Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 7 of 91
Found at i:2070386 original size:20 final size:21
Alignment explanation
Indices: 2070344--2070390 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2070334 CTTCTAAACC
2070344 TCAAATCT-TACTCCAATTAAG
1 TCAAAT-TATACTCCAATTAAG
2070365 TCAAATTATACTCCAA-TAAG
1 TCAAATTATACTCCAATTAAG
2070385 TCAAAT
1 TCAAAT
2070391 GGGGCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (21 bp):
TCAAATTATACTCCAATTAAG
Found at i:2081903 original size:24 final size:24
Alignment explanation
Indices: 2081868--2081926 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
2081858 CTTAATAAAA
2081868 TTACACGCCATGTACAAAAACATG
1 TTACACGCCATGTACAAAAACATG
* *
2081892 TTACACGTCATGTACAAAAATATG
1 TTACACGCCATGTACAAAAACATG
* *
2081916 TGACACCCCAT
1 TTACACGCCAT
2081927 AGTTAGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (24 bp):
TTACACGCCATGTACAAAAACATG
Found at i:2081971 original size:24 final size:24
Alignment explanation
Indices: 2081935--2081992 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
2081925 ATAGTTAGGT
** * *
2081935 TGTTACATGTCATGCACAAAAATA
1 TGTTACACATCATGAACAAAAACA
2081959 TGTTACACATCATGAACAAAAACA
1 TGTTACACATCATGAACAAAAACA
*
2081983 TGTGACACAT
1 TGTTACACAT
2081993 TTTGGTTAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (24 bp):
TGTTACACATCATGAACAAAAACA
Found at i:2082001 original size:69 final size:69
Alignment explanation
Indices: 2081876--2082035 Score: 185
Period size: 69 Copynumber: 2.3 Consensus size: 69
2081866 AATTACACGC
* * * * *
2081876 CATGTACAAAAACATGTTACACGTCATGTACAAAAATATGTGACACCCCATAGTTAGGTTGTTAC
1 CATGCACAAAAACATGTTACACATCATGAACAAAAACATGTGACACACCATAGTTAGGTTGTTAC
2081941 ATGT
66 ATGT
* *** *
2081945 CATGCACAAAAATATGTTACACATCATGAACAAAAACATGTGACACATTTTGGTTAGGTTGTTAC
1 CATGCACAAAAACATGTTACACATCATGAACAAAAACATGTGACACACCATAGTTAGGTTGTTAC
* *
2082010 ACGC
66 ATGT
* * *
2082014 CATGTATAAAAACATGTGACAC
1 CATGCACAAAAACATGTTACAC
2082036 GTCACGGTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (69 bp):
CATGCACAAAAACATGTTACACATCATGAACAAAAACATGTGACACACCATAGTTAGGTTGTTAC
ATGT
Found at i:2082009 original size:45 final size:45
Alignment explanation
Indices: 2081959--2082131 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 45
2081949 CACAAAAATA
**
2081959 TGTTACACATCATGAACAAAAACATGTGACACATTTTGGTTAGGT
1 TGTTACACATCATGAACAAAAACATGTGACACATCATGGTTAGGT
** * * * *
2082004 TGTTACACGCCATGTATAAAAACATGTGACACGTCACGGTTAGGT
1 TGTTACACATCATGAACAAAAACATGTGACACATCATGGTTAGGT
** *
2082049 TGTTATGCATCAT-ATACAAAAACATGTGACATC-CCATGGTTAGGT
1 TGTTACACATCATGA-ACAAAAACATGTGACA-CATCATGGTTAGGT
* *
2082094 TGTTACACATCATGTACAAAAACATGTTACACATCATG
1 TGTTACACATCATGAACAAAAACATGTGACACATCATG
2082132 TACAAAAACA
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 1 0.01
45 101 0.98
46 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (45 bp):
TGTTACACATCATGAACAAAAACATGTGACACATCATGGTTAGGT
Found at i:2082139 original size:69 final size:68
Alignment explanation
Indices: 2082056--2082258 Score: 298
Period size: 69 Copynumber: 2.9 Consensus size: 68
2082046 GGTTGTTATG
* * *
2082056 CATCATATACAAAAACATGTGACATCCCATGGTTAGGTTGTTACACATCATGTACAAAAACATGT
1 CATCATGTACAAAAACATGTGACA-CCCATGGTTAGATTGTTACACGTCATGTACAAAAACATGT
2082121 TACA
65 TACA
2082125 CATCATGTACAAAAACATGTGACACCTCATGGTTAGATTGTTACACGTCATGTACAAAAACATGT
1 CATCATGTACAAAAACATGTGACACC-CATGGTTAGATTGTTACACGTCATGTACAAAAACATGT
2082190 TACA
65 TACA
* * * * * *
2082194 CGTCATGAACAAAAACATGTGACACGTCTTGATTAGATTGTTACACGCCATGTACAAAAACATGT
1 CATCATGTACAAAAACATGTGACAC-CCATGGTTAGATTGTTACACGTCATGTACAAAAACATGT
2082259 GATATGCCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
68 2 0.02
69 121 0.98
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (68 bp):
CATCATGTACAAAAACATGTGACACCCATGGTTAGATTGTTACACGTCATGTACAAAAACATGTT
ACA
Found at i:2082184 original size:159 final size:159
Alignment explanation
Indices: 2081899--2082198 Score: 456
Period size: 159 Copynumber: 1.9 Consensus size: 159
2081889 ATGTTACACG
* * ** *
2081899 TCATGTACAAAAATATGTGACACCCCATAGTTAGGTTGTTACATGTCATGCACAAAAATATGTTA
1 TCATATACAAAAACATGTGACACCCCATAGTTAGGTTGTTACACATCATGCACAAAAACATGTTA
** * *
2081964 CACATCATGAACAAAAACATGTGACACATTTTGGTTAGGTTGTTACACGCCATGTATAAAAACAT
66 CACATCATGAACAAAAACATGTGACACATCATGGTTAGATTGTTACACGCCATGTACAAAAACAT
2082029 GTGACACGTCACGGTTAGGTTGTTATGCA
131 GTGACACGTCACGGTTAGGTTGTTATGCA
* * *
2082058 TCATATACAAAAACATGTGACATCCCATGGTTAGGTTGTTACACATCATGTACAAAAACATGTTA
1 TCATATACAAAAACATGTGACACCCCATAGTTAGGTTGTTACACATCATGCACAAAAACATGTTA
* * *
2082123 CACATCATGTACAAAAACATGTGACACCTCATGGTTAGATTGTTACACGTCATGTACAAAAACAT
66 CACATCATGAACAAAAACATGTGACACATCATGGTTAGATTGTTACACGCCATGTACAAAAACAT
*
2082188 GTTACACGTCA
131 GTGACACGTCA
2082199 TGAACAAAAA
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
159 125 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (159 bp):
TCATATACAAAAACATGTGACACCCCATAGTTAGGTTGTTACACATCATGCACAAAAACATGTTA
CACATCATGAACAAAAACATGTGACACATCATGGTTAGATTGTTACACGCCATGTACAAAAACAT
GTGACACGTCACGGTTAGGTTGTTATGCA
Found at i:2082219 original size:24 final size:24
Alignment explanation
Indices: 2082094--2082221 Score: 138
Period size: 24 Copynumber: 5.5 Consensus size: 24
2082084 ATGGTTAGGT
*
2082094 TGTTACACATCATGTACAAAAACA
1 TGTTACACGTCATGTACAAAAACA
*
2082118 TGTTACACATCATGTACAAAAACA
1 TGTTACACGTCATGTACAAAAACA
* * * * *
2082142 TGTGACACCTCATGGT---TAGA-T
1 TGTTACACGTCAT-GTACAAAAACA
2082163 TGTTACACGTCATGTACAAAAACA
1 TGTTACACGTCATGTACAAAAACA
*
2082187 TGTTACACGTCATGAACAAAAACA
1 TGTTACACGTCATGTACAAAAACA
*
2082211 TGTGACACGTC
1 TGTTACACGTC
2082222 TTGATTAGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.02
21 11 0.13
22 2 0.02
23 2 0.02
24 68 0.78
25 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (24 bp):
TGTTACACGTCATGTACAAAAACA
Found at i:2082236 original size:114 final size:113
Alignment explanation
Indices: 2081890--2082308 Score: 364
Period size: 114 Copynumber: 3.7 Consensus size: 113
2081880 TACAAAAACA
* * * * * *
2081890 TGTTACACGTCATGTACAAAAATATGTGACACCCCATAGTTAGGTTGTTACATGTCATGCACAAA
1 TGTTACACGCCATGTACAAAAACATGTGACACCTCATGGTTAGGTTGTTACACGTCATGTACAAA
* * * * *
2081955 AATATGTTACACATCATGAACAAAAACATGTGACACATTTTGGTTAGGT
66 AACATGTGACAC-TCATGAACAAAAACATGTGACACATCTTGATTAGAT
* * * ** * *
2082004 TGTTACACGCCATGTATAAAAACATGTGACACGTCACGGTTAGGTTGTTATGCATCATATACAAA
1 TGTTACACGCCATGTACAAAAACATGTGACACCTCATGGTTAGGTTGTTACACGTCATGTACAAA
* *** *** * * ** * *
2082069 AACATGTGACATCCCATG---GTTAGGTTGTTACACATCATGTACAAAAACA
66 AACATGTGACA-CTCATGAACAAAAACATGTGACACATCTTG-A-TTAGA-T
** *
2082118 TGTTACACATCATGTACAAAAACATGTGACACCTCATGGTTAGATTGTTACACGTCATGTACAAA
1 TGTTACACGCCATGTACAAAAACATGTGACACCTCATGGTTAGGTTGTTACACGTCATGTACAAA
* *
2082183 AACATGTTACACGTCATGAACAAAAACATGTGACACGTCTTGATTAGAT
66 AACATGTGACAC-TCATGAACAAAAACATGTGACACATCTTGATTAGAT
* * *
2082232 TGTTACACGCCATGTACAAAAACATGTGATATGCCACA--GTTAGGTTGTTACA-TTCTATGTAC
1 TGTTACACGCCATGTACAAAAACATGTGACA--CCTCATGGTTAGGTTGTTACACGTC-ATGTAC
2082294 AAAAACATGTGACAC
63 AAAAACATGTGACAC
2082309 ACCATAGTTA
Statistics
Matches: 231, Mismatches: 63, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
111 12 0.05
113 4 0.02
114 195 0.84
115 3 0.01
116 5 0.02
117 12 0.05
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (113 bp):
TGTTACACGCCATGTACAAAAACATGTGACACCTCATGGTTAGGTTGTTACACGTCATGTACAAA
AACATGTGACACTCATGAACAAAAACATGTGACACATCTTGATTAGAT
Found at i:2082276 original size:228 final size:228
Alignment explanation
Indices: 2081876--2082328 Score: 669
Period size: 228 Copynumber: 2.0 Consensus size: 228
2081866 AATTACACGC
* * *
2081876 CATGTACAAAAACATGTTACACGTCATGTACAAAAATATGTGACACCCCATAGTTAGGTTGTTAC
1 CATGTACAAAAACATGTTACACATCATGTACAAAAACATGTGACACCCCATAGTTAGATTGTTAC
* * * * *
2081941 ATGTCATGCACAAAAATATGTTACACATCATGAACAAAAACATGTGACACATTTTGGTTAGGTTG
66 ACGTCATGCACAAAAACATGTTACACATCATGAACAAAAACATGTGACACATCTTGATTAGATTG
* * *
2082006 TTACACGCCATGTATAAAAACATGTGACACGTCACGGTTAGGTTGTTATGCA-TC-ATATACAAA
131 TTACACGCCATGTACAAAAACATGTGACACGCCACAGTTAGGTTGTTA--CATTCTATATACAAA
* *
2082069 AACATGTGACATC-CCATGGTTAGGTTGTTACACAT
194 AACATGTGACA-CACCATAGTTAAGTTGTTACACAT
* *
2082104 CATGTACAAAAACATGTTACACATCATGTACAAAAACATGTGACACCTCATGGTTAGATTGTTAC
1 CATGTACAAAAACATGTTACACATCATGTACAAAAACATGTGACACCCCATAGTTAGATTGTTAC
* * *
2082169 ACGTCATGTACAAAAACATGTTACACGTCATGAACAAAAACATGTGACACGTCTTGATTAGATTG
66 ACGTCATGCACAAAAACATGTTACACATCATGAACAAAAACATGTGACACATCTTGATTAGATTG
* * *
2082234 TTACACGCCATGTACAAAAACATGTGATATGCCACAGTTAGGTTGTTACATTCTATGTACAAAAA
131 TTACACGCCATGTACAAAAACATGTGACACGCCACAGTTAGGTTGTTACATTCTATATACAAAAA
2082299 CATGTGACACACCATAGTTAAGTTGTTACA
196 CATGTGACACACCATAGTTAAGTTGTTACA
2082329 TGCTATATTG
Statistics
Matches: 201, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
226 2 0.01
227 3 0.01
228 196 0.98
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (228 bp):
CATGTACAAAAACATGTTACACATCATGTACAAAAACATGTGACACCCCATAGTTAGATTGTTAC
ACGTCATGCACAAAAACATGTTACACATCATGAACAAAAACATGTGACACATCTTGATTAGATTG
TTACACGCCATGTACAAAAACATGTGACACGCCACAGTTAGGTTGTTACATTCTATATACAAAAA
CATGTGACACACCATAGTTAAGTTGTTACACAT
Found at i:2082280 original size:45 final size:45
Alignment explanation
Indices: 2082187--2082328 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
2082177 TACAAAAACA
* * ** ** *
2082187 TGTTACACGTCATGAACAAAAACATGTGACACGTC-TTGATTAGAT
1 TGTTACACGCCATGTACAAAAACATGTGACACACCACAG-TTAGGT
* **
2082232 TGTTACACGCCATGTACAAAAACATGTGATATGCCACAGTTAGGT
1 TGTTACACGCCATGTACAAAAACATGTGACACACCACAGTTAGGT
** * * *
2082277 TGTTACATTCTATGTACAAAAACATGTGACACACCATAGTTAAGT
1 TGTTACACGCCATGTACAAAAACATGTGACACACCACAGTTAGGT
2082322 TGTTACA
1 TGTTACA
2082329 TGCTATATTG
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 79 0.99
46 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (45 bp):
TGTTACACGCCATGTACAAAAACATGTGACACACCACAGTTAGGT
Found at i:2082329 original size:45 final size:45
Alignment explanation
Indices: 2082231--2082334 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
2082221 CTTGATTAGA
* * * ** *
2082231 TTGTTACACGCCATGTACAAAAACATGTGATATGCCACAGTTAGG
1 TTGTTACATGCTATGTACAAAAACATGTGACACACCACAGTTAAG
* *
2082276 TTGTTACATTCTATGTACAAAAACATGTGACACACCATAGTTAAG
1 TTGTTACATGCTATGTACAAAAACATGTGACACACCACAGTTAAG
2082321 TTGTTACATGCTAT
1 TTGTTACATGCTAT
2082335 ATTGAAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (45 bp):
TTGTTACATGCTATGTACAAAAACATGTGACACACCACAGTTAAG
Found at i:2082374 original size:29 final size:29
Alignment explanation
Indices: 2082341--2082419 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
2082331 CTATATTGAA
* *
2082341 AAAAAAATATTGTTGTTATACGCCATGTG
1 AAAAAAATATTATTGTTACACGCCATGTG
* *
2082370 GAAAAAATATTATTATTACACGCCATGTG
1 AAAAAAATATTATTGTTACACGCCATGTG
2082399 AAAAAAATATTATTGTTACAC
1 AAAAAAATATTATTGTTACAC
2082420 ACCAAATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (29 bp):
AAAAAAATATTATTGTTACACGCCATGTG
Found at i:2082433 original size:29 final size:29
Alignment explanation
Indices: 2082371--2082426 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2082361 CGCCATGTGG
* **
2082371 AAAAAATATTATTATTACACGCCATGTGA
1 AAAAAATATTATTATTACACACCAAATGA
*
2082400 AAAAAATATTATTGTTACACACCAAAT
1 AAAAAATATTATTATTACACACCAAAT
2082427 TCAAAAACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAAAATATTATTATTACACACCAAATGA
Found at i:2090205 original size:49 final size:49
Alignment explanation
Indices: 2090136--2090235 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
2090126 AGGGAAACTG
*
2090136 CTTCGTAGTGTTCTTTGCAATTTCCTTTCCTAGCCTGAGCTAACAAAAA
1 CTTCATAGTGTTCTTTGCAATTTCCTTTCCTAGCCTGAGCTAACAAAAA
*
2090185 CTTCATAGTGTTCTTTGCAATTTCCTTTCCTAGCCTGAGTTAACAAAAA
1 CTTCATAGTGTTCTTTGCAATTTCCTTTCCTAGCCTGAGCTAACAAAAA
2090234 CT
1 CT
2090236 CTCTAACCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (49 bp):
CTTCATAGTGTTCTTTGCAATTTCCTTTCCTAGCCTGAGCTAACAAAAA
Found at i:2090787 original size:12 final size:12
Alignment explanation
Indices: 2090772--2090821 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 12
2090762 TTGATAATAA
2090772 AAATATAAAATT
1 AAATATAAAATT
2090784 AAATATAAAATT
1 AAATATAAAATT
2090796 ATAATTTATAAAATAT
1 A-AA--TATAAAAT-T
2090812 AAATAGTAAA
1 AAATA-TAAA
2090822 TACTATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 13 0.39
13 4 0.12
14 4 0.12
15 10 0.30
16 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAATATAAAATT
Found at i:2090816 original size:40 final size:43
Alignment explanation
Indices: 2090767--2090845 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 43
2090757 AAATATTGAT
*
2090767 AATAAAAATA-TAAA-ATTAAATATAAAATT-ATAATTTATAA
1 AATAAAAATAGTAAATACTAAATATAAAATTAATAATTTATAA
* * *
2090807 AATATAAATAGTAAATACTATATATAAGATTAATAATTT
1 AATAAAAATAGTAAATACTAAATATAAAATTAATAATTT
2090846 TTACTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 9 0.28
41 4 0.12
42 12 0.38
43 7 0.22
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (43 bp):
AATAAAAATAGTAAATACTAAATATAAAATTAATAATTTATAA
Found at i:2090821 original size:14 final size:13
Alignment explanation
Indices: 2090767--2090821 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 13
2090757 AAATATTGAT
*
2090767 AATAAAAATATAA
1 AATATAAATATAA
2090780 AAT-TAAATATAA
1 AATATAAATATAA
*
2090792 AATTATAATTTATAA
1 AA-TATAA-ATATAA
2090807 AATATAAATAGTAA
1 AATATAAATA-TAA
2090821 A
1 A
2090822 TACTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 10 0.29
13 6 0.17
14 12 0.34
15 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:2092004 original size:155 final size:156
Alignment explanation
Indices: 2091718--2092033 Score: 535
Period size: 155 Copynumber: 2.0 Consensus size: 156
2091708 CATATCAATG
2091718 CATTTGGGTAGTGCACTATGGAATACACCTACTATGAAAATATTTAAATTTTACAAGTGGTTTAC
1 CATTTGGGTAGTGCACTATGGAATACACCTACTATGAAAATATTTAAATTTTACAAGTGGTTTAC
* *
2091783 AAGTTCTCACATGTGTATAAAAGTATAATTAAAAAATTTTAGAAAATAAAAATGATAATTAGGTG
66 AAGTTCTCACATGTGTATAAAAGTATAATTAAAAAATATTAGAAAATAAAAATGATAATTAAGTG
*
2091848 AACA-ATAAAAATTATAAACTCTAGA
131 AACACATAAAAATTATAAACTCTACA
* * *
2091873 CATTTGGGTAGTGCATTATGGGATATACCTACTATGAAAATATTTAAATTTTACAAGTGGTTTAC
1 CATTTGGGTAGTGCACTATGGAATACACCTACTATGAAAATATTTAAATTTTACAAGTGGTTTAC
* *
2091938 AAGTTCTCACATGTGTATTAAAGTATAATTAAAAAATATTAGAAAATTAAAATGATAATTAAGTG
66 AAGTTCTCACATGTGTATAAAAGTATAATTAAAAAATATTAGAAAATAAAAATGATAATTAAGTG
* *
2092003 AACACATAAAGATTATAAATTCTACA
131 AACACATAAAAATTATAAACTCTACA
2092029 CATTT
1 CATTT
2092034 AATATACAGT
Statistics
Matches: 150, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
155 127 0.85
156 23 0.15
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (156 bp):
CATTTGGGTAGTGCACTATGGAATACACCTACTATGAAAATATTTAAATTTTACAAGTGGTTTAC
AAGTTCTCACATGTGTATAAAAGTATAATTAAAAAATATTAGAAAATAAAAATGATAATTAAGTG
AACACATAAAAATTATAAACTCTACA
Found at i:2092227 original size:24 final size:22
Alignment explanation
Indices: 2092160--2092223 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
2092150 ATCAAATATA
* *
2092160 AAATTTTTTATTTAATTAATTATT
1 AAATTTTTTA-ATATTTAATT-TT
2092184 ATAATTTTTTAATATTTAATTTT
1 A-AATTTTTTAATATTTAATTTT
2092207 AAATTTTTATAA-ATTTA
1 AAATTTTT-TAATATTTA
2092224 TAATTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 12 0.33
23 6 0.17
24 9 0.25
25 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AAATTTTTTAATATTTAATTTT
Found at i:2092236 original size:24 final size:22
Alignment explanation
Indices: 2092175--2092236 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 22
2092165 TTTTATTTAA
2092175 TTAATTATTATAATTTTTTAATAT
1 TTAATT-TTAT-ATTTTTTAATAT
*
2092199 TTAATTTTAAATTTTTATAA-ATT
1 TTAATTTTATATTTTT-TAATA-T
2092222 TATAATTTTATATTT
1 T-TAATTTTATATTT
2092237 AATTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 7 0.21
23 8 0.24
24 18 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTAATTTTATATTTTTTAATAT
Found at i:2096135 original size:3 final size:3
Alignment explanation
Indices: 2096127--2096176 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
2096117 AATTTTAAAA
* *
2096127 ATT ATT ATT A-T ATA ATT -TT ATT AAT -TT ATT ATT ATT ATT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
2096173 ATT A
1 ATT A
2096177 ATTTAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.13
3 31 0.79
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2096163 original size:27 final size:27
Alignment explanation
Indices: 2096128--2096181 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
2096118 ATTTTAAAAA
*
2096128 TTATTATTA-TATAATT-T-TATTAAT
1 TTATTATTATTATTATTATATATTAAT
2096152 TTATTATTATTATTATTATATATTAAT
1 TTATTATTATTATTATTATATATTAAT
2096179 TTA
1 TTA
2096182 AAAAATAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 9 0.35
25 6 0.23
26 1 0.04
27 10 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TTATTATTATTATTATTATATATTAAT
Found at i:2098914 original size:11 final size:10
Alignment explanation
Indices: 2098889--2098931 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
2098879 AAAATTACTA
2098889 TTATATAATTT
1 TTAT-TAATTT
2098900 TTATTAATTT
1 TTATTAATTT
*
2098910 GTTATTATTTT
1 -TTATTAATTT
2098921 TTAATTAATTT
1 TT-ATTAATTT
2098932 AAAAAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTAATTT
Found at i:2099008 original size:17 final size:18
Alignment explanation
Indices: 2098978--2099015 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2098968 TTATTCATAA
*
2098978 TTATAAAATATATAATTT
1 TTATAAAATATATAAATT
*
2098996 TTAT-AAATTTATAAATT
1 TTATAAAATATATAAATT
2099013 TTA
1 TTA
2099016 ACAATAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAAAATATATAAATT
Found at i:2099118 original size:18 final size:18
Alignment explanation
Indices: 2099064--2099118 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
2099054 GTCTTGAAGA
2099064 TAATATTTATTTCACTCT
1 TAATATTTATTTCACTCT
* * *
2099082 T-CT-TCTTAGTTTAATTCT
1 TAATAT-TTA-TTTCACTCT
2099100 TAATATTTATTTCACTCT
1 TAATATTTATTTCACTCT
2099118 T
1 T
2099119 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
16 1 0.04
17 4 0.15
18 17 0.63
19 4 0.15
20 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.02, T:0.58
Consensus pattern (18 bp):
TAATATTTATTTCACTCT
Found at i:2102681 original size:25 final size:24
Alignment explanation
Indices: 2102645--2102712 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
2102635 AAAGATTAAA
*
2102645 ATATCATTTATAAATTTAAAAAATT
1 ATAT-ATTTATAAATTTAAAAAAAT
*
2102670 ATATA-TTATATATTATAAAAAAAT
1 ATATATTTATAAATT-TAAAAAAAT
2102694 A-ATATTTA-AAATTTAAAAA
1 ATATATTTATAAATTTAAAAA
2102713 TTAATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.16
23 15 0.39
24 13 0.34
25 4 0.11
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATATTTATAAATTTAAAAAAAT
Found at i:2102790 original size:27 final size:25
Alignment explanation
Indices: 2102746--2102826 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
2102736 AACCATAATA
* *
2102746 ATATTTAAATTATAAATAA-AATATT
1 ATATTTAAAATATTAATAATAA-ATT
2102771 ACTATTTTAAAATATTAATAATTAAATT
1 A-TA-TTTAAAATATTAATAA-TAAATT
* *
2102799 ATATATAAAATATTAATATTTAAATT
1 ATATTTAAAATATTAATA-ATAAATT
2102825 AT
1 AT
2102827 CAATTATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.02
26 24 0.51
27 16 0.34
28 4 0.09
29 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATTTAAAATATTAATAATAAATT
Found at i:2102817 original size:15 final size:15
Alignment explanation
Indices: 2102761--2102822 Score: 51
Period size: 16 Copynumber: 4.3 Consensus size: 15
2102751 TAAATTATAA
*
2102761 ATAAAATATTACTATT
1 ATAAAATATTAATA-T
*
2102777 TTAAAATATTAATA-
1 ATAAAATATTAATAT
*
2102791 AT-TAA-ATT-ATAT
1 ATAAAATATTAATAT
2102803 ATAAAATATTAATAT
1 ATAAAATATTAATAT
*
2102818 TTAAA
1 ATAAA
2102823 TTATCAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
11 3 0.08
12 5 0.14
13 4 0.11
14 4 0.11
15 8 0.22
16 12 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAAATATTAATAT
Found at i:2102842 original size:42 final size:42
Alignment explanation
Indices: 2102745--2102849 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
2102735 GAACCATAAT
* * * *
2102745 AATATTTAAATTATAAATAAAATATTACTATTTTAAAATATT
1 AATAATTAAATTATATATAAAATATTAATATTTTAAAATATC
*
2102787 AATAATTAAATTATATATAAAATATTAATA-TTTAAATTATC
1 AATAATTAAATTATATATAAAATATTAATATTTTAAAATATC
*
2102828 AATTATTAATATTAT-TATAAAA
1 AATAATTAA-ATTATATATAAAA
2102850 AAGTTTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 24 0.43
42 32 0.57
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (42 bp):
AATAATTAAATTATATATAAAATATTAATATTTTAAAATATC
Found at i:2102844 original size:19 final size:19
Alignment explanation
Indices: 2102791--2102849 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 19
2102781 AATATTAATA
2102791 ATTAA-ATTATATATAAAAT
1 ATTAATATTAT-TATAAAAT
* *
2102810 ATTAATATTTAAATTATCAATT
1 ATTAATA-TT--ATTATAAAAT
2102832 ATTAATATTATTATAAAA
1 ATTAATATTATTATAAAA
2102850 AAGTTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 12 0.38
20 1 0.03
21 4 0.12
22 13 0.41
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATATTATTATAAAAT
Found at i:2103064 original size:27 final size:27
Alignment explanation
Indices: 2103033--2103216 Score: 110
Period size: 27 Copynumber: 6.7 Consensus size: 27
2103023 GATTAGTATT
*
2103033 TAAATTATAAATTATAAATATTTTAAA
1 TAAATTATAAAATATAAATATTTTAAA
*
2103060 TAAATTATAAAAAAT-AATATTTTAAAA
1 TAAATTATAAAATATAAATATTTT-AAA
* * **
2103087 TAAAATA-AAAATAAATAATCATAATAACA
1 TAAATTATAAAATATA-AAT-ATTTTAA-A
* **
2103116 TTAAATTAT-AAATA-AAATATTAATATT
1 -TAAATTATAAAATATAAATATT-TTAAA
* * * *
2103143 TAAATTCTCAAGTATTAATATTTTAAA
1 TAAATTATAAAATATAAATATTTTAAA
* *
2103170 TAAATTATAAATTATTAATA-TTTAAA
1 TAAATTATAAAATATAAATATTTTAAA
*
2103196 -AAATAATATAAAATAAAAATA
1 TAAAT--TATAAAATATAAATA
2103217 AATAATCATA
Statistics
Matches: 122, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
25 4 0.03
26 26 0.21
27 59 0.48
28 17 0.14
29 5 0.04
30 11 0.09
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (27 bp):
TAAATTATAAAATATAAATATTTTAAA
Found at i:2103084 original size:68 final size:69
Alignment explanation
Indices: 2102962--2103091 Score: 156
Period size: 68 Copynumber: 1.9 Consensus size: 69
2102952 AAATATTAAC
* * * * *
2102962 ATTTAAATGATCAATTATTAATAATTCAAATTAATTATAAATTATTAATGTTT-AAATAAAAGAT
1 ATTTAAATGATAAATTATAAATAATTCAAATAAATTATAAATAAATAATGTTTAAAATAAAAGAT
2103026 TAGT
66 TAGT
* * * *
2103030 ATTTAAATTATAAATTATAAATATTTTAAATAAATTATAAA-AAATAATATTTTAAAATAAAA
1 ATTTAAATGATAAATTATAAATAATTCAAATAAATTATAAATAAATAAT-GTTTAAAATAAAA
2103092 TAAAAATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
67 5 0.10
68 38 0.75
69 8 0.16
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (69 bp):
ATTTAAATGATAAATTATAAATAATTCAAATAAATTATAAATAAATAATGTTTAAAATAAAAGAT
TAGT
Found at i:2103128 original size:110 final size:111
Alignment explanation
Indices: 2103014--2103212 Score: 287
Period size: 110 Copynumber: 1.8 Consensus size: 111
2103004 TATTAATGTT
* *
2103014 TAAATAAAAGATTAGTATTTAAATTATAAATTATAAATATTTTAAATAAATTATAAA-AAATAAT
1 TAAATAAAAGATTAATATTTAAATTATAAAGTATAAATATTTTAAATAAATTATAAATAAATAAT
2103078 ATTTTAAAATAA-AATA-AAAATAAATAATCATAATAACATTAAATTA
66 A-TTTAAAA-AATAATATAAAATAAATAATCATAATAACATTAAATTA
* * * * * *
2103124 TAAATAAAATATTAATATTTAAATTCTCAAGTATTAATATTTTAAATAAATTATAAATTATTAAT
1 TAAATAAAAGATTAATATTTAAATTATAAAGTATAAATATTTTAAATAAATTATAAATAAATAAT
2103189 ATTTAAAAAATAATATAAAATAAA
66 ATTTAAAAAATAATATAAAATAAA
2103213 AATAAATAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
109 2 0.03
110 62 0.79
111 14 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (111 bp):
TAAATAAAAGATTAATATTTAAATTATAAAGTATAAATATTTTAAATAAATTATAAATAAATAAT
ATTTAAAAAATAATATAAAATAAATAATCATAATAACATTAAATTA
Found at i:2103137 original size:19 final size:20
Alignment explanation
Indices: 2103060--2103147 Score: 55
Period size: 19 Copynumber: 4.6 Consensus size: 20
2103050 ATATTTTAAA
*
2103060 TAAATTATAAAAAATAATATTT
1 TAAATTATAAATAATAATA--T
*
2103082 TAAAATA-AAATAA-AA-A-
1 TAAATTATAAATAATAATAT
* * *
2103098 TAAATAAT-CATAATAACAT
1 TAAATTATAAATAATAATAT
2103117 TAAATTATAAATAA-AATAT
1 TAAATTATAAATAATAATAT
2103136 TAATATT-TAAAT
1 TAA-ATTATAAAT
2103148 TCTCAAGTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
16 9 0.17
17 2 0.04
18 1 0.02
19 20 0.38
20 9 0.17
21 5 0.10
22 6 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAATTATAAATAATAATAT
Found at i:2106501 original size:11 final size:10
Alignment explanation
Indices: 2106476--2106518 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
2106466 AAAATTACTA
2106476 TTATATAATTT
1 TTAT-TAATTT
2106487 TTATTAATTT
1 TTATTAATTT
*
2106497 GTTATTATTTTT
1 -TTATTA-ATTT
2106509 TTATTAATTT
1 TTATTAATTT
2106519 AAAAAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTATTAATTT
Found at i:2107666 original size:20 final size:21
Alignment explanation
Indices: 2107641--2107689 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2107631 TATGGACCTC
* *
2107641 ATAATTTTA-TAATAATATAA
1 ATAATTATATTAAAAATATAA
2107661 ATAATTATATTAAAAATATATA
1 ATAATTATATTAAAAATATA-A
*
2107683 AAAATTA
1 ATAATTA
2107690 AAATAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.33
21 9 0.38
22 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATTATATTAAAAATATAA
Found at i:2108217 original size:24 final size:22
Alignment explanation
Indices: 2108162--2108226 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 22
2108152 AATTTTACCC
2108162 TTTATTAATTTTAAAAATTATT
1 TTTATTAATTTTAAAAATTATT
* * *
2108184 ATTATATAATTTTATTAATTTATTT
1 TTTAT-TAATTTTA-AAAATTA-TT
*
2108209 TTTATTAATTTAAAAAAT
1 TTTATTAATTTTAAAAAT
2108227 AGTAGGGAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 4 0.12
23 11 0.33
24 12 0.36
25 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTAATTTTAAAAATTATT
Found at i:2108489 original size:9 final size:9
Alignment explanation
Indices: 2108475--2108505 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2108465 AGGTAAGGGA
2108475 TTAATTTGT
1 TTAATTTGT
2108484 TTAATTTGTT
1 TTAATTTG-T
2108494 TTAATTTGT
1 TTAATTTGT
2108503 TTA
1 TTA
2108506 TTCTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (9 bp):
TTAATTTGT
Found at i:2108498 original size:10 final size:10
Alignment explanation
Indices: 2108475--2108504 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2108465 AGGTAAGGGA
2108475 TTAATTTG-T
1 TTAATTTGTT
2108484 TTAATTTGTT
1 TTAATTTGTT
2108494 TTAATTTGTT
1 TTAATTTGTT
2108504 T
1 T
2108505 ATTCTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (10 bp):
TTAATTTGTT
Found at i:2127777 original size:2 final size:2
Alignment explanation
Indices: 2127770--2127794 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2127760 GGATACAATA
2127770 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2127795 AGTGCGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2129474 original size:2 final size:2
Alignment explanation
Indices: 2129469--2129497 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2129459 ACACACACAC
2129469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2129498 ACACATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2134464 original size:2 final size:2
Alignment explanation
Indices: 2134457--2134485 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2134447 CCATTTAATT
2134457 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2134486 ATTGATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2138022 original size:19 final size:20
Alignment explanation
Indices: 2137984--2138026 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2137974 TTTGATTCGA
2137984 GAATTTCATAATTCATAAAT
1 GAATTTCATAATTCATAAAT
* *
2138004 GAATTTTATACTT-ATAAAT
1 GAATTTCATAATTCATAAAT
2138023 GAAT
1 GAAT
2138027 AATATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (20 bp):
GAATTTCATAATTCATAAAT
Found at i:2138794 original size:21 final size:23
Alignment explanation
Indices: 2138752--2138796 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2138742 ATTCTTCATG
2138752 TTTTTCTTTTTTGGATTCAATTTTC
1 TTTTTCTTTTTTGGA-T-AATTTTC
2138777 TTTTT-TTTTTTGGA-AATTTT
1 TTTTTCTTTTTTGGATAATTTT
2138797 TCCATGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.71
Consensus pattern (23 bp):
TTTTTCTTTTTTGGATAATTTTC
Found at i:2141939 original size:2 final size:2
Alignment explanation
Indices: 2141932--2142020 Score: 128
Period size: 2 Copynumber: 44.5 Consensus size: 2
2141922 ATAGACTAAA
2141932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2141974 AT AT AT AA AT -T TT GA- AT NAT 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 AT AT AT AT AT AT
2142016 AT AT A
1 AT AT A
2142021 AATTGAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
1 2 0.03
2 76 0.95
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2146109 original size:5 final size:6
Alignment explanation
Indices: 2146081--2146109 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2146071 CAAATATATG
2146081 TTAAAT TTAAAT TTAAAT TTAAA- TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
2146110 ATATGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:2148560 original size:23 final size:24
Alignment explanation
Indices: 2148521--2148565 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2148511 TTTTCTCTAA
2148521 TAAAATTATCAAAATTT-TTAATT
1 TAAAATTATCAAAATTTGTTAATT
*
2148544 TAAAAGTTAT-AATATTTGTTAA
1 TAAAA-TTATCAAAATTTGTTAA
2148566 AAGTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
TAAAATTATCAAAATTTGTTAATT
Found at i:2148809 original size:2 final size:2
Alignment explanation
Indices: 2148745--2148790 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
2148735 TTTTTATCTT
2148745 TA TA TA TA TA TA TA TA TA TA GTA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
2148787 TA TA
1 TA TA
2148791 ATAAATTTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2150190 original size:7 final size:8
Alignment explanation
Indices: 2150170--2150194 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2150160 AAAAATTTAC
2150170 TAAAAATT
1 TAAAAATT
2150178 TAAAAATT
1 TAAAAATT
2150186 TAAAAATT
1 TAAAAATT
2150194 T
1 T
2150195 TAAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAAAATT
Found at i:2151187 original size:8 final size:8
Alignment explanation
Indices: 2151174--2151225 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
2151164 GAGGGCTAAG
2151174 AAAAAAGA
1 AAAAAAGA
2151182 AAAAAAGA
1 AAAAAAGA
*
2151190 AAAGAAGA
1 AAAAAAGA
* *
2151198 AGAGAAGTA
1 AAAAAAG-A
*
2151207 AAAAGAGA
1 AAAAAAGA
2151215 AAAAAA-A
1 AAAAAAGA
2151222 AAAA
1 AAAA
2151226 CTTGAAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 5 0.14
8 27 0.73
9 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:2151214 original size:12 final size:11
Alignment explanation
Indices: 2151171--2151220 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
2151161 GTGGAGGGCT
2151171 AAGAAAAA-AG
1 AAGAAAAAGAG
*
2151181 AA-AAAAAGAA
1 AAGAAAAAGAG
*
2151191 AAGAAGAAGAG
1 AAGAAAAAGAG
2151202 AAGTAAAAAGAG
1 AAG-AAAAAGAG
2151214 AA-AAAAA
1 AAGAAAAA
2151221 AAAAACTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 10 0.30
11 9 0.27
12 9 0.27
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:2158296 original size:23 final size:24
Alignment explanation
Indices: 2158270--2158315 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2158260 TATACAAGCA
2158270 TGAATACTAATCAAAT-AAAATTT
1 TGAATACTAATCAAATCAAAATTT
* *
2158293 TGAATTCTAATCAACTCAAAATT
1 TGAATACTAATCAAATCAAAATT
2158316 CAACAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (24 bp):
TGAATACTAATCAAATCAAAATTT
Found at i:2160459 original size:14 final size:14
Alignment explanation
Indices: 2160440--2160468 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2160430 TAAGTATAAA
2160440 TTTTAAAAATATTT
1 TTTTAAAAATATTT
2160454 TTTTAAAAATATTT
1 TTTTAAAAATATTT
2160468 T
1 T
2160469 ACTATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAAATATTT
Found at i:2160704 original size:15 final size:15
Alignment explanation
Indices: 2160675--2160718 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2160665 TCATAAAATC
*
2160675 GCCGTCACAGCCGCT
1 GCCGTCGCAGCCGCT
* *
2160690 TCCGTCGCAGTCGCT
1 GCCGTCGCAGCCGCT
*
2160705 GCCGTCGCCGCCGC
1 GCCGTCGCAGCCGC
2160719 CGCTAACATC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.07, C:0.48, G:0.30, T:0.16
Consensus pattern (15 bp):
GCCGTCGCAGCCGCT
Found at i:2166333 original size:2 final size:2
Alignment explanation
Indices: 2166276--2166314 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2166266 TTAAACTTTA
* *
2166276 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2166315 GTCATGCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2168232 original size:3 final size:3
Alignment explanation
Indices: 2168224--2168256 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2168214 TCGGATTCTA
2168224 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
2168257 TGGCGCCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:2168620 original size:3 final size:3
Alignment explanation
Indices: 2168605--2168658 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
2168595 CACATACAAA
* * * * *
2168605 CTT CTT CTG CTT CTT CTT CTT CTT CTT CTT CCT CCT CCT CTT CTA CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
2168653 CTT CTT
1 CTT CTT
2168659 TCTAATGCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.02, C:0.39, G:0.02, T:0.57
Consensus pattern (3 bp):
CTT
Found at i:2171953 original size:16 final size:15
Alignment explanation
Indices: 2171928--2171958 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2171918 TAAACAAAAA
2171928 TAAATTTATATATAT
1 TAAATTTATATATAT
2171943 TAAATTATATATATAT
1 TAAATT-TATATATAT
2171959 AATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAATTTATATATAT
Found at i:2173017 original size:30 final size:31
Alignment explanation
Indices: 2172983--2173060 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 31
2172973 AACCGTTAGC
* *
2172983 TATAAAGATTT-ATTTAATTCAA-AATAAAAA
1 TATAAAGATTTGATTGAATGCAATAA-AAAAA
*
2173013 TATAAATATTTGATTGAATGCAATAAAAAAA
1 TATAAAGATTTGATTGAATGCAATAAAAAAA
2173044 TA-AAA-A-TTGATTTGAAT
1 TATAAAGATTTGA-TTGAAT
2173061 ATTTCTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 4 0.10
29 7 0.17
30 13 0.31
31 16 0.38
32 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (31 bp):
TATAAAGATTTGATTGAATGCAATAAAAAAA
Found at i:2173039 original size:29 final size:29
Alignment explanation
Indices: 2173005--2173060 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2172995 TTTAATTCAA
* *
2173005 AATAAAAATATAAATATTTGA-TTGAATGC
1 AATAAAAAAATAAA-AATTGATTTGAATGC
2173034 AATAAAAAAATAAAAATTGATTTGAAT
1 AATAAAAAAATAAAAATTGATTTGAAT
2173061 ATTTCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (29 bp):
AATAAAAAAATAAAAATTGATTTGAATGC
Found at i:2174009 original size:17 final size:16
Alignment explanation
Indices: 2173969--2174015 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 16
2173959 TCGTTTTTTT
2173969 TTTATAAA-AAAATAA
1 TTTATAAATAAAATAA
*
2173984 TTT-TAAATAATATAA
1 TTTATAAATAAAATAA
2173999 TATTATAAATAAAATAA
1 T-TTATAAATAAAATAA
2174016 AAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 2 0.07
17 11 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTATAAATAAAATAA
Found at i:2174125 original size:27 final size:25
Alignment explanation
Indices: 2174071--2174123 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
2174061 TAGTAATAAT
2174071 AATAAATTAAAGATAATTAATTTTA
1 AATAAATTAAAGATAATTAATTTTA
2174096 AATNAAATTAAAGATTAATT-ATTTTA
1 AAT-AAATTAAAGA-TAATTAATTTTA
2174122 AA
1 AA
2174124 ATATCGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 3 0.12
26 18 0.69
27 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AATAAATTAAAGATAATTAATTTTA
Found at i:2181660 original size:23 final size:23
Alignment explanation
Indices: 2181630--2181686 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
2181620 GCCTTTGAAG
*
2181630 TTTATTTTTATTTTATTATATTT
1 TTTATTTTTATTTTAATATATTT
**
2181653 TTTATTTTT-TCATAATATATTT
1 TTTATTTTTATTTTAATATATTT
*
2181675 TTT-TATTTATTT
1 TTTATTTTTATTT
2181687 AAAATTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 4 0.15
22 14 0.52
23 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATTTTTATTTTAATATATTT
Found at i:2182430 original size:28 final size:28
Alignment explanation
Indices: 2182393--2182465 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
2182383 AATCACTTTT
2182393 CTCCTCTCTTCTCTCTCACCGACGCCTG
1 CTCCTCTCTTCTCTCTCACCGACGCCTG
* *
2182421 CTCCTTTCTTCTCTCTCATCGACGCCTG
1 CTCCTCTCTTCTCTCTCACCGACGCCTG
*
2182449 CTCATCTCTTCTCTCTC
1 CTCCTCTCTTCTCTCTC
2182466 TCTCTTTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.07, C:0.47, G:0.08, T:0.38
Consensus pattern (28 bp):
CTCCTCTCTTCTCTCTCACCGACGCCTG
Found at i:2183866 original size:2 final size:2
Alignment explanation
Indices: 2183859--2183894 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2183849 AATTATAATG
2183859 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
2183895 AAGTTTTATA
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:2184184 original size:13 final size:12
Alignment explanation
Indices: 2184161--2184196 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
2184151 AATTTAATTT
2184161 TAAAATTTAAAA
1 TAAAATTTAAAA
2184173 TAAAATTATAAAA
1 TAAAATT-TAAAA
2184186 TAATAATTTAA
1 TAA-AATTTAA
2184197 TTAACCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 11 0.50
14 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAATTTAAAA
Found at i:2184600 original size:15 final size:15
Alignment explanation
Indices: 2184580--2184618 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2184570 AACAGGGGAT
2184580 GAAACAGAGAGAAAG
1 GAAACAGAGAGAAAG
**
2184595 GAAACAGAGAGATGG
1 GAAACAGAGAGAAAG
2184610 GAAACAGAG
1 GAAACAGAG
2184619 TAAATGGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.36, T:0.03
Consensus pattern (15 bp):
GAAACAGAGAGAAAG
Found at i:2186172 original size:90 final size:90
Alignment explanation
Indices: 2185992--2186224 Score: 306
Period size: 90 Copynumber: 2.6 Consensus size: 90
2185982 TGTCTCTGCC
* * * * * *
2185992 GATTTATGGAAAGATGAGGCTTCTGTTATGGATTTGTGGGAACTTCCATCTGACTCATGGGAGGA
1 GATTTATGGAAAGATGAGGCTTCCGTTATGAATTTGTGGGAACCTCCATCAGACTCATGGAAGAA
* *
2186057 GACCTTCAAGCCGGTATCGGCTAAA
66 GACCTTCAAGCCGGCATCGACTAAA
***
2186082 GATTTATGGAAAGATGAGGCTTCCGTTGCAAATTTGTGGGAACCTCCATCAGACTCATGGAAGAA
1 GATTTATGGAAAGATGAGGCTTCCGTTATGAATTTGTGGGAACCTCCATCAGACTCATGGAAGAA
* *
2186147 GACGTTCGAA-CCGGCATCGATTAAA
66 GACCTTC-AAGCCGGCATCGACTAAA
* * *
2186172 GATTTATGTAAAGATGAGGCTTTCGTTATGAATTTGTGCGAACCTCCATCAGA
1 GATTTATGGAAAGATGAGGCTTCCGTTATGAATTTGTGGGAACCTCCATCAGA
2186225 GACATTCGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
90 121 0.98
91 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (90 bp):
GATTTATGGAAAGATGAGGCTTCCGTTATGAATTTGTGGGAACCTCCATCAGACTCATGGAAGAA
GACCTTCAAGCCGGCATCGACTAAA
Found at i:2186285 original size:78 final size:78
Alignment explanation
Indices: 2186146--2186301 Score: 199
Period size: 78 Copynumber: 2.0 Consensus size: 78
2186136 TCATGGAAGA
* * * ** *
2186146 AGACGTTCGAACCGGCATCGATTAAAGATTTATGTAAAGATGAGGCTTTCGTTATGAATTTGTGC
1 AGACATTCGAACCGGCATCGATGAAAGATTTATGGAAAGATGAGGAATTCGTTAAGAATTTGTGC
2186211 GAACCTCCATCAG
66 GAACCTCCATCAG
* *
2186224 AGACATTCGAGCCGGCATC-AGTGAAAGATTTATGGAAAGATGA-GAATTCGGTTAAGGATTTGT
1 AGACATTCGAACCGGCATCGA-TGAAAGATTTATGGAAAGATGAGGAATTC-GTTAAGAATTTGT
*
2186287 GGGAACCTCCATCAG
64 GCGAACCTCCATCAG
2186302 CTTCTGAGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 5 0.07
78 62 0.93
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (78 bp):
AGACATTCGAACCGGCATCGATGAAAGATTTATGGAAAGATGAGGAATTCGTTAAGAATTTGTGC
GAACCTCCATCAG
Found at i:2187419 original size:31 final size:33
Alignment explanation
Indices: 2187381--2187458 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 33
2187371 CTAAACTAAT
*
2187381 ATTATATATA-TA-TATTATATTAATATAAAAA
1 ATTATATATATTATTATTAAATTAATATAAAAA
* *
2187412 ATTATATATATTATTTTTAAATTTATATAAAAA
1 ATTATATATATTATTATTAAATTAATATAAAAA
*
2187445 A-TATA-ATTTTATTA
1 ATTATATATATTATTA
2187459 CTAATTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 17 0.43
32 6 0.15
33 17 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
ATTATATATATTATTATTAAATTAATATAAAAA
Found at i:2187440 original size:33 final size:31
Alignment explanation
Indices: 2187381--2187446 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 31
2187371 CTAAACTAAT
*
2187381 ATTATATATATATATTATATTAATATAAAAA
1 ATTATATATATATATTAAATTAATATAAAAA
* *
2187412 ATTATATATATTATTTTTAAATTTATATAAAAA
1 ATTATATATA-TA-TATTAAATTAATATAAAAA
2187445 AT
1 AT
2187447 ATAATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 10 0.33
32 2 0.07
33 18 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTATATATATATATTAAATTAATATAAAAA
Found at i:2187909 original size:15 final size:17
Alignment explanation
Indices: 2187891--2187927 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2187881 ATATAAATTA
2187891 ATATTGTA-AAAT-TTT
1 ATATTGTAGAAATATTT
*
2187906 ATATTTTAGAAATATTT
1 ATATTGTAGAAATATTT
2187923 ATATT
1 ATATT
2187928 TATATACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
ATATTGTAGAAATATTT
Found at i:2199990 original size:13 final size:13
Alignment explanation
Indices: 2199958--2199990 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
2199948 AAATAATAAA
2199958 AAATAATTTTTTT
1 AAATAATTTTTTT
2199971 AAA-AATTTTTTT
1 AAATAATTTTTTT
2199983 AAATAATT
1 AAATAATT
2199991 CAGAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATAATTTTTTT
Found at i:2209642 original size:53 final size:54
Alignment explanation
Indices: 2209567--2209678 Score: 172
Period size: 53 Copynumber: 2.1 Consensus size: 54
2209557 TTTATTTGTT
* *
2209567 TGTAAAGTGGAATTGGAATGGAATTCAGATAACAAGTCCAT-TACTCAATTTGG
1 TGTAAAGTGGAATTCGAATGGAATTCAGATAACAAGTCCATATAATCAATTTGG
* * *
2209620 TGTACAGTGGAATTCGAGTGGAATTCTGATAACAAGTCCATATAATCAATTTGG
1 TGTAAAGTGGAATTCGAATGGAATTCAGATAACAAGTCCATATAATCAATTTGG
2209674 TGTAA
1 TGTAA
2209679 TGCCTTTGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 37 0.71
54 15 0.29
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (54 bp):
TGTAAAGTGGAATTCGAATGGAATTCAGATAACAAGTCCATATAATCAATTTGG
Found at i:2210218 original size:34 final size:35
Alignment explanation
Indices: 2210180--2210245 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
2210170 TATGAATATC
*
2210180 ATATA-ATATTATAAAA-GAATATAATTACTTTTAA
1 ATATATAT-TTATAAAATAAATATAATTACTTTTAA
* *
2210214 ATATATATTTTTAAAATAAATATATTTACTTT
1 ATATATATTTATAAAATAAATATAATTACTTT
2210246 CTATTTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (35 bp):
ATATATATTTATAAAATAAATATAATTACTTTTAA
Found at i:2210843 original size:349 final size:346
Alignment explanation
Indices: 2210205--2211331 Score: 1449
Period size: 349 Copynumber: 3.3 Consensus size: 346
2210195 AGAATATAAT
* * *
2210205 TACTTTTA-AATATATAT-TTTTAAA-ATAAATATATTTACTTTCTATTTTATGTTAACATTACA
1 TACTTTTAGTATATATATACTTTAAATATAAACATATTTACTTTCTATTTTATGTTAACATTACA
* * *
2210267 AAAACTATAACTTAT-AAA--ATT-ATTAAT-TATA-ATAGATATACCATTGTTTATATAAACTT
66 AAAATTATAACTTATAAAATTATTAATTAATATATATATATATATACCTTTGTTTATATAAACTT
* *
2210326 ATAATATAT--ATTTAAAGA-AAGTTTTTGAGATTAGAATAGTTTTAAAACTTAACTT-TTTTTT
131 ATAATATATAAATTTAAAGAGAAG-TTGTGAGATTAGAATAGTTTTGAAACTTAA-TTATTTTTT
*
2210387 TAATTTCATGAAATTAA-AGACAAATCTATATAGTTAATTAAATTAATTCATGAAACTATTATTA
194 TAATTTCATGAAATTAAGA-ACAAATCTATATAGTTAATTAAATTAATTCATGAAACTATAATTA
* *
2210451 TTAATTAACTTGTAATGTCTTTTAATATATATAGTTTATGTATAGTGTTAATTTATAAGAAATAT
258 TTAATTAACTTGTAATGTCTTTTAATATATATACTTTATGTATAGTGTTCATTTATAA-AAATAT
2210516 AATTACTATTATATATATACTAAAAA
322 AATTACTATTATATATATACT-AAAA
* *
2210542 TA-TTTTAGTATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTATA
1 TACTTTTAGTATATATATACTTTAAATATAAACATATTTACTTTCTATTTTATGTTAACATTACA
* * *
2210606 AAAATAATCACTTATAAAATTATTAAATATAATATATATATATATATATCTTTGTTTATATAAAC
66 AAAATTATAACTTATAAAATTATT-AAT-TAATATATATATATATATACCTTTGTTTATATAAAC
* ** *
2210671 ATATAATATATAAACCTAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTTAATTAATTTTT
129 TTATAATATATAAATTTAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTTAATTATTTTTT
* *
2210736 TAATTTTAT-ATAATTAAGAACAAATCTATATAGTTAATTAAATTAATTCATAAAACTATAATTA
194 TAATTTCATGA-AATTAAGAACAAATCTATATAGTTAATTAAATTAATTCATGAAACTATAATTA
* *
2210800 TTAATTAACTTTTAATGTCTTTTAATATATATACTTTATGTATATTAGGTTCATTTATAAAGAAT
258 TTAATTAACTTGTAATGTCTTTTAATATATATACTTTATGTATAGT--GTTCATTTATAAA-AAT
2210865 ATAATTACTATTATATATAT--TAAAA
320 ATAATTACTATTATATATATACTAAAA
* * *
2210890 TACTTTTAGTGTATATATATGTACTTTTAATATAAACATATTTATTTTCTATTTTATGTTAGCAT
1 TACTTTTA--GTATATATA--TACTTTAAATATAAACATATTTACTTTCTATTTTATGTTAACAT
* * * * *
2210955 TATAAAAGTTATAACTTAAAAAATTATTAATT-ACA-ATATAT-T-TATAGCTTTGTTTATAT--
62 TACAAAAATTATAACTTATAAAATTATTAATTAATATATATATATATATACCTTTGTTTATATAA
* * *
2211014 A-TTATAATATATAAATTTAAAGGGAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTT
127 ACTTATAATATATAAATTTAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTTAATTA--TT
* * * * *
2211078 TTTTTAATTTCATGAAATTAAGGACAAACCCATATAGTTAATTAAATTAATTAATGAAACTATGA
190 TTTTTAATTTCATGAAATTAAGAACAAATCTATATAGTTAATTAAATTAATTCATGAAACTATAA
* * * * *
2211143 TTATTAATTGACTTGTAATATCTTTTAATATATATACTTTATATACATTGAGTTCATTTATAAAA
255 TTATTAATTAACTTGTAATGTCTTTTAATATATATACTTTATGT--ATAGTGTTCATTTAT-AAA
2211208 AATATAATTACTATTATATATATACTAAAA
317 AATATAATTACTATTATATATATACTAAAA
* * * * *
2211238 TACTTTTAGTATATGTACACTTTAAATATAAACATACTTACTTTCTATTTTGTATTAACATTACA
1 TACTTTTAGTATATATATACTTTAAATATAAACATATTTACTTTCTATTTTATGTTAACATTACA
2211303 AAAATTATAACTTATAAAATTATTAATTA
66 AAAATTATAACTTATAAAATTATTAATTA
2211332 TGTTTGAGAT
Statistics
Matches: 690, Mismatches: 66, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
336 5 0.01
337 10 0.01
338 6 0.01
339 47 0.07
340 3 0.00
342 3 0.00
344 121 0.18
345 5 0.01
346 142 0.21
347 53 0.08
348 25 0.04
349 152 0.22
350 7 0.01
351 44 0.06
352 3 0.00
353 64 0.09
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (346 bp):
TACTTTTAGTATATATATACTTTAAATATAAACATATTTACTTTCTATTTTATGTTAACATTACA
AAAATTATAACTTATAAAATTATTAATTAATATATATATATATATACCTTTGTTTATATAAACTT
ATAATATATAAATTTAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTTAATTATTTTTTTA
ATTTCATGAAATTAAGAACAAATCTATATAGTTAATTAAATTAATTCATGAAACTATAATTATTA
ATTAACTTGTAATGTCTTTTAATATATATACTTTATGTATAGTGTTCATTTATAAAAATATAATT
ACTATTATATATATACTAAAA
Found at i:2211576 original size:6 final size:6
Alignment explanation
Indices: 2211565--2211589 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2211555 TGGGGATGTA
2211565 TTAGGG TTAGGG TTAGGG TTAGGG T
1 TTAGGG TTAGGG TTAGGG TTAGGG T
2211590 AGTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:2233585 original size:34 final size:34
Alignment explanation
Indices: 2233539--2233609 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
2233529 CAACCCTAGC
* *
2233539 ATTTTTCTAAGAAAAATAAGATTCAATGTACTGT
1 ATTTTTCAAAGAAAAATAAGATTCAATGTACTCT
2233573 ATTTTTCAAAGAAAAATAAGATTCAATGTACTCT
1 ATTTTTCAAAGAAAAATAAGATTCAATGTACTCT
2233607 ATT
1 ATT
2233610 GAGGAAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (34 bp):
ATTTTTCAAAGAAAAATAAGATTCAATGTACTCT
Found at i:2236125 original size:16 final size:15
Alignment explanation
Indices: 2236079--2236139 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 15
2236069 ATTAAGATCT
2236079 ATTTATTGATA-TATAA
1 ATTTATT-ATATTA-AA
*
2236095 ATATTAATATAATTAAA
1 AT-TTATTAT-ATTAAA
2236112 ATTTATTAATATTAAA
1 ATTTATT-ATATTAAA
2236128 ATTTATTATATT
1 ATTTATTATATT
2236140 TTATAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 5 0.13
16 21 0.54
17 11 0.28
18 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTATATTAAA
Found at i:2236142 original size:26 final size:26
Alignment explanation
Indices: 2236090--2236167 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
2236080 TTTATTGATA
* ** *
2236090 TATAAATATTAATATAATTA-AAATT
1 TATAAATATTAAAATTTTTATAATTT
*
2236115 TATTAATATTAAAATTTATTAT-ATTT
1 TATAAATATTAAAATTT-TTATAATTT
*
2236141 TATAAATATTATAATTTTTATAATTT
1 TATAAATATTAAAATTTTTATAATTT
2236167 T
1 T
2236168 TTATTATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 17 0.40
26 26 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATAAATATTAAAATTTTTATAATTT
Found at i:2237428 original size:20 final size:21
Alignment explanation
Indices: 2237405--2237444 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2237395 GGATTTAGGG
2237405 TTATCTT-TTTGTTCATTAAT
1 TTATCTTATTTGTTCATTAAT
* *
2237425 TTATGTTATTTGTTCTTTAA
1 TTATCTTATTTGTTCATTAA
2237445 AACAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (21 bp):
TTATCTTATTTGTTCATTAAT
Found at i:2239886 original size:252 final size:252
Alignment explanation
Indices: 2239441--2240191 Score: 1175
Period size: 252 Copynumber: 3.0 Consensus size: 252
2239431 ATAGAATTTA
* * *
2239441 TAAGATAAAGATAATGCTTCAAGGATTTGATTTGGTTTGATTAAATTCTAATCTTCATCCAATAT
1 TAAGATAAAGATAATGCTTAAAGGATTTGATTTGGTTGGATTAAATTCTAATCTTCATCCAATCT
* * *
2239506 AATTTATATCTAAATCTAGATATACATAATCAAATACAAGAATTCAAATTAGATTAAACTTATTG
66 AATTTATATCCAAATCTAGATATATAAAATCAAATACAAGAATTCAAATTAGATTAAACTTATTG
* *
2239571 TGTCTGACTTGTTGCGTTGTTTAACTTGATCTGAACTTTTGAGTCATAATATAATAGATATTGAC
131 TGTCTGATTTGTTGCGTTGTTTGACTTGATCTGAACTTTTGAGTCATAATATAATAGATATTGAC
2239636 ACATATATTCATAACACTCTCCTCTTGAATGTCTATTATATTAAGAATATATCTCAT
196 ACATATATTCATAACACTCTCCTCTTGAATGTCTATTATATTAAGAATATATCTCAT
*
2239693 TAAGATAAAGATAATGCTTAAATGATTTGATTTGGTTGGATTAAATTCTAATCTTCATCCAATCT
1 TAAGATAAAGATAATGCTTAAAGGATTTGATTTGGTTGGATTAAATTCTAATCTTCATCCAATCT
* * * *
2239758 AATCTATATCCAAATTTAGATATATACAATCAAATACAAGAATTCAAATTAGATTAAACTTCTTG
66 AATTTATATCCAAATCTAGATATATAAAATCAAATACAAGAATTCAAATTAGATTAAACTTATTG
* * *
2239823 TGTCTGATTTGTTACGTTGTTTGACTTGATCTGAACTTTTGGGTCATAATATAGTAGATATTGAC
131 TGTCTGATTTGTTGCGTTGTTTGACTTGATCTGAACTTTTGAGTCATAATATAATAGATATTGAC
* *
2239888 ATATATATTCATAACACTTTTCC-CTTGAATGTCTATTATATTAAGAATATATCTCAT
196 ACATATATTCATAACAC-TCTCCTCTTGAATGTCTATTATATTAAGAATATATCTCAT
* * *
2239945 GAAGATAAAGATAATACTTAAAGGATTTGATTTGGTTGGATTAAATTCTAATCTTTATCCAATCT
1 TAAGATAAAGATAATGCTTAAAGGATTTGATTTGGTTGGATTAAATTCTAATCTTCATCCAATCT
* * * *
2240010 AATTTATATCCAAATCTAAATATATAAAATCAAACACAAAAATTCAAATTAGATTAAACTTTTTG
66 AATTTATATCCAAATCTAGATATATAAAATCAAATACAAGAATTCAAATTAGATTAAACTTATTG
* **
2240075 TGTCT-AGTCTGTTGCGTTGTTTGACTTGATCTGAACTTTTGAGTTTTAATATAATAGATATTGA
131 TGTCTGA-TTTGTTGCGTTGTTTGACTTGATCTGAACTTTTGAGTCATAATATAATAGATATTGA
* * *
2240139 CACATATATTCATAACATTGT-CTCATTGAATGTCGATTATATTAAGAATATAT
195 CACATATATTCATAACACTCTCCTC-TTGAATGTCTATTATATTAAGAATATAT
2240192 TCCATCAAAA
Statistics
Matches: 457, Mismatches: 38, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
250 1 0.00
251 4 0.01
252 448 0.98
253 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (252 bp):
TAAGATAAAGATAATGCTTAAAGGATTTGATTTGGTTGGATTAAATTCTAATCTTCATCCAATCT
AATTTATATCCAAATCTAGATATATAAAATCAAATACAAGAATTCAAATTAGATTAAACTTATTG
TGTCTGATTTGTTGCGTTGTTTGACTTGATCTGAACTTTTGAGTCATAATATAATAGATATTGAC
ACATATATTCATAACACTCTCCTCTTGAATGTCTATTATATTAAGAATATATCTCAT
Found at i:2240012 original size:16 final size:17
Alignment explanation
Indices: 2239991--2240028 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
2239981 TGGATTAAAT
2239991 TCTAATCTT-TATCC-AA
1 TCTAAT-TTATATCCAAA
2240007 TCTAATTTATATCCAAA
1 TCTAATTTATATCCAAA
2240024 TCTAA
1 TCTAA
2240029 ATATATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 11 0.55
17 7 0.35
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
TCTAATTTATATCCAAA
Found at i:2240728 original size:31 final size:31
Alignment explanation
Indices: 2240693--2240755 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
2240683 TAAAACACAT
*
2240693 ACACGTACACGTTTAAT-ACACATGTAACACG
1 ACACG-ACACGATTAATAACACATGTAACACG
* *
2240724 ACACGACACGATTAATAACACGTTTAACACG
1 ACACGACACGATTAATAACACATGTAACACG
2240755 A
1 A
2240756 TTAACACGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (31 bp):
ACACGACACGATTAATAACACATGTAACACG
Found at i:2240753 original size:9 final size:9
Alignment explanation
Indices: 2240739--2240768 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2240729 ACACGATTAA
*
2240739 TAACACGTT
1 TAACACGAT
2240748 TAACACGAT
1 TAACACGAT
2240757 TAACACGAT
1 TAACACGAT
2240766 TAA
1 TAA
2240769 ATAAAAATAT
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:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
TAACACGAT
Found at i:2245452 original size:2 final size:2
Alignment explanation
Indices: 2245445--2245469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2245435 GTCAGGTAGT
2245445 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2245470 GCATGTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2253784 original size:28 final size:28
Alignment explanation
Indices: 2253733--2253795 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2253723 GTCTATGGGC
* * *
2253733 AATTTTTCAATTTTTGGGGTAAAAATAT
1 AATTTTTCAATTTATAGGGCAAAAATAT
* * *
2253761 AATTTTTCACTTTATAGGGCAAAAGTGT
1 AATTTTTCAATTTATAGGGCAAAAATAT
2253789 AATTTTT
1 AATTTTT
2253796 AAAAATTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (28 bp):
AATTTTTCAATTTATAGGGCAAAAATAT
Found at i:2260570 original size:22 final size:23
Alignment explanation
Indices: 2260527--2260571 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2260517 CAATTTATCT
2260527 AATTAGAAAAGAAAAATATAAAA
1 AATTAGAAAAGAAAAATATAAAA
* *
2260550 AATTAGAATA-AAAAATGTAAAA
1 AATTAGAAAAGAAAAATATAAAA
2260572 TATGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
AATTAGAAAAGAAAAATATAAAA
Found at i:2260582 original size:30 final size:29
Alignment explanation
Indices: 2260539--2260674 Score: 95
Period size: 30 Copynumber: 4.7 Consensus size: 29
2260529 TTAGAAAAGA
* *
2260539 AAAATAT-AAAAAATTAGAATAAAAAATG
1 AAAATATGAAAAAATAATAATAAAAAATG
*
2260567 TAAAATATGAAAAAATAATAATAAGAAATG
1 -AAAATATGAAAAAATAATAATAAAAAATG
* *
2260597 -AAATA-GAAAACATGATAATAAAAAAT-
1 AAAATATGAAAAAATAATAATAAAAAATG
* ** *
2260623 ATAATAAAATAAAAATAATAATTAAATAAT-
1 AAAATATGA-AAAAATAATAA-TAAAAAATG
*
2260653 AATAA-ATAAAAAAATAGATAAT
1 AA-AATATGAAAAAATA-ATAAT
2260675 TGTATTAGTA
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
27 22 0.25
28 6 0.07
29 24 0.28
30 33 0.38
31 2 0.02
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.24
Consensus pattern (29 bp):
AAAATATGAAAAAATAATAATAAAAAATG
Found at i:2260605 original size:27 final size:27
Alignment explanation
Indices: 2260540--2260643 Score: 88
Period size: 27 Copynumber: 3.8 Consensus size: 27
2260530 TAGAAAAGAA
* * *
2260540 AAATATAAAAAATTAGAATAAAAAATG
1 AAATAGAAAAAATAATAATAAAAAATG
*
2260567 TAAAATATGAAAAAATAATAATAAGAAATG
1 --AAATA-GAAAAAATAATAATAAAAAATG
* *
2260597 AAATAGAAAACATGATAATAAAAAAT-
1 AAATAGAAAAAATAATAATAAAAAATG
2260623 ATAATA-AAATAAA-AATAATAA
1 A-AATAGAAA-AAATAATAATAA
2260644 TTAAATAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
26 11 0.17
27 24 0.38
28 5 0.08
29 5 0.08
30 18 0.29
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (27 bp):
AAATAGAAAAAATAATAATAAAAAATG
Found at i:2260628 original size:12 final size:13
Alignment explanation
Indices: 2260544--2260631 Score: 63
Period size: 13 Copynumber: 6.5 Consensus size: 13
2260534 AAAGAAAAAT
* *
2260544 ATAAAAAATTAGA
1 ATAAAAAATGATA
*
2260557 ATAAAAAATGTAAAA
1 ATAAAAAATG--ATA
*
2260572 TATGAAAAAATAATA
1 -AT-AAAAAATGATA
*
2260587 ATAAGAAATGA-A
1 ATAAAAAATGATA
2260599 ATAGAAAACATGATA
1 ATA-AAAA-ATGATA
2260614 ATAAAAAAT-ATA
1 ATAAAAAATGATA
2260626 ATAAAA
1 ATAAAA
2260632 TAAAAATAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
12 13 0.21
13 21 0.34
14 10 0.16
15 8 0.13
16 2 0.03
17 7 0.11
ACGTcount: A:0.69, C:0.01, G:0.08, T:0.22
Consensus pattern (13 bp):
ATAAAAAATGATA
Found at i:2260635 original size:17 final size:16
Alignment explanation
Indices: 2260617--2260663 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
2260607 CATGATAATA
2260617 AAAAATATAATAAAAT
1 AAAAATATAATAAAAT
*
2260633 AAAAATAATAATTAAAT
1 AAAAAT-ATAATAAAAT
*
2260650 AATAATA-AATAAAA
1 AAAAATATAATAAAA
2260664 AAATAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 14 0.52
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATATAATAAAAT
Found at i:2260642 original size:14 final size:13
Alignment explanation
Indices: 2260611--2260673 Score: 67
Period size: 14 Copynumber: 4.8 Consensus size: 13
2260601 AGAAAACATG
*
2260611 ATAATAAA-AAAT
1 ATAATAAATAAAA
2260623 ATAATAAAATAAAA
1 ATAAT-AAATAAAA
*
2260637 ATAATAATTAAATA
1 ATAATAAATAAA-A
2260651 ATAATAAATAAAA
1 ATAATAAATAAAA
*
2260664 A-AATAGATAA
1 ATAATAAATAA
2260674 TTGTATTAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
12 13 0.30
13 11 0.25
14 20 0.45
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (13 bp):
ATAATAAATAAAA
Found at i:2261911 original size:20 final size:20
Alignment explanation
Indices: 2261883--2261923 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2261873 TTTAATATCA
* * *
2261883 TATATTTTTTTATTTTTTAT
1 TATAATTTTATATATTTTAT
2261903 TATAATTTTATATATTTTAT
1 TATAATTTTATATATTTTAT
2261923 T
1 T
2261924 TTTTTCTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TATAATTTTATATATTTTAT
Found at i:2261941 original size:31 final size:30
Alignment explanation
Indices: 2261882--2261948 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
2261872 TTTTAATATC
*
2261882 ATATATTTTTTTATTTTTTATTATAATTTT
1 ATATATTTTTTTATTTTTTAATATAATTTT
2261912 ATATATTTTATTT-TTTTCTTAATATAATTTT
1 ATATATTTT-TTTATTTT-TTAATATAATTTT
*
2261943 CTATAT
1 ATATAT
2261949 GATATATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
ATATATTTTTTTATTTTTTAATATAATTTT
Found at i:2269636 original size:35 final size:36
Alignment explanation
Indices: 2269574--2269643 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
2269564 CACAAAAAAA
2269574 TTAAAATTAAAATTTAAATAATCAAAAACAAATATC
1 TTAAAATTAAAATTTAAATAATCAAAAACAAATATC
* *
2269610 TTAAACTTAAAA-TTAAATAA-CTAAAAATAAATAT
1 TTAAAATTAAAATTTAAATAATC-AAAAACAAATAT
2269644 ATAGGGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 1 0.03
35 19 0.61
36 11 0.35
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (36 bp):
TTAAAATTAAAATTTAAATAATCAAAAACAAATATC
Found at i:2270904 original size:90 final size:89
Alignment explanation
Indices: 2270650--2270925 Score: 362
Period size: 89 Copynumber: 3.1 Consensus size: 89
2270640 GCCGCCGACG
* * * * *
2270650 AAAGGAAGAAGCAAGAGAGAGAAGATCTAGGTTGCTGTGCTGCCGGTTCTTA-AGAGAGCTGGGG
1 AAAGGAAGAAGCGAGAGAGACAAGATCTGGGTTGCTGTGCTGTCGGTTC-TAGAGAGAGATGGGG
*
2270714 CTTTGGCCTTGTGTCGCCGGTTGGA
65 CTTTGGCCTTGTGTCGTCGGTTGGA
* * *
2270739 AAAGGAAGAAGCGAGAGAGACAAGATCTGGGTTGCTCTGCCGTCGGTTCTAGAGAGAGTTGGGGC
1 AAAGGAAGAAGCGAGAGAGACAAGATCTGGGTTGCTGTGCTGTCGGTTCTAGAGAGAGATGGGGC
*
2270804 TTTGAG-CTTGTGTTGTCGGTTGGA
66 TTTG-GCCTTGTGTCGTCGGTTGGA
*
2270828 AAAGGAAGAAGCGAGAGTCA-ACCAGATCTGGGTT-CTTGTGCTGTCGGTTCTAGAGAGAGATGG
1 AAAGGAAGAAGCGAGAG--AGACAAGATCTGGGTTGC-TGTGCTGTCGGTTCTAGAGAGAGATGG
* *
2270891 GGCTTCGGCCTTGTGTCGTCGGCTGGA
63 GGCTTTGGCCTTGTGTCGTCGGTTGGA
2270918 AAAGGAAG
1 AAAGGAAG
2270926 GCCTTGAGAG
Statistics
Matches: 165, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
88 2 0.01
89 94 0.57
90 68 0.41
91 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (89 bp):
AAAGGAAGAAGCGAGAGAGACAAGATCTGGGTTGCTGTGCTGTCGGTTCTAGAGAGAGATGGGGC
TTTGGCCTTGTGTCGTCGGTTGGA
Found at i:2272566 original size:17 final size:17
Alignment explanation
Indices: 2272544--2272579 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2272534 TATCTAAATT
2272544 TTTTTAAAAAAATTAAA
1 TTTTTAAAAAAATTAAA
*
2272561 TTTTTAAAAAATTTAAA
1 TTTTTAAAAAAATTAAA
2272578 TT
1 TT
2272580 ATATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTTAAAAAAATTAAA
Found at i:2272869 original size:26 final size:26
Alignment explanation
Indices: 2272838--2272891 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
2272828 GTTCAAATGG
*
2272838 ATTTCCAACAGAATATTCT-GTTGGAA
1 ATTTCCAAC-GAAAATTCTCGTTGGAA
*
2272864 ATTTCCAACGAAAATTTTCGTTGGAA
1 ATTTCCAACGAAAATTCTCGTTGGAA
2272890 AT
1 AT
2272892 CCGTTGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (26 bp):
ATTTCCAACGAAAATTCTCGTTGGAA
Found at i:2273024 original size:11 final size:11
Alignment explanation
Indices: 2273008--2273040 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2272998 AACTATACTC
2273008 CGTTGCAAATT
1 CGTTGCAAATT
2273019 CGTTGCAAA-T
1 CGTTGCAAATT
2273029 CTGTTGCAAATT
1 C-GTTGCAAATT
2273041 TCCAACGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 17 0.85
12 1 0.05
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (11 bp):
CGTTGCAAATT
Found at i:2273054 original size:13 final size:13
Alignment explanation
Indices: 2273036--2273068 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2273026 AATCTGTTGC
2273036 AAATTTCCAACGA
1 AAATTTCCAACGA
2273049 AAATTTCCAACGA
1 AAATTTCCAACGA
2273062 AATATTT
1 AA-ATTT
2273069 TCCGTTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (13 bp):
AAATTTCCAACGA
Found at i:2276360 original size:23 final size:23
Alignment explanation
Indices: 2276334--2276379 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2276324 ACGTATTAAT
*
2276334 CAAATGACCCAAAAGCACAACAG
1 CAAATGACCCAAAAACACAACAG
*
2276357 CAAATGACCCAAAAACATAACAG
1 CAAATGACCCAAAAACACAACAG
2276380 TAAAATAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.28, G:0.11, T:0.07
Consensus pattern (23 bp):
CAAATGACCCAAAAACACAACAG
Found at i:2276385 original size:24 final size:23
Alignment explanation
Indices: 2276335--2276385 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2276325 CGTATTAATC
* *
2276335 AAATGACCCAAAAGCACAACAGC
1 AAATGACCCAAAAACACAACAGA
*
2276358 AAATGACCCAAAAACATAACAGTA
1 AAATGACCCAAAAACACAACAG-A
2276382 AAAT
1 AAAT
2276386 AGCATATGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.57, C:0.24, G:0.10, T:0.10
Consensus pattern (23 bp):
AAATGACCCAAAAACACAACAGA
Found at i:2279637 original size:4 final size:4
Alignment explanation
Indices: 2279623--2279657 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
2279613 AGAACCTAAC
2279623 AAGA GAAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
2279658 TGCTCTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2284491 original size:2 final size:2
Alignment explanation
Indices: 2284484--2284516 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2284474 TTCCTCCCTC
2284484 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2284517 GTCTATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2286569 original size:17 final size:18
Alignment explanation
Indices: 2286543--2286578 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2286533 AAAAGAATTA
*
2286543 CAAAATAAAAAGATTTTT
1 CAAAATAAAAAAATTTTT
2286561 CAAAA-AAAAAAATTTTT
1 CAAAATAAAAAAATTTTT
2286578 C
1 C
2286579 TTTCCTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (18 bp):
CAAAATAAAAAAATTTTT
Found at i:2286682 original size:19 final size:19
Alignment explanation
Indices: 2286658--2286694 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2286648 CCTCTCTCCC
2286658 TTTCA-TTTTCTATTTTTCA
1 TTTCATTTTTCT-TTTTTCA
2286677 TTTCATTTTTCTTTTTTC
1 TTTCATTTTTCTTTTTTC
2286695 TCCTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCATTTTTCTTTTTTCA
Found at i:2303801 original size:229 final size:228
Alignment explanation
Indices: 2303400--2303858 Score: 659
Period size: 229 Copynumber: 2.0 Consensus size: 228
2303390 TTCATCAATC
**
2303400 TAAGGGCTCCAATAAAGTCTTGTAATAATAAATTTATATAAGAAAACAATATCAATAATTAAATA
1 TAAGGGCTCCAATAAAGTCTTGTAATAATAAAAGTATATAAGAAAACAATATCAATAATTAAATA
** *
2303465 GGTTGTAAAATTGGAAATAAGAATGAGTATTATAGGAATACAAGTCATTTATCAGAACTTTGTCG
66 GGTTGTAAAATTGGAAATAAGAATGAGTATTATAGGAATACAAGTCACCTATCAGAACTGTGTCG
* *
2303530 TTACGGATTCAACTATTGATTTGATCGATGGATACGAAATTAAAGAAGCATGTTCGATAGGGATT
131 TTACGGATTCAAATATTGATTTGATCGATGGATAC-AAATTAAAGAAGCATGCTCGATAGGGATT
*
2303595 CCAATCTTCCTAAATTAGATAGATGACAGTACTT
195 CAAATCTTCCTAAATTAGATAGATGACAGTACTT
* * * * *
2303629 TAAGGGCTCGAATAAAGTCTTGTAATAATAAAAGTATATAAGAAAACAATATTAGTGATTATATA
1 TAAGGGCTCCAATAAAGTCTTGTAATAATAAAAGTATATAAGAAAACAATATCAATAATTAAATA
* * * *
2303694 GGTTGTAAAATTGGAAATAAGAATGAGTATTATAGGAATATAGGTTACCTATTAGAACTGTGTCG
66 GGTTGTAAAATTGGAAATAAGAATGAGTATTATAGGAATACAAGTCACCTATCAGAACTGTGTCG
** *
2303759 TTACGGATTCAAATATTGATTTGATCGATGGACGTA-AAATTAAAGAATTATGCTGGATAGGGAT
131 TTACGGATTCAAATATTGATTTGATCGATGGA--TACAAATTAAAGAAGCATGCTCGATAGGGAT
* * * * *
2303823 TCAAATCTTCTTAGATTGGGTAGATGATAGTACTT
194 TCAAATCTTCCTAAATTAGATAGATGACAGTACTT
2303858 T
1 T
2303859 TTGTAAACAT
Statistics
Matches: 203, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
229 201 0.99
231 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (228 bp):
TAAGGGCTCCAATAAAGTCTTGTAATAATAAAAGTATATAAGAAAACAATATCAATAATTAAATA
GGTTGTAAAATTGGAAATAAGAATGAGTATTATAGGAATACAAGTCACCTATCAGAACTGTGTCG
TTACGGATTCAAATATTGATTTGATCGATGGATACAAATTAAAGAAGCATGCTCGATAGGGATTC
AAATCTTCCTAAATTAGATAGATGACAGTACTT
Found at i:2314928 original size:23 final size:24
Alignment explanation
Indices: 2314894--2314942 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
2314884 TTAAATTTAT
* *
2314894 AATAATTAAAAATTATTA-AAACA
1 AATAATTAAAAAATATAATAAACA
2314917 AATAATCT-AAAAATATAATAAACA
1 AATAAT-TAAAAAATATAATAAACA
2314941 AA
1 AA
2314943 AACATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAATTAAAAAATATAATAAACA
Found at i:2314939 original size:24 final size:23
Alignment explanation
Indices: 2314894--2314942 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
2314884 TTAAATTTAT
*
2314894 AATAATTAAAAATTATTAAAACA
1 AATAATTAAAAATTAATAAAACA
2314917 AATAATCTAAAAATATAAT-AAACA
1 AATAAT-TAAAAAT-TAATAAAACA
2314941 AA
1 AA
2314943 AACATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 14 0.61
25 3 0.13
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AATAATTAAAAATTAATAAAACA
Found at i:2325230 original size:2 final size:2
Alignment explanation
Indices: 2325210--2325269 Score: 88
Period size: 2 Copynumber: 31.0 Consensus size: 2
2325200 CAAAATTCTA
* *
2325210 AT AT GT AT AC AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2325251 AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
2325270 TAGTTTGGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2325337 original size:17 final size:18
Alignment explanation
Indices: 2325315--2325349 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2325305 TTAAACTAAG
2325315 AATTG-ACCAAATAAATT
1 AATTGAACCAAATAAATT
*
2325332 AATTGAACCAATTAAATT
1 AATTGAACCAAATAAATT
2325350 GAATCGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
AATTGAACCAAATAAATT
Found at i:2327443 original size:4 final size:4
Alignment explanation
Indices: 2327436--2327460 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2327426 ATATATATAT
2327436 ATAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG A
2327461 AATCCTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:2328847 original size:3 final size:3
Alignment explanation
Indices: 2328839--2328871 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2328829 ATCCTACTCC
2328839 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
2328872 GGAGCAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:2332659 original size:34 final size:34
Alignment explanation
Indices: 2332621--2332746 Score: 164
Period size: 34 Copynumber: 3.7 Consensus size: 34
2332611 ACTTTAGTTC
* *
2332621 TTTGATATATACTGGTTCGATCACTTAGTAAATG
1 TTTGATATATATTGGTTCAATCACTTAGTAAATG
* * * *
2332655 TTTGATATATATTGGTTCGATCACGTAATGAATG
1 TTTGATATATATTGGTTCAATCACTTAGTAAATG
*
2332689 TTTGATATATATTGGCTCAATCA-TGTAGTAAATG
1 TTTGATATATATTGGTTCAATCACT-TAGTAAATG
*
2332723 TTTGATGTATATTGGTTCAATCAC
1 TTTGATATATATTGGTTCAATCAC
2332747 GAAGTGAAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
34 79 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (34 bp):
TTTGATATATATTGGTTCAATCACTTAGTAAATG
Found at i:2332734 original size:68 final size:68
Alignment explanation
Indices: 2332621--2332747 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
2332611 ACTTTAGTTC
* * *
2332621 TTTGATATATACTGGTTCGATCACTTAGTAAATGTTTGATATATATTGGTTCGATCACGTAATGA
1 TTTGATATATACTGGCTCAATCACTTAGTAAATGTTTGATATATATTGGTTCAATCACGTAATGA
2332686 ATG
66 ATG
* *
2332689 TTTGATATATATTGGCTCAATCA-TGTAGTAAATGTTTGATGTATATTGGTTCAATCACG
1 TTTGATATATACTGGCTCAATCACT-TAGTAAATGTTTGATATATATTGGTTCAATCACG
2332748 AAGTGAAGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
67 1 0.02
68 52 0.98
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (68 bp):
TTTGATATATACTGGCTCAATCACTTAGTAAATGTTTGATATATATTGGTTCAATCACGTAATGA
ATG
Found at i:2335576 original size:27 final size:27
Alignment explanation
Indices: 2335543--2335611 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
2335533 GTTGATATCC
2335543 TCATCTTCATCATCATCAAACTCA-CTA
1 TCATCTTCATCATCATCAAACTCATC-A
* * *
2335570 TCCTCTTCATCGTCGTCAAACTCATCA
1 TCATCTTCATCATCATCAAACTCATCA
*
2335597 TCATATTCATCATCA
1 TCATCTTCATCATCA
2335612 CCATCAGATG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.33, G:0.03, T:0.35
Consensus pattern (27 bp):
TCATCTTCATCATCATCAAACTCATCA
Found at i:2349363 original size:23 final size:23
Alignment explanation
Indices: 2349320--2349365 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2349310 TTATAGGTCT
* *
2349320 TTAATTTTATAATAATAATATAA
1 TTAATTATATAAAAATAATATAA
2349343 TTAATTATATTAAAAAT-ATATAA
1 TTAATTATA-TAAAAATAATATAA
2349366 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAATTATATAAAAATAATATAA
Found at i:2351222 original size:54 final size:54
Alignment explanation
Indices: 2351159--2351319 Score: 259
Period size: 54 Copynumber: 3.0 Consensus size: 54
2351149 GGGCTCAAGA
* *
2351159 AGATGAGATACCTGTCGTTTGAGGGCCTTGAGCTGCAGATTGAGAGCTTTTCTC
1 AGATGAGATACCTGTAGTTTGAGGGCCTTAAGCTGCAGATTGAGAGCTTTTCTC
*
2351213 AGATGAGATACCTGTAGTTTGAGGGCCTAAAGCTGCAGATTGAGAGCTTTTCTC
1 AGATGAGATACCTGTAGTTTGAGGGCCTTAAGCTGCAGATTGAGAGCTTTTCTC
* * * *
2351267 AGATGAGATACCTGTTGTTTGACGGCCTTCAGCTGCAGATTGAGAGTTTTTCT
1 AGATGAGATACCTGTAGTTTGAGGGCCTTAAGCTGCAGATTGAGAGCTTTTCT
2351320 ATTTTCCAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.32
Consensus pattern (54 bp):
AGATGAGATACCTGTAGTTTGAGGGCCTTAAGCTGCAGATTGAGAGCTTTTCTC
Done.