Multiple sequence alignment - TraesCS7D01G423900

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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 TraesCS7D01G423900 chr7D 100.000 3305 0 0 1 3305 544556584 544559888 0.000000e+00 6104.0
1 TraesCS7D01G423900 chr7D 97.432 740 19 0 2566 3305 599238445 599239184 0.000000e+00 1262.0
2 TraesCS7D01G423900 chr7B 90.713 2315 132 35 129 2392 587964397 587966679 0.000000e+00 3007.0
3 TraesCS7D01G423900 chr7B 93.089 738 51 0 2568 3305 706501591 706500854 0.000000e+00 1081.0
4 TraesCS7D01G423900 chr7B 93.130 131 9 0 1 131 120201448 120201578 3.370000e-45 193.0
5 TraesCS7D01G423900 chr7A 92.737 1542 66 14 988 2514 625752776 625754286 0.000000e+00 2185.0
6 TraesCS7D01G423900 chr7A 92.297 740 56 1 2566 3305 79127133 79127871 0.000000e+00 1050.0
7 TraesCS7D01G423900 chr7A 90.066 302 17 3 205 493 625752145 625752446 2.410000e-101 379.0
8 TraesCS7D01G423900 chr7A 87.676 284 20 3 496 777 625752481 625752751 1.910000e-82 316.0
9 TraesCS7D01G423900 chr7A 92.366 131 8 2 1 130 584381702 584381573 5.630000e-43 185.0
10 TraesCS7D01G423900 chr7A 97.059 34 1 0 833 866 625752745 625752778 1.280000e-04 58.4
11 TraesCS7D01G423900 chr6A 87.814 1313 124 25 1089 2388 586817204 586815915 0.000000e+00 1506.0
12 TraesCS7D01G423900 chr6A 79.600 250 24 13 727 961 586817596 586817359 1.590000e-33 154.0
13 TraesCS7D01G423900 chr6A 92.929 99 6 1 529 626 586817987 586817889 3.440000e-30 143.0
14 TraesCS7D01G423900 chr6B 87.623 1317 107 29 1092 2395 663692353 663691080 0.000000e+00 1478.0
15 TraesCS7D01G423900 chr6B 93.089 738 51 0 2568 3305 173437165 173437902 0.000000e+00 1081.0
16 TraesCS7D01G423900 chr6D 88.301 1248 104 22 1089 2321 438300342 438299122 0.000000e+00 1458.0
17 TraesCS7D01G423900 chr6D 92.929 99 6 1 529 626 438301020 438300922 3.440000e-30 143.0
18 TraesCS7D01G423900 chr6D 93.651 63 3 1 2506 2568 316625964 316625903 3.510000e-15 93.5
19 TraesCS7D01G423900 chr4D 98.241 739 13 0 2567 3305 298274377 298273639 0.000000e+00 1293.0
20 TraesCS7D01G423900 chr4D 91.791 134 9 1 1 132 3381222 3381089 5.630000e-43 185.0
21 TraesCS7D01G423900 chr3D 97.290 738 20 0 2568 3305 31889657 31890394 0.000000e+00 1253.0
22 TraesCS7D01G423900 chr2B 94.595 740 37 2 2567 3305 131306914 131306177 0.000000e+00 1142.0
23 TraesCS7D01G423900 chr2B 95.161 62 1 1 2559 2620 683268232 683268173 2.710000e-16 97.1
24 TraesCS7D01G423900 chr1A 92.828 739 53 0 2567 3305 65650900 65651638 0.000000e+00 1072.0
25 TraesCS7D01G423900 chr1A 92.424 132 8 2 1 130 32555290 32555159 1.570000e-43 187.0
26 TraesCS7D01G423900 chr4B 94.351 655 37 0 2651 3305 605894392 605895046 0.000000e+00 1005.0
27 TraesCS7D01G423900 chr4B 92.537 134 7 2 1 132 30438728 30438596 4.350000e-44 189.0
28 TraesCS7D01G423900 chr4B 84.112 107 11 6 2464 2567 620266870 620266973 7.550000e-17 99.0
29 TraesCS7D01G423900 chr3A 93.130 131 9 0 1 131 552211867 552211737 3.370000e-45 193.0
30 TraesCS7D01G423900 chr3A 91.176 68 5 1 2500 2567 737369160 737369226 1.260000e-14 91.6
31 TraesCS7D01G423900 chr5A 92.481 133 8 1 1 131 34842036 34841904 4.350000e-44 189.0
32 TraesCS7D01G423900 chr5A 91.045 67 6 0 2499 2565 247191139 247191205 1.260000e-14 91.6
33 TraesCS7D01G423900 chr3B 92.481 133 8 1 1 131 674439952 674440084 4.350000e-44 189.0
34 TraesCS7D01G423900 chr3B 92.424 132 8 2 1 130 175672125 175672256 1.570000e-43 187.0
35 TraesCS7D01G423900 chr5D 98.246 57 0 1 2511 2567 452219392 452219447 7.550000e-17 99.0
36 TraesCS7D01G423900 chr5D 93.651 63 3 1 2506 2568 431538698 431538637 3.510000e-15 93.5
37 TraesCS7D01G423900 chr5B 98.214 56 1 0 2514 2569 51965499 51965444 7.550000e-17 99.0
38 TraesCS7D01G423900 chr2A 93.651 63 4 0 2505 2567 200620132 200620194 9.760000e-16 95.3
39 TraesCS7D01G423900 chr1B 92.537 67 2 3 2503 2567 466926144 466926209 3.510000e-15 93.5


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 TraesCS7D01G423900 chr7D 544556584 544559888 3304 False 6104.0 6104 100.0000 1 3305 1 chr7D.!!$F1 3304
1 TraesCS7D01G423900 chr7D 599238445 599239184 739 False 1262.0 1262 97.4320 2566 3305 1 chr7D.!!$F2 739
2 TraesCS7D01G423900 chr7B 587964397 587966679 2282 False 3007.0 3007 90.7130 129 2392 1 chr7B.!!$F2 2263
3 TraesCS7D01G423900 chr7B 706500854 706501591 737 True 1081.0 1081 93.0890 2568 3305 1 chr7B.!!$R1 737
4 TraesCS7D01G423900 chr7A 79127133 79127871 738 False 1050.0 1050 92.2970 2566 3305 1 chr7A.!!$F1 739
5 TraesCS7D01G423900 chr7A 625752145 625754286 2141 False 734.6 2185 91.8845 205 2514 4 chr7A.!!$F2 2309
6 TraesCS7D01G423900 chr6A 586815915 586817987 2072 True 601.0 1506 86.7810 529 2388 3 chr6A.!!$R1 1859
7 TraesCS7D01G423900 chr6B 663691080 663692353 1273 True 1478.0 1478 87.6230 1092 2395 1 chr6B.!!$R1 1303
8 TraesCS7D01G423900 chr6B 173437165 173437902 737 False 1081.0 1081 93.0890 2568 3305 1 chr6B.!!$F1 737
9 TraesCS7D01G423900 chr6D 438299122 438301020 1898 True 800.5 1458 90.6150 529 2321 2 chr6D.!!$R2 1792
10 TraesCS7D01G423900 chr4D 298273639 298274377 738 True 1293.0 1293 98.2410 2567 3305 1 chr4D.!!$R2 738
11 TraesCS7D01G423900 chr3D 31889657 31890394 737 False 1253.0 1253 97.2900 2568 3305 1 chr3D.!!$F1 737
12 TraesCS7D01G423900 chr2B 131306177 131306914 737 True 1142.0 1142 94.5950 2567 3305 1 chr2B.!!$R1 738
13 TraesCS7D01G423900 chr1A 65650900 65651638 738 False 1072.0 1072 92.8280 2567 3305 1 chr1A.!!$F1 738
14 TraesCS7D01G423900 chr4B 605894392 605895046 654 False 1005.0 1005 94.3510 2651 3305 1 chr4B.!!$F1 654

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
639 686 0.028110 CCGAGCGAATTAAGCAAGCC 59.972 55.000 7.93 0.0 37.01 4.35 F
1085 1494 0.103208 GATCAGGGCGAGACGTCATT 59.897 55.000 19.50 0.0 30.88 2.57 F
1440 1861 2.031163 GTGAAGGCGTGGCTGTCT 59.969 61.111 0.00 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 2011 1.524482 GAGCATCGCCTTCTCCCTT 59.476 57.895 0.0 0.0 0.00 3.95 R
1954 2378 3.382832 CTTCTCTCCACCGCCCGT 61.383 66.667 0.0 0.0 0.00 5.28 R
2945 3399 3.556038 ATCCCGGGGGTGACAGACA 62.556 63.158 23.5 0.0 36.47 3.41 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
24 25 6.963083 TCATGATGCATCCAACAATATTGA 57.037 33.333 23.67 9.48 0.00 2.57
25 26 7.533289 TCATGATGCATCCAACAATATTGAT 57.467 32.000 23.67 7.48 0.00 2.57
26 27 7.958088 TCATGATGCATCCAACAATATTGATT 58.042 30.769 23.67 9.52 0.00 2.57
27 28 8.425703 TCATGATGCATCCAACAATATTGATTT 58.574 29.630 23.67 4.00 0.00 2.17
28 29 8.708742 CATGATGCATCCAACAATATTGATTTC 58.291 33.333 23.67 6.10 0.00 2.17
29 30 6.919115 TGATGCATCCAACAATATTGATTTCG 59.081 34.615 23.67 6.78 0.00 3.46
30 31 6.206395 TGCATCCAACAATATTGATTTCGT 57.794 33.333 22.16 0.00 0.00 3.85
31 32 7.326968 TGCATCCAACAATATTGATTTCGTA 57.673 32.000 22.16 2.92 0.00 3.43
32 33 7.939782 TGCATCCAACAATATTGATTTCGTAT 58.060 30.769 22.16 3.59 0.00 3.06
33 34 8.412456 TGCATCCAACAATATTGATTTCGTATT 58.588 29.630 22.16 0.30 0.00 1.89
34 35 9.891828 GCATCCAACAATATTGATTTCGTATTA 57.108 29.630 22.16 0.00 0.00 0.98
54 55 9.869844 CGTATTATGAATCTTGACATTTCTTCC 57.130 33.333 0.00 0.00 0.00 3.46
93 94 9.753669 CAAAGTTAACAAAGTTTGATTTTGACC 57.246 29.630 22.23 2.07 42.68 4.02
94 95 9.495572 AAAGTTAACAAAGTTTGATTTTGACCA 57.504 25.926 22.23 0.00 38.55 4.02
95 96 9.495572 AAGTTAACAAAGTTTGATTTTGACCAA 57.504 25.926 22.23 0.00 38.55 3.67
96 97 9.495572 AGTTAACAAAGTTTGATTTTGACCAAA 57.504 25.926 22.23 0.00 38.55 3.28
110 111 9.455847 GATTTTGACCAAATCTTATATGCAGAC 57.544 33.333 5.04 0.00 45.30 3.51
111 112 8.579850 TTTTGACCAAATCTTATATGCAGACT 57.420 30.769 0.00 0.00 0.00 3.24
112 113 9.679661 TTTTGACCAAATCTTATATGCAGACTA 57.320 29.630 0.00 0.00 0.00 2.59
113 114 9.679661 TTTGACCAAATCTTATATGCAGACTAA 57.320 29.630 0.00 0.00 0.00 2.24
114 115 9.679661 TTGACCAAATCTTATATGCAGACTAAA 57.320 29.630 0.00 0.00 0.00 1.85
115 116 9.679661 TGACCAAATCTTATATGCAGACTAAAA 57.320 29.630 0.00 0.00 0.00 1.52
150 151 0.907704 AAGACCAGCATACCGGGACA 60.908 55.000 6.32 0.00 32.55 4.02
156 157 2.355310 CCAGCATACCGGGACAAAAGTA 60.355 50.000 6.32 0.00 0.00 2.24
185 186 9.893305 AAATAAATAGTAATCCGTTTGCTATGC 57.107 29.630 6.69 0.00 40.91 3.14
193 194 9.116067 AGTAATCCGTTTGCTATGCTATTTTTA 57.884 29.630 0.00 0.00 0.00 1.52
196 197 9.646427 AATCCGTTTGCTATGCTATTTTTAAAA 57.354 25.926 0.00 0.00 0.00 1.52
199 200 8.259194 CCGTTTGCTATGCTATTTTTAAAATCG 58.741 33.333 6.17 2.02 0.00 3.34
235 236 3.799755 GCGGCCCGACACATCAAC 61.800 66.667 7.68 0.00 0.00 3.18
300 301 1.446907 CTGACTGCTTTGCTACTGGG 58.553 55.000 0.00 0.00 0.00 4.45
313 319 2.747135 GCTACTGGGCCGCCTATAAAAA 60.747 50.000 9.86 0.00 0.00 1.94
362 368 0.107214 CCCCTTGTACATGGCATCGT 60.107 55.000 19.92 2.29 0.00 3.73
444 450 6.127619 GGCTATAAAAGTCCAAAGTTGCTCAT 60.128 38.462 0.00 0.00 0.00 2.90
477 491 8.965986 AAAACTTATAAAAGTCGATCCAAAGC 57.034 30.769 0.00 0.00 45.37 3.51
636 683 0.035820 ACCCCGAGCGAATTAAGCAA 60.036 50.000 7.93 0.00 37.01 3.91
639 686 0.028110 CCGAGCGAATTAAGCAAGCC 59.972 55.000 7.93 0.00 37.01 4.35
714 779 5.096169 CCACTGTAAATCTCGTGTACTCTG 58.904 45.833 0.00 0.00 0.00 3.35
785 1094 3.249320 TCGATCCGACGACTAGGTAAATG 59.751 47.826 0.00 0.00 37.37 2.32
792 1101 5.287035 CCGACGACTAGGTAAATGTAAACAC 59.713 44.000 0.00 0.00 0.00 3.32
814 1123 2.721859 CGTGCAGATCCGGATCGA 59.278 61.111 33.24 20.97 42.48 3.59
912 1236 2.657237 CACCACCACGTCCTCCTC 59.343 66.667 0.00 0.00 0.00 3.71
913 1237 2.200370 ACCACCACGTCCTCCTCA 59.800 61.111 0.00 0.00 0.00 3.86
968 1304 2.792542 GCATAAACATTCTGCACCGCTC 60.793 50.000 0.00 0.00 35.96 5.03
987 1323 1.915489 TCTGGTCCACGGTAGGTACTA 59.085 52.381 0.00 0.00 41.75 1.82
1067 1467 2.046892 GGAGAAGCAAGGCAGCGA 60.047 61.111 0.00 0.00 40.15 4.93
1068 1468 1.451028 GGAGAAGCAAGGCAGCGAT 60.451 57.895 0.00 0.00 40.15 4.58
1069 1469 1.435408 GGAGAAGCAAGGCAGCGATC 61.435 60.000 0.00 0.00 40.15 3.69
1085 1494 0.103208 GATCAGGGCGAGACGTCATT 59.897 55.000 19.50 0.00 30.88 2.57
1440 1861 2.031163 GTGAAGGCGTGGCTGTCT 59.969 61.111 0.00 0.00 0.00 3.41
1668 2089 3.175240 CGTGAGAACGCCGAGCTG 61.175 66.667 0.00 0.00 0.00 4.24
1929 2350 2.915137 ACGGCGGCAACCCAAAAT 60.915 55.556 13.24 0.00 0.00 1.82
2238 2671 1.551452 AGAAGAGGAGGTCCGTTCTG 58.449 55.000 13.19 0.00 40.44 3.02
2250 2683 1.206578 CGTTCTGCGCAAATTCGGT 59.793 52.632 13.05 0.00 0.00 4.69
2302 2741 0.249398 AGACTTTGCGCCGGTTCTAT 59.751 50.000 4.18 0.00 0.00 1.98
2303 2742 1.479323 AGACTTTGCGCCGGTTCTATA 59.521 47.619 4.18 0.00 0.00 1.31
2304 2743 1.859080 GACTTTGCGCCGGTTCTATAG 59.141 52.381 4.18 0.00 0.00 1.31
2305 2744 0.582005 CTTTGCGCCGGTTCTATAGC 59.418 55.000 4.18 0.00 0.00 2.97
2306 2745 0.177141 TTTGCGCCGGTTCTATAGCT 59.823 50.000 4.18 0.00 0.00 3.32
2307 2746 1.034356 TTGCGCCGGTTCTATAGCTA 58.966 50.000 4.18 0.00 0.00 3.32
2308 2747 0.596577 TGCGCCGGTTCTATAGCTAG 59.403 55.000 4.18 0.00 0.00 3.42
2310 2749 1.245732 CGCCGGTTCTATAGCTAGGT 58.754 55.000 1.90 0.00 0.00 3.08
2311 2750 1.068472 CGCCGGTTCTATAGCTAGGTG 60.068 57.143 1.90 0.00 0.00 4.00
2312 2751 1.272769 GCCGGTTCTATAGCTAGGTGG 59.727 57.143 1.90 0.00 0.00 4.61
2313 2752 2.872732 CCGGTTCTATAGCTAGGTGGA 58.127 52.381 4.27 0.00 0.00 4.02
2316 2755 4.641094 CCGGTTCTATAGCTAGGTGGATAG 59.359 50.000 4.27 5.12 0.00 2.08
2318 2757 6.413052 CGGTTCTATAGCTAGGTGGATAGTA 58.587 44.000 4.27 0.00 0.00 1.82
2319 2758 6.315891 CGGTTCTATAGCTAGGTGGATAGTAC 59.684 46.154 4.27 8.47 0.00 2.73
2366 2818 3.063452 GTGTTTGCATGATACCCGTACTG 59.937 47.826 0.00 0.00 0.00 2.74
2448 2900 5.023920 GTGAATCAAATGTATGCAGACACG 58.976 41.667 17.79 8.62 30.52 4.49
2478 2930 7.424227 ACGCATTTGTTCATTCATTTCAATT 57.576 28.000 0.00 0.00 0.00 2.32
2543 2996 7.988028 ACTCCCTCTGTAAACAAATATAAGAGC 59.012 37.037 0.00 0.00 0.00 4.09
2544 2997 7.857456 TCCCTCTGTAAACAAATATAAGAGCA 58.143 34.615 0.00 0.00 0.00 4.26
2545 2998 8.494433 TCCCTCTGTAAACAAATATAAGAGCAT 58.506 33.333 0.00 0.00 0.00 3.79
2546 2999 9.125026 CCCTCTGTAAACAAATATAAGAGCATT 57.875 33.333 0.00 0.00 0.00 3.56
2859 3313 3.127425 AGGTTTACTGCCTCAAGACAC 57.873 47.619 0.00 0.00 0.00 3.67
2945 3399 2.441164 AGCCTCCGCGATGAGAGT 60.441 61.111 8.23 0.00 41.18 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.349412 TCAATATTGTTGGATGCATCATGAA 57.651 32.000 27.25 13.89 0.00 2.57
2 3 8.601845 AAATCAATATTGTTGGATGCATCATG 57.398 30.769 27.25 11.32 0.00 3.07
3 4 7.597369 CGAAATCAATATTGTTGGATGCATCAT 59.403 33.333 27.25 14.33 0.00 2.45
5 6 6.919662 ACGAAATCAATATTGTTGGATGCATC 59.080 34.615 18.81 18.81 0.00 3.91
6 7 6.808829 ACGAAATCAATATTGTTGGATGCAT 58.191 32.000 14.97 0.00 0.00 3.96
7 8 6.206395 ACGAAATCAATATTGTTGGATGCA 57.794 33.333 14.97 0.00 0.00 3.96
8 9 8.801715 AATACGAAATCAATATTGTTGGATGC 57.198 30.769 14.97 0.20 0.00 3.91
28 29 9.869844 GGAAGAAATGTCAAGATTCATAATACG 57.130 33.333 0.00 0.00 0.00 3.06
67 68 9.753669 GGTCAAAATCAAACTTTGTTAACTTTG 57.246 29.630 7.22 9.09 35.65 2.77
68 69 9.495572 TGGTCAAAATCAAACTTTGTTAACTTT 57.504 25.926 7.22 0.00 35.65 2.66
69 70 9.495572 TTGGTCAAAATCAAACTTTGTTAACTT 57.504 25.926 7.22 0.00 35.65 2.66
70 71 9.495572 TTTGGTCAAAATCAAACTTTGTTAACT 57.504 25.926 7.22 0.00 35.65 2.24
85 86 9.193806 AGTCTGCATATAAGATTTGGTCAAAAT 57.806 29.630 0.00 0.00 41.33 1.82
86 87 8.579850 AGTCTGCATATAAGATTTGGTCAAAA 57.420 30.769 0.00 0.00 33.56 2.44
87 88 9.679661 TTAGTCTGCATATAAGATTTGGTCAAA 57.320 29.630 0.00 0.00 34.46 2.69
88 89 9.679661 TTTAGTCTGCATATAAGATTTGGTCAA 57.320 29.630 0.00 0.00 0.00 3.18
89 90 9.679661 TTTTAGTCTGCATATAAGATTTGGTCA 57.320 29.630 0.00 0.00 0.00 4.02
114 115 4.165372 TGGTCTTGTACTCCCTCTGTTTTT 59.835 41.667 0.00 0.00 0.00 1.94
115 116 3.714798 TGGTCTTGTACTCCCTCTGTTTT 59.285 43.478 0.00 0.00 0.00 2.43
116 117 3.314693 TGGTCTTGTACTCCCTCTGTTT 58.685 45.455 0.00 0.00 0.00 2.83
117 118 2.900546 CTGGTCTTGTACTCCCTCTGTT 59.099 50.000 0.00 0.00 0.00 3.16
118 119 2.530701 CTGGTCTTGTACTCCCTCTGT 58.469 52.381 0.00 0.00 0.00 3.41
119 120 1.205893 GCTGGTCTTGTACTCCCTCTG 59.794 57.143 0.00 0.00 0.00 3.35
120 121 1.203187 TGCTGGTCTTGTACTCCCTCT 60.203 52.381 0.00 0.00 0.00 3.69
121 122 1.267121 TGCTGGTCTTGTACTCCCTC 58.733 55.000 0.00 0.00 0.00 4.30
122 123 1.958288 ATGCTGGTCTTGTACTCCCT 58.042 50.000 0.00 0.00 0.00 4.20
123 124 2.158943 GGTATGCTGGTCTTGTACTCCC 60.159 54.545 0.00 0.00 0.00 4.30
124 125 2.481449 CGGTATGCTGGTCTTGTACTCC 60.481 54.545 0.00 0.00 0.00 3.85
125 126 2.481449 CCGGTATGCTGGTCTTGTACTC 60.481 54.545 0.00 0.00 36.39 2.59
126 127 1.480954 CCGGTATGCTGGTCTTGTACT 59.519 52.381 0.00 0.00 36.39 2.73
127 128 1.472728 CCCGGTATGCTGGTCTTGTAC 60.473 57.143 7.98 0.00 39.55 2.90
165 166 8.848474 AAATAGCATAGCAAACGGATTACTAT 57.152 30.769 0.00 0.00 0.00 2.12
166 167 8.671384 AAAATAGCATAGCAAACGGATTACTA 57.329 30.769 0.00 0.00 0.00 1.82
167 168 7.568199 AAAATAGCATAGCAAACGGATTACT 57.432 32.000 0.00 0.00 0.00 2.24
168 169 9.724839 TTAAAAATAGCATAGCAAACGGATTAC 57.275 29.630 0.00 0.00 0.00 1.89
175 176 7.782955 CGCGATTTTAAAAATAGCATAGCAAAC 59.217 33.333 18.82 0.00 0.00 2.93
181 182 7.165154 GCAACTCGCGATTTTAAAAATAGCATA 59.835 33.333 10.36 9.90 0.00 3.14
185 186 5.797934 TGGCAACTCGCGATTTTAAAAATAG 59.202 36.000 10.36 0.00 43.84 1.73
193 194 1.135402 GGATTGGCAACTCGCGATTTT 60.135 47.619 10.36 2.75 43.84 1.82
196 197 0.676466 TTGGATTGGCAACTCGCGAT 60.676 50.000 10.36 0.00 43.84 4.58
199 200 0.179129 CCATTGGATTGGCAACTCGC 60.179 55.000 0.00 0.00 41.28 5.03
234 235 3.589654 CTCGCATGGTCACCACGGT 62.590 63.158 0.00 0.00 35.80 4.83
235 236 2.815211 CTCGCATGGTCACCACGG 60.815 66.667 0.00 0.00 35.80 4.94
300 301 7.064016 TGACAAAATTTCATTTTTATAGGCGGC 59.936 33.333 0.00 0.00 40.27 6.53
313 319 3.848272 ATCGCCGTGACAAAATTTCAT 57.152 38.095 0.00 0.00 0.00 2.57
477 491 5.032863 ACTACGTACTGCTAGTTTATTGCG 58.967 41.667 0.00 0.00 31.64 4.85
657 704 5.091431 ACAAAATGAGCTACGTACGTACTC 58.909 41.667 30.23 30.23 33.53 2.59
658 705 5.051891 ACAAAATGAGCTACGTACGTACT 57.948 39.130 23.60 22.69 0.00 2.73
660 707 5.300969 AGACAAAATGAGCTACGTACGTA 57.699 39.130 25.41 25.41 0.00 3.57
661 708 4.170292 AGACAAAATGAGCTACGTACGT 57.830 40.909 25.98 25.98 0.00 3.57
670 723 3.001736 GGATCACGCTAGACAAAATGAGC 59.998 47.826 0.00 0.00 0.00 4.26
968 1304 2.019984 GTAGTACCTACCGTGGACCAG 58.980 57.143 0.00 0.00 31.38 4.00
987 1323 6.405953 GCAGTGAGCCCATATATATAAGTCGT 60.406 42.308 0.00 0.00 37.23 4.34
993 1341 4.202151 CGCTGCAGTGAGCCCATATATATA 60.202 45.833 22.94 0.00 44.83 0.86
994 1342 3.431346 CGCTGCAGTGAGCCCATATATAT 60.431 47.826 22.94 0.00 44.83 0.86
1061 1428 4.212913 TCTCGCCCTGATCGCTGC 62.213 66.667 0.00 0.00 0.00 5.25
1067 1467 0.179100 CAATGACGTCTCGCCCTGAT 60.179 55.000 17.92 0.00 0.00 2.90
1068 1468 1.215382 CAATGACGTCTCGCCCTGA 59.785 57.895 17.92 0.00 0.00 3.86
1069 1469 1.078759 GACAATGACGTCTCGCCCTG 61.079 60.000 17.92 7.24 32.92 4.45
1590 2011 1.524482 GAGCATCGCCTTCTCCCTT 59.476 57.895 0.00 0.00 0.00 3.95
1954 2378 3.382832 CTTCTCTCCACCGCCCGT 61.383 66.667 0.00 0.00 0.00 5.28
1956 2380 4.475135 GCCTTCTCTCCACCGCCC 62.475 72.222 0.00 0.00 0.00 6.13
2034 2461 3.382832 CCGGAGTCCAGGAACGCT 61.383 66.667 10.49 0.00 0.00 5.07
2302 2741 8.003044 ACACAAATAGTACTATCCACCTAGCTA 58.997 37.037 15.72 0.00 0.00 3.32
2303 2742 6.839657 ACACAAATAGTACTATCCACCTAGCT 59.160 38.462 15.72 0.00 0.00 3.32
2304 2743 6.924060 CACACAAATAGTACTATCCACCTAGC 59.076 42.308 15.72 0.00 0.00 3.42
2305 2744 8.234136 TCACACAAATAGTACTATCCACCTAG 57.766 38.462 15.72 5.69 0.00 3.02
2306 2745 8.638873 CATCACACAAATAGTACTATCCACCTA 58.361 37.037 15.72 0.88 0.00 3.08
2307 2746 7.500992 CATCACACAAATAGTACTATCCACCT 58.499 38.462 15.72 0.00 0.00 4.00
2308 2747 6.202954 GCATCACACAAATAGTACTATCCACC 59.797 42.308 15.72 0.00 0.00 4.61
2310 2749 7.124573 AGCATCACACAAATAGTACTATCCA 57.875 36.000 15.72 0.00 0.00 3.41
2311 2750 8.338259 CAAAGCATCACACAAATAGTACTATCC 58.662 37.037 15.72 0.00 0.00 2.59
2312 2751 7.852945 GCAAAGCATCACACAAATAGTACTATC 59.147 37.037 15.72 0.00 0.00 2.08
2313 2752 7.336679 TGCAAAGCATCACACAAATAGTACTAT 59.663 33.333 9.71 9.71 31.71 2.12
2316 2755 5.698832 TGCAAAGCATCACACAAATAGTAC 58.301 37.500 0.00 0.00 31.71 2.73
2318 2757 4.852134 TGCAAAGCATCACACAAATAGT 57.148 36.364 0.00 0.00 31.71 2.12
2366 2818 9.893305 GTAGCATTTATTATGGGTGTATTTCAC 57.107 33.333 0.00 0.00 45.47 3.18
2448 2900 8.986039 AAATGAATGAACAAATGCGTTAAAAC 57.014 26.923 0.00 0.00 0.00 2.43
2517 2970 7.988028 GCTCTTATATTTGTTTACAGAGGGAGT 59.012 37.037 0.00 0.00 0.00 3.85
2518 2971 7.987458 TGCTCTTATATTTGTTTACAGAGGGAG 59.013 37.037 0.00 0.00 0.00 4.30
2519 2972 7.857456 TGCTCTTATATTTGTTTACAGAGGGA 58.143 34.615 0.00 0.00 0.00 4.20
2520 2973 8.682936 ATGCTCTTATATTTGTTTACAGAGGG 57.317 34.615 0.00 0.00 0.00 4.30
2945 3399 3.556038 ATCCCGGGGGTGACAGACA 62.556 63.158 23.50 0.00 36.47 3.41
3049 3503 8.779303 TGAATACATGAAAATCAACACTAACGT 58.221 29.630 0.00 0.00 0.00 3.99


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

AutoCloner maintained by Alex Coulton.