Multiple sequence alignment - TraesCS5B01G444800

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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 TraesCS5B01G444800 chr5B 100.000 2345 0 0 1 2345 617142346 617144690 0.000000e+00 4331
1 TraesCS5B01G444800 chr5B 79.111 742 148 7 1587 2325 392103096 392103833 2.690000e-139 505
2 TraesCS5B01G444800 chr5B 78.976 742 149 7 1587 2325 392044358 392045095 1.250000e-137 499
3 TraesCS5B01G444800 chr5B 78.841 742 150 7 1587 2325 392059585 392060322 5.820000e-136 494
4 TraesCS5B01G444800 chr1A 94.961 2203 81 15 148 2325 20088906 20086709 0.000000e+00 3426
5 TraesCS5B01G444800 chr1A 93.912 2201 106 13 148 2325 312717419 312719614 0.000000e+00 3297
6 TraesCS5B01G444800 chr1A 80.667 2219 347 40 148 2325 58420171 58422348 0.000000e+00 1646
7 TraesCS5B01G444800 chrUn 93.114 668 46 0 1658 2325 93941486 93942153 0.000000e+00 979
8 TraesCS5B01G444800 chr1B 79.380 742 147 6 1587 2325 42064176 42063438 3.450000e-143 518
9 TraesCS5B01G444800 chr3B 78.976 742 150 6 1587 2325 373618749 373618011 3.480000e-138 501
10 TraesCS5B01G444800 chr5D 97.973 148 3 0 1 148 497868486 497868633 8.310000e-65 257
11 TraesCS5B01G444800 chr5A 95.270 148 7 0 1 148 622053237 622053384 3.900000e-58 235


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 TraesCS5B01G444800 chr5B 617142346 617144690 2344 False 4331 4331 100.000 1 2345 1 chr5B.!!$F4 2344
1 TraesCS5B01G444800 chr5B 392103096 392103833 737 False 505 505 79.111 1587 2325 1 chr5B.!!$F3 738
2 TraesCS5B01G444800 chr5B 392044358 392045095 737 False 499 499 78.976 1587 2325 1 chr5B.!!$F1 738
3 TraesCS5B01G444800 chr5B 392059585 392060322 737 False 494 494 78.841 1587 2325 1 chr5B.!!$F2 738
4 TraesCS5B01G444800 chr1A 20086709 20088906 2197 True 3426 3426 94.961 148 2325 1 chr1A.!!$R1 2177
5 TraesCS5B01G444800 chr1A 312717419 312719614 2195 False 3297 3297 93.912 148 2325 1 chr1A.!!$F2 2177
6 TraesCS5B01G444800 chr1A 58420171 58422348 2177 False 1646 1646 80.667 148 2325 1 chr1A.!!$F1 2177
7 TraesCS5B01G444800 chrUn 93941486 93942153 667 False 979 979 93.114 1658 2325 1 chrUn.!!$F1 667
8 TraesCS5B01G444800 chr1B 42063438 42064176 738 True 518 518 79.380 1587 2325 1 chr1B.!!$R1 738
9 TraesCS5B01G444800 chr3B 373618011 373618749 738 True 501 501 78.976 1587 2325 1 chr3B.!!$R1 738

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
107 108 0.183971 TCTCCCCCGCAAAAAGACAA 59.816 50.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1695 1735 0.032678 ACGCGATATGGCAGGAAGAG 59.967 55.0 15.93 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
39 40 8.705594 TCCTCTTAGATAATTTAGTCAGGTTGG 58.294 37.037 0.00 0.00 0.00 3.77
40 41 8.487028 CCTCTTAGATAATTTAGTCAGGTTGGT 58.513 37.037 0.00 0.00 0.00 3.67
41 42 9.892130 CTCTTAGATAATTTAGTCAGGTTGGTT 57.108 33.333 0.00 0.00 0.00 3.67
49 50 8.644374 AATTTAGTCAGGTTGGTTTTATAGCA 57.356 30.769 0.00 0.00 0.00 3.49
50 51 8.644374 ATTTAGTCAGGTTGGTTTTATAGCAA 57.356 30.769 0.00 0.00 41.68 3.91
59 60 6.926630 TTGGTTTTATAGCAACATTTCCCT 57.073 33.333 0.00 0.00 39.21 4.20
61 62 8.602472 TTGGTTTTATAGCAACATTTCCCTAT 57.398 30.769 0.00 0.00 39.21 2.57
62 63 8.006298 TGGTTTTATAGCAACATTTCCCTATG 57.994 34.615 0.00 0.00 0.00 2.23
63 64 7.617723 TGGTTTTATAGCAACATTTCCCTATGT 59.382 33.333 0.00 0.00 40.37 2.29
64 65 9.127277 GGTTTTATAGCAACATTTCCCTATGTA 57.873 33.333 0.00 0.00 37.76 2.29
66 67 8.918202 TTTATAGCAACATTTCCCTATGTAGG 57.082 34.615 0.00 0.00 43.25 3.18
95 96 7.213178 ACATAACATAATATCCATCTCCCCC 57.787 40.000 0.00 0.00 0.00 5.40
96 97 4.844349 AACATAATATCCATCTCCCCCG 57.156 45.455 0.00 0.00 0.00 5.73
97 98 2.505819 ACATAATATCCATCTCCCCCGC 59.494 50.000 0.00 0.00 0.00 6.13
98 99 2.335681 TAATATCCATCTCCCCCGCA 57.664 50.000 0.00 0.00 0.00 5.69
99 100 1.444933 AATATCCATCTCCCCCGCAA 58.555 50.000 0.00 0.00 0.00 4.85
100 101 1.444933 ATATCCATCTCCCCCGCAAA 58.555 50.000 0.00 0.00 0.00 3.68
101 102 1.217916 TATCCATCTCCCCCGCAAAA 58.782 50.000 0.00 0.00 0.00 2.44
102 103 0.334676 ATCCATCTCCCCCGCAAAAA 59.665 50.000 0.00 0.00 0.00 1.94
103 104 0.323360 TCCATCTCCCCCGCAAAAAG 60.323 55.000 0.00 0.00 0.00 2.27
104 105 0.323360 CCATCTCCCCCGCAAAAAGA 60.323 55.000 0.00 0.00 0.00 2.52
105 106 0.811281 CATCTCCCCCGCAAAAAGAC 59.189 55.000 0.00 0.00 0.00 3.01
106 107 0.404040 ATCTCCCCCGCAAAAAGACA 59.596 50.000 0.00 0.00 0.00 3.41
107 108 0.183971 TCTCCCCCGCAAAAAGACAA 59.816 50.000 0.00 0.00 0.00 3.18
108 109 1.036707 CTCCCCCGCAAAAAGACAAA 58.963 50.000 0.00 0.00 0.00 2.83
109 110 0.747852 TCCCCCGCAAAAAGACAAAC 59.252 50.000 0.00 0.00 0.00 2.93
110 111 0.461961 CCCCCGCAAAAAGACAAACA 59.538 50.000 0.00 0.00 0.00 2.83
111 112 1.069978 CCCCCGCAAAAAGACAAACAT 59.930 47.619 0.00 0.00 0.00 2.71
112 113 2.297597 CCCCCGCAAAAAGACAAACATA 59.702 45.455 0.00 0.00 0.00 2.29
113 114 3.243907 CCCCCGCAAAAAGACAAACATAA 60.244 43.478 0.00 0.00 0.00 1.90
114 115 4.562552 CCCCCGCAAAAAGACAAACATAAT 60.563 41.667 0.00 0.00 0.00 1.28
115 116 5.336849 CCCCCGCAAAAAGACAAACATAATA 60.337 40.000 0.00 0.00 0.00 0.98
116 117 6.337356 CCCCGCAAAAAGACAAACATAATAT 58.663 36.000 0.00 0.00 0.00 1.28
117 118 6.475402 CCCCGCAAAAAGACAAACATAATATC 59.525 38.462 0.00 0.00 0.00 1.63
118 119 6.475402 CCCGCAAAAAGACAAACATAATATCC 59.525 38.462 0.00 0.00 0.00 2.59
119 120 7.032580 CCGCAAAAAGACAAACATAATATCCA 58.967 34.615 0.00 0.00 0.00 3.41
120 121 7.706179 CCGCAAAAAGACAAACATAATATCCAT 59.294 33.333 0.00 0.00 0.00 3.41
121 122 8.745837 CGCAAAAAGACAAACATAATATCCATC 58.254 33.333 0.00 0.00 0.00 3.51
122 123 9.807649 GCAAAAAGACAAACATAATATCCATCT 57.192 29.630 0.00 0.00 0.00 2.90
139 140 7.781324 ATCCATCTGAAAATTTTACCAGTGT 57.219 32.000 15.45 6.86 0.00 3.55
140 141 8.877864 ATCCATCTGAAAATTTTACCAGTGTA 57.122 30.769 15.45 5.40 0.00 2.90
141 142 8.335532 TCCATCTGAAAATTTTACCAGTGTAG 57.664 34.615 15.45 7.13 0.00 2.74
142 143 7.942341 TCCATCTGAAAATTTTACCAGTGTAGT 59.058 33.333 15.45 0.00 0.00 2.73
143 144 8.237267 CCATCTGAAAATTTTACCAGTGTAGTC 58.763 37.037 15.45 0.00 0.00 2.59
144 145 9.003658 CATCTGAAAATTTTACCAGTGTAGTCT 57.996 33.333 15.45 0.00 0.00 3.24
145 146 8.974060 TCTGAAAATTTTACCAGTGTAGTCTT 57.026 30.769 15.45 0.00 0.00 3.01
178 179 2.959030 CGGAGATCCATGAGTTCACCTA 59.041 50.000 0.00 0.00 35.14 3.08
405 406 1.671054 CAGGACCGCAACCGTGATT 60.671 57.895 0.00 0.00 0.00 2.57
424 425 4.814294 CTCTGGTGGGCGGCGTAC 62.814 72.222 9.37 4.54 0.00 3.67
492 508 4.655647 CTGCTGTGGCTGCCCAGT 62.656 66.667 26.93 0.00 43.18 4.00
501 517 1.341156 GGCTGCCCAGTCACTCCTAT 61.341 60.000 7.66 0.00 32.23 2.57
508 524 1.561542 CCAGTCACTCCTATTGGGCTT 59.438 52.381 0.00 0.00 34.39 4.35
748 765 1.557269 ATCCCGCTCTGCTCCAACTT 61.557 55.000 0.00 0.00 0.00 2.66
775 792 3.343788 CTCGACGCTTCTTCCGCCT 62.344 63.158 0.00 0.00 0.00 5.52
947 966 1.303074 AGAGGTCGCCGCCGATATA 60.303 57.895 0.00 0.00 46.38 0.86
956 975 1.330655 CCGCCGATATAGCCATCCCT 61.331 60.000 0.00 0.00 0.00 4.20
1104 1144 2.746359 GCTGAGCTCCTGGTGTGT 59.254 61.111 12.15 0.00 0.00 3.72
1216 1256 3.521560 GAAGTGATCAACTCCATGCGTA 58.478 45.455 0.00 0.00 38.56 4.42
1489 1529 4.225942 AGATGTGCTAAGATGGGTTCAGAA 59.774 41.667 0.00 0.00 0.00 3.02
1544 1584 1.134340 TCTGTGTTACCTGTGGCGTTT 60.134 47.619 0.00 0.00 0.00 3.60
1558 1598 1.429463 GCGTTTACTGTAGCAGCTGT 58.571 50.000 16.64 4.79 34.37 4.40
1563 1603 3.526931 TTACTGTAGCAGCTGTCCATC 57.473 47.619 16.64 0.00 34.37 3.51
1767 1807 1.266989 GTTTTCGTGCCCTCTTTCCTG 59.733 52.381 0.00 0.00 0.00 3.86
2220 2261 3.066621 TGTGCAAGCTTGATTCGTTCTTT 59.933 39.130 30.39 0.00 0.00 2.52
2326 2368 3.727258 CCGATGACAAGGGGCCCA 61.727 66.667 27.72 2.92 0.00 5.36
2327 2369 2.438434 CGATGACAAGGGGCCCAC 60.438 66.667 27.72 13.61 0.00 4.61
2328 2370 2.971598 CGATGACAAGGGGCCCACT 61.972 63.158 27.72 15.98 0.00 4.00
2329 2371 1.622607 CGATGACAAGGGGCCCACTA 61.623 60.000 27.72 6.40 0.00 2.74
2330 2372 0.181350 GATGACAAGGGGCCCACTAG 59.819 60.000 27.72 13.62 0.00 2.57
2331 2373 0.550147 ATGACAAGGGGCCCACTAGT 60.550 55.000 27.72 17.01 0.00 2.57
2332 2374 0.117541 TGACAAGGGGCCCACTAGTA 59.882 55.000 27.72 1.93 0.00 1.82
2333 2375 0.831307 GACAAGGGGCCCACTAGTAG 59.169 60.000 27.72 8.10 0.00 2.57
2334 2376 0.416231 ACAAGGGGCCCACTAGTAGA 59.584 55.000 27.72 0.00 0.00 2.59
2335 2377 1.203389 ACAAGGGGCCCACTAGTAGAA 60.203 52.381 27.72 0.00 0.00 2.10
2336 2378 1.913419 CAAGGGGCCCACTAGTAGAAA 59.087 52.381 27.72 0.00 0.00 2.52
2337 2379 2.307686 CAAGGGGCCCACTAGTAGAAAA 59.692 50.000 27.72 0.00 0.00 2.29
2338 2380 2.639487 AGGGGCCCACTAGTAGAAAAA 58.361 47.619 27.72 0.00 0.00 1.94
2339 2381 2.307980 AGGGGCCCACTAGTAGAAAAAC 59.692 50.000 27.72 0.00 0.00 2.43
2340 2382 2.619849 GGGGCCCACTAGTAGAAAAACC 60.620 54.545 26.86 0.00 0.00 3.27
2341 2383 2.619849 GGGCCCACTAGTAGAAAAACCC 60.620 54.545 19.95 4.43 0.00 4.11
2342 2384 2.619849 GGCCCACTAGTAGAAAAACCCC 60.620 54.545 3.59 0.00 0.00 4.95
2343 2385 2.619849 GCCCACTAGTAGAAAAACCCCC 60.620 54.545 3.59 0.00 0.00 5.40
2344 2386 2.645797 CCCACTAGTAGAAAAACCCCCA 59.354 50.000 3.59 0.00 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 8.705594 CCAACCTGACTAAATTATCTAAGAGGA 58.294 37.037 0.00 0.00 0.00 3.71
14 15 8.487028 ACCAACCTGACTAAATTATCTAAGAGG 58.513 37.037 0.00 0.00 0.00 3.69
15 16 9.892130 AACCAACCTGACTAAATTATCTAAGAG 57.108 33.333 0.00 0.00 0.00 2.85
23 24 9.742144 TGCTATAAAACCAACCTGACTAAATTA 57.258 29.630 0.00 0.00 0.00 1.40
24 25 8.644374 TGCTATAAAACCAACCTGACTAAATT 57.356 30.769 0.00 0.00 0.00 1.82
25 26 8.520351 GTTGCTATAAAACCAACCTGACTAAAT 58.480 33.333 0.00 0.00 34.32 1.40
26 27 7.502895 TGTTGCTATAAAACCAACCTGACTAAA 59.497 33.333 0.00 0.00 38.38 1.85
27 28 6.999272 TGTTGCTATAAAACCAACCTGACTAA 59.001 34.615 0.00 0.00 38.38 2.24
28 29 6.535540 TGTTGCTATAAAACCAACCTGACTA 58.464 36.000 0.00 0.00 38.38 2.59
29 30 5.381757 TGTTGCTATAAAACCAACCTGACT 58.618 37.500 0.00 0.00 38.38 3.41
30 31 5.699097 TGTTGCTATAAAACCAACCTGAC 57.301 39.130 0.00 0.00 38.38 3.51
31 32 6.909550 AATGTTGCTATAAAACCAACCTGA 57.090 33.333 0.00 0.00 38.38 3.86
32 33 6.589907 GGAAATGTTGCTATAAAACCAACCTG 59.410 38.462 0.00 0.00 38.38 4.00
33 34 6.295632 GGGAAATGTTGCTATAAAACCAACCT 60.296 38.462 0.00 0.00 38.38 3.50
34 35 5.872617 GGGAAATGTTGCTATAAAACCAACC 59.127 40.000 0.00 0.00 38.38 3.77
35 36 6.697395 AGGGAAATGTTGCTATAAAACCAAC 58.303 36.000 0.00 0.00 39.32 3.77
36 37 6.926630 AGGGAAATGTTGCTATAAAACCAA 57.073 33.333 0.00 0.00 0.00 3.67
37 38 7.617723 ACATAGGGAAATGTTGCTATAAAACCA 59.382 33.333 0.00 0.00 36.71 3.67
38 39 8.007405 ACATAGGGAAATGTTGCTATAAAACC 57.993 34.615 0.00 0.00 36.71 3.27
40 41 9.349713 CCTACATAGGGAAATGTTGCTATAAAA 57.650 33.333 0.00 0.00 40.52 1.52
41 42 8.918202 CCTACATAGGGAAATGTTGCTATAAA 57.082 34.615 0.00 0.00 40.52 1.40
69 70 8.778059 GGGGGAGATGGATATTATGTTATGTAA 58.222 37.037 0.00 0.00 0.00 2.41
70 71 7.070696 CGGGGGAGATGGATATTATGTTATGTA 59.929 40.741 0.00 0.00 0.00 2.29
71 72 6.126768 CGGGGGAGATGGATATTATGTTATGT 60.127 42.308 0.00 0.00 0.00 2.29
72 73 6.291377 CGGGGGAGATGGATATTATGTTATG 58.709 44.000 0.00 0.00 0.00 1.90
73 74 5.163195 GCGGGGGAGATGGATATTATGTTAT 60.163 44.000 0.00 0.00 0.00 1.89
74 75 4.163458 GCGGGGGAGATGGATATTATGTTA 59.837 45.833 0.00 0.00 0.00 2.41
75 76 3.054361 GCGGGGGAGATGGATATTATGTT 60.054 47.826 0.00 0.00 0.00 2.71
76 77 2.505819 GCGGGGGAGATGGATATTATGT 59.494 50.000 0.00 0.00 0.00 2.29
77 78 2.505407 TGCGGGGGAGATGGATATTATG 59.495 50.000 0.00 0.00 0.00 1.90
78 79 2.845659 TGCGGGGGAGATGGATATTAT 58.154 47.619 0.00 0.00 0.00 1.28
79 80 2.335681 TGCGGGGGAGATGGATATTA 57.664 50.000 0.00 0.00 0.00 0.98
80 81 1.444933 TTGCGGGGGAGATGGATATT 58.555 50.000 0.00 0.00 0.00 1.28
81 82 1.444933 TTTGCGGGGGAGATGGATAT 58.555 50.000 0.00 0.00 0.00 1.63
82 83 1.217916 TTTTGCGGGGGAGATGGATA 58.782 50.000 0.00 0.00 0.00 2.59
83 84 0.334676 TTTTTGCGGGGGAGATGGAT 59.665 50.000 0.00 0.00 0.00 3.41
84 85 0.323360 CTTTTTGCGGGGGAGATGGA 60.323 55.000 0.00 0.00 0.00 3.41
85 86 0.323360 TCTTTTTGCGGGGGAGATGG 60.323 55.000 0.00 0.00 0.00 3.51
86 87 0.811281 GTCTTTTTGCGGGGGAGATG 59.189 55.000 0.00 0.00 0.00 2.90
87 88 0.404040 TGTCTTTTTGCGGGGGAGAT 59.596 50.000 0.00 0.00 0.00 2.75
88 89 0.183971 TTGTCTTTTTGCGGGGGAGA 59.816 50.000 0.00 0.00 0.00 3.71
89 90 1.036707 TTTGTCTTTTTGCGGGGGAG 58.963 50.000 0.00 0.00 0.00 4.30
90 91 0.747852 GTTTGTCTTTTTGCGGGGGA 59.252 50.000 0.00 0.00 0.00 4.81
91 92 0.461961 TGTTTGTCTTTTTGCGGGGG 59.538 50.000 0.00 0.00 0.00 5.40
92 93 2.524569 ATGTTTGTCTTTTTGCGGGG 57.475 45.000 0.00 0.00 0.00 5.73
93 94 6.475402 GGATATTATGTTTGTCTTTTTGCGGG 59.525 38.462 0.00 0.00 0.00 6.13
94 95 7.032580 TGGATATTATGTTTGTCTTTTTGCGG 58.967 34.615 0.00 0.00 0.00 5.69
95 96 8.633075 ATGGATATTATGTTTGTCTTTTTGCG 57.367 30.769 0.00 0.00 0.00 4.85
96 97 9.807649 AGATGGATATTATGTTTGTCTTTTTGC 57.192 29.630 0.00 0.00 0.00 3.68
113 114 9.479549 ACACTGGTAAAATTTTCAGATGGATAT 57.520 29.630 20.57 0.73 0.00 1.63
114 115 8.877864 ACACTGGTAAAATTTTCAGATGGATA 57.122 30.769 20.57 0.00 0.00 2.59
115 116 7.781324 ACACTGGTAAAATTTTCAGATGGAT 57.219 32.000 20.57 1.84 0.00 3.41
116 117 7.942341 ACTACACTGGTAAAATTTTCAGATGGA 59.058 33.333 20.57 12.94 0.00 3.41
117 118 8.110860 ACTACACTGGTAAAATTTTCAGATGG 57.889 34.615 20.57 13.96 0.00 3.51
118 119 9.003658 AGACTACACTGGTAAAATTTTCAGATG 57.996 33.333 20.57 16.82 0.00 2.90
119 120 9.574516 AAGACTACACTGGTAAAATTTTCAGAT 57.425 29.630 20.57 12.94 0.00 2.90
120 121 8.974060 AAGACTACACTGGTAAAATTTTCAGA 57.026 30.769 20.57 0.00 0.00 3.27
122 123 9.059260 GGTAAGACTACACTGGTAAAATTTTCA 57.941 33.333 6.72 0.00 0.00 2.69
123 124 8.225777 CGGTAAGACTACACTGGTAAAATTTTC 58.774 37.037 6.72 0.00 0.00 2.29
124 125 7.308169 GCGGTAAGACTACACTGGTAAAATTTT 60.308 37.037 8.75 8.75 0.00 1.82
125 126 6.148315 GCGGTAAGACTACACTGGTAAAATTT 59.852 38.462 0.00 0.00 0.00 1.82
126 127 5.640783 GCGGTAAGACTACACTGGTAAAATT 59.359 40.000 0.00 0.00 0.00 1.82
127 128 5.173664 GCGGTAAGACTACACTGGTAAAAT 58.826 41.667 0.00 0.00 0.00 1.82
128 129 4.559153 GCGGTAAGACTACACTGGTAAAA 58.441 43.478 0.00 0.00 0.00 1.52
129 130 3.056607 GGCGGTAAGACTACACTGGTAAA 60.057 47.826 0.00 0.00 0.00 2.01
130 131 2.493278 GGCGGTAAGACTACACTGGTAA 59.507 50.000 0.00 0.00 0.00 2.85
131 132 2.094675 GGCGGTAAGACTACACTGGTA 58.905 52.381 0.00 0.00 0.00 3.25
132 133 0.893447 GGCGGTAAGACTACACTGGT 59.107 55.000 0.00 0.00 0.00 4.00
133 134 0.179145 CGGCGGTAAGACTACACTGG 60.179 60.000 0.00 0.00 0.00 4.00
134 135 0.179145 CCGGCGGTAAGACTACACTG 60.179 60.000 19.97 0.00 0.00 3.66
135 136 1.941999 GCCGGCGGTAAGACTACACT 61.942 60.000 28.82 0.00 0.00 3.55
136 137 1.517913 GCCGGCGGTAAGACTACAC 60.518 63.158 28.82 1.99 0.00 2.90
137 138 2.887360 GCCGGCGGTAAGACTACA 59.113 61.111 28.82 0.00 0.00 2.74
138 139 2.278401 CGCCGGCGGTAAGACTAC 60.278 66.667 40.50 6.84 35.56 2.73
261 262 1.067846 CCGGTCTTCTTCATCGTCACA 60.068 52.381 0.00 0.00 0.00 3.58
492 508 0.830648 CCGAAGCCCAATAGGAGTGA 59.169 55.000 0.00 0.00 38.24 3.41
508 524 4.351938 CGTCACTTGCGGACCCGA 62.352 66.667 13.24 0.00 42.83 5.14
606 623 1.664321 CGTTAGCGCCTCCAGGTAGT 61.664 60.000 2.29 0.00 37.57 2.73
914 933 3.119814 CGACCTCTCATCGAAGAGAACAA 60.120 47.826 19.86 0.00 44.67 2.83
947 966 1.000396 GTGGAAGCAAGGGATGGCT 60.000 57.895 0.00 0.00 43.46 4.75
1055 1077 2.342650 GGCGCATCCTTTGGCTTCA 61.343 57.895 10.83 0.00 0.00 3.02
1104 1144 0.396556 TGACTATGCCCAGGCTACGA 60.397 55.000 10.58 0.00 42.51 3.43
1489 1529 7.690256 ACAGAATTAAACTGGGTAGAACAGAT 58.310 34.615 14.49 0.00 39.24 2.90
1544 1584 2.690497 GAGATGGACAGCTGCTACAGTA 59.310 50.000 15.27 0.00 33.43 2.74
1558 1598 1.211212 CATGGCCAACTGAGAGATGGA 59.789 52.381 10.96 0.00 40.25 3.41
1684 1724 2.110006 GGAAGAGGAGGCGATGGC 59.890 66.667 0.00 0.00 38.90 4.40
1695 1735 0.032678 ACGCGATATGGCAGGAAGAG 59.967 55.000 15.93 0.00 0.00 2.85
2220 2261 1.005867 GTCCCACTCGGCGTTACAA 60.006 57.895 6.85 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.