Multiple sequence alignment - TraesCS1A01G252800

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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 TraesCS1A01G252800 chr1A 100.000 3210 0 0 1 3210 444169216 444166007 0.000000e+00 5928
1 TraesCS1A01G252800 chr3B 97.167 3071 70 7 142 3210 452563152 452560097 0.000000e+00 5173
2 TraesCS1A01G252800 chr3B 97.098 3067 77 6 142 3207 73031281 73034336 0.000000e+00 5160
3 TraesCS1A01G252800 chr4A 96.778 3073 95 4 140 3210 36004232 36001162 0.000000e+00 5123
4 TraesCS1A01G252800 chr2B 96.742 3069 86 6 142 3207 553880197 553883254 0.000000e+00 5101
5 TraesCS1A01G252800 chr4B 96.446 3067 95 7 142 3207 629907329 629910382 0.000000e+00 5048
6 TraesCS1A01G252800 chr4B 96.158 3071 87 8 142 3207 665900183 665903227 0.000000e+00 4988
7 TraesCS1A01G252800 chr5A 95.677 2082 65 3 1129 3210 262471612 262469556 0.000000e+00 3323
8 TraesCS1A01G252800 chr5A 96.091 1970 52 4 142 2111 705867911 705869855 0.000000e+00 3188
9 TraesCS1A01G252800 chr5A 96.642 1102 36 1 2107 3207 705883335 705884436 0.000000e+00 1829
10 TraesCS1A01G252800 chr5A 92.541 724 28 3 142 840 310728835 310728113 0.000000e+00 1014
11 TraesCS1A01G252800 chr2A 95.419 2074 70 3 1129 3202 694743563 694741515 0.000000e+00 3280
12 TraesCS1A01G252800 chr2A 98.233 283 5 0 849 1131 694743887 694743605 2.220000e-136 496
13 TraesCS1A01G252800 chr1D 94.681 1692 62 4 1520 3210 97786081 97784417 0.000000e+00 2601
14 TraesCS1A01G252800 chr5D 93.850 1691 57 15 1520 3210 309068879 309067236 0.000000e+00 2503
15 TraesCS1A01G252800 chr7A 94.571 700 35 3 142 840 699627689 699626992 0.000000e+00 1079
16 TraesCS1A01G252800 chr7A 98.246 285 5 0 847 1131 709138064 709137780 1.720000e-137 499


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 TraesCS1A01G252800 chr1A 444166007 444169216 3209 True 5928 5928 100.000 1 3210 1 chr1A.!!$R1 3209
1 TraesCS1A01G252800 chr3B 452560097 452563152 3055 True 5173 5173 97.167 142 3210 1 chr3B.!!$R1 3068
2 TraesCS1A01G252800 chr3B 73031281 73034336 3055 False 5160 5160 97.098 142 3207 1 chr3B.!!$F1 3065
3 TraesCS1A01G252800 chr4A 36001162 36004232 3070 True 5123 5123 96.778 140 3210 1 chr4A.!!$R1 3070
4 TraesCS1A01G252800 chr2B 553880197 553883254 3057 False 5101 5101 96.742 142 3207 1 chr2B.!!$F1 3065
5 TraesCS1A01G252800 chr4B 629907329 629910382 3053 False 5048 5048 96.446 142 3207 1 chr4B.!!$F1 3065
6 TraesCS1A01G252800 chr4B 665900183 665903227 3044 False 4988 4988 96.158 142 3207 1 chr4B.!!$F2 3065
7 TraesCS1A01G252800 chr5A 262469556 262471612 2056 True 3323 3323 95.677 1129 3210 1 chr5A.!!$R1 2081
8 TraesCS1A01G252800 chr5A 705867911 705869855 1944 False 3188 3188 96.091 142 2111 1 chr5A.!!$F1 1969
9 TraesCS1A01G252800 chr5A 705883335 705884436 1101 False 1829 1829 96.642 2107 3207 1 chr5A.!!$F2 1100
10 TraesCS1A01G252800 chr5A 310728113 310728835 722 True 1014 1014 92.541 142 840 1 chr5A.!!$R2 698
11 TraesCS1A01G252800 chr2A 694741515 694743887 2372 True 1888 3280 96.826 849 3202 2 chr2A.!!$R1 2353
12 TraesCS1A01G252800 chr1D 97784417 97786081 1664 True 2601 2601 94.681 1520 3210 1 chr1D.!!$R1 1690
13 TraesCS1A01G252800 chr5D 309067236 309068879 1643 True 2503 2503 93.850 1520 3210 1 chr5D.!!$R1 1690
14 TraesCS1A01G252800 chr7A 699626992 699627689 697 True 1079 1079 94.571 142 840 1 chr7A.!!$R1 698

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
51 52 0.108567 AAACACAAACACAACGGCCC 60.109 50.0 0.0 0.00 0.00 5.80 F
72 73 0.389817 CCGCAATCTCACGTGGAAGA 60.390 55.0 17.0 12.64 34.58 2.87 F
85 86 0.602638 TGGAAGACACATGCCGACAC 60.603 55.0 0.0 0.00 0.00 3.67 F
1710 1786 0.948623 TCTTGTCGCCACCATGTTCG 60.949 55.0 0.0 0.00 0.00 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1710 1786 1.210155 GTCCAATTCGTGCCTGCAC 59.790 57.895 12.18 12.18 43.01 4.57 R
1930 2006 3.808834 AACTTTTCAGGGGAAGGGTAG 57.191 47.619 0.00 0.00 33.82 3.18 R
2088 2165 3.190391 ACCCAACCCCAAGGACCC 61.190 66.667 0.00 0.00 36.73 4.46 R
2584 2663 0.907486 CCTGGAGTGAAGGCATCAGA 59.093 55.000 0.00 0.00 39.19 3.27 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
17 18 3.059982 CAGACCAGCCCGAGACAA 58.940 61.111 0.00 0.00 0.00 3.18
18 19 1.371183 CAGACCAGCCCGAGACAAA 59.629 57.895 0.00 0.00 0.00 2.83
19 20 0.951040 CAGACCAGCCCGAGACAAAC 60.951 60.000 0.00 0.00 0.00 2.93
20 21 1.070786 GACCAGCCCGAGACAAACA 59.929 57.895 0.00 0.00 0.00 2.83
21 22 0.951040 GACCAGCCCGAGACAAACAG 60.951 60.000 0.00 0.00 0.00 3.16
22 23 1.371183 CCAGCCCGAGACAAACAGA 59.629 57.895 0.00 0.00 0.00 3.41
23 24 0.250295 CCAGCCCGAGACAAACAGAA 60.250 55.000 0.00 0.00 0.00 3.02
24 25 1.593196 CAGCCCGAGACAAACAGAAA 58.407 50.000 0.00 0.00 0.00 2.52
25 26 1.946768 CAGCCCGAGACAAACAGAAAA 59.053 47.619 0.00 0.00 0.00 2.29
26 27 2.357637 CAGCCCGAGACAAACAGAAAAA 59.642 45.455 0.00 0.00 0.00 1.94
50 51 1.715993 AAAACACAAACACAACGGCC 58.284 45.000 0.00 0.00 0.00 6.13
51 52 0.108567 AAACACAAACACAACGGCCC 60.109 50.000 0.00 0.00 0.00 5.80
52 53 2.025441 CACAAACACAACGGCCCG 59.975 61.111 0.00 0.00 0.00 6.13
53 54 3.894947 ACAAACACAACGGCCCGC 61.895 61.111 1.23 0.00 0.00 6.13
54 55 4.639171 CAAACACAACGGCCCGCC 62.639 66.667 1.23 0.00 0.00 6.13
67 68 3.853330 CCGCCGCAATCTCACGTG 61.853 66.667 9.94 9.94 0.00 4.49
68 69 3.853330 CGCCGCAATCTCACGTGG 61.853 66.667 17.00 6.71 35.82 4.94
69 70 2.434185 GCCGCAATCTCACGTGGA 60.434 61.111 17.00 12.31 34.58 4.02
70 71 2.032634 GCCGCAATCTCACGTGGAA 61.033 57.895 17.00 4.33 34.58 3.53
71 72 1.970917 GCCGCAATCTCACGTGGAAG 61.971 60.000 17.00 6.83 34.58 3.46
72 73 0.389817 CCGCAATCTCACGTGGAAGA 60.390 55.000 17.00 12.64 34.58 2.87
73 74 0.716108 CGCAATCTCACGTGGAAGAC 59.284 55.000 17.00 0.00 0.00 3.01
74 75 1.795768 GCAATCTCACGTGGAAGACA 58.204 50.000 17.00 0.00 0.00 3.41
75 76 1.461127 GCAATCTCACGTGGAAGACAC 59.539 52.381 17.00 1.91 46.78 3.67
83 84 4.693532 TGGAAGACACATGCCGAC 57.306 55.556 0.00 0.00 0.00 4.79
84 85 1.751563 TGGAAGACACATGCCGACA 59.248 52.632 0.00 0.00 0.00 4.35
85 86 0.602638 TGGAAGACACATGCCGACAC 60.603 55.000 0.00 0.00 0.00 3.67
86 87 1.626654 GGAAGACACATGCCGACACG 61.627 60.000 0.00 0.00 0.00 4.49
87 88 2.227968 GAAGACACATGCCGACACGC 62.228 60.000 0.00 0.00 0.00 5.34
88 89 2.987282 AAGACACATGCCGACACGCA 62.987 55.000 0.00 0.00 44.35 5.24
89 90 3.295228 GACACATGCCGACACGCAC 62.295 63.158 0.00 0.00 42.70 5.34
90 91 4.428922 CACATGCCGACACGCACG 62.429 66.667 0.00 0.00 42.70 5.34
91 92 4.961511 ACATGCCGACACGCACGT 62.962 61.111 0.00 0.00 42.70 4.49
92 93 4.134187 CATGCCGACACGCACGTC 62.134 66.667 0.00 0.00 42.70 4.34
93 94 4.656117 ATGCCGACACGCACGTCA 62.656 61.111 0.00 0.00 42.70 4.35
94 95 4.874977 TGCCGACACGCACGTCAA 62.875 61.111 0.00 0.00 35.54 3.18
95 96 4.349871 GCCGACACGCACGTCAAC 62.350 66.667 0.00 0.00 35.54 3.18
96 97 4.042060 CCGACACGCACGTCAACG 62.042 66.667 0.12 0.12 46.33 4.10
97 98 4.679690 CGACACGCACGTCAACGC 62.680 66.667 1.81 0.00 44.43 4.84
120 121 4.824166 GTACGAGCGCGCGAGGAA 62.824 66.667 38.99 18.15 42.48 3.36
121 122 4.824166 TACGAGCGCGCGAGGAAC 62.824 66.667 38.99 15.96 42.48 3.62
127 128 3.607987 CGCGCGAGGAACGATCAC 61.608 66.667 28.94 0.00 45.77 3.06
128 129 3.255379 GCGCGAGGAACGATCACC 61.255 66.667 12.10 0.00 45.77 4.02
129 130 2.490217 CGCGAGGAACGATCACCT 59.510 61.111 0.00 3.26 45.77 4.00
130 131 1.153823 CGCGAGGAACGATCACCTT 60.154 57.895 0.00 0.00 45.77 3.50
131 132 1.413767 CGCGAGGAACGATCACCTTG 61.414 60.000 0.00 11.35 45.77 3.61
132 133 2.373938 CGAGGAACGATCACCTTGC 58.626 57.895 0.00 0.00 45.77 4.01
133 134 1.413767 CGAGGAACGATCACCTTGCG 61.414 60.000 0.00 0.00 45.77 4.85
134 135 1.696832 GAGGAACGATCACCTTGCGC 61.697 60.000 0.00 0.00 36.57 6.09
135 136 2.395690 GAACGATCACCTTGCGCG 59.604 61.111 0.00 0.00 0.00 6.86
136 137 2.048597 AACGATCACCTTGCGCGA 60.049 55.556 12.10 0.00 0.00 5.87
137 138 2.014093 GAACGATCACCTTGCGCGAG 62.014 60.000 18.28 18.28 0.00 5.03
138 139 2.507102 CGATCACCTTGCGCGAGT 60.507 61.111 22.94 7.45 0.00 4.18
162 163 7.891183 AGTTTTCTCTACTCCTAATGTCTCAGA 59.109 37.037 0.00 0.00 0.00 3.27
177 178 1.674441 CTCAGATGGTAGGTCGCGTTA 59.326 52.381 5.77 0.00 0.00 3.18
192 193 3.496130 TCGCGTTACGGGTTTTATTTTCA 59.504 39.130 20.37 0.00 43.89 2.69
376 379 8.428186 AAATCTACGAAAATTAACCAGCGATA 57.572 30.769 0.00 0.00 0.00 2.92
454 459 4.856607 GCCCTCGAGCGAGAACGG 62.857 72.222 20.41 13.93 44.53 4.44
662 691 1.071987 GGATCCATCGCTGCCATCA 59.928 57.895 6.95 0.00 0.00 3.07
799 828 1.143838 CGGCATCGACCTCATCCAA 59.856 57.895 0.00 0.00 39.00 3.53
1388 1464 8.391075 AGCTGAACTTGTTTAGTTTATTGCTA 57.609 30.769 7.05 0.00 47.00 3.49
1643 1719 3.687321 AAGCACGCCATCTCGCCAT 62.687 57.895 0.00 0.00 0.00 4.40
1710 1786 0.948623 TCTTGTCGCCACCATGTTCG 60.949 55.000 0.00 0.00 0.00 3.95
1912 1988 8.758633 TTTAAAAACACGTGGAAAGAATTCAA 57.241 26.923 21.57 0.58 37.29 2.69
2085 2162 8.418662 GTTTTCCCCAATAAATATCTACCAACC 58.581 37.037 0.00 0.00 0.00 3.77
2088 2165 4.153475 CCCAATAAATATCTACCAACCGCG 59.847 45.833 0.00 0.00 0.00 6.46
2183 2260 0.817654 CACCTGCATAGACCGTCTCA 59.182 55.000 3.74 0.00 0.00 3.27
2205 2282 0.528684 GGGAACGAAGAGATGCTCCG 60.529 60.000 0.00 0.00 0.00 4.63
2242 2321 5.937492 ATGATGATCCCCTAATTTGGAGT 57.063 39.130 7.57 0.00 33.27 3.85
2779 2858 6.441222 TCAGGCCCTTAGAAAAGTATCTCTA 58.559 40.000 0.00 0.00 0.00 2.43
2980 3059 3.657956 CAACGTTGCCCATTGTTGT 57.342 47.368 16.51 0.00 37.51 3.32
3008 3087 6.667414 ACTTGTTAATTCATCAGGCCCATTAA 59.333 34.615 0.00 0.00 0.00 1.40
3027 3106 2.802787 ATGCGGCTACATAGTCTGTC 57.197 50.000 0.00 0.00 39.39 3.51
3207 3287 6.691754 TTTGTGTTGAGAAACATCTGCTAA 57.308 33.333 0.00 0.00 34.86 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.951040 GTTTGTCTCGGGCTGGTCTG 60.951 60.000 0.00 0.00 0.00 3.51
1 2 1.371558 GTTTGTCTCGGGCTGGTCT 59.628 57.895 0.00 0.00 0.00 3.85
2 3 0.951040 CTGTTTGTCTCGGGCTGGTC 60.951 60.000 0.00 0.00 0.00 4.02
3 4 1.071471 CTGTTTGTCTCGGGCTGGT 59.929 57.895 0.00 0.00 0.00 4.00
4 5 0.250295 TTCTGTTTGTCTCGGGCTGG 60.250 55.000 0.00 0.00 0.00 4.85
5 6 1.593196 TTTCTGTTTGTCTCGGGCTG 58.407 50.000 0.00 0.00 0.00 4.85
6 7 2.341846 TTTTCTGTTTGTCTCGGGCT 57.658 45.000 0.00 0.00 0.00 5.19
30 31 2.070028 GGCCGTTGTGTTTGTGTTTTT 58.930 42.857 0.00 0.00 0.00 1.94
31 32 1.673329 GGGCCGTTGTGTTTGTGTTTT 60.673 47.619 0.00 0.00 0.00 2.43
32 33 0.108567 GGGCCGTTGTGTTTGTGTTT 60.109 50.000 0.00 0.00 0.00 2.83
33 34 1.513622 GGGCCGTTGTGTTTGTGTT 59.486 52.632 0.00 0.00 0.00 3.32
34 35 2.766400 CGGGCCGTTGTGTTTGTGT 61.766 57.895 19.97 0.00 0.00 3.72
35 36 2.025441 CGGGCCGTTGTGTTTGTG 59.975 61.111 19.97 0.00 0.00 3.33
36 37 3.894947 GCGGGCCGTTGTGTTTGT 61.895 61.111 28.82 0.00 0.00 2.83
37 38 4.639171 GGCGGGCCGTTGTGTTTG 62.639 66.667 28.82 0.00 0.00 2.93
50 51 3.853330 CACGTGAGATTGCGGCGG 61.853 66.667 10.90 0.00 0.00 6.13
51 52 3.853330 CCACGTGAGATTGCGGCG 61.853 66.667 19.30 0.51 0.00 6.46
52 53 1.970917 CTTCCACGTGAGATTGCGGC 61.971 60.000 19.30 0.00 0.00 6.53
53 54 0.389817 TCTTCCACGTGAGATTGCGG 60.390 55.000 19.30 0.00 0.00 5.69
54 55 0.716108 GTCTTCCACGTGAGATTGCG 59.284 55.000 19.30 0.00 0.00 4.85
55 56 1.461127 GTGTCTTCCACGTGAGATTGC 59.539 52.381 19.30 1.93 33.61 3.56
65 66 0.602638 TGTCGGCATGTGTCTTCCAC 60.603 55.000 0.00 0.00 44.78 4.02
66 67 0.602638 GTGTCGGCATGTGTCTTCCA 60.603 55.000 0.00 0.00 0.00 3.53
67 68 1.626654 CGTGTCGGCATGTGTCTTCC 61.627 60.000 0.00 0.00 0.00 3.46
68 69 1.781555 CGTGTCGGCATGTGTCTTC 59.218 57.895 0.00 0.00 0.00 2.87
69 70 2.317609 GCGTGTCGGCATGTGTCTT 61.318 57.895 11.48 0.00 34.24 3.01
70 71 2.738521 GCGTGTCGGCATGTGTCT 60.739 61.111 11.48 0.00 34.24 3.41
71 72 3.041351 TGCGTGTCGGCATGTGTC 61.041 61.111 11.48 0.00 38.17 3.67
72 73 3.345808 GTGCGTGTCGGCATGTGT 61.346 61.111 11.48 0.00 45.99 3.72
73 74 4.428922 CGTGCGTGTCGGCATGTG 62.429 66.667 11.48 0.00 45.99 3.21
76 77 4.656117 TGACGTGCGTGTCGGCAT 62.656 61.111 0.67 0.00 45.99 4.40
77 78 4.874977 TTGACGTGCGTGTCGGCA 62.875 61.111 0.67 0.00 44.80 5.69
78 79 4.349871 GTTGACGTGCGTGTCGGC 62.350 66.667 0.67 0.00 41.87 5.54
79 80 4.042060 CGTTGACGTGCGTGTCGG 62.042 66.667 0.67 0.00 41.87 4.79
80 81 4.679690 GCGTTGACGTGCGTGTCG 62.680 66.667 0.67 5.36 41.87 4.35
103 104 4.824166 TTCCTCGCGCGCTCGTAC 62.824 66.667 30.48 0.00 38.14 3.67
104 105 4.824166 GTTCCTCGCGCGCTCGTA 62.824 66.667 30.48 6.41 38.14 3.43
110 111 3.607987 GTGATCGTTCCTCGCGCG 61.608 66.667 26.76 26.76 39.67 6.86
111 112 3.255379 GGTGATCGTTCCTCGCGC 61.255 66.667 0.00 0.00 39.67 6.86
112 113 1.153823 AAGGTGATCGTTCCTCGCG 60.154 57.895 0.00 0.00 39.67 5.87
113 114 1.696832 GCAAGGTGATCGTTCCTCGC 61.697 60.000 4.74 2.34 39.67 5.03
114 115 1.413767 CGCAAGGTGATCGTTCCTCG 61.414 60.000 4.74 2.57 41.41 4.63
115 116 1.696832 GCGCAAGGTGATCGTTCCTC 61.697 60.000 0.30 0.00 33.09 3.71
116 117 1.741770 GCGCAAGGTGATCGTTCCT 60.742 57.895 0.30 0.00 35.34 3.36
117 118 2.785258 GCGCAAGGTGATCGTTCC 59.215 61.111 0.30 0.00 38.28 3.62
118 119 2.014093 CTCGCGCAAGGTGATCGTTC 62.014 60.000 8.75 0.00 33.99 3.95
119 120 2.048597 TCGCGCAAGGTGATCGTT 60.049 55.556 8.75 0.00 38.28 3.85
120 121 2.507102 CTCGCGCAAGGTGATCGT 60.507 61.111 8.75 0.00 33.99 3.73
121 122 1.626654 AAACTCGCGCAAGGTGATCG 61.627 55.000 8.75 0.00 33.99 3.69
122 123 0.517316 AAAACTCGCGCAAGGTGATC 59.483 50.000 8.75 0.00 33.99 2.92
123 124 0.517316 GAAAACTCGCGCAAGGTGAT 59.483 50.000 8.75 0.00 33.99 3.06
124 125 0.531974 AGAAAACTCGCGCAAGGTGA 60.532 50.000 8.75 0.00 38.28 4.02
125 126 0.110644 GAGAAAACTCGCGCAAGGTG 60.111 55.000 8.75 0.00 38.28 4.00
126 127 0.249911 AGAGAAAACTCGCGCAAGGT 60.250 50.000 8.75 0.00 38.28 3.50
127 128 1.390463 GTAGAGAAAACTCGCGCAAGG 59.610 52.381 8.75 0.00 38.28 3.61
128 129 2.329379 AGTAGAGAAAACTCGCGCAAG 58.671 47.619 8.75 0.00 43.44 4.01
129 130 2.325761 GAGTAGAGAAAACTCGCGCAA 58.674 47.619 8.75 0.00 34.50 4.85
130 131 1.402456 GGAGTAGAGAAAACTCGCGCA 60.402 52.381 8.75 0.00 43.55 6.09
131 132 1.135344 AGGAGTAGAGAAAACTCGCGC 60.135 52.381 0.00 0.00 43.55 6.86
132 133 2.923605 AGGAGTAGAGAAAACTCGCG 57.076 50.000 0.00 0.00 43.55 5.87
133 134 5.652518 ACATTAGGAGTAGAGAAAACTCGC 58.347 41.667 0.00 0.00 43.55 5.03
134 135 7.090953 AGACATTAGGAGTAGAGAAAACTCG 57.909 40.000 0.00 0.00 43.55 4.18
135 136 8.057536 TGAGACATTAGGAGTAGAGAAAACTC 57.942 38.462 0.00 0.00 42.19 3.01
136 137 7.891183 TCTGAGACATTAGGAGTAGAGAAAACT 59.109 37.037 0.00 0.00 0.00 2.66
137 138 8.057536 TCTGAGACATTAGGAGTAGAGAAAAC 57.942 38.462 0.00 0.00 0.00 2.43
138 139 8.690884 CATCTGAGACATTAGGAGTAGAGAAAA 58.309 37.037 0.00 0.00 0.00 2.29
162 163 1.434696 CCGTAACGCGACCTACCAT 59.565 57.895 15.93 0.00 44.77 3.55
177 178 3.512329 GGTGGGATGAAAATAAAACCCGT 59.488 43.478 0.00 0.00 40.08 5.28
192 193 0.253020 AAGACCGGGTAAGGTGGGAT 60.253 55.000 6.32 0.00 46.09 3.85
328 329 4.717629 CGTCGCTTGTCTCGGGCA 62.718 66.667 0.00 0.00 0.00 5.36
421 426 2.504026 GCATGTGACGTCGCTCGA 60.504 61.111 27.76 10.25 42.86 4.04
454 459 2.278271 GGAGTCTAGCGTGCGAGC 60.278 66.667 0.00 0.00 37.41 5.03
799 828 3.379445 CCGACCAGGTAGGCGTGT 61.379 66.667 5.69 0.00 43.14 4.49
935 964 2.125512 GGCATCAACCTCTCGCGT 60.126 61.111 5.77 0.00 0.00 6.01
1643 1719 5.505489 GCACAAGAACACACAACATACATGA 60.505 40.000 0.00 0.00 0.00 3.07
1710 1786 1.210155 GTCCAATTCGTGCCTGCAC 59.790 57.895 12.18 12.18 43.01 4.57
1930 2006 3.808834 AACTTTTCAGGGGAAGGGTAG 57.191 47.619 0.00 0.00 33.82 3.18
2088 2165 3.190391 ACCCAACCCCAAGGACCC 61.190 66.667 0.00 0.00 36.73 4.46
2183 2260 1.205893 GAGCATCTCTTCGTTCCCAGT 59.794 52.381 0.00 0.00 0.00 4.00
2216 2293 6.077322 TCCAAATTAGGGGATCATCATTTCC 58.923 40.000 0.00 0.00 0.00 3.13
2226 2305 6.652205 TTCTACAACTCCAAATTAGGGGAT 57.348 37.500 0.00 0.00 31.83 3.85
2233 2312 5.770162 CACCTCCTTTCTACAACTCCAAATT 59.230 40.000 0.00 0.00 0.00 1.82
2242 2321 2.173782 TGCAACCACCTCCTTTCTACAA 59.826 45.455 0.00 0.00 0.00 2.41
2584 2663 0.907486 CCTGGAGTGAAGGCATCAGA 59.093 55.000 0.00 0.00 39.19 3.27
2930 3009 3.053544 AGGAAGGGAACTATGAGTCGAGA 60.054 47.826 0.00 0.00 42.68 4.04
2980 3059 6.013379 TGGGCCTGATGAATTAACAAGTTAA 58.987 36.000 4.53 7.75 39.12 2.01
3008 3087 1.341531 GGACAGACTATGTAGCCGCAT 59.658 52.381 0.00 0.00 44.17 4.73
3027 3106 2.295885 CTAAGAAGGCAGGCAAGATGG 58.704 52.381 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.