Multiple sequence alignment - TraesCS1A01G074700

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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 TraesCS1A01G074700 chr1A 100.000 2603 0 0 1 2603 58028699 58026097 0.000000e+00 4807.0
1 TraesCS1A01G074700 chr1A 98.820 2458 29 0 146 2603 58020286 58022743 0.000000e+00 4379.0
2 TraesCS1A01G074700 chr1A 96.038 1666 53 10 148 1812 487466581 487468234 0.000000e+00 2699.0
3 TraesCS1A01G074700 chr1A 97.059 34 0 1 2422 2454 487467998 487468031 3.620000e-04 56.5
4 TraesCS1A01G074700 chr7B 98.613 2451 34 0 153 2603 581349075 581346625 0.000000e+00 4338.0
5 TraesCS1A01G074700 chr7B 94.793 2055 92 12 146 2198 297143265 297141224 0.000000e+00 3188.0
6 TraesCS1A01G074700 chr7B 96.324 408 15 0 2196 2603 297120954 297120547 0.000000e+00 671.0
7 TraesCS1A01G074700 chr7A 97.961 2452 36 2 152 2603 706439629 706442066 0.000000e+00 4239.0
8 TraesCS1A01G074700 chr7A 98.661 2389 32 0 215 2603 694026777 694029165 0.000000e+00 4235.0
9 TraesCS1A01G074700 chr3B 97.879 2452 37 1 152 2603 607813803 607816239 0.000000e+00 4226.0
10 TraesCS1A01G074700 chr3B 96.231 1645 37 5 962 2603 821049380 821051002 0.000000e+00 2671.0
11 TraesCS1A01G074700 chr1B 92.869 2454 156 14 153 2603 499022207 499019770 0.000000e+00 3544.0
12 TraesCS1A01G074700 chr1B 96.610 59 2 0 72 130 94929201 94929143 5.930000e-17 99.0
13 TraesCS1A01G074700 chrUn 94.584 1828 76 10 152 1978 94949711 94947906 0.000000e+00 2806.0
14 TraesCS1A01G074700 chr5B 95.608 1662 59 9 152 1812 491655614 491653966 0.000000e+00 2652.0
15 TraesCS1A01G074700 chr4D 91.468 586 40 3 1823 2399 506089458 506088874 0.000000e+00 797.0


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 TraesCS1A01G074700 chr1A 58026097 58028699 2602 True 4807.00 4807 100.0000 1 2603 1 chr1A.!!$R1 2602
1 TraesCS1A01G074700 chr1A 58020286 58022743 2457 False 4379.00 4379 98.8200 146 2603 1 chr1A.!!$F1 2457
2 TraesCS1A01G074700 chr1A 487466581 487468234 1653 False 1377.75 2699 96.5485 148 2454 2 chr1A.!!$F2 2306
3 TraesCS1A01G074700 chr7B 581346625 581349075 2450 True 4338.00 4338 98.6130 153 2603 1 chr7B.!!$R3 2450
4 TraesCS1A01G074700 chr7B 297141224 297143265 2041 True 3188.00 3188 94.7930 146 2198 1 chr7B.!!$R2 2052
5 TraesCS1A01G074700 chr7A 706439629 706442066 2437 False 4239.00 4239 97.9610 152 2603 1 chr7A.!!$F2 2451
6 TraesCS1A01G074700 chr7A 694026777 694029165 2388 False 4235.00 4235 98.6610 215 2603 1 chr7A.!!$F1 2388
7 TraesCS1A01G074700 chr3B 607813803 607816239 2436 False 4226.00 4226 97.8790 152 2603 1 chr3B.!!$F1 2451
8 TraesCS1A01G074700 chr3B 821049380 821051002 1622 False 2671.00 2671 96.2310 962 2603 1 chr3B.!!$F2 1641
9 TraesCS1A01G074700 chr1B 499019770 499022207 2437 True 3544.00 3544 92.8690 153 2603 1 chr1B.!!$R2 2450
10 TraesCS1A01G074700 chrUn 94947906 94949711 1805 True 2806.00 2806 94.5840 152 1978 1 chrUn.!!$R1 1826
11 TraesCS1A01G074700 chr5B 491653966 491655614 1648 True 2652.00 2652 95.6080 152 1812 1 chr5B.!!$R1 1660
12 TraesCS1A01G074700 chr4D 506088874 506089458 584 True 797.00 797 91.4680 1823 2399 1 chr4D.!!$R1 576

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
141 142 0.032615 TCACTTTGGGGCTGTTTGGT 60.033 50.0 0.0 0.0 0.0 3.67 F
144 145 0.106521 CTTTGGGGCTGTTTGGTTGG 59.893 55.0 0.0 0.0 0.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1319 1334 0.823356 GGCAACTTGCTCCTCCACAA 60.823 55.0 13.43 0.0 44.28 3.33 R
1864 1894 5.360714 AGAAAGTTTCAGTTTGAAGCCATGA 59.639 36.0 17.65 0.0 38.18 3.07 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 4.292977 AGTTACACAAGTTCAAGCAAGC 57.707 40.909 0.00 0.00 0.00 4.01
25 26 3.947834 AGTTACACAAGTTCAAGCAAGCT 59.052 39.130 0.00 0.00 0.00 3.74
26 27 2.857592 ACACAAGTTCAAGCAAGCTG 57.142 45.000 0.00 0.00 0.00 4.24
27 28 2.368439 ACACAAGTTCAAGCAAGCTGA 58.632 42.857 0.00 0.00 0.00 4.26
28 29 2.754552 ACACAAGTTCAAGCAAGCTGAA 59.245 40.909 0.00 0.00 0.00 3.02
29 30 3.181493 ACACAAGTTCAAGCAAGCTGAAG 60.181 43.478 0.00 0.00 0.00 3.02
30 31 2.360165 ACAAGTTCAAGCAAGCTGAAGG 59.640 45.455 0.00 0.00 0.00 3.46
31 32 2.620115 CAAGTTCAAGCAAGCTGAAGGA 59.380 45.455 0.00 0.00 0.00 3.36
32 33 2.936202 AGTTCAAGCAAGCTGAAGGAA 58.064 42.857 0.00 0.00 0.00 3.36
33 34 3.290710 AGTTCAAGCAAGCTGAAGGAAA 58.709 40.909 0.00 0.00 0.00 3.13
34 35 3.317430 AGTTCAAGCAAGCTGAAGGAAAG 59.683 43.478 0.00 0.00 0.00 2.62
35 36 2.233271 TCAAGCAAGCTGAAGGAAAGG 58.767 47.619 0.00 0.00 0.00 3.11
36 37 2.158623 TCAAGCAAGCTGAAGGAAAGGA 60.159 45.455 0.00 0.00 0.00 3.36
37 38 2.624838 CAAGCAAGCTGAAGGAAAGGAA 59.375 45.455 0.00 0.00 0.00 3.36
38 39 2.949447 AGCAAGCTGAAGGAAAGGAAA 58.051 42.857 0.00 0.00 0.00 3.13
39 40 3.299503 AGCAAGCTGAAGGAAAGGAAAA 58.700 40.909 0.00 0.00 0.00 2.29
40 41 3.068732 AGCAAGCTGAAGGAAAGGAAAAC 59.931 43.478 0.00 0.00 0.00 2.43
41 42 3.181476 GCAAGCTGAAGGAAAGGAAAACA 60.181 43.478 0.00 0.00 0.00 2.83
42 43 4.502087 GCAAGCTGAAGGAAAGGAAAACAT 60.502 41.667 0.00 0.00 0.00 2.71
43 44 5.225642 CAAGCTGAAGGAAAGGAAAACATC 58.774 41.667 0.00 0.00 0.00 3.06
44 45 4.473444 AGCTGAAGGAAAGGAAAACATCA 58.527 39.130 0.00 0.00 0.00 3.07
45 46 4.279420 AGCTGAAGGAAAGGAAAACATCAC 59.721 41.667 0.00 0.00 0.00 3.06
46 47 4.037923 GCTGAAGGAAAGGAAAACATCACA 59.962 41.667 0.00 0.00 0.00 3.58
47 48 5.514274 TGAAGGAAAGGAAAACATCACAC 57.486 39.130 0.00 0.00 0.00 3.82
48 49 4.952957 TGAAGGAAAGGAAAACATCACACA 59.047 37.500 0.00 0.00 0.00 3.72
49 50 5.420421 TGAAGGAAAGGAAAACATCACACAA 59.580 36.000 0.00 0.00 0.00 3.33
50 51 5.930837 AGGAAAGGAAAACATCACACAAA 57.069 34.783 0.00 0.00 0.00 2.83
51 52 6.293004 AGGAAAGGAAAACATCACACAAAA 57.707 33.333 0.00 0.00 0.00 2.44
52 53 6.888105 AGGAAAGGAAAACATCACACAAAAT 58.112 32.000 0.00 0.00 0.00 1.82
53 54 8.017418 AGGAAAGGAAAACATCACACAAAATA 57.983 30.769 0.00 0.00 0.00 1.40
54 55 8.143835 AGGAAAGGAAAACATCACACAAAATAG 58.856 33.333 0.00 0.00 0.00 1.73
55 56 8.141268 GGAAAGGAAAACATCACACAAAATAGA 58.859 33.333 0.00 0.00 0.00 1.98
56 57 9.528018 GAAAGGAAAACATCACACAAAATAGAA 57.472 29.630 0.00 0.00 0.00 2.10
73 74 9.346725 CAAAATAGAATTACAGAAAAGAGTGGC 57.653 33.333 0.00 0.00 0.00 5.01
74 75 7.631717 AATAGAATTACAGAAAAGAGTGGCC 57.368 36.000 0.00 0.00 0.00 5.36
75 76 5.248380 AGAATTACAGAAAAGAGTGGCCT 57.752 39.130 3.32 0.00 0.00 5.19
76 77 5.006386 AGAATTACAGAAAAGAGTGGCCTG 58.994 41.667 3.32 0.00 0.00 4.85
77 78 2.185004 TACAGAAAAGAGTGGCCTGC 57.815 50.000 3.32 0.00 0.00 4.85
78 79 0.538287 ACAGAAAAGAGTGGCCTGCC 60.538 55.000 3.32 0.00 0.00 4.85
79 80 1.302832 AGAAAAGAGTGGCCTGCCG 60.303 57.895 3.32 0.00 39.42 5.69
80 81 2.982744 GAAAAGAGTGGCCTGCCGC 61.983 63.158 13.78 13.78 46.30 6.53
93 94 2.956987 GCCGCATGCAAGACACTT 59.043 55.556 19.57 0.00 40.77 3.16
94 95 1.286880 GCCGCATGCAAGACACTTT 59.713 52.632 19.57 0.00 40.77 2.66
95 96 1.005294 GCCGCATGCAAGACACTTTG 61.005 55.000 19.57 0.00 40.77 2.77
96 97 0.592637 CCGCATGCAAGACACTTTGA 59.407 50.000 19.57 0.00 0.00 2.69
97 98 1.664016 CCGCATGCAAGACACTTTGAC 60.664 52.381 19.57 0.00 0.00 3.18
98 99 1.664016 CGCATGCAAGACACTTTGACC 60.664 52.381 19.57 0.00 0.00 4.02
99 100 1.610522 GCATGCAAGACACTTTGACCT 59.389 47.619 14.21 0.00 0.00 3.85
100 101 2.351157 GCATGCAAGACACTTTGACCTC 60.351 50.000 14.21 0.00 0.00 3.85
101 102 2.708216 TGCAAGACACTTTGACCTCA 57.292 45.000 0.00 0.00 0.00 3.86
102 103 2.564771 TGCAAGACACTTTGACCTCAG 58.435 47.619 0.00 0.00 0.00 3.35
103 104 2.092968 TGCAAGACACTTTGACCTCAGT 60.093 45.455 0.00 0.00 0.00 3.41
104 105 2.945668 GCAAGACACTTTGACCTCAGTT 59.054 45.455 0.00 0.00 0.00 3.16
105 106 3.242870 GCAAGACACTTTGACCTCAGTTG 60.243 47.826 0.00 0.00 0.00 3.16
106 107 3.199880 AGACACTTTGACCTCAGTTGG 57.800 47.619 0.00 0.00 0.00 3.77
107 108 2.505819 AGACACTTTGACCTCAGTTGGT 59.494 45.455 0.00 0.00 44.10 3.67
108 109 2.614057 GACACTTTGACCTCAGTTGGTG 59.386 50.000 0.00 0.00 41.00 4.17
109 110 2.238646 ACACTTTGACCTCAGTTGGTGA 59.761 45.455 0.00 0.00 41.00 4.02
110 111 2.614057 CACTTTGACCTCAGTTGGTGAC 59.386 50.000 0.00 0.00 41.00 3.67
111 112 1.867233 CTTTGACCTCAGTTGGTGACG 59.133 52.381 0.00 0.00 41.00 4.35
112 113 0.105964 TTGACCTCAGTTGGTGACGG 59.894 55.000 0.00 0.00 41.00 4.79
113 114 1.046472 TGACCTCAGTTGGTGACGGT 61.046 55.000 0.00 0.00 41.00 4.83
114 115 0.319641 GACCTCAGTTGGTGACGGTC 60.320 60.000 0.00 0.00 41.86 4.79
115 116 0.759436 ACCTCAGTTGGTGACGGTCT 60.759 55.000 9.88 0.00 39.17 3.85
116 117 0.319900 CCTCAGTTGGTGACGGTCTG 60.320 60.000 9.88 0.00 0.00 3.51
117 118 0.946221 CTCAGTTGGTGACGGTCTGC 60.946 60.000 9.88 2.45 0.00 4.26
118 119 1.069765 CAGTTGGTGACGGTCTGCT 59.930 57.895 9.88 0.00 0.00 4.24
119 120 1.069765 AGTTGGTGACGGTCTGCTG 59.930 57.895 9.88 0.00 0.00 4.41
120 121 1.961277 GTTGGTGACGGTCTGCTGG 60.961 63.158 9.88 0.00 0.00 4.85
121 122 2.137528 TTGGTGACGGTCTGCTGGA 61.138 57.895 9.88 0.00 0.00 3.86
122 123 1.480212 TTGGTGACGGTCTGCTGGAT 61.480 55.000 9.88 0.00 0.00 3.41
123 124 1.153549 GGTGACGGTCTGCTGGATC 60.154 63.158 9.88 0.00 0.00 3.36
124 125 1.591703 GTGACGGTCTGCTGGATCA 59.408 57.895 9.88 0.00 0.00 2.92
125 126 0.737715 GTGACGGTCTGCTGGATCAC 60.738 60.000 9.88 0.00 0.00 3.06
126 127 0.900182 TGACGGTCTGCTGGATCACT 60.900 55.000 9.88 0.00 0.00 3.41
127 128 0.247736 GACGGTCTGCTGGATCACTT 59.752 55.000 0.00 0.00 0.00 3.16
128 129 0.687354 ACGGTCTGCTGGATCACTTT 59.313 50.000 0.00 0.00 0.00 2.66
129 130 1.081892 CGGTCTGCTGGATCACTTTG 58.918 55.000 0.00 0.00 0.00 2.77
130 131 1.457346 GGTCTGCTGGATCACTTTGG 58.543 55.000 0.00 0.00 0.00 3.28
131 132 1.457346 GTCTGCTGGATCACTTTGGG 58.543 55.000 0.00 0.00 0.00 4.12
132 133 0.329261 TCTGCTGGATCACTTTGGGG 59.671 55.000 0.00 0.00 0.00 4.96
133 134 1.304381 TGCTGGATCACTTTGGGGC 60.304 57.895 0.00 0.00 0.00 5.80
134 135 1.000396 GCTGGATCACTTTGGGGCT 60.000 57.895 0.00 0.00 0.00 5.19
135 136 1.318158 GCTGGATCACTTTGGGGCTG 61.318 60.000 0.00 0.00 0.00 4.85
136 137 0.038744 CTGGATCACTTTGGGGCTGT 59.961 55.000 0.00 0.00 0.00 4.40
137 138 0.482446 TGGATCACTTTGGGGCTGTT 59.518 50.000 0.00 0.00 0.00 3.16
138 139 1.133199 TGGATCACTTTGGGGCTGTTT 60.133 47.619 0.00 0.00 0.00 2.83
139 140 1.273327 GGATCACTTTGGGGCTGTTTG 59.727 52.381 0.00 0.00 0.00 2.93
140 141 1.273327 GATCACTTTGGGGCTGTTTGG 59.727 52.381 0.00 0.00 0.00 3.28
141 142 0.032615 TCACTTTGGGGCTGTTTGGT 60.033 50.000 0.00 0.00 0.00 3.67
142 143 0.829990 CACTTTGGGGCTGTTTGGTT 59.170 50.000 0.00 0.00 0.00 3.67
143 144 0.829990 ACTTTGGGGCTGTTTGGTTG 59.170 50.000 0.00 0.00 0.00 3.77
144 145 0.106521 CTTTGGGGCTGTTTGGTTGG 59.893 55.000 0.00 0.00 0.00 3.77
150 151 1.239347 GGCTGTTTGGTTGGAGACTC 58.761 55.000 0.00 0.00 0.00 3.36
170 171 1.078347 GGGGCTGTTTGGATCCCAA 59.922 57.895 9.90 0.59 42.29 4.12
178 179 2.109128 TGTTTGGATCCCAACCTAAGCA 59.891 45.455 22.43 9.04 43.82 3.91
310 311 3.335534 GTGTGGCGCTCGTTTCGT 61.336 61.111 7.64 0.00 0.00 3.85
350 351 1.480205 CGCAAACTGAGCCACAAAAG 58.520 50.000 0.00 0.00 0.00 2.27
374 375 2.936498 CCCGCGAACTGATAAAAGTCAT 59.064 45.455 8.23 0.00 0.00 3.06
527 529 2.695666 CCTGGTACGAATCCTCATCACT 59.304 50.000 0.00 0.00 0.00 3.41
927 938 3.871594 ACTGTCCTCTGTATAATTTGCGC 59.128 43.478 0.00 0.00 0.00 6.09
1177 1190 3.193903 TCCCATGTTCGAACGAGATGTTA 59.806 43.478 22.48 8.63 42.09 2.41
1319 1334 6.313519 ACTGGTAGACACATTCCATGTAAT 57.686 37.500 0.00 0.00 42.70 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.588648 AGCTTGCTTGAACTTGTGTAACTTA 59.411 36.000 0.00 0.00 38.04 2.24
2 3 4.399303 AGCTTGCTTGAACTTGTGTAACTT 59.601 37.500 0.00 0.00 38.04 2.66
3 4 3.947834 AGCTTGCTTGAACTTGTGTAACT 59.052 39.130 0.00 0.00 38.04 2.24
4 5 4.037690 CAGCTTGCTTGAACTTGTGTAAC 58.962 43.478 0.00 0.00 37.35 2.50
5 6 3.944650 TCAGCTTGCTTGAACTTGTGTAA 59.055 39.130 0.00 0.00 0.00 2.41
6 7 3.540617 TCAGCTTGCTTGAACTTGTGTA 58.459 40.909 0.00 0.00 0.00 2.90
7 8 2.368439 TCAGCTTGCTTGAACTTGTGT 58.632 42.857 0.00 0.00 0.00 3.72
8 9 3.369385 CTTCAGCTTGCTTGAACTTGTG 58.631 45.455 0.00 0.00 31.66 3.33
9 10 2.360165 CCTTCAGCTTGCTTGAACTTGT 59.640 45.455 0.00 0.00 31.66 3.16
10 11 2.620115 TCCTTCAGCTTGCTTGAACTTG 59.380 45.455 0.00 0.00 31.66 3.16
11 12 2.936202 TCCTTCAGCTTGCTTGAACTT 58.064 42.857 0.00 0.00 31.66 2.66
12 13 2.645838 TCCTTCAGCTTGCTTGAACT 57.354 45.000 0.00 0.00 31.66 3.01
13 14 3.551659 CCTTTCCTTCAGCTTGCTTGAAC 60.552 47.826 0.00 0.00 31.66 3.18
14 15 2.624838 CCTTTCCTTCAGCTTGCTTGAA 59.375 45.455 0.00 0.57 33.76 2.69
15 16 2.158623 TCCTTTCCTTCAGCTTGCTTGA 60.159 45.455 0.00 0.00 0.00 3.02
16 17 2.233271 TCCTTTCCTTCAGCTTGCTTG 58.767 47.619 0.00 0.00 0.00 4.01
17 18 2.664402 TCCTTTCCTTCAGCTTGCTT 57.336 45.000 0.00 0.00 0.00 3.91
18 19 2.664402 TTCCTTTCCTTCAGCTTGCT 57.336 45.000 0.00 0.00 0.00 3.91
19 20 3.181476 TGTTTTCCTTTCCTTCAGCTTGC 60.181 43.478 0.00 0.00 0.00 4.01
20 21 4.654091 TGTTTTCCTTTCCTTCAGCTTG 57.346 40.909 0.00 0.00 0.00 4.01
21 22 4.895297 TGATGTTTTCCTTTCCTTCAGCTT 59.105 37.500 0.00 0.00 0.00 3.74
22 23 4.279420 GTGATGTTTTCCTTTCCTTCAGCT 59.721 41.667 0.00 0.00 0.00 4.24
23 24 4.037923 TGTGATGTTTTCCTTTCCTTCAGC 59.962 41.667 0.00 0.00 0.00 4.26
24 25 5.067674 TGTGTGATGTTTTCCTTTCCTTCAG 59.932 40.000 0.00 0.00 0.00 3.02
25 26 4.952957 TGTGTGATGTTTTCCTTTCCTTCA 59.047 37.500 0.00 0.00 0.00 3.02
26 27 5.514274 TGTGTGATGTTTTCCTTTCCTTC 57.486 39.130 0.00 0.00 0.00 3.46
27 28 5.930837 TTGTGTGATGTTTTCCTTTCCTT 57.069 34.783 0.00 0.00 0.00 3.36
28 29 5.930837 TTTGTGTGATGTTTTCCTTTCCT 57.069 34.783 0.00 0.00 0.00 3.36
29 30 8.141268 TCTATTTTGTGTGATGTTTTCCTTTCC 58.859 33.333 0.00 0.00 0.00 3.13
30 31 9.528018 TTCTATTTTGTGTGATGTTTTCCTTTC 57.472 29.630 0.00 0.00 0.00 2.62
47 48 9.346725 GCCACTCTTTTCTGTAATTCTATTTTG 57.653 33.333 0.00 0.00 0.00 2.44
48 49 8.523658 GGCCACTCTTTTCTGTAATTCTATTTT 58.476 33.333 0.00 0.00 0.00 1.82
49 50 7.890655 AGGCCACTCTTTTCTGTAATTCTATTT 59.109 33.333 5.01 0.00 0.00 1.40
50 51 7.337942 CAGGCCACTCTTTTCTGTAATTCTATT 59.662 37.037 5.01 0.00 0.00 1.73
51 52 6.825721 CAGGCCACTCTTTTCTGTAATTCTAT 59.174 38.462 5.01 0.00 0.00 1.98
52 53 6.173339 CAGGCCACTCTTTTCTGTAATTCTA 58.827 40.000 5.01 0.00 0.00 2.10
53 54 5.006386 CAGGCCACTCTTTTCTGTAATTCT 58.994 41.667 5.01 0.00 0.00 2.40
54 55 4.379918 GCAGGCCACTCTTTTCTGTAATTC 60.380 45.833 5.01 0.00 0.00 2.17
55 56 3.507622 GCAGGCCACTCTTTTCTGTAATT 59.492 43.478 5.01 0.00 0.00 1.40
56 57 3.084786 GCAGGCCACTCTTTTCTGTAAT 58.915 45.455 5.01 0.00 0.00 1.89
57 58 2.504367 GCAGGCCACTCTTTTCTGTAA 58.496 47.619 5.01 0.00 0.00 2.41
58 59 1.271379 GGCAGGCCACTCTTTTCTGTA 60.271 52.381 5.01 0.00 35.81 2.74
59 60 0.538287 GGCAGGCCACTCTTTTCTGT 60.538 55.000 5.01 0.00 35.81 3.41
60 61 1.580845 CGGCAGGCCACTCTTTTCTG 61.581 60.000 5.01 0.00 35.37 3.02
61 62 1.302832 CGGCAGGCCACTCTTTTCT 60.303 57.895 5.01 0.00 35.37 2.52
62 63 2.982744 GCGGCAGGCCACTCTTTTC 61.983 63.158 5.01 0.00 35.37 2.29
63 64 2.985847 GCGGCAGGCCACTCTTTT 60.986 61.111 5.01 0.00 35.37 2.27
64 65 3.574074 ATGCGGCAGGCCACTCTTT 62.574 57.895 9.25 0.00 42.61 2.52
65 66 4.039092 ATGCGGCAGGCCACTCTT 62.039 61.111 9.25 0.00 42.61 2.85
66 67 4.790962 CATGCGGCAGGCCACTCT 62.791 66.667 9.25 0.00 42.61 3.24
76 77 1.005294 CAAAGTGTCTTGCATGCGGC 61.005 55.000 14.09 1.13 45.13 6.53
77 78 0.592637 TCAAAGTGTCTTGCATGCGG 59.407 50.000 14.09 8.69 0.00 5.69
78 79 1.664016 GGTCAAAGTGTCTTGCATGCG 60.664 52.381 14.09 0.00 0.00 4.73
79 80 1.610522 AGGTCAAAGTGTCTTGCATGC 59.389 47.619 11.82 11.82 0.00 4.06
80 81 2.880268 TGAGGTCAAAGTGTCTTGCATG 59.120 45.455 0.00 0.00 0.00 4.06
81 82 3.144506 CTGAGGTCAAAGTGTCTTGCAT 58.855 45.455 0.00 0.00 0.00 3.96
82 83 2.092968 ACTGAGGTCAAAGTGTCTTGCA 60.093 45.455 0.00 0.00 0.00 4.08
83 84 2.565841 ACTGAGGTCAAAGTGTCTTGC 58.434 47.619 0.00 0.00 0.00 4.01
84 85 3.313526 CCAACTGAGGTCAAAGTGTCTTG 59.686 47.826 0.00 0.00 0.00 3.02
85 86 3.054361 ACCAACTGAGGTCAAAGTGTCTT 60.054 43.478 0.00 0.00 37.28 3.01
86 87 2.505819 ACCAACTGAGGTCAAAGTGTCT 59.494 45.455 0.00 0.00 37.28 3.41
87 88 2.614057 CACCAACTGAGGTCAAAGTGTC 59.386 50.000 0.00 0.00 40.77 3.67
88 89 2.238646 TCACCAACTGAGGTCAAAGTGT 59.761 45.455 0.00 0.00 40.77 3.55
89 90 2.614057 GTCACCAACTGAGGTCAAAGTG 59.386 50.000 0.00 0.00 40.77 3.16
90 91 2.741878 CGTCACCAACTGAGGTCAAAGT 60.742 50.000 0.00 0.00 40.77 2.66
91 92 1.867233 CGTCACCAACTGAGGTCAAAG 59.133 52.381 0.00 0.00 40.77 2.77
92 93 1.474320 CCGTCACCAACTGAGGTCAAA 60.474 52.381 0.00 0.00 40.77 2.69
93 94 0.105964 CCGTCACCAACTGAGGTCAA 59.894 55.000 0.00 0.00 40.77 3.18
94 95 1.046472 ACCGTCACCAACTGAGGTCA 61.046 55.000 0.00 0.00 40.77 4.02
95 96 0.319641 GACCGTCACCAACTGAGGTC 60.320 60.000 0.00 0.00 40.77 3.85
96 97 0.759436 AGACCGTCACCAACTGAGGT 60.759 55.000 0.40 0.00 44.48 3.85
97 98 0.319900 CAGACCGTCACCAACTGAGG 60.320 60.000 0.40 0.00 34.96 3.86
98 99 0.946221 GCAGACCGTCACCAACTGAG 60.946 60.000 0.40 0.00 0.00 3.35
99 100 1.069090 GCAGACCGTCACCAACTGA 59.931 57.895 0.40 0.00 0.00 3.41
100 101 1.069765 AGCAGACCGTCACCAACTG 59.930 57.895 0.40 0.00 0.00 3.16
101 102 1.069765 CAGCAGACCGTCACCAACT 59.930 57.895 0.40 0.00 0.00 3.16
102 103 1.961277 CCAGCAGACCGTCACCAAC 60.961 63.158 0.40 0.00 0.00 3.77
103 104 1.480212 ATCCAGCAGACCGTCACCAA 61.480 55.000 0.40 0.00 0.00 3.67
104 105 1.888436 GATCCAGCAGACCGTCACCA 61.888 60.000 0.40 0.00 0.00 4.17
105 106 1.153549 GATCCAGCAGACCGTCACC 60.154 63.158 0.40 0.00 0.00 4.02
106 107 0.737715 GTGATCCAGCAGACCGTCAC 60.738 60.000 0.40 0.00 0.00 3.67
107 108 0.900182 AGTGATCCAGCAGACCGTCA 60.900 55.000 0.40 0.00 0.00 4.35
108 109 0.247736 AAGTGATCCAGCAGACCGTC 59.752 55.000 0.00 0.00 0.00 4.79
109 110 0.687354 AAAGTGATCCAGCAGACCGT 59.313 50.000 0.00 0.00 0.00 4.83
110 111 1.081892 CAAAGTGATCCAGCAGACCG 58.918 55.000 0.00 0.00 0.00 4.79
111 112 1.457346 CCAAAGTGATCCAGCAGACC 58.543 55.000 0.00 0.00 0.00 3.85
112 113 1.457346 CCCAAAGTGATCCAGCAGAC 58.543 55.000 0.00 0.00 0.00 3.51
113 114 0.329261 CCCCAAAGTGATCCAGCAGA 59.671 55.000 0.00 0.00 0.00 4.26
114 115 1.318158 GCCCCAAAGTGATCCAGCAG 61.318 60.000 0.00 0.00 0.00 4.24
115 116 1.304381 GCCCCAAAGTGATCCAGCA 60.304 57.895 0.00 0.00 0.00 4.41
116 117 1.000396 AGCCCCAAAGTGATCCAGC 60.000 57.895 0.00 0.00 0.00 4.85
117 118 0.038744 ACAGCCCCAAAGTGATCCAG 59.961 55.000 0.00 0.00 0.00 3.86
118 119 0.482446 AACAGCCCCAAAGTGATCCA 59.518 50.000 0.00 0.00 0.00 3.41
119 120 1.273327 CAAACAGCCCCAAAGTGATCC 59.727 52.381 0.00 0.00 0.00 3.36
120 121 1.273327 CCAAACAGCCCCAAAGTGATC 59.727 52.381 0.00 0.00 0.00 2.92
121 122 1.341080 CCAAACAGCCCCAAAGTGAT 58.659 50.000 0.00 0.00 0.00 3.06
122 123 0.032615 ACCAAACAGCCCCAAAGTGA 60.033 50.000 0.00 0.00 0.00 3.41
123 124 0.829990 AACCAAACAGCCCCAAAGTG 59.170 50.000 0.00 0.00 0.00 3.16
124 125 0.829990 CAACCAAACAGCCCCAAAGT 59.170 50.000 0.00 0.00 0.00 2.66
125 126 0.106521 CCAACCAAACAGCCCCAAAG 59.893 55.000 0.00 0.00 0.00 2.77
126 127 0.325671 TCCAACCAAACAGCCCCAAA 60.326 50.000 0.00 0.00 0.00 3.28
127 128 0.758685 CTCCAACCAAACAGCCCCAA 60.759 55.000 0.00 0.00 0.00 4.12
128 129 1.152567 CTCCAACCAAACAGCCCCA 60.153 57.895 0.00 0.00 0.00 4.96
129 130 1.152830 TCTCCAACCAAACAGCCCC 59.847 57.895 0.00 0.00 0.00 5.80
130 131 0.178990 AGTCTCCAACCAAACAGCCC 60.179 55.000 0.00 0.00 0.00 5.19
131 132 1.239347 GAGTCTCCAACCAAACAGCC 58.761 55.000 0.00 0.00 0.00 4.85
132 133 1.876156 CTGAGTCTCCAACCAAACAGC 59.124 52.381 0.00 0.00 0.00 4.40
133 134 2.498167 CCTGAGTCTCCAACCAAACAG 58.502 52.381 0.00 0.00 0.00 3.16
134 135 1.142870 CCCTGAGTCTCCAACCAAACA 59.857 52.381 0.00 0.00 0.00 2.83
135 136 1.545651 CCCCTGAGTCTCCAACCAAAC 60.546 57.143 0.00 0.00 0.00 2.93
136 137 0.771127 CCCCTGAGTCTCCAACCAAA 59.229 55.000 0.00 0.00 0.00 3.28
137 138 1.779061 GCCCCTGAGTCTCCAACCAA 61.779 60.000 0.00 0.00 0.00 3.67
138 139 2.224159 GCCCCTGAGTCTCCAACCA 61.224 63.158 0.00 0.00 0.00 3.67
139 140 1.920835 AGCCCCTGAGTCTCCAACC 60.921 63.158 0.00 0.00 0.00 3.77
140 141 1.298014 CAGCCCCTGAGTCTCCAAC 59.702 63.158 0.00 0.00 32.44 3.77
141 142 0.768221 AACAGCCCCTGAGTCTCCAA 60.768 55.000 0.00 0.00 35.18 3.53
142 143 0.768221 AAACAGCCCCTGAGTCTCCA 60.768 55.000 0.00 0.00 35.18 3.86
143 144 0.322008 CAAACAGCCCCTGAGTCTCC 60.322 60.000 0.00 0.00 35.18 3.71
144 145 0.322008 CCAAACAGCCCCTGAGTCTC 60.322 60.000 0.00 0.00 35.18 3.36
150 151 1.380380 GGGATCCAAACAGCCCCTG 60.380 63.158 15.23 0.00 37.52 4.45
170 171 1.622607 TAGGCGTGGCATGCTTAGGT 61.623 55.000 28.98 12.58 0.00 3.08
178 179 1.221840 CTCACCTTAGGCGTGGCAT 59.778 57.895 0.00 0.00 0.00 4.40
334 335 2.031870 GGGACTTTTGTGGCTCAGTTT 58.968 47.619 0.00 0.00 0.00 2.66
350 351 1.664151 CTTTTATCAGTTCGCGGGGAC 59.336 52.381 6.13 1.88 0.00 4.46
374 375 1.874345 GAGGACGAACAGGGAAGCGA 61.874 60.000 0.00 0.00 0.00 4.93
527 529 1.690893 GTGGAGGAGATAGATGCTGCA 59.309 52.381 4.13 4.13 36.66 4.41
1177 1190 1.880027 GTTCAGGCGTGACATCCTTTT 59.120 47.619 8.96 0.00 30.10 2.27
1319 1334 0.823356 GGCAACTTGCTCCTCCACAA 60.823 55.000 13.43 0.00 44.28 3.33
1864 1894 5.360714 AGAAAGTTTCAGTTTGAAGCCATGA 59.639 36.000 17.65 0.00 38.18 3.07


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

AutoCloner maintained by Alex Coulton.