393 1.880000e-161 579.0
6 TraesCS6B01G365200 chr6A 82.797 622 68 21 11 622 565390787 565391379 1.150000e-143 520.0
7 TraesCS6B01G365200 chr2D 82.514 183 25 6 4 184 448214731 448214908 1.350000e-33 154.0
8 TraesCS6B01G365200 chr1A 87.500 72 8 1 2045 2116 470684269 470684199 6.460000e-12 82.4
9 TraesCS6B01G365200 chr1D 84.722 72 10 1 2045 2116 371339497 371339427 1.400000e-08 71.3
10 TraesCS6B01G365200 chr5A 97.143 35 1 0 2048 2082 674658480 674658446 3.030000e-05 60.2


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 TraesCS6B01G365200 chr6B 636877321 636880132 2811 False 5193.0 5193 100.000000 1 2812 1 chr6B.!!$F1 2811
1 TraesCS6B01G365200 chr6D 422610125 422612964 2839 False 1588.5 2918 86.834500 100 2812 2 chr6D.!!$F1 2712
2 TraesCS6B01G365200 chr6A 565390787 565393787 3000 False 1027.0 1827 86.294667 11 2723 3 chr6A.!!$F2 2712
3 TraesCS6B01G365200 chr6A 565415665 565416393 728 False 579.0 579 82.048000 1976 2682 1 chr6A.!!$F1 706

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
131 132 0.034089 GGAGGTATGCAACAAGGGCT 60.034 55.0 0.0 0.0 0.0 5.19 F
627 710 0.107165 GCGGGGCTGGATTTTACTCT 60.107 55.0 0.0 0.0 0.0 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1363 1519 0.52218 CAGCAAAGCAAGCAGAGGAG 59.478 55.0 0.0 0.0 0.00 3.69 R
2534 3025 0.45295 CGACACGTTGGAGAGAGACG 60.453 60.0 0.0 0.0 42.13 4.18 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
53 54 7.041107 GCAAGATAAAGCCCAATAAATGTGAA 58.959 34.615 0.00 0.00 0.00 3.18
59 60 6.705863 AAGCCCAATAAATGTGAAGATCTC 57.294 37.500 0.00 0.00 0.00 2.75
74 75 0.319728 ATCTCTGCGTGCACAACTCT 59.680 50.000 18.64 0.00 0.00 3.24
75 76 0.598419 TCTCTGCGTGCACAACTCTG 60.598 55.000 18.64 6.78 0.00 3.35
77 78 0.598419 TCTGCGTGCACAACTCTGAG 60.598 55.000 18.64 2.45 0.00 3.35
78 79 0.598419 CTGCGTGCACAACTCTGAGA 60.598 55.000 18.64 0.00 0.00 3.27
83 84 2.487934 GTGCACAACTCTGAGATGTGT 58.512 47.619 33.91 21.57 46.63 3.72
84 85 2.478134 GTGCACAACTCTGAGATGTGTC 59.522 50.000 33.91 27.97 46.63 3.67
85 86 2.102925 TGCACAACTCTGAGATGTGTCA 59.897 45.455 33.91 29.46 46.63 3.58
104 105 9.881649 ATGTGTCAGAATATGGATATATGTGAC 57.118 33.333 12.03 12.03 40.43 3.67
111 112 9.605275 AGAATATGGATATATGTGACATTTCGG 57.395 33.333 2.29 0.00 30.00 4.30
114 115 4.595350 TGGATATATGTGACATTTCGGGGA 59.405 41.667 2.29 0.00 0.00 4.81
116 117 3.492102 ATATGTGACATTTCGGGGAGG 57.508 47.619 2.29 0.00 0.00 4.30
122 123 0.916086 ACATTTCGGGGAGGTATGCA 59.084 50.000 0.00 0.00 0.00 3.96
127 128 0.251916 TCGGGGAGGTATGCAACAAG 59.748 55.000 0.00 0.00 0.00 3.16
131 132 0.034089 GGAGGTATGCAACAAGGGCT 60.034 55.000 0.00 0.00 0.00 5.19
155 156 4.134563 AGGTAAACTGCTTGAATTGTCGT 58.865 39.130 0.00 0.00 0.00 4.34
160 161 4.370364 ACTGCTTGAATTGTCGTTTTGT 57.630 36.364 0.00 0.00 0.00 2.83
163 164 3.119316 TGCTTGAATTGTCGTTTTGTGGT 60.119 39.130 0.00 0.00 0.00 4.16
169 170 4.846779 ATTGTCGTTTTGTGGTTAGCAT 57.153 36.364 0.00 0.00 0.00 3.79
170 171 4.640789 TTGTCGTTTTGTGGTTAGCATT 57.359 36.364 0.00 0.00 0.00 3.56
171 172 4.640789 TGTCGTTTTGTGGTTAGCATTT 57.359 36.364 0.00 0.00 0.00 2.32
243 249 8.492415 TTCTAGTTATGGATTGTACTAGGCAT 57.508 34.615 0.00 0.00 40.15 4.40
328 334 1.468520 GCGACAAGAAAGCCAAGCATA 59.531 47.619 0.00 0.00 0.00 3.14
347 353 2.751166 ACCCGATGAGTCAACTCTTG 57.249 50.000 11.23 1.80 43.25 3.02
348 354 2.248248 ACCCGATGAGTCAACTCTTGA 58.752 47.619 11.23 0.00 43.25 3.02
350 356 3.257393 CCCGATGAGTCAACTCTTGAAG 58.743 50.000 11.23 0.00 42.15 3.02
356 362 7.493971 CCGATGAGTCAACTCTTGAAGAATAAT 59.506 37.037 11.23 0.00 42.15 1.28
403 467 7.730364 ACACATGAATAATAAGAATCCGGTC 57.270 36.000 0.00 0.00 0.00 4.79
428 497 5.750067 AGTGATTGATTGTGAAAGCAACAAC 59.250 36.000 0.00 0.00 0.00 3.32
433 502 4.869297 TGATTGTGAAAGCAACAACCAAAG 59.131 37.500 0.00 0.00 0.00 2.77
436 505 3.761218 TGTGAAAGCAACAACCAAAGAGA 59.239 39.130 0.00 0.00 0.00 3.10
466 535 5.952347 AGTCCAAGGAGTTATCGGTAAAT 57.048 39.130 0.00 0.00 0.00 1.40
470 539 8.491958 AGTCCAAGGAGTTATCGGTAAATAAAT 58.508 33.333 0.00 0.00 0.00 1.40
499 568 1.467374 GGTCAACCGAAATCGCCATTG 60.467 52.381 0.00 2.42 38.18 2.82
561 644 3.345414 ACCGTCTGATCTTTCTACGACT 58.655 45.455 0.00 0.00 35.38 4.18
562 645 4.511527 ACCGTCTGATCTTTCTACGACTA 58.488 43.478 0.00 0.00 35.38 2.59
563 646 4.332268 ACCGTCTGATCTTTCTACGACTAC 59.668 45.833 0.00 0.00 35.38 2.73
564 647 4.507134 CGTCTGATCTTTCTACGACTACG 58.493 47.826 0.00 0.00 45.75 3.51
565 648 4.267214 CGTCTGATCTTTCTACGACTACGA 59.733 45.833 0.00 0.00 42.66 3.43
566 649 5.491973 GTCTGATCTTTCTACGACTACGAC 58.508 45.833 0.00 0.00 42.66 4.34
567 650 4.569966 TCTGATCTTTCTACGACTACGACC 59.430 45.833 0.00 0.00 42.66 4.79
624 707 1.747745 ACGCGGGGCTGGATTTTAC 60.748 57.895 12.47 0.00 0.00 2.01
627 710 0.107165 GCGGGGCTGGATTTTACTCT 60.107 55.000 0.00 0.00 0.00 3.24
632 744 3.274288 GGGCTGGATTTTACTCTGACTG 58.726 50.000 0.00 0.00 0.00 3.51
638 750 5.784177 TGGATTTTACTCTGACTGTGAGTC 58.216 41.667 4.28 0.00 45.26 3.36
649 761 2.415857 GACTGTGAGTCTCGTCGTACAT 59.584 50.000 0.00 0.00 41.88 2.29
658 772 4.755629 AGTCTCGTCGTACATATAGCACAT 59.244 41.667 0.00 0.00 0.00 3.21
707 830 9.562583 TTGCGGATTATTATAAGAAACAAACAC 57.437 29.630 0.00 0.00 0.00 3.32
803 928 3.248024 ACAGTGAGAACAAGGACCCATA 58.752 45.455 0.00 0.00 0.00 2.74
874 1007 3.431725 GCACCACCTAACGCAGCC 61.432 66.667 0.00 0.00 0.00 4.85
1344 1488 3.054139 AGCCAAAGCCAGTGATGAATCTA 60.054 43.478 0.00 0.00 41.25 1.98
1353 1509 4.344679 CCAGTGATGAATCTAGCTCCTTCT 59.655 45.833 0.00 0.00 0.00 2.85
1361 1517 5.481824 TGAATCTAGCTCCTTCTTCTGTTCA 59.518 40.000 0.00 0.00 0.00 3.18
1363 1519 2.470983 AGCTCCTTCTTCTGTTCAGC 57.529 50.000 0.00 0.00 0.00 4.26
1385 1547 0.522180 CTCTGCTTGCTTTGCTGAGG 59.478 55.000 17.84 6.62 46.01 3.86
1386 1548 0.109153 TCTGCTTGCTTTGCTGAGGA 59.891 50.000 0.00 0.00 34.36 3.71
1395 1565 1.532868 CTTTGCTGAGGAAGTCAACGG 59.467 52.381 0.00 0.00 33.60 4.44
1396 1566 0.884704 TTGCTGAGGAAGTCAACGGC 60.885 55.000 0.00 0.00 33.60 5.68
1397 1567 2.383527 GCTGAGGAAGTCAACGGCG 61.384 63.158 4.80 4.80 33.60 6.46
1398 1568 2.357034 TGAGGAAGTCAACGGCGC 60.357 61.111 6.90 0.00 29.64 6.53
1418 1598 4.084888 GCGCAGGTGTACAACGGC 62.085 66.667 24.01 24.01 0.00 5.68
1722 1905 3.602513 AAGGAGCTGCTCTGCACGG 62.603 63.158 27.09 0.00 35.33 4.94
1840 2032 2.167662 GCTAGGTAGCTTGCCCAAAAA 58.832 47.619 16.13 0.00 45.62 1.94
1841 2033 2.760650 GCTAGGTAGCTTGCCCAAAAAT 59.239 45.455 16.13 0.00 45.62 1.82
1842 2034 3.951680 GCTAGGTAGCTTGCCCAAAAATA 59.048 43.478 16.13 0.00 45.62 1.40
1843 2035 4.584743 GCTAGGTAGCTTGCCCAAAAATAT 59.415 41.667 16.13 0.00 45.62 1.28
1844 2036 5.278512 GCTAGGTAGCTTGCCCAAAAATATC 60.279 44.000 16.13 0.00 45.62 1.63
1853 2047 5.437289 TGCCCAAAAATATCTATTGCTCG 57.563 39.130 0.00 0.00 0.00 5.03
1859 2053 7.072030 CCAAAAATATCTATTGCTCGTGCTAC 58.928 38.462 11.19 0.00 40.48 3.58
1870 2064 3.754850 TGCTCGTGCTACTAGTTGAACTA 59.245 43.478 12.79 4.81 40.48 2.24
1883 2082 1.217001 TGAACTAGCGTGTGTTGCAG 58.783 50.000 0.00 0.00 33.85 4.41
1974 2182 4.093408 CCTACTGGTGTTGAATGAATGTCG 59.907 45.833 0.00 0.00 0.00 4.35
2001 2211 3.479505 TGCAACGGTGGAATAATTTCG 57.520 42.857 0.90 0.00 32.28 3.46
2073 2512 7.227156 ACTCACTCTGATCCAAAATAAGTGTT 58.773 34.615 0.00 0.00 35.37 3.32
2215 2658 1.442148 GCCACTATGACGGGGACTC 59.558 63.158 0.00 0.00 0.00 3.36
2228 2671 3.199677 CGGGGACTCGCAAAAATACATA 58.800 45.455 0.00 0.00 0.00 2.29
2404 2855 0.905357 AGTTTGCGCATCCTAGAGGT 59.095 50.000 12.75 0.00 36.34 3.85
2421 2872 9.094578 TCCTAGAGGTCTCCATAATCAATAAAG 57.905 37.037 0.00 0.00 36.34 1.85
2446 2897 3.876914 CGCTCCATAAAACTGGAATGCTA 59.123 43.478 0.00 0.00 44.59 3.49
2472 2942 9.303116 ACCTATACACAACAATTAAATCCAACA 57.697 29.630 0.00 0.00 0.00 3.33
2514 2984 4.985538 TGACTGCCTTAAAGAAATCAGGT 58.014 39.130 0.00 0.00 0.00 4.00
2515 2985 5.003804 TGACTGCCTTAAAGAAATCAGGTC 58.996 41.667 0.00 0.00 0.00 3.85
2519 3010 6.551227 ACTGCCTTAAAGAAATCAGGTCTTTT 59.449 34.615 4.86 0.00 41.47 2.27
2521 3012 7.433680 TGCCTTAAAGAAATCAGGTCTTTTTC 58.566 34.615 4.86 0.00 41.47 2.29
2524 3015 8.300286 CCTTAAAGAAATCAGGTCTTTTTCTCC 58.700 37.037 4.86 0.00 41.47 3.71
2525 3016 8.760980 TTAAAGAAATCAGGTCTTTTTCTCCA 57.239 30.769 4.86 0.00 41.47 3.86
2534 3025 3.188667 GGTCTTTTTCTCCAACGGTCATC 59.811 47.826 0.00 0.00 0.00 2.92
2644 3135 6.874134 AGCATAAAATACTTTCACGACTCTGT 59.126 34.615 0.00 0.00 0.00 3.41
2657 3148 3.254166 ACGACTCTGTTTCCTAGCGTTTA 59.746 43.478 0.00 0.00 0.00 2.01
2731 3222 7.908827 TGATGCAAGCATAAAACATTTTCAT 57.091 28.000 7.64 0.00 36.70 2.57
2788 3282 5.272283 ACCATTATTGAGGTAGTACGTGG 57.728 43.478 0.00 0.00 36.07 4.94
2789 3283 4.100498 ACCATTATTGAGGTAGTACGTGGG 59.900 45.833 0.00 0.00 36.07 4.61
2790 3284 4.342951 CCATTATTGAGGTAGTACGTGGGA 59.657 45.833 0.00 0.00 0.00 4.37
2791 3285 5.011738 CCATTATTGAGGTAGTACGTGGGAT 59.988 44.000 0.00 0.00 0.00 3.85
2792 3286 5.779529 TTATTGAGGTAGTACGTGGGATC 57.220 43.478 0.00 0.00 0.00 3.36
2793 3287 2.812836 TGAGGTAGTACGTGGGATCA 57.187 50.000 0.00 0.00 0.00 2.92
2794 3288 3.090210 TGAGGTAGTACGTGGGATCAA 57.910 47.619 0.00 0.00 0.00 2.57
2795 3289 3.638860 TGAGGTAGTACGTGGGATCAAT 58.361 45.455 0.00 0.00 0.00 2.57
2800 3294 5.189145 AGGTAGTACGTGGGATCAATTTCTT 59.811 40.000 0.00 0.00 0.00 2.52
2807 3301 4.331168 CGTGGGATCAATTTCTTCTCTCAC 59.669 45.833 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.410882 GCCTAACAACCAACTGCCAAA 59.589 47.619 0.00 0.00 0.00 3.28
11 12 0.106469 TGCCTAACAACCAACTGCCA 60.106 50.000 0.00 0.00 0.00 4.92
12 13 1.000274 CTTGCCTAACAACCAACTGCC 60.000 52.381 0.00 0.00 33.68 4.85
13 14 1.953686 TCTTGCCTAACAACCAACTGC 59.046 47.619 0.00 0.00 33.68 4.40
14 15 5.957842 TTATCTTGCCTAACAACCAACTG 57.042 39.130 0.00 0.00 33.68 3.16
15 16 5.048013 GCTTTATCTTGCCTAACAACCAACT 60.048 40.000 0.00 0.00 33.68 3.16
16 17 5.161358 GCTTTATCTTGCCTAACAACCAAC 58.839 41.667 0.00 0.00 33.68 3.77
17 18 4.219725 GGCTTTATCTTGCCTAACAACCAA 59.780 41.667 0.00 0.00 45.26 3.67
18 19 3.761752 GGCTTTATCTTGCCTAACAACCA 59.238 43.478 0.00 0.00 45.26 3.67
19 20 4.371855 GGCTTTATCTTGCCTAACAACC 57.628 45.455 0.00 0.00 45.26 3.77
43 44 4.272018 GCACGCAGAGATCTTCACATTTAT 59.728 41.667 0.00 0.00 0.00 1.40
48 49 0.318120 TGCACGCAGAGATCTTCACA 59.682 50.000 0.00 0.00 0.00 3.58
53 54 0.319728 AGTTGTGCACGCAGAGATCT 59.680 50.000 13.13 0.00 0.00 2.75
59 60 0.598419 TCTCAGAGTTGTGCACGCAG 60.598 55.000 13.13 1.62 0.00 5.18
78 79 9.881649 GTCACATATATCCATATTCTGACACAT 57.118 33.333 0.00 0.00 35.07 3.21
85 86 9.605275 CCGAAATGTCACATATATCCATATTCT 57.395 33.333 0.00 0.00 0.00 2.40
104 105 1.676006 GTTGCATACCTCCCCGAAATG 59.324 52.381 0.00 0.00 0.00 2.32
111 112 1.037579 GCCCTTGTTGCATACCTCCC 61.038 60.000 0.00 0.00 0.00 4.30
114 115 0.698238 TCAGCCCTTGTTGCATACCT 59.302 50.000 0.00 0.00 0.00 3.08
116 117 1.098050 CCTCAGCCCTTGTTGCATAC 58.902 55.000 0.00 0.00 0.00 2.39
122 123 2.863809 CAGTTTACCTCAGCCCTTGTT 58.136 47.619 0.00 0.00 0.00 2.83
127 128 1.168714 CAAGCAGTTTACCTCAGCCC 58.831 55.000 0.00 0.00 0.00 5.19
131 132 4.213270 CGACAATTCAAGCAGTTTACCTCA 59.787 41.667 0.00 0.00 0.00 3.86
192 193 9.574516 AAGTTGTTTTCTTGTGAGAATAGGTAT 57.425 29.630 0.00 0.00 41.35 2.73
243 249 2.029200 TCGTTTTCTGTACCGCACCATA 60.029 45.455 0.00 0.00 0.00 2.74
285 291 5.592054 CCTTCCTTTGTTTCTCAACCTTTC 58.408 41.667 0.00 0.00 35.61 2.62
286 292 4.141937 GCCTTCCTTTGTTTCTCAACCTTT 60.142 41.667 0.00 0.00 35.61 3.11
292 298 2.218603 GTCGCCTTCCTTTGTTTCTCA 58.781 47.619 0.00 0.00 0.00 3.27
328 334 2.248248 TCAAGAGTTGACTCATCGGGT 58.752 47.619 13.20 0.00 45.21 5.28
378 442 8.425703 TGACCGGATTCTTATTATTCATGTGTA 58.574 33.333 9.46 0.00 0.00 2.90
379 443 7.279615 TGACCGGATTCTTATTATTCATGTGT 58.720 34.615 9.46 0.00 0.00 3.72
387 451 7.735917 TCAATCACTGACCGGATTCTTATTAT 58.264 34.615 9.46 0.00 31.63 1.28
388 452 7.119709 TCAATCACTGACCGGATTCTTATTA 57.880 36.000 9.46 0.00 31.63 0.98
389 453 5.989477 TCAATCACTGACCGGATTCTTATT 58.011 37.500 9.46 0.00 31.63 1.40
390 454 5.614324 TCAATCACTGACCGGATTCTTAT 57.386 39.130 9.46 0.00 31.63 1.73
392 456 3.981071 TCAATCACTGACCGGATTCTT 57.019 42.857 9.46 0.00 31.63 2.52
398 462 2.698803 TCACAATCAATCACTGACCGG 58.301 47.619 0.00 0.00 36.69 5.28
403 467 5.283294 TGTTGCTTTCACAATCAATCACTG 58.717 37.500 0.00 0.00 0.00 3.66
442 511 5.750352 TTACCGATAACTCCTTGGACTTT 57.250 39.130 0.00 0.00 0.00 2.66
457 526 5.420739 ACCCAGCAACAATTTATTTACCGAT 59.579 36.000 0.00 0.00 0.00 4.18
499 568 5.154222 CACTTTTGATTAGCCGAAAGAACC 58.846 41.667 9.78 0.00 38.99 3.62
561 644 1.145156 CCCGATTGCATGGGTCGTA 59.855 57.895 10.31 0.00 40.76 3.43
562 645 2.124736 CCCGATTGCATGGGTCGT 60.125 61.111 10.31 0.00 40.76 4.34
587 670 2.716217 GTGCATAGGAGTGAAAAGGCT 58.284 47.619 0.00 0.00 0.00 4.58
632 744 4.210746 TGCTATATGTACGACGAGACTCAC 59.789 45.833 0.00 0.00 0.00 3.51
638 750 5.912955 TGAAATGTGCTATATGTACGACGAG 59.087 40.000 0.00 0.00 33.83 4.18
658 772 7.440856 GCAACCAGGAAATATTCAGTTTTGAAA 59.559 33.333 0.00 0.00 45.82 2.69
707 830 3.129502 CGTGCTGCCCATCCAGTG 61.130 66.667 0.00 0.00 35.28 3.66
757 882 0.730265 GCACGCCGACCAATAATTGA 59.270 50.000 0.00 0.00 0.00 2.57
803 928 8.902806 TCGCTGGATCAATTCAACTTTATTATT 58.097 29.630 0.00 0.00 0.00 1.40
1344 1488 1.977129 AGCTGAACAGAAGAAGGAGCT 59.023 47.619 5.97 0.00 0.00 4.09
1363 1519 0.522180 CAGCAAAGCAAGCAGAGGAG 59.478 55.000 0.00 0.00 0.00 3.69
1398 1568 4.424430 GTTGTACACCTGCGCGCG 62.424 66.667 28.44 28.44 0.00 6.86
1402 1582 2.663520 TGCCGTTGTACACCTGCG 60.664 61.111 0.00 0.00 0.00 5.18
1418 1598 1.817099 GATCCGCTTGTCCAGGCTG 60.817 63.158 7.75 7.75 0.00 4.85
1830 2022 5.359576 ACGAGCAATAGATATTTTTGGGCAA 59.640 36.000 0.00 0.00 0.00 4.52
1831 2023 4.887071 ACGAGCAATAGATATTTTTGGGCA 59.113 37.500 0.00 0.00 0.00 5.36
1840 2032 7.175119 TCAACTAGTAGCACGAGCAATAGATAT 59.825 37.037 7.77 0.00 45.49 1.63
1841 2033 6.485648 TCAACTAGTAGCACGAGCAATAGATA 59.514 38.462 7.77 0.00 45.49 1.98
1842 2034 5.299531 TCAACTAGTAGCACGAGCAATAGAT 59.700 40.000 7.77 0.00 45.49 1.98
1843 2035 4.638865 TCAACTAGTAGCACGAGCAATAGA 59.361 41.667 7.77 0.00 45.49 1.98
1844 2036 4.921547 TCAACTAGTAGCACGAGCAATAG 58.078 43.478 7.77 8.30 45.49 1.73
1870 2064 1.819208 TGAAGCTGCAACACACGCT 60.819 52.632 1.02 0.00 35.22 5.07
1883 2082 0.741915 AGCTAGCTAGTCGGTGAAGC 59.258 55.000 17.69 6.92 36.48 3.86
1974 2182 1.658686 TTCCACCGTTGCAACACACC 61.659 55.000 28.01 1.98 0.00 4.16
2001 2211 6.721571 TTGAGAATTCATGTTTCCGTACTC 57.278 37.500 8.44 0.00 32.27 2.59
2044 2261 8.375506 ACTTATTTTGGATCAGAGTGAGTAACA 58.624 33.333 0.00 0.00 0.00 2.41
2045 2262 8.660373 CACTTATTTTGGATCAGAGTGAGTAAC 58.340 37.037 0.00 0.00 36.12 2.50
2046 2263 8.375506 ACACTTATTTTGGATCAGAGTGAGTAA 58.624 33.333 7.50 0.00 37.17 2.24
2047 2264 7.907389 ACACTTATTTTGGATCAGAGTGAGTA 58.093 34.615 7.50 0.00 37.17 2.59
2052 2269 5.769662 TGCAACACTTATTTTGGATCAGAGT 59.230 36.000 0.00 0.00 0.00 3.24
2116 2555 4.921470 TTGCTACTGCGTCTGATTTAAC 57.079 40.909 0.00 0.00 43.34 2.01
2215 2658 7.410513 GGCGACTCTACTATATGTATTTTTGCG 60.411 40.741 0.00 0.00 0.00 4.85
2228 2671 5.906113 CCATAAGATGGCGACTCTACTAT 57.094 43.478 0.00 0.00 44.70 2.12
2255 2698 7.352739 AGCGCGCTTTATAAATTATATATGCC 58.647 34.615 31.32 0.00 0.00 4.40
2304 2753 6.451064 ACAAAAATCGTGAACTTTCCTCTT 57.549 33.333 0.00 0.00 0.00 2.85
2346 2797 7.722795 TTATTGTGTATGTTATCATGGGACG 57.277 36.000 0.00 0.00 35.70 4.79
2382 2833 2.621338 CTCTAGGATGCGCAAACTCAA 58.379 47.619 17.11 6.48 0.00 3.02
2404 2855 6.706270 GGAGCGTTCTTTATTGATTATGGAGA 59.294 38.462 0.00 0.00 0.00 3.71
2446 2897 9.303116 TGTTGGATTTAATTGTTGTGTATAGGT 57.697 29.630 0.00 0.00 0.00 3.08
2465 2935 4.163078 TGGATTGGTTTGTGTTTGTTGGAT 59.837 37.500 0.00 0.00 0.00 3.41
2472 2942 5.104982 AGTCAATGTGGATTGGTTTGTGTTT 60.105 36.000 0.00 0.00 39.68 2.83
2514 2984 3.064207 CGATGACCGTTGGAGAAAAAGA 58.936 45.455 0.00 0.00 0.00 2.52
2515 2985 3.455619 CGATGACCGTTGGAGAAAAAG 57.544 47.619 0.00 0.00 0.00 2.27
2534 3025 0.452950 CGACACGTTGGAGAGAGACG 60.453 60.000 0.00 0.00 42.13 4.18
2593 3084 6.120220 TCATCATCAGAGATGTTGCTTTGAT 58.880 36.000 11.37 0.00 44.46 2.57
2594 3085 5.493809 TCATCATCAGAGATGTTGCTTTGA 58.506 37.500 11.37 0.00 44.46 2.69
2595 3086 5.813080 TCATCATCAGAGATGTTGCTTTG 57.187 39.130 11.37 0.00 44.46 2.77
2597 3088 5.163642 GCTTTCATCATCAGAGATGTTGCTT 60.164 40.000 11.37 0.00 44.46 3.91
2598 3089 4.335874 GCTTTCATCATCAGAGATGTTGCT 59.664 41.667 11.37 0.00 44.46 3.91
2599 3090 4.095932 TGCTTTCATCATCAGAGATGTTGC 59.904 41.667 11.37 0.00 44.46 4.17
2600 3091 5.813080 TGCTTTCATCATCAGAGATGTTG 57.187 39.130 10.37 10.37 44.46 3.33
2601 3092 8.515695 TTTATGCTTTCATCATCAGAGATGTT 57.484 30.769 6.86 0.00 44.46 2.71
2644 3135 8.838365 TCTTATTTTTGTGTAAACGCTAGGAAA 58.162 29.630 0.00 0.00 0.00 3.13
2766 3260 4.100498 CCCACGTACTACCTCAATAATGGT 59.900 45.833 0.00 0.00 40.12 3.55
2774 3268 2.812836 TGATCCCACGTACTACCTCA 57.187 50.000 0.00 0.00 0.00 3.86
2777 3271 5.019785 AGAAATTGATCCCACGTACTACC 57.980 43.478 0.00 0.00 0.00 3.18
2779 3273 6.380274 AGAGAAGAAATTGATCCCACGTACTA 59.620 38.462 0.00 0.00 0.00 1.82
2781 3275 5.420409 AGAGAAGAAATTGATCCCACGTAC 58.580 41.667 0.00 0.00 0.00 3.67
2782 3276 5.186992 TGAGAGAAGAAATTGATCCCACGTA 59.813 40.000 0.00 0.00 0.00 3.57
2784 3278 4.331168 GTGAGAGAAGAAATTGATCCCACG 59.669 45.833 0.00 0.00 0.00 4.94
2786 3280 5.503634 TGTGAGAGAAGAAATTGATCCCA 57.496 39.130 0.00 0.00 0.00 4.37
2787 3281 7.025485 GATTGTGAGAGAAGAAATTGATCCC 57.975 40.000 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.