Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 420 of 427
Found at i:122162151 original size:2 final size:2
Alignment explanation
Indices: 122162144--122162179 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
122162134 TTTTAAGATT
122162144 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
122162180 AAAGATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122162244 original size:12 final size:14
Alignment explanation
Indices: 122162227--122162258 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
122162217 AAGTATTAAA
122162227 AAATTT-AATT-TT
1 AAATTTAAATTATT
122162239 AAATTTAAATTATT
1 AAATTTAAATTATT
122162253 AAATTT
1 AAATTT
122162259 GTTTGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 4 0.22
14 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTTAAATTATT
Found at i:122170031 original size:18 final size:18
Alignment explanation
Indices: 122170010--122170045 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
122170000 TCGAAGACCT
122170010 ACCAGCTCGAGAAGTCCC
1 ACCAGCTCGAGAAGTCCC
122170028 ACCAGCTCGAGAAGTCCC
1 ACCAGCTCGAGAAGTCCC
122170046 GAAGCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.39, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCAGCTCGAGAAGTCCC
Found at i:122170801 original size:15 final size:15
Alignment explanation
Indices: 122170773--122170814 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
122170763 TTCAGTCCTT
122170773 TATTTATTTAATTTCAA
1 TATTTATTT-ATTT-AA
*
122170790 T-TTTATTTATTTAT
1 TATTTATTTATTTAA
122170804 TATTTATTTAT
1 TATTTATTTAT
122170815 CCTTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 7 0.30
17 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTATTTATTTAA
Found at i:122171365 original size:2 final size:2
Alignment explanation
Indices: 122171358--122171398 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
122171348 ATGTTAAAAG
122171358 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122171399 CATGTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122175037 original size:19 final size:20
Alignment explanation
Indices: 122175003--122175042 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
122174993 TATCTCTAAG
*
122175003 ATTTAATTATTTAAAATTGT
1 ATTTAATTATTTAAAAATGT
*
122175023 ATTTGATTA-TTAAAAATGT
1 ATTTAATTATTTAAAAATGT
122175042 A
1 A
122175043 ATATGTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTTAATTATTTAAAAATGT
Found at i:122176985 original size:15 final size:17
Alignment explanation
Indices: 122176965--122176996 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
122176955 TTAGGAAACG
122176965 TACATAA-A-AAATATA
1 TACATAATATAAATATA
122176980 TACATAATATAAATATA
1 TACATAATATAAATATA
122176997 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:122178102 original size:11 final size:11
Alignment explanation
Indices: 122178074--122178108 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
122178064 GATGTAAATA
122178074 GGTTTGAATTG
1 GGTTTGAATTG
122178085 GGTTTTGAATTG
1 GG-TTTGAATTG
122178097 GGTTTGAATTG
1 GGTTTGAATTG
122178108 G
1 G
122178109 ACTTAATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (11 bp):
GGTTTGAATTG
Found at i:122179114 original size:72 final size:72
Alignment explanation
Indices: 122178898--122179526 Score: 799
Period size: 72 Copynumber: 8.5 Consensus size: 72
122178888 GTGATCTGAA
* *
122178898 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-AAAAACAGAAATTGAAATTACCTCAGC
**
122178963 ATGTGAACCGAG
63 --GTGTCCCGAG
* * * * *
122178975 GCTCAACTCACCTCTTGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTAAAAACAGAAATTGAAATTACCTCAGCG
**
122179040 TGTCTTGAG
64 TGTCCCGAG
** *
122179049 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAATTACCTCAGCGTG
*
122179114 TCCCGAC
66 TCCCGAG
* * *
122179121 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAACAGAAATTGAAATTACATCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAATTACCTCAGCGTG
122179186 TCCCGAG
66 TCCCGAG
*
122179193 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAATTACCTCAGCGTG
122179258 TCCCGAG
66 TCCCGAG
* *
122179265 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAAAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTT-AAAAACAGAAATTGAAATTACCTC
* **
122179330 AGCATGTCTTGAG
60 AGCGTGTCCCGAG
** * *
122179343 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAATTACCTCAGCGTG
*
122179408 TCCTGAG
66 TCCCGAG
** *
122179415 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTAAAAACAGAAATTG-AAATTACCTCAG
*
122179480 CGTGTCCTGAG
62 CGTGTCCCGAG
122179491 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
122179527 TTGAAAAATA
Statistics
Matches: 493, Mismatches: 48, Indels: 25
0.87 0.08 0.04
Matches are distributed among these distances:
72 262 0.53
73 4 0.01
74 37 0.08
75 16 0.03
76 74 0.15
77 41 0.08
78 59 0.12
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Found at i:122179380 original size:150 final size:144
Alignment explanation
Indices: 122178893--122180371 Score: 1477
Period size: 144 Copynumber: 9.9 Consensus size: 144
122178883 AGTGTGTGAT
* * *
122178893 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATTGAAATTACC
** * *
122178958 TCAGCATGTGAACCGAGGCTCAACTCACCTCTTGCAATATAAGTTGATTTTTTTGAAAACAGAAA
63 TCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAA
* *
122179023 TTGAAAATACCTCAACGTGTC
124 TTGAAATTACCTCAGCGTGTC
* ** *
122179044 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
* *
122179109 GCGTGTCCCGACGCTCAACTCACCTCTCGCAATATGAGTTGATATTTGAAAACAGAAATTGAAAT
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
*
122179174 TACATCAGCGTGTC
131 TACCTCAGCGTGTC
* *
122179188 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
*
122179253 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAAAAAT
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTG-AAAACAGAAAT
* *
122179318 TGAAAATACCTCAGCATGTC
125 TGAAATTACCTCAGCGTGTC
* **
122179338 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
* ** *
122179403 GCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGA
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTG-
122179468 AAATTACCTCAGCGTGTC
127 AAATTACCTCAGCGTGTC
122179486 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGA---G-------TTG---AAT-T---TTGAAAA-CA
* * *
122179551 GAAATTGAAATTACCTCAACTTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
48 GAAATTGAAATTACCTCAGCGTGTCC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
122179615 TGACAAAAAGAAATTGAAATTACCTCAGCGTGTC
112 TGA-AAACAGAAATTGAAATTACCTCAGCGTGTC
** * * *
122179649 CTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTTGAAAAATAGATTGAAACACAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTT------T-GA---AAACA-GAAAT
* *
122179714 TGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAA
53 TGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
122179778 ACAGAAATTGAAATTACCTCAGCGTGTC
117 ACAGAAATTGAAATTACCTCAGCGTGTC
* *
122179806 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTTTTTTGGAAAAACAAAAATTGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-------TTTT-G-AAAACAGAAATTGAA
* * ** ** * *
122179870 AATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACATA
57 ATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGA
122179935 AATTGAAATTACCTCAGCGTGTC
122 AATTGAAATTACCTCAGCGTGTC
** * *
122179958 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTGAA-AACAGAAATTG-AAATTA
* *
122180023 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGC-A-AT--G-TGA-----G----CAGAAATT
61 CCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
* *
122180074 GAAAATACCTCAACGTGTC
126 GAAATTACCTCAGCGTGTC
* * * * *
122180093 TTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAATTGAAAATACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
*
122180157 GCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTGAA
66 GCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAA
122180221 ATTACCTCAGCGTGTGAC
129 ATTACCTCAGCGTGT--C
*
122180239 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTGAAAGACAGAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-------ATTTTGAAA-ACAGAAATTGAAA
* * *** * *
122180304 ATACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTG-AAACATA
58 TTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGA
122180368 AATT
122 AATT
122180372 AAAACACAAA
Statistics
Matches: 1132, Mismatches: 109, Indels: 171
0.80 0.08 0.12
Matches are distributed among these distances:
128 2 0.00
129 35 0.03
130 8 0.01
131 4 0.00
132 7 0.01
133 1 0.00
134 3 0.00
135 55 0.05
139 2 0.00
144 159 0.14
145 1 0.00
146 71 0.06
147 21 0.02
148 77 0.07
149 51 0.05
150 127 0.11
151 35 0.03
152 116 0.10
153 18 0.02
154 13 0.01
155 58 0.05
156 8 0.01
157 60 0.05
158 62 0.05
159 4 0.00
160 1 0.00
161 6 0.01
162 1 0.00
163 45 0.04
164 16 0.01
165 10 0.01
166 55 0.05
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (144 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
TACCTCAGCGTGTC
Found at i:122179634 original size:73 final size:73
Alignment explanation
Indices: 122179550--122180065 Score: 282
Period size: 80 Copynumber: 6.8 Consensus size: 73
122179540 ATTGAAAAGC
*
122179550 AGAAATTGAAATTACCTCAACTTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
122179614 TTGACAAAA
65 TTGACAAAA
* ** *
122179623 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
122179688 TTGA-AAAA
65 TTGACAAAA
* * ** * * * * * *
122179696 TAG--ATTGAAA-CA-C-AAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCAC-C--TC
1 -AGAAATTGAAATTACCTCAACGTG----T-CCT--GAG-G-CTC-A-ACTCACCTCTCGCAATA
* ***
122179753 TCGTAATATGAGTTGATTTTTGAAAA
54 T-G-AGT-TGA-TT--TTTGACAAAA
* * *
122179779 CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTT
1 -AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
122179844 TTTTTTTTGGA-AAAA
62 ---TTTTT-GACAAAA
* * * * * ** *
122179859 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 -AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
122179924 TTGA-AAAC
65 TTGACAAAA
* * **
122179932 ATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
***
122179997 TTTTTAACAA
65 TTGACAA-AA
* * *
122180007 CAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATGTGAG
1 -AGAAATTG-AAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
122180066 CAGAAATTGA
Statistics
Matches: 341, Mismatches: 63, Indels: 74
0.71 0.13 0.15
Matches are distributed among these distances:
69 3 0.01
70 1 0.00
71 1 0.00
72 64 0.19
73 67 0.20
74 20 0.06
75 1 0.00
76 9 0.03
77 58 0.17
78 7 0.02
79 6 0.02
80 76 0.22
81 2 0.01
82 5 0.01
83 8 0.02
84 1 0.00
85 7 0.02
86 1 0.00
87 1 0.00
88 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (73 bp):
AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGACAAAA
Found at i:122179788 original size:85 final size:85
Alignment explanation
Indices: 122179625--122179790 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
122179615 TGACAAAAAG
* * **
122179625 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
* *
122179690 GAAAAATAGATTGAAACACA
66 GAAAAAGAAATTGAAACACA
122179710 AAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTT
1 AAATTGA-AATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
122179773 TGAAAACAGAAATTGAAA
65 TGAAAA-AGAAATTGAAA
122179791 TTACCTCAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
84 10 0.14
85 61 0.84
86 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (85 bp):
AAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
GAAAAAGAAATTGAAACACA
Found at i:122179817 original size:72 final size:73
Alignment explanation
Indices: 122179700--122180065 Score: 425
Period size: 72 Copynumber: 4.9 Consensus size: 73
122179690 GAAAAATAGA
* * *
122179700 TTGAAACACA-AAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
122179763 AGTTGA-TTT
64 AGTTGATTTT
*
122179772 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
122179837 TTAATTTTTTTTT
66 TTGA-----TTTT
* * * * **
122179850 TTGGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TT-G-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
122179915 AGTTGA-ATT
64 AGTTGATTTT
* **
122179924 TTGAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
122179989 TTGATTTTTT
66 TTGA--TTTT
* * *
122179999 TTTAACAACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATGTG
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
122180064 AG
64 AG
122180066 CAGAAATTGA
Statistics
Matches: 256, Mismatches: 23, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
71 5 0.02
72 121 0.47
73 1 0.00
74 4 0.02
75 6 0.02
76 10 0.04
77 45 0.18
78 5 0.02
79 1 0.00
80 58 0.23
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:122180098 original size:58 final size:59
Alignment explanation
Indices: 122180007--122180123 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 59
122179997 TTTTTAACAA
* * *
122180007 CAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATGTGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
122180066 CAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
122180124 TTGATTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 40 0.75
59 13 0.25
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (59 bp):
CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:122180185 original size:71 final size:73
Alignment explanation
Indices: 122180069--122180375 Score: 399
Period size: 71 Copynumber: 4.1 Consensus size: 73
122180059 ATGTGAGCAG
* *
122180069 AAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
122180133 GAAAA-AT
66 GAAAACAT
* *
122180140 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
122180204 GACAAACAT
66 GA-AAACAT
* *
122180213 AAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----
*
122180278 TTTTTTTTGAAAGACAG
60 --TTTTTTGAAA-ACAT
** *
122180295 AAATTGAAAATACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
122180360 G-AAACAT
66 GAAAACAT
122180367 AAATT-AAAA
1 AAATTGAAAA
122180376 CACAAAAATT
Statistics
Matches: 211, Mismatches: 13, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
71 66 0.31
72 11 0.05
73 25 0.12
74 7 0.03
75 36 0.17
80 33 0.16
81 2 0.01
82 31 0.15
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (73 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAT
Found at i:122180346 original size:80 final size:81
Alignment explanation
Indices: 122180199--122180359 Score: 236
Period size: 80 Copynumber: 2.0 Consensus size: 81
122180189 TATGAGTTGA
* * *
122180199 TTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTGACAAACAGAAATTGAAAATACCTCAACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAA
122180264 TATGAGTTGATTTTTTT
65 TATGAGTTGATTTTTTT
** *
122180281 TTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGT-TTTGAGGCTCAACTCACCTCTCGTAA
1 TTTTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCACCTCTCGCAA
122180344 TATGAGTTGATTTTTT
65 TATGAGTTGATTTTTT
122180360 GAAACATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 39 0.54
81 2 0.03
82 31 0.43
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (81 bp):
TTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTT
Found at i:122181421 original size:12 final size:12
Alignment explanation
Indices: 122181402--122181437 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
122181392 TTGATCCCTC
122181402 TCTCTTTTTTTT
1 TCTCTTTTTTTT
* *
122181414 TTTCTTTTCTTT
1 TCTCTTTTTTTT
122181426 TCTCTTTTTTTT
1 TCTCTTTTTTTT
122181438 AAGATGCCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TCTCTTTTTTTT
Found at i:122194438 original size:55 final size:55
Alignment explanation
Indices: 122194325--122194456 Score: 153
Period size: 54 Copynumber: 2.4 Consensus size: 55
122194315 ACTTTCTCCT
* * * *
122194325 TAAAAATTTTACTTTCCCCCAAACCCCCAAATTTTTTTTCCTTTTGCTTTTTCTC
1 TAAAACTTTTACTCTCCCCAAAACCCCCAAATTTTTTTTCCTTTTGCTTTTTCGC
* *
122194380 TAAAACTTTTA-TCTCCCCAAAATCCCCTAATTTTTTTTCCTTTTG-TTTTTCCCGC
1 TAAAACTTTTACTCTCCCCAAAACCCCCAAATTTTTTTTCCTTTTGCTTTTT--CGC
*
122194435 T-AAACTTTTACTTCTTCCCAAA
1 TAAAACTTTTAC-TCTCCCCAAA
122194457 CACTATTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
53 5 0.08
54 39 0.59
55 13 0.20
56 9 0.14
ACGTcount: A:0.23, C:0.29, G:0.02, T:0.46
Consensus pattern (55 bp):
TAAAACTTTTACTCTCCCCAAAACCCCCAAATTTTTTTTCCTTTTGCTTTTTCGC
Found at i:122198142 original size:104 final size:104
Alignment explanation
Indices: 122197988--122198195 Score: 308
Period size: 104 Copynumber: 2.0 Consensus size: 104
122197978 TATTCATTAT
* * *
122197988 TCACCATAATCTACAAAATCCTTTCATAATAAAAAGAACCGTTAATGCCTTTATAACTAAAAAAT
1 TCACCATAACCTACAAAATCCTTTCATAATAAAAAGAACCATTAACGCCTTTATAACTAAAAAAT
* *
122198053 ATCAATTTTTATTCTCATCAGTTGTTAGCTTTGTAACCC
66 ATCAATTTGTATTCTCATCAGTTGCTAGCTTTGTAACCC
* * * * *
122198092 TCACCATCACCTACAATATCCTTTCATAATAAAAAGAATCATTAGCGCCTTTGTAACTAAAAAAT
1 TCACCATAACCTACAAAATCCTTTCATAATAAAAAGAACCATTAACGCCTTTATAACTAAAAAAT
* *
122198157 ATCGATTTGTATTCTCATTAGTTGCTAGCTTTGTAACCC
66 ATCAATTTGTATTCTCATCAGTTGCTAGCTTTGTAACCC
122198196 CTATTCTTGA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 92 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (104 bp):
TCACCATAACCTACAAAATCCTTTCATAATAAAAAGAACCATTAACGCCTTTATAACTAAAAAAT
ATCAATTTGTATTCTCATCAGTTGCTAGCTTTGTAACCC
Found at i:122201998 original size:25 final size:24
Alignment explanation
Indices: 122201948--122201998 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
122201938 TAACGTATAG
**
122201948 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
122201972 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
122201997 AA
1 AA
122201999 ATATTCCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 9 0.39
26 8 0.35
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:122202001 original size:26 final size:24
Alignment explanation
Indices: 122201935--122202001 Score: 57
Period size: 26 Copynumber: 2.7 Consensus size: 24
122201925 ATATTATGTG
122201935 AAATAACGT-ATAGAATACAATATTA
1 AAATAAC-TAATA-AATACAATATTA
**
122201960 AAATATTTACAT-AATACACATATTAA
1 AAATAACTA-ATAAATACA-ATATT-A
122201986 AAATAACTAATAAATA
1 AAATAACTAATAAATA
122202002 TTCCATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
24 7 0.21
25 12 0.36
26 14 0.42
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATAACTAATAAATACAATATTA
Found at i:122203290 original size:16 final size:16
Alignment explanation
Indices: 122203269--122203300 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
122203259 TTTTGTGTAA
*
122203269 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
122203285 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
122203301 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:122204191 original size:68 final size:69
Alignment explanation
Indices: 122204058--122204191 Score: 155
Period size: 68 Copynumber: 2.0 Consensus size: 69
122204048 TTAAAAGAAG
* *****
122204058 AAATTAGAAGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTGAAAAGTAGATTTTGAAAA
1 AAATTAGAAGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTGAAAAGTAAAAAAACAAAA
122204123 ACGA
66 ACGA
* * * *
122204127 AAATTA-AAGGCTCAACTCACCTTTCGCAATATGAGTTGAT-CTTTGAAAAATTAAAAAAACAAA
1 AAATTAGAAGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTG-AAAAGTAAAAAAACAAA
122204190 AA
65 AA
122204192 TTGAAAATAG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
67 5 0.09
68 43 0.80
69 6 0.11
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (69 bp):
AAATTAGAAGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTGAAAAGTAAAAAAACAAAA
ACGA
Found at i:122204482 original size:52 final size:52
Alignment explanation
Indices: 122204396--122204495 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
122204386 ATTTAATAGG
* * * *
122204396 AATTGAAATTACCTCAGCGTGCTCCGAGGTTCAACTCACTTCTCGCAACATA
1 AATTGAAATTACCTCAACATGCTCCGAGGCTCAACTCACCTCTCGCAACATA
*
122204448 AATTGAAATTACCTCAACATG-TCTTGAGGCTCAACTCACCTCTCGCAA
1 AATTGAAATTACCTCAACATGCTC-CGAGGCTCAACTCACCTCTCGCAA
122204496 TATGAGTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.05
52 40 0.95
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (52 bp):
AATTGAAATTACCTCAACATGCTCCGAGGCTCAACTCACCTCTCGCAACATA
Found at i:122204558 original size:71 final size:71
Alignment explanation
Indices: 122204442--122204580 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
122204432 CACTTCTCGC
* *
122204442 AACATAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTCAAATTACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
122204507 TTTTGA
66 TTTTGA
*
122204513 AACATAAATTCAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACATAAATTCAAATTACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
122204578 TTT
66 TTT
122204581 CTTGGAAAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (71 bp):
AACATAAATTCAAATTACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTTGA
Found at i:122210100 original size:1 final size:1
Alignment explanation
Indices: 122210094--122210120 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
122210084 AAAGGCATCT
122210094 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
122210121 GGAGGAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:122211179 original size:71 final size:71
Alignment explanation
Indices: 122211058--122211191 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
122211048 GTTTTCCAAG
* * *
122211058 AAAATCAGCGCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACGCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
122211123 GTTTCA
66 GTTTCA
* * * *
122211129 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACGCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
122211192 TTGCTTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (71 bp):
AAAATCAACGCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:122211234 original size:160 final size:160
Alignment explanation
Indices: 122210967--122211997 Score: 1848
Period size: 160 Copynumber: 6.4 Consensus size: 160
122210957 TTGTTTTTTC
*
122210967 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * *
122211032 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCGCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
122211097 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
122211127 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* *
122211192 TTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
122211257 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
122211287 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
122211352 CTGCCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 CTG-CTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA
122211417 AGACACGTTGAGGTAATTTCAATTTATGTTT
130 AGACACGTTGAGGTAATTTCAATTTATGTTT
122211448 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
122211513 CTGCCTTTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCT
66 CTG-C--TTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCT
122211578 CAAGACACGTTGAGGTAATTTCAATTTATGTTT
128 CAAGACACGTTGAGGTAATTTCAATTTATGTTT
*
122211611 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
122211676 CTGCCTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
122211741 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
*
122211771 CAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * *
122211836 TTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
122211901 GACACGTTAAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * * * *
122211931 CAAAAATCAACTCATATTGTGAGAAGTGAGTTGAACCT-TGCGGCACGCTAAGGTATTTTCAAAT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-GGCACGCTGAGGTATTTTCAATT
122211995 TCT
65 TCT
122211998 ATTTTCAAAA
Statistics
Matches: 845, Mismatches: 22, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
159 1 0.00
160 524 0.62
161 161 0.19
162 1 0.00
163 158 0.19
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:122211339 original size:71 final size:71
Alignment explanation
Indices: 122211218--122211351 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
122211208 GTTTTCCAAG
* * *
122211218 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
122211283 GTTTCA
66 GTTTCA
* * *
122211289 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
122211352 CTGCCTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:122211508 original size:71 final size:70
Alignment explanation
Indices: 122211379--122211512 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 70
122211369 GTTTTCCAAG
* * *
122211379 AAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAAACAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
122211444 GTTTC
66 GTTTC
* * *
122211449 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAA-CAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
122211513 CTGCCTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
70 5 0.09
71 52 0.91
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (70 bp):
AAAAACAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTC
Found at i:122211629 original size:71 final size:70
Alignment explanation
Indices: 122211542--122211675 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 70
122211532 GTTTTCCAAG
* * * *
122211542 AAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAAACAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTTAT
122211607 GTTTC
66 GTTTC
* * *
122211612 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTT
1 AAAAA-CAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTT
122211676 CTGCCTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
70 5 0.09
71 51 0.91
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (70 bp):
AAAAACAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTTAT
GTTTC
Found at i:122211831 original size:71 final size:70
Alignment explanation
Indices: 122211702--122211835 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 70
122211692 GTTTTCCAAG
* * * *
122211702 AAAAACAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAAACAACTCATATTGCGAGAAGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
122211767 GTTTC
66 GTTTC
* * *
122211772 AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAA-CAACTCATATTGCGAGAAGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
122211836 TTGCTTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
70 5 0.09
71 51 0.91
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (70 bp):
AAAAACAACTCATATTGCGAGAAGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTC
Found at i:122211947 original size:71 final size:71
Alignment explanation
Indices: 122211862--122212038 Score: 207
Period size: 71 Copynumber: 2.5 Consensus size: 71
122211852 GTTTTCCAAG
* *
122211862 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTT-CAAGACACGTTAAGGTAATTTC-AATT-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGC--GACACGCTAAGGTAATTTCAAATTC
122211924 TATGTTTCA
64 TAT-TTTCA
* * * * *
122211933 AAAATCAACTCATATTGTGAGAAGTGAGTTGAACCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTGCGACACGCTAAGGTAATTTCAAATTCT
122211998 ATTTTCA
65 ATTTTCA
* * *
122212005 AAAGTTAATTCATATTGCGAGAGGTGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
122212039 CTTTAATTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
71 46 0.52
72 39 0.44
73 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGCGACACGCTAAGGTAATTTCAAATTCTA
TTTTCA
Found at i:122212093 original size:67 final size:66
Alignment explanation
Indices: 122211986--122212183 Score: 290
Period size: 67 Copynumber: 2.9 Consensus size: 66
122211976 CGCTAAGGTA
* *
122211986 TTTTCAAATTCTA-TTTTCAAAAGTTAATTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
1 TTTTCAAAATCTACTTTTCAAAA-TTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
122212050 GT
65 GT
* *
122212052 TTTTCAAAATCTACTTTTCAAAGATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
1 TTTTCAAAATCTACTTTTCAAA-ATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
122212117 GT
65 GT
* *
122212119 TTTTCGAAATCTACTTTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTT
1 TTTTCAAAATCTACTTTTCAAA--ATTAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTT
122212184 CTACGTCTCA
Statistics
Matches: 119, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
66 12 0.10
67 69 0.58
68 30 0.25
69 8 0.07
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (66 bp):
TTTTCAAAATCTACTTTTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCG
T
Found at i:122214110 original size:11 final size:11
Alignment explanation
Indices: 122214056--122214115 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
122214046 ATGTTTAATA
122214056 TTATATAT-TT
1 TTATATATATT
*
122214066 TTCATATATGTT
1 TT-ATATATATT
* *
122214078 ATATATAAGTCTT
1 TTATAT-A-TATT
122214091 TTAATATATATT
1 TT-ATATATATT
122214103 TTATATATATT
1 TTATATATATT
122214114 TT
1 TT
122214116 TTAATGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATATATATT
Found at i:122214117 original size:25 final size:25
Alignment explanation
Indices: 122214057--122214120 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
122214047 TGTTTAATAT
* *
122214057 TATATA-TTTTTCATATATGTTATA
1 TATATATTTTTTAATATATATTATA
* *
122214081 TATA-AGTCTTTTAATATATATTTTA
1 TATATA-TTTTTTAATATATATTATA
122214106 TATATATTTTTTAAT
1 TATATATTTTTTAAT
122214121 GTTACTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 26 0.81
26 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATATTTTTTAATATATATTATA
Found at i:122214173 original size:21 final size:23
Alignment explanation
Indices: 122214149--122214190 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
122214139 ATGTATACCT
122214149 CTAATA-TTATA-TTATATATTC
1 CTAATACTTATATTTATATATTC
*
122214170 CTAATACTTGTATTTATATAT
1 CTAATACTTATATTTATATAT
122214191 ATATGCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (23 bp):
CTAATACTTATATTTATATATTC
Found at i:122215624 original size:18 final size:19
Alignment explanation
Indices: 122215603--122215641 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
122215593 ATATATAGAT
122215603 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
122215621 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
122215640 AT
1 AT
122215642 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:122215991 original size:39 final size:40
Alignment explanation
Indices: 122215881--122215991 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
122215871 GACCTCGAGT
* * **
122215881 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** * *
122215922 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
122215960 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
122215992 AACTATCAGA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.34
39 18 0.34
40 1 0.02
41 16 0.30
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:122216159 original size:18 final size:19
Alignment explanation
Indices: 122216138--122216178 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
122216128 AATAAAATGA
122216138 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
122216156 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
122216175 GAAA
1 GAAA
122216179 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:122217270 original size:30 final size:29
Alignment explanation
Indices: 122217236--122217314 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
122217226 TAAAATTTTG
*
122217236 AAAAATATAGAGATTAAAATTGATC-AATT
1 AAAAATATA-AGATTAAAATTAATCAAATT
* *
122217265 AAAAAATGTAAAAATTAAAATTAATCAAATT
1 -AAAAATAT-AAGATTAAAATTAATCAAATT
*
122217296 -AAAATATAAGAATAAAATT
1 AAAAATATAAGATTAAAATT
122217315 CATAATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.24
29 6 0.15
30 20 0.49
31 5 0.12
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (29 bp):
AAAAATATAAGATTAAAATTAATCAAATT
Found at i:122218122 original size:23 final size:24
Alignment explanation
Indices: 122218095--122218142 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
122218085 GGAGAAGCAG
* *
122218095 AAGAAAATGAAA-AAAAAAGTTAA
1 AAGAAAATAAAAGAAAAAAATTAA
*
122218118 AAGAATATAAAAGAAAAAAATTAA
1 AAGAAAATAAAAGAAAAAAATTAA
122218142 A
1 A
122218143 TTGTTTAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (24 bp):
AAGAAAATAAAAGAAAAAAATTAA
Found at i:122228581 original size:29 final size:29
Alignment explanation
Indices: 122228548--122228621 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
122228538 GTGACGAGAT
122228548 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
122228577 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
122228606 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
122228622 ATTTACTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:122228631 original size:24 final size:24
Alignment explanation
Indices: 122228604--122228670 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
122228594 GCTGGAAATA
*
122228604 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
122228628 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
122228652 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
122228671 ACATAATAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.34
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:122231793 original size:44 final size:45
Alignment explanation
Indices: 122231703--122231831 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
122231693 GACAGAACGA
*
122231703 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
122231749 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
122231793 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
122231832 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:122238115 original size:22 final size:22
Alignment explanation
Indices: 122238085--122238130 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
122238075 CTCCACATTT
* *
122238085 TAATTTAATTTAAATT-TTAAAA
1 TAATGTAA-TTAAATTATCAAAA
122238107 TAATGTAATTAAATTATCAAAA
1 TAATGTAATTAAATTATCAAAA
122238129 TA
1 TA
122238131 TTAACATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAATGTAATTAAATTATCAAAA
Found at i:122238749 original size:20 final size:20
Alignment explanation
Indices: 122238716--122238759 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
122238706 GGATTAGTAC
* *
122238716 TTTT-ATTATTTTATGAATT
1 TTTTAATTATATTATAAATT
122238735 TTTTAATTATATTATAAATT
1 TTTTAATTATATTATAAATT
122238755 TTTTA
1 TTTTA
122238760 CAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTAATTATATTATAAATT
Found at i:122238756 original size:19 final size:19
Alignment explanation
Indices: 122238716--122238757 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
122238706 GGATTAGTAC
* *
122238716 TTTTATTATTTTATGAATT
1 TTTTATTATATTATGAAAT
122238735 TTTTAATTATATTAT-AAAT
1 TTTT-ATTATATTATGAAAT
122238754 TTTT
1 TTTT
122238758 TACAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATTATATTATGAAAT
Found at i:122246426 original size:24 final size:27
Alignment explanation
Indices: 122246390--122246443 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
122246380 AAAGAATTAT
*
122246390 AAATAATTTTAAAT-AT-TATATTAAA
1 AAATAATTATAAATGATATATATTAAA
*
122246415 AAAT-ATTATAAATGATATATCTTAAA
1 AAATAATTATAAATGATATATATTAAA
122246441 AAA
1 AAA
122246444 GAAAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 6 0.24
26 11 0.44
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
AAATAATTATAAATGATATATATTAAA
Found at i:122248664 original size:18 final size:18
Alignment explanation
Indices: 122248641--122248677 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
122248631 GTAGAAAAGA
122248641 ATACTTTTGCTTGGCTAT
1 ATACTTTTGCTTGGCTAT
122248659 ATACTTTTGCTTGGCTAT
1 ATACTTTTGCTTGGCTAT
122248677 A
1 A
122248678 CTCCCTTTTT
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:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (18 bp):
ATACTTTTGCTTGGCTAT
Found at i:122256457 original size:19 final size:18
Alignment explanation
Indices: 122256433--122256482 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
122256423 AAATGCAAGA
*
122256433 AAAAATTATTAAGATTATT
1 AAAAATTATTAAGA-AATT
* *
122256452 AAAAATAATAAAGAAATT
1 AAAAATTATTAAGAAATT
122256470 ATAAAATTATTAA
1 A-AAAATTATTAA
122256483 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (18 bp):
AAAAATTATTAAGAAATT
Found at i:122260150 original size:2 final size:2
Alignment explanation
Indices: 122260138--122260168 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
122260128 ATTTGCTCAA
122260138 AT AT GAT 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 AT AT
122260169 GGATCTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122261619 original size:29 final size:31
Alignment explanation
Indices: 122261538--122261619 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 31
122261528 AATCTTAAAA
* *
122261538 TTATAC-TTGAATTTTAGTTTAATGTATATTT
1 TTATACATTAAATTTTAGTTT-GTGTATATTT
* * * *
122261569 TTATACATGAACTTTGATTTTGTGTA-A-TT
1 TTATACATTAAATTTTAGTTTGTGTATATTT
122261598 TTATACATTAAATTTTAGTTTG
1 TTATACATTAAATTTTAGTTTG
122261620 AATCAATTCT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
29 20 0.50
30 1 0.03
31 10 0.25
32 9 0.22
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (31 bp):
TTATACATTAAATTTTAGTTTGTGTATATTT
Found at i:122266384 original size:15 final size:15
Alignment explanation
Indices: 122266364--122266394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122266354 ACTGATATTC
122266364 GTGCCGCCGCTGCTA
1 GTGCCGCCGCTGCTA
*
122266379 GTGCCGCCGCTTCTA
1 GTGCCGCCGCTGCTA
122266394 G
1 G
122266395 ACTACTACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.39, G:0.32, T:0.23
Consensus pattern (15 bp):
GTGCCGCCGCTGCTA
Found at i:122291170 original size:2 final size:2
Alignment explanation
Indices: 122291163--122291209 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
122291153 AGGCATGCAC
*
122291163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122291205 TA TA T
1 TA TA T
122291210 TTATGCCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122291927 original size:39 final size:39
Alignment explanation
Indices: 122291873--122292003 Score: 190
Period size: 39 Copynumber: 3.4 Consensus size: 39
122291863 GCATGATACT
* *
122291873 TGGAAACATATCCGGACTTGAGGTTCGCAGGTTACATGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACATGC
* *
122291912 TGGAAGCATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACATGC
***
122291951 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTGTGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACATGC
*
122291990 TGGAAATATATCCG
1 TGGAAACATATCCG
122292004 AGCTTAAAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACATGC
Found at i:122292030 original size:40 final size:39
Alignment explanation
Indices: 122291873--122292036 Score: 141
Period size: 39 Copynumber: 4.2 Consensus size: 39
122291863 GCATGATACT
* * * * * **
122291873 TGGAAACATATCCGGACTTGAGGTTCGCAGGTTACATGC
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
** * * *
122291912 TGGAAGCATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
* * * *
122291951 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTGTGTGC
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
*
122291990 TGGAAATATATCC-GAGCTTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGA-CTTAAAGT-CCGCAGGCTATGTGC
*
122292030 TAGAAAT
1 TGGAAAT
122292037 TGGACTCGGG
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 2 0.02
39 89 0.80
40 20 0.18
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
Found at i:122299875 original size:39 final size:39
Alignment explanation
Indices: 122299821--122299975 Score: 198
Period size: 39 Copynumber: 4.2 Consensus size: 39
122299811 GCATGATACT
*
122299821 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
122299860 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
122299899 TGGAAACATATCCGGA-TT---GTCC-CAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* * * * *
122299933 TGG-AA-ATATCCGGGCTTAAAGTCCGTAGGCTTTGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
122299970 TAGAAA
1 TGGAAA
122299976 TTGGACTCGG
Statistics
Matches: 105, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
32 8 0.08
33 4 0.04
34 15 0.14
35 4 0.04
36 4 0.04
37 12 0.11
38 4 0.04
39 54 0.51
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
Found at i:122299969 original size:71 final size:76
Alignment explanation
Indices: 122299821--122299975 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 76
122299811 GCATGATACT
* *
122299821 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTGAGGTCC
1 TGGAAACATATCCGGACTT--GGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTAAAGTCC
122299886 GCAGGCTATGTGC
64 GCAGGCTATGTGC
* * *
122299899 TGGAAACATATCCGGA-TT-GTCC-CAGGCTATGTGCTGG-AA-ATATCCGGGCTTAAAGTCCGT
1 TGGAAACATATCCGGACTTGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTAAAGTCCGC
*
122299959 AGGCTTTGTGC
66 AGGCTATGTGC
*
122299970 TAGAAA
1 TGGAAA
122299976 TTGGACTCGG
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
71 32 0.46
72 2 0.03
73 14 0.20
74 4 0.06
77 2 0.03
78 16 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (76 bp):
TGGAAACATATCCGGACTTGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTAAAGTCCGC
AGGCTATGTGC
Found at i:122312601 original size:25 final size:24
Alignment explanation
Indices: 122312551--122312602 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
122312541 TAACGTATAG
**
122312551 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
122312575 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
122312600 AAT
1 AAT
122312603 GATATTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:122313895 original size:16 final size:16
Alignment explanation
Indices: 122313874--122313905 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
122313864 TTTTGTGTAA
*
122313874 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
122313890 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
122313906 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:122317143 original size:124 final size:124
Alignment explanation
Indices: 122316978--122317361 Score: 513
Period size: 132 Copynumber: 3.0 Consensus size: 124
122316968 AAAACACGAG
* * * * *
122316978 TGAAATTCAAAAGGGATATTCGATTATTTTGAACAAACGAGAGATTGCAACCCAACACGATAGGG
1 TGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
* * * *
122317043 CACTG-TTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGAGTTTTTAGAA
66 CAC-GATTCCGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAATTTTTAGAA
* * *
122317102 TGAAATTCTAAAGAGATATTCGATTATTTTGAGCAAACGAGAAATTGTAACCCAGCATGTTAGGG
1 TGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
* *
122317167 CACGATTCGGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAAATATG
66 CACGATTCCGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAA-TTTT------TA-G
122317232 AA
123 AA
* *
122317234 TGAAATTTTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
1 TGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
*
122317299 CACGATTCCGCGAATTGCCAAATATCGAATATTGCCTTCGTTTTAAAGAATTTTTA-AA
66 CACGATTCCGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAATTTTTAGAA
122317357 T-AAAT
1 TGAAAT
122317362 AATTATAAAA
Statistics
Matches: 229, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
122 4 0.02
123 4 0.02
124 99 0.43
125 6 0.03
131 6 0.03
132 110 0.48
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (124 bp):
TGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGG
CACGATTCCGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAATTTTTAGAA
Found at i:122317909 original size:3 final size:3
Alignment explanation
Indices: 122317901--122317947 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
122317891 TATGTATAAG
122317901 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
122317948 GTACCATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:122318176 original size:31 final size:31
Alignment explanation
Indices: 122318148--122318206 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
122318138 AACTATATGT
122318148 ATAAAATACATAGAT-TTAAT-AATATATATAG
1 ATAAAAT--ATAGATATTAATAAATATATATAG
*
122318179 ATCAAATATAGATATTAATAAATATATA
1 ATAAAATATAGATATTAATAAATATATA
122318207 CATATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 6 0.24
30 5 0.20
31 14 0.56
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (31 bp):
ATAAAATATAGATATTAATAAATATATATAG
Found at i:122318360 original size:2 final size:2
Alignment explanation
Indices: 122318353--122318386 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
122318343 TAATACAAAG
*
122318353 TA TA TA TA TA CA 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
122318387 ATAGTGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:122329236 original size:21 final size:20
Alignment explanation
Indices: 122329199--122329237 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
122329189 ATTCTATTAT
*
122329199 TCTTTTATTTTTTTTTTAGG
1 TCTTTTATTTTTATTTTAGG
*
122329219 TCTTTTTTTTCTTATTTTA
1 TCTTTTATTT-TTATTTTA
122329238 TTGTTGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (20 bp):
TCTTTTATTTTTATTTTAGG
Found at i:122333501 original size:18 final size:18
Alignment explanation
Indices: 122333467--122333762 Score: 168
Period size: 18 Copynumber: 16.1 Consensus size: 18
122333457 TCATTAACTC
* *
122333467 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
122333484 TCAGTAACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** **
122333502 TTGGTAACAATCAAATAT
1 TCAGTAACAATCAGTTAT
* * *
122333520 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
122333538 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
122333564 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
122333582 TCAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
*
122333599 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
122333618 TTAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
122333636 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
122333654 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
122333672 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
122333690 TCAGTAACAGTCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * * *
122333708 CCAGTAGCAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
122333726 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
122333744 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
122333762 T
1 T
122333763 TTATACCTTT
Statistics
Matches: 213, Mismatches: 51, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
17 21 0.10
18 158 0.74
19 17 0.08
21 2 0.01
22 1 0.00
23 2 0.01
26 12 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:122333672 original size:54 final size:54
Alignment explanation
Indices: 122333559--122333762 Score: 191
Period size: 54 Copynumber: 3.8 Consensus size: 54
122333549 CAATTGATCG
* *
122333559 GTTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACAATCAA
* * * **
122333613 GTTATTTAGTAACAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCAATT-ATTCAGT-AAAATCAGATATTCAGTAACAATCAA
* * * * * * *
122333668 -TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAGCAGTCAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATC-AGATATTCAGTAACAATCAA
* *
122333722 -TTATCCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATCAGATATT
122333763 TTATACCTTT
Statistics
Matches: 117, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
53 5 0.04
54 88 0.75
55 24 0.21
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACAATCAA
Found at i:122333696 original size:72 final size:71
Alignment explanation
Indices: 122333561--122333762 Score: 212
Period size: 72 Copynumber: 2.8 Consensus size: 71
122333551 ATTGATCGGT
* * * * *
122333561 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTTAGTAA
1 TATCCAGTAGCAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
122333625 CAGTC-AT
64 CAGTCTAA
* * *
122333632 TCATTCAGT-GACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTA
1 T-ATCCAGTAG-CAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTA
122333696 ACAGTCTAA
63 ACAGTCTAA
* * * *
122333705 TATCCAGTAGCAGTCAATTATCCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAGCAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
122333763 TTATACCTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
71 1 0.01
72 90 0.83
73 17 0.16
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAGCAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:122333995 original size:45 final size:45
Alignment explanation
Indices: 122333936--122334060 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
122333926 AACAATAACA
* * *
122333936 GTAACAGT-ACAGTAACAATATCCAACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
122333980 GTAACGGTAATAGTAAAAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
122334025 GTAACGGTAACAGTAACAACATTCGACACACAAAGT
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGT
122334061 ACCTAAAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 7 0.10
45 65 0.90
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:122335604 original size:5 final size:5
Alignment explanation
Indices: 122335596--122335622 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
122335586 TCTTTAGTTT
122335596 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
122335623 TAAAACATAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:122335658 original size:8 final size:8
Alignment explanation
Indices: 122335641--122335673 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
122335631 AAAATATCTT
122335641 TAAT-ATA
1 TAATAATA
122335648 TAATAATA
1 TAATAATA
122335656 TAATAATA
1 TAATAATA
122335664 TAATAATA
1 TAATAATA
122335672 TA
1 TA
122335674 CTAAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:122339784 original size:18 final size:18
Alignment explanation
Indices: 122339770--122339988 Score: 82
Period size: 18 Copynumber: 11.7 Consensus size: 18
122339760 GAACAATTAT
122339770 TTATTTAGTAACAATCAG
1 TTATTTAGTAACAATCAG
* *
122339788 TTATTTGGTAACAATCAA
1 TTATTTAGTAACAATCAG
* * * * *
122339806 ATATTCAATAATAACCAG
1 TTATTTAGTAACAATCAG
* *
122339824 TTATTCAGTATCGATCAATTGATCGG
1 TTATTTAGTA---A-C-A---ATCAG
** * *
122339850 TTATCCAGTAACAGTCAA
1 TTATTTAGTAACAATCAG
*
122339868 TTATTCAGTAA-AATCAG
1 TTATTTAGTAACAATCAG
* * *
122339885 ATATTCAGTAACAATTAAG
1 TTATTTAGTAACAA-TCAG
*
122339904 TTATTTAGTAACAGTCA-
1 TTATTTAGTAACAATCAG
* *
122339921 TTCATTCAGTGACAATCAG
1 TT-ATTTAGTAACAATCAG
* ** *
122339940 TTATTCAGTAATGATCAA
1 TTATTTAGTAACAATCAG
* * *
122339958 TTATTCAGTAATATTCAG
1 TTATTTAGTAACAATCAG
*
122339976 TTATTCAGTAACA
1 TTATTTAGTAACA
122339989 GTCTAATATC
Statistics
Matches: 151, Mismatches: 38, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
17 16 0.11
18 102 0.68
19 16 0.11
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.08
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTTAGTAACAATCAG
Found at i:122339942 original size:36 final size:36
Alignment explanation
Indices: 122339850--122340052 Score: 173
Period size: 36 Copynumber: 5.6 Consensus size: 36
122339840 AATTGATCGG
* * * *
122339850 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTCA-A
* *
122339886 -TATTCAGTAACAATTAAGTTATTTAGTAACAGTC-A
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAGTCAA
* *
122339921 TTCATTCAGTGACAATCAGTTATTCAGTAA-TGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAG-TCAA
* *
122339958 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTC-AA
* * * * * *
122339995 -TATCCAGTAGCAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAA
*
122340030 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
122340053 TTATACCTTT
Statistics
Matches: 131, Mismatches: 27, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
35 15 0.11
36 96 0.73
37 20 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAGTCAA
Found at i:122339986 original size:72 final size:71
Alignment explanation
Indices: 122339851--122340052 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 71
122339841 ATTGATCGGT
* * * * *
122339851 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTTAGTAA
1 TATCCAGTAGCAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
122339915 CAGTC-AT
64 CAGTCTAA
* * *
122339922 TCATTCAGT-GACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTA
1 T-ATCCAGTAG-CAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTA
122339986 ACAGTCTAA
63 ACAGTCTAA
* * * * *
122339995 TATCCAGTAGCAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAGCAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
122340053 TTATACCTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
71 1 0.01
72 89 0.83
73 17 0.16
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAGCAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:122340002 original size:18 final size:18
Alignment explanation
Indices: 122339850--122340040 Score: 113
Period size: 18 Copynumber: 10.6 Consensus size: 18
122339840 AATTGATCGG
122339850 TTATCCAGTAACAGTCAA
1 TTATCCAGTAACAGTCAA
* *
122339868 TTATTCAGTAA-AATCAGA
1 TTATCCAGTAACAGTCA-A
* * *
122339886 -TATTCAGTAACAATTAA
1 TTATCCAGTAACAGTCAA
**
122339903 GTTATTTAGTAACAGTC-A
1 -TTATCCAGTAACAGTCAA
* * * *
122339921 TTCATTCAGTGACAATCAG
1 TT-ATCCAGTAACAGTCAA
* *
122339940 TTATTCAGTAA-TGATCAA
1 TTATCCAGTAACAG-TCAA
* * * *
122339958 TTATTCAGTAATATTCAG
1 TTATCCAGTAACAGTCAA
*
122339976 TTATTCAGTAACAGTCTAA
1 TTATCCAGTAACAGTC-AA
*
122339995 -TATCCAGTAGCAGTCAA
1 TTATCCAGTAACAGTCAA
*
122340012 TTATCCGGTAACAGTCAA
1 TTATCCAGTAACAGTCAA
*
122340030 TTATTCAGTAA
1 TTATCCAGTAA
122340041 TAATCAGTTA
Statistics
Matches: 137, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 19 0.14
18 103 0.75
19 15 0.11
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATCCAGTAACAGTCAA
Found at i:122340285 original size:45 final size:45
Alignment explanation
Indices: 122340226--122340374 Score: 228
Period size: 45 Copynumber: 3.3 Consensus size: 45
122340216 AACAGTAACA
* * *
122340226 GTAACAGT-ACAGTAACAATATCCAACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
122340270 GTAACGGTAATAGTAATAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
122340315 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
122340360 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
122340375 GCGGTAACAG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 7 0.07
45 88 0.93
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:122341909 original size:68 final size:68
Alignment explanation
Indices: 122341762--122341917 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
122341752 AGCCGATTTG
* * * * *
122341762 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
122341827 TATC
65 TATA
* *
122341831 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
122341893 ATATAGTA
62 ATATA-TA
122341901 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
122341918 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:122352059 original size:26 final size:26
Alignment explanation
Indices: 122352023--122352184 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
122352013 TGATACAAAT
*
122352023 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
122352049 TGATAATAGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
122352075 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
122352101 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
122352127 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
122352153 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
122352179 TGATAA
1 TGATAA
122352185 GAATTTCATG
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 131 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:122355260 original size:9 final size:9
Alignment explanation
Indices: 122355246--122355275 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
122355236 TTCTATTTCC
*
122355246 TTTCTTTTG
1 TTTCTTTAG
122355255 TTTCTTTAG
1 TTTCTTTAG
122355264 TTTCTTTAG
1 TTTCTTTAG
122355273 TTT
1 TTT
122355276 ATATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.73
Consensus pattern (9 bp):
TTTCTTTAG
Found at i:122355284 original size:5 final size:5
Alignment explanation
Indices: 122355276--122355317 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
122355266 TCTTTAGTTT
122355276 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
122355318 TAAAACATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:122355353 original size:8 final size:8
Alignment explanation
Indices: 122355336--122355368 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
122355326 AAAATATCTT
122355336 TAAT-ATA
1 TAATAATA
122355343 TAATAATA
1 TAATAATA
122355351 TAATAATA
1 TAATAATA
122355359 TAATAATA
1 TAATAATA
122355367 TA
1 TA
122355369 CTAAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:122355359 original size:16 final size:15
Alignment explanation
Indices: 122355283--122355368 Score: 68
Period size: 16 Copynumber: 5.5 Consensus size: 15
122355273 TTTATATAAT
122355283 ATAATATAATATA-A
1 ATAATATAATATATA
122355297 TATAATATAATATA-A
1 -ATAATATAATATATA
* * *
122355312 TATAATTAAAACATAAA
1 -ATAA-TATAATATATA
* *
122355329 ATATCTTTAATATATA
1 ATA-ATATAATATATA
122355345 ATAATATAATAATATA
1 ATAATATAAT-ATATA
122355361 ATAATATA
1 ATAATATA
122355369 CTAAACATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
15 24 0.41
16 33 0.57
17 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATAATATATA
Found at i:122358105 original size:47 final size:48
Alignment explanation
Indices: 122357983--122358161 Score: 203
Period size: 47 Copynumber: 3.8 Consensus size: 48
122357973 TGTAACCCGC
* * * *
122357983 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
*
122358029 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-A-TTCACAT
*
122358079 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATT-CACAT
*
122358123 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
122358162 TTCAACCATC
Statistics
Matches: 114, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCACAT
Found at i:122358151 original size:94 final size:93
Alignment explanation
Indices: 122357991--122358161 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
122357981 GCCCATAAGT
* * *
122357991 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
122358056 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
122358084 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
122358149 ACGAGTTCGGATG
65 ACGAGTTCGGATG
122358162 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:122365288 original size:4 final size:4
Alignment explanation
Indices: 122365268--122365318 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
122365258 TATAAACAAT
* * *
122365268 ATAA A-AA AT-A A-AA ATAA ATAA ATAG ATAA ATGA ACAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
122365313 ATAA AT
1 ATAA AT
122365319 TTGTAAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 7 0.18
4 31 0.82
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:122367159 original size:20 final size:18
Alignment explanation
Indices: 122367137--122367171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
122367127 CACAAGGGCG
*
122367137 TGTGCCCCCACACAGGCA
1 TGTGTCCCCACACAGGCA
*
122367155 TGTGTCCCTACACAGGC
1 TGTGTCCCCACACAGGC
122367172 GGTCCACATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTGTCCCCACACAGGCA
Found at i:122369749 original size:26 final size:24
Alignment explanation
Indices: 122369705--122369765 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
122369695 TCAGAATTTC
122369705 TTTAAAATTAATAATATTATCTTA
1 TTTAAAATTAATAATATTATCTTA
* *
122369729 TTTAAATATGTAATATTATTATTTTA
1 TTTAAA-AT-TAATAATATTATCTTA
*
122369755 TTTAAACTTAA
1 TTTAAAATTAA
122369766 ATCAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.28
25 3 0.09
26 20 0.62
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAATTAATAATATTATCTTA
Found at i:122373791 original size:22 final size:21
Alignment explanation
Indices: 122373748--122373791 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
122373738 TATTAAAACT
* * *
122373748 TAAATTTGATTATTTTTTAAA
1 TAAATTTAATTATTATTCAAA
122373769 TAAATTTAATTTATTATTCAAA
1 TAAATTTAA-TTATTATTCAAA
122373791 T
1 T
122373792 TCATTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TAAATTTAATTATTATTCAAA
Found at i:122378000 original size:2 final size:2
Alignment explanation
Indices: 122377993--122378018 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122377983 AATCATTTGT
122377993 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
122378019 AAAACTAATC
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):
TA
Found at i:122382027 original size:6 final size:6
Alignment explanation
Indices: 122381981--122382025 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
122381971 CTTGCTATTC
*
122381981 ACCC-A ACCCTAA A-CCAA ACCCAA ACCCAA ACCCAA ACCCCA ACCC
1 ACCCAA ACCC-AA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCC
122382026 CACCCCCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
5 7 0.19
6 27 0.75
7 2 0.06
ACGTcount: A:0.44, C:0.53, G:0.00, T:0.02
Consensus pattern (6 bp):
ACCCAA
Found at i:122384999 original size:31 final size:33
Alignment explanation
Indices: 122384946--122385006 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
122384936 ACTTAACAAC
122384946 TTAAATAAAAAAATATTAAAATAATTTAATGCT
1 TTAAATAAAAAAATATTAAAATAATTTAATGCT
* *
122384979 TTAAAT-AAAAACT-TTTAAATAATTTAAT
1 TTAAATAAAAAAATATTAAAATAATTTAAT
122385007 AACTATCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 14 0.54
32 6 0.23
33 6 0.23
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (33 bp):
TTAAATAAAAAAATATTAAAATAATTTAATGCT
Found at i:122385847 original size:17 final size:18
Alignment explanation
Indices: 122385825--122385863 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
122385815 GATCCAAACA
122385825 TTAAAAAAT-ATTATTTT
1 TTAAAAAATAATTATTTT
122385842 TTAAAAAATAAATTATTTT
1 TTAAAAAAT-AATTATTTT
122385861 TTA
1 TTA
122385864 GAAATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAAAATAATTATTTT
Found at i:122391491 original size:16 final size:16
Alignment explanation
Indices: 122391470--122391506 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
122391460 GCTGTTCTTG
* *
122391470 AACAACAGTTGTTCTA
1 AACAACAATTATTCTA
122391486 AACAACAATTATTCTA
1 AACAACAATTATTCTA
122391502 AACAA
1 AACAA
122391507 GAGATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (16 bp):
AACAACAATTATTCTA
Found at i:122392363 original size:20 final size:18
Alignment explanation
Indices: 122392338--122392378 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
122392328 TTTTATTGAT
122392338 TTTGTATAAAAAGATAAATA
1 TTTGTATAAAAA-A-AAATA
*
122392358 TTTGTATATAAAAAAATA
1 TTTGTATAAAAAAAAATA
122392376 TTT
1 TTT
122392379 CAATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (18 bp):
TTTGTATAAAAAAAAATA
Found at i:122395615 original size:26 final size:26
Alignment explanation
Indices: 122395579--122395630 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
122395569 TCTGAAAAGG
122395579 AACATCAAGAAGGTTTAAGGGTGCAT
1 AACATCAAGAAGGTTTAAGGGTGCAT
122395605 AACATCAAGAAGGTTTAAGGGTGCAT
1 AACATCAAGAAGGTTTAAGGGTGCAT
122395631 TTCCCATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (26 bp):
AACATCAAGAAGGTTTAAGGGTGCAT
Found at i:122395811 original size:4 final size:4
Alignment explanation
Indices: 122395802--122395878 Score: 154
Period size: 4 Copynumber: 19.2 Consensus size: 4
122395792 CAAAGGAAAC
122395802 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
122395850 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
122395879 CGGCAACAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 73 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:122397410 original size:29 final size:29
Alignment explanation
Indices: 122397334--122397413 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
122397324 TTAAAATTTT
* *
122397334 AAAATTAGAGAAACTAAAGTCTTAAAAACA
1 AAAATT-GAGAGACTAAATTCTTAAAAACA
* * * *
122397364 AAAGTTGAGGGACTAAATTTTTAAAAATA
1 AAAATTGAGAGACTAAATTCTTAAAAACA
*
122397393 AAAATTGATAGACTAAATTCT
1 AAAATTGAGAGACTAAATTCT
122397414 AAATATATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 35 0.88
30 5 0.12
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (29 bp):
AAAATTGAGAGACTAAATTCTTAAAAACA
Found at i:122398083 original size:43 final size:43
Alignment explanation
Indices: 122398022--122398109 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
122398012 TTAGACATGG
*
122398022 CTCCTCCATACTTTTTGGCGAGTAGTCACCATAAATTGTTTTT
1 CTCCTCCAAACTTTTTGGCGAGTAGTCACCATAAATTGTTTTT
*
122398065 CTCCTCCAAACTTTTTGGCGGGTAGTCACCATAAATTGTTTTT
1 CTCCTCCAAACTTTTTGGCGAGTAGTCACCATAAATTGTTTTT
122398108 CT
1 CT
122398110 TTTCACAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (43 bp):
CTCCTCCAAACTTTTTGGCGAGTAGTCACCATAAATTGTTTTT
Found at i:122399242 original size:22 final size:21
Alignment explanation
Indices: 122399203--122399267 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
122399193 AAAAATACTC
*
122399203 ATTAAATAAACTTTAAAATTTT
1 ATTAAATAAA-TTAAAAATTTT
**
122399225 ATTAAATAATATTAAAAAAATT
1 ATTAAATAA-ATTAAAAATTTT
* *
122399247 ATAAAACAAA-TAAAAATTTT
1 ATTAAATAAATTAAAAATTTT
122399267 A
1 A
122399268 AAAACCAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
22 24 0.69
23 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTAAATAAATTAAAAATTTT
Found at i:122407236 original size:27 final size:26
Alignment explanation
Indices: 122407197--122407254 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
122407187 GGAAAAAATT
122407197 TTAAATTTAATTTAATAATTA-TTAA
1 TTAAATTTAATTTAATAATTATTTAA
122407222 GTTAAATTTTAATTTAATAATTATTTAA
1 -TTAAA-TTTAATTTAATAATTATTTAA
122407250 TTAAA
1 TTAAA
122407255 AATTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 5 0.17
27 21 0.70
28 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTAAATTTAATTTAATAATTATTTAA
Found at i:122407250 original size:16 final size:16
Alignment explanation
Indices: 122407201--122407251 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
122407191 AAAATTTTAA
122407201 ATTTAATTTAATAATT
1 ATTTAATTTAATAATT
*
122407217 A-TTAAGTT-A-AA-T
1 ATTTAATTTAATAATT
122407229 -TTTAATTTAATAATT
1 ATTTAATTTAATAATT
122407244 ATTTAATT
1 ATTTAATT
122407252 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 3 0.11
15 7 0.25
16 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTAATTTAATAATT
Found at i:122408843 original size:22 final size:23
Alignment explanation
Indices: 122408818--122408861 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
122408808 TCATTATTTG
122408818 GCCTC-TAATATATTTTTAGTAC
1 GCCTCGTAATATATTTTTAGTAC
*
122408840 GCCTCTGTTATATATTTTTAGT
1 GCCTC-GTAATATATTTTTAGT
122408862 CCCTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
24 14 0.74
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (23 bp):
GCCTCGTAATATATTTTTAGTAC
Found at i:122417465 original size:30 final size:30
Alignment explanation
Indices: 122417431--122417510 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
122417421 CCTATGTTAT
*
122417431 TGTATATTTTTAAATTTAAAATTTAGTTTA
1 TGTATATTTTTAAATTTAAAAATTAGTTTA
** *
122417461 TG--TATTTTTATTTTTAAAAAATTAGTTTC
1 TGTATATTTTTAAATTT-AAAAATTAGTTTA
* *
122417490 TCTAT-TTTTTAGATTTAAAAA
1 TGTATATTTTTAAATTTAAAAA
122417511 ATTAAGTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
28 11 0.28
29 17 0.43
30 11 0.28
31 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (30 bp):
TGTATATTTTTAAATTTAAAAATTAGTTTA
Found at i:122417511 original size:30 final size:29
Alignment explanation
Indices: 122417435--122417514 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 29
122417425 TGTTATTGTA
* *
122417435 TATTTTTAAATTT-AAAATTTAGTTTATG
1 TATTTTTAAATTTAAAAAATTAGTTTATC
** *
122417463 TATTTTTATTTTTAAAAAATTAGTTTCTC
1 TATTTTTAAATTTAAAAAATTAGTTTATC
*
122417492 TATTTTTTAGATTTAAAAAATTA
1 TA-TTTTTAAATTTAAAAAATTA
122417515 AGTCAAGCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 11 0.26
29 14 0.33
30 18 0.42
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (29 bp):
TATTTTTAAATTTAAAAAATTAGTTTATC
Found at i:122422607 original size:19 final size:19
Alignment explanation
Indices: 122422592--122422636 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
122422582 TATTAAATTT
122422592 TATT-ATAAAATATAAAAA
1 TATTAATAAAATATAAAAA
122422610 TATTAATAAAATATAAAAA
1 TATTAATAAAATATAAAAA
122422629 TATTAATA
1 TATTAATA
122422637 TACTAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TATTAATAAAATATAAAAA
Found at i:122429604 original size:186 final size:186
Alignment explanation
Indices: 122429172--122429741 Score: 829
Period size: 196 Copynumber: 3.0 Consensus size: 186
122429162 ATCAGGTACC
*
122429172 TTCATTTTTTGCTCGGGCTTCTTTTCTAGATTTGACGATATGAAAACATGACATAAACACAACGC
1 TTCATTTTTTGCTCGGGTTTCTTTTCTAGATTTGACGATATGAAAACATGACATAAACACAACGC
* *
122429237 ATTTTGGTACATTTATTGTACTCATATTTAGGATCTTGACACATTATAATTTGTACTGAATTTAT
66 ATTTTGGTACATTTATAGTACTCATATTTAGGATCTTGACACA--ATAATTTGTATTGAATTTAT
* *
122429302 ACTCTCACGGTTTACACGAAAAGAACACGAGCTAAGGGATGTAGACATGTAGACATGAATTAAAC
129 ACTCTCACGGTTTACACGAAAAGAACATGAGCTAAGGGATGT----A--T--ACACGAATTAAAC
122429367 A
186 A
122429368 TTCATTTTTTGCTCGGGTTTCTTTTCTAGATTTGACGATATGAAAACATGACATAAACACAACGC
1 TTCATTTTTTGCTCGGGTTTCTTTTCTAGATTTGACGATATGAAAACATGACATAAACACAACGC
* * *
122429433 ATTTTGGTACATTTATCGCACTCATATTTAGGATCTTGACACAATAATTTGTATTGAATTTAAAC
66 ATTTTGGTACATTTATAGTACTCATATTTAGGATCTTGACACAATAATTTGTATTGAATTTATAC
*
122429498 TCTCACGGTTTACACGAAAAGTACATGAGCTAAGGGATGTATACACGAATTAAACA
131 TCTCACGGTTTACACGAAAAGAACATGAGCTAAGGGATGTATACACGAATTAAACA
* *
122429554 TTCATTTTTTGCTCGGGTTTCTTTTCTAGATTTGACGATCTGAAAACATGACATAAACACAACAC
1 TTCATTTTTTGCTCGGGTTTCTTTTCTAGATTTGACGATATGAAAACATGACATAAACACAACGC
* * * * *
122429619 A-TTTAGTACATTTGTAGTACTCGTATTTAGGATTTTGACACATAATTATTTGTATTGAATTTAT
66 ATTTTGGTACATTTATAGTACTCATATTTAGGATCTTGACAC--AATAATTTGTATTGAATTTAT
* * * *
122429683 A-TTTACACGGTTTACATGAAAAGGACATGAGCTAAGGCATGTATACACGAATTAAACA
129 ACTCT-CACGGTTTACACGAAAAGAACATGAGCTAAGGGATGTATACACGAATTAAACA
122429741 T
1 T
122429742 CTCTAATGTG
Statistics
Matches: 349, Mismatches: 22, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
185 34 0.10
186 79 0.23
187 71 0.20
188 1 0.00
190 1 0.00
194 58 0.17
196 105 0.30
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (186 bp):
TTCATTTTTTGCTCGGGTTTCTTTTCTAGATTTGACGATATGAAAACATGACATAAACACAACGC
ATTTTGGTACATTTATAGTACTCATATTTAGGATCTTGACACAATAATTTGTATTGAATTTATAC
TCTCACGGTTTACACGAAAAGAACATGAGCTAAGGGATGTATACACGAATTAAACA
Found at i:122439549 original size:24 final size:24
Alignment explanation
Indices: 122439495--122439549 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
122439485 TTAAAAGTAA
122439495 TAAA-ATAATAAAAATTATATTTT
1 TAAATATAATAAAAATTATATTTT
* * *
122439518 TAATTATAATTAAATTTA-ATTTT
1 TAAATATAATAAAAATTATATTTT
122439541 TCAAATATA
1 T-AAATATA
122439550 CTTTTTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAATATAATAAAAATTATATTTT
Found at i:122443983 original size:20 final size:20
Alignment explanation
Indices: 122443940--122443984 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
122443930 AGATAAAAAA
*
122443940 AATTAAATATCAATTCAAAT
1 AATTAAATATCAACTCAAAT
122443960 -ATTAAA-ATCAAACTCAAAT
1 AATTAAATATC-AACTCAAAT
122443979 AATTAA
1 AATTAA
122443985 CAATTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 5 0.23
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (20 bp):
AATTAAATATCAACTCAAAT
Found at i:122449143 original size:18 final size:18
Alignment explanation
Indices: 122449120--122449157 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
122449110 CTCTCCGTTA
122449120 TGGCGGCGGTGGTGATGG
1 TGGCGGCGGTGGTGATGG
*
122449138 TGGCGGCGGTGTTGATGG
1 TGGCGGCGGTGGTGATGG
122449156 TG
1 TG
122449158 ATAGTGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.11, G:0.58, T:0.26
Consensus pattern (18 bp):
TGGCGGCGGTGGTGATGG
Found at i:122449165 original size:27 final size:27
Alignment explanation
Indices: 122449135--122449186 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
122449125 GCGGTGGTGA
* *
122449135 TGGTGGCGGCGGTGTTGATGGTGATAG
1 TGGTGGCGGCGGTGCTGATGCTGATAG
* *
122449162 TGGTGGTGGTGGTGCTGATGCTGAT
1 TGGTGGCGGCGGTGCTGATGCTGAT
122449187 GCTGATCGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.10, C:0.08, G:0.50, T:0.33
Consensus pattern (27 bp):
TGGTGGCGGCGGTGCTGATGCTGATAG
Found at i:122452039 original size:14 final size:14
Alignment explanation
Indices: 122452009--122452042 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
122451999 GTTTGCTAAT
*
122452009 AAAATATTTTCCGG
1 AAAATATTTTCCAG
*
122452023 AAAATATTTTCTAG
1 AAAATATTTTCCAG
122452037 AAAATA
1 AAAATA
122452043 ATTTACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (14 bp):
AAAATATTTTCCAG
Found at i:122455790 original size:18 final size:18
Alignment explanation
Indices: 122455767--122455801 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
122455757 ACAATGGAAA
122455767 ATAAACAAAAAAAAACAT
1 ATAAACAAAAAAAAACAT
**
122455785 ATAAACTTAAAAAAACA
1 ATAAACAAAAAAAAACA
122455802 CGGATACAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (18 bp):
ATAAACAAAAAAAAACAT
Found at i:122471552 original size:13 final size:14
Alignment explanation
Indices: 122471536--122471571 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
122471526 CAATCTCATA
122471536 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
122471549 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
122471562 TCTC-ATTTCA
1 TCTCAATTTCA
122471572 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:122471561 original size:18 final size:19
Alignment explanation
Indices: 122471523--122471563 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
122471513 TGGTTCATGT
122471523 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
122471542 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
122471560 TTTC
1 TTTC
122471564 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:122471755 original size:23 final size:23
Alignment explanation
Indices: 122471724--122471789 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
122471714 CCTGATCAGT
122471724 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
122471746 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
122471768 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
122471790 TCAGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:122472986 original size:2 final size:2
Alignment explanation
Indices: 122472981--122473010 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
122472971 TTTTGTTTCT
122472981 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
122473011 ATGACAATAA
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:122475463 original size:35 final size:35
Alignment explanation
Indices: 122475424--122475495 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
122475414 ATTTGAATGC
*
122475424 ATGTAATGTCATGATTTGATTTTGATTAGATTGAG
1 ATGTAATGTCATGATTTGATTTTAATTAGATTGAG
*
122475459 ATGTAATGTCATGATTTGGTTTTAATTAGATTGAG
1 ATGTAATGTCATGATTTGATTTTAATTAGATTGAG
122475494 AT
1 AT
122475496 CATGTTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (35 bp):
ATGTAATGTCATGATTTGATTTTAATTAGATTGAG
Found at i:122479846 original size:9 final size:9
Alignment explanation
Indices: 122479832--122479910 Score: 56
Period size: 9 Copynumber: 8.8 Consensus size: 9
122479822 TGCTCTCGGT
122479832 CTTCTTTTC
1 CTTCTTTTC
122479841 CTTCTTTTC
1 CTTCTTTTC
*
122479850 TTTCTTTTC
1 CTTCTTTTC
* *
122479859 CTTCCTGTC
1 CTTCTTTTC
122479868 CTTGTCTTTCTC
1 C-T-TCTTT-TC
*
122479880 CTTCTTGT-
1 CTTCTTTTC
**
122479888 CTT-TCAT-
1 CTTCTTTTC
122479895 CTTCTTTTC
1 CTTCTTTTC
122479904 CTTCTTT
1 CTTCTTT
122479911 CCATGGCAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 32 0.59
10 5 0.09
11 4 0.07
12 3 0.06
ACGTcount: A:0.01, C:0.32, G:0.04, T:0.63
Consensus pattern (9 bp):
CTTCTTTTC
Found at i:122488232 original size:12 final size:12
Alignment explanation
Indices: 122488211--122488243 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
122488201 AAGGGATCCC
122488211 TTTCTTTCTTGG
1 TTTCTTTCTTGG
*
122488223 TTTTTTTCTTGG
1 TTTCTTTCTTGG
122488235 TTTCTTTCT
1 TTTCTTTCT
122488244 CAGCTTCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (12 bp):
TTTCTTTCTTGG
Done.