Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 226 of 325
Found at i:71242880 original size:12 final size:12
Alignment explanation
Indices: 71242865--71242903 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
71242855 CAAATTGGAG
*
71242865 AAATTTATTATT
1 AAATTAATTATT
71242877 AAATTAATTATAT
1 AAATTAATTAT-T
*
71242890 AAAATAATTATT
1 AAATTAATTATT
71242902 AA
1 AA
71242904 CCTAATTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATTAATTATT
Found at i:71249226 original size:42 final size:42
Alignment explanation
Indices: 71249153--71249293 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 42
71249143 CATGCAAAAT
* * *
71249153 CATATATGAGATATGGCATCG-TATGAGATTTCGTGTAAGAC
1 CATATCTGGGATATGACATCGATATGAGATTTCGTGTAAGAC
*
71249194 CATATCTGGGATATGATATCGATATGAGATTTCGTGTAAGAC
1 CATATCTGGGATATGACATCGATATGAGATTTCGTGTAAGAC
* * * * * *
71249236 CATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGAC
1 CATATCTGGGATA-TGACATCGATATGAGATTTCGTGTAAGAC
*
71249279 CATATATGGGATATG
1 CATATCTGGGATATG
71249294 GCACTGGTAC
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 17 0.20
42 33 0.39
43 34 0.40
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
CATATCTGGGATATGACATCGATATGAGATTTCGTGTAAGAC
Found at i:71249275 original size:43 final size:42
Alignment explanation
Indices: 71249162--71249296 Score: 173
Period size: 42 Copynumber: 3.2 Consensus size: 42
71249152 TCATATATGA
*
71249162 GATATGGCATCG-TATGAGATTTCGTGTAAGACCATATCTGG
1 GATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGG
**
71249203 GATATGATATCGATATGAGATTTCGTGTAAGACCATAGCTGG
1 GATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGG
* * * * **
71249245 GCTATTGGCATCGATACGAGATTACATGTAAGACCATATATGG
1 GATA-TGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGG
71249288 GATATGGCA
1 GATATGGCA
71249297 CTGGTACAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 10 0.12
42 36 0.45
43 34 0.43
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
GATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCTGG
Found at i:71259999 original size:51 final size:51
Alignment explanation
Indices: 71259923--71260029 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
71259913 CCATGGCAAC
*
71259923 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGAT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGAA
* *
71259974 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGAA
71260025 AAGTG
1 AAGTG
71260030 GTAGCTTCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (51 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGAA
Found at i:71260059 original size:31 final size:31
Alignment explanation
Indices: 71260019--71260198 Score: 297
Period size: 31 Copynumber: 5.8 Consensus size: 31
71260009 ATCAATGACA
*
71260019 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
71260050 AATGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71260081 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71260112 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71260143 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
71260174 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
71260199 AAGTGACAAG
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 140 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:71260309 original size:47 final size:46
Alignment explanation
Indices: 71260223--71260393 Score: 149
Period size: 47 Copynumber: 3.8 Consensus size: 46
71260213 AAGTGATTTC
* *
71260223 CGTATAAGACCATATCTGGGATATGGCATCGGTATGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTATGATATATGATA
* * *
71260269 CTGTATAAGACCATATCTGGGAAATGGCATCAGTGA-GATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGT-ATGATATATGATA
* * *
71260316 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTATGATATATG-ATA
* * * *
71260358 TGTGTAAGACCATAGT-TGGGCTATGGCATCATTATG
1 CGTATAAGACCATA-TCTGGGATATGGCATCAGTATG
71260394 TGAAGATGTG
Statistics
Matches: 103, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 26 0.25
47 40 0.39
48 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTATGATATATGATA
Found at i:71260378 original size:42 final size:43
Alignment explanation
Indices: 71260317--71260431 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
71260307 TATGTGATTC
* *
71260317 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
*
71260359 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
** *
71260401 GTGTAAGACCATAGTTGAACTATGGAATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
71260432 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:71261576 original size:33 final size:33
Alignment explanation
Indices: 71261539--71261604 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
71261529 GATTCTATAG
* *
71261539 TATGTTATAAGTTTGGTTAGGATTGGGTAACAA
1 TATGTTATAAGTTCGGCTAGGATTGGGTAACAA
71261572 TATGTTATAAGTTCGGCTAGGATTGGGTAACAA
1 TATGTTATAAGTTCGGCTAGGATTGGGTAACAA
71261605 AGAAAATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (33 bp):
TATGTTATAAGTTCGGCTAGGATTGGGTAACAA
Found at i:71269809 original size:29 final size:30
Alignment explanation
Indices: 71269758--71269814 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
71269748 TTTTTGTTAG
* **
71269758 TTTTAATTTTTTAATTACTG-TTTAATTGT
1 TTTTAATTATTTAATTAAAGTTTTAATTGT
*
71269787 TTTTAATTATTTATTTAAAGTTTTAATT
1 TTTTAATTATTTAATTAAAGTTTTAATT
71269815 AGGGTATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTTAATTATTTAATTAAAGTTTTAATTGT
Found at i:71272942 original size:6 final size:6
Alignment explanation
Indices: 71272931--71272969 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
71272921 TTATGTTTTA
*
71272931 TTTCTT TTTCTT TTTCTT TTTCTT TTGT-TA TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT-TCTT TTTCTT TTT
71272970 TATTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 1 0.03
6 27 0.93
7 1 0.03
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:71274145 original size:21 final size:21
Alignment explanation
Indices: 71274121--71274166 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
71274111 TGAATTGTGA
*
71274121 AAAATGTGAACTATTAGGGGC
1 AAAATGTGAACTATTAAGGGC
*
71274142 AAAATGTGAATTATTAAGGGC
1 AAAATGTGAACTATTAAGGGC
71274163 AAAA
1 AAAA
71274167 GTGTAAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.24
Consensus pattern (21 bp):
AAAATGTGAACTATTAAGGGC
Found at i:71283880 original size:43 final size:41
Alignment explanation
Indices: 71283798--71283914 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 41
71283788 GGAGACATCG
* * *
71283798 TGTAAAACCGTGTCTGGGACACAGGCCTCGATTGAGA-TTTA
1 TGTAAGACCCTGTCTGGGACAC-GGCATCGATTGAGATTTTA
*
71283839 TGTATAAGACCCTGTCTGGGACATCGGCATCGTATT-TGATTTTA
1 TG--TAAGACCCTGTCTGGGACA-CGGCATCG-ATTGAGATTTTA
*
71283883 TGTAAGACCC-GATCTGGGACAGAGGCATCGAT
1 TGTAAGACCCTG-TCTGGGACA-CGGCATCGAT
71283915 AATGAATTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
41 5 0.08
42 24 0.38
43 25 0.39
44 10 0.16
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (41 bp):
TGTAAGACCCTGTCTGGGACACGGCATCGATTGAGATTTTA
Found at i:71300144 original size:3 final size:3
Alignment explanation
Indices: 71300138--71300175 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
71300128 GAGGAGGAGG
71300138 AGA AGA AGA AGA AGA AG- AGA AGA AGA AG- AGA AGGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
71300176 GGCAACATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:71300160 original size:11 final size:11
Alignment explanation
Indices: 71300138--71300175 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
71300128 GAGGAGGAGG
71300138 AGAAGAAGAAGA
1 AGAAG-AGAAGA
71300150 AGAAGAGAAGA
1 AGAAGAGAAGA
71300161 AGAAGAGAAGGA
1 AGAAGAGAA-GA
71300173 AGA
1 AGA
71300176 GGCAACATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
AGAAGAGAAGA
Found at i:71300911 original size:139 final size:139
Alignment explanation
Indices: 71300678--71301938 Score: 1214
Period size: 138 Copynumber: 9.2 Consensus size: 139
71300668 TATATTTTAA
* * *
71300678 AAAATCC-AAAATACAATAAAAAAA-GGTCAAAATCAGAG-TTTTTACTTAAATT-ATATAAATA
1 AAAATCCGAAAATAAAATAAAAAAACGG-CCAAATCAGAGATTTTTAC-TAAATTAATATAAAAA
* *
71300739 TACTTAAAATAATACATATG-AACATTATGTACTAAAATATAAAAAATAAAATACGAAAATAGTA
64 AAC-TAAAATAATACATTTGAAACATTATGTACTAAAATATAAAAAATAAAATACGAAAATAGTA
71300803 TATTTGAAAAAAT
128 TATTT-AAAAAAT
*
71300816 AAAATTCG-AAATAAAATAAAACAAACGGCCAAATCAGA-ATTTTTACTAAATTAAT-TAAAAAA
1 AAAATCCGAAAATAAAATAAAA-AAACGGCCAAATCAGAGATTTTTACTAAATTAATATAAAAAA
*
71300878 ACTAAAATATATACATTTGAAACATTATGTACTAAAAATATAAAAAAT-AAATACAAAAATAGTA
65 ACTAAAATA-ATACATTTGAAACATTATGTACT-AAAATATAAAAAATAAAATACGAAAATAGTA
*
71300942 TATTTTAAAAAT
128 TATTTAAAAAAT
* * * ***
71300954 -AAAT-CG-AAACAAAATAAAAAGAC--CAAAATCACCTATTTTTACTAAATTAATAT-AAAAAA
1 AAAATCCGAAAATAAAATAAAAAAACGGCCAAATCAGAGATTTTTACTAAATTAATATAAAAAAA
* * *
71301013 CTAAAATAATACA--TGAAA-ATTATGTACT-AAA-ATAATATA-AAAATACGAAAATAATATAT
66 CTAAAATAATACATTTGAAACATTATGTACTAAAATATAAAAAATAAAATACGAAAATAGTATAT
71301072 CTTAAAAAAT
131 -TTAAAAAAT
* * * *
71301082 AAAATCCG-AAATAAAAAAACAAAAAGGGCC-AATCA-AGTCTTTTTTCTAAATTAATAT--AAA
1 AAAATCCGAAAATAAAATAA-AAAAACGGCCAAATCAGAG-ATTTTTACTAAATTAATATAAAAA
* * ** * *
71301142 AACTAAAGTAATACA--TG-AACATTATGTACTAAAA-ATATAAACCAAAATACGAAAATAATAA
64 AACTAAAATAATACATTTGAAACATTATGTACTAAAATATAAAAAATAAAATACGAAAATAGTAT
71301203 ATTTTAAAAAAT
129 A-TTTAAAAAAT
* * *
71301215 AAAAT-CGAAAATAAAA-ATAAAAA-GGCCAAAATCAGAGCTTTTTCCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAATAAAAAAACGGCC-AAATCAGAGATTTTTACTAAATTAATATAAAAAA
* *
71301277 ACTAAAATAATACATTTG-AACATTATGTACTAAATAATATAAAAGATAAAATATGAAAATAGTA
65 ACTAAAATAATACATTTGAAACATTATGTACT-AA-AATATAAAAAATAAAATACGAAAATAGTA
71301341 TATTTTTAAAAAA-
128 TA--TTTAAAAAAT
** *
71301354 ATAAATCCGAAAATAAAA-ATAATTAACGGCCAAAATCACAGATTTTTACT-AATTAATATAAAA
1 A-AAATCCGAAAATAAAATA-AAAAAACGGCC-AAATCAGAGATTTTTACTAAATTAATAT-AAA
* * *
71301417 AAAACTAAAATAATACA--TGAAACATTATGTTCT-AAATAATTATAAATAAAATACGAAAATAG
62 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAAT-ATAAAAAATAAAATACGAAAATAG
71301479 T-TATTTTAAAAAAT
126 TATA-TTTAAAAAAT
* * *
71301493 AAAATCCGAAAATAAAA-AATAAAAAGGGCCAAAATCAGAGTTTTTTTTCT-AATTAATATAAAA
1 AAAATCCGAAAATAAAATAA-AAAAACGGCC-AAATCAGAG-ATTTTTACTAAATTAATATAAAA
* * *
71301556 AAACTAAAAT-ATATATTTGATACATTATG-ACT-AAATAGT-ATAAAT-AAATACGAAAATAGT
63 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATA-TAAAAAATAAAATACGAAAATAGT
71301616 ATATTT-AAAAAT
127 ATATTTAAAAAAT
* *
71301628 AAAATCCGAAAAT-AAATAAAATAATAACGGCCAAAATCAGAGTTTTTATATTAAATTAATAT-A
1 AAAATCCGAAAATAAAAT-AAA-AA-AACGGCC-AAATCAGAGATTTT-TACTAAATTAATATAA
*
71301691 AAAAACTAAAATAATACATTTGAAACATTATGTACT-AAATAATTAAAAAAATAAAAT-CAAAAA
61 AAAAACTAAAATAATACATTTGAAACATTATGTACTAAAAT-A-T-AAAAAATAAAATACGAAAA
*
71301754 TAGTATATTTAAAAAGT
123 TAGTATATTTAAAAAAT
* * *
71301771 -AAATCCGAATAATAAAATAAAAAAACAAACGGTCAAATCAGAGTTTTTTATTAAATTAATATAA
1 AAAATCCGAA-AATAAAAT---AAAA-AAACGGCCAAATCAGAGATTTTTACTAAATTAATATAA
* * *
71301835 AATAATACAAAAAAATAATACATTTGAAACATTATGTACTAATAATATAAAGAAT-ATATACGAA
61 AA-AA-AC--TAAAATAATACATTTGAAACATTATGTACTAA-AATATAAAAAATAAAATACGAA
*
71301899 AATAATATATTTTAAAAAAT
121 AATAGTATA-TTTAAAAAAT
*
71301919 AAAAT-CTAAAAT-AAATAAAA
1 AAAATCCGAAAATAAAATAAAA
71301939 TACCAAAATA
Statistics
Matches: 967, Mismatches: 80, Indels: 147
0.81 0.07 0.12
Matches are distributed among these distances:
127 23 0.02
128 11 0.01
129 4 0.00
130 27 0.03
131 43 0.04
132 55 0.06
133 55 0.06
134 52 0.05
135 24 0.02
136 56 0.06
137 58 0.06
138 137 0.14
139 116 0.12
140 54 0.06
141 14 0.01
142 53 0.05
143 70 0.07
144 21 0.02
145 9 0.01
146 14 0.01
147 20 0.02
148 42 0.04
149 6 0.01
150 3 0.00
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (139 bp):
AAAATCCGAAAATAAAATAAAAAAACGGCCAAATCAGAGATTTTTACTAAATTAATATAAAAAAA
CTAAAATAATACATTTGAAACATTATGTACTAAAATATAAAAAATAAAATACGAAAATAGTATAT
TTAAAAAAT
Found at i:71301948 original size:17 final size:16
Alignment explanation
Indices: 71301915--71301948 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
71301905 ATATTTTAAA
*
71301915 AAATAAAATCTAAAAT
1 AAATAAAATCCAAAAT
71301931 AAATAAAATACCAAAAT
1 AAATAAAAT-CCAAAAT
71301948 A
1 A
71301949 TATTGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAAATCCAAAAT
Found at i:71307132 original size:30 final size:29
Alignment explanation
Indices: 71307074--71307132 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
71307064 ATTCCGAGCC
*
71307074 TAGGGGCAAAAGTGTAATTATGCAAAGTT
1 TAGGGGCAAAAGTGTAATTATCCAAAGTT
* *
71307103 TAGGGGCAAAAGTTTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAA-TTATCCAAAGTT
71307133 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAATTATCCAAAGTT
Found at i:71312091 original size:46 final size:46
Alignment explanation
Indices: 71311949--71312120 Score: 142
Period size: 46 Copynumber: 3.8 Consensus size: 46
71311939 ATTTGGGCAT
* * *
71311949 CCGAACTCGTCGAGTTGAGTCCGAGTTCAC-TATAGATTGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTGCGAATG
*** ** *
71311994 TCCGAACTCGTTGAGTTGAGTCCGA-TTCGAGAGATTTAACTAG-GCAT-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTA-TGGACT-GCGAATG
*
71312041 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-TGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTGCGAATG
* *
71312086 CCCGAGCTCGTTGAGTTGAGTTCG-GTT-ACTTATGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71312121 GAGGGTACAT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 12 0.12
45 8 0.08
46 71 0.69
47 4 0.04
48 6 0.06
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTGCGAATG
Found at i:71335331 original size:30 final size:30
Alignment explanation
Indices: 71335297--71335356 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71335287 ATTTAATACG
71335297 AACTTTGGAAAAATTAAACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * *
71335327 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
71335357 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:71340618 original size:12 final size:13
Alignment explanation
Indices: 71340588--71340623 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
71340578 TTTTTTAAAA
71340588 TATATTATTTTCG
1 TATATTATTTTCG
*
71340601 TATATTATTTT-T
1 TATATTATTTTCG
71340613 TATATTATTTT
1 TATATTATTTT
71340624 AGTACATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (13 bp):
TATATTATTTTCG
Found at i:71340914 original size:25 final size:25
Alignment explanation
Indices: 71340847--71340921 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
71340837 ATTTTGGCCG
**
71340847 TTTATTTTTTATTTTATTTTCGGAT
1 TTTATTTTTTATACTATTTTCGGAT
*
71340872 TTTATTTTTTAAAATATACTATTTTCGTAT
1 TTTA-TTTTT----TATACTATTTTCGGAT
71340902 TTTATTTTTTATACTATTTT
1 TTTATTTTTTATACTATTTT
71340922 AGTACATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
25 15 0.36
26 5 0.12
29 5 0.12
30 17 0.40
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTATTTTTTATACTATTTTCGGAT
Found at i:71341048 original size:146 final size:145
Alignment explanation
Indices: 71340556--71341873 Score: 1885
Period size: 147 Copynumber: 9.1 Consensus size: 145
71340546 TATTTTGGTA
** * *
71340556 TTTATTTTATTTTTAGATTTTATTTTTTAAAATATATTATTTTCGTATATTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
71340621 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTATTTTTATATTAATTTAATAAAAAACT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAG--TT-TTTTTATATTAATTTAGTAAAAAACT
* *
71340686 CTGATTTTGACCGTTTGTTTT
128 CTGATTTTGGCC--CT-TTTT
* *
71340707 TTTATTTTATTTTCGGATTTTACTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
71340772 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
71340837 ATTTTGGCCGTTTATTT
131 ATTTTGGCC-CTT-TTT
*
71340854 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATACTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
71340919 TTTAGTACATAATGTATCAAATATATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAAACTC
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG--TAAAAAACTC
71340984 TGATTTTGGCCCTTTTT
129 TGATTTTGGCCCTTTTT
*
71341001 ATT-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
71341065 TTTAGAACATAATGTTTC--ATGTATTATTTTAGTTTTTTTTTTATATTAATTTAGTAAAAATCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAG---TTTTTTTATATTAATTTAGTAAAAAACT
* * *
71341128 GTGATTTTGGCCGTTTTA
128 CTGATTTTGGCCCTTTTT
*
71341146 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTCTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATT-TTTTATATTA
*
71341211 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-AAAAAGCTCT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
71341275 GATTTTGG-CCTTTTT
130 GATTTTGGCCCTTTTT
* * * *
71341290 TAT-TTTTATTTTCGGATTTTATTTTTTAAAATTTATTATTTTCGTATTTTGTTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
71341354 TTTAGTACATAATGTTTC--ATGTATTACTTTAG-TTTTTTATATTAATTTAGAAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
71341416 ATTTTGGCCC-TTTT
131 ATTTTGGCCCTTTTT
* * *
71341430 TGT-TTTTATTTTCGGATTTTATTTTTTAAGATATATTATTTTCG-----TATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
**
71341489 TTTAGTACATAATGTTTC--ATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAATA-GGT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAA-ACTCT
*
71341550 GATTTTGG---TCTTT
130 GATTTTGGCCCTTTTT
* *
71341563 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
71341628 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
71341693 ATTTTGGCCGTTTGTTT
131 ATTTTGGCC-CTT-TTT
* *
71341710 TTTATTTTATTTTCGAATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTT-TATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
71341774 TTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
71341839 ATTTT-GACCTTTTT
131 ATTTTGGCCCTTTTT
*
71341853 TTTATTTTATTTTTGGATTTT
1 TTTATTTTATTTTCGGATTTT
71341874 TTAAAATATA
Statistics
Matches: 1068, Mismatches: 70, Indels: 66
0.89 0.06 0.05
Matches are distributed among these distances:
133 5 0.00
134 37 0.03
135 77 0.07
136 1 0.00
139 51 0.05
140 75 0.07
141 17 0.02
142 62 0.06
143 68 0.06
144 22 0.02
145 42 0.04
146 218 0.20
147 226 0.21
148 39 0.04
149 36 0.03
151 92 0.09
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (145 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
ATTTTGGCCCTTTTT
Found at i:71341331 original size:30 final size:29
Alignment explanation
Indices: 71341291--71341347 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
71341281 GGCCTTTTTT
71341291 ATTTTTATTTTCGGATTTTATTTTTTAAA
1 ATTTTTATTTTCGGATTTTATTTTTTAAA
* *
71341320 ATTTATTATTTTCGTATTTTGTTTTTTA
1 ATTT-TTATTTTCGGATTTTATTTTTTA
71341348 TATTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (29 bp):
ATTTTTATTTTCGGATTTTATTTTTTAAA
Found at i:71341886 original size:14 final size:14
Alignment explanation
Indices: 71341869--71341897 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
71341859 TTATTTTTGG
71341869 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
71341883 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
71341897 A
1 A
71341898 CTATTAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:71342398 original size:3 final size:3
Alignment explanation
Indices: 71342385--71342458 Score: 78
Period size: 3 Copynumber: 24.7 Consensus size: 3
71342375 CAATGTTGCC
*
71342385 TCT TCCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT
1 TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * * *
71342431 CCT CCT TCC CCC T-T TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
71342459 ACTCACGCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
2 1 0.02
3 59 0.94
4 3 0.05
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (3 bp):
TCT
Found at i:71354570 original size:46 final size:46
Alignment explanation
Indices: 71354520--71354648 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
71354510 TGGTTGAGCA
*
71354520 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
71354566 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
71354612 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71354649 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:71357075 original size:96 final size:96
Alignment explanation
Indices: 71356911--71357101 Score: 337
Period size: 96 Copynumber: 2.0 Consensus size: 96
71356901 GGGGGATGGC
* *
71356911 AAACACACCACAATAGAATATGTTCGGTTATTTGTGGTAGACCATCTAATGGCCAATAATACGCC
1 AAACACACCACAATAGAATATGTTCGGCTATTTGTGGTAGACCATCCAATGGCCAATAATACGCC
71356976 CTAACATGAGAATGGCTAAGATAATGATCGT
66 CTAACATGAGAATGGCTAAGATAATGATCGT
* * *
71357007 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
1 AAACACACCACAATAGAATATGTTCGGCTATTTGTGGTAGACCATCCAATGGCCAATAATACGCC
71357072 CTAACATGAGAATGGCTAAGATAATGATCG
66 CTAACATGAGAATGGCTAAGATAATGATCG
71357102 CAACTTTTTG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (96 bp):
AAACACACCACAATAGAATATGTTCGGCTATTTGTGGTAGACCATCCAATGGCCAATAATACGCC
CTAACATGAGAATGGCTAAGATAATGATCGT
Found at i:71364451 original size:64 final size:64
Alignment explanation
Indices: 71364245--71364974 Score: 361
Period size: 64 Copynumber: 11.2 Consensus size: 64
71364235 GAACAACTTG
* * * *
71364245 TTGATTTAAGATCACAACTGATATTATTAAGGTTAACTGATTTAAGATCGCAACCTAAGTTCAC
1 TTGATTTAAGATCGCAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
** * * * * *
71364309 TCAATTTAAAATCATG-AAC-AATTTTATTTAA-GTTAGCTAACTTAAGATCGTAACTCGAATAA
1 TTGATTTAAGATC--GCAACTAATATTA-TTAAGGTTAGCTGATTTAAGATCGCAAC-C---TAA
*
71364371 CTTGC--
59 GTT-CAT
* * *
71364376 TT-ATTTAAGATCGCAACTAATATTATTAAGGTGAGTTGATTTAGGATCGCAACCTAAGTTCAT
1 TTGATTTAAGATCGCAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
* * * * * *
71364439 TTGATTTAAGATCATG-AAC-AATTTTGTT-TGAGTTAGCTAATTTAATATCGCAACTCCGAACA
1 TTGATTTAAGATC--GCAACTAATATTATTAAG-GTTAGCTGATTTAAGATCGCAA--CC-TA-A
** *
71364501 ACTC-G
59 GTTCAT
* * * *
71364506 CTGATTTAAGATCACAACTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCTT
1 TTGATTTAAGATCGCAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
* * * * * * *
71364570 TTGATTTAAGACCAAG-AAC-AATTTTATT-CGAGTTAGCTGATTTAATATCGTAAATCTAAATA
1 TTGATTTAAGATC--GCAACTAATATTATTAAG-GTTAGCTGATTTAAGATCG-CAACCTAAGT-
71364632 ACTCA-
61 --TCAT
* * * * * *
71364637 CTAATTTAAGATCACAA-TCGATATTATTAAGGTTAGTTGATTTAAGATCCCAACCTAAGTTCAT
1 TTGATTTAAGATCGCAACT-AATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
** * * * * *
71364701 TCAATTTAAGATCATG-AACAAAT-TTATT-CGAGTTAGCTGATTTAAAATTGCAACTCCAAACA
1 TTGATTTAAGATC--GCAACTAATATTATTAAG-GTTAGCTGATTTAAGATCGCAA--CC-TA-A
**
71364763 ACTCA-
59 GTTCAT
* * * * * * *
71364768 CTGATTTAAGATCACAACCAATATTATTAAGTTTAGTTGGTTTAAGATCGCAACCTAAGTTTAT
1 TTGATTTAAGATCGCAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
* * * ** *
71364832 TCGATTTAAGATCAAG-AA-TAATTTTATT-TGAGTTAGCTGATTTAAGATCGCAATTTTGAAGA
1 TTGATTTAAGATC--GCAACTAATATTATTAAG-GTTAGCTGATTTAAGATCGCAA-CCT-AAGT
* *
71364894 ACTT
61 TCAT
* * * * *
71364898 TTGATTTAAGATCGCAATTAATATTATTAAGGTTAGATGATTCAAGATCGCAACCAAAGTTCAC
1 TTGATTTAAGATCGCAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
71364962 TTGATTTAAGATC
1 TTGATTTAAGATC
71364975 ATGAATAATC
Statistics
Matches: 485, Mismatches: 124, Indels: 114
0.67 0.17 0.16
Matches are distributed among these distances:
61 1 0.00
62 5 0.01
63 15 0.03
64 197 0.41
65 42 0.09
66 100 0.21
67 107 0.22
68 17 0.04
69 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (64 bp):
TTGATTTAAGATCGCAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCAT
Found at i:71364567 original size:131 final size:131
Alignment explanation
Indices: 71364188--71364979 Score: 944
Period size: 131 Copynumber: 6.1 Consensus size: 131
71364178 TATTTTATCT
* * * *
71364188 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAACTTGTTGATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
* ** * *
71364253 AGATCACAACTGATATTATTAAGGTTAACTGATTTAAGATCGCAACCTAAGTTCACTCAATTTAA
66 AGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAA
*
71364318 A
131 G
* * * * * *
71364319 ATCATGAACAATTTTATTTAAGTTAGCTAACTTAAGATCGTAACT-CGAATAACTTGCTTATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
* * * *
71364383 AGATCGCAACTAATATTATTAAGGTGAGTTGATTTAGGATCGCAACCTAAGTTCATTTGATTTAA
66 AGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAA
71364448 G
131 G
* *
71364449 ATCATGAACAATTTTGTTTGAGTTAGCTAATTTAATATCGCAACTCCGAACAACTCGCTGATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
* * * *
71364514 AGATCACAACTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCTTTTGATTTAA
66 AGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAA
71364579 G
131 G
* * * * * * * ** * * *
71364580 ACCAAGAACAATTTTATTCGAGTTAGCTGATTTAATATCGTAAATCTAAATAACTCACTAATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
* * *
71364645 AGATCACAA-TCGATATTATTAAGGTTAGTTGATTTAAGATCCCAACCTAAGTTCATTCAATTTA
66 AGATCACAACT-AATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTA
71364709 AG
130 AG
* * * * * * *
71364711 ATCATGAACAAATTTATTCGAGTTAGCTGATTTAAAATTGCAACTCCAAACAACTCACTGATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
* * * *
71364776 AGATCACAACCAATATTATTAAGTTTAGTTGGTTTAAGATCGCAACCTAAGTTTATTCGATTTAA
66 AGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAA
71364841 G
131 G
* * * * ** * **
71364842 ATCAAGAATAATTTTATTTGAGTTAGCTGATTTAAGATCGCAATTTTGAAGAACT-TTTGATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
* * * * *
71364906 AGATCGCAATTAATATTATTAAGGTTAGATGATTCAAGATCGCAACCAAAGTTCACTT-GATTTA
66 AGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCA-TTCGATTTA
71364970 AG
130 AG
71364972 ATCATGAA
1 ATCATGAA
71364980 TAATCTCACT
Statistics
Matches: 568, Mismatches: 89, Indels: 9
0.85 0.13 0.01
Matches are distributed among these distances:
130 180 0.32
131 388 0.68
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (131 bp):
ATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCGCTGATTTA
AGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAA
G
Found at i:71366561 original size:49 final size:49
Alignment explanation
Indices: 71366508--71366605 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
71366498 TGACTTATTT
71366508 GGCCAAAAAGAAAATAAAATAAAAGAAAGATGATATCATCCCTCTTTCA
1 GGCCAAAAAGAAAATAAAATAAAAGAAAGATGATATCATCCCTCTTTCA
*
71366557 GGCCAAAAAGAAAATAAAATAAAAGAAAGATGATATCATCCCTTTTTCA
1 GGCCAAAAAGAAAATAAAATAAAAGAAAGATGATATCATCCCTCTTTCA
71366606 TCTTCTTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.21
Consensus pattern (49 bp):
GGCCAAAAAGAAAATAAAATAAAAGAAAGATGATATCATCCCTCTTTCA
Found at i:71367499 original size:46 final size:46
Alignment explanation
Indices: 71367394--71367518 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
71367384 GGTGGTATGT
* *
71367394 GAGCCAGTATAAGACATGTTTGGGACATGCATCGGCCACATCATAA
1 GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATCACAA
* * * *
71367440 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CA-TTGAGACAA
1 GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAT--CACAA
* * *
71367486 GAGCTAGTATAAGACTTTTCTGGGACATGCATC
1 GAGCCAGTATAAGACATGTCTGGGACATGCATC
71367519 ATCTCGGGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.02
45 2 0.03
46 63 0.95
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (46 bp):
GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATCACAA
Found at i:71367639 original size:48 final size:49
Alignment explanation
Indices: 71367584--71367710 Score: 150
Period size: 48 Copynumber: 2.6 Consensus size: 49
71367574 TGTTTGTTAG
* * *
71367584 TGTAAGACCTGTCTGAGACATGGCATCGACAC-CGATAGATGAGA-TCAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGTCAA
* * *
71367632 TGTAAGACCTGTCTGGGACATGGAATCGGCCTCGATATATGAAAGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTCAA
* * *
71367681 TGTAAGTCCTGTCTGGGACACGACATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
71367711 TTTAATGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 37 0.56
49 28 0.42
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGTCAA
Found at i:71374834 original size:20 final size:20
Alignment explanation
Indices: 71374809--71374853 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
71374799 AGGGACTAAA
*
71374809 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTATAAAATTTG
*
71374829 ATGAAAAGTTATAAAATTTT
1 ATGAAAAGTTATAAAATTTG
71374849 ATGAA
1 ATGAA
71374854 TACATGTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGAAAAGTTATAAAATTTG
Found at i:71375214 original size:14 final size:15
Alignment explanation
Indices: 71375195--71375227 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
71375185 ATGTTGTGTT
71375195 TTTATG-TAATGTGA
1 TTTATGTTAATGTGA
*
71375209 TTTATGTTAATGTGC
1 TTTATGTTAATGTGA
71375224 TTTA
1 TTTA
71375228 CTTGTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (15 bp):
TTTATGTTAATGTGA
Found at i:71375726 original size:19 final size:20
Alignment explanation
Indices: 71375688--71375726 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
71375678 CAACGAGCAT
*
71375688 AAAACTCTTGACATGGTATG
1 AAAACTCTTGACATGATATG
*
71375708 AAAA-TCTTGAGATGATATG
1 AAAACTCTTGACATGATATG
71375727 GTAATGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
AAAACTCTTGACATGATATG
Found at i:71380755 original size:28 final size:28
Alignment explanation
Indices: 71380719--71380806 Score: 167
Period size: 28 Copynumber: 3.1 Consensus size: 28
71380709 CCAAAATAGA
71380719 AATGAGAAAGAATTACCATGGACTTTGT
1 AATGAGAAAGAATTACCATGGACTTTGT
*
71380747 AATGGGAAAGAATTACCATGGACTTTGT
1 AATGAGAAAGAATTACCATGGACTTTGT
71380775 AATGAGAAAGAATTACCATGGACTTTGT
1 AATGAGAAAGAATTACCATGGACTTTGT
71380803 AATG
1 AATG
71380807 GGATTACCCT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (28 bp):
AATGAGAAAGAATTACCATGGACTTTGT
Found at i:71387313 original size:17 final size:18
Alignment explanation
Indices: 71387293--71387326 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
71387283 CAAATTAGAT
71387293 AATTAACTGAA-TTAATC
1 AATTAACTGAAGTTAATC
71387310 AATTAACTGAAGTTAAT
1 AATTAACTGAAGTTAAT
71387327 AATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (18 bp):
AATTAACTGAAGTTAATC
Found at i:71388357 original size:16 final size:16
Alignment explanation
Indices: 71388332--71388369 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
71388322 ATTCAATTAA
71388332 CTAA-AATTTAACATT
1 CTAACAATTTAACATT
*
71388347 CTAACAATTTATCATT
1 CTAACAATTTAACATT
*
71388363 CAAACAA
1 CTAACAA
71388370 ACATATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (16 bp):
CTAACAATTTAACATT
Found at i:71388625 original size:22 final size:21
Alignment explanation
Indices: 71388572--71388628 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
71388562 GCTCGCACAC
71388572 AAACAAGTAC-AAAAAATTAA
1 AAACAAGTACTAAAAAATTAA
** *
71388592 AATTTAACTACTAAAACAATTAA
1 AA-ACAAGTACTAAAA-AATTAA
71388615 AAACAAGTACTAAA
1 AAACAAGTACTAAA
71388629 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 2 0.07
21 5 0.18
22 13 0.46
23 8 0.29
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.21
Consensus pattern (21 bp):
AAACAAGTACTAAAAAATTAA
Found at i:71391085 original size:25 final size:25
Alignment explanation
Indices: 71391051--71391104 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
71391041 TGAACCAATC
71391051 CCAAGGTTTTAACCATACCTTGTAA
1 CCAAGGTTTTAACCATACCTTGTAA
*
71391076 CCAAGGTTTTAGCCATACCTTGTAA
1 CCAAGGTTTTAACCATACCTTGTAA
71391101 CCAA
1 CCAA
71391105 ATAGCTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (25 bp):
CCAAGGTTTTAACCATACCTTGTAA
Found at i:71391656 original size:18 final size:18
Alignment explanation
Indices: 71391633--71391669 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
71391623 ACATATAGCT
71391633 TCTGAGACAAGCTAACTC
1 TCTGAGACAAGCTAACTC
71391651 TCTGAGACAAGCTAACTC
1 TCTGAGACAAGCTAACTC
71391669 T
1 T
71391670 GCCATGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (18 bp):
TCTGAGACAAGCTAACTC
Found at i:71399916 original size:66 final size:66
Alignment explanation
Indices: 71399834--71399968 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
71399824 AGTGCTAAAA
* *
71399834 ATAACATGTTTTAACCTCTTTCATAAAGCGTTTTTGGGTGATTATTTGATGTTAATTGTGAATTT
1 ATAACATGTTTTAACCTCATTCATAAAGCATTTTTGGGTGATTATTTGATGTTAATTGTGAATTT
71399899 T
66 T
71399900 ATAACATGTTTTAACCTCATTCATAAAGCATTTTTGGGTGATTATTTGATGTTAATTGTGAATTT
1 ATAACATGTTTTAACCTCATTCATAAAGCATTTTTGGGTGATTATTTGATGTTAATTGTGAATTT
71399965 T
66 T
71399966 ATA
1 ATA
71399969 CTCCTAATCC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (66 bp):
ATAACATGTTTTAACCTCATTCATAAAGCATTTTTGGGTGATTATTTGATGTTAATTGTGAATTT
T
Found at i:71407731 original size:22 final size:23
Alignment explanation
Indices: 71407706--71407755 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
71407696 TTTTTCAAGC
*
71407706 TTATATATTTTATT-TTA-TTTT
1 TTATACATTTTATTGTTACTTTT
*
71407727 ATTATGCATTTTATTGTTACTTTT
1 -TTATACATTTTATTGTTACTTTT
71407751 TTATA
1 TTATA
71407756 GTTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (23 bp):
TTATACATTTTATTGTTACTTTT
Found at i:71412207 original size:66 final size:66
Alignment explanation
Indices: 71412089--71412240 Score: 214
Period size: 66 Copynumber: 2.3 Consensus size: 66
71412079 AAACAAGATC
* * * ** *
71412089 ACATTTAAACGATAATTTGCATAGCAAGCACATACTCATTTAGGCGTACATCACATTACACATAT
1 ACATTTTAA-GATAATTTGGATAGCAACCACATACTCATACAGGCATACATCACATTACACATAT
71412154 AT
65 AT
* *
71412156 ACATTTTAAGATAATTTGGATAGCAACCACATACTCCTACAGGCATGCATCACATTACACATATA
1 ACATTTTAAGATAATTTGGATAGCAACCACATACTCATACAGGCATACATCACATTACACATATA
71412221 T
66 T
*
71412222 ACACTTTAAGATAATTTGG
1 ACATTTTAAGATAATTTGG
71412241 CACTTGAGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
66 68 0.89
67 8 0.11
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (66 bp):
ACATTTTAAGATAATTTGGATAGCAACCACATACTCATACAGGCATACATCACATTACACATATA
T
Found at i:71417648 original size:21 final size:21
Alignment explanation
Indices: 71417622--71417679 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
71417612 GTGGGGGTTT
* * *
71417622 ACACGCCCATGTGGAGGCCTC
1 ACACGCCCGTGTGGAAGCCCC
*
71417643 ACACGCCCGTGTGAAAGCCCC
1 ACACGCCCGTGTGGAAGCCCC
*
71417664 ACACACCCGTGTGGAA
1 ACACGCCCGTGTGGAA
71417680 AGGGTACACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.38, G:0.26, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGCCCC
Found at i:71425098 original size:23 final size:23
Alignment explanation
Indices: 71425057--71425143 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 23
71425047 GCTTATTGTT
*
71425057 TTCAGCTCAT-TGGAACTTATCGA
1 TTCAGCTCATAT-GAGCTTATCGA
* *
71425080 TTCAGGTCATATGAGCTTA-CTA
1 TTCAGCTCATATGAGCTTATCGA
* *
71425102 TTTAGCTCGATA-GAGCTTATCGT
1 TTCAGCTC-ATATGAGCTTATCGA
71425125 TTCAGCTCA-ATAGAGCTTA
1 TTCAGCTCATAT-GAGCTTA
71425144 CTATTTACTA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.31
23 33 0.65
24 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (23 bp):
TTCAGCTCATATGAGCTTATCGA
Found at i:71425117 original size:22 final size:22
Alignment explanation
Indices: 71425092--71425150 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
71425082 CAGGTCATAT
*
71425092 GAGCTTACTATTTAGCTCGATA
1 GAGCTTACTATTTAGCTCAATA
*
71425114 GAGCTTATCGT-TTCAGCTCAATA
1 GAGCTTA-C-TATTTAGCTCAATA
71425137 GAGCTTACTATTTA
1 GAGCTTACTATTTA
71425151 CTAGCTCAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 11 0.35
23 18 0.58
24 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGCTTACTATTTAGCTCAATA
Found at i:71425325 original size:19 final size:20
Alignment explanation
Indices: 71425301--71425344 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
71425291 TACTGATCAT
71425301 ATGAAT-AAGCTA-TGTTGAA
1 ATGAATGAA-CTATTGTTGAA
*
71425320 ATGAATGAATTATTGTTGAA
1 ATGAATGAACTATTGTTGAA
71425340 ATGAA
1 ATGAA
71425345 AAAATTACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGAATGAACTATTGTTGAA
Found at i:71425350 original size:20 final size:20
Alignment explanation
Indices: 71425313--71425351 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71425303 GAATAAGCTA
**
71425313 TGTTGAAATGAATGAATTAT
1 TGTTGAAATGAAAAAATTAT
71425333 TGTTGAAATGAAAAAATTA
1 TGTTGAAATGAAAAAATTA
71425352 CCGTTGATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (20 bp):
TGTTGAAATGAAAAAATTAT
Found at i:71425357 original size:20 final size:20
Alignment explanation
Indices: 71425314--71425358 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
71425304 AATAAGCTAT
** **
71425314 GTTGAAATGAATGAATTATT
1 GTTGAAATGAAAAAATTACC
71425334 GTTGAAATGAAAAAATTACC
1 GTTGAAATGAAAAAATTACC
71425354 GTTGA
1 GTTGA
71425359 TACGGATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.33
Consensus pattern (20 bp):
GTTGAAATGAAAAAATTACC
Found at i:71425426 original size:40 final size:40
Alignment explanation
Indices: 71425358--71425461 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
71425348 ATTACCGTTG
* * * *
71425358 ATACGGATGAATTACT-TTTGATATAGATAAATTAAT-GTT
1 ATACGAATGAATTACTAGTT-ATACAGATAAACTAATAGTT
*
71425397 ATTACGAATGAATTACTAGTTATACAGATAAACTACTAGTT
1 A-TACGAATGAATTACTAGTTATACAGATAAACTAATAGTT
*
71425438 ATATGAATGAATTAC-AGTTTATAC
1 ATACGAATGAATTACTAG-TTATAC
71425462 GAATAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
39 3 0.05
40 46 0.84
41 6 0.11
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (40 bp):
ATACGAATGAATTACTAGTTATACAGATAAACTAATAGTT
Found at i:71429889 original size:28 final size:28
Alignment explanation
Indices: 71429846--71430071 Score: 256
Period size: 28 Copynumber: 8.1 Consensus size: 28
71429836 GAACTCTTGT
* * *
71429846 TTGAAAGATACTCCATGCAGAATCATAC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
* * * *
71429874 TTAAAAGATAGTCCATGTAGACTATTGC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
*
71429902 TTGAAAGATAGTCTATGCAGACTCTTAC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
* *
71429930 TTGAAGGATAGTCCATGCAGACTCTTGC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
* * * *
71429958 TTGAAAGATAGTTCATGCGGTCTCTTTC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
* *
71429986 TTGAAAGGTAGTCCATGCAGAATCTTAC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
** *
71430014 TTGAAAGATAG-CCTATGTGGACTCTTGC
1 TTGAAAGATAGTCC-ATGCAGACTCTTAC
*
71430042 TTGAAAGGTAGTCCATGCAGACTCTTAC
1 TTGAAAGATAGTCCATGCAGACTCTTAC
71430070 TT
1 TT
71430072 CTTGCGTATG
Statistics
Matches: 161, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 2 0.01
28 157 0.98
29 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (28 bp):
TTGAAAGATAGTCCATGCAGACTCTTAC
Found at i:71433944 original size:53 final size:53
Alignment explanation
Indices: 71433763--71434009 Score: 220
Period size: 55 Copynumber: 4.7 Consensus size: 53
71433753 ATTAGGGTTT
* * *
71433763 AAGGATACCATGTAAGACCATGCCAATG-CATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGG-CATTGATAA-GTTTCTAAAGC
* * * * * *
71433818 AAGGATATCGTGTAAGACCATGTCAAGACTTGGAATTCATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCTA-AA-GC
* * *
71433873 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGATGAG-TTCATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTC-TAAAGC
* * * *
71433926 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC--AA--
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCTAAAGC
* *
71433975 AAGGATACCATGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
71434010 ACGGTAAGGT
Statistics
Matches: 159, Mismatches: 26, Indels: 20
0.78 0.13 0.10
Matches are distributed among these distances:
49 32 0.20
51 2 0.01
52 4 0.03
53 40 0.25
54 17 0.11
55 60 0.38
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCTAAAGC
Found at i:71437616 original size:6 final size:6
Alignment explanation
Indices: 71437605--71437638 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
71437595 ACAGAAAGAT
*
71437605 AAAATC AAAATC AAAATC AAAAT- AAAAAC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
71437639 AAATGAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:71437636 original size:11 final size:11
Alignment explanation
Indices: 71437603--71437641 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
71437593 TAACAGAAAG
71437603 ATAAAATCAAA
1 ATAAAATCAAA
71437614 ATCAAAATCAAA
1 AT-AAAATCAAA
*
71437626 ATAAAAACAAA
1 ATAAAATCAAA
71437637 ATAAA
1 ATAAA
71437642 TGAGATGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (11 bp):
ATAAAATCAAA
Found at i:71439246 original size:4 final size:4
Alignment explanation
Indices: 71439226--71439293 Score: 52
Period size: 4 Copynumber: 16.8 Consensus size: 4
71439216 AGTACTAATA
* *
71439226 AAAT -AAT AAAG AAAT AAAT AAAG AATAT AAATT AAATT AAATT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAA-T AAA-T AAA-T AAAT
*
71439273 AAAT -AAT AAA- AAAT AAGT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
71439294 AGGAAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
3 9 0.17
4 27 0.51
5 17 0.32
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:71452512 original size:43 final size:43
Alignment explanation
Indices: 71452368--71452534 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
71452358 GGTTATTGAG
** * *
71452368 ATGTGATTACATGTAAGACCATGTCCAGGACATTAGCATTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
71452410 ATTGAGATTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGA-T
* * * * *
71452454 AAT-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * *
71452497 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
71452535 TCTATGAGCT
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 9 0.09
43 89 0.87
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:71457807 original size:21 final size:21
Alignment explanation
Indices: 71457781--71457825 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
71457771 TGTTTTAGCC
*
71457781 AATTTTTAACATGAAAACTGG
1 AATTTTTAACATGAAAAATGG
71457802 AATTTTTAACATGAAAAATGG
1 AATTTTTAACATGAAAAATGG
71457823 AAT
1 AAT
71457826 CTATGTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (21 bp):
AATTTTTAACATGAAAAATGG
Found at i:71459746 original size:31 final size:33
Alignment explanation
Indices: 71459711--71459782 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
71459701 TTCTACTGTC
*
71459711 ATATTTTTTATTT-TTAAATT-TATTAAATAAT
1 ATATTTTTTATTTATTAAATTATATAAAATAAT
71459742 ATA-TTTTTATTTCATTAAATTAGTATAAAATAAT
1 ATATTTTTTATTT-ATTAAATTA-TATAAAATAAT
71459776 ATTATTT
1 A-TATTT
71459783 AAATTGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
30 9 0.26
31 3 0.09
32 7 0.21
34 11 0.32
35 2 0.06
36 2 0.06
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
ATATTTTTTATTTATTAAATTATATAAAATAAT
Found at i:71465011 original size:14 final size:14
Alignment explanation
Indices: 71464992--71465018 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71464982 TGAAACGAAT
71464992 ATGTCATGTTGAAC
1 ATGTCATGTTGAAC
71465006 ATGTCATGTTGAA
1 ATGTCATGTTGAA
71465019 TATGATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (14 bp):
ATGTCATGTTGAAC
Found at i:71465180 original size:223 final size:223
Alignment explanation
Indices: 71464792--71465210 Score: 802
Period size: 223 Copynumber: 1.9 Consensus size: 223
71464782 GTATTATATG
71464792 TGAATATGATTAAAGATTATACACACATATATATGAATATGTCATGTTGATTGAAGTTGAGATAG
1 TGAATATGATTAAAGATTATACACACATATATATGAATATGTCATGTTGATTGAAGTTGAGATAG
*
71464857 ACAAAGATTTATGAAATGTGATATACATATTAGTTGATGATGCAGGAAGCTATGTTGTGGGTTGA
66 ACAAAGATTTATGAAATGTGATATACATATTAGTTGATGATGCAGGAAGCTATGTTATGGGTTGA
*
71464922 ATGCGTCTTTTGACATAGTCATATTAAACTGTTAATTGGGATTATGATTCGATGTGGTAATGAAA
131 ATGCATCTTTTGACATAGTCATATTAAACTGTTAATTGGGATTATGATTCGATGTGGTAATGAAA
71464987 CGAATATGTCATGTTGAACATGTCATGT
196 CGAATATGTCATGTTGAACATGTCATGT
*
71465015 TGAATATGATTAAAGATTATACGCACATATATATGAATATGTCATGTTGATTGAAGTTGAGATAG
1 TGAATATGATTAAAGATTATACACACATATATATGAATATGTCATGTTGATTGAAGTTGAGATAG
*
71465080 ACAAAGATTTATGAAATGTGATATACATATTAGTTGATGATGTAGGAAGCTATGTTATGGGTTGA
66 ACAAAGATTTATGAAATGTGATATACATATTAGTTGATGATGCAGGAAGCTATGTTATGGGTTGA
71465145 ATGCATCTTTTGACATAGTCATATTAAACTGTTAATTGGGATTATGATTCGATGTGGTAATGAAA
131 ATGCATCTTTTGACATAGTCATATTAAACTGTTAATTGGGATTATGATTCGATGTGGTAATGAAA
71465210 C
196 C
71465211 TAATCACGTG
Statistics
Matches: 192, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 192 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.36
Consensus pattern (223 bp):
TGAATATGATTAAAGATTATACACACATATATATGAATATGTCATGTTGATTGAAGTTGAGATAG
ACAAAGATTTATGAAATGTGATATACATATTAGTTGATGATGCAGGAAGCTATGTTATGGGTTGA
ATGCATCTTTTGACATAGTCATATTAAACTGTTAATTGGGATTATGATTCGATGTGGTAATGAAA
CGAATATGTCATGTTGAACATGTCATGT
Found at i:71471719 original size:7 final size:7
Alignment explanation
Indices: 71471707--71471731 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71471697 AAAATATTCA
71471707 TCAAAAT
1 TCAAAAT
71471714 TCAAAAT
1 TCAAAAT
71471721 TCAAAAT
1 TCAAAAT
71471728 TCAA
1 TCAA
71471732 GCATGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
TCAAAAT
Found at i:71472121 original size:39 final size:39
Alignment explanation
Indices: 71472046--71472124 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
71472036 ATTTCTTATA
* * * *
71472046 TTATATACATATAATATGCATTTTATTATTATAACATAT
1 TTATATACATATAATATACATTTTAATATAAAAACATAT
*
71472085 TTATATACATA-AATTTACATATTTAATATAAAAACATAT
1 TTATATACATATAATATACAT-TTTAATATAAAAACATAT
71472124 T
1 T
71472125 AATCCTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 7 0.21
39 27 0.79
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.46
Consensus pattern (39 bp):
TTATATACATATAATATACATTTTAATATAAAAACATAT
Found at i:71473995 original size:25 final size:24
Alignment explanation
Indices: 71473942--71473995 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
71473932 TTTTAATCCT
71473942 TTTTAAATTTTTGTAGTTTATTTA
1 TTTTAAATTTTTGTAGTTTATTTA
*
71473966 TTTTAAATATTATT-TATTTTATTTA
1 TTTTAAAT-TT-TTGTAGTTTATTTA
71473991 TTTTA
1 TTTTA
71473996 CCATAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 17 0.63
26 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTTAAATTTTTGTAGTTTATTTA
Found at i:71474085 original size:17 final size:18
Alignment explanation
Indices: 71474029--71474086 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
71474019 AAAAAAATTA
*
71474029 TTATATATATTATTTTTAT
1 TTAT-TATATTATTTTCAT
*
71474048 TT-TTATATTATTTACATT
1 TTATTATATTATTTTCA-T
*
71474066 TTATTATA-TATTTTGAT
1 TTATTATATTATTTTCAT
71474083 TTAT
1 TTAT
71474087 ACATTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 16 0.48
18 10 0.30
19 7 0.21
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTATATTATTTTCAT
Found at i:71474096 original size:26 final size:26
Alignment explanation
Indices: 71474059--71474130 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 26
71474049 TTTATATTAT
*
71474059 TTACATTTTATTATATATTTTGATTTA
1 TTACATTTTATTATATATTTT-ATTCA
*
71474086 -TACATTTTATTATATATATTATTCA
1 TTACATTTTATTATATATTTTATTCA
*
71474111 TTATATTTTTATTATATATT
1 TTACA-TTTTATTATATATT
71474131 ATATAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.10
26 22 0.56
27 13 0.33
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (26 bp):
TTACATTTTATTATATATTTTATTCA
Found at i:71474097 original size:40 final size:41
Alignment explanation
Indices: 71474025--71474128 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 41
71474015 ATGTAAAAAA
* * ** *
71474025 ATTATTATATATATTATTTTTATTTTTATATTATTTACATT
1 ATTATTATATATTTTATTTATACATTTATATTATATACATT
*
71474066 -TTATTATATATTTTGATTTATACATTT-TATTATATATATT
1 ATTATTATATATTTT-ATTTATACATTTATATTATATACATT
71474106 ATTCATTATAT-TTTTATTATATA
1 ATT-ATTATATATTTTATT-TATA
71474129 TTATATAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
40 27 0.51
41 19 0.36
42 7 0.13
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (41 bp):
ATTATTATATATTTTATTTATACATTTATATTATATACATT
Found at i:71474113 original size:16 final size:14
Alignment explanation
Indices: 71474026--71474129 Score: 73
Period size: 13 Copynumber: 7.8 Consensus size: 14
71474016 TGTAAAAAAA
71474026 TTATTATATATATT
1 TTATTATATATATT
71474040 ATT-TT-TAT-T-TT
1 -TTATTATATATATT
* *
71474051 TATATTATTTACATT
1 T-TATTATATATATT
71474066 TTATTATATAT-TT
1 TTATTATATATATT
* *
71474079 TGATT-TATACATT
1 TTATTATATATATT
71474092 TTATTATATATA--
1 TTATTATATATATT
71474104 TTATTCAT-TATATTT
1 TTATT-ATATATA-TT
71474119 TTATTATATAT
1 TTATTATATAT
71474130 TATATAATTA
Statistics
Matches: 69, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
10 1 0.01
11 3 0.04
12 16 0.23
13 19 0.28
14 17 0.25
15 13 0.19
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (14 bp):
TTATTATATATATT
Found at i:71474139 original size:15 final size:13
Alignment explanation
Indices: 71474025--71474148 Score: 80
Period size: 12 Copynumber: 9.5 Consensus size: 13
71474015 ATGTAAAAAA
71474025 ATTATTA-TATAT
1 ATTATTATTATAT
* *
71474037 ATTATTTTTATTT
1 ATTATTATTATAT
* *
71474050 TTATATTATT-TAC
1 AT-TATTATTATAT
71474063 ATT-TTATTATAT
1 ATTATTATTATAT
*
71474075 ATT-TTGATTTATAC
1 ATTATT-A-TTATAT
71474089 ATT-TTATTATAT
1 ATTATTATTATAT
71474101 A-TATTATTCATTAT
1 ATTATTATT-A-TAT
*
71474115 ATTTTTATTATAT
1 ATTATTATTATAT
*
71474128 ATTATATAATTATCT
1 ATTAT-T-ATTATAT
71474143 ATTATT
1 ATTATT
71474149 TTTTATTAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
11 6 0.07
12 25 0.28
13 17 0.19
14 23 0.26
15 17 0.19
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (13 bp):
ATTATTATTATAT
Found at i:71474139 original size:26 final size:27
Alignment explanation
Indices: 71474050--71474140 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 27
71474040 ATTTTTATTT
*
71474050 TTATATTATT-TACATTTTATTATATA
1 TTATATAATTATACATTTTATTATATA
*
71474076 TT-T-TGATTTATACATTTTATTATATA
1 TTATAT-AATTATACATTTTATTATATA
* *
71474102 -TATTATTCATTATA-TTTTTATTATATA
1 TTA-TA-TAATTATACATTTTATTATATA
71474129 TTATATAATTAT
1 TTATATAATTAT
71474141 CTATTATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
24 1 0.02
25 4 0.08
26 24 0.46
27 15 0.29
28 7 0.13
29 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (27 bp):
TTATATAATTATACATTTTATTATATA
Found at i:71474140 original size:18 final size:16
Alignment explanation
Indices: 71474025--71474148 Score: 62
Period size: 14 Copynumber: 8.4 Consensus size: 16
71474015 ATGTAAAAAA
71474025 ATTATTATATA-TATT
1 ATTATTATATATTATT
71474040 ATT-TT-TAT-TT-TT
1 ATTATTATATATTATT
* *
71474052 A-TATTATTTA-CATT
1 ATTATTATATATTATT
71474066 -TTATTATATATT-TT
1 ATTATTATATATTATT
*
71474080 GA-T-TTATACATT-TT
1 -ATTATTATATATTATT
71474094 ATTA-TATATATTATT
1 ATTATTATATATTATT
*
71474109 CATTA-TAT-TTTTATT
1 -ATTATTATATATTATT
71474124 ATATATTATATAATTATCT
1 AT-TATTATAT-ATTAT-T
71474143 ATTATT
1 ATTATT
71474149 TTTTATTAGG
Statistics
Matches: 83, Mismatches: 8, Indels: 33
0.67 0.06 0.27
Matches are distributed among these distances:
11 1 0.01
12 5 0.06
13 7 0.08
14 34 0.41
15 14 0.17
16 10 0.12
17 1 0.01
18 8 0.10
19 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (16 bp):
ATTATTATATATTATT
Found at i:71474147 original size:25 final size:25
Alignment explanation
Indices: 71474066--71474148 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
71474056 TATTTACATT
* *
71474066 TTATTATATATT-TTGATTTATACATT
1 TTATTATATATTATT-AATTATAC-TA
* * *
71474092 TTATTATATATATTATTCATTATATTT
1 TTA-T-TATATATTATTAATTATACTA
71474119 TTATTATATATTATATAATTAT-CTA
1 TTATTATATATTAT-TAATTATACTA
71474144 TTATT
1 TTATT
71474149 TTTTATTAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
25 16 0.34
26 10 0.21
27 6 0.13
28 13 0.28
29 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
TTATTATATATTATTAATTATACTA
Found at i:71474152 original size:32 final size:34
Alignment explanation
Indices: 71474093--71474156 Score: 98
Period size: 32 Copynumber: 1.9 Consensus size: 34
71474083 TTATACATTT
71474093 TATTATATATATTATTCATTATATTTTTATTATA
1 TATTATATATATTATTCATTATATTTTTATTATA
71474127 TATTATATA-ATTA-TCTATTAT-TTTTTATTA
1 TATTATATATATTATTC-ATTATATTTTTATTA
71474157 GGTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 11 0.38
33 9 0.31
34 9 0.31
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTATATATATTATTCATTATATTTTTATTATA
Found at i:71486200 original size:44 final size:44
Alignment explanation
Indices: 71486135--71486682 Score: 387
Period size: 44 Copynumber: 12.5 Consensus size: 44
71486125 TTACCAATAT
* * * * *
71486135 CAGATTTAGCGTCTCTATATTGGTAGAGAGCAGATCGAAGATAA
1 CAGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* *
71486179 CAGATTTTGAGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * * *
71486223 CAGATTTGGTGTCTCTATATTAGCAGAGAACAAATCGAAGATAG
1 CAGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * * *
71486267 -AGGGTTTGGTGTCTCTGTATTGTCAAAGAGCAGATCGAAG-GAG
1 CA-GATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * * * *
71486310 CAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAA
1 CAGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* ** * *
71486354 CACACCTGGCA-TCTCTGTATTGACAGAGAGCAGATCAAAGATAG
1 CAGATTTGG-AGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * *
71486398 CTGATTTGGCA-TCTCTGTATTAGACGGGGAGCAGATCGAAGA-AG
1 CAGATTTGG-AGTCTCTGTATT-GGCAGAGAGCAGATCGAAGATAG
* * * * * *
71486442 CAGGTTTGGCA-TCTCTGTATTGACGGAGAGTAGATCAAAGAAAG
1 CAGATTTGG-AGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * *
71486486 CACATCTGGCA-TCTCTGTATTGACAGAGAACAGATCGAAGATAG
1 CAGATTTGG-AGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * * *
71486530 CTGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA-AG
1 CAGATTTGGAGTCTCTGTATT-GGCAGAGAGCAGATCGAAGATAG
* * * *
71486574 CAGATTT-AACGTCTCTGTATTGACGGAGAGCAGATCGAAGAAAG
1 CAGATTTGGA-GTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * * ** * *
71486618 CACATCTAGCA-TTTCTGTATTGATAGAAAGGAGATCGAAGATAG
1 CAGAT-TTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * *
71486662 CTGATTTGGCGTCTCTATATT
1 CAGATTTGGAGTCTCTGTATT
71486683 AGGCGGGGTG
Statistics
Matches: 408, Mismatches: 83, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
43 73 0.18
44 299 0.73
45 35 0.09
46 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
Found at i:71486284 original size:88 final size:88
Alignment explanation
Indices: 71486135--71486682 Score: 478
Period size: 88 Copynumber: 6.2 Consensus size: 88
71486125 TTACCAATAT
* * ** * *
71486135 CAGATTTAGCGTCTCTATATTGGTAGAGAGCAGATCGAAGATA-ACAGATTTTGAGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTAT
*
71486199 TGTCAGAGAGCAGATCGAAGATAG
65 TGACAGAGAGCAGATCGAAGATAG
* * * * * * *
71486223 CAGATTTGGTGTCTCTATATT-AGCAGAGAACAAATCGAAGATAGAGGGTTTGGTGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTGA-CAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTAT
* * *
71486287 TGTCAAAGAGCAGATCGAAG-GAG
65 TGACAGAGAGCAGATCGAAGATAG
* * * * ** *
71486310 CAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGA-AAACACACCTGGCATCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTAT
*
71486374 TGACAGAGAGCAGATCAAAGATAG
65 TGACAGAGAGCAGATCGAAGATAG
* * * * * * *
71486398 CTGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-AGCAGGTTTGGCATCTCTGTAT
1 CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTAT
* * * *
71486462 TGACGGAGAGTAGATCAAAGAAAG
65 TGACAGAGAGCAGATCGAAGATAG
* * * * **
71486486 CACATCTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATAGCTGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATT
* *
71486551 AGACGGGGAGCAGATCGAAGA-AG
66 -GACAGAGAGCAGATCGAAGATAG
** * * * * * * * *
71486574 CAGATTTAACGTCTCTGTATTGACGGAGAGCAGATCGAAGAAAGCACATCTAGCATTTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATT
* * *
71486639 GATAGAAAGGAGATCGAAGATAG
66 GACAGAGAGCAGATCGAAGATAG
* *
71486662 CTGATTTGGCGTCTCTATATT
1 CAGATTTGGCGTCTCTGTATT
71486683 AGGCGGGGTG
Statistics
Matches: 373, Mismatches: 78, Indels: 18
0.80 0.17 0.04
Matches are distributed among these distances:
86 2 0.01
87 96 0.26
88 238 0.64
89 37 0.10
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (88 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATT
GACAGAGAGCAGATCGAAGATAG
Found at i:71486477 original size:132 final size:132
Alignment explanation
Indices: 71486162--71486690 Score: 657
Period size: 132 Copynumber: 4.0 Consensus size: 132
71486152 TATTGGTAGA
* * * * * * * *
71486162 GAGCAGATCGAAGATAACAGATTTTGAGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGA
1 GAGCAGATCGAAGA-AGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGCACA
* ** * * * ** * * *
71486227 TTTGGTGTCTCTATATT-AGCAGAGAACAAATCGAAGATAGAGGGTTTGGTGTCTCTGTATT-GT
65 TCTGGCATCTCTGTATTGA-CAGAGAGCAGATCGAAGATAGCTGATTTGGCGTCTCTGTATTAGA
***
71486290 CAAA
129 CGGG
* * *
71486294 GAGCAGATCGAAGGAGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAACACAC
1 GAGCAGATCGAAGAAGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGCACAT
* *
71486359 CTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCATCTCTGTATTAGACG
66 CTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCTGATTTGGCGTCTCTGTATTAGACG
71486424 GG
131 GG
* * *
71486426 GAGCAGATCGAAGAAGCAGGTTTGGCATCTCTGTATTGACGGAGAGTAGATCAAAGAAAGCACAT
1 GAGCAGATCGAAGAAGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGCACAT
*
71486491 CTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATAGCTGATTTGGCGTCTCTGTATTAGACG
66 CTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCTGATTTGGCGTCTCTGTATTAGACG
71486556 GG
131 GG
** *
71486558 GAGCAGATCGAAGAAGCAGATTTAACGTCTCTGTATTGACGGAGAGCAGATCGAAGAAAGCACAT
1 GAGCAGATCGAAGAAGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGCACAT
* * * * * * *
71486623 CTAGCATTTCTGTATTGATAGAAAGGAGATCGAAGATAGCTGATTTGGCGTCTCTATATTAGGCG
66 CTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCTGATTTGGCGTCTCTGTATTAGACG
71486688 GG
131 GG
71486690 G
1 G
71486691 TGCAAAACAA
Statistics
Matches: 345, Mismatches: 50, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
131 87 0.25
132 258 0.75
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (132 bp):
GAGCAGATCGAAGAAGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGCACAT
CTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCTGATTTGGCGTCTCTGTATTAGACG
GG
Found at i:71488139 original size:25 final size:24
Alignment explanation
Indices: 71488086--71488139 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
71488076 TTTTAATCCT
*
71488086 TTTTAAATTTTTATAGTTTATTTA
1 TTTTAAATTTATATAGTTTATTTA
*
71488110 TTTTAAATATTATATATTTTATTTA
1 TTTTAAAT-TTATATAGTTTATTTA
71488135 TTTTA
1 TTTTA
71488140 CCATAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAATTTATATAGTTTATTTA
Found at i:71488227 original size:23 final size:25
Alignment explanation
Indices: 71488169--71488230 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
71488159 ATGTAAAAAA
71488169 TTTATTATATATATTATTTACA--T
1 TTTATTATATATATTATTTACATTT
* *
71488192 TTTATTATATATATTATTCATTATATT
1 TTTATTATATATATTATTTA-CAT-TT
71488219 TTTATTATATAT
1 TTTATTATATAT
71488231 TATATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 19 0.58
24 1 0.03
27 13 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTATATATATTATTTACATTT
Found at i:71488240 original size:15 final size:13
Alignment explanation
Indices: 71488170--71488249 Score: 69
Period size: 15 Copynumber: 6.2 Consensus size: 13
71488160 TGTAAAAAAT
71488170 TTATTATATA-TA
1 TTATTATATATTA
*
71488182 TTATT-TACATT-
1 TTATTATATATTA
71488193 TTATTATATA-TA
1 TTATTATATATTA
*
71488205 TTATTCATTATATTT
1 TTATT-A-TATATTA
71488220 TTATTATATATTA
1 TTATTATATATTA
*
71488233 TATAATTATCTATTA
1 T-T-ATTATATATTA
71488248 TT
1 TT
71488250 TTTTATTAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
11 9 0.16
12 14 0.25
13 8 0.15
14 7 0.13
15 17 0.31
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATATATTA
Found at i:71488241 original size:18 final size:16
Alignment explanation
Indices: 71488193--71488249 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
71488183 TATTTACATT
71488193 TTATTATATA-TATTA
1 TTATTATATATTATTA
*
71488208 TTCATTATATTTTTATTA
1 TT-ATTATA-TATTATTA
71488226 TATATTATATAATTATCTA
1 T-TATTATAT-ATTAT-TA
71488245 TTATT
1 TTATT
71488250 TTTTATTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.06
16 6 0.18
17 2 0.06
18 20 0.59
19 4 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATATTATTA
Found at i:71488253 original size:32 final size:34
Alignment explanation
Indices: 71488194--71488257 Score: 98
Period size: 32 Copynumber: 1.9 Consensus size: 34
71488184 ATTTACATTT
71488194 TATTATATATATTATTCATTATATTTTTATTATA
1 TATTATATATATTATTCATTATATTTTTATTATA
71488228 TATTATATA-ATTA-TCTATTAT-TTTTTATTA
1 TATTATATATATTATTC-ATTATATTTTTATTA
71488258 GGTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 11 0.38
33 9 0.31
34 9 0.31
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTATATATATTATTCATTATATTTTTATTATA
Found at i:71492505 original size:93 final size:92
Alignment explanation
Indices: 71492138--71492525 Score: 289
Period size: 93 Copynumber: 4.2 Consensus size: 92
71492128 ATCCACTGAG
* * * * * * * *
71492138 GGGTGTCTATTTTAAAATTATTGAAATTTGGCTAAGTTCCTTAAGAGACTAGTTGTGTCTCTTTT
1 GGGTGTCTACTTTAAAATTACTAAAATTTGGCTAAGTGCCTTAAGAGGCTAATAGTGT-TCTTCT
* *
71492203 ATTAACTTAGCGAGCAATGTCCA-CTAA
65 ATTAACTTAGCGAGCAATATCCATTTAA
* ** * * * * * * * * *
71492230 GGGGTGTTTTTTTTTAAATTATTGAAATTTGGCTAAGTGCCTTAATAAGTTAGCAT-TTTTTCTG
1 -GGGTGTCTACTTTAAAATTACTAAAATTTGGCTAAGTGCCTTAAGAGGCTA--ATAGTGTTCTT
* * * *
71492294 CTATTAACTTAGCAAGCAATATCCACTGAG
63 CTATTAACTTAGCGAGCAATATCCATTTAA
* * * * * *
71492324 GAGGT-TCTACTTTAACATTACTAAAATTTGGCGAAGTGCTTTAGGAGGCTAGTAATGTTTTCTT
1 G-GGTGTCTACTTTAAAATTACTAAAATTTGGCTAAGTGCCTTAAGAGGCTAAT-A-GTGTTCTT
* * * *
71492388 CTATTTACTTAG-AAGTAGTATCCATTTAA
63 CTATTAACTTAGCGAGCAATATCCATTTAA
* *
71492417 GGGTGCCTACTTTAAAATTACTAAAATTTGGCTAAGTGCCTTAAGAGGCTAATAGTGTTCATACT
1 GGGTGTCTACTTTAAAATTACTAAAATTTGGCTAAGTGCCTTAAGAGGCTAATAGTGTTC-TTCT
* *
71492482 ATTAACTTATCGAGCAATATCCATTAAA
65 ATTAACTTAGCGAGCAATATCCATTTAA
* * *
71492510 GGATGTTTGCTTTAAA
1 GGGTGTCTACTTTAAA
71492526 TTTTTTGTCA
Statistics
Matches: 227, Mismatches: 58, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
91 6 0.03
92 15 0.07
93 182 0.80
94 23 0.10
95 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (92 bp):
GGGTGTCTACTTTAAAATTACTAAAATTTGGCTAAGTGCCTTAAGAGGCTAATAGTGTTCTTCTA
TTAACTTAGCGAGCAATATCCATTTAA
Found at i:71497053 original size:44 final size:44
Alignment explanation
Indices: 71496932--71497096 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 44
71496922 ATGAGATTTG
* * *
71496932 TGTGCCAGTGTAACACCATGTCTGGGACATACATCGGCCT-CGAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTAGGAGA
* *
71496977 TGTTAGCCAGTATCAGACATGTCTGGGACATGCATCGGCTAGGAGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGGAGA
* * * *
71497023 TGTGCTAGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-GG--AGA
* *
71497069 TGTGTCAGTGTAAGACCTGTCTGGGACA
1 TGTGCCAGTGTAAGACATGTCTGGGACA
71497097 CGGCATCGAC
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 31 0.31
45 5 0.05
46 54 0.54
47 9 0.09
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGGAGA
Found at i:71503566 original size:29 final size:30
Alignment explanation
Indices: 71503494--71503567 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 30
71503484 ATTCTCAAGT
71503494 ATTTTATAGTATCTTT-TGTTATAATTTTAC
1 ATTTTATAGTAT-TTTATGTTATAATTTTAC
* *
71503524 ATTTTAT-GGATTTTATGTT-TGATTTTAGC
1 ATTTTATAGTATTTTATGTTATAATTTTA-C
71503553 -TTTTATAGTATTTTA
1 ATTTTATAGTATTTTA
71503568 ACACTTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 16 0.42
29 15 0.39
30 7 0.18
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (30 bp):
ATTTTATAGTATTTTATGTTATAATTTTAC
Found at i:71504125 original size:13 final size:13
Alignment explanation
Indices: 71504107--71504131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71504097 TCATTAGACA
71504107 TTTTTCTTTTCTC
1 TTTTTCTTTTCTC
71504120 TTTTTCTTTTCT
1 TTTTTCTTTTCT
71504132 TCTCTTCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:71505217 original size:13 final size:13
Alignment explanation
Indices: 71505199--71505223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71505189 GAGTTAACTA
71505199 TTTTTATTTTCTC
1 TTTTTATTTTCTC
71505212 TTTTTATTTTCT
1 TTTTTATTTTCT
71505224 TTTCTTCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTCTC
Found at i:71512175 original size:27 final size:28
Alignment explanation
Indices: 71512117--71512211 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 28
71512107 GTGGCATTTT
**
71512117 AATAGCCTTTGTGGCAAACTCTGAAATG
1 AATAGCCTTTGTGGTGAACTCTGAAATG
71512145 -ATAGCCTTTGTGGTGAACTCTGAAA-G
1 AATAGCCTTTGTGGTGAACTCTGAAATG
* *
71512171 AATAG-TTGTTATGGTGAACTCT-AAATG
1 AATAGCCT-TTGTGGTGAACTCTGAAATG
* *
71512198 GATTGCCTTTGTGG
1 AATAGCCTTTGTGG
71512212 CATACCCTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
26 5 0.09
27 49 0.89
28 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (28 bp):
AATAGCCTTTGTGGTGAACTCTGAAATG
Found at i:71516843 original size:16 final size:17
Alignment explanation
Indices: 71516816--71516850 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
71516806 TAGAATTGGG
71516816 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
71516833 TTGAG-AAATTATTTAA
1 TTGAGAAAATTATTTAA
71516849 TT
1 TT
71516851 TAAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:71518182 original size:20 final size:21
Alignment explanation
Indices: 71518153--71518192 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71518143 CAGAAGGCTA
71518153 TGGGAAAGAT-ACATAATGAG
1 TGGGAAAGATCACATAATGAG
* *
71518173 TGGGATAGATCATATAATGA
1 TGGGAAAGATCACATAATGA
71518193 TTTGTGGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (21 bp):
TGGGAAAGATCACATAATGAG
Found at i:71519182 original size:37 final size:37
Alignment explanation
Indices: 71519132--71519239 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
71519122 ACCTTTAGCT
* * * *
71519132 CGGACGAAATCTCCACACGAAGTTATCCGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
71519169 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
71519206 CGGGA-AAAATCTCCACACGTAGTCATCGGGTCTT
1 C-GGACAAAATCTCCACACGTAGTCATCGGGTCTT
71519240 TAGAGCTCGG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
37 63 0.95
38 3 0.05
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:71519579 original size:49 final size:47
Alignment explanation
Indices: 71519358--71519629 Score: 411
Period size: 47 Copynumber: 5.7 Consensus size: 47
71519348 CCCTTCGGGA
* * * * * *
71519358 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71519405 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71519452 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71519499 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71519546 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71519595 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
71519630 AGAATCCTAA
Statistics
Matches: 209, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 162 0.78
49 46 0.22
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71525026 original size:27 final size:27
Alignment explanation
Indices: 71524989--71525190 Score: 253
Period size: 27 Copynumber: 7.4 Consensus size: 27
71524979 TAAATTGTAC
71524989 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
71525016 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71525043 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71525069 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71525097 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71525125 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71525152 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71525179 AGCACTGAGTGT
1 AGCACTAAGTGT
71525191 ACGGACTCAA
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 130 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71527642 original size:41 final size:43
Alignment explanation
Indices: 71527597--71527686 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
71527587 TGAATATAAC
* * *
71527597 AATATAAATT-ACATAA-TACATATATAA-TAATATTTCATGCA
1 AATATAAATTAAAATAACAACATAAATAATTAAT-TTTCATGCA
* *
71527638 AATATAACTTAAAATAACAACATAAATAATTAATTTTCATGCG
1 AATATAAATTAAAATAACAACATAAATAATTAATTTTCATGCA
71527681 AATATA
1 AATATA
71527687 TAAAAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.22
42 5 0.12
43 23 0.56
44 4 0.10
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (43 bp):
AATATAAATTAAAATAACAACATAAATAATTAATTTTCATGCA
Found at i:71527709 original size:18 final size:18
Alignment explanation
Indices: 71527686--71527720 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
71527676 ATGCGAATAT
*
71527686 ATAAAAATAATAAATAAC
1 ATAAAAATAACAAATAAC
71527704 ATAAAAATAACAAATAA
1 ATAAAAATAACAAATAA
71527721 TTTATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAATAACAAATAAC
Found at i:71527903 original size:19 final size:20
Alignment explanation
Indices: 71527867--71527904 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
71527857 ATGAGGATTA
* *
71527867 AAAATTAAATATTGAAAGGT
1 AAAATAAAATAATGAAAGGT
71527887 AAAATAAAATAAT-AAAGG
1 AAAATAAAATAATGAAAGG
71527905 AAGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
AAAATAAAATAATGAAAGGT
Found at i:71528127 original size:14 final size:14
Alignment explanation
Indices: 71528108--71528257 Score: 51
Period size: 14 Copynumber: 10.1 Consensus size: 14
71528098 AATTATACAT
71528108 AATAATAAATAATA
1 AATAATAAATAATA
*
71528122 AATAATTATATAATA
1 AATAA-TAAATAATA
71528137 TATATAATAAAATAA-A
1 -A-ATAAT-AAATAATA
* *
71528153 AA-AA-ATATAATG
1 AATAATAAATAATA
* *
71528165 AACAATATATAATAA
1 AATAATAAATAAT-A
*
71528180 AATGTATAAATCAAAATA
1 AAT-AATAAAT---AATA
* *
71528198 TATAATAAA-ATGTA
1 AATAATAAATA-ATA
71528212 AATAATATAATAAATA
1 AATAATA-AAT-AATA
71528228 ATATAA-AAATAA-A
1 A-ATAATAAATAATA
71528241 AATAATATATATAATA
1 AATAATA-A-ATAATA
71528257 A
1 A
71528258 TTTTTACATA
Statistics
Matches: 102, Mismatches: 13, Indels: 40
0.66 0.08 0.26
Matches are distributed among these distances:
11 5 0.05
12 6 0.06
13 8 0.08
14 24 0.24
15 20 0.20
16 14 0.14
17 19 0.19
18 3 0.03
19 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (14 bp):
AATAATAAATAATA
Found at i:71528181 original size:26 final size:26
Alignment explanation
Indices: 71528148--71528257 Score: 77
Period size: 26 Copynumber: 4.3 Consensus size: 26
71528138 ATATAATAAA
*
71528148 ATAA-AAAAAATAT-AATGAACAATAT
1 ATAATAAAAAATATAAATCAA-AATAT
**
71528173 ATAATAAAATGTATAAATCAAAATAT
1 ATAATAAAAAATATAAATCAAAATAT
* * *
71528199 ATAAT--AAAATGTAAATAATATAATAA
1 ATAATAAAAAATATAAATCA-A-AATAT
* *
71528225 ATAATATAAAAATAAAAAT-AATATAT
1 ATAATA-AAAAATATAAATCAAAATAT
71528251 ATAATAA
1 ATAATAA
71528258 TTTTTACATA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
24 9 0.14
25 6 0.09
26 35 0.53
27 6 0.09
28 1 0.02
29 9 0.14
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (26 bp):
ATAATAAAAAATATAAATCAAAATAT
Found at i:71528339 original size:25 final size:25
Alignment explanation
Indices: 71528288--71528341 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
71528278 GTTTATAGTA
* * * *
71528288 AAAATAAATAAAATATATAATATTT
1 AAAATAAAAAAAATATAAAAAAATT
71528313 AAAATAAAAAAAATATAAAAAAATT
1 AAAATAAAAAAAATATAAAAAAATT
71528338 AAAA
1 AAAA
71528342 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAATAAAAAAAATATAAAAAAATT
Found at i:71528360 original size:20 final size:21
Alignment explanation
Indices: 71528288--71528362 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 21
71528278 GTTTATAGTA
*
71528288 AAAATAAATAAAATATATAATATTT
1 AAAATAAA-AAAA-ATATAA-A-AT
71528313 AAAATAAAAAAAATATAAAA-
1 AAAATAAAAAAAATATAAAAT
* **
71528333 AAATTAAAAAGGAT-TAAAAT
1 AAAATAAAAAAAATATAAAAT
71528353 AAAATAAAAA
1 AAAATAAAAA
71528363 TAAAACTCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.11
20 20 0.45
22 1 0.02
23 6 0.14
24 4 0.09
25 8 0.18
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (21 bp):
AAAATAAAAAAAATATAAAAT
Found at i:71529265 original size:20 final size:20
Alignment explanation
Indices: 71529240--71529281 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
71529230 TTATTTCTTA
71529240 CTATATTTGTATTGCCTCTG
1 CTATATTTGTATTGCCTCTG
71529260 CTATATTTGTATTGCCTCTG
1 CTATATTTGTATTGCCTCTG
71529280 CT
1 CT
71529282 GTTTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (20 bp):
CTATATTTGTATTGCCTCTG
Found at i:71530002 original size:69 final size:69
Alignment explanation
Indices: 71529891--71530105 Score: 297
Period size: 69 Copynumber: 3.1 Consensus size: 69
71529881 GCTATTCTCA
* *
71529891 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTTGATCTGTTTCGATACACGAAT
1 ATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAAT
71529956 GTCG
66 GTCG
* * *
71529960 ATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCTGTCATCTTCGATTTGCTTCGATACAGGAAT
1 ATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAAT
*
71530025 GTTG
66 GTCG
* * * * *
71530029 ATCCGCTGCCCGTTTAATACAA-AGACGCCAAATCTGTCATCTTTGATCTGCTTCAATACACGAA
1 ATCTGCTCCCCGTCTAATA-AAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAA
*
71530093 TGCCAG
65 TGTC-G
71530099 ATCTGCT
1 ATCTGCT
71530106 ATCTTCGATC
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
69 118 0.93
70 9 0.07
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (69 bp):
ATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAAT
GTCG
Found at i:71530103 original size:39 final size:39
Alignment explanation
Indices: 71530055--71530287 Score: 127
Period size: 39 Copynumber: 5.7 Consensus size: 39
71530045 ATACAAAGAC
71530055 GCCAAATCTG-TCATCTTTGATCTGCTTCAATACACGAAT
1 GCCAAATCTGCT-ATCTTTGATCTGCTTCAATACACGAAT
* * * *
71530094 GCCAGATCTGCTATCTTCGATCTACTCTCTGTCTAATACA-GAGAC
1 GCCAAATCTGCTATCTTTGA--T-CT-GCT-TC-AATACACGA-AT
* * *
71530139 GCCAAATCTG-TCATCTTTCATCTACTTCGATACACGAAT
1 GCCAAATCTGCT-ATCTTTGATCTGCTTCAATACACGAAT
* *
71530178 GTCAAATCTGCTAT-TTTCGATCTGCTCTCCATCTAATACA-GAGAC
1 GCCAAATCTGCTATCTTT-GATCTG--CT---TC-AATACACGA-AT
* * *
71530223 GCCGAATCT-ATCATCTTTGATCTGCTTCGATACACGAAT
1 GCCAAATCTGCT-ATCTTTGATCTGCTTCAATACACGAAT
* * *
71530262 GTCAGATCTGCTATCTTCGATCTGCT
1 GCCAAATCTGCTATCTTTGATCTGCT
71530288 ACACGAATGT
Statistics
Matches: 146, Mismatches: 25, Indels: 46
0.67 0.12 0.21
Matches are distributed among these distances:
38 3 0.02
39 62 0.42
40 11 0.08
41 5 0.03
42 4 0.03
43 5 0.03
44 10 0.07
45 43 0.29
46 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (39 bp):
GCCAAATCTGCTATCTTTGATCTGCTTCAATACACGAAT
Found at i:71530155 original size:45 final size:44
Alignment explanation
Indices: 71530043--71530699 Score: 215
Period size: 44 Copynumber: 15.5 Consensus size: 44
71530033 GCTGCCCGTT
* * *
71530043 TAATACAAAGACGCCAAATCTGTCATCTTTGA--T-CTGCT-TC
1 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCTGTC
* *
71530083 -AATACACGA-ATGCCAGATCTG-CTATCTTCGATCTACTCTCTGTC
1 TAATACA-GAGACGCCAAATCTGTC-ATCTTCGATCTACT-TCTGTC
71530127 TAATACAGAGACGCCAAATCTGTCATCTTTC-ATCTACTTC-G--
1 TAATACAGAGACGCCAAATCTGTCATC-TTCGATCTACTTCTGTC
* * * * **
71530168 --ATACACGA-ATGTCAAATCTG-CTATTTTCGATCTGCTCTCCATC
1 TAATACA-GAGACGCCAAATCTGTC-ATCTTCGATCTACT-TCTGTC
* * * *
71530211 TAATACAGAGACGCCGAATCTATCATCTTTGATCTGCTTC-G--
1 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCTGTC
* * *
71530252 --ATACACGA-ATGTCAGATCTG-CTATCTTCG----A--TCTG-C
1 TAATACA-GAGACGCCAAATCTGTC-ATCTTCGATCTACTTCTGTC
* * * * * *
71530287 T-ACAC-GA-ATGTCAGATCTG-CTATTTTCGATCTGC-TCTTCGTC
1 TAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTACTTC-T-GTC
71530329 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTCTCTGTC
1 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACT-TCTGTC
* * * * * *
71530374 -AATATAGAGACACCAAATTTG-CTACCTTCGATCTGCCTTTTGTC
1 TAATACAGAGACGCCAAATCTGTC-ATCTTCGATCT-ACTTCTGTC
* * * *
71530418 -AATACAGAGACGCCAAATCTGTTATCTTCGATTTGCTCTCTATC
1 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACT-TCTGTC
* * *
71530462 -AATACAGAGACGCCAAATCTG-CTATCTTCGATTTTCCCTCTGTC
1 TAATACAGAGACGCCAAATCTGTC-ATCTTCGA-TCTACTTCTGTC
* * * * *
71530506 -AATACAAAGACGCCAAATCTATTATCTTTGATCTGCTTC-G--
1 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCTGTC
* * * * *
71530546 --ATACACGA-ATGTCAGATCTG-CTATCTTCGATCTACTCCCCGTC
1 TAATACA-GAGACGCCAAATCTGTC-ATCTTCGATCTACT-TCTGTC
* * * * * * *
71530589 CAATATAGAGATGCCAAATATGTCGTCTTTGATCTGCTTTCTGTC
1 TAATACAGAGACGCCAAATCTGTCATCTTCGATCTAC-TTCTGTC
* * * * **
71530634 -AATACAGAGACGCCAAATCTG-CTATCATCAATCTGCTCCCCATC
1 TAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTACT-TCTGTC
71530678 TAATACAGAGACGCCAAATCTG
1 TAATACAGAGACGCCAAATCTG
71530700 CTATCGGTGA
Statistics
Matches: 466, Mismatches: 89, Indels: 119
0.69 0.13 0.18
Matches are distributed among these distances:
33 2 0.00
34 23 0.05
36 3 0.01
38 6 0.01
39 91 0.20
40 10 0.02
41 3 0.01
42 5 0.01
43 16 0.03
44 168 0.36
45 128 0.27
46 9 0.02
47 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (44 bp):
TAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCTGTC
Found at i:71530285 original size:84 final size:84
Alignment explanation
Indices: 71530043--71530287 Score: 382
Period size: 84 Copynumber: 2.9 Consensus size: 84
71530033 GCTGCCCGTT
* * *
71530043 TAATACAAAGACGCCAAATCTGTCATCTTTGATCTGCTTCAATACACGAATGCCAGATCTGCTAT
1 TAATACAGAGACGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAATGTCAGATCTGCTAT
* **
71530108 CTTCGATCTACTCTCTGTC
66 CTTCGATCTGCTCTCCATC
* * *
71530127 TAATACAGAGACGCCAAATCTGTCATCTTTCATCTACTTCGATACACGAATGTCAAATCTGCTAT
1 TAATACAGAGACGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAATGTCAGATCTGCTAT
*
71530192 TTTCGATCTGCTCTCCATC
66 CTTCGATCTGCTCTCCATC
* *
71530211 TAATACAGAGACGCCGAATCTATCATCTTTGATCTGCTTCGATACACGAATGTCAGATCTGCTAT
1 TAATACAGAGACGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAATGTCAGATCTGCTAT
71530276 CTTCGATCTGCT
66 CTTCGATCTGCT
71530288 ACACGAATGT
Statistics
Matches: 145, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 145 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (84 bp):
TAATACAGAGACGCCAAATCTGTCATCTTTGATCTGCTTCGATACACGAATGTCAGATCTGCTAT
CTTCGATCTGCTCTCCATC
Found at i:71530291 original size:34 final size:34
Alignment explanation
Indices: 71530253--71530321 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
71530243 TCTGCTTCGA
71530253 TACACGAATGTCAGATCTGCTATCTTCGATCTGC
1 TACACGAATGTCAGATCTGCTATCTTCGATCTGC
*
71530287 TACACGAATGTCAGATCTGCTATTTTCGATCTGC
1 TACACGAATGTCAGATCTGCTATCTTCGATCTGC
71530321 T
1 T
71530322 CTTCGTCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (34 bp):
TACACGAATGTCAGATCTGCTATCTTCGATCTGC
Found at i:71530305 original size:20 final size:20
Alignment explanation
Indices: 71530253--71530308 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
71530243 TCTGCTTCGA
71530253 TACACGAATGTCAGATCTGC
1 TACACGAATGTCAGATCTGC
*
71530273 TA-TC---T-TC-GATCTGC
1 TACACGAATGTCAGATCTGC
71530287 TACACGAATGTCAGATCTGC
1 TACACGAATGTCAGATCTGC
71530307 TA
1 TA
71530309 TTTTCGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 1 0.04
18 1 0.04
19 3 0.11
20 11 0.39
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (20 bp):
TACACGAATGTCAGATCTGC
Found at i:71530403 original size:44 final size:44
Alignment explanation
Indices: 71530301--71530704 Score: 360
Period size: 44 Copynumber: 9.2 Consensus size: 44
71530291 CGAATGTCAG
*
71530301 ATCTGCTATTTTCGATCTGCTCT-TCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCT-GTC-AATACAGAGACGCCAA
* * *
71530346 ATCTG-TCATCTTCGATCTACTCTCTGTCAATATAGAGACACCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
71530390 ATTTGCTACCTTCGATCTGC-CTTTTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTC-TCTGTCAATACAGAGACGCCAA
* * *
71530434 ATCTGTTATCTTCGATTTGCTCTCTATCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
71530478 ATCTGCTATCTTCGATTTTCCCTCTGTCAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
** * * * *
71530522 ATCTATTATCTTTGATCTGCT-TC-G---ATACACGA-ATGTCAG
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACA-GAGACGCCAA
* * * * *
71530561 ATCTGCTATCTTCGATCTACTCCCCGTCCAATATAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGT-CAATACAGAGACGCCAA
* * * *
71530606 ATATG-TCGTCTTTGATCTGCTTTCTGTCAATACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * **
71530650 ATCTGCTATCATCAATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAA
71530695 ATCTGCTATC
1 ATCTGCTATC
71530705 GGTGATCTAC
Statistics
Matches: 286, Mismatches: 57, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
39 26 0.09
40 2 0.01
41 1 0.00
42 1 0.00
43 3 0.01
44 174 0.61
45 78 0.27
46 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:71542727 original size:26 final size:26
Alignment explanation
Indices: 71542670--71542761 Score: 84
Period size: 26 Copynumber: 3.5 Consensus size: 26
71542660 AATATAATGA
*
71542670 ATAATATATAATAAAATGTGTAAATCA-
1 ATAATATATAATAAAA--TGTAAATAAT
71542697 A-AATATATAATAAAATGTAAATAAT
1 ATAATATATAATAAAATGTAAATAAT
*
71542722 ATAATAAATATATATAAAAT-AAAATAAT
1 ATAAT--ATATA-ATAAAATGTAAATAAT
71542750 AT-ATATAATAAT
1 ATAATAT-ATAAT
71542762 TTTACATACA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
24 8 0.14
25 5 0.09
26 20 0.35
27 3 0.05
28 14 0.25
29 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (26 bp):
ATAATATATAATAAAATGTAAATAAT
Found at i:71542732 original size:28 final size:29
Alignment explanation
Indices: 71542627--71542759 Score: 100
Period size: 28 Copynumber: 4.6 Consensus size: 29
71542617 ATAATAATAA
* *
71542627 TAAATAAT-TATATAGTATATAATAAAATA
1 TAAATAATATA-ATAATATATAATAAAATG
* *
71542656 AAAAAATATAATGAATAATATATAATAAAATG
1 TAAATA-AT-AT-AATAATATATAATAAAATG
*
71542688 T--GTAA-ATCAA-AATATATAATAAAATG
1 TAAATAATAT-AATAATATATAATAAAATG
71542714 TAAATAATATAATAA-ATATATATAAAAT-
1 TAAATAATATAATAATATATA-ATAAAATG
*
71542742 AAAATAATATATATAATA
1 TAAATAATATA-ATAATA
71542760 ATTTTACATA
Statistics
Matches: 83, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
26 17 0.20
27 4 0.05
28 20 0.24
29 20 0.24
30 4 0.05
32 17 0.20
33 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (29 bp):
TAAATAATATAATAATATATAATAAAATG
Found at i:71542738 original size:13 final size:12
Alignment explanation
Indices: 71542616--71542761 Score: 50
Period size: 12 Copynumber: 11.5 Consensus size: 12
71542606 AATTATACAT
71542616 AATAATAATAATA
1 AATAAT-ATAATA
71542629 AATAATTATATAGTA
1 AATAA-TATA-A-TA
* *
71542644 TATAATAAAATAA
1 AATAATATAAT-A
* *
71542657 AAAAATATAATG
1 AATAATATAATA
71542669 AATAATAT-AT-
1 AATAATATAATA
* **
71542679 AATAAAATGTGTA
1 AATAATAT-AATA
*
71542692 AATCAAAAT-ATA
1 AAT-AATATAATA
* *
71542704 TAATAAAAT-GTA
1 -AATAATATAATA
71542716 AATAATATAATA
1 AATAATATAATA
71542728 AATATATATAAAATAA
1 AATA-ATAT--AAT-A
71542744 AATAATAT-ATA
1 AATAATATAATA
71542755 TAATAAT
1 -AATAAT
71542762 TTTACATACA
Statistics
Matches: 105, Mismatches: 13, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
10 7 0.07
11 10 0.10
12 32 0.30
13 28 0.27
14 10 0.10
15 13 0.12
16 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (12 bp):
AATAATATAATA
Found at i:71542741 original size:23 final size:22
Alignment explanation
Indices: 71542715--71542760 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
71542705 AATAAAATGT
*
71542715 AAATAATATAATAAATATATATA
1 AAATAAAATAATAAATATA-ATA
*
71542738 AAATAAAATAATATATATAATA
1 AAATAAAATAATAAATATAATA
71542760 A
1 A
71542761 TTTTACATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAAATAATAAATATAATA
Found at i:71542753 original size:17 final size:16
Alignment explanation
Indices: 71542691--71542760 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
71542681 TAAAATGTGT
71542691 AAATCAAAATATATAATA
1 AAAT-AAAATATAT-ATA
*
71542709 AAATGTAAATA-ATAT-
1 AAAT-AAAATATATATA
71542724 -AAT-AAATATATATA
1 AAATAAAATATATATA
71542738 AAATAAAATAATATATA
1 AAATAAAAT-ATATATA
*
71542755 TAATAA
1 AAATAA
71542761 TTTTACATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 5 0.11
13 4 0.09
14 3 0.07
15 3 0.07
16 6 0.14
17 14 0.32
18 9 0.20
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (16 bp):
AAATAAAATATATATA
Found at i:71542760 original size:40 final size:40
Alignment explanation
Indices: 71542614--71542761 Score: 99
Period size: 39 Copynumber: 3.5 Consensus size: 40
71542604 AAAATTATAC
*
71542614 ATAATAATAATA-ATAAATAAT-T-ATATAGTATATAATAAA
1 ATAATAATAATATATAAATAATATAATA-AATATAT-ATAAA
* * * *
71542653 ATAA-AAAAATATAATGAATAATATATAATAAAATGTGTAAATCAAA
1 ATAATAATAATAT-ATAAAT-A-ATATAAT-AAA--TATATAT-AAA
* *
71542699 ATATATAATAAAATGTAAATAATATAATAAATATATATAAA
1 ATA-ATAATAATATATAAATAATATAATAAATATATATAAA
71542740 ATAA-AATAATATATATAATAAT
1 ATAATAATAATATATA-AATAAT
71542762 TTTACATACA
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
38 6 0.07
39 13 0.16
40 12 0.14
41 7 0.08
42 7 0.08
43 1 0.01
44 6 0.07
45 10 0.12
46 10 0.12
47 5 0.06
48 6 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (40 bp):
ATAATAATAATATATAAATAATATAATAAATATATATAAA
Found at i:71542843 original size:25 final size:25
Alignment explanation
Indices: 71542788--71542843 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
71542778 ATGTTTATAG
* *
71542788 TAAAAATAAATAATATTTATAATAT
1 TAAAAATAAATAATATTTAAAAAAT
*
71542813 TTAAAATAAATAA-ATTATAAAAAAT
1 TAAAAATAAATAATATT-TAAAAAAT
71542838 TAAAAA
1 TAAAAA
71542844 GGATTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAATAAATAATATTTAAAAAAT
Found at i:71544318 original size:46 final size:48
Alignment explanation
Indices: 71544214--71544333 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
71544204 TGTCTTCGAC
** * *
71544214 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
71544262 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
71544308 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
71544334 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:71548634 original size:46 final size:48
Alignment explanation
Indices: 71548546--71548648 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
71548536 TACATGAATT
* * * *
71548546 ATTCCTGTCTCTAATGCCATATATATATAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATAATATGGACCTACATGGCTC
*
71548594 ATTCCTGTCTCCAAAGCCATATA-A-CTAATATGGACCTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATAATATGGACCTACATGGCTC
*
71548640 ATTTCTGTC
1 ATTCCTGTC
71548649 CTGTCCTGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (48 bp):
ATTCCTGTCTCCAAAGCCATATATATATAATATGGACCTACATGGCTC
Found at i:71551490 original size:28 final size:28
Alignment explanation
Indices: 71551458--71551513 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
71551448 GGTGTTTGCA
**
71551458 ATACTATTAGTGGATAAGTGTATGGTAT
1 ATACTATTAGCAGATAAGTGTATGGTAT
*
71551486 ATACTATTAGCAGATAAGTTTATGGTAT
1 ATACTATTAGCAGATAAGTGTATGGTAT
71551514 TGCATAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (28 bp):
ATACTATTAGCAGATAAGTGTATGGTAT
Found at i:71560051 original size:17 final size:17
Alignment explanation
Indices: 71560031--71560063 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71560021 ATTAAGAATG
71560031 TTATTAAATCATATTTT
1 TTATTAAATCATATTTT
*
71560048 TTATTAAATTATATTT
1 TTATTAAATCATATTT
71560064 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATCATATTTT
Found at i:71560067 original size:55 final size:56
Alignment explanation
Indices: 71560008--71560141 Score: 157
Period size: 58 Copynumber: 2.4 Consensus size: 56
71559998 TTAATTCATA
* *
71560008 TAATAATAATTATATTAAGAATGTTATTAAATCA-TA-T-TTTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAATCATTATTATTTTTATTAAATTAT-TT
* * *
71560063 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTT
1 TAATAATAATTATATTAAAATATGATTAAATCA-TTATTATTTTTATTAAATTATTT
*
71560120 TCAATAATAATTTTATTAAAAT
1 T-AATAATAATTATATTAAAAT
71560142 TTAATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
54 11 0.16
55 17 0.25
56 2 0.03
57 4 0.06
58 33 0.49
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (56 bp):
TAATAATAATTATATTAAAATATGATTAAATCATTATTATTTTTATTAAATTATTT
Found at i:71560336 original size:16 final size:16
Alignment explanation
Indices: 71560311--71560354 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
71560301 ACAATTAAAT
71560311 TATT-TATTACATA-TC
1 TATTCTATTACA-AGTC
71560326 TATTCTATTACAAGTC
1 TATTCTATTACAAGTC
71560342 TATTCTATTACAA
1 TATTCTATTACAA
71560355 CTATATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (16 bp):
TATTCTATTACAAGTC
Done.