Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 76 of 170
Found at i:23155759 original size:7 final size:7
Alignment explanation
Indices: 23155749--23155774 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23155739 CATAATACAT
23155749 AATACTA
1 AATACTA
23155756 AATACTA
1 AATACTA
23155763 AATACTA
1 AATACTA
23155770 AATAC
1 AATAC
23155775 CAATAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:23156956 original size:11 final size:11
Alignment explanation
Indices: 23156937--23157032 Score: 76
Period size: 11 Copynumber: 9.0 Consensus size: 11
23156927 GGATTTAAGA
23156937 GAAATTTGAGAG
1 GAAA-TTGAGAG
23156949 GAAATTGAGAG
1 GAAATTGAGAG
* *
23156960 TAAATTGAGAT
1 GAAATTGAGAG
*
23156971 TAAA-T-AG-G
1 GAAATTGAGAG
*
23156979 G-ATTTGAGA-
1 GAAATTGAGAG
*
23156988 GAAATTTAGAAG
1 GAAATTGAG-AG
23157000 GAAATTGAGAG
1 GAAATTGAGAG
*
23157011 CAAATTGAGAG
1 GAAATTGAGAG
*
23157022 GACATTGAGAG
1 GAAATTGAGAG
23157033 AATAATAGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 5 0.07
10 6 0.09
11 42 0.63
12 12 0.18
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:23156977 original size:51 final size:51
Alignment explanation
Indices: 23156921--23157020 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
23156911 AATAATTAAA
*
23156921 AAATAGGGATTTAAGAGAAATTT-GAGAGGAAATTGAGAGTAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
*
23156972 AAATAGGGATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
23157021 GGACATTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 44 0.96
52 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.28, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:23157899 original size:34 final size:33
Alignment explanation
Indices: 23157825--23157885 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
23157815 TCTAAAACAT
23157825 TTTATTATTAAATATTTATAAATTATAATATATA
1 TTTATTATTAAATA-TTATAAATTATAATATATA
23157859 TTTATTATTAAA-A-TA-AAATTATAATAT
1 TTTATTATTAAATATTATAAATTATAATAT
23157886 TAAATAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.44
31 2 0.07
33 1 0.04
34 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TTTATTATTAAATATTATAAATTATAATATATA
Found at i:23159805 original size:5 final size:5
Alignment explanation
Indices: 23159795--23159849 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
23159785 ATGGATGAAT
* *
23159795 AAATA AAAT- AAATA AAAT- AAAT- AAATA AAATA GAATA TAAATA AGATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAATA
23159843 AAGATA A
1 AA-ATA A
23159850 GGCAGGAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
4 12 0.29
5 22 0.52
6 8 0.19
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:23159806 original size:9 final size:9
Alignment explanation
Indices: 23159792--23159844 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
23159782 AAGATGGATG
23159792 AATAAATAA
1 AATAAATAA
23159801 AATAAATAA
1 AATAAATAA
23159810 AATAAAT-A
1 AATAAATAA
23159818 AATAAAATAGA
1 AAT-AAATA-A
23159829 ATATAAATAA
1 A-ATAAATAA
*
23159839 GATAAA
1 AATAAA
23159845 GATAAGGCAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 4 0.10
9 25 0.64
10 1 0.03
11 7 0.18
12 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
AATAAATAA
Found at i:23159810 original size:13 final size:13
Alignment explanation
Indices: 23159795--23159831 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
23159785 ATGGATGAAT
23159795 AAATAAAATAAATA
1 AAAT-AAATAAATA
23159809 AAATAAATAAATA
1 AAATAAATAAATA
23159822 AAATAGAATA
1 AAATA-AATA
23159832 TAAATAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:23173090 original size:36 final size:36
Alignment explanation
Indices: 23173043--23173226 Score: 205
Period size: 36 Copynumber: 5.2 Consensus size: 36
23173033 GAATACCAAC
*
23173043 AATAGTTGTGCCCTGCACTAGTCGAATAAATCGACA
1 AATAATTGTGCCCTGCACTAGTCGAATAAATCGACA
* ** *
23173079 AATAATTGTGCCCAGTGCTAGTCGGAT-AATCGAC-
1 AATAATTGTGCCCTGCACTAGTCGAATAAATCGACA
* * *
23173113 AATAGTTGTGACCTGCACTAGTCGAGTAAATCGACA
1 AATAATTGTGCCCTGCACTAGTCGAATAAATCGACA
** * * *
23173149 AATAATTGCACCCAGCACTAGACGAAT-AACCGAC-
1 AATAATTGTGCCCTGCACTAGTCGAATAAATCGACA
* *
23173183 AATAGTTGTGACCTGCACTAGTCGAATAAATCGACA
1 AATAATTGTGCCCTGCACTAGTCGAATAAATCGACA
23173219 AATAATTG
1 AATAATTG
23173227 CACCCAGCTC
Statistics
Matches: 116, Mismatches: 28, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
34 41 0.35
35 26 0.22
36 49 0.42
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (36 bp):
AATAATTGTGCCCTGCACTAGTCGAATAAATCGACA
Found at i:23173154 original size:70 final size:69
Alignment explanation
Indices: 23173041--23173256 Score: 333
Period size: 70 Copynumber: 3.1 Consensus size: 69
23173031 TCGAATACCA
* **
23173041 ACAATAGTTGTGCCCTGCACTAGTCGAATAAATCGACAAATAATTGTGCCCAGTGCTAGTCGGAT
1 ACAATAGTTGTGACCTGCACTAGTCGAATAAATCGACAAATAATTGCACCCAGT-CTAGTCGGAT
*
23173106 AATCG
65 AACCG
* * * *
23173111 ACAATAGTTGTGACCTGCACTAGTCGAGTAAATCGACAAATAATTGCACCCAGCACTAGACGAAT
1 ACAATAGTTGTGACCTGCACTAGTCGAATAAATCGACAAATAATTGCACCCAG-TCTAGTCGGAT
23173176 AACCG
65 AACCG
23173181 ACAATAGTTGTGACCTGCACTAGTCGAATAAATCGACAAATAATTGCACCCAGCTCTAGTCGGAT
1 ACAATAGTTGTGACCTGCACTAGTCGAATAAATCGACAAATAATTGCACCCAG-TCTAGTCGGAT
23173246 AACCG
65 AACCG
23173251 ACAATA
1 ACAATA
23173257 TCAATTACAC
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
70 133 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (69 bp):
ACAATAGTTGTGACCTGCACTAGTCGAATAAATCGACAAATAATTGCACCCAGTCTAGTCGGATA
ACCG
Found at i:23173242 original size:36 final size:36
Alignment explanation
Indices: 23173057--23173284 Score: 191
Period size: 36 Copynumber: 6.4 Consensus size: 36
23173047 GTTGTGCCCT
**
23173057 GCACTAGTCGAATAAATCGACAAATAATTGTGCCCA
1 GCACTAGTCGAATAAATCGACAAATAATTGCACCCA
** * * * *
23173093 GTGCTAGTCGGAT-AATCGAC-AATAGTTGTGA-CCT
1 GCACTAGTCGAATAAATCGACAAATAATTG-CACCCA
*
23173127 GCACTAGTCGAGTAAATCGACAAATAATTGCACCCA
1 GCACTAGTCGAATAAATCGACAAATAATTGCACCCA
* * * * *
23173163 GCACTAGACGAAT-AACCGAC-AATAGTTGTGA-CCT
1 GCACTAGTCGAATAAATCGACAAATAATTG-CACCCA
23173197 GCACTAGTCGAATAAATCGACAAATAATTGCACCCA
1 GCACTAGTCGAATAAATCGACAAATAATTGCACCCA
* * * *
23173233 GCTCTAGTCGGAT-AACCGACAATATCAATTACACCCA
1 GCACTAGTCGAATAAATCGACAA-AT-AATTGCACCCA
* *
23173270 GCTCTAGTCGGATAA
1 GCACTAGTCGAATAA
23173285 CCGACAATAT
Statistics
Matches: 152, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
34 39 0.26
35 37 0.24
36 52 0.34
37 23 0.15
38 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (36 bp):
GCACTAGTCGAATAAATCGACAAATAATTGCACCCA
Found at i:23173270 original size:37 final size:37
Alignment explanation
Indices: 23173200--23173296 Score: 144
Period size: 37 Copynumber: 2.6 Consensus size: 37
23173190 GTGACCTGCA
* * *
23173200 CTAGTCGAATAAATCGACAA-AT-AATTGCACCCAGCT
1 CTAGTCGGAT-AACCGACAATATCAATTACACCCAGCT
23173236 CTAGTCGGATAACCGACAATATCAATTACACCCAGCT
1 CTAGTCGGATAACCGACAATATCAATTACACCCAGCT
23173273 CTAGTCGGATAACCGACAATATCA
1 CTAGTCGGATAACCGACAATATCA
23173297 CATTCACATC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
35 8 0.14
36 11 0.20
37 37 0.66
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (37 bp):
CTAGTCGGATAACCGACAATATCAATTACACCCAGCT
Found at i:23174983 original size:5 final size:5
Alignment explanation
Indices: 23174973--23175001 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23174963 TATTCATTTC
23174973 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
23175002 TTAATCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:23186265 original size:18 final size:19
Alignment explanation
Indices: 23186242--23186278 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23186232 AAACTCCATC
23186242 TCCTCATCCTC-CTTTCTT
1 TCCTCATCCTCACTTTCTT
*
23186260 TCCTCATCTTCACTTTCTT
1 TCCTCATCCTCACTTTCTT
23186279 CACTTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.08, C:0.41, G:0.00, T:0.51
Consensus pattern (19 bp):
TCCTCATCCTCACTTTCTT
Found at i:23196732 original size:27 final size:27
Alignment explanation
Indices: 23196702--23196767 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
23196692 CATCCAAATG
23196702 TATTTAAATGTTAATGTGGTACTATTT
1 TATTTAAATGTTAATGTGGTACTATTT
23196729 TATTTAAATGTTAATGTGGTACTATTT
1 TATTTAAATGTTAATGTGGTACTATTT
*
23196756 TATCTTATATGT
1 TAT-TTAAATGT
23196768 CAGTAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 30 0.81
28 7 0.19
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (27 bp):
TATTTAAATGTTAATGTGGTACTATTT
Found at i:23197001 original size:23 final size:23
Alignment explanation
Indices: 23196971--23197021 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
23196961 GATTGAGCTC
23196971 GCATTAGTTTCAAGTTTTTGGAT
1 GCATTAGTTTCAAGTTTTTGGAT
23196994 GCATTAGTTTCAAGTTTTTGGAT
1 GCATTAGTTTCAAGTTTTTGGAT
23197017 GCATT
1 GCATT
23197022 TAAGTTCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.47
Consensus pattern (23 bp):
GCATTAGTTTCAAGTTTTTGGAT
Found at i:23197961 original size:15 final size:16
Alignment explanation
Indices: 23197941--23197973 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23197931 TGATGATTTT
*
23197941 AAAATAA-TTTTTTAA
1 AAAATAAGTATTTTAA
23197956 AAAATAAGTATTTTAA
1 AAAATAAGTATTTTAA
23197972 AA
1 AA
23197974 TTATTTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATAAGTATTTTAA
Found at i:23216301 original size:2 final size:2
Alignment explanation
Indices: 23216294--23216324 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23216284 AAAAGGTATA
23216294 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23216325 ACTTAAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23216896 original size:41 final size:41
Alignment explanation
Indices: 23216852--23217011 Score: 275
Period size: 41 Copynumber: 3.9 Consensus size: 41
23216842 CAGGTTTATT
*
23216852 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
* *
23216893 GCCGGTGAAACATTTTAGACTTTAAGTTTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
23216934 GCCGATGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
23216975 GCCGGTGAAACATTTCAGACTTTATGTCTAGCAGGCT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCT
23217012 AAGTGCCAGT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
Found at i:23218412 original size:53 final size:54
Alignment explanation
Indices: 23218330--23218439 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 54
23218320 TCGTGGCACT
* * * *
23218330 AAAGAATACCATATCGTGTAAGACCGTAACTGATGAGTTATGGCATCATAT-GG
1 AAAGAAGACCATATCATGTAAGACAGTAACTGAGGAGTTATGGCATCATATAGG
* * *
23218383 AAAGAAGACCATATCATGTAAGATAGTAACTGGGGGGTTATGGCATCATATAGG
1 AAAGAAGACCATATCATGTAAGACAGTAACTGAGGAGTTATGGCATCATATAGG
23218437 AAA
1 AAA
23218440 ATTTAAGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 44 0.90
54 5 0.10
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (54 bp):
AAAGAAGACCATATCATGTAAGACAGTAACTGAGGAGTTATGGCATCATATAGG
Found at i:23218673 original size:57 final size:57
Alignment explanation
Indices: 23218551--23218679 Score: 143
Period size: 57 Copynumber: 2.3 Consensus size: 57
23218541 AACACTAGTA
* * * * * * *
23218551 AAAGAACAGCCTTTATGGAAAAACTCTGAAAAGACAAGCCTTTGTGGCGAACCTGTT
1 AAAGGACAACCTTTATGGAAAAACTCTAAAAAGACAAGCCTTTCTGGAGAACATATT
* *
23218608 ACAGGACAACCTTTATGGAAAAACTCTAAAAA-AGCAAGCTTTTCTGGAGAACATATT
1 AAAGGACAACCTTTATGGAAAAACTCTAAAAAGA-CAAGCCTTTCTGGAGAACATATT
* *
23218665 AAATGACAACTTTTA
1 AAAGGACAACCTTTA
23218680 AAGCAAAACT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 1 0.02
57 58 0.98
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (57 bp):
AAAGGACAACCTTTATGGAAAAACTCTAAAAAGACAAGCCTTTCTGGAGAACATATT
Found at i:23220160 original size:23 final size:23
Alignment explanation
Indices: 23220125--23220169 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23220115 TGGAGTATAA
* *
23220125 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
23220148 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
23220170 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:23220787 original size:42 final size:42
Alignment explanation
Indices: 23220740--23220916 Score: 275
Period size: 42 Copynumber: 4.2 Consensus size: 42
23220730 TGCCTATCAA
*
23220740 GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
1 GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
* * *
23220782 GCTTAATGCCGGTGAAATAATTTCAGAATTTACGTCTAGCAG
1 GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
23220824 GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
1 GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
* * *
23220866 GCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAGCAG
1 GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
*
23220907 GCTAAATGCC
1 GCTTAATGCC
23220917 AGTGTACTGA
Statistics
Matches: 124, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 29 0.23
42 95 0.77
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
Found at i:23223132 original size:33 final size:33
Alignment explanation
Indices: 23223015--23223125 Score: 168
Period size: 33 Copynumber: 3.4 Consensus size: 33
23223005 ATATTATCTG
*
23223015 TTGGTGTGCTGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
* *
23223048 TTGGTGTGATAGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
* *
23223081 TTGGTGTGTTGGTTGGATTAGCTCTTCTGAGCA
1 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
*
23223114 TAGGTGTGCTGG
1 TTGGTGTGCTGG
23223126 AGGGATTGCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.39
Consensus pattern (33 bp):
TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
Found at i:23226826 original size:51 final size:49
Alignment explanation
Indices: 23226693--23226878 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
23226683 GTGAAAGTGA
* *
23226693 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * *
23226743 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * * *
23226793 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
*
23226843 GATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
23226879 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
50 44 0.39
51 69 0.61
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:23226956 original size:46 final size:44
Alignment explanation
Indices: 23226883--23226982 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 44
23226873 CTACTATGTG
*
23226883 AACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCC
1 AACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
* * *
23226926 AACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 AACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
23226973 -ACCGTGTATC
1 AACCG-GTATC
23226983 TGTTACTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.12
44 11 0.23
45 2 0.04
46 24 0.50
47 5 0.10
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
AACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:23227152 original size:37 final size:38
Alignment explanation
Indices: 23227083--23227155 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
23227073 ATGTATGGAA
* **
23227083 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
23227121 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
23227156 ATTATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:23249368 original size:16 final size:16
Alignment explanation
Indices: 23249328--23249369 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23249318 TTTGAATAAG
23249328 AGTTGTTCTATGGTAA
1 AGTTGTTCTATGGTAA
* *
23249344 TGTTTTTCT-TGGTAA
1 AGTTGTTCTATGGTAA
23249359 AGCTTGTTCTA
1 AG-TTGTTCTA
23249370 AATAATGACT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (16 bp):
AGTTGTTCTATGGTAA
Found at i:23250905 original size:9 final size:9
Alignment explanation
Indices: 23250891--23250927 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23250881 TATAGTTTGA
23250891 TATTCGAAT
1 TATTCGAAT
*
23250900 TATTCGACT
1 TATTCGAAT
*
23250909 TATTCGAGT
1 TATTCGAAT
23250918 TATTCGAAT
1 TATTCGAAT
23250927 T
1 T
23250928 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23250998 original size:9 final size:9
Alignment explanation
Indices: 23250981--23251011 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23250971 TCGAGTTGAT
23250981 TCGAATAAC
1 TCGAATAAC
*
23250990 TCGATTAAC
1 TCGAATAAC
23250999 TCGAATAAC
1 TCGAATAAC
23251008 TCGA
1 TCGA
23251012 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:23252212 original size:31 final size:32
Alignment explanation
Indices: 23252177--23252244 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
23252167 GCCATTGATG
23252177 AAAATAT-AAAAAATTTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTTAAAATTATTTTAAA
*
23252208 AAAATATAAAAAAATTTTGAAATTATTTTAAA
1 AAAATATAAAAAAATTTTAAAATTATTTTAAA
23252240 AAAAT
1 AAAAT
23252245 GAAATTGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 7 0.20
32 28 0.80
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (32 bp):
AAAATATAAAAAAATTTTAAAATTATTTTAAA
Found at i:23252303 original size:22 final size:22
Alignment explanation
Indices: 23252278--23252327 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
23252268 TAATATGGAT
*
23252278 TTGAGA-GATTTTTGGAATGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
23252300 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
23252322 TTGAGA
1 TTGAGA
23252328 TATGATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:23254960 original size:16 final size:16
Alignment explanation
Indices: 23254936--23255003 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
23254926 TTTGGTTCGC
23254936 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
23254952 TGTACTGGATTAGAGG
1 TGTATTGGATTAGAGG
23254968 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
23254984 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
23255000 TGTA
1 TGTA
23255004 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.01, G:0.37, T:0.34
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23255041 original size:45 final size:44
Alignment explanation
Indices: 23254984--23255078 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
23254974 GGATTAGAGG
* * * *
23254984 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGAAATAGAAGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
23255029 TGTAATGAAATAGAAGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGAAATAGAAGCGTAATAGCAAAACACTGTTTGGTTGAA
23255073 TGTAAT
1 TGTAAT
23255079 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (44 bp):
TGTAATGAAATAGAAGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:23255248 original size:25 final size:25
Alignment explanation
Indices: 23255216--23255270 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
23255206 TAATTTAATC
23255216 ATAT-TTAAACATAATTATT-ATT-AA
1 ATATATTAAACAT-ATT-TTAATTAAA
*
23255240 ATATATTAAATATATTTTAATTAAA
1 ATATATTAAACATATTTTAATTAAA
23255265 ATATAT
1 ATATAT
23255271 AATTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 10 0.37
25 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATATTAAACATATTTTAATTAAA
Found at i:23255270 original size:18 final size:17
Alignment explanation
Indices: 23255249--23255283 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23255239 AATATATTAA
*
23255249 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23255267 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23255284 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23255342 original size:61 final size:61
Alignment explanation
Indices: 23255277--23255464 Score: 161
Period size: 61 Copynumber: 3.1 Consensus size: 61
23255267 ATATAATTTA
* * *
23255277 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
** ** * * * ** * * *
23255338 ATAAAA--GATAAT-TTGAAATGATTAATAT-TAAATATATTTTAATTAAAATATATGAT-TT
1 ATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* *
23255396 AATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
23255458 ATAAAAT
1 ATAAAAT
23255465 ATAATTTAAC
Statistics
Matches: 91, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
58 2 0.02
59 34 0.37
60 12 0.13
61 40 0.44
62 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:23255457 original size:120 final size:120
Alignment explanation
Indices: 23255242--23255516 Score: 426
Period size: 120 Copynumber: 2.3 Consensus size: 120
23255232 ATTATTAAAT
*
23255242 ATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
1 ATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
* * *
23255307 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA-ATGATTA
66 TGAATTTACTAAAATCATAATATATAATACTATAAAAGATAATTT-AACATAATTA
* *
23255362 ATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATA
1 ATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
* *
23255427 TGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTAACATAATTA
66 TGAATTTACTAAAATCATAATATATAATACTATAAAAGATAATTTAACATAATTA
* ** *
23255482 TTATTAAATATAAGTTAATAAAAATATATAATTTA
1 ATATTAAATATATTTTAATTAAAATATATAATTTA
23255517 TCATCATACT
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
119 2 0.01
120 139 0.99
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATA
TGAATTTACTAAAATCATAATATATAATACTATAAAAGATAATTTAACATAATTA
Found at i:23261941 original size:30 final size:30
Alignment explanation
Indices: 23261907--23261979 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
23261897 ACAGGCTGCC
* * *
23261907 ACACGGCCATGTGTCCCACACTGTCCAATG
1 ACACGGCCATGTGCCCCACACGGTCAAATG
****
23261937 ACACGATTGTGTGCCCCACACGGTCAAATG
1 ACACGGCCATGTGCCCCACACGGTCAAATG
*
23261967 ACACAGCCATGTG
1 ACACGGCCATGTG
23261980 ATCCTTTAAA
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (30 bp):
ACACGGCCATGTGCCCCACACGGTCAAATG
Found at i:23262648 original size:24 final size:24
Alignment explanation
Indices: 23262621--23262698 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 24
23262611 GCAAATATGA
*
23262621 AAAGTGATAGAGGCACTATGGTGC
1 AAAGTGATAGTGGCACTATGGTGC
* **
23262645 AAAGTGATGGTGGCACTACAGTGC
1 AAAGTGATAGTGGCACTATGGTGC
* *
23262669 -AAGTGA-A-TGGTACTTTGGTGC
1 AAAGTGATAGTGGCACTATGGTGC
23262690 AAAGTGATA
1 AAAGTGATA
23262699 TCCACATGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 10 0.23
22 6 0.14
23 7 0.16
24 20 0.47
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (24 bp):
AAAGTGATAGTGGCACTATGGTGC
Found at i:23264018 original size:25 final size:25
Alignment explanation
Indices: 23263989--23264038 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
23263979 TGAGAAAAGA
*
23263989 AAAGTTTGAACTTGAGATAGTGAGT
1 AAAGTTTGAACTTGAGATAGCGAGT
*
23264014 AAAGTTTGAATTTGAGATAGCGAGT
1 AAAGTTTGAACTTGAGATAGCGAGT
23264039 GTTCAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (25 bp):
AAAGTTTGAACTTGAGATAGCGAGT
Found at i:23264350 original size:26 final size:26
Alignment explanation
Indices: 23264321--23264370 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
23264311 CTGTAGAGTT
23264321 AGTATAACCTAGAGGGAAGAACCAGG
1 AGTATAACCTAGAGGGAAGAACCAGG
23264347 AGTATAACCTAGAGGGAAGAACCA
1 AGTATAACCTAGAGGGAAGAACCA
23264371 TGAGACGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (26 bp):
AGTATAACCTAGAGGGAAGAACCAGG
Found at i:23288235 original size:16 final size:16
Alignment explanation
Indices: 23288214--23288260 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
23288204 TTGTGTTTTT
23288214 CTTATTTTTAACTTTA
1 CTTATTTTTAACTTTA
*
23288230 CTTATTTTATTACTTTA
1 CTTATTTT-TAACTTTA
23288247 -TTATTATTTAACTT
1 CTTATT-TTTAACTT
23288261 ATAATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTATTTTTAACTTTA
Found at i:23290423 original size:20 final size:18
Alignment explanation
Indices: 23290388--23290470 Score: 52
Period size: 18 Copynumber: 4.7 Consensus size: 18
23290378 GCAAGCCTAT
*
23290388 TAAATATGACTTATTAAA
1 TAAAAATGACTTATTAAA
23290406 TAAAAATGATCTTAATTAAAA
1 TAAAAATGA-CTT-ATT-AAA
** *
23290427 TAGCAA-G-CCTATTAAA
1 TAAAAATGACTTATTAAA
23290443 T----ATGACTTATTAAA
1 TAAAAATGACTTATTAAA
23290457 TAAAAATGATCTTA
1 TAAAAATGA-CTTA
23290471 ACTAAAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 19
0.68 0.07 0.26
Matches are distributed among these distances:
12 1 0.02
13 1 0.02
14 9 0.18
16 4 0.08
17 3 0.06
18 14 0.28
19 7 0.14
20 4 0.08
21 7 0.14
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.35
Consensus pattern (18 bp):
TAAAAATGACTTATTAAA
Found at i:23290437 original size:51 final size:51
Alignment explanation
Indices: 23290377--23290479 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
23290367 GTTTCATATA
*
23290377 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAATTAAAAT
1 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAACTAAAAT
23290428 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAACTAAAAT
1 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAACTAAAAT
23290479 A
1 A
23290480 TTATTTCAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (51 bp):
AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAACTAAAAT
Found at i:23296104 original size:21 final size:21
Alignment explanation
Indices: 23296054--23296118 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
23296044 TATTTATAAT
*
23296054 ATATTAAAATAATTTTAATTAAA
1 ATATTAAAAT--TTTTAATAAAA
23296077 ATAATTAAAATTTTTAA-AAATA
1 AT-ATTAAAATTTTTAATAAA-A
* * *
23296099 ATATTATATTTTTTATTAAA
1 ATATTAAAATTTTTAATAAA
23296119 CAAATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 13 0.37
22 12 0.34
23 2 0.06
24 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTAAAATTTTTAATAAAA
Found at i:23296400 original size:43 final size:43
Alignment explanation
Indices: 23296339--23296461 Score: 210
Period size: 43 Copynumber: 2.9 Consensus size: 43
23296329 GAAATAAACG
* *
23296339 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGTTAAAGACCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGACCAA
*
23296382 GACCTTTAGCGGCGCTTTTCCCACAAGCACCGCTAAAGACCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGACCAA
*
23296425 GACCTTTAGCGGCGCTTTTCACACAAGCGCCGCTAAA
1 GACCTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAA
23296462 TATATATCTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGACCAA
Found at i:23296497 original size:15 final size:16
Alignment explanation
Indices: 23296477--23296507 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23296467 ATCTTTAAAA
23296477 AAATAATTTTT-TTTC
1 AAATAATTTTTATTTC
23296492 AAATAATTTTTATTTC
1 AAATAATTTTTATTTC
23296508 TATGATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATAATTTTTATTTC
Found at i:23296776 original size:43 final size:43
Alignment explanation
Indices: 23296728--23296818 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
23296718 ACATATGCAA
* * *
23296728 GGTAATAAAACATAGAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATAGAATACATTTACTTAATCAAGGAAATCTT
* *
23296771 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATAGAATACATTTACTTAATCAAGGAAATCTT
23296814 -GTAAT
1 GGTAAT
23296819 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATAGAATACATTTACTTAATCAAGGAAATCTT
Found at i:23301184 original size:14 final size:14
Alignment explanation
Indices: 23301162--23301290 Score: 56
Period size: 14 Copynumber: 9.0 Consensus size: 14
23301152 ATCATAAAAC
23301162 ATAAGCCCTAAACCT
1 ATAA-CCCTAAACCT
23301177 ATAACCCTTAAACC-
1 ATAACCC-TAAACCT
* *
23301191 CTAACCTCTAACCCT
1 ATAACC-CTAAACCT
23301206 -TAACCCATAAACCT
1 ATAACCC-TAAACCT
* *
23301220 -TAAACCCCAACCCT
1 AT-AACCCTAAACCT
*
23301234 -TAAACCATAAACC-
1 AT-AACCCTAAACCT
* *
23301247 ATAATCCATAATCC-
1 ATAA-CCCTAAACCT
23301261 ATAATCCCTAAACAC-
1 ATAA-CCCTAAAC-CT
23301276 ATAATCCCTAAACCT
1 ATAA-CCCTAAACCT
23301291 TAAAATCATT
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.03
14 61 0.65
15 30 0.32
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.22
Consensus pattern (14 bp):
ATAACCCTAAACCT
Found at i:23301202 original size:21 final size:22
Alignment explanation
Indices: 23301167--23301219 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
23301157 AAAACATAAG
23301167 CCCTAAACCTATAACCCTTAAA
1 CCCTAAACCTATAACCCTTAAA
*
23301189 CCCT-AACCTCTAACCCTT-AA
1 CCCTAAACCTATAACCCTTAAA
23301209 CCCATAAACCT
1 CCC-TAAACCT
23301220 TAAACCCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 9 0.32
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.23
Consensus pattern (22 bp):
CCCTAAACCTATAACCCTTAAA
Found at i:23301231 original size:28 final size:28
Alignment explanation
Indices: 23301134--23301246 Score: 95
Period size: 28 Copynumber: 4.0 Consensus size: 28
23301124 CTTTACAAAT
* * *
23301134 CTTAAACCCCAACCCTGAA-TCATAAAA
1 CTTAAACCCCAACCCTTAACCCATAAAC
* * * * *
23301161 CATAAGCCCTAAACCTATAACCCTTAAAC
1 CTTAAACCCCAACCCT-TAACCCATAAAC
* *
23301190 CCT-AACCTCTAACCCTTAACCCATAAAC
1 CTTAAACC-CCAACCCTTAACCCATAAAC
*
23301218 CTTAAACCCCAACCCTTAAACCATAAAC
1 CTTAAACCCCAACCCTTAACCCATAAAC
23301246 C
1 C
23301247 ATAATCCATA
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
27 12 0.18
28 37 0.55
29 18 0.27
ACGTcount: A:0.41, C:0.38, G:0.02, T:0.19
Consensus pattern (28 bp):
CTTAAACCCCAACCCTTAACCCATAAAC
Found at i:23301237 original size:21 final size:21
Alignment explanation
Indices: 23301207--23301264 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
23301197 TCTAACCCTT
*
23301207 AACCCATAAACCTTAAACCCC
1 AACCCATAAACCATAAACCCC
* **
23301228 AACCCTTAAACCATAAACCAT
1 AACCCATAAACCATAAACCCC
* *
23301249 AATCCATAATCCATAA
1 AACCCATAAACCATAA
23301265 TCCCTAAACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCATAAACCATAAACCCC
Found at i:23301247 original size:7 final size:7
Alignment explanation
Indices: 23301210--23301294 Score: 53
Period size: 7 Copynumber: 12.0 Consensus size: 7
23301200 AACCCTTAAC
23301210 CCATAAA
1 CCATAAA
*
23301217 CCTTAAA
1 CCATAAA
** *
23301224 CCCCAAC
1 CCATAAA
*
23301231 CCTTAAA
1 CCATAAA
23301238 CCATAAA
1 CCATAAA
*
23301245 CCATAAT
1 CCATAAA
*
23301252 CCATAAT
1 CCATAAA
*
23301259 CCATAAT
1 CCATAAA
*
23301266 CCCTAAA
1 CCATAAA
*
23301273 CACATAAT
1 C-CATAAA
*
23301281 CCCTAAA
1 CCATAAA
*
23301288 CCTTAAA
1 CCATAAA
23301295 ATCATTTAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (7 bp):
CCATAAA
Found at i:23301294 original size:22 final size:22
Alignment explanation
Indices: 23301238--23301294 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
23301228 AACCCTTAAA
* *
23301238 CCATAAACCATAATC-CATAAT
1 CCATAAACCCTAAACACATAAT
*
23301259 CCATAATCCCTAAACACATAAT
1 CCATAAACCCTAAACACATAAT
* *
23301281 CCCTAAACCTTAAA
1 CCATAAACCCTAAA
23301295 ATCATTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAACCCTAAACACATAAT
Found at i:23302119 original size:41 final size:41
Alignment explanation
Indices: 23302064--23302461 Score: 467
Period size: 41 Copynumber: 9.9 Consensus size: 41
23302054 CCTGAGCATT
* *
23302064 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
*
23302105 ATTAGCGGCGCTTTCCCCAAAACG-C-C---A----TGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* ** * *
23302137 ATTAGCGACGCTTTCCTGAAAACGCCCCTAAAGCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* * *
23302178 ATTAGCGGCGCTTTACCAAAAACGTCGCTAAAGCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* * *
23302219 ATTAGCGACGCTTT-CCAACAAACGCCGCTAAAGCCCTAGGA
1 ATTAGCGGCGCTTTCCCAA-AAACGCCGCTAAAGCCCTGGGC
*
23302260 ATTAGCGGCGCTTTCCCAAAAACGCCTCTAAAGCCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* **
23302301 ATCAGCGGCGCTTTCCCAAAAATACCGCTAAAGCCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
*
23302342 ATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* * *
23302383 ATTAGTGGCGC-TTCCTCAAAAATGCCGCTAAAGCCCTGAGC
1 ATTAGCGGCGCTTTCC-CAAAAACGCCGCTAAAGCCCTGGGC
** * *
23302424 ATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCTG
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTG
23302462 AAAGCTCACA
Statistics
Matches: 308, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
32 26 0.08
33 1 0.00
34 1 0.00
36 1 0.00
37 1 0.00
39 1 0.00
40 8 0.03
41 262 0.85
42 7 0.02
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
Found at i:23302141 original size:32 final size:32
Alignment explanation
Indices: 23302100--23302162 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
23302090 GCTAAAGGCC
*
23302100 TGGGCATTAGCGGCGCTTTCCCCAAAACGCCA
1 TGGGCATTAGCGACGCTTTCCCCAAAACGCCA
**
23302132 TGGGCATTAGCGACGCTTTCCTGAAAACGCC
1 TGGGCATTAGCGACGCTTTCCCCAAAACGCC
23302163 CCTAAAGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (32 bp):
TGGGCATTAGCGACGCTTTCCCCAAAACGCCA
Found at i:23302522 original size:39 final size:39
Alignment explanation
Indices: 23302471--23302586 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 39
23302461 GAAAGCTCAC
* * *
23302471 AAAA-CGCGGCTAATGCTTATTTTTAGCGGCGTTTTTCG
1 AAAAGCGCCGCTAATGCTTATCTTTAGCGGCGTTTTTCA
* * *
23302509 TAAAGCGCCGCTAAAT-CTCAATCTTTAGCGGCGTTTTCCA
1 AAAAGCGCCGCT-AATGCT-TATCTTTAGCGGCGTTTTTCA
*
23302549 AAAAGCGCCACTAATGCTTGATCTTTAGCGGCGTTTTT
1 AAAAGCGCCGCTAATGCTT-ATCTTTAGCGGCGTTTTT
23302587 TTATCCAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
38 3 0.05
39 11 0.17
40 49 0.78
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTTATCTTTAGCGGCGTTTTTCA
Found at i:23303909 original size:22 final size:22
Alignment explanation
Indices: 23303884--23303930 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
23303874 TTGAGATACT
23303884 TTTATTCACGATTATGAACTGA
1 TTTATTCACGATTATGAACTGA
*
23303906 TTTATTCATGATTATGAACTGA
1 TTTATTCACGATTATGAACTGA
23303928 TTT
1 TTT
23303931 TCTAAATACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.47
Consensus pattern (22 bp):
TTTATTCACGATTATGAACTGA
Found at i:23304749 original size:13 final size:12
Alignment explanation
Indices: 23304733--23304777 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
23304723 TTAATATTTG
*
23304733 TTTTTGATTTAA
1 TTTTTTATTTAA
23304745 TTTTTATATTCTAA
1 TTTTT-TATT-TAA
*
23304759 TTTTTTATTTAT
1 TTTTTTATTTAA
23304771 TTTTTTA
1 TTTTTTA
23304778 CTTCTGGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 14 0.48
13 7 0.24
14 8 0.28
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:23308193 original size:27 final size:27
Alignment explanation
Indices: 23308163--23308273 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
23308153 AAAGAAAAGC
*
23308163 CTTTGTGGCGAACTATAAAAGAGTAGT
1 CTTTGTGGCGAAATATAAAAGAGTAGT
23308190 CTTTGTGGCGAAATATAAAAGAGTAGT
1 CTTTGTGGCGAAATATAAAAGAGTAGT
* * *
23308217 CTTTGTGGCAAAATATGAAAGAGTAGC
1 CTTTGTGGCGAAATATAAAAGAGTAGT
* * *
23308244 CTTTGTGGCAAAATATGAAAGA-TAGC
1 CTTTGTGGCGAAATATAAAAGAGTAGT
23308270 CTTT
1 CTTT
23308274 ATGGTGAACC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
26 8 0.10
27 72 0.90
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (27 bp):
CTTTGTGGCGAAATATAAAAGAGTAGT
Found at i:23315199 original size:12 final size:12
Alignment explanation
Indices: 23315182--23315207 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23315172 AAAGTTACAT
23315182 GGCCTAGCACAC
1 GGCCTAGCACAC
23315194 GGCCTAGCACAC
1 GGCCTAGCACAC
23315206 GG
1 GG
23315208 GCGTGTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:23320148 original size:18 final size:18
Alignment explanation
Indices: 23320125--23320160 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23320115 CTTACCGTAA
23320125 GAGTTAGAAAAGGTTCAC
1 GAGTTAGAAAAGGTTCAC
23320143 GAGTTAGAAAAGGTTCAC
1 GAGTTAGAAAAGGTTCAC
23320161 AATGTATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (18 bp):
GAGTTAGAAAAGGTTCAC
Found at i:23323823 original size:27 final size:27
Alignment explanation
Indices: 23323793--23323851 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
23323783 ACACTCAAAA
* *
23323793 TTTTCAAAAGCAGTTTTCTAAAACACTT
1 TTTTCAAAA-CACTTTTCAAAAACACTT
*
23323821 TTTTCACAACACTTTTCAAAAACACTT
1 TTTTCAAAACACTTTTCAAAAACACTT
23323848 TTTT
1 TTTT
23323852 AACTTCAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTTCAAAACACTTTTCAAAAACACTT
Found at i:23323838 original size:12 final size:13
Alignment explanation
Indices: 23323793--23323849 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
23323783 ACACTCAAAA
* *
23323793 TTTTCAAAAGCAG
1 TTTTCAAAAACAC
*
23323806 TTTTCTAAAACAC
1 TTTTCAAAAACAC
*
23323819 TTTTTTC-ACAACAC
1 --TTTTCAAAAACAC
23323833 TTTTCAAAAACAC
1 TTTTCAAAAACAC
23323846 TTTT
1 TTTT
23323850 TTAACTTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 5 0.14
13 20 0.56
14 6 0.17
15 5 0.14
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:23325443 original size:15 final size:16
Alignment explanation
Indices: 23325425--23325456 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23325415 TTTAGTTATT
23325425 TATGATTTAGC-TTTA
1 TATGATTTAGCATTTA
23325440 TATGATTTAGCATTTA
1 TATGATTTAGCATTTA
23325456 T
1 T
23325457 TAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (16 bp):
TATGATTTAGCATTTA
Found at i:23342764 original size:32 final size:31
Alignment explanation
Indices: 23342714--23342809 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
23342704 CTTAGATAAT
23342714 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
23342745 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
23342777 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
23342808 TT
1 TT
23342810 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:23348459 original size:28 final size:27
Alignment explanation
Indices: 23348427--23348490 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
23348417 AAGAACATAC
23348427 TAAAAACATGTAATAGACTAAGACAAAT
1 TAAAAACATGTAATAG-CTAAGACAAAT
* * *
23348455 TAAAAACATGTACTAGCTATGACATAT
1 TAAAAACATGTAATAGCTAAGACAAAT
23348482 T-AAAACATG
1 TAAAAACATG
23348491 CATTAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.24
27 10 0.30
28 15 0.45
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (27 bp):
TAAAAACATGTAATAGCTAAGACAAAT
Found at i:23350447 original size:18 final size:17
Alignment explanation
Indices: 23350426--23350483 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
23350416 ACTCTCAATC
23350426 TCTTTTTCTTTTTTGATT
1 TCTTTTTCTTTTTT-ATT
* *
23350444 TCTTTTTCTTTCATT-TC
1 TCTTTTTCTTT-TTTATT
23350461 TCTTTTTC-TTTTTATT
1 TCTTTTTCTTTTTTATT
23350477 TCTTTTT
1 TCTTTTT
23350484 GACTCATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 9 0.26
18 11 0.32
19 2 0.06
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTTTTTATT
Found at i:23350491 original size:33 final size:35
Alignment explanation
Indices: 23350424--23350491 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 35
23350414 TCACTCTCAA
**
23350424 TCTCTTTTTCTTTTTTGATTTCTTTTTCTTTCATT
1 TCTCTTTTTCTTTTTTGATTTCTTTTTCACTCATT
*
23350459 TCTCTTTTTC-TTTTT-ATTTCTTTTTGACTCATT
1 TCTCTTTTTCTTTTTTGATTTCTTTTTCACTCATT
23350492 CTTTCACTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 15 0.50
34 5 0.17
35 10 0.33
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (35 bp):
TCTCTTTTTCTTTTTTGATTTCTTTTTCACTCATT
Found at i:23351057 original size:43 final size:43
Alignment explanation
Indices: 23350996--23351082 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
23350986 GGTTTAGACA
23350996 AAACTTCATCATCCACAATCCTTTTGAAACTTCATGACATAGT
1 AAACTTCATCATCCACAATCCTTTTGAAACTTCATGACATAGT
*
23351039 AAACTTCATCATCCACAATCCTTTTGGAACTTCATGACATAGT
1 AAACTTCATCATCCACAATCCTTTTGAAACTTCATGACATAGT
23351082 A
1 A
23351083 TATATATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.32
Consensus pattern (43 bp):
AAACTTCATCATCCACAATCCTTTTGAAACTTCATGACATAGT
Found at i:23351533 original size:23 final size:23
Alignment explanation
Indices: 23351499--23351550 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
23351489 GAATGTATAC
23351499 TTTTTTTGTTCACGA-TTTTTTAAA
1 TTTTTTTGTTCA--ATTTTTTTAAA
*
23351523 TTTTTTT-TTCAATTTTTTTGAA
1 TTTTTTTGTTCAATTTTTTTAAA
23351545 TTTTTT
1 TTTTTT
23351551 GTCAAATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 14 0.54
23 4 0.15
24 7 0.27
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (23 bp):
TTTTTTTGTTCAATTTTTTTAAA
Found at i:23351555 original size:21 final size:22
Alignment explanation
Indices: 23351514--23351555 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23351504 TTGTTCACGA
*
23351514 TTTTTTAAATTTTTTTTTCAAT
1 TTTTTTAAATTTTTTTGTCAAT
*
23351536 TTTTTTGAA-TTTTTTGTCAA
1 TTTTTTAAATTTTTTTGTCAA
23351556 ATACTTACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTTTAAATTTTTTTGTCAAT
Found at i:23352910 original size:28 final size:27
Alignment explanation
Indices: 23352878--23352937 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
23352868 AAGAACATAC
23352878 TAAAAACATGTAATATACTAAGACAAAT
1 TAAAAACATGTAATAT-CTAAGACAAAT
* * *
23352906 TAAAAACATGTACTATCTATGACATAT
1 TAAAAACATGTAATATCTAAGACAAAT
23352933 TAAAA
1 TAAAA
23352938 CACGCATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (27 bp):
TAAAAACATGTAATATCTAAGACAAAT
Found at i:23354079 original size:137 final size:138
Alignment explanation
Indices: 23353829--23354085 Score: 313
Period size: 137 Copynumber: 1.9 Consensus size: 138
23353819 GCTATAAGAT
* * *
23353829 GGTCTGCTCACACAAGCTAATGGTCGGAATGTAAACTACACAATGCTGCTCGCACAAGCTAATGA
1 GGTCTGCTCACACAAGCTAACGGTCAGAATGTAAACTACACAATGCTGCTCACACAAGCTAATGA
* * ** * **
23353894 GTATCTATAACTAATGTCGAACCTCAGCCATCAGTAGGACATTTAGGACCAGCACCCAAAACATG
66 GTATCCACAAAAAATGTCGAAACTCAGCCATCAGTAGGACATCCAGGACCAGCACCCAAAACATG
23353959 GCAACCTG
131 GCAACCTG
* * * * *
23353967 GGTCTGCTCACACGAGCTGACGGTCAGAATGT-AGCTACACGATG-TCGCTCACACAAGCTGATG
1 GGTCTGCTCACACAAGCTAACGGTCAGAATGTAAACTACACAATGCT-GCTCACACAAGCTAATG
* * *
23354030 AGTATCCGCAAAAAATG-CTGAAACTTAGCCATCTGTAGGACATCCAGGACCAGCAC
65 AGTATCCACAAAAAATGTC-GAAACTCAGCCATCAGTAGGACATCCAGGACCAGCAC
23354086 TTGAAATAAG
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
136 2 0.02
137 69 0.70
138 28 0.28
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (138 bp):
GGTCTGCTCACACAAGCTAACGGTCAGAATGTAAACTACACAATGCTGCTCACACAAGCTAATGA
GTATCCACAAAAAATGTCGAAACTCAGCCATCAGTAGGACATCCAGGACCAGCACCCAAAACATG
GCAACCTG
Found at i:23356505 original size:17 final size:17
Alignment explanation
Indices: 23356475--23356519 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
23356465 TACAAAGCTG
* *
23356475 AATAGTTTTGTTGTTGAA
1 AATATTTTTTTTG-TGAA
23356493 AAT-TTTTTTTTGTGAA
1 AATATTTTTTTTGTGAA
23356509 AATATTTTTTT
1 AATATTTTTTT
23356520 AAAATTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 14 0.58
18 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (17 bp):
AATATTTTTTTTGTGAA
Found at i:23359223 original size:27 final size:27
Alignment explanation
Indices: 23359159--23359367 Score: 185
Period size: 27 Copynumber: 7.8 Consensus size: 27
23359149 TTGATCGATT
* *
23359159 TACCCCCATAGGGTAAAATGACCGTAA
1 TACCCCTATAGGGTAAAATGACAGTAA
* * *
23359186 TA-TCCTGTAGGGTTAAATGACAGTAA
1 TACCCCTATAGGGTAAAATGACAGTAA
* *
23359212 TACCCCTATAGGGTAAAATGGCCGTAA
1 TACCCCTATAGGGTAAAATGACAGTAA
*
23359239 TACCCCTGTAGGGTAAAATGACTA-TAA
1 TACCCCTATAGGGTAAAATGAC-AGTAA
* * * *
23359266 TAACCCTGTAAGGTAAAATGACTGTAA
1 TACCCCTATAGGGTAAAATGACAGTAA
* * *
23359293 TGCCCCTGTAGGGTAAAATGCCCA-TAA
1 TACCCCTATAGGGTAAAATG-ACAGTAA
*
23359320 TACCCCTATAGGGTTAAATGACCA-TAA
1 TACCCCTATAGGGTAAAATGA-CAGTAA
* * *
23359347 TGCCCTTAGAGGGT-AAATGAC
1 TACCCCTATAGGGTAAAATGAC
23359368 TATTTTGCCC
Statistics
Matches: 149, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 27 0.18
27 120 0.81
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCCCTATAGGGTAAAATGACAGTAA
Found at i:23359281 original size:54 final size:54
Alignment explanation
Indices: 23359159--23359370 Score: 243
Period size: 54 Copynumber: 4.0 Consensus size: 54
23359149 TTGATCGATT
* * *
23359159 TACCCCCATAGGGTAAAATGACCGTAATA-TCCTGTAGGGTTAAATGAC-AGTAA
1 TACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTA-TAA
*
23359212 TACCCCTATAGGGTAAAATGGCCGTAATACCCCTGTAGGGTAAAATGACTATAA
1 TACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTATAA
* * * * * * *
23359266 TAACCCTGTAAGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGCCCATAA
1 TACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTATAA
* * * *
23359320 TACCCCTATAGGGTTAAATGACCATAATGCCCTTAG-AGGGT-AAATGACTAT
1 TACCCCTATAGGGTAAAATGACCGTAATACCCCT-GTAGGGTAAAATGACTAT
23359371 TTTGCCCCTC
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 35 0.26
54 98 0.73
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (54 bp):
TACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTATAA
Found at i:23359305 original size:81 final size:80
Alignment explanation
Indices: 23359159--23359352 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 80
23359149 TTGATCGATT
* * * * *
23359159 TACCCCCATAGGGTAAAATGACCGTAATATCCTGTAGGGTTAAATGACAGTAATACCCCTATAGG
1 TACCCCTATAGGGTAAAATGACCATAATACCCTGTAAGGTAAAATGACAGTAATACCCCTATAGG
* *
23359224 GTAAAATGGCCGTAA
66 GTAAAATGCCCATAA
* * * * *
23359239 TACCCCTGTAGGGTAAAATGACTATAATAACCCTGTAAGGTAAAATGACTGTAATGCCCCTGTAG
1 TACCCCTATAGGGTAAAATGACCATAAT-ACCCTGTAAGGTAAAATGACAGTAATACCCCTATAG
23359304 GGTAAAATGCCCATAA
65 GGTAAAATGCCCATAA
* *
23359320 TACCCCTATAGGGTTAAATGACCATAATGCCCT
1 TACCCCTATAGGGTAAAATGACCATAATACCCT
23359353 TAGAGGGTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 28 0.29
81 69 0.71
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (80 bp):
TACCCCTATAGGGTAAAATGACCATAATACCCTGTAAGGTAAAATGACAGTAATACCCCTATAGG
GTAAAATGCCCATAA
Found at i:23359376 original size:26 final size:26
Alignment explanation
Indices: 23359194--23359394 Score: 104
Period size: 27 Copynumber: 7.5 Consensus size: 26
23359184 AATATCCTGT
* *
23359194 AGGGTTAAATGAC-AGTAATACCCCTAT
1 AGGG-TAAATGACTA-TAATGCCCCTAG
* ** *
23359221 AGGGTAAAATGGCCGTAATACCCCT-G
1 AGGGT-AAATGACTATAATGCCCCTAG
**
23359247 TAGGGTAAAATGACTATAATAACCCT-G
1 -AGGGT-AAATGACTATAATGCCCCTAG
* *
23359274 TAAGGTAAAATGACTGTAATGCCCCT-G
1 -AGGGT-AAATGACTATAATGCCCCTAG
* * * *
23359301 TAGGGTAAAATGCCCATAATACCCCTAT
1 -AGGGT-AAATGACTATAATGCCCCTAG
* *
23359329 AGGGTTAAATGACCATAATGCCCTTAG
1 AGGG-TAAATGACTATAATGCCCCTAG
** *
23359356 AGGGTAAATGACTATTTTGCCCCTCG
1 AGGGTAAATGACTATAATGCCCCTAG
*
23359382 AGTGTAAATGACT
1 AGGGTAAATGACT
23359395 GAATTTTCTG
Statistics
Matches: 142, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
26 30 0.21
27 111 0.78
28 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (26 bp):
AGGGTAAATGACTATAATGCCCCTAG
Found at i:23359547 original size:27 final size:27
Alignment explanation
Indices: 23359491--23359548 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23359481 GGAAGTATTG
* *
23359491 TACTGGTGGCTTTGCCACAATCACTGT
1 TACTGGTGGCTTGGCCACAATCACTAT
*
23359518 TACTGGTGGCTTGGCCACGTAT-ACTAT
1 TACTGGTGGCTTGGCCAC-AATCACTAT
23359545 TACT
1 TACT
23359549 ACCAGCTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TACTGGTGGCTTGGCCACAATCACTAT
Found at i:23359609 original size:32 final size:32
Alignment explanation
Indices: 23359566--23359738 Score: 170
Period size: 32 Copynumber: 5.4 Consensus size: 32
23359556 TTGTTGCGAT
23359566 GTTACTGATGGCTTTGTGCCGATCATATTATC
1 GTTACTGATGGCTTTGTGCCGATCATATTATC
* *
23359598 GTTACTCATGGCTTTGTGCCGATCATATTAAC
1 GTTACTGATGGCTTTGTGCCGATCATATTATC
* * ** *
23359630 ATTATTGATGATTTTGTGCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTATC
* * * * * *
23359662 GCTACGGATGGCTATGTTCTGATCATATCA-C
1 GTTACTGATGGCTTTGTGCCGATCATATTATC
* * *
23359693 TGTTACTGATGGCTTTGTTCCAATCATATTATT
1 -GTTACTGATGGCTTTGTGCCGATCATATTATC
*
23359726 G-TACTTATGGCTT
1 GTTACTGATGGCTT
23359739 GTAGTCATTC
Statistics
Matches: 113, Mismatches: 26, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
31 12 0.11
32 101 0.89
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCGATCATATTATC
Found at i:23359866 original size:29 final size:26
Alignment explanation
Indices: 23359797--23359859 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
23359787 CCATTCTGGC
*
23359797 TACTGGCAGCTCTGTTGTATTATTAA
1 TACTGGCAGCTCTGCTGTATTATTAA
*
23359823 TACTGGCAGCTCTGCTGTATTATTAC
1 TACTGGCAGCTCTGCTGTATTATTAA
*
23359849 TACTGGTAGCT
1 TACTGGCAGCT
23359860 ATCCTGCGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
TACTGGCAGCTCTGCTGTATTATTAA
Found at i:23362200 original size:20 final size:20
Alignment explanation
Indices: 23362175--23362239 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
23362165 AAACTCAAAC
*
23362175 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGTGAGCTAAATT
**
23362195 GAGCTAAAACGAGCTAAATT
1 GAGCTAAAGTGAGCTAAATT
* * * *
23362215 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGTGAGCTAAATT
23362235 GAGCT
1 GAGCT
23362240 GGGAAAAACT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (20 bp):
GAGCTAAAGTGAGCTAAATT
Found at i:23362207 original size:30 final size:30
Alignment explanation
Indices: 23362171--23362239 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
23362161 AGCCAAACTC
23362171 AAACGAGCTAAAGTAAGCTAAAT-TGAGCTA
1 AAACGAGCTAAAGTAAGCT-AATGTGAGCTA
* *
23362201 AAACGAGCTAAATTAAGCTCATGTGAGCTA
1 AAACGAGCTAAAGTAAGCTAATGTGAGCTA
*
23362231 AATCGAGCT
1 AAACGAGCT
23362240 GGGAAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (30 bp):
AAACGAGCTAAAGTAAGCTAATGTGAGCTA
Found at i:23363975 original size:48 final size:48
Alignment explanation
Indices: 23363921--23364026 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
23363911 TTGTCTTTTC
*
23363921 TTTCTTTTTCAATTTTCTATT-T-TTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAA-TTTCT-TTCTCTTCCTCACATCCTTT-TTCAATCTCAA
* **
23363969 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTTTCTCTTCCTCACATCCTTTTTCAATCTCAA
23364017 TTTCTTTTTC
1 TTTCTTTTTC
23364027 CATGACACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
46 2 0.04
47 6 0.12
48 39 0.76
49 4 0.08
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTTTCTCTTCCTCACATCCTTTTTCAATCTCAA
Found at i:23365090 original size:14 final size:14
Alignment explanation
Indices: 23365073--23365135 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
23365063 TTTAACTTGA
23365073 TTTTTTTTGCTCAC
1 TTTTTTTTGCTCAC
* **
23365087 TTTTTTTTTCTTTC
1 TTTTTTTTGCTCAC
23365101 TTTTTTTTTGCTCGA-
1 -TTTTTTTTGCTC-AC
23365116 -TTTTTTT--TCAC
1 TTTTTTTTGCTCAC
23365127 TTTTTTTTG
1 TTTTTTTTG
23365136 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
10 1 0.03
11 2 0.05
12 7 0.18
13 7 0.18
14 11 0.29
15 10 0.26
ACGTcount: A:0.05, C:0.14, G:0.06, T:0.75
Consensus pattern (14 bp):
TTTTTTTTGCTCAC
Found at i:23365091 original size:15 final size:15
Alignment explanation
Indices: 23365073--23365123 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
23365063 TTTAACTTGA
23365073 TTTTTTTTGCTCACT
1 TTTTTTTTGCTCACT
**
23365088 TTTTTTTT-CTTTCT
1 TTTTTTTTGCTCACT
23365102 TTTTTTTTGCTCGA-T
1 TTTTTTTTGCTC-ACT
23365117 TTTTTTT
1 TTTTTTT
23365124 CACTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTTTTGCTCACT
Found at i:23365133 original size:29 final size:28
Alignment explanation
Indices: 23365054--23365134 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
23365044 GCAAGACTTT
**
23365054 TCACTTTTTTTTAACTTGATTTTTTTTGC
1 TCACTTTTTTTT-ACTTTTTTTTTTTTGC
*
23365083 TCACTTTTTTTTTCTTTCTTTTTTTTTGC
1 TCACTTTTTTTTACTTT-TTTTTTTTTGC
23365112 TCGA-TTTTTTTTCACTTTTTTTT
1 TC-ACTTTTTTTT-ACTTTTTTTT
23365135 GATTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 3 0.07
29 37 0.82
30 5 0.11
ACGTcount: A:0.09, C:0.15, G:0.05, T:0.72
Consensus pattern (28 bp):
TCACTTTTTTTTACTTTTTTTTTTTTGC
Found at i:23374275 original size:19 final size:20
Alignment explanation
Indices: 23374251--23374288 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23374241 GTAAAGATTA
23374251 AAAAATACTTG-AAATTTTT
1 AAAAATACTTGTAAATTTTT
*
23374270 AAAAATTCTTGTAAATTTT
1 AAAAATACTTGTAAATTTT
23374289 GCTTTACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAAATACTTGTAAATTTTT
Found at i:23379232 original size:20 final size:20
Alignment explanation
Indices: 23379207--23379244 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23379197 CGTAATATGA
*
23379207 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
23379227 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
23379245 TTGGAAAATA
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:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:23379241 original size:34 final size:35
Alignment explanation
Indices: 23379192--23379258 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
23379182 CAGTAAAATG
* *
23379192 TTTTCCGTAATATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
23379226 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
23379259 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:23382222 original size:37 final size:37
Alignment explanation
Indices: 23382172--23382243 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
23382162 CTTATTTTTT
23382172 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
1 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
23382209 CCATTAGATTAGAATTCACTAACTATTTAATTAAT
1 CCATTAGATTAGAATTCACTAACTATTTAATTAAT
23382244 TATGACTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (37 bp):
CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
Found at i:23383871 original size:44 final size:44
Alignment explanation
Indices: 23383808--23383909 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
23383798 TGTAGGCTTT
* *
23383808 CAAAAAATGCTCAAATCACCTAAACTCAAAATACTAAGTCATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAATACCAAGTCATCC
* * * *
23383852 CAAAACATGCTGATATCACCTAAACTCAAAATACCGAGTTATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAATACCAAGTCATCC
23383896 CAAAACATGCTCAA
1 CAAAACATGCTCAA
23383910 TATCTCTACT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.21
Consensus pattern (44 bp):
CAAAACATGCTCAAATCACCTAAACTCAAAATACCAAGTCATCC
Found at i:23384267 original size:14 final size:14
Alignment explanation
Indices: 23384250--23384282 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23384240 GTGGAGGACC
23384250 GGAGGTGGACCGGT
1 GGAGGTGGACCGGT
*
23384264 GGAGGTGGATCGGT
1 GGAGGTGGACCGGT
23384278 GGAGG
1 GGAGG
23384283 ACGGAGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.61, T:0.15
Consensus pattern (14 bp):
GGAGGTGGACCGGT
Found at i:23385239 original size:21 final size:22
Alignment explanation
Indices: 23385215--23385255 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23385205 AACTCCTGAA
*
23385215 AATAAATAACAAA-AATTAAAG
1 AATAAAAAACAAAGAATTAAAG
*
23385236 AATAAAAAATAAAGAATTAA
1 AATAAAAAACAAAGAATTAA
23385256 TTAGTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (22 bp):
AATAAAAAACAAAGAATTAAAG
Found at i:23385252 original size:14 final size:14
Alignment explanation
Indices: 23385213--23385252 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23385203 TAAACTCCTG
* *
23385213 AAAATAAATAACAA
1 AAAATAAAGAATAA
*
23385227 AAATTAAAGAATAA
1 AAAATAAAGAATAA
23385241 AAAATAAAGAAT
1 AAAATAAAGAAT
23385253 TAATTAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (14 bp):
AAAATAAAGAATAA
Found at i:23385610 original size:32 final size:32
Alignment explanation
Indices: 23385574--23385638 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
23385564 ATCTAAGTAT
23385574 GATAATTAATTAAAATGTATGAGATGAATTTA
1 GATAATTAATTAAAATGTATGAGATGAATTTA
23385606 GATAATTAATTAAAATGTATGAGATGAATTTA
1 GATAATTAATTAAAATGTATGAGATGAATTTA
23385638 G
1 G
23385639 CAGCAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (32 bp):
GATAATTAATTAAAATGTATGAGATGAATTTA
Found at i:23385937 original size:21 final size:21
Alignment explanation
Indices: 23385911--23385952 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23385901 GATAATAGAG
23385911 TTCGTTAAAGTTATTATGAAC
1 TTCGTTAAAGTTATTATGAAC
23385932 TTCGTTAAAGTTATTATGAAC
1 TTCGTTAAAGTTATTATGAAC
23385953 CTTTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
TTCGTTAAAGTTATTATGAAC
Found at i:23389086 original size:50 final size:50
Alignment explanation
Indices: 23388944--23389138 Score: 144
Period size: 50 Copynumber: 3.9 Consensus size: 50
23388934 GATAATAACA
* ** * * *
23388944 TGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACA-CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAT-CGG
** * * * * * **
23388993 TGCCAATGCCATATCCCAGATATGATCTTACATGAGAGTTCTCATATCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
** ** * *
23389043 TGCGTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* *
23389093 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
23389139 ATCTCAATAA
Statistics
Matches: 114, Mismatches: 29, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
48 1 0.01
49 36 0.32
50 77 0.68
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:23396464 original size:50 final size:50
Alignment explanation
Indices: 23396347--23396585 Score: 187
Period size: 50 Copynumber: 4.7 Consensus size: 50
23396337 GATAATAACA
* * * * *
23396347 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATG-TTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA-GCTCTCATAT-CGG
* * * *
23396396 TACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGCTCTCATATCGG
* ** * * * *
23396446 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGAACTCTAATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGCTCTCATATCGG
* * * **
23396496 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGCTCTCAT-A--TC---GG
*
23396552 TGCCAATGCCATGTCCTAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
23396586 GGATCTCTTT
Statistics
Matches: 148, Mismatches: 33, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
48 2 0.01
49 37 0.25
50 76 0.51
53 2 0.01
56 31 0.21
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGCTCTCATATCGG
Found at i:23397589 original size:13 final size:13
Alignment explanation
Indices: 23397571--23397604 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
23397561 CCAAAATGTC
23397571 GAAATTTTTGAAT
1 GAAATTTTTGAAT
23397584 GAAATTTTTGAAT
1 GAAATTTTTGAAT
23397597 GAAATTTT
1 GAAATTTT
23397605 CATGTAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (13 bp):
GAAATTTTTGAAT
Found at i:23414212 original size:21 final size:20
Alignment explanation
Indices: 23414172--23414212 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23414162 ATTATTTGAT
*
23414172 CCTTTAAATTGAATTTTTAA
1 CCTTTAAATCGAATTTTTAA
*
23414192 CCTTTAAATCGCATATTTTAA
1 CCTTTAAATCGAAT-TTTTAA
23414213 ATAAAAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (20 bp):
CCTTTAAATCGAATTTTTAA
Found at i:23417803 original size:102 final size:101
Alignment explanation
Indices: 23417623--23417807 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
23417613 AGTTGCTAGG
* * *
23417623 TCACATGTGTAGTACTATTTTCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAAAGGTCACATGTGTAGTAC
23417688 TACATGTAGGCTACTATGCGTACCGAATAGCTTCGA
66 TACATGTAGGCTACTATGCGTACCGAATAGCTTCGA
* * **
23417724 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATTGG-ATGAAAATGGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-AAA-GGTCACATGTGTAGT
**
23417788 ACTATGTGTAGGCTACTATG
64 ACTACATGTAGGCTACTATG
23417808 TGAACCATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 3 0.04
101 37 0.51
102 33 0.45
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAAAGGTCACATGTGTAGTAC
TACATGTAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:23422950 original size:50 final size:51
Alignment explanation
Indices: 23422875--23423065 Score: 235
Period size: 51 Copynumber: 3.8 Consensus size: 51
23422865 GTGAAGTTGC
23422875 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAA
* **
23422925 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-GAA
* * * * * *
23422976 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGG-ATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAA
* * *
23423026 AATGGTCACATGTATAGTACTATGTGCAGGCTACTTTGTG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
23423066 AGCCGGGTAT
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.03
50 44 0.37
51 69 0.58
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAA
Found at i:23443138 original size:13 final size:13
Alignment explanation
Indices: 23443120--23443144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23443110 ATTAAAAATG
23443120 TTTTAAAATTTAT
1 TTTTAAAATTTAT
23443133 TTTTAAAATTTA
1 TTTTAAAATTTA
23443145 AAACGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAAATTTAT
Found at i:23443146 original size:31 final size:32
Alignment explanation
Indices: 23443105--23443165 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
23443095 AATTAAAATA
* *
23443105 AAAATATTAAAAATGTTTTAAAA-TTTATTTTT
1 AAAATATT-AAAACGATTTAAAATTTTATTTTT
23443137 AAAAT-TTAAAACGATTTAAAATTTTATTT
1 AAAATATTAAAACGATTTAAAATTTTATTT
23443166 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 9 0.35
32 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
AAAATATTAAAACGATTTAAAATTTTATTTTT
Found at i:23443759 original size:40 final size:40
Alignment explanation
Indices: 23443713--23443806 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
23443703 ATTTGGATAC
* *
23443713 AAAACGCCGCTAAAGATCGAGCA-TTAGCGGTGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAG-ATTTAGCGGCGCTTTATGG
*
23443753 AAAACGCCGCTAAAGATCGAGATTTAGTGGCGCTTTATGG
1 AAAACGCCGCTAAAGATCGAGATTTAGCGGCGCTTTATGG
*
23443793 AAATCGCCGCTAAA
1 AAAACGCCGCTAAA
23443807 AATAAGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.02
40 48 0.98
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGATTTAGCGGCGCTTTATGG
Found at i:23443921 original size:41 final size:41
Alignment explanation
Indices: 23443876--23444113 Score: 318
Period size: 41 Copynumber: 5.8 Consensus size: 41
23443866 CTTTCGGGGA
* *
23443876 TTTAGCGGCGTTTTTAAGAAAGCGCTGCTAAAGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGGC
*
23443917 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGGC
* *
23443958 TTTAGCGGCGTTTTT-AGGAAAGCGCCGCTAGTGCTCAGGGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCTGCTAATGCTCAGGGC
*
23443999 TTTAGCGGCGTTTTTGAGAAAGCG-TCGCTAATGCTTAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCT-GCTAATGCTCAGGGC
* * ** * *
23444040 TCTATCTACGTTTTTGGGAAAGCGCTGCTAATGCTTAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGGC
* *
23444081 TTTAGCGGTGTTTTTGAGAAAGCGCTTCTAATG
1 TTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATG
23444114 TTCTATTTTT
Statistics
Matches: 174, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 171 0.98
42 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGGC
Found at i:23444418 original size:22 final size:21
Alignment explanation
Indices: 23444393--23444446 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
23444383 GTGTTACCAT
23444393 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGATTA-GGG
* * *
23444415 TTTAGGGTTTTTGGTTTAGGG
1 TTTAAGGTTTATGGATTAGGG
* *
23444436 TATATGGTTTA
1 TTTAAGGTTTA
23444447 GACAGGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTAGGG
Found at i:23444426 original size:75 final size:75
Alignment explanation
Indices: 23444339--23444523 Score: 298
Period size: 75 Copynumber: 2.5 Consensus size: 75
23444329 TATCACTATA
* *
23444339 GTTTAGGGTTTTTTGTTTAGGGTATATGGTTTAAATAGGTTTAGGTGTTACCATTTTAAGGTTTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTA
23444404 TGGATTATGG
66 TGGATTATGG
* *
23444414 GTTTAGGGTTTTTGGTTTAGGGTATATGGTTTAGACAGGTTTAGGTGTTGCCATTTTAAGGTTTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTA
23444479 TGGATTATGG
66 TGGATTATGG
* * * *
23444489 GTTTAGGGATTATGGTTTATGGTTTATGGTTTAAA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGGTTTAAA
23444524 GGTTGGGGTT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 101 1.00
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.47
Consensus pattern (75 bp):
GTTTAGGGTTTTTGGTTTAGGGTATATGGTTTAAACAGGTTTAGGTGTTACCATTTTAAGGTTTA
TGGATTATGG
Found at i:23444432 original size:14 final size:14
Alignment explanation
Indices: 23444413--23444447 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23444403 ATGGATTATG
* *
23444413 GGTTTAGGGTTTTT
1 GGTTTAGGGTATAT
23444427 GGTTTAGGGTATAT
1 GGTTTAGGGTATAT
23444441 GGTTTAG
1 GGTTTAG
23444448 ACAGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (14 bp):
GGTTTAGGGTATAT
Found at i:23444608 original size:7 final size:7
Alignment explanation
Indices: 23444468--23444608 Score: 72
Period size: 7 Copynumber: 19.7 Consensus size: 7
23444458 GTGTTGCCAT
*
23444468 TTTAAGG
1 TTTAGGG
*
23444475 TTTATGG
1 TTTAGGG
*
23444482 ATTATGGG
1 TTTA-GGG
23444490 TTTAGGG
1 TTTAGGG
* *
23444497 ATTATGG
1 TTTAGGG
*
23444504 TTTATGG
1 TTTAGGG
*
23444511 TTTATGG
1 TTTAGGG
*
23444518 TTTAAAGG
1 TTT-AGGG
*
23444526 -TTGGGG
1 TTTAGGG
*
23444532 TTTAAGG
1 TTTAGGG
23444539 TTTAGAGG
1 TTTAG-GG
* *
23444547 -TCATGTG
1 TTTA-GGG
*
23444554 TTAAGGG
1 TTTAGGG
*
23444561 TTTATGGT
1 TTTA-GGG
23444569 TTTAGGG
1 TTTAGGG
*
23444576 TTTTAAGG
1 -TTTAGGG
23444584 TTTA-GG
1 TTTAGGG
23444590 TTTAGGG
1 TTTAGGG
23444597 TTTAGGG
1 TTTAGGG
23444604 TTTAG
1 TTTAG
23444609 ATTAACTAGT
Statistics
Matches: 104, Mismatches: 21, Indels: 18
0.73 0.15 0.13
Matches are distributed among these distances:
6 8 0.08
7 71 0.68
8 25 0.24
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:23449174 original size:43 final size:43
Alignment explanation
Indices: 23449113--23449203 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
23449103 CTTTGACTTC
* *
23449113 ATTA-CAAGATTTCTTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTCTTTGATTAAGAAAATGCATTATATCTTTT
* *
23449155 ATTACCAAGATTTAC-TTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTT-CTTTGATTAAGAAAATGCATTATATCTTTT
23449198 ATTACC
1 ATTACC
23449204 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (43 bp):
ATTACCAAGATTTCTTTGATTAAGAAAATGCATTATATCTTTT
Found at i:23449772 original size:42 final size:42
Alignment explanation
Indices: 23449590--23449874 Score: 347
Period size: 43 Copynumber: 6.7 Consensus size: 42
23449580 CGAGAAGCAT
* * * *
23449590 CGCTAAAGGT-TTGTTCTGTAGCGACGCTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GGAAAAGCGC
* * *
23449632 CGCTAAAGGTCTTGAGCTATAGCGGCGTTTTTGAAAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAGCGC
23449675 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGG-AAAAGCGC
* * *
23449718 CGCTAAAGGTCTTGAGCTATAGCTGCGTTTGTGGTAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGC
* * * * *
23449760 TGCTAAAAGTCTTGATCTATAGTGGCGTTTGTGTAAAAGCAC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGC
* * *
23449802 CGCTAAAGGTCCTGATCTATAGCGGCATTTGTGGGAAAAGCAC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GGAAAAGCGC
* *
23449845 CGGTAAAGGTCATGATCTATAGCGGCGTTT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTT
23449875 ATTTCCAAAA
Statistics
Matches: 209, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 79 0.38
43 130 0.62
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (42 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGC
Found at i:23449779 original size:85 final size:85
Alignment explanation
Indices: 23449590--23449874 Score: 358
Period size: 85 Copynumber: 3.4 Consensus size: 85
23449580 CGAGAAGCAT
* * * * *
23449590 CGCTAAAGGT-TTGTTCTGTAGCGACGCTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
* *
23449654 CGGCGTTTTTGAAAAAAGCGC
66 CGGCGTTTGTG-GAAAAGCGC
23449675 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
* *
23449740 CTGCGTTTGTGGTAAAGCGC
66 CGGCGTTTGTGGAAAAGCGC
* * * * * * *
23449760 TGCTAAAAGTCTTGATCTATAGTGGCGTTTGT-GTAAAAGCACCGCTAAAGGTCCTGATCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
* *
23449824 CGGCATTTGTGGGAAAAGCAC
66 CGGCGTTTGT-GGAAAAGCGC
* *
23449845 CGGTAAAGGTCATGATCTATAGCGGCGTTT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTT
23449875 ATTTCCAAAA
Statistics
Matches: 173, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
84 36 0.21
85 79 0.46
86 58 0.34
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (85 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
CGGCGTTTGTGGAAAAGCGC
Found at i:23449852 original size:127 final size:128
Alignment explanation
Indices: 23449625--23449874 Score: 358
Period size: 127 Copynumber: 2.0 Consensus size: 128
23449615 GCTTGTGGGA
* * * *
23449625 AAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCTTGA
1 AAAGCGCCGCTAAAAGTCTTGAGCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGA
* * * *
23449690 TCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCTGCGTTTGTGGT
66 TCTATAGCGGCATTTGTGGAAAAAGCACCGCTAAAGGTCATGAGCTATAGCGGCGTTTGTGGT
* * * *
23449753 AAAGCGCTGCTAAAAGTCTTGATCTATAGTGGCGTTTGTG-TAAAAGCACCGCTAAAGGTCCTGA
1 AAAGCGCCGCTAAAAGTCTTGAGCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGA
* * *
23449817 TCTATAGCGGCATTTGTGGGAAAAGCACCGGTAAAGGTCATGATCTATAGCGGCGTTT
66 TCTATAGCGGCATTTGTGGAAAAAGCACCGCTAAAGGTCATGAGCTATAGCGGCGTTT
23449875 ATTTCCAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
127 72 0.67
128 35 0.33
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (128 bp):
AAAGCGCCGCTAAAAGTCTTGAGCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCCTGA
TCTATAGCGGCATTTGTGGAAAAAGCACCGCTAAAGGTCATGAGCTATAGCGGCGTTTGTGGT
Found at i:23453299 original size:55 final size:53
Alignment explanation
Indices: 23453237--23453384 Score: 133
Period size: 52 Copynumber: 2.7 Consensus size: 53
23453227 ATTCAAATTA
* *
23453237 AGAAGAAGCAGTATTCCACTATAACAATTGATTTAAACATATAAACAATTGATTTC
1 AGAAGAAGCAGTATTCCAC-ATGA-AATTGATTTAAACATATAAACAATCGA-TTC
* * * **
23453293 -GAAG-A--AGTATTGCAAAATGATAGTCAATTTAAACATATAAACAATCGATTC
1 AGAAGAAGCAGTATT-CCACATGA-AATTGATTTAAACATATAAACAATCGATTC
*
23453344 AAAAGAAGCAGTATTCCAACATGGAAATTGATTTAAACATA
1 AGAAGAAGCAGTATTCC-ACAT-GAAATTGATTTAAACATA
23453385 AAAAAGAATT
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
51 3 0.04
52 35 0.49
53 3 0.04
54 2 0.03
55 26 0.37
56 2 0.03
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (53 bp):
AGAAGAAGCAGTATTCCACATGAAATTGATTTAAACATATAAACAATCGATTC
Found at i:23457584 original size:21 final size:20
Alignment explanation
Indices: 23457552--23457590 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23457542 TTTGCCATGA
*
23457552 TTAGATTCAATTTTTATATG
1 TTAGATTCAATTTGTATATG
*
23457572 TTAGCATTTAATTTGTATA
1 TTAG-ATTCAATTTGTATA
23457591 ATTGTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
TTAGATTCAATTTGTATATG
Found at i:23461070 original size:39 final size:39
Alignment explanation
Indices: 23461026--23461125 Score: 164
Period size: 39 Copynumber: 2.6 Consensus size: 39
23461016 ATTAAAACAT
* *
23461026 ATATTAATGCTGTTCAAACTAAGACATAATAAAAGACAC
1 ATATTAATGATGTTCAAACTAAGACATAATAAAAGACAA
* *
23461065 ATATTAATGATGTTCAAACTAAGACTTAATTAAAGACAA
1 ATATTAATGATGTTCAAACTAAGACATAATAAAAGACAA
23461104 ATATTAATGATGTTCAAACTAA
1 ATATTAATGATGTTCAAACTAA
23461126 ATATCTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (39 bp):
ATATTAATGATGTTCAAACTAAGACATAATAAAAGACAA
Found at i:23468908 original size:125 final size:126
Alignment explanation
Indices: 23468699--23469216 Score: 647
Period size: 125 Copynumber: 4.1 Consensus size: 126
23468689 CCACATGTAT
* *
23468699 GCGCTTTTGCTACAGTAGGTCTTGGAA-AAATAATTTCGAGTTGACGTTTCTGAA-CAAATAGTA
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCT-AAGCAAATAGTA
* * * * *
23468762 TAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGAATTTGTGAAATCGCACCCTCCTGGAT
65 TAAAAAACGCTTCTAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCACCCACGTGGAC
* *
23468824 GCGCTTTTGCTACAATTGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTAT
* * * * *
23468889 -AAAATCTCTTCTACCAGGATCCTTTATGAGAAGAATTTGTGAAATCG-AGCCCACGTGGAC
66 AAAAAACGCTTCTAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCA-CCCACGTGGAC
* * * * *
23468949 GCGCTTTTGCTATAGTAGGTCCT-GAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTAT
* * * ** *
23469013 AAAAAACGCTT-TAAGCAGGATGCTATTTGAGAAGAATTTCTAAAATCGTGCCCTCGTGGAC
66 AAAAAACGCTTCT-AGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCACCCACGTGGAC
* * *
23469074 GCGCTTTTGCTATAGTTGGTCCTGGAAGAAATAATTTCGAGTTGA-AGTTTCTGAGCAAATAGTA
1 GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACA-TTTCTAAGCAAATAGTA
* * * * *
23469138 T-AAAATCGCTTCTAGCAGGATACTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGAC
65 TAAAAAACGCTTCTAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCACCCACGTGGAC
23469199 GCGCTTTTGCTACAGTAG
1 GCGCTTTTGCTACAGTAG
23469217 CATGTTTGGG
Statistics
Matches: 339, Mismatches: 45, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
124 39 0.12
125 229 0.68
126 71 0.21
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (126 bp):
GCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTAT
AAAAAACGCTTCTAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCACCCACGTGGAC
Done.