Multiple sequence alignment - TraesCS4A01G130900

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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 TraesCS4A01G130900 chr4A 100.000 2681 0 0 1 2681 173933627 173936307 0.000000e+00 4951
1 TraesCS4A01G130900 chr4A 99.009 2522 24 1 161 2681 534571473 534568952 0.000000e+00 4518
2 TraesCS4A01G130900 chr6B 99.129 2525 16 4 161 2681 52648722 52651244 0.000000e+00 4536
3 TraesCS4A01G130900 chr3A 99.128 2522 21 1 161 2681 530483549 530486070 0.000000e+00 4534
4 TraesCS4A01G130900 chr3A 97.059 1734 46 5 880 2609 740898300 740896568 0.000000e+00 2915
5 TraesCS4A01G130900 chr7A 98.850 2522 27 2 161 2681 112250681 112253201 0.000000e+00 4495
6 TraesCS4A01G130900 chr1B 98.850 2522 27 2 161 2681 87996432 87993912 0.000000e+00 4495
7 TraesCS4A01G130900 chr1B 99.174 2179 17 1 503 2681 384313591 384311414 0.000000e+00 3923
8 TraesCS4A01G130900 chr1B 98.281 349 5 1 161 508 384331024 384330676 6.350000e-171 610
9 TraesCS4A01G130900 chr3B 98.772 2525 29 2 158 2681 13447666 13450189 0.000000e+00 4490
10 TraesCS4A01G130900 chr3B 79.056 678 103 28 161 810 763950502 763949836 1.910000e-116 429
11 TraesCS4A01G130900 chr3B 78.222 675 99 31 161 810 763935529 763934878 3.240000e-104 388
12 TraesCS4A01G130900 chr3B 100.000 112 0 0 2570 2681 107981760 107981649 9.730000e-50 207
13 TraesCS4A01G130900 chr2B 97.171 1732 44 5 882 2609 154847783 154849513 0.000000e+00 2922
14 TraesCS4A01G130900 chr2B 83.571 700 82 18 292 962 17484117 17484812 2.270000e-175 625
15 TraesCS4A01G130900 chr2B 100.000 112 0 0 2570 2681 16020480 16020369 9.730000e-50 207
16 TraesCS4A01G130900 chr2A 89.459 351 34 3 161 509 41620338 41619989 8.810000e-120 440
17 TraesCS4A01G130900 chr5A 85.472 413 45 9 159 565 480130560 480130963 1.480000e-112 416
18 TraesCS4A01G130900 chr5A 80.795 151 10 6 826 976 35062984 35063115 1.700000e-17 100


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 TraesCS4A01G130900 chr4A 173933627 173936307 2680 False 4951 4951 100.000 1 2681 1 chr4A.!!$F1 2680
1 TraesCS4A01G130900 chr4A 534568952 534571473 2521 True 4518 4518 99.009 161 2681 1 chr4A.!!$R1 2520
2 TraesCS4A01G130900 chr6B 52648722 52651244 2522 False 4536 4536 99.129 161 2681 1 chr6B.!!$F1 2520
3 TraesCS4A01G130900 chr3A 530483549 530486070 2521 False 4534 4534 99.128 161 2681 1 chr3A.!!$F1 2520
4 TraesCS4A01G130900 chr3A 740896568 740898300 1732 True 2915 2915 97.059 880 2609 1 chr3A.!!$R1 1729
5 TraesCS4A01G130900 chr7A 112250681 112253201 2520 False 4495 4495 98.850 161 2681 1 chr7A.!!$F1 2520
6 TraesCS4A01G130900 chr1B 87993912 87996432 2520 True 4495 4495 98.850 161 2681 1 chr1B.!!$R1 2520
7 TraesCS4A01G130900 chr1B 384311414 384313591 2177 True 3923 3923 99.174 503 2681 1 chr1B.!!$R2 2178
8 TraesCS4A01G130900 chr3B 13447666 13450189 2523 False 4490 4490 98.772 158 2681 1 chr3B.!!$F1 2523
9 TraesCS4A01G130900 chr3B 763949836 763950502 666 True 429 429 79.056 161 810 1 chr3B.!!$R3 649
10 TraesCS4A01G130900 chr3B 763934878 763935529 651 True 388 388 78.222 161 810 1 chr3B.!!$R2 649
11 TraesCS4A01G130900 chr2B 154847783 154849513 1730 False 2922 2922 97.171 882 2609 1 chr2B.!!$F2 1727
12 TraesCS4A01G130900 chr2B 17484117 17484812 695 False 625 625 83.571 292 962 1 chr2B.!!$F1 670

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
85 86 0.165944 CAACTCCAACGCGAATCACC 59.834 55.0 15.93 0.0 0.0 4.02 F
86 87 0.250124 AACTCCAACGCGAATCACCA 60.250 50.0 15.93 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1055 1083 2.036256 CCACCCCAGGAGGCAAAG 59.964 66.667 0.0 0.0 0.0 2.77 R
2174 2207 4.908601 TTTTTATGGACTGAGGAGAGCA 57.091 40.909 0.0 0.0 0.0 4.26 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
18 19 3.961576 GTACCCGCGAGCTATTTCT 57.038 52.632 8.23 0.0 0.00 2.52
19 20 2.220479 GTACCCGCGAGCTATTTCTT 57.780 50.000 8.23 0.0 0.00 2.52
20 21 2.547826 GTACCCGCGAGCTATTTCTTT 58.452 47.619 8.23 0.0 0.00 2.52
21 22 2.109425 ACCCGCGAGCTATTTCTTTT 57.891 45.000 8.23 0.0 0.00 2.27
22 23 2.007608 ACCCGCGAGCTATTTCTTTTC 58.992 47.619 8.23 0.0 0.00 2.29
23 24 2.006888 CCCGCGAGCTATTTCTTTTCA 58.993 47.619 8.23 0.0 0.00 2.69
24 25 2.223044 CCCGCGAGCTATTTCTTTTCAC 60.223 50.000 8.23 0.0 0.00 3.18
25 26 2.673368 CCGCGAGCTATTTCTTTTCACT 59.327 45.455 8.23 0.0 0.00 3.41
26 27 3.863424 CCGCGAGCTATTTCTTTTCACTA 59.137 43.478 8.23 0.0 0.00 2.74
27 28 4.508124 CCGCGAGCTATTTCTTTTCACTAT 59.492 41.667 8.23 0.0 0.00 2.12
28 29 5.332656 CCGCGAGCTATTTCTTTTCACTATC 60.333 44.000 8.23 0.0 0.00 2.08
29 30 5.608418 CGCGAGCTATTTCTTTTCACTATCG 60.608 44.000 0.00 0.0 0.00 2.92
30 31 5.232414 GCGAGCTATTTCTTTTCACTATCGT 59.768 40.000 0.00 0.0 0.00 3.73
31 32 6.560616 GCGAGCTATTTCTTTTCACTATCGTC 60.561 42.308 0.00 0.0 0.00 4.20
32 33 6.074782 CGAGCTATTTCTTTTCACTATCGTCC 60.075 42.308 0.00 0.0 0.00 4.79
33 34 5.749109 AGCTATTTCTTTTCACTATCGTCCG 59.251 40.000 0.00 0.0 0.00 4.79
34 35 4.859629 ATTTCTTTTCACTATCGTCCGC 57.140 40.909 0.00 0.0 0.00 5.54
35 36 3.306917 TTCTTTTCACTATCGTCCGCA 57.693 42.857 0.00 0.0 0.00 5.69
36 37 3.520290 TCTTTTCACTATCGTCCGCAT 57.480 42.857 0.00 0.0 0.00 4.73
37 38 3.857052 TCTTTTCACTATCGTCCGCATT 58.143 40.909 0.00 0.0 0.00 3.56
38 39 5.001237 TCTTTTCACTATCGTCCGCATTA 57.999 39.130 0.00 0.0 0.00 1.90
39 40 4.802039 TCTTTTCACTATCGTCCGCATTAC 59.198 41.667 0.00 0.0 0.00 1.89
40 41 4.380841 TTTCACTATCGTCCGCATTACT 57.619 40.909 0.00 0.0 0.00 2.24
41 42 5.503662 TTTCACTATCGTCCGCATTACTA 57.496 39.130 0.00 0.0 0.00 1.82
42 43 5.700722 TTCACTATCGTCCGCATTACTAT 57.299 39.130 0.00 0.0 0.00 2.12
43 44 5.700722 TCACTATCGTCCGCATTACTATT 57.299 39.130 0.00 0.0 0.00 1.73
44 45 6.080648 TCACTATCGTCCGCATTACTATTT 57.919 37.500 0.00 0.0 0.00 1.40
45 46 6.509656 TCACTATCGTCCGCATTACTATTTT 58.490 36.000 0.00 0.0 0.00 1.82
46 47 7.650890 TCACTATCGTCCGCATTACTATTTTA 58.349 34.615 0.00 0.0 0.00 1.52
47 48 8.136800 TCACTATCGTCCGCATTACTATTTTAA 58.863 33.333 0.00 0.0 0.00 1.52
48 49 8.425491 CACTATCGTCCGCATTACTATTTTAAG 58.575 37.037 0.00 0.0 0.00 1.85
49 50 8.355169 ACTATCGTCCGCATTACTATTTTAAGA 58.645 33.333 0.00 0.0 0.00 2.10
50 51 6.817270 TCGTCCGCATTACTATTTTAAGAC 57.183 37.500 0.00 0.0 0.00 3.01
51 52 6.567050 TCGTCCGCATTACTATTTTAAGACT 58.433 36.000 0.00 0.0 0.00 3.24
52 53 7.037438 TCGTCCGCATTACTATTTTAAGACTT 58.963 34.615 0.00 0.0 0.00 3.01
53 54 7.546667 TCGTCCGCATTACTATTTTAAGACTTT 59.453 33.333 0.00 0.0 0.00 2.66
54 55 7.844653 CGTCCGCATTACTATTTTAAGACTTTC 59.155 37.037 0.00 0.0 0.00 2.62
55 56 8.121086 GTCCGCATTACTATTTTAAGACTTTCC 58.879 37.037 0.00 0.0 0.00 3.13
56 57 8.044908 TCCGCATTACTATTTTAAGACTTTCCT 58.955 33.333 0.00 0.0 0.00 3.36
57 58 8.674607 CCGCATTACTATTTTAAGACTTTCCTT 58.325 33.333 0.00 0.0 0.00 3.36
80 81 3.018973 GTGCAACTCCAACGCGAA 58.981 55.556 15.93 0.0 0.00 4.70
81 82 1.574428 GTGCAACTCCAACGCGAAT 59.426 52.632 15.93 0.0 0.00 3.34
82 83 0.452784 GTGCAACTCCAACGCGAATC 60.453 55.000 15.93 0.0 0.00 2.52
83 84 0.882484 TGCAACTCCAACGCGAATCA 60.882 50.000 15.93 0.0 0.00 2.57
84 85 0.452784 GCAACTCCAACGCGAATCAC 60.453 55.000 15.93 0.0 0.00 3.06
85 86 0.165944 CAACTCCAACGCGAATCACC 59.834 55.000 15.93 0.0 0.00 4.02
86 87 0.250124 AACTCCAACGCGAATCACCA 60.250 50.000 15.93 0.0 0.00 4.17
87 88 0.250124 ACTCCAACGCGAATCACCAA 60.250 50.000 15.93 0.0 0.00 3.67
88 89 0.871722 CTCCAACGCGAATCACCAAA 59.128 50.000 15.93 0.0 0.00 3.28
89 90 1.468520 CTCCAACGCGAATCACCAAAT 59.531 47.619 15.93 0.0 0.00 2.32
90 91 1.466950 TCCAACGCGAATCACCAAATC 59.533 47.619 15.93 0.0 0.00 2.17
91 92 1.198867 CCAACGCGAATCACCAAATCA 59.801 47.619 15.93 0.0 0.00 2.57
92 93 2.159393 CCAACGCGAATCACCAAATCAT 60.159 45.455 15.93 0.0 0.00 2.45
93 94 3.100817 CAACGCGAATCACCAAATCATC 58.899 45.455 15.93 0.0 0.00 2.92
94 95 2.632377 ACGCGAATCACCAAATCATCT 58.368 42.857 15.93 0.0 0.00 2.90
95 96 2.352651 ACGCGAATCACCAAATCATCTG 59.647 45.455 15.93 0.0 0.00 2.90
96 97 2.609002 CGCGAATCACCAAATCATCTGA 59.391 45.455 0.00 0.0 0.00 3.27
97 98 3.063861 CGCGAATCACCAAATCATCTGAA 59.936 43.478 0.00 0.0 0.00 3.02
98 99 4.437255 CGCGAATCACCAAATCATCTGAAA 60.437 41.667 0.00 0.0 0.00 2.69
99 100 5.585390 GCGAATCACCAAATCATCTGAAAT 58.415 37.500 0.00 0.0 0.00 2.17
100 101 5.457799 GCGAATCACCAAATCATCTGAAATG 59.542 40.000 0.00 0.0 0.00 2.32
101 102 6.558009 CGAATCACCAAATCATCTGAAATGT 58.442 36.000 0.00 0.0 0.00 2.71
102 103 7.031372 CGAATCACCAAATCATCTGAAATGTT 58.969 34.615 0.00 0.0 0.00 2.71
103 104 7.543172 CGAATCACCAAATCATCTGAAATGTTT 59.457 33.333 0.00 0.0 0.00 2.83
104 105 9.859427 GAATCACCAAATCATCTGAAATGTTTA 57.141 29.630 0.00 0.0 0.00 2.01
105 106 9.865321 AATCACCAAATCATCTGAAATGTTTAG 57.135 29.630 0.00 0.0 0.00 1.85
106 107 8.634335 TCACCAAATCATCTGAAATGTTTAGA 57.366 30.769 0.00 0.0 0.00 2.10
107 108 9.076781 TCACCAAATCATCTGAAATGTTTAGAA 57.923 29.630 0.00 0.0 0.00 2.10
108 109 9.865321 CACCAAATCATCTGAAATGTTTAGAAT 57.135 29.630 0.00 0.0 0.00 2.40
131 132 8.996024 AATTATTTTACTTTTCCCATCCAACG 57.004 30.769 0.00 0.0 0.00 4.10
132 133 7.762588 TTATTTTACTTTTCCCATCCAACGA 57.237 32.000 0.00 0.0 0.00 3.85
133 134 5.441709 TTTTACTTTTCCCATCCAACGAC 57.558 39.130 0.00 0.0 0.00 4.34
134 135 2.649531 ACTTTTCCCATCCAACGACA 57.350 45.000 0.00 0.0 0.00 4.35
135 136 3.154827 ACTTTTCCCATCCAACGACAT 57.845 42.857 0.00 0.0 0.00 3.06
136 137 3.496331 ACTTTTCCCATCCAACGACATT 58.504 40.909 0.00 0.0 0.00 2.71
137 138 3.506067 ACTTTTCCCATCCAACGACATTC 59.494 43.478 0.00 0.0 0.00 2.67
138 139 2.869101 TTCCCATCCAACGACATTCA 57.131 45.000 0.00 0.0 0.00 2.57
139 140 3.364460 TTCCCATCCAACGACATTCAT 57.636 42.857 0.00 0.0 0.00 2.57
140 141 4.495690 TTCCCATCCAACGACATTCATA 57.504 40.909 0.00 0.0 0.00 2.15
141 142 4.495690 TCCCATCCAACGACATTCATAA 57.504 40.909 0.00 0.0 0.00 1.90
142 143 4.849518 TCCCATCCAACGACATTCATAAA 58.150 39.130 0.00 0.0 0.00 1.40
143 144 5.257262 TCCCATCCAACGACATTCATAAAA 58.743 37.500 0.00 0.0 0.00 1.52
144 145 5.356751 TCCCATCCAACGACATTCATAAAAG 59.643 40.000 0.00 0.0 0.00 2.27
145 146 5.036737 CCATCCAACGACATTCATAAAAGC 58.963 41.667 0.00 0.0 0.00 3.51
146 147 4.335082 TCCAACGACATTCATAAAAGCG 57.665 40.909 0.00 0.0 0.00 4.68
147 148 3.997681 TCCAACGACATTCATAAAAGCGA 59.002 39.130 0.00 0.0 0.00 4.93
148 149 4.452795 TCCAACGACATTCATAAAAGCGAA 59.547 37.500 0.00 0.0 0.00 4.70
149 150 4.553429 CCAACGACATTCATAAAAGCGAAC 59.447 41.667 0.00 0.0 0.00 3.95
150 151 5.382303 CAACGACATTCATAAAAGCGAACT 58.618 37.500 0.00 0.0 0.00 3.01
151 152 6.401688 CCAACGACATTCATAAAAGCGAACTA 60.402 38.462 0.00 0.0 0.00 2.24
152 153 6.715344 ACGACATTCATAAAAGCGAACTAA 57.285 33.333 0.00 0.0 0.00 2.24
153 154 7.303634 ACGACATTCATAAAAGCGAACTAAT 57.696 32.000 0.00 0.0 0.00 1.73
154 155 8.415192 ACGACATTCATAAAAGCGAACTAATA 57.585 30.769 0.00 0.0 0.00 0.98
155 156 9.042008 ACGACATTCATAAAAGCGAACTAATAT 57.958 29.630 0.00 0.0 0.00 1.28
156 157 9.306280 CGACATTCATAAAAGCGAACTAATATG 57.694 33.333 0.00 0.0 0.00 1.78
1025 1053 5.126869 TGAGTTTGCCTTGTTCAGATCAAAA 59.873 36.000 0.00 0.0 31.13 2.44
1055 1083 4.168760 CCGAGGAAAATGAAGAATGCAAC 58.831 43.478 0.00 0.0 0.00 4.17
1950 1983 8.574251 ACAAACTAATAATGCAAGTACATCCA 57.426 30.769 0.00 0.0 0.00 3.41
2463 2496 3.612860 CAGGGTGAAAACTACGATCGAAG 59.387 47.826 24.34 0.0 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.220479 AAGAAATAGCTCGCGGGTAC 57.780 50.000 8.30 0.00 0.00 3.34
2 3 2.007608 GAAAAGAAATAGCTCGCGGGT 58.992 47.619 8.30 6.16 0.00 5.28
3 4 2.006888 TGAAAAGAAATAGCTCGCGGG 58.993 47.619 6.13 2.60 0.00 6.13
5 6 3.999229 AGTGAAAAGAAATAGCTCGCG 57.001 42.857 0.00 0.00 0.00 5.87
6 7 5.661357 CGATAGTGAAAAGAAATAGCTCGC 58.339 41.667 0.00 0.00 0.00 5.03
24 25 8.636843 GTCTTAAAATAGTAATGCGGACGATAG 58.363 37.037 0.00 0.00 46.19 2.08
25 26 8.355169 AGTCTTAAAATAGTAATGCGGACGATA 58.645 33.333 0.00 0.00 0.00 2.92
26 27 7.208080 AGTCTTAAAATAGTAATGCGGACGAT 58.792 34.615 0.00 0.00 0.00 3.73
27 28 6.567050 AGTCTTAAAATAGTAATGCGGACGA 58.433 36.000 0.00 0.00 0.00 4.20
28 29 6.823678 AGTCTTAAAATAGTAATGCGGACG 57.176 37.500 0.00 0.00 0.00 4.79
29 30 8.121086 GGAAAGTCTTAAAATAGTAATGCGGAC 58.879 37.037 0.00 0.00 0.00 4.79
30 31 8.044908 AGGAAAGTCTTAAAATAGTAATGCGGA 58.955 33.333 0.00 0.00 0.00 5.54
31 32 8.209917 AGGAAAGTCTTAAAATAGTAATGCGG 57.790 34.615 0.00 0.00 0.00 5.69
44 45 9.569122 AGTTGCACTTATAAAGGAAAGTCTTAA 57.431 29.630 0.00 0.00 33.72 1.85
45 46 9.216117 GAGTTGCACTTATAAAGGAAAGTCTTA 57.784 33.333 0.00 0.00 33.72 2.10
46 47 7.175119 GGAGTTGCACTTATAAAGGAAAGTCTT 59.825 37.037 9.71 0.00 33.72 3.01
47 48 6.655425 GGAGTTGCACTTATAAAGGAAAGTCT 59.345 38.462 9.71 0.00 33.72 3.24
48 49 6.430000 TGGAGTTGCACTTATAAAGGAAAGTC 59.570 38.462 0.00 4.17 33.72 3.01
49 50 6.303839 TGGAGTTGCACTTATAAAGGAAAGT 58.696 36.000 0.00 0.00 36.38 2.66
50 51 6.817765 TGGAGTTGCACTTATAAAGGAAAG 57.182 37.500 0.00 0.00 0.00 2.62
51 52 6.293735 CGTTGGAGTTGCACTTATAAAGGAAA 60.294 38.462 0.00 0.00 0.00 3.13
52 53 5.180492 CGTTGGAGTTGCACTTATAAAGGAA 59.820 40.000 0.00 0.00 0.00 3.36
53 54 4.693566 CGTTGGAGTTGCACTTATAAAGGA 59.306 41.667 0.00 0.00 0.00 3.36
54 55 4.671766 GCGTTGGAGTTGCACTTATAAAGG 60.672 45.833 0.00 0.00 0.00 3.11
55 56 4.403453 GCGTTGGAGTTGCACTTATAAAG 58.597 43.478 0.00 0.00 0.00 1.85
56 57 3.120477 CGCGTTGGAGTTGCACTTATAAA 60.120 43.478 0.00 0.00 0.00 1.40
57 58 2.413796 CGCGTTGGAGTTGCACTTATAA 59.586 45.455 0.00 0.00 0.00 0.98
58 59 1.996898 CGCGTTGGAGTTGCACTTATA 59.003 47.619 0.00 0.00 0.00 0.98
59 60 0.796312 CGCGTTGGAGTTGCACTTAT 59.204 50.000 0.00 0.00 0.00 1.73
60 61 0.249531 TCGCGTTGGAGTTGCACTTA 60.250 50.000 5.77 0.00 0.00 2.24
61 62 1.092921 TTCGCGTTGGAGTTGCACTT 61.093 50.000 5.77 0.00 0.00 3.16
62 63 0.884704 ATTCGCGTTGGAGTTGCACT 60.885 50.000 5.77 0.00 0.00 4.40
63 64 0.452784 GATTCGCGTTGGAGTTGCAC 60.453 55.000 5.77 0.00 0.00 4.57
64 65 0.882484 TGATTCGCGTTGGAGTTGCA 60.882 50.000 5.77 0.00 0.00 4.08
65 66 0.452784 GTGATTCGCGTTGGAGTTGC 60.453 55.000 5.77 0.00 0.00 4.17
66 67 0.165944 GGTGATTCGCGTTGGAGTTG 59.834 55.000 5.77 0.00 0.00 3.16
67 68 0.250124 TGGTGATTCGCGTTGGAGTT 60.250 50.000 5.77 0.00 0.00 3.01
68 69 0.250124 TTGGTGATTCGCGTTGGAGT 60.250 50.000 5.77 0.00 0.00 3.85
69 70 0.871722 TTTGGTGATTCGCGTTGGAG 59.128 50.000 5.77 0.00 0.00 3.86
70 71 1.466950 GATTTGGTGATTCGCGTTGGA 59.533 47.619 5.77 0.00 0.00 3.53
71 72 1.198867 TGATTTGGTGATTCGCGTTGG 59.801 47.619 5.77 0.00 0.00 3.77
72 73 2.610219 TGATTTGGTGATTCGCGTTG 57.390 45.000 5.77 0.00 0.00 4.10
73 74 3.009723 AGATGATTTGGTGATTCGCGTT 58.990 40.909 5.77 0.00 0.00 4.84
74 75 2.352651 CAGATGATTTGGTGATTCGCGT 59.647 45.455 5.77 0.00 0.00 6.01
75 76 2.609002 TCAGATGATTTGGTGATTCGCG 59.391 45.455 0.00 0.00 0.00 5.87
76 77 4.621068 TTCAGATGATTTGGTGATTCGC 57.379 40.909 0.00 0.00 0.00 4.70
77 78 6.558009 ACATTTCAGATGATTTGGTGATTCG 58.442 36.000 0.00 0.00 0.00 3.34
78 79 8.767478 AAACATTTCAGATGATTTGGTGATTC 57.233 30.769 0.00 0.00 0.00 2.52
79 80 9.865321 CTAAACATTTCAGATGATTTGGTGATT 57.135 29.630 0.00 0.00 0.00 2.57
80 81 9.246670 TCTAAACATTTCAGATGATTTGGTGAT 57.753 29.630 0.00 0.00 0.00 3.06
81 82 8.634335 TCTAAACATTTCAGATGATTTGGTGA 57.366 30.769 0.00 0.00 0.00 4.02
82 83 9.865321 ATTCTAAACATTTCAGATGATTTGGTG 57.135 29.630 0.00 0.00 0.00 4.17
105 106 9.083080 CGTTGGATGGGAAAAGTAAAATAATTC 57.917 33.333 0.00 0.00 0.00 2.17
106 107 8.808092 TCGTTGGATGGGAAAAGTAAAATAATT 58.192 29.630 0.00 0.00 0.00 1.40
107 108 8.248253 GTCGTTGGATGGGAAAAGTAAAATAAT 58.752 33.333 0.00 0.00 0.00 1.28
108 109 7.230913 TGTCGTTGGATGGGAAAAGTAAAATAA 59.769 33.333 0.00 0.00 0.00 1.40
109 110 6.715718 TGTCGTTGGATGGGAAAAGTAAAATA 59.284 34.615 0.00 0.00 0.00 1.40
110 111 5.536916 TGTCGTTGGATGGGAAAAGTAAAAT 59.463 36.000 0.00 0.00 0.00 1.82
111 112 4.888239 TGTCGTTGGATGGGAAAAGTAAAA 59.112 37.500 0.00 0.00 0.00 1.52
112 113 4.462133 TGTCGTTGGATGGGAAAAGTAAA 58.538 39.130 0.00 0.00 0.00 2.01
113 114 4.088056 TGTCGTTGGATGGGAAAAGTAA 57.912 40.909 0.00 0.00 0.00 2.24
114 115 3.773418 TGTCGTTGGATGGGAAAAGTA 57.227 42.857 0.00 0.00 0.00 2.24
115 116 2.649531 TGTCGTTGGATGGGAAAAGT 57.350 45.000 0.00 0.00 0.00 2.66
116 117 3.505680 TGAATGTCGTTGGATGGGAAAAG 59.494 43.478 0.00 0.00 0.00 2.27
117 118 3.491342 TGAATGTCGTTGGATGGGAAAA 58.509 40.909 0.00 0.00 0.00 2.29
118 119 3.147553 TGAATGTCGTTGGATGGGAAA 57.852 42.857 0.00 0.00 0.00 3.13
119 120 2.869101 TGAATGTCGTTGGATGGGAA 57.131 45.000 0.00 0.00 0.00 3.97
120 121 4.495690 TTATGAATGTCGTTGGATGGGA 57.504 40.909 0.00 0.00 0.00 4.37
121 122 5.574891 TTTTATGAATGTCGTTGGATGGG 57.425 39.130 0.00 0.00 0.00 4.00
122 123 5.036737 GCTTTTATGAATGTCGTTGGATGG 58.963 41.667 0.00 0.00 0.00 3.51
123 124 4.730042 CGCTTTTATGAATGTCGTTGGATG 59.270 41.667 0.00 0.00 0.00 3.51
124 125 4.634004 TCGCTTTTATGAATGTCGTTGGAT 59.366 37.500 0.00 0.00 0.00 3.41
125 126 3.997681 TCGCTTTTATGAATGTCGTTGGA 59.002 39.130 0.00 0.00 0.00 3.53
126 127 4.335082 TCGCTTTTATGAATGTCGTTGG 57.665 40.909 0.00 0.00 0.00 3.77
127 128 5.382303 AGTTCGCTTTTATGAATGTCGTTG 58.618 37.500 0.00 0.00 0.00 4.10
128 129 5.607119 AGTTCGCTTTTATGAATGTCGTT 57.393 34.783 0.00 0.00 0.00 3.85
129 130 6.715344 TTAGTTCGCTTTTATGAATGTCGT 57.285 33.333 0.00 0.00 0.00 4.34
130 131 9.306280 CATATTAGTTCGCTTTTATGAATGTCG 57.694 33.333 0.00 0.00 0.00 4.35
996 1024 5.559770 TCTGAACAAGGCAAACTCATATCA 58.440 37.500 0.00 0.00 0.00 2.15
1025 1053 3.644966 TCATTTTCCTCGGCCTAATGT 57.355 42.857 0.00 0.00 0.00 2.71
1055 1083 2.036256 CCACCCCAGGAGGCAAAG 59.964 66.667 0.00 0.00 0.00 2.77
2174 2207 4.908601 TTTTTATGGACTGAGGAGAGCA 57.091 40.909 0.00 0.00 0.00 4.26
2463 2496 2.900546 AGTCGAGATGTCCCATTATCCC 59.099 50.000 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.