Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold962
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1469792
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.31
Warning! 91164 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:885732 original size:126 final size:126
Alignment explanation
Indices: 885507--886011 Score: 714
Period size: 126 Copynumber: 3.9 Consensus size: 126
885497 TTGCGTTCCT
* * * * *
885507 TGTACCTTACAACCACTGTAAACTATTCAAATCGTAACTAACATTATCACATACCTTCACATGTA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
*
885572 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCATATACCTTAACA
66 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACA
*
885633 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTATATTGTCACATACCTTAACATGTA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
885698 CCTTACAACCACTGTAAACTATTCACATCGTCAC---T-TACATTGTCACATACCTTAACA
66 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACA
**
885755 TGTACAATACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCAC---T-TACATTGTCACATACCTTAACA
* * *
885820 TGTACCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACCT-TAACATGT
62 TGTACCTTACAACCACTGTAAACTATTCACATCGTC----AC-TTAT-ATACA-TTGTCACA--T
885884 ACCTTAACA
118 ACCTTAACA
885893 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
* * * *
885958 CCTTACGACCACTGTAAACTATTCAAATCGTCACTTACATCCATTGTCACATAC
66 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATAC
886012 ATAGGCAATT
Statistics
Matches: 339, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
122 57 0.17
123 1 0.00
125 1 0.00
126 153 0.45
127 1 0.00
128 7 0.02
129 3 0.01
130 4 0.01
134 57 0.17
135 1 0.00
136 7 0.02
137 1 0.00
138 46 0.14
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.31
Consensus pattern (126 bp):
TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACA
Found at i:885822 original size:187 final size:190
Alignment explanation
Indices: 885507--886011 Score: 773
Period size: 187 Copynumber: 2.6 Consensus size: 190
885497 TTGCGTTCCT
* * * * *
885507 TGTACCTTACAACCACTGTAAACTATTCAAATCGTAACTAACATTATCACATACCTTCACATGTA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
*
885572 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCATATACCTTAACATGTA
66 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACATGTA
* * *
885637 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATTGT-C-ACA-TACCTTAACA
131 CCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCCTACAGTACCTTAACA
885694 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
**
885759 CAATACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACATGTA
66 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACATGTA
885824 CCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACCTTAACATGTACCTT
131 CCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTAT------CC-T-ACA-GTACCTT
885889 AACA
187 AACA
885893 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
1 TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
* * * *
885958 CCTTACGACCACTGTAAACTATTCAAATCGTCACTTACATCCATTGTCACATAC
66 CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATAC
886012 ATAGGCAATT
Statistics
Matches: 289, Mismatches: 17, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
187 162 0.56
194 1 0.00
197 3 0.01
199 123 0.43
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.31
Consensus pattern (190 bp):
TGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACCTTAACATGTA
CCTTACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACATACCTTAACATGTA
CCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCCTACAGTACCTTAACA
Found at i:885889 original size:12 final size:12
Alignment explanation
Indices: 885872--885901 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
885862 ATTATCACAC
885872 ACCTTAACATGT
1 ACCTTAACATGT
885884 ACCTTAACATGT
1 ACCTTAACATGT
885896 ACCTTA
1 ACCTTA
885902 CAACCACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (12 bp):
ACCTTAACATGT
Found at i:885900 original size:73 final size:73
Alignment explanation
Indices: 885810--885962 Score: 279
Period size: 73 Copynumber: 2.1 Consensus size: 73
885800 CATTGTCACA
885810 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACC
1 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACC
885875 TTAACATG
66 TTAACATG
* * *
885883 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCACTTACATTGTCACATACC
1 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACC
885948 TTAACATG
66 TTAACATG
885956 TACCTTA
1 TACCTTA
885963 CGACCACTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (73 bp):
TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACC
TTAACATG
Found at i:885982 original size:134 final size:136
Alignment explanation
Indices: 885745--885997 Score: 429
Period size: 134 Copynumber: 1.9 Consensus size: 136
885735 CATTGTCACA
885745 TACCTTAACATGTACAATACAACCACTGTAAACTATTCACATCGTCACTTATATACATTGTCACA
1 TACCTTAACATGTACAATACAACCACTGTAAACTATTCACATCGTCAC-T-TATACATTGTCACA
*
885810 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCAATTACATTATCACACACC
64 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCAAATCGTCAATTACATTATCACACACC
885875 TTAACATG
129 TTAACATG
**
885883 TACCTTAACATGTACCTTACAACCACTGTAAACTATTCACATCGTCAC-T-TACATTGTCACATA
1 TACCTTAACATGTACAATACAACCACTGTAAACTATTCACATCGTCACTTATACATTGTCACATA
* *
885946 CCTTAACATGTACCTTACGACCACTGTAAACTATTCAAATCGTCACTTACAT
66 CCTTAACATGTACCTTACAACCACTGTAAACTATTCAAATCGTCAATTACAT
885998 CCATTGTCAC
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
134 63 0.57
135 1 0.01
138 46 0.42
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (136 bp):
TACCTTAACATGTACAATACAACCACTGTAAACTATTCACATCGTCACTTATACATTGTCACATA
CCTTAACATGTACCTTACAACCACTGTAAACTATTCAAATCGTCAATTACATTATCACACACCTT
AACATG
Found at i:889255 original size:4 final size:4
Alignment explanation
Indices: 889246--889295 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
889236 AAAGTTTACA
* * *
889246 GACG GACG GACA GACA GACA GACG GACG GACG GACG GACG GAC- GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
889293 GAC
1 GAC
889296 AACAGGTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 3 0.07
4 40 0.93
ACGTcount: A:0.32, C:0.26, G:0.42, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:892240 original size:2 final size:2
Alignment explanation
Indices: 892233--892282 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
892223 AAGACCAAGA
892233 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
892275 TC TC TC TC
1 TC TC TC TC
892283 AACACGTGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:893047 original size:24 final size:24
Alignment explanation
Indices: 893011--893083 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
893001 CTTTCCTCTG
*
893011 CGTCCGTCAGTCCGTCTGTCCGTC
1 CGTCCGTCAGTCCGTCTGTCTGTC
*
893035 CGTCCGTCCGTCCGTCTGTCTGTC
1 CGTCCGTCAGTCCGTCTGTCTGTC
893059 CGTCCGTCAGTCCGTCTGTCTGTC
1 CGTCCGTCAGTCCGTCTGTCTGTC
893083 C
1 C
893084 CACTTCAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.03, C:0.41, G:0.25, T:0.32
Consensus pattern (24 bp):
CGTCCGTCAGTCCGTCTGTCTGTC
Found at i:893082 original size:4 final size:4
Alignment explanation
Indices: 893011--893074 Score: 83
Period size: 4 Copynumber: 16.0 Consensus size: 4
893001 CTTTCCTCTG
* * * *
893011 CGTC CGTC AGTC CGTC TGTC CGTC CGTC CGTC CGTC CGTC TGTC TGTC
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC
*
893059 CGTC CGTC AGTC CGTC
1 CGTC CGTC CGTC CGTC
893075 TGTCTGTCCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.03, C:0.42, G:0.25, T:0.30
Consensus pattern (4 bp):
CGTC
Found at i:894925 original size:4 final size:4
Alignment explanation
Indices: 894909--894952 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
894899 TTTTCCTCTG
* * *
894909 CGTC CGTC AGTC CGTC CGTC TGTC CCTC CGTC CGTC CGTC CGTC
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC
894953 TGTCTGTCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.02, C:0.48, G:0.23, T:0.27
Consensus pattern (4 bp):
CGTC
Found at i:894961 original size:12 final size:12
Alignment explanation
Indices: 894909--894961 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
894899 TTTTCCTCTG
*
894909 CGTCCGTCAGTC
1 CGTCCGTCTGTC
894921 CGTCCGTCTGTC
1 CGTCCGTCTGTC
* *
894933 CCTCCGTCCGTC
1 CGTCCGTCTGTC
894945 CGTCCGTCTGTC
1 CGTCCGTCTGTC
*
894957 TGTCC
1 CGTCC
894962 CACTTCAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.02, C:0.45, G:0.23, T:0.30
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:903661 original size:21 final size:21
Alignment explanation
Indices: 903631--903923 Score: 320
Period size: 21 Copynumber: 14.0 Consensus size: 21
903621 TCATATAATG
* * *
903631 AAGTAGCAGCATGCAATGTTG
1 AAGTACCAGCATGTAATGTTA
* * *
903652 AACTATCAGCACGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
*
903673 AAGTACCATCATGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
*
903694 AAGTATCAGCATGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
*
903715 AAGTACCAGCACGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
* * *
903736 AAGTACCATCACGTAATGTTG
1 AAGTACCAGCATGTAATGTTA
*
903757 AAGTATCAGCATGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
* *
903778 AAGTACCATCATGTAATGTTG
1 AAGTACCAGCATGTAATGTTA
* *
903799 AAGTATCAGCACGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
*
903820 AAGTACCATCATGTAATGTTGA
1 AAGTACCAGCATGTAATGTT-A
** *
903842 AA-TATTAGCTTGTAATGTTA
1 AAGTACCAGCATGTAATGTTA
*
903862 AAGTACCATCATGTAATGTTGA
1 AAGTACCAGCATGTAATGTT-A
* * *
903884 AA-TATCAGTATGTAATGTTG
1 AAGTACCAGCATGTAATGTTA
*
903904 AAGTACCATCATGTAATGTT
1 AAGTACCAGCATGTAATGTT
903924 GAAGCATGCA
Statistics
Matches: 224, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
20 5 0.02
21 213 0.95
22 6 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (21 bp):
AAGTACCAGCATGTAATGTTA
Found at i:903924 original size:42 final size:42
Alignment explanation
Indices: 903664--903926 Score: 368
Period size: 42 Copynumber: 6.3 Consensus size: 42
903654 CTATCAGCAC
* * * *
903664 GTAATGTT-AAAGTACCATCATGTAATGTTAAAGTATCAGCAT
1 GTAATGTTGAAA-TATCAGCATGTAATGTTAAAGTACCATCAT
* * *
903706 GTAATGTT-AAAGTACCAGCACGTAATGTTAAAGTACCATCAC
1 GTAATGTTGAAA-TATCAGCATGTAATGTTAAAGTACCATCAT
*
903748 GTAATGTTGAAGTATCAGCATGTAATGTTAAAGTACCATCAT
1 GTAATGTTGAAATATCAGCATGTAATGTTAAAGTACCATCAT
* *
903790 GTAATGTTGAAGTATCAGCACGTAATGTTAAAGTACCATCAT
1 GTAATGTTGAAATATCAGCATGTAATGTTAAAGTACCATCAT
* *
903832 GTAATGTTGAAATATTAGCTTGTAATGTTAAAGTACCATCAT
1 GTAATGTTGAAATATCAGCATGTAATGTTAAAGTACCATCAT
* *
903874 GTAATGTTGAAATATCAGTATGTAATGTTGAAGTACCATCAT
1 GTAATGTTGAAATATCAGCATGTAATGTTAAAGTACCATCAT
903916 GTAATGTTGAA
1 GTAATGTTGAA
903927 GCATGCATCA
Statistics
Matches: 202, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 200 0.99
43 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (42 bp):
GTAATGTTGAAATATCAGCATGTAATGTTAAAGTACCATCAT
Found at i:905080 original size:17 final size:18
Alignment explanation
Indices: 905048--905081 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
905038 TAGTAATTAA
905048 CTTATTCAGACCAAACAT
1 CTTATTCAGACCAAACAT
*
905066 CTTATTC-GTCCAAACA
1 CTTATTCAGACCAAACA
905082 AATAACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (18 bp):
CTTATTCAGACCAAACAT
Found at i:905090 original size:21 final size:20
Alignment explanation
Indices: 905066--905409 Score: 200
Period size: 20 Copynumber: 16.9 Consensus size: 20
905056 GACCAAACAT
*
905066 CTTATTCGTCCAAACAAATAA
1 CTTATTCGTCCGAACAAAT-A
* *
905087 CTTATTTGTCCGAACAGAT-
1 CTTATTCGTCCGAACAAATA
* * *
905106 CGTAACTAGTCC-AACCAAAT-
1 C-TTATTCGTCCGAA-CAAATA
* * *
905126 CGTAATTCGTCCGAACATATC
1 C-TTATTCGTCCGAACAAATA
* *
905147 CTAATTCGTCCGAACAAATC
1 CTTATTCGTCCGAACAAATA
* * *
905167 CTCATGCGTCCGAAAAAATAA
1 CTTATTCGTCCGAACAAAT-A
*
905188 CTTATTTGTCCGAACAAAT-
1 CTTATTCGTCCGAACAAATA
*
905207 CGTAATTCGTCCGAACAAATAA
1 C-TTATTCGTCCGAACAAAT-A
*
905229 CTTATTCGTGCGAACAAATAA
1 CTTATTCGTCCGAACAAAT-A
*
905250 CTTATTCGTCCGTACAAAT-
1 CTTATTCGTCCGAACAAATA
* *
905269 CGTGATTTGTCCGAACAAAT-
1 C-TTATTCGTCCGAACAAATA
* **
905289 CGTAATTCGTCCGAAC-AACC
1 C-TTATTCGTCCGAACAAATA
* *
905309 CGTATTTCGTCTGAACAAAT-
1 CTTA-TTCGTCCGAACAAATA
*
905329 CATAATTCGTCCGAACAAATAA
1 C-TTATTCGTCCGAACAAAT-A
*
905351 CTTAATCGTCCGAACAAATA
1 CTTATTCGTCCGAACAAATA
** * * * *
905371 GCCGATTCTTCTGAAAAAATC
1 -CTTATTCGTCCGAACAAATA
*
905392 CTGATTCGTCCGAACAAA
1 CTTATTCGTCCGAACAAA
905410 AAAGATTTTT
Statistics
Matches: 256, Mismatches: 51, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
19 8 0.03
20 145 0.57
21 101 0.39
22 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (20 bp):
CTTATTCGTCCGAACAAATA
Found at i:905137 original size:20 final size:20
Alignment explanation
Indices: 905094--905369 Score: 229
Period size: 20 Copynumber: 13.6 Consensus size: 20
905084 TAACTTATTT
* * *
905094 GTCCGAACAGATCGTAACTA
1 GTCCGAACAAATCGTAATTC
905114 GTCC-AACCAAATCGTAATTC
1 GTCCGAA-CAAATCGTAATTC
* *
905134 GTCCGAACATATCCTAATTC
1 GTCCGAACAAATCGTAATTC
* * *
905154 GTCCGAACAAATCCTCATGC
1 GTCCGAACAAATCGTAATTC
* * *
905174 GTCCGAAAAAATAAC-TTATTT
1 GTCCGAACAAAT--CGTAATTC
905195 GTCCGAACAAATCGTAATTC
1 GTCCGAACAAATCGTAATTC
*
905215 GTCCGAACAAATAAC-TTATTC
1 GTCCGAACAAAT--CGTAATTC
* *
905236 GTGCGAACAAATAAC-TTATTC
1 GTCCGAACAAAT--CGTAATTC
* * *
905257 GTCCGTACAAATCGTGATTT
1 GTCCGAACAAATCGTAATTC
905277 GTCCGAACAAATCGTAATTC
1 GTCCGAACAAATCGTAATTC
** *
905297 GTCCGAACAACCCGTATTTC
1 GTCCGAACAAATCGTAATTC
* *
905317 GTCTGAACAAATCATAATTC
1 GTCCGAACAAATCGTAATTC
*
905337 GTCCGAACAAATAACTTAA-TC
1 GTCCGAACAAAT--CGTAATTC
905358 GTCCGAACAAAT
1 GTCCGAACAAAT
905370 AGCCGATTCT
Statistics
Matches: 212, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.02
20 137 0.65
21 65 0.31
22 6 0.03
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (20 bp):
GTCCGAACAAATCGTAATTC
Found at i:905165 original size:40 final size:40
Alignment explanation
Indices: 905094--905409 Score: 235
Period size: 41 Copynumber: 7.8 Consensus size: 40
905084 TAACTTATTT
* * * *
905094 GTCCGAACAGATCGTAACTAGTCC-AACCAAATCGTAATTC
1 GTCCGAACAAATCCTAATTCGTCCGAA-CAAATCGTAATTC
* * * *
905134 GTCCGAACATATCCTAATTCGTCCGAACAAATCCTCATGC
1 GTCCGAACAAATCCTAATTCGTCCGAACAAATCGTAATTC
* * * *
905174 GTCCGAAAAAATAACTTATTTGTCCGAACAAATCGTAATTC
1 GTCCGAACAAAT-CCTAATTCGTCCGAACAAATCGTAATTC
* * * *
905215 GTCCGAACAAATAACTTATTCGTGCGAACAAATAAC-TTATTC
1 GTCCGAACAAAT-CCTAATTCGTCCGAACAAAT--CGTAATTC
* * * *
905257 GTCCGTACAAATCGTGATTTGTCCGAACAAATCGTAATTC
1 GTCCGAACAAATCCTAATTCGTCCGAACAAATCGTAATTC
* * * *
905297 GTCCGAAC-AACCCGTATTTCGTCTGAACAAATCATAATTC
1 GTCCGAACAAATCC-TAATTCGTCCGAACAAATCGTAATTC
* * **
905337 GTCCGAACAAATAACTTAA-TCGTCCGAACAAATAGCCGATTC
1 GTCCGAACAAAT--CCTAATTCGTCCGAACAAATCG-TAATTC
* * * *
905379 TTCTGAAAAAATCCTGATTCGTCCGAACAAA
1 GTCCGAACAAATCCTAATTCGTCCGAACAAA
905410 AAAGATTTTT
Statistics
Matches: 218, Mismatches: 47, Indels: 21
0.76 0.16 0.07
Matches are distributed among these distances:
39 4 0.02
40 84 0.39
41 97 0.44
42 31 0.14
43 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (40 bp):
GTCCGAACAAATCCTAATTCGTCCGAACAAATCGTAATTC
Found at i:905342 original size:163 final size:163
Alignment explanation
Indices: 905066--905369 Score: 423
Period size: 163 Copynumber: 1.9 Consensus size: 163
905056 GACCAAACAT
* *
905066 CTTATTCGTCCAAACAAATAACTTATTTGTCCGAACAGATCGTAACTAGTCCAACCAAATCGTAA
1 CTTATTCGTCCAAACAAATAACTTATTCGTCCGAACAAATCGTAACTAGTCCAACCAAATCGTAA
* * * * *
905131 TTCGTCCGAACATATCCTAATTCGTCCGAACAAATCCTCATGCGTCCGAAAAAATAACTTATTTG
66 TTCGTCCGAACATACCCTAATTCGTCCGAACAAATCATAATGCGTCCGAAAAAATAACTTAATCG
905196 TCCGAACAAATCGTAATTCGTCCGAACAAATAA
131 TCCGAACAAATCGTAATTCGTCCGAACAAATAA
* * * * * *
905229 CTTATTCGTGCGAACAAATAACTTATTCGTCCGTACAAATCGTGATTTGTCCGAA-CAAATCGTA
1 CTTATTCGTCCAAACAAATAACTTATTCGTCCGAACAAATCGTAACTAGTCC-AACCAAATCGTA
* * * *
905293 ATTCGTCCGAACA-ACCCGTATTTCGTCTGAACAAATCATAATTCGTCCGAACAAATAACTTAAT
65 ATTCGTCCGAACATACCC-TAATTCGTCCGAACAAATCATAATGCGTCCGAAAAAATAACTTAAT
905357 CGTCCGAACAAAT
129 CGTCCGAACAAAT
905370 AGCCGATTCT
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
162 3 0.02
163 117 0.96
164 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (163 bp):
CTTATTCGTCCAAACAAATAACTTATTCGTCCGAACAAATCGTAACTAGTCCAACCAAATCGTAA
TTCGTCCGAACATACCCTAATTCGTCCGAACAAATCATAATGCGTCCGAAAAAATAACTTAATCG
TCCGAACAAATCGTAATTCGTCCGAACAAATAA
Found at i:905391 original size:122 final size:121
Alignment explanation
Indices: 905130--905409 Score: 326
Period size: 122 Copynumber: 2.3 Consensus size: 121
905120 CCAAATCGTA
* * * * * * * ** *
905130 ATTCGTCCGAACATATCCTAATTCGTCCGAACAAATCCTCATGCGTCCGAAAAAATAACTTATTT
1 ATTCGTCCGAAAAAATCCTGATTCGTCCGAACAAATCGTAATTCGTCCG-AACAA-CCCGTATTT
* * * **
905195 GTCCGAACAAATCGTAATTCGTCCGAACAAATAACTTATTCGTGCGAACAAATAACTT
64 GTCCGAACAAATCATAATTCGTCCGAACAAATAACTTAATCGTCCGAACAAATAACCG
* * * *
905253 ATTCGTCCGTACAAATCGTGATTTGTCCGAACAAATCGTAATTCGTCCGAACAACCCGTATTTCG
1 ATTCGTCCGAAAAAATCCTGATTCGTCCGAACAAATCGTAATTCGTCCGAACAACCCGTATTT-G
* *
905318 TCTGAACAAATCATAATTCGTCCGAACAAATAACTTAATCGTCCGAACAAATAGCCG
65 TCCGAACAAATCATAATTCGTCCGAACAAATAACTTAATCGTCCGAACAAATAACCG
* *
905375 ATTCTTCTGAAAAAATCCTGATTCGTCCGAACAAA
1 ATTCGTCCGAAAAAATCCTGATTCGTCCGAACAAA
905410 AAAGATTTTT
Statistics
Matches: 131, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
121 6 0.05
122 84 0.64
123 41 0.31
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (121 bp):
ATTCGTCCGAAAAAATCCTGATTCGTCCGAACAAATCGTAATTCGTCCGAACAACCCGTATTTGT
CCGAACAAATCATAATTCGTCCGAACAAATAACTTAATCGTCCGAACAAATAACCG
Found at i:905408 original size:163 final size:163
Alignment explanation
Indices: 905069--905409 Score: 409
Period size: 163 Copynumber: 2.1 Consensus size: 163
905059 CAAACATCTT
* * *
905069 ATTCGTCCAAACAAATAACTTATTTGTCCGAACAGATCGTAACTAGTCCAACCAAATCGTAATTC
1 ATTCGTCCGAACAAATAACTTATTCGTCCGAACAAATCGTAACTAGTCCAACCAAATCGTAATTC
* * * * *
905134 GTCCGAACATATCCTAATTCGTCCGAACAAATCCTCATGCGTCCGAAAAAATAACTTATTTGTCC
66 GTCCGAACATACCCTAATTCGTCCGAACAAATCATAATGCGTCCGAAAAAATAACTTAATCGTCC
* * * *
905199 GAACAAATCGTAATTCGTCCGAACAAATAACTT
131 GAACAAATAGCAATTCGTCCGAAAAAATAACTG
* * * * *
905232 ATTCGTGCGAACAAATAACTTATTCGTCCGTACAAATCGTGATTTGTCCGAA-CAAATCGTAATT
1 ATTCGTCCGAACAAATAACTTATTCGTCCGAACAAATCGTAACTAGTCC-AACCAAATCGTAATT
* * * *
905296 CGTCCGAACA-ACCCGTATTTCGTCTGAACAAATCATAATTCGTCCGAACAAATAACTTAATCGT
65 CGTCCGAACATACCC-TAATTCGTCCGAACAAATCATAATGCGTCCGAAAAAATAACTTAATCGT
* * * *
905360 CCGAACAAATAGCCGATTCTTCTGAAAAAAT-CCTG
129 CCGAACAAATAG-CAATTCGTCCGAAAAAATAACTG
905395 ATTCGTCCGAACAAA
1 ATTCGTCCGAACAAA
905410 AAAGATTTTT
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
162 3 0.02
163 131 0.88
164 15 0.10
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (163 bp):
ATTCGTCCGAACAAATAACTTATTCGTCCGAACAAATCGTAACTAGTCCAACCAAATCGTAATTC
GTCCGAACATACCCTAATTCGTCCGAACAAATCATAATGCGTCCGAAAAAATAACTTAATCGTCC
GAACAAATAGCAATTCGTCCGAAAAAATAACTG
Found at i:906231 original size:18 final size:16
Alignment explanation
Indices: 906208--906241 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
906198 AATGACTAAA
906208 TAAATAAAATAAAATGAC
1 TAAAT-AAAT-AAATGAC
906226 TAAATAAATAAATGAC
1 TAAATAAATAAATGAC
906242 ACTTTCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (16 bp):
TAAATAAATAAATGAC
Found at i:917860 original size:13 final size:13
Alignment explanation
Indices: 917836--917868 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
917826 TTACATGTAT
917836 TTGGATAAACGGTC
1 TTGGA-AAACGGTC
917850 TTGGAAAACGGTC
1 TTGGAAAACGGTC
917863 TTGGAA
1 TTGGAA
917869 CAGAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (13 bp):
TTGGAAAACGGTC
Found at i:919456 original size:1 final size:1
Alignment explanation
Indices: 919450--919474 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
919440 CCCGGCTTAT
919450 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
919475 TCCCAACACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:926648 original size:16 final size:15
Alignment explanation
Indices: 926619--926650 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
926609 ATTGTTTGTT
926619 TTTAATTATTTTAAA
1 TTTAATTATTTTAAA
*
926634 TTTAATTATTTTTAA
1 TTTAATTATTTTAAA
926649 TT
1 TT
926651 AAAGGGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTATTTTAAA
Found at i:929011 original size:2 final size:2
Alignment explanation
Indices: 929006--929081 Score: 129
Period size: 2 Copynumber: 39.0 Consensus size: 2
928996 CATTATGTGT
929006 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
929048 GA GA GA GA GA GA GA GA GA -A G- GA CA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
929082 AAGTTGAGAA
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 68 0.97
ACGTcount: A:0.50, C:0.01, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:932639 original size:61 final size:62
Alignment explanation
Indices: 932529--932835 Score: 219
Period size: 62 Copynumber: 4.9 Consensus size: 62
932519 ATAATATAAC
* * * * *
932529 GTATTATCTGTTAACATGAAGGTAAGTAACCTTAACTGTAAACCTGGAGCGGTCGGTAACAT
1 GTATAATCTGTAAACATGAAAGTAAGTAAACTTAACTGTAAACCTGGAGCGGTAGGTAACAT
* *
932591 GTATAATCTGTAAACATGAAAGTAGGTAAACTTTA-TGTAAACCTGGAGCGGTAGGTAACAT
1 GTATAATCTGTAAACATGAAAGTAAGTAAACTTAACTGTAAACCTGGAGCGGTAGGTAACAT
** * * * * * *
932652 GTATAACATACATCTGTTAGCCTTG-AGGT-AGATAACCTAAACTGTAAACCTTGAGTGGTAGGT
1 G--T---ATA-ATCTG-TAAACATGAAAGTAAG-TAAACTTAACTGTAAACCTGGAGCGGTAGGT
932715 AACAT
58 AACAT
* * * * * * * * * * *
932720 GTTTTATCTGTAAACATTAAGGTAAGTAACCTTACCTGTAAACGTTGATCGGTAGGTTACTT
1 GTATAATCTGTAAACATGAAAGTAAGTAAACTTAACTGTAAACCTGGAGCGGTAGGTAACAT
* * *
932782 GTATTATCTGTAAACATAGAGCAGTAAGT-AACTGTAACTGT-AATCTGGAGCGGT
1 GTATAATCTGTAAACAT-GA-AAGTAAGTAAACT-TAACTGTAAACCTGGAGCGGT
932836 GGGTTAACTG
Statistics
Matches: 191, Mismatches: 40, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
61 30 0.16
62 83 0.43
63 17 0.09
64 12 0.06
66 5 0.03
67 14 0.07
68 30 0.16
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (62 bp):
GTATAATCTGTAAACATGAAAGTAAGTAAACTTAACTGTAAACCTGGAGCGGTAGGTAACAT
Found at i:932729 original size:129 final size:131
Alignment explanation
Indices: 932495--932736 Score: 323
Period size: 129 Copynumber: 1.9 Consensus size: 131
932485 CATCGCTATC
* *
932495 TGTAAACCTGGAGCGGTAGGTACAATAATATAACGTATTATCTGTTAACATGAAGGTAAGTAACC
1 TGTAAACCTGGAGCGGTAGGTACAATAATATAACATATCATCTGTTAACATGAAGGTAAGTAACC
* *
932560 TTAACTGTAAACCTGGAGCGGTCGGTAACATGTATAATCTGTAAACATGAAAGTAGGTAAACTTT
66 TAAACTGTAAACCTGGAGCGGTAGGTAACATGTATAATCTGTAAACATGAAAGTAGGTAAACTTT
932625 A
131 A
* * *
932626 TGTAAACCTGGAGCGGTAGGTA-ACAT-GTATAACATA-CATCTGTTAGCCTTG-AGGT-AGATA
1 TGTAAACCTGGAGCGGTAGGTACA-ATAATATAACATATCATCTGTTA-ACATGAAGGTAAG-TA
* * * *
932686 ACCTAAACTGTAAACCTTGAGTGGTAGGTAACATGTTTTATCTGTAAACAT
63 ACCTAAACTGTAAACCTGGAGCGGTAGGTAACATGTATAATCTGTAAACAT
932737 TAAGGTAAGT
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
128 2 0.02
129 59 0.61
130 12 0.12
131 24 0.25
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (131 bp):
TGTAAACCTGGAGCGGTAGGTACAATAATATAACATATCATCTGTTAACATGAAGGTAAGTAACC
TAAACTGTAAACCTGGAGCGGTAGGTAACATGTATAATCTGTAAACATGAAAGTAGGTAAACTTT
A
Found at i:932730 original size:62 final size:62
Alignment explanation
Indices: 932529--932798 Score: 222
Period size: 62 Copynumber: 4.3 Consensus size: 62
932519 ATAATATAAC
* * * * * *
932529 GTATTATCTGTTAACATGAAGGTAAGTAACCTTAACTGTAAACCTGGAGCGGTCGGTAACAT
1 GTATTATCTGTAAACATTAAGGTAAGTAACCTAAACTGTAAACCTTGATCGGTAGGTAACAT
* * * * * ** * *
932591 GTATAATCTGTAAACATGAAAGTAGGTAAACTTTA-TGTAAACCTGGAGCGGTAGGTAACAT
1 GTATTATCTGTAAACATTAAGGTAAGTAACCTAAACTGTAAACCTTGATCGGTAGGTAACAT
* * * *
932652 GTATAACATACATCTGTTAGCCTTGAGGT-AGATAACCTAAACTGTAAACCTTGAGT-GGTAGGT
1 GTAT----T--ATCTGTAAACATTAAGGTAAG-TAACCTAAACTGTAAACCTTGA-TCGGTAGGT
932715 AACAT
58 AACAT
* * * * * *
932720 GTTTTATCTGTAAACATTAAGGTAAGTAACCTTACCTGTAAACGTTGATCGGTAGGTTACTT
1 GTATTATCTGTAAACATTAAGGTAAGTAACCTAAACTGTAAACCTTGATCGGTAGGTAACAT
932782 GTATTATCTGTAAACAT
1 GTATTATCTGTAAACAT
932799 AGAGCAGTAA
Statistics
Matches: 166, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
61 30 0.18
62 88 0.53
63 2 0.01
64 1 0.01
66 1 0.01
67 18 0.11
68 26 0.16
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (62 bp):
GTATTATCTGTAAACATTAAGGTAAGTAACCTAAACTGTAAACCTTGATCGGTAGGTAACAT
Found at i:932866 original size:25 final size:25
Alignment explanation
Indices: 932816--932880 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
932806 TAAGTAACTG
* * *
932816 TAACTGT-AATCTGGAGCGGTGGGT
1 TAACTGTAAACCTGGAGCGATGAGT
*
932840 TAACTGTAAACCTTGAGCGATGAGT
1 TAACTGTAAACCTGGAGCGATGAGT
932865 TAACTGTAAACCTGGA
1 TAACTGTAAACCTGGA
932881 AGGGTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 7 0.20
25 28 0.80
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (25 bp):
TAACTGTAAACCTGGAGCGATGAGT
Found at i:934161 original size:4 final size:4
Alignment explanation
Indices: 934154--934178 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
934144 CGAAAGAGAG
934154 AGAC AGAC AGAC AGAC AGAC AGAC A
1 AGAC AGAC AGAC AGAC AGAC AGAC A
934179 CAGACAAGCA
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:0.24, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:936047 original size:28 final size:28
Alignment explanation
Indices: 936003--936058 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
935993 TTCAGTCCTG
*
936003 TCAGTTTCTACAGCTGTTCTATAGAGCT
1 TCAGTTTCTACAACTGTTCTATAGAGCT
936031 TCAGTTTCTACAACTGTTCTATAGAGCT
1 TCAGTTTCTACAACTGTTCTATAGAGCT
936059 ATGAATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (28 bp):
TCAGTTTCTACAACTGTTCTATAGAGCT
Found at i:936691 original size:34 final size:34
Alignment explanation
Indices: 936648--936791 Score: 160
Period size: 34 Copynumber: 4.4 Consensus size: 34
936638 ACGTCATCGC
936648 TATCTGTAAACCTGGAGCGGTAGGTAACATGTAT
1 TATCTGTAAACCTGGAGCGGTAGGTAACATGTAT
* * *
936682 TATCTGTAAACAT--AGAGGTAGGTAAC--CT-T
1 TATCTGTAAACCTGGAGCGGTAGGTAACATGTAT
*
936711 TA-CTGTAAACCTGGAGCAG-AGAGTAA-AGTGTAT
1 TATCTGTAAACCTGGAGCGGTAG-GTAACA-TGTAT
* *
936744 TATCTGTAAACGTGGAGCGGTAGGTAACATGCAT
1 TATCTGTAAACCTGGAGCGGTAGGTAACATGTAT
936778 TATCTGTAAACCTG
1 TATCTGTAAACCTG
936792 AAGGTATGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
28 9 0.10
29 5 0.06
30 8 0.09
32 13 0.15
33 3 0.03
34 48 0.54
35 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (34 bp):
TATCTGTAAACCTGGAGCGGTAGGTAACATGTAT
Found at i:936812 original size:96 final size:96
Alignment explanation
Indices: 936648--936823 Score: 300
Period size: 96 Copynumber: 1.8 Consensus size: 96
936638 ACGTCATCGC
*
936648 TATCTGTAAACCTGGAGCGGTAGGTAACATGTATTATCTGTAAACATAGAGGTAGGTAACCTTTA
1 TATCTGTAAACCTGGAGCGGTAGGTAACATGCATTATCTGTAAACATAGAGGTAGGTAACCTTTA
936713 CTGTAAACCTGGAGCAGAGAGTAAAGTGTAT
66 CTGTAAACCTGGAGCAGAGAGTAAAGTGTAT
* * *
936744 TATCTGTAAACGTGGAGCGGTAGGTAACATGCATTATCTGTAAACCT-GAAGGTATGTAACCTTT
1 TATCTGTAAACCTGGAGCGGTAGGTAACATGCATTATCTGTAAACATAG-AGGTAGGTAACCTTT
936808 ACTGTAAACCTGGAGC
65 ACTGTAAACCTGGAGC
936824 TGTGGATTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (96 bp):
TATCTGTAAACCTGGAGCGGTAGGTAACATGCATTATCTGTAAACATAGAGGTAGGTAACCTTTA
CTGTAAACCTGGAGCAGAGAGTAAAGTGTAT
Found at i:936860 original size:25 final size:24
Alignment explanation
Indices: 936810--936863 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
936800 TAACCTTTAC
*
936810 TGTAAACCTGGAGCTGTGGATTAAT
1 TGTAAACCTGGAGCTGTGCA-TAAT
936835 TGTAAACCTGGAGCGGTGTGCA-AAT
1 TGTAAACCTGGAGC--TGTGCATAAT
936860 TGTA
1 TGTA
936864 TTATCTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 21 0.81
27 5 0.19
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (24 bp):
TGTAAACCTGGAGCTGTGCATAAT
Found at i:938469 original size:30 final size:30
Alignment explanation
Indices: 938433--938621 Score: 288
Period size: 30 Copynumber: 6.3 Consensus size: 30
938423 AAAACCACAC
*
938433 CCACTTCAACCACCACACCATCCACGACAA
1 CCACTTCAACCACCACACCATCCCCGACAA
*
938463 CTACTTCAACCACCACACCATCCCCGACAA
1 CCACTTCAACCACCACACCATCCCCGACAA
938493 CCACTTCAACCACCACACCATCCCCGACAA
1 CCACTTCAACCACCACACCATCCCCGACAA
* *
938523 CCACTTCAACCAGCACAACATCCCCGACAA
1 CCACTTCAACCACCACACCATCCCCGACAA
*
938553 CCACTTCAACCACCACACCATCCTCGACAA
1 CCACTTCAACCACCACACCATCCCCGACAA
* * * * *
938583 CCACTTCTACAACTAAACCATCCTCGACAA
1 CCACTTCAACCACCACACCATCCCCGACAA
938613 CCACTTCAA
1 CCACTTCAA
938622 TAACTAAATC
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 146 1.00
ACGTcount: A:0.35, C:0.48, G:0.04, T:0.13
Consensus pattern (30 bp):
CCACTTCAACCACCACACCATCCCCGACAA
Found at i:938643 original size:30 final size:30
Alignment explanation
Indices: 938427--938643 Score: 150
Period size: 30 Copynumber: 7.2 Consensus size: 30
938417 ACAATAAAAA
* * * * *
938427 CCACACCCACTTCAACCACCACACCATCCA
1 CCACAACCACTTCAACAACTAAACCATCCC
* * * * *
938457 CGACAACTACTTCAACCACCACACCATCCC
1 CCACAACCACTTCAACAACTAAACCATCCC
* * * *
938487 CGACAACCACTTCAACCACCACACCATCCC
1 CCACAACCACTTCAACAACTAAACCATCCC
* *
938517 CGACAACCACTTCAACCAGC-ACAA-CATCCC
1 CCACAACCACTTCAA-CAACTA-AACCATCCC
* * * * *
938547 CGACAACCACTTCAACCACCACACCATCCT
1 CCACAACCACTTCAACAACTAAACCATCCC
* * *
938577 CGACAACCACTTCTACAACTAAACCATCCT
1 CCACAACCACTTCAACAACTAAACCATCCC
* * * *
938607 CGACAACCACTTCAATAACTAAATCTTCCC
1 CCACAACCACTTCAACAACTAAACCATCCC
938637 CCACAAC
1 CCACAAC
938644 TTCATCACCA
Statistics
Matches: 161, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
29 3 0.02
30 155 0.96
31 3 0.02
ACGTcount: A:0.35, C:0.48, G:0.03, T:0.14
Consensus pattern (30 bp):
CCACAACCACTTCAACAACTAAACCATCCC
Found at i:938775 original size:93 final size:93
Alignment explanation
Indices: 938658--938841 Score: 253
Period size: 93 Copynumber: 2.0 Consensus size: 93
938648 TCACCAATTA
* * * * * *
938658 CTTCGAATCCATTAACCACCTCTACCACTATACCATCGACAAATAC-TACATCCCCGACACCTAC
1 CTTCAAATCCATCAACCACCTCTACCACTATACCATCCACAAATACAT-CATCCCCAACAACTAA
* *
938722 TACTTCTACCACTACCTCTCCATCAACTT
65 TACTTCTACCACAACCTCACCATCAACTT
* *
938751 CTTCAAATCCATCAACCACTTCTACCACTATACCATCCACAACTACATCATCCCCAACAACTAAT
1 CTTCAAATCCATCAACCACCTCTACCACTATACCATCCACAAATACATCATCCCCAACAACTAAT
*
938816 ACTTCTACTACAACCTCACCATCAAC
66 ACTTCTACCACAACCTCACCATCAAC
938842 CACTACATCA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 78 0.99
94 1 0.01
ACGTcount: A:0.33, C:0.41, G:0.02, T:0.24
Consensus pattern (93 bp):
CTTCAAATCCATCAACCACCTCTACCACTATACCATCCACAAATACATCATCCCCAACAACTAAT
ACTTCTACCACAACCTCACCATCAACTT
Found at i:938989 original size:21 final size:21
Alignment explanation
Indices: 938965--939052 Score: 149
Period size: 21 Copynumber: 4.2 Consensus size: 21
938955 CATCTTCAAA
938965 GACGACAACATCAAAACCAAT
1 GACGACAACATCAAAACCAAT
938986 GACGACAACATCAAAACCAAT
1 GACGACAACATCAAAACCAAT
*
939007 GACGACAACATCAAAACCGAT
1 GACGACAACATCAAAACCAAT
* *
939028 GACGACGACATCAAAACCGAT
1 GACGACAACATCAAAACCAAT
939049 GACG
1 GACG
939053 TCGTCTAAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.48, C:0.28, G:0.15, T:0.09
Consensus pattern (21 bp):
GACGACAACATCAAAACCAAT
Found at i:940356 original size:16 final size:16
Alignment explanation
Indices: 940335--940369 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
940325 TAGATGTTTC
940335 GTACAAACAGT-ATATA
1 GTACAAACA-TAATATA
940351 GTACAAACATAATATA
1 GTACAAACATAATATA
940367 GTA
1 GTA
940370 TTATTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (16 bp):
GTACAAACATAATATA
Found at i:940503 original size:42 final size:43
Alignment explanation
Indices: 940427--940515 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 43
940417 AAAGAACCAA
940427 TTTCCCCTACTATAGTATATATATACATATATGTATCTGTGTAT
1 TTTCCCCTACTATAG-ATATATATACATATATGTATCTGTGTAT
*
940471 TTTCCCCTACTATAG-TATATATACATGTATGTATCTGTGTAT
1 TTTCCCCTACTATAGATATATATACATATATGTATCTGTGTAT
940513 TTT
1 TTT
940516 ATTCCTACAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 29 0.66
44 15 0.34
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (43 bp):
TTTCCCCTACTATAGATATATATACATATATGTATCTGTGTAT
Found at i:940675 original size:41 final size:41
Alignment explanation
Indices: 940627--941087 Score: 408
Period size: 41 Copynumber: 11.6 Consensus size: 41
940617 CTCTTGTATA
* *
940627 TCCCATACAGCAATACCTCGTTCCTCAACTCTTCTTGTGTT
1 TCCCATACAGCAATACCTCCTTTCTCAACTCTTCTTGTGTT
** * *
940668 TAACATACAGCCATACCTCCTTTCTCAACTCTTCTCGTGTT
1 TCCCATACAGCAATACCTCCTTTCTCAACTCTTCTTGTGTT
*
940709 TCCCATACAGTC-ATACCTCGTTTCTCAA--CTTCTTTGTGTT
1 TCCCATACAG-CAATACCTCCTTTCTCAACTCTTC-TTGTGTT
* ** * * *
940749 TCCCATACAGCCAGCCCCCCTTTCTCAACTCTCCTTGCGTT
1 TCCCATACAGCAATACCTCCTTTCTCAACTCTTCTTGTGTT
**
940790 TCCCATACAGCCAA-ACCTCCTTTCTCAACTCTTCTTAAGTT
1 TCCCATACAG-CAATACCTCCTTTCTCAACTCTTCTTGTGTT
* * *
940831 TCCTATACAGCCATATCTCCTTTCTCAA--CTT-TTGTGTT
1 TCCCATACAGCAATACCTCCTTTCTCAACTCTTCTTGTGTT
* *
940869 T-CCA-ACAGCCAA-ACCTCCTTTCTGAACTCTTCTTGTG-G
1 TCCCATACAG-CAATACCTCCTTTCTCAACTCTTCTTGTGTT
** * * **
940907 TCCC-TAGGGTC-ATACCTCCTTTCTCCATTCTTCTTAAGTT
1 TCCCATACAG-CAATACCTCCTTTCTCAACTCTTCTTGTGTT
* *
940947 TCCCACTACAGCCATACCTCGTTTCTCAACTCTTCTTGTG-T
1 TCCCA-TACAGCAATACCTCCTTTCTCAACTCTTCTTGTGTT
*
940988 T-CC-TACAGCAATATCTCCTCTT-TCAACTCTTCTTGTG-T
1 TCCCATACAGCAATACCTCCT-TTCTCAACTCTTCTTGTGTT
*
941026 T-CC-TACAGCAATATCTCCTCTT-TCAACTCTTCTTGTGTT
1 TCCCATACAGCAATACCTCCT-TTCTCAACTCTTCTTGTGTT
*
941065 TCCCATACAGTC-CTACCTCCTTT
1 TCCCATACAG-CAATACCTCCTTT
941088 TTATAAACCT
Statistics
Matches: 344, Mismatches: 53, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
36 16 0.05
37 4 0.01
38 77 0.22
39 42 0.12
40 40 0.12
41 133 0.39
42 32 0.09
ACGTcount: A:0.19, C:0.35, G:0.09, T:0.38
Consensus pattern (41 bp):
TCCCATACAGCAATACCTCCTTTCTCAACTCTTCTTGTGTT
Found at i:940775 original size:81 final size:82
Alignment explanation
Indices: 940627--940860 Score: 244
Period size: 81 Copynumber: 2.9 Consensus size: 82
940617 CTCTTGTATA
* * *
940627 TCCCATACAGCAATACCTCGTTCCTCAAC-TCTTCTTGTGTTTAACATACAGCCATACCTCCTTT
1 TCCCATACAGC-ATACCTCGTTTCTCAACTTCTTCTTGTGTTTAACATACAGCCAGACCCCCTTT
* *
940691 CTCAACTCTTCTCGTGTT
65 CTCAACTCTCCTCGCGTT
** *
940709 TCCCATACAGTCATACCTCGTTTCTCAACTTC-T-TTGTGTTTCCCATACAGCCAGCCCCCCTTT
1 TCCCATACAG-CATACCTCGTTTCTCAACTTCTTCTTGTGTTTAACATACAGCCAGACCCCCTTT
*
940772 CTCAACTCTCCTTGCGTT
65 CTCAACTCTCCTCGCGTT
* * ** * * * *
940790 TCCCATACAGCCAAACCTCCTTTCTCAAC-TCTTCTTAAGTTT-CCTATACAGCCATATCTCCTT
1 TCCCATACAG-CATACCTCGTTTCTCAACTTCTTCTTGTGTTTAAC-ATACAGCCAGACCCCCTT
940853 TCTCAACT
64 TCTCAACT
940861 TTTGTGTTTC
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
80 2 0.02
81 69 0.53
82 55 0.43
83 3 0.02
ACGTcount: A:0.20, C:0.36, G:0.08, T:0.36
Consensus pattern (82 bp):
TCCCATACAGCATACCTCGTTTCTCAACTTCTTCTTGTGTTTAACATACAGCCAGACCCCCTTTC
TCAACTCTCCTCGCGTT
Found at i:940855 original size:122 final size:119
Alignment explanation
Indices: 940650--941083 Score: 440
Period size: 122 Copynumber: 3.7 Consensus size: 119
940640 TACCTCGTTC
** ***
940650 CTCAACTCTTCTTGTGTTTAACATACAGCCATACCTCCTTTCTCAACTCTTCTCGTGTTTCCCAT
1 CTCAACTCTTCTTGTGTTTCCCATACAGCCATACCTCCTTTCTCAACTCTTCTTAAGTTTCCCAT
* **
940715 ACAGTCATACCTCGTTTCTCAACTTCTTTGTGTTTCCCATACAGCCAGCCCCCCTTT
66 ACAGCCATACCTCGTTTCTCAACTT-TTTGTGTTT-CCA-ACAGCCAAACCCCCTTT
* * * *
940772 CTCAACTCTCCTTGCGTTTCCCATACAGCCAAACCTCCTTTCTCAACTCTTCTTAAGTTTCCTAT
1 CTCAACTCTTCTTGTGTTTCCCATACAGCCATACCTCCTTTCTCAACTCTTCTTAAGTTTCCCAT
* * *
940837 ACAGCCATATCTCCTTTCTCAAC-TTTTGTGTTTCCAACAGCCAAACCTCCTTT
66 ACAGCCATACCTCGTTTCTCAACTTTTTGTGTTTCCAACAGCCAAACCCCCTTT
* * ** * * *
940890 CTGAACTCTTCTTGTG-GTCCC-TAGGGTCATACCTCCTTTCTCCATTCTTCTTAAGTTTCCCAC
1 CTCAACTCTTCTTGTGTTTCCCATACAGCCATACCTCCTTTCTCAACTCTTCTTAAGTTTCCCA-
* * *
940953 TACAGCCATACCTCGTTTCTCAACTCTTCTTGTG-TTCCTACAG-CAATATCTCCTCTT
65 TACAGCCATACCTCGTTTCTCAACT-TT-TTGTGTTTCCAACAGCCAA-ACCCCCT-TT
* * **
941010 -TCAACTCTTCTTGTG-TT-CC-TACAGCAATATCTCCTCTT-TCAACTCTTCTTGTGTTTCCCA
1 CTCAACTCTTCTTGTGTTTCCCATACAGCCATACCTCCT-TTCTCAACTCTTCTTAAGTTTCCCA
941070 TACAGTCC-TACCTC
65 TACAG-CCATACCTC
941084 CTTTTTATAA
Statistics
Matches: 263, Mismatches: 41, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
116 34 0.13
117 37 0.14
118 63 0.24
119 36 0.14
120 16 0.06
121 1 0.00
122 76 0.29
ACGTcount: A:0.18, C:0.35, G:0.09, T:0.38
Consensus pattern (119 bp):
CTCAACTCTTCTTGTGTTTCCCATACAGCCATACCTCCTTTCTCAACTCTTCTTAAGTTTCCCAT
ACAGCCATACCTCGTTTCTCAACTTTTTGTGTTTCCAACAGCCAAACCCCCTTT
Found at i:941014 original size:38 final size:38
Alignment explanation
Indices: 940972--941064 Score: 186
Period size: 38 Copynumber: 2.4 Consensus size: 38
940962 ACCTCGTTTC
940972 TCAACTCTTCTTGTGTTCCTACAGCAATATCTCCTCTT
1 TCAACTCTTCTTGTGTTCCTACAGCAATATCTCCTCTT
941010 TCAACTCTTCTTGTGTTCCTACAGCAATATCTCCTCTT
1 TCAACTCTTCTTGTGTTCCTACAGCAATATCTCCTCTT
941048 TCAACTCTTCTTGTGTT
1 TCAACTCTTCTTGTGTT
941065 TCCCATACAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.44
Consensus pattern (38 bp):
TCAACTCTTCTTGTGTTCCTACAGCAATATCTCCTCTT
Found at i:945782 original size:18 final size:18
Alignment explanation
Indices: 945759--945800 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
945749 AAGCACAGAG
945759 TACCCCGGTAATGACCTT
1 TACCCCGGTAATGACCTT
945777 TACCCCGGTAATGACCTT
1 TACCCCGGTAATGACCTT
945795 TACCCC
1 TACCCC
945801 TTACCTTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.26
Consensus pattern (18 bp):
TACCCCGGTAATGACCTT
Found at i:951346 original size:3 final size:3
Alignment explanation
Indices: 951340--951365 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
951330 CGGGGAAAAA
951340 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
951366 AAAGAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:954324 original size:21 final size:21
Alignment explanation
Indices: 954298--954353 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
954288 TGCTGTCCAG
* * *
954298 TGTTACACATCTGGCATCACT
1 TGTTACACACCTGACATCACC
*
954319 TTTTACACACCTGACATCACC
1 TGTTACACACCTGACATCACC
954340 TGTTACACACCTGA
1 TGTTACACACCTGA
954354 TCAAACTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (21 bp):
TGTTACACACCTGACATCACC
Found at i:955921 original size:2 final size:2
Alignment explanation
Indices: 955916--955941 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
955906 TTAACTAAAG
955916 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
955942 GGAAATAAAT
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:980260 original size:29 final size:30
Alignment explanation
Indices: 980218--980280 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
980208 CTTTTTGGTG
*
980218 AAATGGAAATGAAATGTTTTGTGAAGGTA-
1 AAATGGAAATGAAATATTTTGTGAAGGTAT
*
980247 AAATGGAAATGAAATATTTTGTGCAGGTAT
1 AAATGGAAATGAAATATTTTGTGAAGGTAT
980277 AAAT
1 AAAT
980281 ATTTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.32
Consensus pattern (30 bp):
AAATGGAAATGAAATATTTTGTGAAGGTAT
Found at i:988221 original size:14 final size:14
Alignment explanation
Indices: 988202--988229 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
988192 CAGTATCGTA
988202 GGAATCAATCTATC
1 GGAATCAATCTATC
988216 GGAATCAATCTATC
1 GGAATCAATCTATC
988230 AGTATCGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GGAATCAATCTATC
Found at i:988232 original size:37 final size:37
Alignment explanation
Indices: 988179--988254 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
988169 ATGCGTTGTA
*
988179 GGAATCAATCTTTCAGTATCGTAGGAATCAATCTATC
1 GGAATCAATCTATCAGTATCGTAGGAATCAATCTATC
*
988216 GGAATCAATCTATCAGTATCGTAGGAATCAATGTATC
1 GGAATCAATCTATCAGTATCGTAGGAATCAATCTATC
988253 GG
1 GG
988255 TATCGCAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (37 bp):
GGAATCAATCTATCAGTATCGTAGGAATCAATCTATC
Found at i:988243 original size:23 final size:23
Alignment explanation
Indices: 988216--989187 Score: 877
Period size: 23 Copynumber: 44.0 Consensus size: 23
988206 TCAATCTATC
*
988216 GGAATCAATCTATCAGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* * * *
988239 GGAATCAATGTATCGGTATCGCA
1 GGAATCAATCTATCAGTATTGTA
* * * *
988262 GGAATCAATGTATCGGTATCGCA
1 GGAATCAATCTATCAGTATTGTA
* * *
988285 GGAATCAATGTATCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988308 GGAATCAATCTATCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* * *
988331 GGAATCAATCTTTCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988354 GGAATCAATCTATCATTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988377 GGAATCAATCTATCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988400 GGAATCAATCTATCATTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988423 GGAATCAATCTATCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988446 GGAATCAATCTATCATTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* * *
988469 GGAGTCAATCTATCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
** * *
988492 ACAATCAATCTATCATTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* * *
988515 AGAATCAATCTATCGGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
*
988538 GGAATCAATCTATCAGTATTTTA
1 GGAATCAATCTATCAGTATTGTA
* * *
988561 GGCATCAATTTATCAGTATTTTA
1 GGAATCAATCTATCAGTATTGTA
* * *
988584 GGCATCAATTTATCAGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988607 GCAATCAATCTATCAGTATCGTATATA
1 GGAATCAATCTATCAGTA---T-TGTA
* *
988634 GGAATCAATGTATCAGTGTTGTA
1 GGAATCAATCTATCAGTATTGTA
988657 GG----AATCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988676 GGAATC-A---ATGAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988695 GGAATC-A---ATGAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
988714 GGAATCAATCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988737 GG----AATCTATCAGT-TTCCTA
1 GGAATCAATCTATCAGTATT-GTA
* *
988756 AGAATCAGTCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
* *
988779 GGAATCAGTCTATGAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988802 GGAATC-A---ATGAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
988821 GGAATCAATCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
* * * *
988844 GGAATCTATCAATCTGTAATGT-
1 GGAATCAATCTATCAGTATTGTA
* *
988866 ---ATGAATCTATCAGT-TTCCTA
1 GGAATCAATCTATCAGTATT-GTA
* *
988886 AGAATCAATCAATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988909 GGAATCAGTCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988932 GGAATC-A---ATGAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
988951 GGAATCAATCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988974 GGAATCTATCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
988997 GG----AATCTATCAGT-TTCCTA
1 GGAATCAATCTATCAGTATT-GTA
* *
989016 AGAATCAGTCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
989039 GGAATCAGTCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
*
989062 GGAATC-A---ATGAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
989081 GGAATCAATCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
989104 GGAAT-ATATCTATCAGTATTGTA
1 GGAATCA-ATCTATCAGTATTGTA
*
989127 GG----AATCTATCAGTATCGTA
1 GGAATCAATCTATCAGTATTGTA
*
989146 GGAATCAGTCTATCAGTATTGTA
1 GGAATCAATCTATCAGTATTGTA
989169 GGAA--AATCTATCAGT-TTGT
1 GGAATCAATCTATCAGTATTGT
989188 TTTCTTTTAT
Statistics
Matches: 812, Mismatches: 90, Indels: 97
0.81 0.09 0.10
Matches are distributed among these distances:
18 5 0.01
19 160 0.20
20 9 0.01
21 10 0.01
22 2 0.00
23 601 0.74
24 7 0.01
26 1 0.00
27 17 0.02
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (23 bp):
GGAATCAATCTATCAGTATTGTA
Found at i:988800 original size:65 final size:65
Alignment explanation
Indices: 988174--989187 Score: 773
Period size: 65 Copynumber: 15.4 Consensus size: 65
988164 CCTTGATGCG
* * * * *
988174 TTGTAGGAATCAATCTTTCAGTATCGTAGGAATCAATC--TATC---GGAATCAATCTATCAGTA
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGTTTCGTAGGAATCAATCTATCAGTA
* * * * * * * * * *
988234 TCGTAGGAATCAATGTATCGGTATCGCAGGAATCAATGTATCGGTATCGCAGGAATCAATGTATC
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATC----TATCAGTTTCGTAGGAATCAATCTATC
*
988299 GGTA
62 AGTA
* * * * * * *
988303 TCGTAGGAATCAATCTATCGGTATCGTAGGAATCAATCTTTCGGTATCGTAGGAATCAATCTATC
1 TTGTAGGAATCAGTCTATCAGTATTGTAGG----AATCTATCAGTTTCGTAGGAATCAATCTATC
*
988368 ATTA
62 AGTA
* * * *
988372 TCGTAGGAATCAATCTATCGGTATCGTAGGAATCAATCTATCA-TTATCGTAGGAATCAATCTAT
1 TTGTAGGAATCAGTCTATCAGTATTGTAGG----AATCTATCAGTT-TCGTAGGAATCAATCTAT
*
988436 CGGTA
61 CAGTA
* * * * * * **
988441 TCGTAGGAATCAATCTATCATTATCGTAGGAGTCAATCTATCGGTATCGTAACAATCAATCTATC
1 TTGTAGGAATCAGTCTATCAGTATTGTA-G-G--AATCTATCAGTTTCGTAGGAATCAATCTATC
*
988506 ATTA
62 AGTA
* * * * * * * *
988510 TCGTAAGAATCAATCTATCGGTATCGTAGGAATCAATCTATCAGTATT-TTAGGCATCAATTTAT
1 TTGTAGGAATCAGTCTATCAGTATTGTAGG----AATCTATCAGT-TTCGTAGGAATCAATCTAT
988574 CAGTA
61 CAGTA
* * * * * * * *
988579 TTTTAGGCATCAATTTATCAGTATCGTAGCAATCAATCTATCAGTATCGTATATAGGAATCAATG
1 TTGTAGGAATCAGTCTATCAGTATTGTAG----GAATCTATCAGTTTCG----TAGGAATCAATC
*
988644 TATCAGTG
58 TATCAGTA
* * *
988652 TTGTAGG-A--A-TCTATCAGTATTGTAGGAATCAATGAGTATT-GTAGGAATC-A---ATGAGT
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGT-TTCGTAGGAATCAATCTATCAGT
988708 A
65 A
* * * *
988709 TTGTAGGAATCAATCTATCAGTATTGTAGGAATCTATCAGTTTCCTAAGAATCAGTCTATCAGTA
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGTTTCGTAGGAATCAATCTATCAGTA
* * *
988774 TTGTAGGAATCAGTCTATGAGTATTGTAGGAATCAATGAGTATT-GTAGGAATCAATCTATCAGT
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGT-TTCGTAGGAATCAATCTATCAGT
988838 A
65 A
* * * * * * *
988839 TTGTAGGAATCTA-TCAATCTGTAATGTATGAATCTATCAGTTTCCTAAGAATCAATCAATCAGT
1 TTGTAGGAATC-AGTCTATCAGTATTGTAGGAATCTATCAGTTTCGTAGGAATCAATCTATCAGT
988903 A
65 A
* *
988904 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATT-GTAGGAATCAATCTATCAGT
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGT-TTCGTAGGAATCAATCTATCAGT
988968 A
65 A
* * *
988969 TTGTAGGAATCTA-TCTATCAGTATTGTAGGAATCTATCAGTTTCCTAAGAATCAGTCTATCAGT
1 TTGTAGGAATC-AGTCTATCAGTATTGTAGGAATCTATCAGTTTCGTAGGAATCAATCTATCAGT
989033 A
65 A
* *
989034 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATT-GTAGGAATCAATCTATCAGT
1 TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGT-TTCGTAGGAATCAATCTATCAGT
989098 A
65 A
* * *
989099 TTGTAGGAAT-ATATCTATCAGTATTGTAGGAATCTATCAGTATCGTAGGAATCAGTCTATCAGT
1 TTGTAGGAATCA-GTCTATCAGTATTGTAGGAATCTATCAGTTTCGTAGGAATCAATCTATCAGT
989163 A
65 A
*
989164 TTGTAGGAA--AATCTATCAGT-TTGT
1 TTGTAGGAATCAGTCTATCAGTATTGT
989188 TTTCTTTTAT
Statistics
Matches: 797, Mismatches: 107, Indels: 98
0.80 0.11 0.10
Matches are distributed among these distances:
57 12 0.02
58 1 0.00
60 33 0.04
61 41 0.05
62 4 0.01
63 10 0.01
64 12 0.02
65 347 0.44
66 13 0.02
67 1 0.00
68 3 0.00
69 287 0.36
70 4 0.01
71 1 0.00
72 1 0.00
73 27 0.03
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (65 bp):
TTGTAGGAATCAGTCTATCAGTATTGTAGGAATCTATCAGTTTCGTAGGAATCAATCTATCAGTA
Found at i:988907 original size:130 final size:130
Alignment explanation
Indices: 988217--989187 Score: 949
Period size: 130 Copynumber: 7.3 Consensus size: 130
988207 CAATCTATCG
* * * * * * * *
988217 GAATCAATCTATCAGTATCGTAGGAATCAATGTATCGGTATCGCAGGAATCAATGTATCGGTATC
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATG-A---GTATT
* * * * * * * * *
988282 GCAGGAATCAATGTATCGGTATCGTAGGAATCAATCTATCGGTATCGTAGGAATCAATCTTTCGG
62 GTAGGAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGG----AATCTATCAG
* * *
988347 TATCGTAG
123 TTTCCTAA
* * * * * * *
988355 GAATCAATCTATCATTATCGTAGGAATCAATCTATCGGTATCGTAGGAATCAATCTA-TCATTAT
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAAT-GAGT-A-T-T
* * * * * *
988419 CGTAGGAATCAATCTATCGGTATCGTAGGAATCAATCTATCATTATCGTAGGAGTCAATCTATCG
62 -GTAGGAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTA-G-G--AATCTATCA
* *
988484 GTATCGTAA
122 GTTTCCTAA
* * * * * * * * *
988493 CAATCAATCTATCATTATCGTAAGAATCAATCTATCGGTATCGTAGGAATCAATCTATCAGTATT
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATC-A---ATGAGTATT
* * * * * * * * *
988558 TTAGGCATCAATTTATCAGTATTTTAGGCATCAATTTATCAGTATCGTAGCAATCAATCTATCAG
62 GTAGGAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAG----GAATCTATCAG
* *
988623 TATCGTATATA
123 TTTC--CTA-A
* * *
988634 GGAATCAATGTATCAGTGTTGTAGG-A--A-TCTATCAGTATTGTAGGAATCAATGAGTATTGTA
1 -GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTA
* *
988695 GGAATC-A---ATGAGTATTGTAGGAATCAATCTATCAGTATTGTAGGAATCTATCAGTTTCCTA
65 GGAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGGAATCTATCAGTTTCCTA
988756 A
130 A
*
988757 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATGAGTATTGTAGGAATCAATGAGTATTGTAG
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTAG
* * * *
988822 GAATCAATCTATCAGTATTGTAGGAATCTATCAATCTGTAATGTATGAATCTATCAGTTTCCTAA
66 GAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGGAATCTATCAGTTTCCTAA
* *
988887 GAATCAATCAATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTAG
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTAG
988952 GAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGGAATCTATCAGTTTCCTAA
66 GAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGGAATCTATCAGTTTCCTAA
989017 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTAG
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTAG
* * * *
989082 GAATCAATCTATCAGTATTGTAGGAATATATCTATCAGTATTGTAGGAATCTATCAGTATCGTAG
66 GAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGGAATCTATCAGTTTCCTAA
*
989147 GAATCAGTCTATCAGTATTGTAGGAA--AATCTATCAGT-TTGT
1 GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGT
989188 TTTCTTTTAT
Statistics
Matches: 736, Mismatches: 70, Indels: 65
0.85 0.08 0.07
Matches are distributed among these distances:
122 21 0.03
123 2 0.00
124 2 0.00
125 1 0.00
126 52 0.07
127 5 0.01
128 10 0.01
130 353 0.48
133 1 0.00
134 16 0.02
135 1 0.00
136 1 0.00
137 2 0.00
138 236 0.32
139 4 0.01
140 4 0.01
141 4 0.01
142 21 0.03
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (130 bp):
GAATCAGTCTATCAGTATTGTAGGAATCAGTCTATCAGTATTGTAGGAATCAATGAGTATTGTAG
GAATCAATCTATCAGTATTGTAGGAATCTATCTATCAGTATTGTAGGAATCTATCAGTTTCCTAA
Found at i:995735 original size:2 final size:2
Alignment explanation
Indices: 995728--995771 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
995718 CTGAAAAGCG
995728 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
995770 GA
1 GA
995772 TGTATCAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1001348 original size:32 final size:32
Alignment explanation
Indices: 1001312--1001414 Score: 109
Period size: 32 Copynumber: 3.2 Consensus size: 32
1001302 AACTCTAGTA
** *
1001312 TATCTCAGCTCAAATTTTTAATAAAGCTTTGG
1 TATCTCAGCTCAAAAATTTAATAAAGCTTTAG
* * *
1001344 TATCTCAGCTAAAACAATTCAATAAA-CTTTAA
1 TATCTCAGCTCAAA-AATTTAATAAAGCTTTAG
* * *
1001376 TATCTCAGCTCAAACATTTCATAAAGCTCTAG
1 TATCTCAGCTCAAAAATTTAATAAAGCTTTAG
1001408 TATCTCA
1 TATCTCA
1001415 TGTCAAACAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
31 8 0.14
32 41 0.72
33 8 0.14
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (32 bp):
TATCTCAGCTCAAAAATTTAATAAAGCTTTAG
Found at i:1001421 original size:32 final size:31
Alignment explanation
Indices: 1001376--1002195 Score: 867
Period size: 32 Copynumber: 25.6 Consensus size: 31
1001366 TAAACTTTAA
* **
1001376 TATCTCAGCTCAAACATTTCATAAAGCTCTAG
1 TATCTCATCTCAAACATTTCATGGAGCT-TAG
* * * * *
1001408 TATCTCATGTCAAACATTTTAAGGAACTCTAA
1 TATCTCATCTCAAACATTTCATGGAGCT-TAG
* * * * *
1001440 TACCTAAGCTAAAAAATTTCATGGAGCTCTAG
1 TATCTCATCTCAAACATTTCATGGAGCT-TAG
* *
1001472 TATCTCATCTCAAAC-TTTACAGGGAGCTTTGG
1 TATCTCATCTCAAACATTT-CATGGAGC-TTAG
* *
1001504 TATCTCATCTCAAACATTACATGGAGCTTTG
1 TATCTCATCTCAAACATTTCATGGAGCTTAG
* *
1001535 ATATCTCATCTCAAAC-TTTACAGGGAGCTTTGG
1 -TATCTCATCTCAAACATTT-CATGGAGC-TTAG
* *
1001568 TATCTCATTTCAAACATTACATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
* *
1001600 TATCTCATCTCAAACATTACATGGAGCTTTG
1 TATCTCATCTCAAACATTTCATGGAGCTTAG
* * *
1001631 ATATCTTATCTCAAAC-TTTACAGGGAGCTTCGG
1 -TATCTCATCTCAAACATTT-CATGGAGCTT-AG
* *
1001664 TATCTCATTTCAAACATTACATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
* *
1001696 TATCCCATCTCAAACATTACATGGAGCTCTAG
1 TATCTCATCTCAAACATTTCATGGAGCT-TAG
1001728 TATCTCATCTCAAACATTTCATGGAGCCCTT-G
1 TATCTCATCTCAAACATTTCATGGAG--CTTAG
* *
1001760 TATCTCATCTCAAACATTACATGGAGCTCTAA
1 TATCTCATCTCAAACATTTCATGGAGCT-TAG
* * * * * * *
1001792 TACCTAAGCTGAAACACTTAATGGAGTTCTAG
1 TATCTCATCTCAAACATTTCATGGAGCT-TAG
*
1001824 TATCTCATCTCAAAGATTTCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
* *
1001856 TATCTCATCTTAAACATTTCACGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
*
1001888 TATCTCAGCTCAAACATTTCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
1001920 TATCTCATCTCAAAACATTTCATGGAGCCCTT-G
1 TATCTCATCTC-AAACATTTCATGGAG--CTTAG
*
1001953 TATCTCATCTCAAACATTACATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
* * *
1001985 TTTCTCATCTTAAACATTTCACGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
1002017 TATCTCATCTCAAACATTTCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
*
1002049 TATCTCAGCTCAAACATTTCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
1002081 TATCTCATCTCAAACATTTCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
* *
1002113 TATCTCATCTCAAATATTGCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
*
1002145 TACCTCATCTCAAACATTTCATGGAGCTTCAG
1 TATCTCATCTCAAACATTTCATGGAGCTT-AG
1002177 TATCTCATCTCAAACATTT
1 TATCTCATCTCAAACATTT
1002196 AAAGGATCTA
Statistics
Matches: 673, Mismatches: 92, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.01
31 15 0.02
32 608 0.90
33 40 0.06
34 2 0.00
35 3 0.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (31 bp):
TATCTCATCTCAAACATTTCATGGAGCTTAG
Found at i:1001423 original size:64 final size:64
Alignment explanation
Indices: 1001301--1001486 Score: 176
Period size: 64 Copynumber: 2.9 Consensus size: 64
1001291 ACAAATCATA
** * * * *
1001301 AAACTCTAGTATATCTCAGCTCAAATTTTTAATAAAGCTTTGGTATCTCA-GCTAAAACAATTCA
1 AAACTCTA--ATATCTCAGCTCAAAAATTTCATAAAGCTCTAGTATCTCATG-TCAAACAATTCA
*
1001365 AT
63 AG
* * * *
1001367 AAACTTTAATATCTCAGCTCAAACATTTCATAAAGCTCTAGTATCTCATGTCAAACATTTTAAG
1 AAACTCTAATATCTCAGCTCAAAAATTTCATAAAGCTCTAGTATCTCATGTCAAACAATTCAAG
* * * * ** *
1001431 GAACTCTAATACCTAAGCTAAAAAATTTCATGGAGCTCTAGTATCTCATCTCAAAC
1 AAACTCTAATATCTCAGCTCAAAAATTTCATAAAGCTCTAGTATCTCATGTCAAAC
1001487 TTTACAGGGA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
64 92 0.92
65 1 0.01
66 7 0.07
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (64 bp):
AAACTCTAATATCTCAGCTCAAAAATTTCATAAAGCTCTAGTATCTCATGTCAAACAATTCAAG
Found at i:1011132 original size:167 final size:167
Alignment explanation
Indices: 1010809--1011199 Score: 467
Period size: 167 Copynumber: 2.4 Consensus size: 167
1010799 AAATGAACAT
** * * * * * *
1010809 AAACTGCAAATATTTGGAATTTTTCTAAGTCCAAGGGGCATTACTCTGTTGAAAATTGCTCTATC
1 AAACTGCAAATAACTGGAATTGTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGA-C
* * * * * * *
1010874 T-TACCCAAAATCGAACTTG----A-CC--TAGATATTATCAGGATTAACCTGTATACCATATTT
65 TGTACCCAATA-CAAATTTGACCTACCCAGTAGATATTATCAAGATAAACCTGTATACAAAATTT
* *
1010931 CATCTCAATATCTTTATCCTCTGCGAAAAAAATGAGCGG
129 CATCTCAATATCTTCATCCTCTACGAAAAAAATGAGCGG
*
1010970 TAACTGCAAATAACTGGAATTGTTCTAC-TCCCAAGGGCCATAACTCTGTCGAAAATTGCTCGAC
1 AAACTGCAAATAACTGGAATTGTTCTACGT-CCAAGGGCCATAACTCTGTCGAAAATTGCTCGAC
1011034 TGTACCCAATACAAATTTGACCTACCCAGTAGATATTATCAAGATAAACCTGTATACAAAATTTC
65 TGTACCCAATACAAATTTGACCTACCCAGTAGATATTATCAAGATAAACCTGTATACAAAATTTC
* * * * *
1011099 ATTTCAATATGTTCATCCTCTATGAAGAAAATGAGTGG
130 ATCTCAATATCTTCATCCTCTACGAAAAAAATGAGCGG
* *
1011137 AAACTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAGATTGCTCGA
1 AAACTGCAAATAACTGGAATTGTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGA
1011200 TTGCTTGACC
Statistics
Matches: 194, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
160 9 0.05
161 60 0.31
164 1 0.01
165 2 0.01
167 121 0.62
168 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (167 bp):
AAACTGCAAATAACTGGAATTGTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGACT
GTACCCAATACAAATTTGACCTACCCAGTAGATATTATCAAGATAAACCTGTATACAAAATTTCA
TCTCAATATCTTCATCCTCTACGAAAAAAATGAGCGG
Found at i:1011326 original size:144 final size:145
Alignment explanation
Indices: 1011063--1011346 Score: 435
Period size: 144 Copynumber: 2.0 Consensus size: 145
1011053 ACCTACCCAG
* * *
1011063 TAGATATTATCAAGATAAACCTGTATACAAAATTTCATTTCAATATGTTCATCCTCTATGAAGAA
1 TAGATATTATCAAGATAAACCTGTATAC--AATTTCATTTCAATAGGTTCACCCTCTACGAAGAA
* * *
1011128 AATGAGTGGAAACTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAGAT
64 AATGAGCGGAAACAGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAAT
1011193 TGCTCGATTGCTTGACC
129 TGCTCGATTGCTTGACC
* * * * *
1011210 TAGATATTATCATGATAAATCTGTATAC-CTTTCATTTCAATAGGTTCACCCTTTGCGAAGAAAA
1 TAGATATTATCAAGATAAACCTGTATACAATTTCATTTCAATAGGTTCACCCTCTACGAAGAAAA
*
1011274 TGAGCGGAAACAGCAAATAACTTGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTG
66 TGAGCGGAAACAGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTG
1011339 CTCGATTG
131 CTCGATTG
1011347 TACCCAATAT
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
144 99 0.79
147 26 0.21
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (145 bp):
TAGATATTATCAAGATAAACCTGTATACAATTTCATTTCAATAGGTTCACCCTCTACGAAGAAAA
TGAGCGGAAACAGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTG
CTCGATTGCTTGACC
Found at i:1026159 original size:18 final size:18
Alignment explanation
Indices: 1026132--1026254 Score: 151
Period size: 18 Copynumber: 6.9 Consensus size: 18
1026122 GACAGTGAGG
*
1026132 GAGG-TGAACAGAACACC
1 GAGGTTGAACAGAACACA
* *
1026149 GAGGTTGAACAGACCAGA
1 GAGGTTGAACAGAACACA
1026167 GAGGTTGAACAGAACACCA
1 GAGGTTGAACAGAACA-CA
* *
1026186 -AGGTTGAACAGACCAGA
1 GAGGTTGAACAGAACACA
*
1026203 GAGGTTGAACAGAACACC
1 GAGGTTGAACAGAACACA
* *
1026221 GAGGTTGAACAGACCAGA
1 GAGGTTGAACAGAACACA
1026239 GAGGTTGAACAGAACA
1 GAGGTTGAACAGAACA
1026255 TAGAAACGGA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
17 5 0.06
18 83 0.93
19 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.30, T:0.11
Consensus pattern (18 bp):
GAGGTTGAACAGAACACA
Found at i:1026176 original size:36 final size:36
Alignment explanation
Indices: 1026132--1026254 Score: 230
Period size: 36 Copynumber: 3.4 Consensus size: 36
1026122 GACAGTGAGG
1026132 GAGG-TGAACAGAACACCGAGGTTGAACAGACCAGA
1 GAGGTTGAACAGAACACCGAGGTTGAACAGACCAGA
*
1026167 GAGGTTGAACAGAACACCAAGGTTGAACAGACCAGA
1 GAGGTTGAACAGAACACCGAGGTTGAACAGACCAGA
1026203 GAGGTTGAACAGAACACCGAGGTTGAACAGACCAGA
1 GAGGTTGAACAGAACACCGAGGTTGAACAGACCAGA
1026239 GAGGTTGAACAGAACA
1 GAGGTTGAACAGAACA
1026255 TAGAAACGGA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
35 4 0.05
36 81 0.95
ACGTcount: A:0.41, C:0.19, G:0.30, T:0.11
Consensus pattern (36 bp):
GAGGTTGAACAGAACACCGAGGTTGAACAGACCAGA
Found at i:1029946 original size:18 final size:17
Alignment explanation
Indices: 1029904--1029951 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
1029894 CTAACAATTT
* *
1029904 ACAAAACAAGAAAACCA
1 ACAAAACAACAAAACAA
*
1029921 ATAAAACAACAACAACAA
1 ACAAAACAACAA-AACAA
1029939 ACAAAACAACAAA
1 ACAAAACAACAAA
1029952 GTCTAGCTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.73, C:0.23, G:0.02, T:0.02
Consensus pattern (17 bp):
ACAAAACAACAAAACAA
Found at i:1030574 original size:17 final size:17
Alignment explanation
Indices: 1030551--1030656 Score: 158
Period size: 17 Copynumber: 6.0 Consensus size: 17
1030541 TTTTATTCGA
1030551 ACACGCTAACACTGCCC
1 ACACGCTAACACTGCCC
*
1030568 GCACGCTAACACTGCCC
1 ACACGCTAACACTGCCC
1030585 ACACGCTAACACTGCCTGCCC
1 ACACGCTAACA----CTGCCC
1030606 ACACGCTAACACTGCCC
1 ACACGCTAACACTGCCC
*
1030623 ACACGCTGACACTGCCC
1 ACACGCTAACACTGCCC
1030640 ACACGCTAACACTGCCC
1 ACACGCTAACACTGCCC
1030657 GCATTGTTTG
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
17 64 0.79
21 17 0.21
ACGTcount: A:0.26, C:0.47, G:0.14, T:0.12
Consensus pattern (17 bp):
ACACGCTAACACTGCCC
Found at i:1030635 original size:55 final size:55
Alignment explanation
Indices: 1030551--1030655 Score: 192
Period size: 55 Copynumber: 1.9 Consensus size: 55
1030541 TTTTATTCGA
*
1030551 ACACGCTAACACTGCCCGCACGCTAACACTGCCCACACGCTAACACTGCCTGCCC
1 ACACGCTAACACTGCCCACACGCTAACACTGCCCACACGCTAACACTGCCTGCCC
*
1030606 ACACGCTAACACTGCCCACACGCTGACACTGCCCACACGCTAACACTGCC
1 ACACGCTAACACTGCCCACACGCTAACACTGCCCACACGCTAACACTGCC
1030656 CGCATTGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.47, G:0.14, T:0.12
Consensus pattern (55 bp):
ACACGCTAACACTGCCCACACGCTAACACTGCCCACACGCTAACACTGCCTGCCC
Found at i:1030843 original size:15 final size:15
Alignment explanation
Indices: 1030823--1030866 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
1030813 GGGGACAAAA
*
1030823 TGATGTCATAATGGT
1 TGATGTCATAATAGT
1030838 TGATGTCATAATAGT
1 TGATGTCATAATAGT
1030853 TGATGTCATAATAG
1 TGATGTCATAATAG
1030867 CGAAAGACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (15 bp):
TGATGTCATAATAGT
Found at i:1031234 original size:43 final size:44
Alignment explanation
Indices: 1031173--1031389 Score: 257
Period size: 43 Copynumber: 4.9 Consensus size: 44
1031163 TTTGAGGTAT
1031173 TTTCTGATATCAGAAAATGATTTTTTGATATCAAG-AATTCGAA
1 TTTCTGATATCAGAAAATGATTTTTTGATATCAAGAAATTCGAA
*
1031216 TTTCTGATATCAGGAAATGATTTTTTGATATC-AGAAATTCGAA
1 TTTCTGATATCAGAAAATGATTTTTTGATATCAAGAAATTCGAA
* *
1031259 -TTCTTGATATCAGAAAATACGATCCATTTTCTGATATCAA-AAAATCGAT
1 TTTC-TGATATCAGAAAAT--GAT---TTTT-TGATATCAAGAAATTCGAA
* * * *
1031308 TTTCTGATATCAAAAAATCATTTTCTGATATC-AGAAATTCGAT
1 TTTCTGATATCAGAAAATGATTTTTTGATATCAAGAAATTCGAA
*
1031351 TTTTTGATATCAGAAAATGATTTTTTGATATC-AGAAATT
1 TTTCTGATATCAGAAAATGATTTTTTGATATCAAGAAATT
1031390 GAAACTGATT
Statistics
Matches: 151, Mismatches: 12, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
42 6 0.04
43 102 0.68
44 3 0.02
45 3 0.02
47 2 0.01
48 4 0.03
49 27 0.18
50 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (44 bp):
TTTCTGATATCAGAAAATGATTTTTTGATATCAAGAAATTCGAA
Found at i:1031331 original size:92 final size:92
Alignment explanation
Indices: 1031192--1031368 Score: 264
Period size: 92 Copynumber: 1.9 Consensus size: 92
1031182 TCAGAAAATG
* * * ** * *
1031192 ATTTTTTGATATCAAGAATTCGAATTTCTGATATCAGGAAATGATTTTTTGATATCAGAAATTCG
1 ATTTTCTGATATCAAAAAATCGAATTTCTGATATCAAAAAATCATTTTCTGATATCAGAAATTCG
1031257 AATTCTTGATATCAGAAAATACGATCC
66 AATTCTTGATATCAGAAAATACGATCC
*
1031284 ATTTTCTGATATCAAAAAATCGATTTTCTGATATCAAAAAATCATTTTCTGATATCAGAAATTCG
1 ATTTTCTGATATCAAAAAATCGAATTTCTGATATCAAAAAATCATTTTCTGATATCAGAAATTCG
* *
1031349 ATTTTTTGATATCAGAAAAT
66 AATTCTTGATATCAGAAAAT
1031369 GATTTTTTGA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (92 bp):
ATTTTCTGATATCAAAAAATCGAATTTCTGATATCAAAAAATCATTTTCTGATATCAGAAATTCG
AATTCTTGATATCAGAAAATACGATCC
Found at i:1031429 original size:49 final size:43
Alignment explanation
Indices: 1031171--1031439 Score: 254
Period size: 43 Copynumber: 6.0 Consensus size: 43
1031161 TTTTTGAGGT
* *
1031171 ATTTTCTGATATCAGAAAATGATTTTTTGATATCA-AGAATTCG
1 ATTTTTTGATATCAGAAAATGATTTTCTGATATCAGA-AATTCG
* * * *
1031214 AATTTCTGATATCAGGAAATGATTTTTTGATATCAGAAATTCG
1 ATTTTTTGATATCAGAAAATGATTTTCTGATATCAGAAATTCG
* * * *
1031257 AATTCTTGATATCAGAAAATACGATCCATTTTCTGATATCAAAAAATCG
1 ATTTTTTGATATCAGAAAAT--G----ATTTTCTGATATCAGAAATTCG
* * *
1031306 ATTTTCTGATATCAAAAAATCATTTTCTGATATCAGAAATTCG
1 ATTTTTTGATATCAGAAAATGATTTTCTGATATCAGAAATTCG
*
1031349 ATTTTTTGATATCAGAAAATGATTTTTTGATATCAGAAATTGAAACTG
1 ATTTTTTGATATCAGAAAATGATTTTCTGATATCAGAAATT----C-G
* *
1031397 ATTTTTTTATATCAAGAATTAT-ATTTTCTGATATCAGAAATTC
1 ATTTTTTGATATC-AGAA-AATGATTTTCTGATATCAGAAATTC
1031440 AAAGAAAATG
Statistics
Matches: 190, Mismatches: 22, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
43 113 0.59
44 1 0.01
45 2 0.01
47 1 0.01
48 13 0.07
49 58 0.31
50 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (43 bp):
ATTTTTTGATATCAGAAAATGATTTTCTGATATCAGAAATTCG
Found at i:1031891 original size:22 final size:22
Alignment explanation
Indices: 1031863--1032191 Score: 176
Period size: 22 Copynumber: 14.8 Consensus size: 22
1031853 TGTAAGTCTT
1031863 ATTTTCTGATATCAAAAAATAG
1 ATTTTCTGATATCAAAAAATAG
*
1031885 ATTTTCTGATATCAGAAAATGTAAATG
1 ATTTTCTGATATCA-AAAA---ATA-G
* *
1031912 ATTTTTTGATATCAAAATAT-G
1 ATTTTCTGATATCAAAAAATAG
* * * *
1031933 ATTTTGTGATATCAAGAATTCG
1 ATTTTCTGATATCAAAAAATAG
*
1031955 ATTTTTTGATATCAAAAAAT-G
1 ATTTTCTGATATCAAAAAATAG
* *
1031976 ATTTTCTGATATCAAGAATTCA-
1 ATTTTCTGATATCAAAAAAT-AG
*
1031998 ATTTTTTGATA-CAAAAAAATCA-
1 ATTTTCTGATATC-AAAAAAT-AG
**
1032020 ACTTTAATTCTTGATATCAAAAAATCTT
1 A--TT--TTC-TGATATCAAAAAAT-AG
* * * *
1032048 TTTTTGTGATATCAGAAAAT-C
1 ATTTTCTGATATCAAAAAATAG
* * * *
1032069 ATTTTTTGATATCAAGAATTCG
1 ATTTTCTGATATCAAAAAATAG
* **
1032091 AATTGGTGATATCAAAAAAT-G
1 ATTTTCTGATATCAAAAAATAG
*
1032112 ATTTTCTGATATCACAAAATAG
1 ATTTTCTGATATCAAAAAATAG
* * *
1032134 ATTTTTTGATATCAAGAATTA-
1 ATTTTCTGATATCAAAAAATAG
* * *
1032155 ATTTT-TGATATCAAGAATTAT
1 ATTTTCTGATATCAAAAAATAG
1032176 A-TTT-TGATATCAAAAA
1 ATTTTCTGATATCAAAAA
1032192 TTCGAATTAT
Statistics
Matches: 245, Mismatches: 43, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
20 29 0.12
21 74 0.30
22 83 0.34
23 18 0.07
24 4 0.02
26 9 0.04
27 27 0.11
28 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
ATTTTCTGATATCAAAAAATAG
Found at i:1031959 original size:43 final size:43
Alignment explanation
Indices: 1031863--1032236 Score: 287
Period size: 43 Copynumber: 8.5 Consensus size: 43
1031853 TGTAAGTCTT
* * *
1031863 ATTTTCTGATATCAAAAAATAGATTTTCTGATATCAGAAAATGTAAATG
1 ATTTTTTGATATCAAAAAAT-GATTTTCTGATATCA-AGAAT-T---CG
* *
1031912 ATTTTTTGATATCAAAATATGATTTTGTGATATCAAGAATTCG
1 ATTTTTTGATATCAAAAAATGATTTTCTGATATCAAGAATTCG
*
1031955 ATTTTTTGATATCAAAAAATGATTTTCTGATATCAAGAATTCA
1 ATTTTTTGATATCAAAAAATGATTTTCTGATATCAAGAATTCG
* * * *
1031998 ATTTTTTGATA-CAAAAAAATCAACTTTAATTCTTGATATCAAAAAATCT
1 ATTTTTTGATATC-AAAAAAT-GA--TT--TTC-TGATATCAAGAATTCG
* * * *
1032047 TTTTTTGTGATATCAGAAAATCATTTTTTGATATCAAGAATTCG
1 ATTTTT-TGATATCAAAAAATGATTTTCTGATATCAAGAATTCG
* ** * *
1032091 AATTGGTGATATCAAAAAATGATTTTCTGATATCACA-AAATAG
1 ATTTTTTGATATCAAAAAATGATTTTCTGATATCA-AGAATTCG
* * *
1032134 ATTTTTTGATATCAAGAATTAATTTT-TGATATCAAGAATT--
1 ATTTTTTGATATCAAAAAATGATTTTCTGATATCAAGAATTCG
* * * *
1032174 ATATTTTGATATCAAAAATTCGAATTAT-TGATATCAA-ATATT-T
1 ATTTTTTGATATCAAAAAAT-G-ATTTTCTGATATCAAGA-ATTCG
*
1032217 ATTTTTTGATATCAGAAAAT
1 ATTTTTTGATATCAAAAAAT
1032237 ACCTCAAAAA
Statistics
Matches: 268, Mismatches: 42, Indels: 36
0.77 0.12 0.10
Matches are distributed among these distances:
40 18 0.07
41 2 0.01
42 28 0.10
43 126 0.47
44 17 0.06
45 2 0.01
46 3 0.01
47 6 0.02
48 17 0.06
49 37 0.14
50 11 0.04
51 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (43 bp):
ATTTTTTGATATCAAAAAATGATTTTCTGATATCAAGAATTCG
Found at i:1032058 original size:23 final size:21
Alignment explanation
Indices: 1031907--1032236 Score: 207
Period size: 21 Copynumber: 15.2 Consensus size: 21
1031897 CAGAAAATGT
*
1031907 AAATGATTTTTTGATATCAAA
1 AAATCATTTTTTGATATCAAA
* * * *
1031928 ATATGATTTTGTGATATCAAG
1 AAATCATTTTTTGATATCAAA
*
1031949 AATTCGATTTTTTGATATCAAA
1 AAATC-ATTTTTTGATATCAAA
* * *
1031971 AAATGATTTTCTGATATCAAG
1 AAATCATTTTTTGATATCAAA
*
1031992 AATTCAATTTTTTGATA-CAAAA
1 AAATC-ATTTTTTGATATC-AAA
1032014 AAATCAACTTTAATTCTTGATATCAAA
1 AAATC-A--TT--TT-TTGATATCAAA
* *
1032041 AAATCTTTTTTTGTGATATCAGA
1 AAATC-ATTTTT-TGATATCAAA
*
1032064 AAATCATTTTTTGATATCAAG
1 AAATCATTTTTTGATATCAAA
* * **
1032085 AATTCGAATTGGTGATATCAAA
1 AAATC-ATTTTTTGATATCAAA
* * *
1032107 AAATGATTTTCTGATATCACA
1 AAATCATTTTTTGATATCAAA
*
1032128 AAATAGATTTTTTGATATC-AA
1 AAAT-CATTTTTTGATATCAAA
* * *
1032149 GAATTAATTTTTGATATC-AA
1 AAATCATTTTTTGATATCAAA
* * *
1032169 GAATTATATTTTGATATCAAA
1 AAATCATTTTTTGATATCAAA
* * *
1032190 AATTCGAATTATTGATATCAAA
1 AAATC-ATTTTTTGATATCAAA
* * * *
1032212 TATTTATTTTTTGATATCAGA
1 AAATCATTTTTTGATATCAAA
1032233 AAAT
1 AAAT
1032237 ACCTCAAAAA
Statistics
Matches: 241, Mismatches: 54, Indels: 28
0.75 0.17 0.09
Matches are distributed among these distances:
20 30 0.12
21 89 0.37
22 85 0.35
23 16 0.07
24 2 0.01
25 2 0.01
26 2 0.01
27 14 0.06
28 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (21 bp):
AAATCATTTTTTGATATCAAA
Found at i:1032207 original size:22 final size:21
Alignment explanation
Indices: 1031914--1032236 Score: 171
Period size: 22 Copynumber: 14.8 Consensus size: 21
1031904 TGTAAATGAT
1031914 TTTTTGATATC-AAAATATG-A
1 TTTTTGATATCAAAAAT-TGAA
* *
1031934 TTTTGTGATATCAAGAATTCGAT
1 TTTT-TGATATCAAAAATT-GAA
*
1031957 TTTTTGATATCAAAAAATG-A
1 TTTTTGATATCAAAAATTGAA
* *
1031977 TTTTCTGATATCAAGAATTCAA
1 TTTT-TGATATCAAAAATTGAA
*
1031999 TTTTTTGATA-CAAAAAAATCAACTTTAA
1 -TTTTTGATATC----AAA--AA-TTGAA
* **
1032027 TTCTTGATATCAAAAAATCT-TT
1 TTTTTGATATC-AAAAAT-TGAA
* *
1032049 TTTTGTGATATCAGAAAA-TCAT
1 TTTT-TGATATCA-AAAATTGAA
*
1032071 TTTTTGATATCAAGAATTCGAA
1 TTTTTGATATCAAAAATT-GAA
** *
1032093 TTGGTGATATCAAAAAATG-A
1 TTTTTGATATCAAAAATTGAA
* *
1032113 TTTTCTGATATCACAAAATAGAT
1 TTTT-TGATATCA-AAAATTGAA
*
1032136 TTTTTGATATCAAGAATT-AA
1 TTTTTGATATCAAAAATTGAA
*
1032156 TTTTTGATATCAAGAATT--A
1 TTTTTGATATCAAAAATTGAA
1032175 TATTTTGATATCAAAAATTCGAA
1 T-TTTTGATATCAAAAATT-GAA
* * * *
1032198 TTATTGATATCAAATATTTAT
1 TTTTTGATATCAAAAATTGAA
1032219 TTTTTGATATCAGAAAAT
1 TTTTTGATATCA-AAAAT
1032237 ACCTCAAAAA
Statistics
Matches: 237, Mismatches: 37, Indels: 56
0.72 0.11 0.17
Matches are distributed among these distances:
19 2 0.01
20 49 0.21
21 57 0.24
22 80 0.34
23 28 0.12
25 6 0.03
27 10 0.04
28 5 0.02
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTTTGATATCAAAAATTGAA
Found at i:1032927 original size:30 final size:30
Alignment explanation
Indices: 1032853--1032927 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
1032843 TGTTTGAAAA
* *
1032853 TGATCTATTGAACTGCCGGTCAATAGACTG
1 TGATCTATTGGACCGCCGGTCAATAGACTG
* * **
1032883 CGACCTATCAGACCGCCGGTCAATAGACTG
1 TGATCTATTGGACCGCCGGTCAATAGACTG
1032913 TGATCTATTGGACCG
1 TGATCTATTGGACCG
1032928 GCAACGTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (30 bp):
TGATCTATTGGACCGCCGGTCAATAGACTG
Found at i:1042765 original size:33 final size:33
Alignment explanation
Indices: 1042728--1042791 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1042718 TAATGTTATC
*
1042728 TTTACAACAGAGCTTGCAATAATCTTACCTTCA
1 TTTACAACAGAGCTTGCAATAACCTTACCTTCA
** * *
1042761 TTTACAATGGAGCTTGGAGTAACCTTACCTT
1 TTTACAACAGAGCTTGCAATAACCTTACCTT
1042792 AACAATGGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (33 bp):
TTTACAACAGAGCTTGCAATAACCTTACCTTCA
Found at i:1042797 original size:29 final size:29
Alignment explanation
Indices: 1042764--1042878 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 29
1042754 ACCTTCATTT
*
1042764 ACAATGGAGCTTGGAGTAACCTTACCTTA
1 ACAATGGAGCGTGGAGTAACCTTACCTTA
** *
1042793 ACAATGGAGCGTATAGTAATCC-TACCTTT
1 ACAATGGAGCGTGGAGTAA-CCTTACCTTA
* * * *
1042822 ATAATGGAGCTTGGAGTAACATTACCATA
1 ACAATGGAGCGTGGAGTAACCTTACCTTA
* * * *
1042851 ACACTGTAGGGTGGCGTAACCTTACCTT
1 ACAATGGAGCGTGGAGTAACCTTACCTT
1042879 TACACTGCAG
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
28 1 0.02
29 62 0.95
30 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (29 bp):
ACAATGGAGCGTGGAGTAACCTTACCTTA
Found at i:1045767 original size:45 final size:45
Alignment explanation
Indices: 1045703--1045819 Score: 166
Period size: 45 Copynumber: 2.6 Consensus size: 45
1045693 TCAAATGACA
* *
1045703 ATAGACTGTCTGTTGATGTTTGCTTACTGACTTAGTACATGTACC
1 ATAGACTGTCTGTTGATGTTTACTTACAGACTTAGTACATGTACC
*
1045748 ATAGACTGTCTGTTGATGTTTACTTACAGATTTAGTACATGTACC
1 ATAGACTGTCTGTTGATGTTTACTTACAGACTTAGTACATGTACC
*
1045793 ATATG-CTGCCTGTTGAT-TTTCACTTAC
1 ATA-GACTGTCTGTTGATGTTT-ACTTAC
1045820 TGTTGGCTCC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
44 3 0.05
45 62 0.94
46 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
ATAGACTGTCTGTTGATGTTTACTTACAGACTTAGTACATGTACC
Found at i:1050526 original size:18 final size:18
Alignment explanation
Indices: 1050503--1050737 Score: 416
Period size: 18 Copynumber: 13.1 Consensus size: 18
1050493 GCCTTTTTTC
1050503 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050521 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050539 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050557 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050575 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050593 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
*
1050611 ATATCCCCGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050629 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
* *
1050647 ATATCCCCGTTTACCTGC
1 ATATCCCTGTTTACCTGT
*
1050665 ATATCCCCGTTTACCTGT
1 ATATCCCTGTTTACCTGT
*
1050683 ATATCCCCGTTTACCTGT
1 ATATCCCTGTTTACCTGT
*
1050701 ATATCCCCGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050719 ATATCCCTGTTTACCTGT
1 ATATCCCTGTTTACCTGT
1050737 A
1 A
1050738 CAGATGACAC
Statistics
Matches: 211, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 211 1.00
ACGTcount: A:0.17, C:0.30, G:0.11, T:0.42
Consensus pattern (18 bp):
ATATCCCTGTTTACCTGT
Found at i:1059978 original size:82 final size:82
Alignment explanation
Indices: 1059841--1060082 Score: 457
Period size: 82 Copynumber: 3.0 Consensus size: 82
1059831 AGATGTGTTC
*
1059841 TCATTTGTATCAATAACTGTCTGTATTGGGCTGTAATGGTGTTGTCCTACTTACTGGTCGGACAG
1 TCATTTGTATCAATAACTGTCTGTATTGGGCTGTAATGGTGTTGTCCTACTTACTGGTCTGACAG
1059906 GCCACCCCTATGTTGTA
66 GCCACCCCTATGTTGTA
*
1059923 TCATTTGTATCAATAACTGTCTGTATTGGGCTGTAATGGTGTTGTCCTACTTACTGGTCTGAGAG
1 TCATTTGTATCAATAACTGTCTGTATTGGGCTGTAATGGTGTTGTCCTACTTACTGGTCTGACAG
1059988 GCCACCCCTATGTTGTA
66 GCCACCCCTATGTTGTA
*
1060005 TCATTTGTATCAATAACTGTCTGTATCGGGCTGTAATGGTGTTGTCCTACTTACTGGTCTGACAG
1 TCATTTGTATCAATAACTGTCTGTATTGGGCTGTAATGGTGTTGTCCTACTTACTGGTCTGACAG
1060070 GCCACCCCTATGT
66 GCCACCCCTATGT
1060083 CCTCAGTGTG
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (82 bp):
TCATTTGTATCAATAACTGTCTGTATTGGGCTGTAATGGTGTTGTCCTACTTACTGGTCTGACAG
GCCACCCCTATGTTGTA
Found at i:1062015 original size:2 final size:2
Alignment explanation
Indices: 1062008--1062103 Score: 192
Period size: 2 Copynumber: 48.0 Consensus size: 2
1061998 TTAATATCAG
1062008 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1062050 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1062092 GA GA GA GA GA GA
1 GA GA GA GA GA GA
1062104 TGCTTGACCT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 94 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1066017 original size:23 final size:23
Alignment explanation
Indices: 1065968--1066021 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1065958 TTTTTAAGAT
* * * *
1065968 TGTTAGGACATGATTTTACCCTT
1 TGTTGGGACATGATGTTACACTG
1065991 TGTTGGGACATGATGTTACACTG
1 TGTTGGGACATGATGTTACACTG
1066014 TGTTGGGA
1 TGTTGGGA
1066022 TATATAACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (23 bp):
TGTTGGGACATGATGTTACACTG
Found at i:1066697 original size:32 final size:32
Alignment explanation
Indices: 1066641--1066875 Score: 201
Period size: 32 Copynumber: 7.2 Consensus size: 32
1066631 ACTGAAATAC
* *
1066641 ATTACA-TTTGCTGGGATATAATGTTAACATT
1 ATTACATTTTGGTGTGATATAATGTTAACATT
*
1066672 ATTACATTTTGGTGTGATATTATGTTAACATT
1 ATTACATTTTGGTGTGATATAATGTTAACATT
* * * *
1066704 ATTACATTTTGTTGGGTTATAAAGTT-ACAGTT
1 ATTACATTTTGGTGTGATATAATGTTAACA-TT
*** *
1066736 ATTACATTTTTAAG-GATACAATGTT-ACAGTT
1 ATTACATTTTGGTGTGATATAATGTTAACA-TT
* * *
1066767 ATTATAGTTTGGTGTGATATAATGTTAACGTT
1 ATTACATTTTGGTGTGATATAATGTTAACATT
* * * *
1066799 ATTAAATTTTTGGGGTTACATGTATAAAGTT-ACAGTT
1 ATTACA-TTTTGGTG-T-GA--TATAATGTTAACA-TT
1066836 ATTACATTTTGGTGTGATATAATGTTAACATT
1 ATTACATTTTGGTGTGATATAATGTTAACATT
1066868 ATTACATT
1 ATTACATT
1066876 CTGCTGGCTT
Statistics
Matches: 162, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
31 32 0.20
32 91 0.56
33 11 0.07
34 2 0.01
35 2 0.01
36 9 0.06
37 15 0.09
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.46
Consensus pattern (32 bp):
ATTACATTTTGGTGTGATATAATGTTAACATT
Found at i:1066788 original size:63 final size:65
Alignment explanation
Indices: 1066641--1066875 Score: 173
Period size: 63 Copynumber: 3.6 Consensus size: 65
1066631 ACTGAAATAC
* * *** *
1066641 ATTACA-TTTGCTGGGATATAATGTTAACA-TTATTACATTTTGGTGTGATA-TTAT-GTTAACA
1 ATTACAGTTTGGTGTGATATAATGTT-ACAGTTATTACATTTTTAAG-GATACATATAGTT-ACA
1066702 -TT
63 GTT
* * * * *
1066704 ATTACATTTTGTTGGGTTATAAAGTTACAGTTATTACATTTTTAAGGATACA-AT-GTTACAGTT
1 ATTACAGTTTGGTGTGATATAATGTTACAGTTATTACATTTTTAAGGATACATATAGTTACAGTT
* * ** *
1066767 ATTATAGTTTGGTGTGATATAATGTTA-ACGTTATTAAATTTTTGGGGTTACATGTATAAAGTTA
1 ATTACAGTTTGGTGTGATATAATGTTACA-GTTATTACATTTTTAAGGATACA--TAT--AGTTA
1066831 CAGTT
61 CAGTT
*
1066836 ATTACATTTTGGTGTGATATAATGTTAACA-TTATTACATT
1 ATTACAGTTTGGTGTGATATAATGTT-ACAGTTATTACATT
1066876 CTGCTGGCTT
Statistics
Matches: 139, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
62 4 0.03
63 60 0.43
64 29 0.21
66 2 0.01
69 42 0.30
70 1 0.01
71 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.46
Consensus pattern (65 bp):
ATTACAGTTTGGTGTGATATAATGTTACAGTTATTACATTTTTAAGGATACATATAGTTACAGTT
Found at i:1066808 original size:95 final size:96
Alignment explanation
Indices: 1066654--1066873 Score: 257
Period size: 95 Copynumber: 2.2 Consensus size: 96
1066644 ACATTTGCTG
* * * * *
1066654 GGATATAATGTTAACATTATTACATTTTGGTGTGATATTATGTTAACATTATTACATTTTGTTGG
1 GGATACAATGTTAACATTATTACAGTTTGGTGTGATATAATGTTAACATTATTAAATTTT-TGGG
1066719 G-T-TATAAAGTTACAGTTATTACATTTTTAA
65 GATGTATAAAGTTACAGTTATTACATTTTTAA
* *
1066749 GGATACAATGTT-ACAGTTATTATAGTTTGGTGTGATATAATGTTAACGTTATTAAATTTTTGGG
1 GGATACAATGTTAACA-TTATTACAGTTTGGTGTGATATAATGTTAACATTATTAAATTTTTGGG
***
1066813 GTTACATGTATAAAGTTACAGTTATTACATTTTGGT
65 G----ATGTATAAAGTTACAGTTATTACATTTTTAA
*
1066849 GTGATATAATGTTAACATTATTACA
1 G-GATACAATGTTAACATTATTACA
1066874 TTCTGCTGGC
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
94 7 0.07
95 50 0.48
99 1 0.01
100 26 0.25
101 17 0.16
102 3 0.03
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (96 bp):
GGATACAATGTTAACATTATTACAGTTTGGTGTGATATAATGTTAACATTATTAAATTTTTGGGG
ATGTATAAAGTTACAGTTATTACATTTTTAA
Found at i:1066952 original size:32 final size:30
Alignment explanation
Indices: 1066641--1067034 Score: 192
Period size: 32 Copynumber: 12.3 Consensus size: 30
1066631 ACTGAAATAC
*
1066641 ATTACATTTGCTGGGATATAATGTTAACA-TT
1 ATTACATTTG-TTGGATATAATGTT-ACAGTT
* *
1066672 ATTACATTTTGGTGTGATATTATGTTAACA-TT
1 ATTACA-TTTGTTG-GATATAATGTT-ACAGTT
* *
1066704 ATTACATTTTGTTGGGTTATAAAGTTACAGTT
1 ATTACA-TTTGTT-GGATATAATGTTACAGTT
*
1066736 ATTACATTT-TTAAGGATACAATGTTACAGTT
1 ATTACATTTGTT--GGATATAATGTTACAGTT
* *
1066767 ATTATAGTTTGGTGTGATATAATGTTA-ACGTT
1 ATTACA-TTTGTTG-GATATAATGTTACA-GTT
* *
1066799 ATTAAATTT-TTGGGGTTACATGTATAAAGTTACAGTT
1 ATTACATTTGTT--GG----A--TATAATGTTACAGTT
*
1066836 ATTACATTTTGGTGTGATATAATGTTAACA-TT
1 ATTACA-TTTGTTG-GATATAATGTT-ACAGTT
* * **
1066868 ATTACATTCTGCTGGCTTATAAAATTACAGTT
1 ATTACATT-TGTTGG-ATATAATGTTACAGTT
* * *
1066900 AATAAATATCAG-TGGAATATAATGTTACAGTT
1 ATTACAT-T-TGTTGG-ATATAATGTTACAGTT
* *
1066932 CTTACAGTTTGGTTGGATATAATGTGACAGTT
1 ATTACA-TTT-GTTGGATATAATGTTACAGTT
* * * * *
1066964 GTCACATTTTGATGGGGTATAATGTCACAGTT
1 ATTACA-TTTG-TTGGATATAATGTTACAGTT
* *
1066996 ATTGCATTT-TTGTCATATAATGTTACAGTT
1 ATTACATTTGTTG-GATATAATGTTACAGTT
1067026 ATTACATTT
1 ATTACATTT
1067035 AGCAGTGATA
Statistics
Matches: 282, Mismatches: 50, Indels: 63
0.71 0.13 0.16
Matches are distributed among these distances:
29 2 0.01
30 25 0.09
31 49 0.17
32 168 0.60
33 12 0.04
34 1 0.00
35 1 0.00
37 18 0.06
38 5 0.02
39 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (30 bp):
ATTACATTTGTTGGATATAATGTTACAGTT
Found at i:1071015 original size:2 final size:2
Alignment explanation
Indices: 1071008--1071050 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1070998 CCCCCTACCC
1071008 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1071050 A
1 A
1071051 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1071947 original size:16 final size:16
Alignment explanation
Indices: 1071936--1071970 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1071926 GCAAAATATT
1071936 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
*
1071952 AAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAAAAG
1071968 AAA
1 AAA
1071971 TCTAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:1071955 original size:13 final size:13
Alignment explanation
Indices: 1071939--1071966 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1071929 AAATATTAAA
1071939 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
1071952 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
1071965 AA
1 AA
1071967 GAAATCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1073562 original size:2 final size:2
Alignment explanation
Indices: 1073555--1073601 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1073545 TATATGTGTT
1073555 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1073597 AG AG A
1 AG AG A
1073602 TTAACACATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1075097 original size:56 final size:56
Alignment explanation
Indices: 1075005--1075632 Score: 1022
Period size: 56 Copynumber: 11.2 Consensus size: 56
1074995 CCTACACAGG
* * * * *
1075005 ACCAGTATGTACTAGAAATATATACAGTACATATACCAGTATATCACCAACATATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
* * *
1075061 ACCCGCATGTATTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
* *
1075117 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
* * *
1075173 ACCAGCATGTACTAGTAATAAATATAGTACATATACTGGTATATCACCAACATGTA
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
1075229 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
*
1075285 ACCAGCATGTACTAGTAATATATACAGTATATATACCGGTATATCACCAACATGTA
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
* *
1075341 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
* * * *
1075397 ACCAGCATGTACTAGTAATAAATATAGTACATATACCGGTATATCACCAACATATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
*
1075453 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACACGTA
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
*
1075509 ACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
* * *
1075565 ACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACACGTG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
*
1075621 ACCAACATGTAC
1 ACCAGCATGTAC
1075633 CGCTTATGAA
Statistics
Matches: 535, Mismatches: 37, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 535 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (56 bp):
ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTA
Found at i:1075141 original size:112 final size:112
Alignment explanation
Indices: 1075005--1075737 Score: 1069
Period size: 112 Copynumber: 6.5 Consensus size: 112
1074995 CCTACACAGG
* * * *
1075005 ACCAGTATGTACTAGAAATATATACAGTACATATACCAGTATATCACCAACATATGACCCGCATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
*
1075070 TATTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
66 TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
1075117 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
* *
1075182 TACTAGTAATAAATATAGTACATATACTGGTATATCACCAACATGTA
66 TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
* *
1075229 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
* *
1075294 TACTAGTAATATATACAGTATATATACCGGTATATCACCAACATGTA
66 TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
1075341 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
* * *
1075406 TACTAGTAATAAATATAGTACATATACCGGTATATCACCAACATATG
66 TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
** *
1075453 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACACGTAACCAGCATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
1075518 TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
66 TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
* ** *
1075565 ACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACACGTGACCAACATG
1 ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
* * * *
1075630 TACCGCTTA-TGAAGATAATACA-CACTAGTATACCGGTATATCACCAACATATG
66 TA---C-TAGT-AATA-AATACAGTAC-A-TATACCGGTATATCACCAACATGTA
* * * * * *
1075683 ACCAACATGTACCAGTTATGA-ACATAGTA-AGTATACCGGTATTTCACCAACATAT
1 ACCAGCATGTACTAGTAAT-ATATACAGTACA-TATACCGGTATATCACCAACATAT
1075738 AACTGACGTG
Statistics
Matches: 570, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
112 486 0.85
115 2 0.00
116 7 0.01
117 8 0.01
118 66 0.12
119 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (112 bp):
ACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCATG
TACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTA
Found at i:1075289 original size:168 final size:168
Alignment explanation
Indices: 1075004--1075740 Score: 1057
Period size: 168 Copynumber: 4.4 Consensus size: 168
1074994 ACCTACACAG
* * * * * *
1075004 GACCAGTATGTACTAGAAATATATACAGTACATATACCAGTATATCACCAACATATGACCCGCAT
1 GACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATATAACCAGCAT
*
1075069 GTATTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTACTAGTA
66 GTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTACTAGTA
1075134 ATATATACAGTACATATACCGGTATATCACCAACATAT
131 ATATATACAGTACATATACCGGTATATCACCAACATAT
* * *
1075172 GACCAGCATGTACTAGTAATAAATATAGTACATATACTGGTATATCACCAACATGTAACCAGCAT
1 GACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATATAACCAGCAT
*
1075237 GTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTACTAGTA
66 GTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTACTAGTA
* *
1075302 ATATATACAGTATATATACCGGTATATCACCAACATGT
131 ATATATACAGTACATATACCGGTATATCACCAACATAT
* * *
1075340 AACCAGCATGTACTAGTAATATATACAGTACATATACCGGTATATCACCAACATATGACCAGCAT
1 GACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATATAACCAGCAT
* * *
1075405 GTACTAGTAATAAATATAGTACATATACCGGTATATCACCAACATATGACCAGCATGTACTAGTA
66 GTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTACTAGTA
**
1075470 ATATATACAGTACATATACCGGTATATCACCAACACGT
131 ATATATACAGTACATATACCGGTATATCACCAACATAT
* *
1075508 AACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCAT
1 GACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATATAACCAGCAT
* * *
1075573 GTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACACGTGACCAACATGTACCGCTT
66 GTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTA---C-T
* *
1075638 A-TGAAGATAATACA-CACTAGTATACCGGTATATCACCAACATAT
127 AGT-AATAT-ATACAGTAC-A-TATACCGGTATATCACCAACATAT
* * * * * * *
1075682 GACCAACATGTACCAGTTATGAACATAGTA-AGTATACCGGTATTTCACCAACATATAAC
1 GACCAGCATGTACTAGTAATAAATACAGTACA-TATACCGGTATATCACCAACATATAAC
1075741 TGACGTGAAC
Statistics
Matches: 515, Mismatches: 45, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
168 428 0.83
171 2 0.00
172 8 0.02
173 7 0.01
174 70 0.14
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (168 bp):
GACCAGCATGTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATATAACCAGCAT
GTACTAGTAATAAATACAGTACATATACCGGTATATCACCAACATGTAACCAGCATGTACTAGTA
ATATATACAGTACATATACCGGTATATCACCAACATAT
Found at i:1076454 original size:48 final size:45
Alignment explanation
Indices: 1076340--1076468 Score: 170
Period size: 45 Copynumber: 2.8 Consensus size: 45
1076330 AACCACCTCC
* *
1076340 GCTTGAGCTTCCACCAAAACCTCCCGATCCAAATCCACCAGTGCT
1 GCTTGAACTTCCACCAAAACCCCCCGATCCAAATCCACCAGTGCT
* *
1076385 GCTAGAACTTCCACCAAAACCCCCCGATCCGAATCCACCAGATG-T
1 GCTTGAACTTCCACCAAAACCCCCCGATCCAAATCCACCAG-TGCT
*
1076430 GCCACTTGAACTTCCACCAAAACCCCCAGATCCAAATCC
1 G---CTTGAACTTCCACCAAAACCCCCCGATCCAAATCC
1076469 CCCGGAACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 39 0.53
46 2 0.03
48 32 0.44
ACGTcount: A:0.30, C:0.41, G:0.12, T:0.17
Consensus pattern (45 bp):
GCTTGAACTTCCACCAAAACCCCCCGATCCAAATCCACCAGTGCT
Found at i:1077291 original size:51 final size:51
Alignment explanation
Indices: 1077224--1077347 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 51
1077214 GATAATCCAC
* * * *
1077224 TAGAAGCCCCAGAGCTTCCAAATCCCGACGAGCCAAAGCCGGATCCAGATG
1 TAGAAGCACTAGAGCTTCCAAATCCCGACGAACCAAAGCCAGATCCAGATG
* *
1077275 -ACGAAGCACTAGAGCTTCCAAATCCCGAGGAACTAAAGCCAGATCCAGATG
1 TA-GAAGCACTAGAGCTTCCAAATCCCGACGAACCAAAGCCAGATCCAGATG
*
1077326 TAGAAGCACTAGAGCCTCCAAA
1 TAGAAGCACTAGAGCTTCCAAA
1077348 CCCACCAGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
50 1 0.02
51 62 0.97
52 1 0.02
ACGTcount: A:0.35, C:0.30, G:0.22, T:0.13
Consensus pattern (51 bp):
TAGAAGCACTAGAGCTTCCAAATCCCGACGAACCAAAGCCAGATCCAGATG
Found at i:1077797 original size:93 final size:93
Alignment explanation
Indices: 1077667--1077845 Score: 252
Period size: 93 Copynumber: 1.9 Consensus size: 93
1077657 CGAGGCCGTA
* * * * *
1077667 CCTGACCCTCCAAATGACCCTGCATTTAACGCGGTTCCTGTTGATGAACCAGATCCAGTTATTGA
1 CCTGAACCTCCAAATGACCCTGCATTAAACGCAGTTCCTGTGGATGAACCAGAACCAGTTATTGA
*
1077732 TGAACCCATTCCAAATCCTGACGCAGTG
66 CGAACCCATTCCAAATCCTGACGCAGTG
* * *
1077760 CCTGAACCTCCAAATGACCCTGTATTAAATC-CAGTTCCTGTGGATGAACCGGAACCAGTTGTTG
1 CCTGAACCTCCAAATGACCCTGCATTAAA-CGCAGTTCCTGTGGATGAACCAGAACCAGTTATTG
*
1077824 ACGAACCCGTTCCAAATCCTGA
65 ACGAACCCATTCCAAATCCTGA
1077846 TGCGGAGCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
93 74 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (93 bp):
CCTGAACCTCCAAATGACCCTGCATTAAACGCAGTTCCTGTGGATGAACCAGAACCAGTTATTGA
CGAACCCATTCCAAATCCTGACGCAGTG
Found at i:1077890 original size:93 final size:93
Alignment explanation
Indices: 1077667--1077893 Score: 215
Period size: 93 Copynumber: 2.4 Consensus size: 93
1077657 CGAGGCCGTA
* * * * * * *
1077667 CCTGACCCTCCAAATGACCCTGCATTTAA-CGCGGTTCCTGTTGATGAACCAGATCCAGTTATTG
1 CCTGAACCTCCAAACGACCCAGCATTAAATC-CAGTTCCTGTGGATGAACCAGAACCAGTTATTG
* *
1077731 ATGAACCCATTCCAAATCCTGACGCAGTG
65 ACGAACCCATTCCAAATCCTGACGCAGAG
* * * * *
1077760 CCTGAACCTCCAAATGACCCTGTATTAAATCCAGTTCCTGTGGATGAACCGGAACCAGTTGTTGA
1 CCTGAACCTCCAAACGACCCAGCATTAAATCCAGTTCCTGTGGATGAACCAGAACCAGTTATTGA
* * *
1077825 CGAACCCGTTCCAAATCCTGATGCGGAG
66 CGAACCCATTCCAAATCCTGACGCAGAG
* * * ** *
1077853 -CTAGATCCTCCGAACGATCCAGCATTGGATCCTGTTCCTGT
1 CCT-GAACCTCCAAACGACCCAGCATTAAATCCAGTTCCTGT
1077894 TGATCCAGAC
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
92 2 0.02
93 107 0.97
94 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (93 bp):
CCTGAACCTCCAAACGACCCAGCATTAAATCCAGTTCCTGTGGATGAACCAGAACCAGTTATTGA
CGAACCCATTCCAAATCCTGACGCAGAG
Found at i:1078087 original size:93 final size:93
Alignment explanation
Indices: 1077970--1078151 Score: 204
Period size: 93 Copynumber: 2.0 Consensus size: 93
1077960 AGATCCAGTC
* * * ** *
1077970 GTTGATCCAGAGCCTGCTGTTGATGAACCTGTTCC-AAATCCAGACGAAGTGCCTGAACCCCCAA
1 GTTGAGCCAGAGCCAGCTGATGATGAACCCATTCCGAAA-CCAGACGAAGTACCTGAACCCCCAA
*
1078034 ATGAACCTGCATTAAATCCGGTTCCTGTT
65 ATGAACCGGCATTAAATCCGGTTCCTGTT
* * * * * * *
1078063 GTTGAGCCAGAGCCAGTTGATGATGACCCCATTCCGAAACCTGATGCAGTACTTGAACCTCCAAA
1 GTTGAGCCAGAGCCAGCTGATGATGAACCCATTCCGAAACCAGACGAAGTACCTGAACCCCCAAA
* *
1078128 TGATCCGGCATTAAATCCTGTTCC
66 TGAACCGGCATTAAATCCGGTTCC
1078152 CATAGACGAT
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
93 69 0.96
94 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (93 bp):
GTTGAGCCAGAGCCAGCTGATGATGAACCCATTCCGAAACCAGACGAAGTACCTGAACCCCCAAA
TGAACCGGCATTAAATCCGGTTCCTGTT
Found at i:1080705 original size:13 final size:14
Alignment explanation
Indices: 1080678--1080706 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1080668 TCCTTTTTTT
1080678 AAATAAAAAATATC
1 AAATAAAAAATATC
1080692 AAATAAAAAA-ATC
1 AAATAAAAAATATC
1080705 AA
1 AA
1080707 GAAAAGCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATAAAAAATATC
Found at i:1080770 original size:9 final size:9
Alignment explanation
Indices: 1080756--1080789 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1080746 GCAGCTGCTC
1080756 CTGTGTTAG
1 CTGTGTTAG
*
1080765 CTGTGTTAA
1 CTGTGTTAG
1080774 CTGTGTTAG
1 CTGTGTTAG
1080783 CTGTGTT
1 CTGTGTT
1080790 CCCTCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.47
Consensus pattern (9 bp):
CTGTGTTAG
Found at i:1092479 original size:8 final size:8
Alignment explanation
Indices: 1092454--1092503 Score: 75
Period size: 8 Copynumber: 6.4 Consensus size: 8
1092444 GATCACATTT
1092454 TGTCCGTC
1 TGTCCGTC
1092462 -GTCCGTC
1 TGTCCGTC
*
1092469 TGTCTGTC
1 TGTCCGTC
1092477 TGTCCGTC
1 TGTCCGTC
*
1092485 CGTCCGTC
1 TGTCCGTC
1092493 TGTCCGTC
1 TGTCCGTC
1092501 TGT
1 TGT
1092504 AAACTTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 7 0.19
8 30 0.81
ACGTcount: A:0.00, C:0.36, G:0.26, T:0.38
Consensus pattern (8 bp):
TGTCCGTC
Found at i:1095609 original size:1 final size:1
Alignment explanation
Indices: 1095605--1095631 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1095595 AAATGCAAAT
1095605 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1095632 NGAATGTGTT
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:1101833 original size:20 final size:20
Alignment explanation
Indices: 1101802--1102646 Score: 1026
Period size: 20 Copynumber: 42.0 Consensus size: 20
1101792 GGTTAATCCT
* *
1101802 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1101822 TGCTGTTAAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1101842 TGTTGTTAAGTGACACTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1101862 TGTTGTTAAGTGACCATCCC
1 TGTTGTTAAGTGACCCTCCC
1101882 TGTTGTTAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
**
1101902 TGTTGTTTTGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1101922 TGTTACTAAGTGAAGTGACCCTCCC
1 TG-T--T--GTTAAGTGACCCTCCC
* * *
1101947 TGTTGTGACGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1101967 TGTTGTTTAGTGACACTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1101987 TGTTGATT-AGTGTCCCTCCC
1 TGTTG-TTAAGTGACCCTCCC
* * * *
1102007 TGCTGTTTAGTGTCTCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102027 TGTTGTTAAGTGACCTTCCC
1 TGTTGTTAAGTGACCCTCCC
1102047 TGTTGTTAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
1102067 TGTTGTTAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* * *
1102087 TATTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
1102107 TGTTGTTAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* * *
1102127 TGTTGTGAAGTAACCCTACC
1 TGTTGTTAAGTGACCCTCCC
* *
1102147 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102167 TGTTGTTAAGTGACACTCCC
1 TGTTGTTAAGTGACCCTCCC
* **
1102187 TGTTGTGAAGTGACCCTGTC
1 TGTTGTTAAGTGACCCTCCC
*
1102207 TGTTGTTTAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
1102227 TGTTGTTAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102247 TGTTGTTTAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* **
1102267 TGTTGATAAGTGATTCTCCC
1 TGTTGTTAAGTGACCCTCCC
1102287 TGTTGTTAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* * *
1102307 TGTTGATAAGTGATCATCCC
1 TGTTGTTAAGTGACCCTCCC
**
1102327 TGTTGTTAAGTGACCCTCTT
1 TGTTGTTAAGTGACCCTCCC
* *
1102347 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102367 TGTTGTTAAGTGACCCTCAC
1 TGTTGTTAAGTGACCCTCCC
* *
1102387 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1102407 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1102427 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102447 TGTTGTTTAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1102467 TGTTGATAAGTGATCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102487 TGTTGTTAAGAGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1102507 TGTTGATAAGTGATCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102527 TGTTGTTAAGTGACCCTCCT
1 TGTTGTTAAGTGACCCTCCC
** *
1102547 TGTTGTTTGGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102567 TGTTGTGAAGTGACCCTCCC
1 TGTTGTTAAGTGACCCTCCC
*
1102587 TGTTGTTAAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1102607 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
* *
1102627 TGTTGTTTAGTGTCCCTCCC
1 TGTTGTTAAGTGACCCTCCC
1102647 NCTTAATGTA
Statistics
Matches: 712, Mismatches: 106, Indels: 14
0.86 0.13 0.02
Matches are distributed among these distances:
19 2 0.00
20 689 0.97
21 3 0.00
22 1 0.00
23 1 0.00
24 1 0.00
25 15 0.02
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTTGTTAAGTGACCCTCCC
Found at i:1105747 original size:2 final size:2
Alignment explanation
Indices: 1105742--1105770 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1105732 CCTCCCCCCT
1105742 TC TC 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 TC TC T
1105771 AATCAGAATA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1106062 original size:37 final size:36
Alignment explanation
Indices: 1105984--1106110 Score: 118
Period size: 37 Copynumber: 3.6 Consensus size: 36
1105974 AAGACATTTT
* *
1105984 TGAAGACAAGGAAGAGAAACGAGAAATACCAAAAGA
1 TGAAGACAAGGAAGAGAAACGAAAAATACCAAAAAA
* *
1106020 GGAAGACATGGAAGAGAAAC-AAACAAGTACCAAAAAA
1 TGAAGACAAGGAAGAGAAACGAAA-AA-TACCAAAAAA
* * *
1106057 TGAAGACAAGGAAAAGAAA-TAAGAAAT--GAAAAAA
1 TGAAGACAAGGAAGAGAAACGAA-AAATACCAAAAAA
* *
1106091 TAAAGACAAGGAAGGGAAAC
1 TGAAGACAAGGAAGAGAAAC
1106111 ACAAGAAGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
34 22 0.29
35 2 0.03
36 21 0.28
37 29 0.39
38 1 0.01
ACGTcount: A:0.61, C:0.09, G:0.24, T:0.06
Consensus pattern (36 bp):
TGAAGACAAGGAAGAGAAACGAAAAATACCAAAAAA
Found at i:1106998 original size:12 final size:11
Alignment explanation
Indices: 1106981--1107025 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
1106971 CTCATGCAAG
1106981 AAGTTCCATGGT
1 AAGTTCCA-GGT
1106993 AAGTTCCAGGT
1 AAGTTCCAGGT
1107004 AAGTTCTCCA-GT
1 AAG-T-TCCAGGT
1107016 AAGTTCCAGG
1 AAGTTCCAGG
1107026 GGACGTCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.13
11 8 0.27
12 14 0.47
13 4 0.13
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (11 bp):
AAGTTCCAGGT
Found at i:1109400 original size:178 final size:178
Alignment explanation
Indices: 1109044--1109407 Score: 515
Period size: 178 Copynumber: 2.0 Consensus size: 178
1109034 GCTGCCAAAC
*
1109044 GGGTACCCTCATAGTACGGATAACTCCTCCTACAGTTTTCAAGATAGGAAGTGGTTCTCTTGCAG
1 GGGTACCCTCATAGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAA--GGTTCTCTTGCAG
* * *
1109109 ATCAATTGTACATATATCAAAGATGTGCATAATGCTAAGATTTTGATTTTTGATAATTAATGGAA
64 ATCAATTGTACATATATCAAAGATGTGCATAATGCCAAGAGTTTGATTTCTGATAATTAATGGAA
* *
1109174 AACATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATA
129 AACATAACAGCTTTTGAACTTAGTCATTTTTTGGCAAAATAGTGCATATA
* *
1109224 GGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAA-GTTCTTTTGCAGAT
1 GGGTACCCTCATAGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGGTTCTCTTGCAGAT
* *
1109288 CAATTGTACATATATCAGAGATGTGCATATTTTGCC-AGAAGTTTGATTTCTG--AATATAATGG
66 CAATTGTACATATATCAAAGATGTGCATA--ATGCCAAG-AGTTTGATTTCTGATAAT-TAATGG
*
1109350 AAAA-AGTAACAGCTTTTGAACTT-GATCATTTTTTGGCAAAGTAGTGCATATA
127 AAAACA-TAACAGCTTTTGAACTTAG-TCATTTTTTGGCAAAATAGTGCATATA
1109402 GGGTAC
1 GGGTAC
1109408 TCCATTTCAC
Statistics
Matches: 167, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
177 46 0.28
178 59 0.35
179 14 0.08
180 48 0.29
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (178 bp):
GGGTACCCTCATAGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGGTTCTCTTGCAGAT
CAATTGTACATATATCAAAGATGTGCATAATGCCAAGAGTTTGATTTCTGATAATTAATGGAAAA
CATAACAGCTTTTGAACTTAGTCATTTTTTGGCAAAATAGTGCATATA
Found at i:1109649 original size:24 final size:24
Alignment explanation
Indices: 1109617--1109664 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1109607 CTTTAGAATT
*
1109617 ATTAAAGCAATGGATTACAAACAC
1 ATTAAAGCAATGGATAACAAACAC
1109641 ATTAAAGCAATGGATAACAAACAC
1 ATTAAAGCAATGGATAACAAACAC
1109665 TTTACAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (24 bp):
ATTAAAGCAATGGATAACAAACAC
Found at i:1110650 original size:50 final size:50
Alignment explanation
Indices: 1110569--1110666 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
1110559 CTCGACCTAG
*
1110569 ATATTGTTATGATAAATCTGTATACTAAATTTCATTTCAGTATGTGCATT
1 ATATTGTTATGATAAATCTGTAAACTAAATTTCATTTCAGTATGTGCATT
*
1110619 ATATTGTTATGATAAATCTGTAAACTGAATTTCATTTCAGTATGTGCA
1 ATATTGTTATGATAAATCTGTAAACTAAATTTCATTTCAGTATGTGCA
1110667 ATCTTTGCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (50 bp):
ATATTGTTATGATAAATCTGTAAACTAAATTTCATTTCAGTATGTGCATT
Found at i:1129336 original size:179 final size:178
Alignment explanation
Indices: 1129031--1129574 Score: 630
Period size: 179 Copynumber: 3.0 Consensus size: 178
1129021 CTATCCAGGG
* * * *
1129031 AAAT-GGGGTACTCTATATGCAATACTTTGCCAAAAACT-GATGTAGTTCAACGGCTGGTATTTT
1 AAATAGGGGTACCCTATATGCAATATTTTGCCAAAAA-TGGCT-TAGTTCAACAGCTGGTATTTT
* * * * * **
1129094 TTCAT-TAATCTTCAGAAACCAAAACCCTA-ACAATATGCACACCGCCGATATATATTAAATTGA
64 TTCATAAAATC-TCAGAAATCAAAATCCTAGA-AATATGCACACCTCCGATATATGTCCAATTGA
* * *
1129157 TCTGAAAAAGAACAATTTCCTATCTTGAAAACAGTAGGAGGAGTTATCCGTA
127 TCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTA
*
1129209 AAATAGGGGTACCCTATATGCAATATTTTGCCATTAAATGGCTTAGTTCAACAGCTGGTATTTTT
1 AAATAGGGGTACCCTATATGCAATATTTTGCCA-AAAATGGCTTAGTTCAACAGCTGGTATTTTT
* * *
1129274 TCATAAAATCTCAGCAGTCAAAATCCTAGAAATATGCACACCTCCCATATATGTCCAATTGATCT
65 TCATAAAATCTCAGAAATCAAAATCCTAGAAATATGCACACCTCCGATATATGTCCAATTGATCT
*
1129339 GCAAAAGAACAACTTCCTATCTTAAAAACTGTAGGAGGAGTTATCCGTA
130 GCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTA
* * * * * * *
1129388 CAATATGGGTACCCTATATGCAATATTTTGTCAAAAAAAAGACTAAGTTCAACAGCT-GTTTTTT
1 AAATAGGGGTACCCTATATGCAATATTTTG-C-CAAAAATGGCTTAGTTCAACAGCTGGTATTTT
* * * * * *
1129452 TTCCCCATAAATTATCATAAATCAGAATCCTAGCAATATGCACACCTCCGATATAGGTCCAATTG
64 TT---CATAAAATCTCAGAAATCAAAATCCTAGAAATATGCACACCTCCGATATATGTCCAATTG
* * * *
1129517 ATTTGCAAAAGATCAACTTCGTATCTTGAAAACTGTAGGAGGAGCTATCCGTA
126 ATCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTA
*
1129570 CAATA
1 AAATA
1129575 AGGTACCGTT
Statistics
Matches: 315, Mismatches: 41, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
178 4 0.01
179 177 0.56
180 29 0.09
181 1 0.00
182 104 0.33
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (178 bp):
AAATAGGGGTACCCTATATGCAATATTTTGCCAAAAATGGCTTAGTTCAACAGCTGGTATTTTTT
CATAAAATCTCAGAAATCAAAATCCTAGAAATATGCACACCTCCGATATATGTCCAATTGATCTG
CAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTA
Found at i:1130060 original size:18 final size:19
Alignment explanation
Indices: 1130033--1130079 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
1130023 TATTGTTACT
* *
1130033 TATGACATTGTATC-AAGA
1 TATGATATTGTATCAAAAA
1130051 TATGATATTGTATCATAAAA
1 TATGATATTGTATCA-AAAA
1130071 TATGATATT
1 TATGATATT
1130080 AAATTGCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
20 12 0.48
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (19 bp):
TATGATATTGTATCAAAAA
Found at i:1130179 original size:20 final size:20
Alignment explanation
Indices: 1130155--1130206 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1130145 ATAGTATTTT
1130155 ATGATATAATATGATATCGC
1 ATGATATAATATGATATCGC
* *
1130175 GTGATA-AATTATGATATTGC
1 ATGATATAA-TATGATATCGC
*
1130195 ATCATATAATAT
1 ATGATATAATAT
1130207 TGCTTTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGATATAATATGATATCGC
Found at i:1130478 original size:15 final size:15
Alignment explanation
Indices: 1130433--1130479 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1130423 TACAATATTG
1130433 TATCATATGATACAA
1 TATCATATGATACAA
* *
1130448 TATTATAT-ATCTCAA
1 TATCATATGAT-ACAA
*
1130463 TATCATGTGATACAA
1 TATCATATGATACAA
1130478 TA
1 TA
1130480 CTATATTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (15 bp):
TATCATATGATACAA
Found at i:1130633 original size:20 final size:20
Alignment explanation
Indices: 1130608--1130645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1130598 ATGTAACATT
*
1130608 GTATCATATAATACAATAGC
1 GTATCAAATAATACAATAGC
*
1130628 GTATCAAATTATACAATA
1 GTATCAAATAATACAATA
1130646 TGTATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (20 bp):
GTATCAAATAATACAATAGC
Found at i:1133528 original size:165 final size:165
Alignment explanation
Indices: 1133248--1133651 Score: 456
Period size: 165 Copynumber: 2.4 Consensus size: 165
1133238 TTTGAGAATC
* * * *
1133248 CTTGCATAATAATCTCACAAACTGTAGCATTATAGTTCTCGAGAAAAA-CTTTTTAAAAACATTT
1 CTTGCATAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAAAAGATTTTT--AAACATTT
* * * *
1133312 TCAATATATCTTTCTATGTTAAACTTTGAACCCCTCTTGGGGCCACAGTATTAG-TCCAGGGCTA
64 TCCATATATATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCACAGTATTAGATCCAGGGC-A
* * *
1133376 AAG-TTTTAATTATTTGGAATCTACATTATTTAAGGATG
128 AAGCTTTT-ATAATTTCGAATCTACACTATTTAAGGATG
* * * *
1133414 CTTGCATAGTTATCTCACAAGCTGAAGCATTATAGTTCCCTAGAAAAAGATTTTTCAACATTTTC
1 CTTGCATAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAAAAGATTTTTAAACATTTTC
* * * * ** * *
1133479 CCTCTATATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCCCAGTATTCGATTGAGGTCACAG
66 CATATATATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCACAGTATTAGATCCAGGGCAAAG
* *
1133544 CTTTTATAATTTCGAATCTACACTATTTGAGGGTG
131 CTTTTATAATTTCGAATCTACACTATTTAAGGATG
* * * * * *
1133579 CTTACGTAGTTATCTGACAAATTGATGCATTGTAGTTCTCGA-AAAGAAGATTTTTAAACATTTT
1 CTTGCATAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAA-AAGATTTTTAAACATTTT
1133643 CCATATATA
65 CCATATATA
1133652 CCGGTACTTC
Statistics
Matches: 197, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
164 3 0.02
165 138 0.70
166 51 0.26
167 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (165 bp):
CTTGCATAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAAAAGATTTTTAAACATTTTC
CATATATATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCACAGTATTAGATCCAGGGCAAAG
CTTTTATAATTTCGAATCTACACTATTTAAGGATG
Found at i:1134038 original size:4 final size:4
Alignment explanation
Indices: 1134029--1134078 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
1134019 AAAGTTTACA
* *
1134029 GACG GACG GACA GACA GACG GACG GACG GACG GACG GACG GAC- GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
1134076 GAC
1 GAC
1134079 AACGGGTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 3 0.07
4 40 0.93
ACGTcount: A:0.30, C:0.26, G:0.44, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:1142046 original size:18 final size:18
Alignment explanation
Indices: 1142025--1142060 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1142015 CATGTTGAAT
*
1142025 TTCTTTTTTACTAAAATG
1 TTCTTTTCTACTAAAATG
*
1142043 TTCTTTTCTACTTAAATG
1 TTCTTTTCTACTAAAATG
1142061 ACAAAAAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.56
Consensus pattern (18 bp):
TTCTTTTCTACTAAAATG
Found at i:1145274 original size:2 final size:2
Alignment explanation
Indices: 1145267--1145295 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1145257 CAGAAAATAA
1145267 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1145296 CGGGGTTATC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1145816 original size:84 final size:84
Alignment explanation
Indices: 1145675--1145848 Score: 339
Period size: 84 Copynumber: 2.1 Consensus size: 84
1145665 AACCTTTGTA
1145675 AAATTTTACAGTTATAACGAATTTGGTTATCACGAATTTACGGATATAGCAAACTGATTTTGAGT
1 AAATTTTACAGTTATAACGAATTTGGTTATCACGAATTTACGGATATAGCAAACTGATTTTGAGT
*
1145740 CCCATTGAAATTAATAACG
66 CCCATAGAAATTAATAACG
1145759 AAATTTTACAGTTATAACGAATTTGGTTATCACGAATTTACGGATATAGCAAACTGATTTTGAGT
1 AAATTTTACAGTTATAACGAATTTGGTTATCACGAATTTACGGATATAGCAAACTGATTTTGAGT
1145824 CCCATAGAAATTAATAACG
66 CCCATAGAAATTAATAACG
1145843 AAATTT
1 AAATTT
1145849 AACACTTTTA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (84 bp):
AAATTTTACAGTTATAACGAATTTGGTTATCACGAATTTACGGATATAGCAAACTGATTTTGAGT
CCCATAGAAATTAATAACG
Found at i:1161749 original size:166 final size:166
Alignment explanation
Indices: 1161313--1162598 Score: 1849
Period size: 167 Copynumber: 7.8 Consensus size: 166
1161303 GTGAATATGC
* * * * * * * *
1161313 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCAACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
*
1161378 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
*
1161443 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGC-T
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
*
1161478 AAAATAAACAAAGTAC-TCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * *
1161542 AATATGGCATGCCTTAACAAACACTGTGTTAAAAGTTTCAAGCATCTCCGATAAATAGCTGCTGA
65 AATATGGCATGCCTAAACAAATACTGTGTTAAAA-TTTCAAGCATCTGCGATAAACAGCTGCTGA
1161607 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
129 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* * * * * * *
1161645 AAAATAAACAAAGTCATTATTTAACAGGATGTTGACGTCTGATAGATACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* *
1161710 ATATGGCATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGA-AAACTAGCTGCTGAG
66 ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAAC-AGCTGCTGAG
*
1161774 AAATCTTTGACGAAAA----TTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* ** * *
1161807 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTTTGATTGGTACAAAAATACATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1161872 ATATAGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
*
1161937 AATCTTTGACGAAAA----TTTGAAAATTTTGGCTA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
*
1161969 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1162034 ATATGGCATGCCCT-AACAAACACTCTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
66 ATATGGCATG-CCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAG
*
1162098 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGG-CAA
* *
1162136 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* ** *
1162201 ATATGGCATGCCTAAACAAATAGTGAATTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
*
1162266 ATTCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* ** * *
1162302 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTTTGATTGGTACAAAAATACATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1162367 ATATAGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
*
1162432 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGG-CAA
* * *
1162469 AAAATAAGCAAAATCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1162534 ATATGGCATGCCTTAACAAACACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
1162599 TAAATGCGAC
Statistics
Matches: 1013, Mismatches: 94, Indels: 26
0.89 0.08 0.02
Matches are distributed among these distances:
162 292 0.29
163 7 0.01
165 88 0.09
166 273 0.27
167 353 0.35
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTAAACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
Found at i:1162426 original size:333 final size:332
Alignment explanation
Indices: 1161313--1162598 Score: 1885
Period size: 333 Copynumber: 3.9 Consensus size: 332
1161303 GTGAATATGC
* * * * * * * * * *
1161313 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCAACA
1 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
* *
1161378 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
1161443 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-AAAATAAACAAAGTAC-TCATTTAACAGG
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGT-CGTCATTTAACAGG
* *
1161506 AAGATGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTTAACAAACACTGTGT
195 AAGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTAAACAAACACTGTGT
*
1161571 TAAAAGTTTCAAGCATCTCCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
260 TAAAA-TTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
1161636 TTTTGGCAA
324 TTTTGGCAA
* * * * * * *
1161645 AAAATAAACAAAGTCATTATTTAACAGGATGTTGACGTCTGATAGATACAAAAATATATCCCACG
1 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
* * *
1161710 ATATGGCATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGA-AAACTAGCTGCTGAG
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAAC-AGCTGCTGAG
*
1161774 AAATCTTTGACGAAAA----TTTGAAAATTTTGGCTAAAAATAAACGAAGTCGTCATTTAACAGG
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTCGTCATTTAACAGG
** * * * * *
1161835 AAGTTGACGTTTGATTGGTACAAAAATACATCCCACGATATAGCATGCCTATACAAATACTGTGT
195 AAGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTAAACAAACACTGTGT
* * *
1161900 AAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAAATCTTTGACGAAAA----TTTGAAAAT
260 TAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAAT
*
1161961 TTTGGCTA
325 TTTGGCAA
*
1161969 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
1 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
* * *
1162034 ATATGGCATGCCCT-AACAAACACTCTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
66 ATATGGCATG-CCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAG
* *
1162098 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACAG
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-AAAAATAAACAAAGTCGTCATTTAACAG
* * * **
1162163 GAAGTTGACGTCCGATTGATACAAAAATATATCCCACAATATGGCATGCCTAAACAAATAGTGAA
194 GAAGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTAAACAAACACTGTG
*
1162228 TTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAATTCTTTGACGAAAATTTGTTTGAAAA
259 TTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
1162293 TTTTGGCAA
324 TTTTGGCAA
* * *
1162302 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTTTGATTGGTACAAAAATACATCCCACG
1 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
* * *
1162367 ATATAGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
* * *
1162432 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAATCGTCATTTAACAGG
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-AAAAATAAACAAAGTCGTCATTTAACAGG
* *
1162497 AAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTGT
195 AAGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTAAACAAACACTGTGT
*
1162562 TAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
260 TAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
1162599 TAAATGCGAC
Statistics
Matches: 859, Mismatches: 80, Indels: 29
0.89 0.08 0.03
Matches are distributed among these distances:
324 139 0.16
325 6 0.01
328 76 0.09
329 215 0.25
331 4 0.00
332 127 0.15
333 292 0.34
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (332 bp):
AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTCGTCATTTAACAGGA
AGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTAAACAAACACTGTGTT
AAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATT
TTGGCAA
Done.