Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 110 of 328
Found at i:30966841 original size:16 final size:16
Alignment explanation
Indices: 30966820--30966855 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30966810 AATGAAAGAG
*
30966820 AGAAATGAATTCATTT
1 AGAAATGAAATCATTT
30966836 AGAAATGAAATCATTT
1 AGAAATGAAATCATTT
30966852 AGAA
1 AGAA
30966856 TTCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.31
Consensus pattern (16 bp):
AGAAATGAAATCATTT
Found at i:30972131 original size:30 final size:30
Alignment explanation
Indices: 30972097--30972157 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30972087 TCCTTAACTC
30972097 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30972127 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30972157 A
1 A
30972158 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30974028 original size:21 final size:21
Alignment explanation
Indices: 30973980--30974058 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
30973970 TAGTGTGAAT
* *
30973980 CAGAGACACTGAAGTG--TAA
1 CAGAGGCACCGAAGTGCATAA
*
30973999 CAAAGGCACCGAAGTGCATAA
1 CAGAGGCACCGAAGTGCATAA
** *
30974020 GTGAGGCACCAAAGTGCATAA
1 CAGAGGCACCGAAGTGCATAA
*
30974041 CAGAGGCACTGAAGTGCA
1 CAGAGGCACCGAAGTGCA
30974059 AATCCCGTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
19 13 0.28
21 34 0.72
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (21 bp):
CAGAGGCACCGAAGTGCATAA
Found at i:30974785 original size:26 final size:26
Alignment explanation
Indices: 30974748--30974805 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
30974738 TGATACAAAT
30974748 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30974774 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30974800 TGATAA
1 TGATAA
30974806 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30981203 original size:39 final size:39
Alignment explanation
Indices: 30981149--30981274 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
30981139 TTCAGTGATG
30981149 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
30981188 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* ** * *
30981227 TATATCCGGGCTTAATGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
30981266 TATGTCCGG
1 TATATCCGG
30981275 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:30981275 original size:39 final size:39
Alignment explanation
Indices: 30981149--30981344 Score: 191
Period size: 39 Copynumber: 5.0 Consensus size: 39
30981139 TTCAGTGATG
* ** *
30981149 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGGCTTAAAGTCCGCAGGCTACGTGCTGGAAT
* ** *
30981188 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGGCTTAAAGTCCGCAGGCTACGTGCTGGAAT
* *
30981227 TATATCCGGGCTTAATGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGGCTTAAAGTCCGCAGGCTACGTGCTGGAAT
* * * *
30981266 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGGCTTAAAGT-CCGCAGGCTACGTGCTGGAAT
* * *
30981305 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGGCTTAAAGT-CCGCAGGCTACGTGCTGG-AAT
30981344 T
1 T
30981345 GGTTTCAAGT
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
38 16 0.12
39 121 0.88
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGGCTTAAAGTCCGCAGGCTACGTGCTGGAAT
Found at i:30982915 original size:13 final size:13
Alignment explanation
Indices: 30982897--30982952 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 13
30982887 TAAATAATTC
30982897 AAAAAATTTAGAA-
1 AAAAAATTTA-AAT
30982910 AAAAAATTTTAAAT
1 AAAAAA-TTTAAAT
30982924 AAAAAATTATAAAAT
1 AAAAAATT-T-AAAT
*
30982939 ATATAAATTTAAAT
1 A-AAAAATTTAAAT
30982953 TTAAAAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 10 0.27
14 15 0.41
15 6 0.16
16 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
AAAAAATTTAAAT
Found at i:30983010 original size:17 final size:18
Alignment explanation
Indices: 30982988--30983027 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 18
30982978 AATTTGAAAA
30982988 AAAAATCAAAA-TTATAT
1 AAAAATCAAAAGTTATAT
30983005 AAAAATCAAAATGTTATAT
1 AAAAATCAAAA-GTTATAT
30983024 AAAA
1 AAAA
30983028 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAATCAAAAGTTATAT
Found at i:30983246 original size:20 final size:20
Alignment explanation
Indices: 30983211--30983253 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
30983201 AATATTTTAA
*
30983211 TAAAATATTAAGAGTATTACT
1 TAAAATATTAAAAGTATTA-T
30983232 TAAAAT-TTAAAAGTATTAT
1 TAAAATATTAAAAGTATTAT
30983251 TAA
1 TAA
30983254 TGTTAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (20 bp):
TAAAATATTAAAAGTATTAT
Found at i:30990987 original size:2 final size:2
Alignment explanation
Indices: 30990980--30991030 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
30990970 CTTTTTGTCT
30990980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30991022 TA TA TA TA T
1 TA TA TA TA T
30991031 TTTAAAGTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30992813 original size:25 final size:27
Alignment explanation
Indices: 30992762--30992822 Score: 90
Period size: 25 Copynumber: 2.3 Consensus size: 27
30992752 TGGAAATCAG
* *
30992762 ATTCATAATTATATGTATTTATGACAC
1 ATTCATAATAATATGTATTTATAACAC
30992789 ATTCATAA-AATAT-TATTTATAACAC
1 ATTCATAATAATATGTATTTATAACAC
30992814 ATTCATAAT
1 ATTCATAAT
30992823 GCTTAACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 19 0.61
26 4 0.13
27 8 0.26
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (27 bp):
ATTCATAATAATATGTATTTATAACAC
Found at i:30998140 original size:10 final size:12
Alignment explanation
Indices: 30998117--30998171 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
30998107 TGAATCCACC
30998117 AAAAAATTATAT
1 AAAAAATTATAT
*
30998129 AAAAAATAATA-
1 AAAAAATTATAT
30998140 AACAAAATT-TAT
1 AA-AAAATTATAT
30998152 AAAAAGGAATTATAT
1 -AAAA--AATTATAT
30998167 AAAAA
1 AAAAA
30998172 TAATAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
11 4 0.11
12 18 0.51
13 2 0.06
14 8 0.23
15 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:30998193 original size:37 final size:38
Alignment explanation
Indices: 30998121--30998194 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
30998111 TCCACCAAAA
30998121 AATTATATAAAAAATAATAAACAAAATTTATAAAAAGG
1 AATTATATAAAAAATAATAAACAAAATTTATAAAAAGG
* *
30998159 AATTATAT-AAAAATAATAATATACAATTTA-AAAAAG
1 AATTATATAAAAAATAATAA-ACAAAATTTATAAAAAG
30998195 AAAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 17 0.52
38 16 0.48
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (38 bp):
AATTATATAAAAAATAATAAACAAAATTTATAAAAAGG
Found at i:31002347 original size:2 final size:2
Alignment explanation
Indices: 31002340--31002369 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31002330 ATTAGTATTT
31002340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31002370 GCTATTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31010257 original size:31 final size:31
Alignment explanation
Indices: 31010222--31010281 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
31010212 TTTACGAAAG
31010222 TAATTCAACCAACTACTTTGTCCAATGACTT
1 TAATTCAACCAACTACTTTGTCCAATGACTT
* *
31010253 TAATTCAATCAACTGCTTTGTCCAATGAC
1 TAATTCAACCAACTACTTTGTCCAATGAC
31010282 CTCGCCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (31 bp):
TAATTCAACCAACTACTTTGTCCAATGACTT
Found at i:31022740 original size:12 final size:12
Alignment explanation
Indices: 31022723--31022755 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
31022713 AGAATATTTC
31022723 ATTTTTTAATTA
1 ATTTTTTAATTA
31022735 ATTTTTTAATTA
1 ATTTTTTAATTA
*
31022747 ATTCTTTAA
1 ATTTTTTAA
31022756 AATATTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTTTAATTA
Found at i:31023148 original size:113 final size:113
Alignment explanation
Indices: 31023011--31023224 Score: 270
Period size: 112 Copynumber: 1.9 Consensus size: 113
31023001 AATATAAATA
* * * * * * *
31023011 TATATATATATATATTATAAGGTCTTAGGCTTCTAATTGATCCGGGCAGCCTAATTTTTTTACAC
1 TATATATATATATATTACAAGGTCTCAGGC-TCCAACTAATCCGGGCAGCCTAAATTTTTGACAC
**
31023076 ATGGTATACTCATTTTGTTGACATGTGAT-AATTGTTTATACAACTAATT
65 ATGACATACTCATTTTGTTGACATGTG-TCAATTGTTTATACAACTAATT
* * **
31023125 TATATAT-TATATATTACAAGGTCTCAGTCTCCAGCTAATGTGGGCAGCCTAAATTTTTGACACA
1 TATATATATATATATTACAAGGTCTCAGGCTCCAACTAATCCGGGCAGCCTAAATTTTTGACACA
*
31023189 TGACATACTTATTTTGTTGACATGTGTCAATTGTTT
66 TGACATACTCATTTTGTTGACATGTGTCAATTGTTT
31023225 TGATGGTCAC
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
111 1 0.01
112 58 0.68
113 19 0.22
114 7 0.08
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (113 bp):
TATATATATATATATTACAAGGTCTCAGGCTCCAACTAATCCGGGCAGCCTAAATTTTTGACACA
TGACATACTCATTTTGTTGACATGTGTCAATTGTTTATACAACTAATT
Found at i:31025097 original size:69 final size:69
Alignment explanation
Indices: 31025017--31025151 Score: 234
Period size: 69 Copynumber: 2.0 Consensus size: 69
31025007 TACATCAATC
*
31025017 GAAACTATTCAAGAATAACAGGAGCTTCTTCTCAAAATATGAATTTAACTGTTCAAGCTCAATTA
1 GAAACTATTCAAGAATAACACGAGCTTCTTCTCAAAATATGAATTTAACTGTTCAAGCTCAATTA
31025082 AATT
66 AATT
* * *
31025086 GAAACTATTCAAGAATAACACGAGCTTTTTCTCAAAATATGAATTTAATTGTTCAAGCTTAATTA
1 GAAACTATTCAAGAATAACACGAGCTTCTTCTCAAAATATGAATTTAACTGTTCAAGCTCAATTA
31025151 A
66 A
31025152 CAAATAACTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (69 bp):
GAAACTATTCAAGAATAACACGAGCTTCTTCTCAAAATATGAATTTAACTGTTCAAGCTCAATTA
AATT
Found at i:31026181 original size:6 final size:6
Alignment explanation
Indices: 31026170--31026196 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31026160 GAAGTCTAAG
31026170 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
31026197 CAAATGGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:31027858 original size:47 final size:47
Alignment explanation
Indices: 31027760--31027887 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
31027750 AATCGATAAG
* * * * *
31027760 TACCTATACCATGGCCCATAGCCAAATCAATGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
* * * *
31027807 TACCTATACCATGGCCCGTAGCTAAATCAAGGTAACTCCTCTCTAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
* *
31027854 TACCTATACCATGGCCTGTAACCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
31027888 TTTTTGCACC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
Found at i:31035368 original size:6 final size:6
Alignment explanation
Indices: 31035350--31035388 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
31035340 ATTTTTATAA
* *
31035350 AAATTT AATTTT AAATTT AAATTT AAATTT AAAGTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
31035389 CAAATATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:31035779 original size:19 final size:18
Alignment explanation
Indices: 31035745--31035795 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
31035735 GTTTTGAGTT
31035745 TTTA-TTTATTTATATT-
1 TTTAGTTTATTTATATTC
31035761 TTTAAGTTTATTATATATTC
1 TTT-AGTTTATT-TATATTC
*
31035781 TTTAGTTTTTTTATA
1 TTTAGTTTATTTATA
31035796 ACTTTTTGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.10
17 1 0.03
18 10 0.33
19 13 0.43
20 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (18 bp):
TTTAGTTTATTTATATTC
Found at i:31038094 original size:15 final size:15
Alignment explanation
Indices: 31038074--31038149 Score: 113
Period size: 15 Copynumber: 5.3 Consensus size: 15
31038064 CATACTTAAG
31038074 TAGGGTTTGCACATA
1 TAGGGTTTGCACATA
*
31038089 TAGGGTTTGCTCATA
1 TAGGGTTTGCACATA
31038104 T-GGGTTTGCACATA
1 TAGGGTTTGCACATA
*
31038118 CAGGGTTTGCACATA
1 TAGGGTTTGCACATA
31038133 T--GGTTTGCACATA
1 TAGGGTTTGCACATA
31038146 TAGG
1 TAGG
31038150 TTCACACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
13 13 0.24
14 12 0.22
15 29 0.54
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
TAGGGTTTGCACATA
Found at i:31038122 original size:29 final size:29
Alignment explanation
Indices: 31038076--31038188 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 29
31038066 TACTTAAGTA
* *
31038076 GGGTTTGCACATATAGGGTTTGCTCATAT
1 GGGTTTGCACATACAGGGTTTGCACATAT
31038105 GGGTTTGCACATACAGGGTTTGCACATAT
1 GGGTTTGCACATACAGGGTTTGCACATAT
* ** *
31038134 -GGTTTGCACATATA-GGTTCACACCTA-
1 GGGTTTGCACATACAGGGTTTGCACATAT
* * *
31038160 AGGTTTCGCACAAACAGGGTTCGCACATA
1 GGGTTT-GCACATACAGGGTTTGCACATA
31038189 GTTTGTATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.20
28 20 0.28
29 37 0.52
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (29 bp):
GGGTTTGCACATACAGGGTTTGCACATAT
Found at i:31038241 original size:22 final size:22
Alignment explanation
Indices: 31038206--31038332 Score: 78
Period size: 22 Copynumber: 5.7 Consensus size: 22
31038196 TAATCAACAA
* *
31038206 ATAGGGTTCACATATACCATAT
1 ATAGGGTTCGCATATACAATAT
* * *
31038228 ATAGGGTTTGCATAAACAACAT
1 ATAGGGTTCGCATATACAATAT
* *
31038250 ATAAGGTTTGCATTATTTA-AAT-T
1 ATAGGGTTCGCA-TA--TACAATAT
* * *
31038273 GTTAGGGTTTGCATATACCATAT
1 -ATAGGGTTCGCATATACAATAT
* * * *
31038296 GTAAGGTTCACATAAACAATAT
1 ATAGGGTTCGCATATACAATAT
31038318 ATAGGGTTCGCATAT
1 ATAGGGTTCGCATAT
31038333 TTAAACATAT
Statistics
Matches: 78, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
21 2 0.03
22 57 0.73
23 6 0.08
24 12 0.15
25 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (22 bp):
ATAGGGTTCGCATATACAATAT
Found at i:31038288 original size:68 final size:67
Alignment explanation
Indices: 31038207--31038337 Score: 172
Period size: 68 Copynumber: 1.9 Consensus size: 67
31038197 AATCAACAAA
* ** *
31038207 TAGGGTTCACATATACCATATATAGGGTTTGCATAAACAACATATAAGGTTTGCATTATTTAAAT
1 TAGGGTTCACATATACCATATATAAGGTTCACATAAACAACATATAAGGTTCGCA-TATTTAAAT
31038272 TGT
65 TGT
** * * *
31038275 TAGGGTTTGCATATACCATATGTAAGGTTCACATAAACAATATATAGGGTTCGCATATTTAAA
1 TAGGGTTCACATATACCATATATAAGGTTCACATAAACAACATATAAGGTTCGCATATTTAAA
31038338 CATATAAGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
67 8 0.15
68 46 0.85
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (67 bp):
TAGGGTTCACATATACCATATATAAGGTTCACATAAACAACATATAAGGTTCGCATATTTAAATT
GT
Found at i:31038557 original size:27 final size:27
Alignment explanation
Indices: 31038509--31038587 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
31038499 ATAGTTTTGC
* *
31038509 ATATAGGTTCA-TTATAGAGGCTCGCCT
1 ATATAGGTTCACATAAAG-GGCTCGCCT
31038536 ATA-AGGGTTCACATAAAGGGCTCGCCT
1 ATATA-GGTTCACATAAAGGGCTCGCCT
* *
31038563 ATATAGGTTCGCATAAGGGGCTCGC
1 ATATAGGTTCACATAAAGGGCTCGC
31038588 ACATGCATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.87
28 5 0.11
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (27 bp):
ATATAGGTTCACATAAAGGGCTCGCCT
Found at i:31040534 original size:16 final size:16
Alignment explanation
Indices: 31040513--31040543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31040503 TGAAATTCTA
*
31040513 ATTTTATTATGTGATG
1 ATTTTATTAAGTGATG
31040529 ATTTTATTAAGTGAT
1 ATTTTATTAAGTGAT
31040544 TTCAATAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAGTGATG
Found at i:31041218 original size:33 final size:33
Alignment explanation
Indices: 31041130--31041218 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
31041120 ATATTCGTGA
* * **
31041130 AAGACCATAGCTGGGCTATGGCATCCTGATGAT
1 AAGACCATAGTTGGGCTATGGCATCATGAACAT
* * *
31041163 AAGACCATAATTGGGTTGTGGCATCATGAACAT
1 AAGACCATAGTTGGGCTATGGCATCATGAACAT
* *
31041196 AAGACCATGGTTGGACTATGGCA
1 AAGACCATAGTTGGGCTATGGCA
31041219 GTAAATATTC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (33 bp):
AAGACCATAGTTGGGCTATGGCATCATGAACAT
Found at i:31041307 original size:103 final size:102
Alignment explanation
Indices: 31041091--31041288 Score: 288
Period size: 103 Copynumber: 1.9 Consensus size: 102
31041081 GAGTCGACGG
* * * *
31041091 ATAAGACCATGGTTGAACCATGGCAGTAAATATTCGTGAAAGACCATAGCTGGGCTATGGCATCC
1 ATAAGACCATGGTTGAACCATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCA
* * * * *
31041156 TGATGATAAGACCATAATTGGGTTGTGGCATCATGAAC
66 TGATGACAAGACCATAACTAGGTTATGACATCA-GAAC
* *
31041194 ATAAGACCATGGTTGGACTATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCA
1 ATAAGACCATGGTTGAACCATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCA
31041259 TGATGACAAGACCATAACTAGGTTATGACA
66 TGATGACAAGACCATAACTAGGTTATGACA
31041289 CTACAAGTGT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (102 bp):
ATAAGACCATGGTTGAACCATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCA
TGATGACAAGACCATAACTAGGTTATGACATCAGAAC
Found at i:31041320 original size:103 final size:102
Alignment explanation
Indices: 31041107--31041321 Score: 243
Period size: 103 Copynumber: 2.1 Consensus size: 102
31041097 CCATGGTTGA
* * * * *
31041107 ACCATGGCAGTAAATATTCGTGAAAGACCATAGCTGGGCTATGGCATCCTGATGATAAGACCATA
1 ACCATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCATGATGACAAGACCATA
* * * * ***
31041172 ATTGGGTTGTGGCATCATGAACATAAGACCATGGTTGG
66 ACTAGGTTATGACATCA-GAACATAAGACCATGACAGG
*
31041210 ACTATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCATGATGACAAGACCATA
1 ACCATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCATGATGACAAGACCATA
***
31041275 ACTAGGTTATGACACTACA-AGTGTAAGACCATGACAGG
66 ACTAGGTTATGACA-T-CAGAACATAAGACCATGACAGG
*
31041313 GCCATGGCA
1 ACCATGGCA
31041322 ATATTCGTGT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
103 89 0.97
104 1 0.01
105 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (102 bp):
ACCATGGCAGTAAATATTCATGAAAGACCATAGCTGGGCAATGACATCATGATGACAAGACCATA
ACTAGGTTATGACATCAGAACATAAGACCATGACAGG
Found at i:31042353 original size:21 final size:21
Alignment explanation
Indices: 31042328--31042376 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
31042318 CGGCCTGAAG
31042328 CACGGGCATGTCATGGGACCA
1 CACGGGCATGTCATGGGACCA
* * **
31042349 CACGGGCGTGTCCTTTGACCA
1 CACGGGCATGTCATGGGACCA
31042370 CACGGGC
1 CACGGGC
31042377 GTGTGACCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.16
Consensus pattern (21 bp):
CACGGGCATGTCATGGGACCA
Found at i:31042470 original size:29 final size:29
Alignment explanation
Indices: 31042437--31042501 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
31042427 TTAAGTTCTC
* * *
31042437 AATTTAGTCTCGACTTACATATAAACCTT
1 AATTTAGTCCCAAATTACATATAAACCTT
* *
31042466 AATTTAGTCCCAAATTACATCTAAAGCTT
1 AATTTAGTCCCAAATTACATATAAACCTT
*
31042495 AAATTAG
1 AATTTAG
31042502 GCCTCGAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (29 bp):
AATTTAGTCCCAAATTACATATAAACCTT
Found at i:31044220 original size:9 final size:9
Alignment explanation
Indices: 31044208--31044249 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
31044198 ATTTTTGATA
31044208 AATTTGAGT
1 AATTTGAGT
*
31044217 AATTTGGGCT
1 AATTTGAG-T
*
31044227 AAATTGAGT
1 AATTTGAGT
31044236 AATTTGAGT
1 AATTTGAGT
31044245 AATTT
1 AATTT
31044250 TTGAATTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTTGAGT
Found at i:31044887 original size:42 final size:43
Alignment explanation
Indices: 31044767--31044895 Score: 124
Period size: 44 Copynumber: 3.0 Consensus size: 43
31044757 CCAATATGTA
*
31044767 ATTTTGTGTAAGACCAC-GTCTGGGACGTCGGCATCG-ATTTGAG
1 ATTTTGTGTAAGACC-CTGTCTGGGACGTAGGCATCGTATTT-AG
* * * *
31044810 ATTTAAGTGTAAGACCATATCTAGGACGTCA-GCATCGTATTT-G
1 ATTT-TGTGTAAGACCCTGTCTGGGACGT-AGGCATCGTATTTAG
31044853 ATTTTGTGTAAGACCCTGTCTGGGACAG-AGGCATCGATATTTA
1 ATTTTGTGTAAGACCCTGTCTGGGAC-GTAGGCATCG-TATTTA
31044896 ATTACATGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
41 1 0.01
42 24 0.35
43 15 0.22
44 25 0.36
45 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
ATTTTGTGTAAGACCCTGTCTGGGACGTAGGCATCGTATTTAG
Found at i:31047591 original size:41 final size:41
Alignment explanation
Indices: 31047534--31047619 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
31047524 GATCTGTAGG
31047534 TAACCCTGACAACTCTTCGGGAAACACGTCAGGAAATTCAC
1 TAACCCTGACAACTCTTCGGGAAACACGTCAGGAAATTCAC
*
31047575 TAACCCTGACAACTCTTTGGGAAACACGTCAGGAAATTCAC
1 TAACCCTGACAACTCTTCGGGAAACACGTCAGGAAATTCAC
31047616 TAAC
1 TAAC
31047620 GGTTTGAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (41 bp):
TAACCCTGACAACTCTTCGGGAAACACGTCAGGAAATTCAC
Found at i:31054236 original size:4 final size:4
Alignment explanation
Indices: 31054227--31054253 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
31054217 TAATTTCACT
31054227 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
31054254 TTCGAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:31058337 original size:15 final size:17
Alignment explanation
Indices: 31058308--31058341 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
31058298 TTCTTTAGAC
31058308 TTTTTTTAGATTTCTTA
1 TTTTTTTAGATTTCTTA
31058325 TTTTTTTA-A-TTCTTA
1 TTTTTTTAGATTTCTTA
31058340 TT
1 TT
31058342 AAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTTAGATTTCTTA
Found at i:31060895 original size:25 final size:25
Alignment explanation
Indices: 31060857--31060916 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
31060847 ATATAAAATC
*
31060857 TAAGAAATGTGCACTATCCATTATG
1 TAAGAAATGCGCACTATCCATTATG
31060882 TAAGAAATGCGCACTATCCATTATG
1 TAAGAAATGCGCACTATCCATTATG
31060907 TAAGAAATGC
1 TAAGAAATGC
31060917 ATAATGTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (25 bp):
TAAGAAATGCGCACTATCCATTATG
Found at i:31065131 original size:37 final size:37
Alignment explanation
Indices: 31065081--31065155 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
31065071 AAATAAAATG
*
31065081 TGATAAATTAATTAATTAACAAAATATCATCAATTTA
1 TGATAAATTAATTAAATAACAAAATATCATCAATTTA
*
31065118 TGATAAATTAATTAAATAATAAAATATCATCAATTTA
1 TGATAAATTAATTAAATAACAAAATATCATCAATTTA
31065155 T
1 T
31065156 CTCATCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.39
Consensus pattern (37 bp):
TGATAAATTAATTAAATAACAAAATATCATCAATTTA
Found at i:31065350 original size:23 final size:23
Alignment explanation
Indices: 31065322--31065371 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
31065312 GTTATCAAAT
31065322 TATGAAAATTTGCCATGGATGAA
1 TATGAAAATTTGCCATGGATGAA
*
31065345 TATGAAAATTTTCCATGGATGAA
1 TATGAAAATTTGCCATGGATGAA
31065368 TATG
1 TATG
31065372 CTGAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (23 bp):
TATGAAAATTTGCCATGGATGAA
Found at i:31065968 original size:7 final size:7
Alignment explanation
Indices: 31065958--31065998 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
31065948 GATAATGCTC
31065958 GATAAAT
1 GATAAAT
31065965 GATAAAT
1 GATAAAT
31065972 GATAAAT
1 GATAAAT
31065979 GATAAAT
1 GATAAAT
31065986 GATAAAT
1 GATAAAT
31065993 GATAAA
1 GATAAA
31065999 AAATGTTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (7 bp):
GATAAAT
Found at i:31066744 original size:15 final size:15
Alignment explanation
Indices: 31066724--31066765 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31066714 ATGATGATAC
31066724 ATGATATATGGAAAT
1 ATGATATATGGAAAT
31066739 ATGATATGAT-GAAAT
1 ATGATAT-ATGGAAAT
*
31066754 ATG-TACATGGAA
1 ATGATATATGGAA
31066766 TTTACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 5 0.21
15 15 0.62
16 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.31
Consensus pattern (15 bp):
ATGATATATGGAAAT
Found at i:31079677 original size:22 final size:23
Alignment explanation
Indices: 31079652--31079697 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31079642 CAACCAAACC
31079652 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31079674 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31079697 A
1 A
31079698 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31079703 original size:23 final size:23
Alignment explanation
Indices: 31079659--31079703 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31079649 ACCAATTCAA
*
31079659 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
31079682 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
31079704 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:31089904 original size:38 final size:38
Alignment explanation
Indices: 31089860--31089936 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
31089850 TATGGTCATG
*
31089860 TTGGTTTATGGTTGGATAATGAATTTAGCCATTTGAAT
1 TTGGTTTATGGTTGGATAATGAATTTAGCCATTTAAAT
*
31089898 TTGGTTTATGGTTGGGTAATGAATTTAGCCATTTAAAT
1 TTGGTTTATGGTTGGATAATGAATTTAGCCATTTAAAT
31089936 T
1 T
31089937 GGCTTGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.45
Consensus pattern (38 bp):
TTGGTTTATGGTTGGATAATGAATTTAGCCATTTAAAT
Found at i:31095044 original size:20 final size:20
Alignment explanation
Indices: 31095021--31095059 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31095011 AATGGAATAC
31095021 AATGGGATAAT-ATGGGATGT
1 AATGGGAT-ATGATGGGATGT
*
31095041 AATGTGATATGATGGGATG
1 AATGGGATATGATGGGATG
31095060 ATTACAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (20 bp):
AATGGGATATGATGGGATGT
Found at i:31098884 original size:85 final size:85
Alignment explanation
Indices: 31098741--31098912 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
31098731 TCTTTGAGGA
31098741 TTTTACATATAAAATATTTATGTTCATTTTCTCATTTTGTTATTTATACGGGTCTATCCCCCAAC
1 TTTTACATATAAAATATTTATGTTCATTTTCTCATTTTGTTATTTATACGGGTCTATCCCCCAAC
31098806 ACCCACCTTACCCTACAACT
66 ACCCACCTTACCCTACAACT
31098826 TTTTACATATAAAATATTTATGTTCATTTTCTCATTTTGTTATTTATACGGGTCTATCCCCCAAC
1 TTTTACATATAAAATATTTATGTTCATTTTCTCATTTTGTTATTTATACGGGTCTATCCCCCAAC
31098891 ACCCACCTTACCCTACAACT
66 ACCCACCTTACCCTACAACT
31098911 TT
1 TT
31098913 AATTGCTGAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.42
Consensus pattern (85 bp):
TTTTACATATAAAATATTTATGTTCATTTTCTCATTTTGTTATTTATACGGGTCTATCCCCCAAC
ACCCACCTTACCCTACAACT
Found at i:31099920 original size:15 final size:15
Alignment explanation
Indices: 31099900--31099937 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
31099890 TGCTGTTGTG
31099900 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
31099915 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
31099930 CAGGTGGA
1 CAGGTGGA
31099938 AGTAGTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.18
Consensus pattern (15 bp):
CAGGTGGATACTGCC
Found at i:31100301 original size:11 final size:11
Alignment explanation
Indices: 31100274--31100308 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
31100264 AGACTCTGAA
31100274 AATCAAAACA-
1 AATCAAAACAC
*
31100284 AAACAAAACAC
1 AATCAAAACAC
31100295 AATCAAAACAC
1 AATCAAAACAC
31100306 AAT
1 AAT
31100309 TGATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (11 bp):
AATCAAAACAC
Found at i:31102474 original size:39 final size:39
Alignment explanation
Indices: 31102420--31102497 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
31102410 GTAAATACAA
* *
31102420 ATTTTTCTCTAGGTTGCCCTGCGTCTAACACCTGCCATT
1 ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
31102459 ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
1 ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
31102498 TCTTCTCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.17, C:0.32, G:0.14, T:0.37
Consensus pattern (39 bp):
ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
Found at i:31104577 original size:18 final size:18
Alignment explanation
Indices: 31104554--31104591 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
31104544 TGCGTGTTAT
31104554 AAATGTT-ATGAAATTGTG
1 AAATGTTGAT-AAATTGTG
31104572 AAATGTTGATAAATTGTG
1 AAATGTTGATAAATTGTG
31104590 AA
1 AA
31104592 TACTGGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
AAATGTTGATAAATTGTG
Found at i:31106422 original size:24 final size:24
Alignment explanation
Indices: 31106390--31106489 Score: 130
Period size: 24 Copynumber: 4.0 Consensus size: 24
31106380 TGACATTGTA
*
31106390 CTAAGTGAAATAAGAT-CATAGCAT
1 CTAAGTGAAATAAG-TCCATGGCAT
31106414 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
31106441 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
*
31106466 CTAAGCGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31106490 GGTGCAAAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
23 1 0.01
24 42 0.61
25 2 0.03
27 2 0.03
28 22 0.32
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:31106454 original size:28 final size:27
Alignment explanation
Indices: 31106390--31106501 Score: 121
Period size: 24 Copynumber: 4.3 Consensus size: 27
31106380 TGACATTGTA
*
31106390 CTAAGTGAAATAAGAT-CATAGCA--T-
1 CTAAGTGAAATAAG-TCCATGGCATGTG
31106414 CTAAGTGAAATAAGTCCATGGCAATGTG
1 CTAAGTGAAATAAGTCCATGGC-ATGTG
31106442 CTAAGTGAAATAAGTCCATGGCA--T-
1 CTAAGTGAAATAAGTCCATGGCATGTG
*
31106466 CTAAGCGAAATAAGTCCATGGCATGGTG
1 CTAAGTGAAATAAGTCCATGGCAT-GTG
*
31106494 CAAAGTGA
1 CTAAGTGA
31106502 GAAATTTCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.01
24 41 0.55
25 2 0.03
27 3 0.04
28 28 0.37
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (27 bp):
CTAAGTGAAATAAGTCCATGGCATGTG
Found at i:31106455 original size:52 final size:52
Alignment explanation
Indices: 31106390--31106501 Score: 165
Period size: 52 Copynumber: 2.2 Consensus size: 52
31106380 TGACATTGTA
*
31106390 CTAAGTGAAATAAGAT-CATAGCATCTAAGTGAAATAAGTCCATGGCAAT-GTG
1 CTAAGTGAAATAAG-TCCATAGCATCTAAGCGAAATAAGTCCATGGC-ATGGTG
*
31106442 CTAAGTGAAATAAGTCCATGGCATCTAAGCGAAATAAGTCCATGGCATGGTG
1 CTAAGTGAAATAAGTCCATAGCATCTAAGCGAAATAAGTCCATGGCATGGTG
*
31106494 CAAAGTGA
1 CTAAGTGA
31106502 GAAATTTCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
51 3 0.05
52 52 0.95
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (52 bp):
CTAAGTGAAATAAGTCCATAGCATCTAAGCGAAATAAGTCCATGGCATGGTG
Found at i:31114875 original size:12 final size:13
Alignment explanation
Indices: 31114839--31114876 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31114829 AAATATTTGA
31114839 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
31114852 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
31114866 CTTG-TCTTAAT
1 CTTGTTCTTAAT
31114877 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:31125305 original size:24 final size:24
Alignment explanation
Indices: 31125273--31125424 Score: 196
Period size: 24 Copynumber: 6.0 Consensus size: 24
31125263 TGGCATTGTG
*
31125273 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31125297 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
*
31125324 GCTAAGTGAAATAAGACCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
31125349 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
*
31125376 GCTAAGTGAAATAAGTCCATGACAT
1 -CTAAGTGAAATAAGTCCATGGCAT
*
31125401 CTAAGCGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31125425 GGTGCTAAGT
Statistics
Matches: 114, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
24 64 0.56
25 4 0.04
27 4 0.04
28 42 0.37
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:31125332 original size:52 final size:52
Alignment explanation
Indices: 31125262--31125436 Score: 298
Period size: 52 Copynumber: 3.4 Consensus size: 52
31125252 TATCTAGTAT
*
31125262 ATGGCATTGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
31125314 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
* * *
31125366 ATGGCAATGTGCTAAGTGAAATAAGTCCATGACATCTAAGCGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
31125418 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
31125437 GAAATTTCCC
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
51 2 0.02
52 116 0.98
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:31125538 original size:51 final size:51
Alignment explanation
Indices: 31125460--31125709 Score: 394
Period size: 51 Copynumber: 4.9 Consensus size: 51
31125450 TGAACCTTAG
* *
31125460 GAATAAAATAGCTTTAGACACAGGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
31125511 GAATATAATAGCTTTGGACACAAGTGTGGTACTAAGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
31125562 GAATATAATAGCTTTGGACACAAGTGTGGTACTAAGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
31125613 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* *
31125664 GAATAAAATAGCTTTGG-CTACAAGGGTGGTATTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
31125710 CGTGTATCCG
Statistics
Matches: 188, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 187 0.99
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:31129301 original size:42 final size:42
Alignment explanation
Indices: 31129166--31129331 Score: 111
Period size: 42 Copynumber: 3.9 Consensus size: 42
31129156 AATAACATGC
* * **
31129166 CAATGCCATATCCCAGATA-GAGTCTTACATGGGATCACATATAT
1 CAATGCCATATCCCAGACATG-GTCTTACACGAAATCA-A-ATAT
* * ** * ***
31129210 CGATGCCAATAGCCCAG-CTATGGTCTTACGTGATATCTCGTAT
1 CAATGCC-ATATCCCAGAC-ATGGTCTTACACGAAATCAAATAT
* * *
31129253 CGATGCCATGTCCTAGACATGGTCTTACACGAAATCAAATAT
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCAAATAT
* * *
31129295 CAATGCCATATCCCATATATGGTCTTACATGAAATCA
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCA
31129332 CACATATTGT
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 55 0.59
43 11 0.12
44 6 0.06
45 21 0.22
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGTCTTACACGAAATCAAATAT
Found at i:31137564 original size:14 final size:14
Alignment explanation
Indices: 31137541--31137570 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31137531 TTGAAAATAT
31137541 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
31137555 GTTGATTTGGATTG
1 GTTGAATTGGATTG
31137569 GT
1 GT
31137571 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:31146525 original size:57 final size:58
Alignment explanation
Indices: 31146454--31146573 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
31146444 TTTTTCAGGT
* ** *
31146454 CATTTTTATTTTCATTTTGGAAAAAATTACATTAATTTCCAAATGATTC-TATTTCTC
1 CATTTTCATTTTCATTTTGGAAAAAACCACAATAATTTCCAAATGATTCTTATTTCTC
* * * * *
31146511 TATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTTATTTCTC
1 CATTTTCATTTTCATTTTGGAAAAAACCACAATAATTTCCAAATGATTCTTATTTCTC
31146569 CATTT
1 CATTT
31146574 CACCATTTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
57 40 0.77
58 12 0.23
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGGAAAAAACCACAATAATTTCCAAATGATTCTTATTTCTC
Found at i:31147457 original size:21 final size:21
Alignment explanation
Indices: 31147428--31147467 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31147418 AGACAAGTGT
*
31147428 TTTTATTAAGTTTTAATTATG
1 TTTTATTAAGTTTCAATTATG
*
31147449 TTTTCTTAAGTTTCAATTA
1 TTTTATTAAGTTTCAATTA
31147468 ATTTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTATTAAGTTTCAATTATG
Found at i:31153743 original size:29 final size:28
Alignment explanation
Indices: 31153707--31153772 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
31153697 GTAGCCATTG
*
31153707 TGGCTATCTCTATTAAATGAATGTCTTTA
1 TGGCTATCTCTATTAAATG-ATGCCTTTA
* * *
31153736 TGGTTATCTCTGTTAAATGATGCCTTTT
1 TGGCTATCTCTATTAAATGATGCCTTTA
31153764 TGGCTATCT
1 TGGCTATCT
31153773 TTGTTAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (28 bp):
TGGCTATCTCTATTAAATGATGCCTTTA
Found at i:31153772 original size:28 final size:29
Alignment explanation
Indices: 31153707--31153780 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
31153697 GTAGCCATTG
* *
31153707 TGGCTATCTCTATTAAATGAATGTCTTTA
1 TGGCTATCTCTGTTAAATGAATGCCTTTA
* *
31153736 TGGTTATCTCTGTTAAATG-ATGCCTTTT
1 TGGCTATCTCTGTTAAATGAATGCCTTTA
*
31153764 TGGCTATCTTTGTTAAA
1 TGGCTATCTCTGTTAAA
31153781 AGGATGCCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TGGCTATCTCTGTTAAATGAATGCCTTTA
Found at i:31154155 original size:21 final size:21
Alignment explanation
Indices: 31154129--31154170 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31154119 ATGTCTCAAG
*
31154129 TAAAAGAAGCATCAGGGGGGA
1 TAAAAGAACCATCAGGGGGGA
31154150 TAAAAGAACCATCAGGGGGGA
1 TAAAAGAACCATCAGGGGGGA
31154171 CGACAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.12, G:0.36, T:0.10
Consensus pattern (21 bp):
TAAAAGAACCATCAGGGGGGA
Found at i:31157926 original size:24 final size:24
Alignment explanation
Indices: 31157898--31157944 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31157888 ATATAGATAC
31157898 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
31157922 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
31157945 CCATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:31170490 original size:2 final size:2
Alignment explanation
Indices: 31170483--31170508 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31170473 ATGCAATCAG
31170483 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31170509 TACATGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31175701 original size:24 final size:24
Alignment explanation
Indices: 31175661--31175719 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
31175651 ATTAATATTT
*
31175661 TATTATATAAA-ATATAAATTTTAAA
1 TATT-TATAAACA-ATAAATATTAAA
* *
31175686 TATTTTTAAACAATAAATATTAAT
1 TATTTATAAACAATAAATATTAAA
31175710 TATTTATAAA
1 TATTTATAAA
31175720 TTTAATTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTTATAAACAATAAATATTAAA
Found at i:31183521 original size:13 final size:13
Alignment explanation
Indices: 31183488--31183529 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
31183478 TATATATTAG
*
31183488 CCCAAGTACCCAA
1 CCCAATTACCCAA
31183501 CCC-A--ACCCAA
1 CCCAATTACCCAA
31183511 CCCAATTACCCAA
1 CCCAATTACCCAA
31183524 CCCAAT
1 CCCAAT
31183530 CATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 1 0.04
13 15 0.58
ACGTcount: A:0.38, C:0.50, G:0.02, T:0.10
Consensus pattern (13 bp):
CCCAATTACCCAA
Found at i:31183624 original size:9 final size:9
Alignment explanation
Indices: 31183610--31183659 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
31183600 TTTATACAAA
31183610 TAATTCGGT
1 TAATTCGGT
31183619 TAATTCGGT
1 TAATTCGGT
**
31183628 TAATTAAGT
1 TAATTCGGT
*
31183637 TAATTCGGG
1 TAATTCGGT
31183646 TAATTCGGT
1 TAATTCGGT
31183655 TAATT
1 TAATT
31183660 TTATACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:31188595 original size:34 final size:33
Alignment explanation
Indices: 31188557--31188623 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
31188547 ACAGTCAAAT
*
31188557 GCAGTTTGGGCC-TAAGCCCATTTCAGTCTCAGTA
1 GCAGTTCGGGCCTTAAGCCC-TTTCAGT-TCAGTA
31188591 GCAGTTCGGGCCTTAAGCCCTTTCAGTTCAGTA
1 GCAGTTCGGGCCTTAAGCCCTTTCAGTTCAGTA
31188624 TCAGATATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 6 0.19
34 18 0.58
35 7 0.23
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (33 bp):
GCAGTTCGGGCCTTAAGCCCTTTCAGTTCAGTA
Found at i:31207725 original size:20 final size:20
Alignment explanation
Indices: 31207689--31207726 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31207679 TTTTAAAAAA
*
31207689 ATATATATTAATCTAATATC
1 ATATATATTAATATAATATC
31207709 ATATATA-TATATATAATA
1 ATATATATTA-ATATAATA
31207727 AAAACTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATATTAATATAATATC
Found at i:31207999 original size:16 final size:16
Alignment explanation
Indices: 31207947--31208000 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
31207937 TTTAACTCTC
31207947 TTAAAATTATAAAA-A
1 TTAAAATTATAAAATA
*
31207962 TT-TAATT-TAATAAT-
1 TTAAAATTATAA-AATA
31207976 TTAAAAATTATAAAATA
1 TT-AAAATTATAAAATA
31207993 TTAAAATT
1 TTAAAATT
31208001 TCATTCGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 3 0.10
14 8 0.26
15 2 0.06
16 13 0.42
17 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAATTATAAAATA
Found at i:31208133 original size:16 final size:16
Alignment explanation
Indices: 31208116--31208175 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
31208106 GAAACAAGCG
*
31208116 GGATGCGAAGCTAACG
1 GGATGCGAAGCTAACA
* *
31208132 GGAT-CAAAGTTAACA
1 GGATGCGAAGCTAACA
* * **
31208147 GGATGTGAAACTAGTA
1 GGATGCGAAGCTAACA
31208163 GGATGCGAAGCTA
1 GGATGCGAAGCTA
31208176 GCGGAAGTGA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.18
Consensus pattern (16 bp):
GGATGCGAAGCTAACA
Found at i:31208223 original size:31 final size:31
Alignment explanation
Indices: 31208167--31208267 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 31
31208157 CTAGTAGGAT
* * * *
31208167 GCGAAGCTAGCGGAAGTGAAACTAGCAGAAA
1 GCGAAGCTAACGGGATTGAAGCTAGCAGAAA
31208198 GCGAAGCTAACGGGATTGAAGCTAGCA-AGAA
1 GCGAAGCTAACGGGATTGAAGCTAGCAGA-AA
* * * *
31208229 GC-AAAC-AAGTGGGATCGAAGCTAGCGGAAA
1 GCGAAGCTAA-CGGGATTGAAGCTAGCAGAAA
*
31208259 GCAAAGCTA
1 GCGAAGCTA
31208268 GCGAGATCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
29 2 0.04
30 22 0.39
31 31 0.55
32 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.32, T:0.11
Consensus pattern (31 bp):
GCGAAGCTAACGGGATTGAAGCTAGCAGAAA
Found at i:31210296 original size:30 final size:30
Alignment explanation
Indices: 31210256--31210316 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
31210246 GGTTAAGAGG
31210256 ATTTTCTAAGTCATTAACAGGAAGGCATAT
1 ATTTTCTAAGTCATTAACAGGAAGGCATAT
* *
31210286 ATTTTGTAAGTTATTAACAGGAAGGCATAT
1 ATTTTCTAAGTCATTAACAGGAAGGCATAT
31210316 A
1 A
31210317 CTTAGCATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (30 bp):
ATTTTCTAAGTCATTAACAGGAAGGCATAT
Found at i:31212166 original size:39 final size:39
Alignment explanation
Indices: 31212114--31212194 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
31212104 GTACTTTTCT
31212114 AAAAGAAAAATGCCAAAAA-AAAACTTAAATTTTTTTTTA
1 AAAAGAAAAATGCCAAAAATAAAACTTAAA-TTTTTTTTA
31212153 AAAAGAAAAATGCCAAAAATAAAACTTAAATTTTTTTTA
1 AAAAGAAAAATGCCAAAAATAAAACTTAAATTTTTTTTA
31212192 AAA
1 AAA
31212195 TGATAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 31 0.76
40 10 0.24
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (39 bp):
AAAAGAAAAATGCCAAAAATAAAACTTAAATTTTTTTTA
Found at i:31212430 original size:14 final size:14
Alignment explanation
Indices: 31212400--31212428 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31212390 TATATACTAA
31212400 TTATTTTATTTATT
1 TTATTTTATTTATT
31212414 TTATTTTA-TTATT
1 TTATTTTATTTATT
31212427 TT
1 TT
31212429 TAATTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:31213868 original size:9 final size:9
Alignment explanation
Indices: 31213854--31213897 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
31213844 TTCACATCCT
31213854 TCTCTCAAC
1 TCTCTCAAC
31213863 TCTCTCAAAC
1 TCTCTC-AAC
* *
31213873 CCTCTCAAG
1 TCTCTCAAC
*
31213882 TCTTTCAAC
1 TCTCTCAAC
31213891 TCTCTCA
1 TCTCTCA
31213898 TTTTGATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.23, C:0.41, G:0.02, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:31217914 original size:43 final size:42
Alignment explanation
Indices: 31217800--31217916 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
31217790 TCTGGGATGT
* *
31217800 TGGCATCGAT-TTGTGACTTACGTGTAAGACCATGTCTAGGACAT
1 TGGCATC-ATATT-TGA-TTACGTGTAAGACCATGTCCAGGACAG
* * * * *
31217844 TGGCATCGTATATGATTTCGTGTAAGACCCTGTCCGGGACAG
1 TGGCATCATATTTGATTACGTGTAAGACCATGTCCAGGACAG
*
31217886 TGGCATCAATATTTGATTACATGTAAGACCA
1 TGGCATC-ATATTTGATTACGTGTAAGACCA
31217917 CGTCTGGGAC
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
42 29 0.49
43 22 0.37
44 8 0.14
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGGCATCATATTTGATTACGTGTAAGACCATGTCCAGGACAG
Found at i:31217926 original size:43 final size:43
Alignment explanation
Indices: 31217776--31217934 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 43
31217766 TATGTGTTAT
* *
31217776 CGTGTAAGACAACGTCTGGGA-TGTTGGCATCGAT-TTGTGACTTA
1 CGTGTAAGACCACGTCTGGGACAGTTGGCATC-ATATT-TGA-TTA
* * * * *
31217820 CGTGTAAGACCATGTCTAGGACA-TTGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTGGGACAGTTGGCATCATATTTGATTA
*
31217862 CGTGTAAGACC-CTGTCCGGGACAG-TGGCATCAATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACAGTTGGCATC-ATATTTGATTA
*
31217905 CATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGTGTAAGACCACGTCTGGGACAGTTGGCAT
31217935 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 29 0.31
43 36 0.39
44 28 0.30
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTTGGCATCATATTTGATTA
Found at i:31220914 original size:73 final size:73
Alignment explanation
Indices: 31220787--31220927 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
31220777 TCGATCATGG
* * *
31220787 AGGAAGATAATAACATTGTTGATACCGAAAAATGATTGCCTAAGGGATCGTGCTAGGTACATCTT
1 AGGAAGATAATAACATTGTTGATACCGAAAAACGATTGCCAAAGGGATCATGCTAGGTACATCTT
31220852 CACGCGAT
66 CACGCGAT
* *
31220860 AGGAAGATAATGACATTGTTGATACTGAAAAACGATTGCCCAAAGGG-TCATGCTAGGTACATCT
1 AGGAAGATAATAACATTGTTGATACCGAAAAACGATTG-CCAAAGGGATCATGCTAGGTACATCT
31220924 TCAC
65 TCAC
31220928 CCCATAATGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 55 0.89
74 7 0.11
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (73 bp):
AGGAAGATAATAACATTGTTGATACCGAAAAACGATTGCCAAAGGGATCATGCTAGGTACATCTT
CACGCGAT
Found at i:31224033 original size:18 final size:18
Alignment explanation
Indices: 31224010--31224061 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
31224000 TTAATATTTT
*
31224010 TTTTATAAATTTTAATTA
1 TTTTATAATTTTTAATTA
*
31224028 TTTTATAATTTTTATTTA
1 TTTTATAATTTTTAATTA
*
31224046 TGTTTAGAATTTTTAA
1 T-TTTATAATTTTTAA
31224062 AAGTTTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTATAATTTTTAATTA
Found at i:31225041 original size:16 final size:17
Alignment explanation
Indices: 31225017--31225052 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
31225007 TCTTTCATTT
31225017 TTTTCACACTTCAATCC
1 TTTTCACACTTCAATCC
31225034 TTTT-ACACTTCAATCC
1 TTTTCACACTTCAATCC
31225050 TTT
1 TTT
31225053 CAATATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTCACACTTCAATCC
Found at i:31225092 original size:11 final size:11
Alignment explanation
Indices: 31225047--31225100 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
31225037 TACACTTCAA
*
31225047 TCCTTTCAATAT
1 TCCTCTCAA-AT
31225059 T-CTCTCAAAT
1 TCCTCTCAAAT
*
31225069 TTCTCTCAAAT
1 TCCTCTCAAAT
31225080 TCCTCTCAAAT
1 TCCTCTCAAAT
*
31225091 TCCTTTCAAA
1 TCCTCTCAAA
31225101 GCTCTTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 3 0.08
11 34 0.89
12 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (11 bp):
TCCTCTCAAAT
Found at i:31225160 original size:13 final size:14
Alignment explanation
Indices: 31225135--31225163 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31225125 GCTCTATTTA
31225135 AATTTTTTCTAAAT
1 AATTTTTTCTAAAT
31225149 AATTTTTT-TAAAT
1 AATTTTTTCTAAAT
31225162 AA
1 AA
31225164 AAAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTTTTCTAAAT
Found at i:31226268 original size:7 final size:7
Alignment explanation
Indices: 31226256--31226281 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31226246 TAGTCGATTC
31226256 GTATTTA
1 GTATTTA
31226263 GTATTTA
1 GTATTTA
31226270 GTATTTA
1 GTATTTA
31226277 GTATT
1 GTATT
31226282 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:31226819 original size:30 final size:30
Alignment explanation
Indices: 31226785--31226875 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
31226775 ACGCGGGCTT
** * *
31226785 ATCAACAACGCCCACATAATCACCGGGCCG
1 ATCAACAGTGCCCACACAATCACCGGGCCC
* **
31226815 ATCAACAGTGCCCATACAATCACCATGCCC
1 ATCAACAGTGCCCACACAATCACCGGGCCC
31226845 ATCAACAGTGCCCACACAATCACCGGGCCC
1 ATCAACAGTGCCCACACAATCACCGGGCCC
31226875 A
1 A
31226876 GCACTTCGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.33, C:0.41, G:0.14, T:0.12
Consensus pattern (30 bp):
ATCAACAGTGCCCACACAATCACCGGGCCC
Found at i:31227477 original size:54 final size:54
Alignment explanation
Indices: 31227395--31227514 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
31227385 TATAATTTCA
* * * *
31227395 TTTAATAAAATAAAAGTTGTTTTGAATAAAGTAAT-TGTATG-TTACTTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTAAATAAAGCAATAT-TATGAATA-TTTTATATT
* * *
31227449 TTTAATAAAATAGAAGTTCTTTTAAATAAGGCAATATTTTGAATATTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTAAATAAAGCAATATTATGAATATTTTATATT
31227503 TTTAATAAAATA
1 TTTAATAAAATA
31227515 TAAATAATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 54 0.95
55 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.47
Consensus pattern (54 bp):
TTTAATAAAATAAAAGTTCTTTTAAATAAAGCAATATTATGAATATTTTATATT
Found at i:31230692 original size:126 final size:126
Alignment explanation
Indices: 31230533--31230909 Score: 623
Period size: 124 Copynumber: 3.0 Consensus size: 126
31230523 GCCAAATAGG
* * *
31230533 AACTACTGTAGAAAAAAAAGCGTCCATGTGAGAGCTTTTTTTAGTACTTTTGCTGACAATGCATC
1 AACTACTGTAGAAAAAAAA-CGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* *
31230598 TTGCTTGAAGCGTTTTTGACACTAATTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* *
31230660 AACTACTGTAGAAAAAAAATGTCCACGTGAGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAAAACGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
31230725 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAACTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* *
31230786 AACTAC--TATAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAAAACGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
31230849 CGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
31230910 TACGTCTTCT
Statistics
Matches: 235, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
124 111 0.47
126 105 0.45
127 19 0.08
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAACGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:31230790 original size:15 final size:15
Alignment explanation
Indices: 31230744--31230790 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
31230734 CGTTTTTGAC
*
31230744 ACTATTTGTTCAGAA
1 ACTATTTTTTCAGAA
* *
31230759 AC-ATCTTCTCA-AA
1 ACTATTTTTTCAGAA
31230772 ACTATTTTTTCAGAA
1 ACTATTTTTTCAGAA
31230787 ACTA
1 ACTA
31230791 CTATAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 8 0.32
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.38
Consensus pattern (15 bp):
ACTATTTTTTCAGAA
Found at i:31230917 original size:28 final size:28
Alignment explanation
Indices: 31230870--31230933 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
31230860 TTTTTGACAC
*
31230870 TATTTGTTCAGAAACATCTTCTCAAAAT
1 TATTTTTTCAGAAACATCTTCTCAAAAT
* * * *
31230898 TATTTTTTCAGATACGTCTTCTCTAATT
1 TATTTTTTCAGAAACATCTTCTCAAAAT
31230926 TATTTTTT
1 TATTTTTT
31230934 TTGAAACTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.52
Consensus pattern (28 bp):
TATTTTTTCAGAAACATCTTCTCAAAAT
Found at i:31232506 original size:39 final size:39
Alignment explanation
Indices: 31232452--31232528 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
31232442 TCCCCAGCTA
31232452 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTTG
1 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTTG
31232491 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTT
1 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTT
31232529 TGCTTTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (39 bp):
ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTTG
Found at i:31234376 original size:2 final size:2
Alignment explanation
Indices: 31234369--31234412 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
31234359 ATGGTTCCTC
*
31234369 CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
31234411 CA
1 CA
31234413 TTGCAGTGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31235388 original size:5 final size:5
Alignment explanation
Indices: 31235380--31235406 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31235370 AAAAATAAAA
31235380 TTTGG TTTGG TTTGG TTTGG TTTGG TT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TT
31235407 CAGGCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (5 bp):
TTTGG
Found at i:31236794 original size:39 final size:39
Alignment explanation
Indices: 31236751--31236829 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
31236741 TCATATATAC
31236751 TTGTAATTTTTTTGTACAGATTGATTTAATAAAATTCTA
1 TTGTAATTTTTTTGTACAGATTGATTTAATAAAATTCTA
*
31236790 TTGTAATTTTTTTGTATAGATTGATTTAATAAAATTCTA
1 TTGTAATTTTTTTGTACAGATTGATTTAATAAAATTCTA
31236829 T
1 T
31236830 CATTTACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (39 bp):
TTGTAATTTTTTTGTACAGATTGATTTAATAAAATTCTA
Found at i:31241445 original size:29 final size:29
Alignment explanation
Indices: 31241411--31241574 Score: 274
Period size: 29 Copynumber: 5.7 Consensus size: 29
31241401 ATAAACGATC
*** *
31241411 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
31241440 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
31241469 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
31241498 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
31241527 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
31241556 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
31241575 CCTTCCAAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 127 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:31241590 original size:87 final size:87
Alignment explanation
Indices: 31241412--31241601 Score: 256
Period size: 87 Copynumber: 2.2 Consensus size: 87
31241402 TAAACGATCT
* * *
31241412 CGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
* **
31241477 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTCAAGCC
* * *
31241499 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
**
31241564 TTAGTGCCATA-CCTTCCAAGCC
66 TTAGTGCCATATAATT-CAAGCC
*
31241586 CGCACACTGAGTGCCA
1 CGCACACTTAGTGCCA
31241602 ATCTTGTCAC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
86 2 0.02
87 88 0.98
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
TTAGTGCCATATAATTCAAGCC
Found at i:31241599 original size:58 final size:58
Alignment explanation
Indices: 31241412--31241601 Score: 229
Period size: 58 Copynumber: 3.3 Consensus size: 58
31241402 TAAACGATCT
*** * * * **
31241412 CGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTCAAGCC
* * **
31241470 TGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTCAAGCC
**
31241528 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATA-CCTTCCAAGCC
1 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATT-CAAGCC
*
31241586 CGCACACTGAGTGCCA
1 CGCACACTTAGTGCCA
31241602 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
57 2 0.02
58 116 0.98
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTCAAGCC
Found at i:31249328 original size:29 final size:29
Alignment explanation
Indices: 31249292--31249398 Score: 151
Period size: 29 Copynumber: 3.7 Consensus size: 29
31249282 AATAAACGAT
***
31249292 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
31249321 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
31249350 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
31249379 TTCGCACACTTAGTGCCATA
1 CTCGCACACTTAGTGCCATA
31249399 CCTTCCAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:31249415 original size:58 final size:58
Alignment explanation
Indices: 31249294--31249425 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 58
31249284 TAAACGATCT
* * * **
31249294 CGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTCAAGCC
* * * * **
31249352 TGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATA-CCTTCCAAGCC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATT-CAAGCC
*
31249410 CGCACACTGAGTGCCA
1 CGCACACTTAGTGCCA
31249426 ATCTTGTCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 2 0.03
58 58 0.97
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTCAAGCC
Found at i:31253391 original size:25 final size:25
Alignment explanation
Indices: 31253363--31253410 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31253353 TTATACCATG
* * *
31253363 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
31253388 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
31253411 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:31253479 original size:20 final size:20
Alignment explanation
Indices: 31253454--31253512 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
31253444 TAAATATGGT
*
31253454 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
31253474 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
31253494 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
31253513 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:31253590 original size:24 final size:24
Alignment explanation
Indices: 31253563--31253705 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
31253553 GAGGAAGTGA
31253563 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31253587 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31253611 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
31253634 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * * *
31253658 GAAAGGGCTTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
31253682 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31253706 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:31253656 original size:47 final size:47
Alignment explanation
Indices: 31253563--31253705 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
31253553 GAGGAAGTGA
31253563 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
31253611 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * * *
31253658 GAAAGGGCTTTTACCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
31253706 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 42 0.48
48 34 0.39
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:31253679 original size:71 final size:72
Alignment explanation
Indices: 31253563--31253706 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
31253553 GAGGAAGTGA
* *
31253563 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATCAAAAGAGGC-TAGGCCT
31253626 CCAGTTAT
65 CCAGTTAT
** * *
31253634 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTACCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATCAAAAGAGGCTAGGCCTC
31253699 CAGTTAT
66 CAGTTAT
31253706 A
1 A
31253707 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:31253930 original size:31 final size:31
Alignment explanation
Indices: 31253895--31253960 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
31253885 ACCGTTTACA
31253895 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
*
31253926 GAAAAGGCTTCGGCCCAGTATTATGAAATAT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
31253957 GAAA
1 GAAA
31253961 TATGAAAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (31 bp):
GAAAAGGCTTCGGCCCAGTAATATGAAATAT
Found at i:31260132 original size:29 final size:29
Alignment explanation
Indices: 31260096--31260202 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
31260086 AATAAACGAT
***
31260096 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
31260125 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
31260154 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
31260183 TTTGCACACTTAGTGCCATA
1 CTCGCACACTTAGTGCCATA
31260203 CCTTCCAAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:31262474 original size:43 final size:43
Alignment explanation
Indices: 31262408--31262812 Score: 395
Period size: 43 Copynumber: 9.5 Consensus size: 43
31262398 AAAAAGCGTT
*
31262408 GCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* **
31262451 GCTAAAGAACATGACCTTTAGCGGCGCTTTTACCACAAACATC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
** *
31262494 GCTAAAGAACATGACCTTTAGCGATGCTTTTCCCACAAACTCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * *** *
31262537 ACTAAAGATCATGACCTTTAGCATTGCTTTTCTCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * ** * *
31262580 ACTAAAGAACATGATCTTTAGCGACGATTTTTTCAAAAACACC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * **
31262623 GC-AATAGAACA-AACCTTGAGCGGCGCTTTTACAACAAATACC
1 GCTAA-AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * *
31262665 ACTAAAGAACATGACCTTTAGCGGTGCTTTTCTCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* ** * **
31262708 ACTAAAGAACATGACCTTTAGCGGCGCAATTCCTGA-AAATTCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCC-CACAAACGCC
* * * * *
31262751 GCTATAGACCA-GACTTTTAGCGGTGCTTTTCCTACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
31262793 GCTAAAGAACATGACCTTTA
1 GCTAAAGAACATGACCTTTA
31262813 AAAAATATTT
Statistics
Matches: 292, Mismatches: 64, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
41 1 0.00
42 61 0.21
43 229 0.78
44 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:31262758 original size:128 final size:126
Alignment explanation
Indices: 31262413--31262812 Score: 446
Period size: 128 Copynumber: 3.1 Consensus size: 126
31262403 GCGTTGCTAT
* * *
31262413 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC
1 AGAACATGACCTTTAGCGGTGCTTTTCTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
* * * *
31262478 TTTTACC-ACAAACAT-CGCTAAAGAACATGACCTTTAGCGATGCTTTTCCCACAAACTCCACTA
66 ATTT-CCTA-AAA-ATCCGCTATAGAACA-GACCTTTAGCGGTGCTTTTCCAACAAA-TCCACTA
31262541 A
126 A
* ** * *
31262542 AGATCATGACCTTTAGCATTGCTTTTCTCACAAACGCCACTAAAGAACATGATCTTTAGCGACG-
1 AGAACATGACCTTTAGCGGTGCTTTTCTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
** * * * * * *
31262606 ATTTTTTCAAAAACACCGCAATAGAACAAACCTTGAGCGGCGCTTTTACAACAAATACCACTAA
66 ATTTCCT-AAAAA-TCCGCTATAGAACAGACCTTTAGCGGTGCTTTTCCAACAAAT-CCACTAA
31262670 AGAACATGACCTTTAGCGGTGCTTTTCTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
1 AGAACATGACCTTTAGCGGTGCTTTTCTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
* * * * * * *
31262735 AATTCCTGAAAATTCCGCTATAGACCAGACTTTTAGCGGTGCTTTTCCTACAAACGCCGCTAA
66 ATTTCCT-AAAAATCCGCTATAGAACAGACCTTTAGCGGTGCTTTTCCAACAAA-TCCACTAA
31262798 AGAACATGACCTTTA
1 AGAACATGACCTTTA
31262813 AAAAATATTT
Statistics
Matches: 223, Mismatches: 41, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
127 2 0.01
128 146 0.65
129 75 0.34
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (126 bp):
AGAACATGACCTTTAGCGGTGCTTTTCTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGC
ATTTCCTAAAAATCCGCTATAGAACAGACCTTTAGCGGTGCTTTTCCAACAAATCCACTAA
Found at i:31264861 original size:20 final size:20
Alignment explanation
Indices: 31264836--31264876 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
31264826 CAAGTGAAAC
31264836 ATAATTTATTCTGAATCAAG
1 ATAATTTATTCTGAATCAAG
*
31264856 ATAATTTATTTTGAATCAAG
1 ATAATTTATTCTGAATCAAG
31264876 A
1 A
31264877 AATAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (20 bp):
ATAATTTATTCTGAATCAAG
Found at i:31268055 original size:15 final size:15
Alignment explanation
Indices: 31268034--31268068 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31268024 TTTAAAAATA
*
31268034 ATTATTTATATTTAT
1 ATTATTTAGATTTAT
*
31268049 CTTATTTAGATTTAT
1 ATTATTTAGATTTAT
31268064 ATTAT
1 ATTAT
31268069 AAAAAAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTATTTAGATTTAT
Found at i:31268179 original size:21 final size:21
Alignment explanation
Indices: 31268155--31268195 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31268145 CAAACACCAA
*
31268155 ACCCCAAATCTTAGACCATAC
1 ACCCCAAATCCTAGACCATAC
*
31268176 ACCCTAAATCCTAGACCATA
1 ACCCCAAATCCTAGACCATA
31268196 AACCTACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.37, G:0.05, T:0.20
Consensus pattern (21 bp):
ACCCCAAATCCTAGACCATAC
Found at i:31268210 original size:13 final size:13
Alignment explanation
Indices: 31268173--31268212 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
31268163 TCTTAGACCA
31268173 TACACCCTAAATCC
1 TACACCCTAAA-CC
* *
31268187 TAGACCATAAACC
1 TACACCCTAAACC
31268200 TACACCCTAAACC
1 TACACCCTAAACC
31268213 CTAACTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.40, C:0.40, G:0.03, T:0.17
Consensus pattern (13 bp):
TACACCCTAAACC
Found at i:31268588 original size:14 final size:13
Alignment explanation
Indices: 31268551--31268594 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
31268541 TTAATATAAA
31268551 CCCTAAACCCCTAT
1 CCCT-AACCCCTAT
*
31268565 CCCTATCCCCTAT
1 CCCTAACCCCTAT
*
31268578 CCTTTAACCCCTAT
1 CC-CTAACCCCTAT
31268592 CCC
1 CCC
31268595 CATAAACCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.20, C:0.52, G:0.00, T:0.27
Consensus pattern (13 bp):
CCCTAACCCCTAT
Found at i:31268620 original size:7 final size:7
Alignment explanation
Indices: 31268594--31268756 Score: 128
Period size: 7 Copynumber: 23.0 Consensus size: 7
31268584 ACCCCTATCC
31268594 CCATAAA
1 CCATAAA
*
31268601 CCTTAAA
1 CCATAAA
**
31268608 TTATAAA
1 CCATAAA
*
31268615 ACATAAA
1 CCATAAA
31268622 CCATAAA
1 CCATAAA
*
31268629 TCATAAA
1 CCATAAA
31268636 CCATAAA
1 CCATAAA
*
31268643 TCATAAA
1 CCATAAA
31268650 CCATAAA
1 CCATAAA
* *
31268657 CCCCTAAC
1 -CCATAAA
*
31268665 CCCTAAA
1 CCATAAA
**
31268672 CTTTAAA
1 CCATAAA
** *
31268679 CCCCAAC
1 CCATAAA
*
31268686 CCTTAAA
1 CCATAAA
31268693 CCATAAA
1 CCATAAA
*
31268700 CCATTAA
1 CCATAAA
31268707 CCATAAA
1 CCATAAA
31268714 CCATAAA
1 CCATAAA
*
31268721 CCATAAT
1 CCATAAA
*
31268728 CCCTAAA
1 CCATAAA
*
31268735 CCCATAAT
1 -CCATAAA
31268743 CCATAAA
1 CCATAAA
*
31268750 CCTTAAA
1 CCATAAA
31268757 ATAGTAACTC
Statistics
Matches: 121, Mismatches: 33, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
7 111 0.92
8 10 0.08
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (7 bp):
CCATAAA
Found at i:31269156 original size:40 final size:40
Alignment explanation
Indices: 31269107--31269317 Score: 223
Period size: 40 Copynumber: 5.3 Consensus size: 40
31269097 AAATTTTTTT
* * * *
31269107 GCGGAGTTTTTGATAAAA-CGCCACTAAAGCTTGATCTATA
1 GCGGCGTTTTTCA-AAAAGCGCCACTAATGCTCGATCTATA
31269147 GCGGCGTTTTTCAAAAAGCGCCACTAATTG-TCGA-CTTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAA-TGCTCGATC-TATA
* * *
31269187 GCGGCGTTTTTTAAAAAGAGCTGA-TAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGC-CACTAATGCTCGATCTATA
* * *
31269227 GCGGCGTTTTTCTAAAAGCGCCACTAATGCTAGATCGATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* * *
31269267 GTGGCGTTTTTCAAAAAGCGTCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* *
31269307 GTGGCTTTTTT
1 GCGGCGTTTTT
31269318 TATCCAAACT
Statistics
Matches: 144, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
39 8 0.06
40 133 0.92
41 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
Found at i:31269989 original size:57 final size:58
Alignment explanation
Indices: 31269891--31270008 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
31269881 AACAAAATGG
* *
31269891 TGAAAATGGAGAAATGTGAAACATTTTGAAATGATTATGG-TTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTTGAAATGAATATGGTTTTTC-CCAAAATGAAAA
* * *
31269949 TGAAAGTGGAGAAAT-AGAATCA-TTTGTAAATGAATGTGGTTTTTCCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTTG-AAATGAATATGGTTTTTCCCAAAATGAAAA
31270006 TGA
1 TGA
31270009 CTTGGAAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 4 0.08
57 30 0.57
58 19 0.36
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTTGAAATGAATATGGTTTTTCCCAAAATGAAAA
Found at i:31289050 original size:7 final size:7
Alignment explanation
Indices: 31289038--31289068 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
31289028 AACACTATAT
31289038 CATATCA
1 CATATCA
31289045 CATATCA
1 CATATCA
31289052 CATATCA
1 CATATCA
31289059 CATATCA
1 CATATCA
31289066 CAT
1 CAT
31289069 GTTGATCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
CATATCA
Done.