Multiple sequence alignment - TraesCS7A01G541800

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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 TraesCS7A01G541800 chr7A 100.000 2327 0 0 1 2327 718272238 718269912 0.000000e+00 4298.0
1 TraesCS7A01G541800 chr7A 92.812 1099 68 6 900 1996 718354603 718353514 0.000000e+00 1581.0
2 TraesCS7A01G541800 chr7A 91.159 328 28 1 501 828 718357015 718356689 5.900000e-121 444.0
3 TraesCS7A01G541800 chr7A 80.756 291 46 4 913 1203 718997812 718997532 3.890000e-53 219.0
4 TraesCS7A01G541800 chr7A 80.479 292 45 5 913 1203 719271679 719271399 1.810000e-51 213.0
5 TraesCS7A01G541800 chr7A 82.533 229 36 4 568 795 699921012 699921237 5.070000e-47 198.0
6 TraesCS7A01G541800 chr7D 93.338 1411 84 7 921 2327 623353129 623354533 0.000000e+00 2076.0
7 TraesCS7A01G541800 chr7D 90.535 729 39 12 156 870 623351926 623352638 0.000000e+00 937.0
8 TraesCS7A01G541800 chr7D 83.895 267 34 5 916 1182 622993395 622993652 1.790000e-61 246.0
9 TraesCS7A01G541800 chr7D 79.048 210 33 8 998 1206 623027351 623027550 1.450000e-27 134.0
10 TraesCS7A01G541800 chr7D 85.714 70 10 0 1260 1329 623390642 623390711 8.920000e-10 75.0
11 TraesCS7A01G541800 chr7D 87.097 62 8 0 1268 1329 623283922 623283983 1.150000e-08 71.3
12 TraesCS7A01G541800 chr7B 87.567 1126 104 16 875 1995 720888114 720887020 0.000000e+00 1271.0
13 TraesCS7A01G541800 chr7B 87.289 1125 106 17 877 1995 720843850 720842757 0.000000e+00 1251.0
14 TraesCS7A01G541800 chr7B 86.704 707 77 5 180 870 720891914 720891209 0.000000e+00 769.0
15 TraesCS7A01G541800 chr7B 87.113 194 18 4 2119 2308 720938947 720938757 1.810000e-51 213.0
16 TraesCS7A01G541800 chr7B 80.738 244 43 2 555 797 684931654 684931894 1.100000e-43 187.0
17 TraesCS7A01G541800 chr7B 90.196 102 8 2 1897 1996 720939039 720938938 5.220000e-27 132.0
18 TraesCS7A01G541800 chr7B 94.915 59 3 0 1599 1657 720938698 720938756 2.460000e-15 93.5
19 TraesCS7A01G541800 chr7B 75.581 172 39 3 1162 1332 720812136 720811967 5.330000e-12 82.4
20 TraesCS7A01G541800 chr7B 100.000 28 0 0 1714 1741 720940646 720940673 4.000000e-03 52.8
21 TraesCS7A01G541800 chrUn 91.159 328 28 1 501 828 263832162 263831836 5.900000e-121 444.0
22 TraesCS7A01G541800 chrUn 80.913 241 42 2 558 797 344351571 344351334 1.100000e-43 187.0
23 TraesCS7A01G541800 chr2D 81.579 266 38 8 554 818 94386673 94386418 2.340000e-50 209.0
24 TraesCS7A01G541800 chr4D 82.051 234 38 4 566 797 341698668 341698437 1.820000e-46 196.0


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 TraesCS7A01G541800 chr7A 718269912 718272238 2326 True 4298.0 4298 100.0000 1 2327 1 chr7A.!!$R1 2326
1 TraesCS7A01G541800 chr7A 718353514 718357015 3501 True 1012.5 1581 91.9855 501 1996 2 chr7A.!!$R4 1495
2 TraesCS7A01G541800 chr7D 623351926 623354533 2607 False 1506.5 2076 91.9365 156 2327 2 chr7D.!!$F5 2171
3 TraesCS7A01G541800 chr7B 720842757 720843850 1093 True 1251.0 1251 87.2890 877 1995 1 chr7B.!!$R2 1118
4 TraesCS7A01G541800 chr7B 720887020 720891914 4894 True 1020.0 1271 87.1355 180 1995 2 chr7B.!!$R3 1815

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
466 470 1.06643 GCTTGGATGGGTCGTGTAAGA 60.066 52.381 0.0 0.0 0.0 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2100 6841 0.902048 CTGGACTCAGCTCCCTGACA 60.902 60.0 0.0 0.0 42.98 3.58 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
43 44 8.925161 AAAGTTCACGAATTTGAAGAAATTGA 57.075 26.923 14.37 0.00 41.06 2.57
44 45 7.914537 AGTTCACGAATTTGAAGAAATTGAC 57.085 32.000 0.00 0.00 41.06 3.18
45 46 7.479980 AGTTCACGAATTTGAAGAAATTGACA 58.520 30.769 0.00 0.00 41.06 3.58
46 47 7.973388 AGTTCACGAATTTGAAGAAATTGACAA 59.027 29.630 0.00 0.00 41.06 3.18
47 48 7.912949 TCACGAATTTGAAGAAATTGACAAG 57.087 32.000 0.00 0.00 41.06 3.16
48 49 7.702386 TCACGAATTTGAAGAAATTGACAAGA 58.298 30.769 0.00 0.00 41.06 3.02
49 50 8.187480 TCACGAATTTGAAGAAATTGACAAGAA 58.813 29.630 0.00 0.00 41.06 2.52
50 51 8.971321 CACGAATTTGAAGAAATTGACAAGAAT 58.029 29.630 0.00 0.00 41.06 2.40
51 52 8.971321 ACGAATTTGAAGAAATTGACAAGAATG 58.029 29.630 0.00 0.00 41.06 2.67
52 53 9.184062 CGAATTTGAAGAAATTGACAAGAATGA 57.816 29.630 0.00 0.00 41.06 2.57
123 124 7.769272 CAAGTATGCAAGAAGGAAAACAAAA 57.231 32.000 0.00 0.00 0.00 2.44
124 125 7.844482 CAAGTATGCAAGAAGGAAAACAAAAG 58.156 34.615 0.00 0.00 0.00 2.27
125 126 6.515832 AGTATGCAAGAAGGAAAACAAAAGG 58.484 36.000 0.00 0.00 0.00 3.11
126 127 5.612725 ATGCAAGAAGGAAAACAAAAGGA 57.387 34.783 0.00 0.00 0.00 3.36
127 128 5.413309 TGCAAGAAGGAAAACAAAAGGAA 57.587 34.783 0.00 0.00 0.00 3.36
128 129 5.799213 TGCAAGAAGGAAAACAAAAGGAAA 58.201 33.333 0.00 0.00 0.00 3.13
129 130 6.234177 TGCAAGAAGGAAAACAAAAGGAAAA 58.766 32.000 0.00 0.00 0.00 2.29
130 131 6.148645 TGCAAGAAGGAAAACAAAAGGAAAAC 59.851 34.615 0.00 0.00 0.00 2.43
131 132 6.148645 GCAAGAAGGAAAACAAAAGGAAAACA 59.851 34.615 0.00 0.00 0.00 2.83
132 133 7.518161 CAAGAAGGAAAACAAAAGGAAAACAC 58.482 34.615 0.00 0.00 0.00 3.32
133 134 5.867174 AGAAGGAAAACAAAAGGAAAACACG 59.133 36.000 0.00 0.00 0.00 4.49
134 135 5.394224 AGGAAAACAAAAGGAAAACACGA 57.606 34.783 0.00 0.00 0.00 4.35
135 136 5.407502 AGGAAAACAAAAGGAAAACACGAG 58.592 37.500 0.00 0.00 0.00 4.18
136 137 5.047590 AGGAAAACAAAAGGAAAACACGAGT 60.048 36.000 0.00 0.00 0.00 4.18
137 138 6.151480 AGGAAAACAAAAGGAAAACACGAGTA 59.849 34.615 0.00 0.00 0.00 2.59
138 139 6.807720 GGAAAACAAAAGGAAAACACGAGTAA 59.192 34.615 0.00 0.00 0.00 2.24
139 140 7.328982 GGAAAACAAAAGGAAAACACGAGTAAA 59.671 33.333 0.00 0.00 0.00 2.01
140 141 8.590719 AAAACAAAAGGAAAACACGAGTAAAA 57.409 26.923 0.00 0.00 0.00 1.52
141 142 8.766000 AAACAAAAGGAAAACACGAGTAAAAT 57.234 26.923 0.00 0.00 0.00 1.82
142 143 9.857957 AAACAAAAGGAAAACACGAGTAAAATA 57.142 25.926 0.00 0.00 0.00 1.40
144 145 9.673454 ACAAAAGGAAAACACGAGTAAAATATC 57.327 29.630 0.00 0.00 0.00 1.63
145 146 9.124807 CAAAAGGAAAACACGAGTAAAATATCC 57.875 33.333 0.00 0.00 0.00 2.59
146 147 6.997239 AGGAAAACACGAGTAAAATATCCC 57.003 37.500 0.00 0.00 0.00 3.85
147 148 6.478129 AGGAAAACACGAGTAAAATATCCCA 58.522 36.000 0.00 0.00 0.00 4.37
148 149 6.598064 AGGAAAACACGAGTAAAATATCCCAG 59.402 38.462 0.00 0.00 0.00 4.45
149 150 6.373495 GGAAAACACGAGTAAAATATCCCAGT 59.627 38.462 0.00 0.00 0.00 4.00
150 151 7.550196 GGAAAACACGAGTAAAATATCCCAGTA 59.450 37.037 0.00 0.00 0.00 2.74
151 152 9.106070 GAAAACACGAGTAAAATATCCCAGTAT 57.894 33.333 0.00 0.00 0.00 2.12
152 153 8.433421 AAACACGAGTAAAATATCCCAGTATG 57.567 34.615 0.00 0.00 0.00 2.39
153 154 5.989777 ACACGAGTAAAATATCCCAGTATGC 59.010 40.000 0.00 0.00 31.97 3.14
154 155 5.989168 CACGAGTAAAATATCCCAGTATGCA 59.011 40.000 0.00 0.00 31.97 3.96
155 156 6.481976 CACGAGTAAAATATCCCAGTATGCAA 59.518 38.462 0.00 0.00 31.97 4.08
156 157 6.706270 ACGAGTAAAATATCCCAGTATGCAAG 59.294 38.462 0.00 0.00 31.97 4.01
157 158 6.929049 CGAGTAAAATATCCCAGTATGCAAGA 59.071 38.462 0.00 0.00 31.97 3.02
158 159 7.441157 CGAGTAAAATATCCCAGTATGCAAGAA 59.559 37.037 0.00 0.00 31.97 2.52
159 160 9.289782 GAGTAAAATATCCCAGTATGCAAGAAT 57.710 33.333 0.00 0.00 31.97 2.40
160 161 9.071276 AGTAAAATATCCCAGTATGCAAGAATG 57.929 33.333 0.00 0.00 31.97 2.67
161 162 9.066892 GTAAAATATCCCAGTATGCAAGAATGA 57.933 33.333 0.00 0.00 31.97 2.57
263 264 3.211963 GCCGGCCCAGTATGCAAG 61.212 66.667 18.11 0.00 31.97 4.01
309 312 8.919145 ACCTTTTACCAATCAAACTGTATTTCA 58.081 29.630 0.00 0.00 0.00 2.69
395 399 2.749621 GTGACCAAGAATCATGTCCACC 59.250 50.000 0.00 0.00 0.00 4.61
408 412 1.843851 TGTCCACCAAGAGTTTGACCT 59.156 47.619 0.00 0.00 36.36 3.85
414 418 3.313526 CACCAAGAGTTTGACCTGTCTTG 59.686 47.826 4.31 4.31 43.67 3.02
466 470 1.066430 GCTTGGATGGGTCGTGTAAGA 60.066 52.381 0.00 0.00 0.00 2.10
469 473 3.048337 TGGATGGGTCGTGTAAGAAAC 57.952 47.619 0.00 0.00 0.00 2.78
470 474 1.997606 GGATGGGTCGTGTAAGAAACG 59.002 52.381 0.00 0.00 42.36 3.60
524 528 6.380274 CCAGGTCCAAGTAACAGAGTATTCTA 59.620 42.308 0.00 0.00 30.73 2.10
564 568 1.146263 GTATTCCACTGCCTCCGGG 59.854 63.158 0.00 0.00 0.00 5.73
710 714 5.125356 ACGCATCCAGTGATATTGATTTCA 58.875 37.500 0.00 0.00 0.00 2.69
870 1524 6.546428 AGATCGAGAAGGAAATGGAAAGTA 57.454 37.500 0.00 0.00 0.00 2.24
871 1525 6.342111 AGATCGAGAAGGAAATGGAAAGTAC 58.658 40.000 0.00 0.00 0.00 2.73
872 1526 5.477607 TCGAGAAGGAAATGGAAAGTACA 57.522 39.130 0.00 0.00 0.00 2.90
873 1527 5.479306 TCGAGAAGGAAATGGAAAGTACAG 58.521 41.667 0.00 0.00 0.00 2.74
883 5612 1.607251 GGAAAGTACAGACCACACCCG 60.607 57.143 0.00 0.00 0.00 5.28
914 5643 3.495894 GCTCGTCGCTTCATCATTTAG 57.504 47.619 0.00 0.00 35.14 1.85
929 5658 1.519408 TTTAGGCTTGCCGAGTTGTC 58.481 50.000 5.95 0.00 0.00 3.18
976 5705 1.665916 CTCGCCTCACACACACAGG 60.666 63.158 0.00 0.00 0.00 4.00
979 5708 4.054085 CCTCACACACACAGGCAG 57.946 61.111 0.00 0.00 0.00 4.85
1235 5966 2.011947 TGCTGCAATTTCTCGGATCTG 58.988 47.619 0.00 0.00 0.00 2.90
1287 6018 4.519437 CGCGGCAGGAGCTCATCA 62.519 66.667 17.19 0.00 41.70 3.07
1383 6114 4.344865 TCTGCACCCCTTTCCGGC 62.345 66.667 0.00 0.00 0.00 6.13
1455 6186 3.623060 GTGTATGCGTTGGATTCATGTCT 59.377 43.478 0.00 0.00 0.00 3.41
1458 6189 0.099436 GCGTTGGATTCATGTCTGCC 59.901 55.000 0.00 0.00 0.00 4.85
1682 6413 4.292186 ACACCATGTTGATAAGTGCTCT 57.708 40.909 0.00 0.00 31.58 4.09
1693 6424 6.753913 TGATAAGTGCTCTTTCTATCCCAT 57.246 37.500 6.31 0.00 35.36 4.00
1704 6435 7.297936 TCTTTCTATCCCATAATAAGCGTCA 57.702 36.000 0.00 0.00 0.00 4.35
1783 6515 5.011227 GGACTACTATCCCTTCAAGACATCC 59.989 48.000 0.00 0.00 31.94 3.51
1790 6522 4.107072 TCCCTTCAAGACATCCTCTGAAT 58.893 43.478 0.00 0.00 0.00 2.57
1843 6576 8.089115 AGTGTTTGTTAAATAGTCTGCTTCTC 57.911 34.615 0.00 0.00 0.00 2.87
1852 6591 3.157932 AGTCTGCTTCTCGTGCTATTC 57.842 47.619 0.00 0.00 0.00 1.75
1950 6690 6.927294 AAATTAGCTTCCTACTCAAATCCG 57.073 37.500 0.00 0.00 0.00 4.18
1956 6696 2.985896 TCCTACTCAAATCCGCCAAAG 58.014 47.619 0.00 0.00 0.00 2.77
1996 6737 6.372185 ACATGTCGAAGTATAGATAACTCGC 58.628 40.000 0.00 0.00 0.00 5.03
2003 6744 2.708386 ATAGATAACTCGCACGAGGC 57.292 50.000 22.71 9.93 45.88 4.70
2013 6754 2.640302 GCACGAGGCTCCTCTGACA 61.640 63.158 9.32 0.00 40.69 3.58
2016 6757 1.066303 CACGAGGCTCCTCTGACATAC 59.934 57.143 9.32 0.00 40.69 2.39
2019 6760 1.068434 GAGGCTCCTCTGACATACTGC 59.932 57.143 2.15 0.00 39.80 4.40
2036 6777 3.970410 CAGGGAGCAGTTGGGCCA 61.970 66.667 0.00 0.00 0.00 5.36
2039 6780 2.602676 GGGAGCAGTTGGGCCACTA 61.603 63.158 5.23 0.00 0.00 2.74
2040 6781 1.078143 GGAGCAGTTGGGCCACTAG 60.078 63.158 5.23 0.00 0.00 2.57
2064 6805 0.474854 TGGGCCCAGAAGTAGGTTGA 60.475 55.000 24.45 0.00 0.00 3.18
2072 6813 3.170717 CAGAAGTAGGTTGACCCACCTA 58.829 50.000 0.00 0.00 46.14 3.08
2082 6823 1.195115 GACCCACCTATCAGTGAGCA 58.805 55.000 0.00 0.00 40.34 4.26
2144 6886 0.666274 TCGTCTTCCACACGATGCAC 60.666 55.000 0.00 0.00 41.27 4.57
2147 6889 1.069906 GTCTTCCACACGATGCACAAC 60.070 52.381 0.00 0.00 0.00 3.32
2154 6896 0.235665 CACGATGCACAACACACCTC 59.764 55.000 0.00 0.00 0.00 3.85
2168 6910 3.131577 ACACACCTCGAACTTGACTGTAA 59.868 43.478 0.00 0.00 0.00 2.41
2176 6918 4.986659 TCGAACTTGACTGTAAACCTTAGC 59.013 41.667 0.00 0.00 0.00 3.09
2297 7039 4.159693 TCATCGTTGACATTACTAGGTGCT 59.840 41.667 0.00 0.00 0.00 4.40
2301 7043 3.906720 TGACATTACTAGGTGCTTCCC 57.093 47.619 0.00 0.00 36.75 3.97
2323 7065 9.854668 TTCCCTTTTGGATAAATATCGTTCATA 57.145 29.630 0.00 0.00 44.66 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 9.364989 TCAATTTCTTCAAATTCGTGAACTTTT 57.635 25.926 0.00 0.00 39.75 2.27
18 19 8.807581 GTCAATTTCTTCAAATTCGTGAACTTT 58.192 29.630 0.00 0.00 39.75 2.66
19 20 7.973388 TGTCAATTTCTTCAAATTCGTGAACTT 59.027 29.630 0.00 0.00 39.75 2.66
20 21 7.479980 TGTCAATTTCTTCAAATTCGTGAACT 58.520 30.769 0.00 0.00 39.75 3.01
21 22 7.678194 TGTCAATTTCTTCAAATTCGTGAAC 57.322 32.000 0.00 0.00 39.75 3.18
22 23 8.187480 TCTTGTCAATTTCTTCAAATTCGTGAA 58.813 29.630 0.00 0.00 39.75 3.18
23 24 7.702386 TCTTGTCAATTTCTTCAAATTCGTGA 58.298 30.769 0.00 0.00 39.75 4.35
24 25 7.912949 TCTTGTCAATTTCTTCAAATTCGTG 57.087 32.000 0.00 0.00 39.75 4.35
25 26 8.971321 CATTCTTGTCAATTTCTTCAAATTCGT 58.029 29.630 0.00 0.00 39.75 3.85
26 27 9.184062 TCATTCTTGTCAATTTCTTCAAATTCG 57.816 29.630 0.00 0.00 39.75 3.34
99 100 7.042523 CCTTTTGTTTTCCTTCTTGCATACTTG 60.043 37.037 0.00 0.00 0.00 3.16
100 101 6.986231 CCTTTTGTTTTCCTTCTTGCATACTT 59.014 34.615 0.00 0.00 0.00 2.24
101 102 6.323739 TCCTTTTGTTTTCCTTCTTGCATACT 59.676 34.615 0.00 0.00 0.00 2.12
102 103 6.512297 TCCTTTTGTTTTCCTTCTTGCATAC 58.488 36.000 0.00 0.00 0.00 2.39
103 104 6.723298 TCCTTTTGTTTTCCTTCTTGCATA 57.277 33.333 0.00 0.00 0.00 3.14
104 105 5.612725 TCCTTTTGTTTTCCTTCTTGCAT 57.387 34.783 0.00 0.00 0.00 3.96
105 106 5.413309 TTCCTTTTGTTTTCCTTCTTGCA 57.587 34.783 0.00 0.00 0.00 4.08
106 107 6.148645 TGTTTTCCTTTTGTTTTCCTTCTTGC 59.851 34.615 0.00 0.00 0.00 4.01
107 108 7.518161 GTGTTTTCCTTTTGTTTTCCTTCTTG 58.482 34.615 0.00 0.00 0.00 3.02
108 109 6.367695 CGTGTTTTCCTTTTGTTTTCCTTCTT 59.632 34.615 0.00 0.00 0.00 2.52
109 110 5.867174 CGTGTTTTCCTTTTGTTTTCCTTCT 59.133 36.000 0.00 0.00 0.00 2.85
110 111 5.865013 TCGTGTTTTCCTTTTGTTTTCCTTC 59.135 36.000 0.00 0.00 0.00 3.46
111 112 5.785243 TCGTGTTTTCCTTTTGTTTTCCTT 58.215 33.333 0.00 0.00 0.00 3.36
112 113 5.047590 ACTCGTGTTTTCCTTTTGTTTTCCT 60.048 36.000 0.00 0.00 0.00 3.36
113 114 5.165676 ACTCGTGTTTTCCTTTTGTTTTCC 58.834 37.500 0.00 0.00 0.00 3.13
114 115 7.800015 TTACTCGTGTTTTCCTTTTGTTTTC 57.200 32.000 0.00 0.00 0.00 2.29
115 116 8.590719 TTTTACTCGTGTTTTCCTTTTGTTTT 57.409 26.923 0.00 0.00 0.00 2.43
116 117 8.766000 ATTTTACTCGTGTTTTCCTTTTGTTT 57.234 26.923 0.00 0.00 0.00 2.83
118 119 9.673454 GATATTTTACTCGTGTTTTCCTTTTGT 57.327 29.630 0.00 0.00 0.00 2.83
119 120 9.124807 GGATATTTTACTCGTGTTTTCCTTTTG 57.875 33.333 0.00 0.00 0.00 2.44
120 121 8.301720 GGGATATTTTACTCGTGTTTTCCTTTT 58.698 33.333 0.00 0.00 0.00 2.27
121 122 7.449086 TGGGATATTTTACTCGTGTTTTCCTTT 59.551 33.333 0.00 0.00 0.00 3.11
122 123 6.943718 TGGGATATTTTACTCGTGTTTTCCTT 59.056 34.615 0.00 0.00 0.00 3.36
123 124 6.478129 TGGGATATTTTACTCGTGTTTTCCT 58.522 36.000 0.00 0.00 0.00 3.36
124 125 6.373495 ACTGGGATATTTTACTCGTGTTTTCC 59.627 38.462 0.00 0.00 0.00 3.13
125 126 7.373778 ACTGGGATATTTTACTCGTGTTTTC 57.626 36.000 0.00 0.00 0.00 2.29
126 127 8.889717 CATACTGGGATATTTTACTCGTGTTTT 58.110 33.333 0.00 0.00 0.00 2.43
127 128 7.012044 GCATACTGGGATATTTTACTCGTGTTT 59.988 37.037 0.00 0.00 0.00 2.83
128 129 6.482308 GCATACTGGGATATTTTACTCGTGTT 59.518 38.462 0.00 0.00 0.00 3.32
129 130 5.989777 GCATACTGGGATATTTTACTCGTGT 59.010 40.000 0.00 0.00 0.00 4.49
130 131 5.989168 TGCATACTGGGATATTTTACTCGTG 59.011 40.000 0.00 0.00 0.00 4.35
131 132 6.169557 TGCATACTGGGATATTTTACTCGT 57.830 37.500 0.00 0.00 0.00 4.18
132 133 6.929049 TCTTGCATACTGGGATATTTTACTCG 59.071 38.462 0.00 0.00 0.00 4.18
133 134 8.677148 TTCTTGCATACTGGGATATTTTACTC 57.323 34.615 0.00 0.00 0.00 2.59
134 135 9.071276 CATTCTTGCATACTGGGATATTTTACT 57.929 33.333 0.00 0.00 0.00 2.24
135 136 9.066892 TCATTCTTGCATACTGGGATATTTTAC 57.933 33.333 0.00 0.00 0.00 2.01
136 137 9.639563 TTCATTCTTGCATACTGGGATATTTTA 57.360 29.630 0.00 0.00 0.00 1.52
137 138 8.537728 TTCATTCTTGCATACTGGGATATTTT 57.462 30.769 0.00 0.00 0.00 1.82
138 139 8.537728 TTTCATTCTTGCATACTGGGATATTT 57.462 30.769 0.00 0.00 0.00 1.40
139 140 8.416329 GTTTTCATTCTTGCATACTGGGATATT 58.584 33.333 0.00 0.00 0.00 1.28
140 141 7.560991 TGTTTTCATTCTTGCATACTGGGATAT 59.439 33.333 0.00 0.00 0.00 1.63
141 142 6.889177 TGTTTTCATTCTTGCATACTGGGATA 59.111 34.615 0.00 0.00 0.00 2.59
142 143 5.716228 TGTTTTCATTCTTGCATACTGGGAT 59.284 36.000 0.00 0.00 0.00 3.85
143 144 5.076182 TGTTTTCATTCTTGCATACTGGGA 58.924 37.500 0.00 0.00 0.00 4.37
144 145 5.389859 TGTTTTCATTCTTGCATACTGGG 57.610 39.130 0.00 0.00 0.00 4.45
145 146 7.652909 TCTTTTGTTTTCATTCTTGCATACTGG 59.347 33.333 0.00 0.00 0.00 4.00
146 147 8.578308 TCTTTTGTTTTCATTCTTGCATACTG 57.422 30.769 0.00 0.00 0.00 2.74
147 148 9.598517 TTTCTTTTGTTTTCATTCTTGCATACT 57.401 25.926 0.00 0.00 0.00 2.12
150 151 9.558648 GTTTTTCTTTTGTTTTCATTCTTGCAT 57.441 25.926 0.00 0.00 0.00 3.96
151 152 8.562892 TGTTTTTCTTTTGTTTTCATTCTTGCA 58.437 25.926 0.00 0.00 0.00 4.08
152 153 8.839914 GTGTTTTTCTTTTGTTTTCATTCTTGC 58.160 29.630 0.00 0.00 0.00 4.01
153 154 9.039500 CGTGTTTTTCTTTTGTTTTCATTCTTG 57.961 29.630 0.00 0.00 0.00 3.02
154 155 8.983724 TCGTGTTTTTCTTTTGTTTTCATTCTT 58.016 25.926 0.00 0.00 0.00 2.52
155 156 8.527567 TCGTGTTTTTCTTTTGTTTTCATTCT 57.472 26.923 0.00 0.00 0.00 2.40
156 157 8.432359 ACTCGTGTTTTTCTTTTGTTTTCATTC 58.568 29.630 0.00 0.00 0.00 2.67
157 158 8.305441 ACTCGTGTTTTTCTTTTGTTTTCATT 57.695 26.923 0.00 0.00 0.00 2.57
158 159 7.883229 ACTCGTGTTTTTCTTTTGTTTTCAT 57.117 28.000 0.00 0.00 0.00 2.57
159 160 8.798748 TTACTCGTGTTTTTCTTTTGTTTTCA 57.201 26.923 0.00 0.00 0.00 2.69
174 175 8.561738 ACATTTGAGGATATTTTACTCGTGTT 57.438 30.769 0.00 0.00 34.03 3.32
190 191 3.803778 GCTGGTTTTGTGAACATTTGAGG 59.196 43.478 0.00 0.00 0.00 3.86
245 246 3.704231 CTTGCATACTGGGCCGGCT 62.704 63.158 28.56 9.11 0.00 5.52
263 264 1.275291 TGCACACCCTCTAGCAAGTAC 59.725 52.381 0.00 0.00 33.48 2.73
309 312 6.613755 ATTTCTATTTGGCGTTTATAGCGT 57.386 33.333 0.00 0.00 35.00 5.07
395 399 4.191544 TCACAAGACAGGTCAAACTCTTG 58.808 43.478 1.84 4.99 43.51 3.02
408 412 2.431683 GGGCCTGCTCACAAGACA 59.568 61.111 0.84 0.00 0.00 3.41
435 439 0.883833 CATCCAAGCAAGTGTGGACC 59.116 55.000 0.00 0.00 46.53 4.46
466 470 2.094675 CTCCCATCATTCTTGGCGTTT 58.905 47.619 0.00 0.00 32.60 3.60
469 473 2.267174 ATCTCCCATCATTCTTGGCG 57.733 50.000 0.00 0.00 32.60 5.69
470 474 4.723309 ACTAATCTCCCATCATTCTTGGC 58.277 43.478 0.00 0.00 32.60 4.52
564 568 6.803154 ATCTTATATGCGGAGTAAAAAGGC 57.197 37.500 0.00 0.00 0.00 4.35
665 669 9.449550 TGCGTCATGAATTTAATTATCACATTC 57.550 29.630 0.00 0.00 0.00 2.67
871 1525 4.704833 CTGCCCGGGTGTGGTCTG 62.705 72.222 24.63 4.05 0.00 3.51
873 1527 4.699522 GACTGCCCGGGTGTGGTC 62.700 72.222 24.63 19.69 0.00 4.02
883 5612 4.500116 GACGAGCTCGGACTGCCC 62.500 72.222 36.93 14.49 44.95 5.36
914 5643 2.032681 AGGACAACTCGGCAAGCC 59.967 61.111 0.00 0.00 0.00 4.35
949 5678 1.135083 GTGTGAGGCGAGCTAGCTAAA 60.135 52.381 19.38 0.00 37.29 1.85
976 5705 3.211803 TGTCGTATCGTATATGGCTGC 57.788 47.619 0.00 0.00 0.00 5.25
977 5706 4.542735 TGTTGTCGTATCGTATATGGCTG 58.457 43.478 0.00 0.00 0.00 4.85
978 5707 4.841443 TGTTGTCGTATCGTATATGGCT 57.159 40.909 0.00 0.00 0.00 4.75
979 5708 5.163992 CCATTGTTGTCGTATCGTATATGGC 60.164 44.000 0.00 0.00 0.00 4.40
1023 5754 0.754957 CGAGGCTGAGATCCTCCTGT 60.755 60.000 0.00 0.00 45.66 4.00
1143 5874 2.915659 TTCTGGTGACCGCCGAGT 60.916 61.111 0.00 0.00 0.00 4.18
1235 5966 4.096003 TTACAGCAGGCTCCCCGC 62.096 66.667 0.00 0.00 35.76 6.13
1248 5979 1.213537 GTACGCCACGGAGCTTACA 59.786 57.895 9.68 0.00 37.42 2.41
1252 5983 2.261671 CTTGTACGCCACGGAGCT 59.738 61.111 0.00 0.00 0.00 4.09
1383 6114 5.285798 GCTAGACTCTAACATACCTAGCG 57.714 47.826 0.00 0.00 39.45 4.26
1455 6186 4.042311 TGTCCAATAAACTACAAGAGGGCA 59.958 41.667 0.00 0.00 0.00 5.36
1458 6189 8.110860 ACAAATGTCCAATAAACTACAAGAGG 57.889 34.615 0.00 0.00 0.00 3.69
1682 6413 6.929049 CAGTGACGCTTATTATGGGATAGAAA 59.071 38.462 1.35 0.00 0.00 2.52
1693 6424 8.702438 GTTGTACTAAAACAGTGACGCTTATTA 58.298 33.333 0.00 0.00 38.24 0.98
1704 6435 7.041107 TCCGTGTAAAGTTGTACTAAAACAGT 58.959 34.615 0.00 0.00 41.62 3.55
1938 6678 3.074412 ACACTTTGGCGGATTTGAGTAG 58.926 45.455 0.00 0.00 0.00 2.57
1996 6737 1.066303 GTATGTCAGAGGAGCCTCGTG 59.934 57.143 10.69 9.53 46.90 4.35
2003 6744 1.411977 CCCTGCAGTATGTCAGAGGAG 59.588 57.143 13.81 0.00 40.90 3.69
2019 6760 3.970410 TGGCCCAACTGCTCCCTG 61.970 66.667 0.00 0.00 0.00 4.45
2036 6777 2.119495 CTTCTGGGCCCACATACTAGT 58.881 52.381 24.45 0.00 0.00 2.57
2039 6780 2.119495 CTACTTCTGGGCCCACATACT 58.881 52.381 24.45 4.80 0.00 2.12
2040 6781 1.141053 CCTACTTCTGGGCCCACATAC 59.859 57.143 24.45 0.00 0.00 2.39
2064 6805 1.656587 TTGCTCACTGATAGGTGGGT 58.343 50.000 0.00 0.00 39.66 4.51
2072 6813 1.242076 GGTGCAGTTTGCTCACTGAT 58.758 50.000 17.19 0.00 46.29 2.90
2100 6841 0.902048 CTGGACTCAGCTCCCTGACA 60.902 60.000 0.00 0.00 42.98 3.58
2144 6886 2.285220 CAGTCAAGTTCGAGGTGTGTTG 59.715 50.000 0.00 0.00 0.00 3.33
2147 6889 2.225068 ACAGTCAAGTTCGAGGTGTG 57.775 50.000 0.00 0.00 0.00 3.82
2154 6896 4.748102 TGCTAAGGTTTACAGTCAAGTTCG 59.252 41.667 0.00 0.00 0.00 3.95
2176 6918 7.118390 GGTATGCTACCTATCTTTGCAATAGTG 59.882 40.741 0.00 0.00 45.52 2.74
2196 6938 8.293867 TCTTGTTTATTATTAATGCGGGTATGC 58.706 33.333 0.00 0.00 0.00 3.14
2283 7025 4.929146 AAAGGGAAGCACCTAGTAATGT 57.071 40.909 0.00 0.00 40.87 2.71


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

AutoCloner maintained by Alex Coulton.