Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
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: 2346588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:1915917 original size:4 final size:4
Alignment explanation
Indices: 1915908--1915968 Score: 122
Period size: 4 Copynumber: 15.2 Consensus size: 4
1915898 ATATAACCAT
1915908 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1915956 TACA TACA TACA T
1 TACA TACA TACA T
1915969 GTCATCATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:1920399 original size:30 final size:30
Alignment explanation
Indices: 1920363--1920460 Score: 142
Period size: 30 Copynumber: 3.2 Consensus size: 30
1920353 TCCGAATGAC
1920363 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1920393 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * * *
1920423 CTATCCATAGGTCCTGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
1920454 CTATCCA
1 CTATCCA
1920461 TATGTTCCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 53 0.85
31 9 0.15
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1920475 original size:31 final size:32
Alignment explanation
Indices: 1920421--1920496 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
1920411 GATCCTCGGT
* *
1920421 AACTATCCATA-GGTCCTGAAGAACCTAGGTA
1 AACTATCCATATGTTCCTGAAGAACATAGGTA
*
1920452 AACTATCCATATGTTCCT-TAGAACATAGGTA
1 AACTATCCATATGTTCCTGAAGAACATAGGTA
* *
1920483 TACTGTCCATATGT
1 AACTATCCATATGT
1920497 CTCGAAAGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 34 0.87
32 5 0.13
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
AACTATCCATATGTTCCTGAAGAACATAGGTA
Found at i:1920697 original size:4 final size:4
Alignment explanation
Indices: 1920688--1920712 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1920678 ATATAACCAT
1920688 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
1920713 GTCATCATTT
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:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:1921773 original size:21 final size:21
Alignment explanation
Indices: 1921720--1921773 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1921710 TTATCATTGA
*
1921720 TGCATCGGTACACAATGAATG
1 TGCATCGGTGCACAATGAATG
1921741 TGCATCGGTGCACAATGAATG
1 TGCATCGGTGCACAATGAATG
*
1921762 TGCATCGATGCA
1 TGCATCGGTGCA
1921774 TATTGCCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (21 bp):
TGCATCGGTGCACAATGAATG
Found at i:1928700 original size:26 final size:27
Alignment explanation
Indices: 1928664--1928722 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
1928654 CTCAATCCGT
*
1928664 CATTCTAAGAATATGCAGACT-AAACA
1 CATTCCAAGAATATGCAGACTGAAACA
*
1928690 CATTCCAAGAATCTGCAGACTGAAACA
1 CATTCCAAGAATATGCAGACTGAAACA
1928717 CATTCC
1 CATTCC
1928723 GAACGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (27 bp):
CATTCCAAGAATATGCAGACTGAAACA
Found at i:1931235 original size:167 final size:167
Alignment explanation
Indices: 1931037--1931539 Score: 961
Period size: 167 Copynumber: 3.0 Consensus size: 167
1931027 CATCAAAGAG
* *
1931037 CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACTCTACTTTGTTTCAGTTAAAATTTGGTTTT
1 CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACTCTTCTTTGTTTCAGTTAAAATTTGGCTTT
*
1931102 AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGAACATGAATGAGCATTTA
66 AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGGACATGAATGAGCATTTA
1931167 GTTGTTGGTAATAATAATCTTTTATACCTGGTTCGCT
131 GTTGTTGGTAATAATAATCTTTTATACCTGGTTCGCT
*
1931204 CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACGCTTCTTTGTTTCAGTTAAAATTTGGCTTT
1 CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACTCTTCTTTGTTTCAGTTAAAATTTGGCTTT
1931269 AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGGACATGAATGAGCATTTA
66 AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGGACATGAATGAGCATTTA
*
1931334 GTTGTTGGCAATAATAATCTTTTATACCTGGTTCGCT
131 GTTGTTGGTAATAATAATCTTTTATACCTGGTTCGCT
1931371 CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACTCTTCTTTGTTTCAGTTAAAATTTGGCTTT
1 CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACTCTTCTTTGTTTCAGTTAAAATTTGGCTTT
1931436 AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGGACATGAATGAGCATTTA
66 AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGGACATGAATGAGCATTTA
1931501 GTTGTTGGTAATAATAATCTTTTATACCTGGTTCGCT
131 GTTGTTGGTAATAATAATCTTTTATACCTGGTTCGCT
1931538 CT
1 CT
1931540 TCCAAGATGC
Statistics
Matches: 329, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 329 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (167 bp):
CTAAAAGATGAGATAAAGGAACCTTTACTTTAAACTCTTCTTTGTTTCAGTTAAAATTTGGCTTT
AAGGGATCATGAATTGATGCATATTACTGGTGAATTTGTTTGTTTTGGACATGAATGAGCATTTA
GTTGTTGGTAATAATAATCTTTTATACCTGGTTCGCT
Found at i:1932102 original size:72 final size:73
Alignment explanation
Indices: 1932015--1932154 Score: 237
Period size: 72 Copynumber: 1.9 Consensus size: 73
1932005 GGGTTATTCT
* *
1932015 ATCATTTAAGAAAAAGGTTGGTTATTCCATCAAATAACTCAAAAATACTAGATACAAAC-AAAAT
1 ATCATTTAAGAAAAAGATTAGTTATTCCATCAAATAACTCAAAAATACTAGATACAAACAAAAAT
1932079 CACTATTG
66 CACTATTG
* *
1932087 ATCATTTAAGGAAAAGATTAGTTATTCTATCAAATAACTCAAAAATACTAGATACAAACAAAAAT
1 ATCATTTAAGAAAAAGATTAGTTATTCCATCAAATAACTCAAAAATACTAGATACAAACAAAAAT
1932152 CAC
66 CAC
1932155 CATCGACAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 55 0.87
73 8 0.13
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (73 bp):
ATCATTTAAGAAAAAGATTAGTTATTCCATCAAATAACTCAAAAATACTAGATACAAACAAAAAT
CACTATTG
Found at i:1932244 original size:46 final size:46
Alignment explanation
Indices: 1932192--1932284 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
1932182 AACATTAACA
1932192 TAAAAATGATAGTATGTTGACATTAAATTTATTGCAATTTAGGGTT
1 TAAAAATGATAGTATGTTGACATTAAATTTATTGCAATTTAGGGTT
1932238 TAAAAATGATAGTATGTTGACATTAAATTTATTGCAATTTAGGGTT
1 TAAAAATGATAGTATGTTGACATTAAATTTATTGCAATTTAGGGTT
1932284 T
1 T
1932285 TTTGTTTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (46 bp):
TAAAAATGATAGTATGTTGACATTAAATTTATTGCAATTTAGGGTT
Found at i:1932610 original size:23 final size:25
Alignment explanation
Indices: 1932575--1932634 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
1932565 ATTATAATAA
1932575 TATAATACA-ATATTT-TTAAATT-T
1 TATAATA-ATATATTTATTAAATTAT
*
1932598 TATAATAATATATTTAATTATATTAT
1 TATAATAATATATTT-ATTAAATTAT
1932624 TATAAT-ATATA
1 TATAATAATATA
1932635 ATAAATTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.03
23 13 0.41
25 11 0.34
26 7 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATAATAATATATTTATTAAATTAT
Found at i:1932613 original size:21 final size:22
Alignment explanation
Indices: 1932583--1932649 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
1932573 AATATAATAC
* *
1932583 AATATTTTTAA-ATTTTATAAT
1 AATATATTTAATATATTATAAT
*
1932604 AATATATTTAATTATATTATTAT
1 AATATATTTAA-TATATTATAAT
*
1932627 AATATA--TAATAAATTACTAAT
1 AATATATTTAATATATTA-TAAT
1932648 AA
1 AA
1932650 AATTAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.16
21 18 0.47
23 14 0.37
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATATTTAATATATTATAAT
Found at i:1932768 original size:15 final size:15
Alignment explanation
Indices: 1932748--1932777 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1932738 AATACACTTA
1932748 TTTTAAAATTATAAT
1 TTTTAAAATTATAAT
*
1932763 TTTTAATATTATAAT
1 TTTTAAAATTATAAT
1932778 AATATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAATTATAAT
Found at i:1932831 original size:24 final size:22
Alignment explanation
Indices: 1932803--1932848 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
1932793 ATAAGTAATT
1932803 TATAATATTTCTATTCTAATAAAA
1 TATAATATTTCTATT-T-ATAAAA
*
1932827 TATAATATTTTTATTTATAAAA
1 TATAATATTTCTATTTATAAAA
1932849 ATGTAGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TATAATATTTCTATTTATAAAA
Found at i:1937656 original size:16 final size:16
Alignment explanation
Indices: 1937635--1937666 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1937625 GGGTAAGGCG
1937635 CCCCCTGAAGGGCGCC
1 CCCCCTGAAGGGCGCC
*
1937651 CCCCCTGAAGTGCGCC
1 CCCCCTGAAGGGCGCC
1937667 TTATGGTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.50, G:0.28, T:0.09
Consensus pattern (16 bp):
CCCCCTGAAGGGCGCC
Found at i:1938003 original size:29 final size:30
Alignment explanation
Indices: 1937959--1938015 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
1937949 TATATTTAGT
*
1937959 ATTTTGTTAGTATTTTATTTAACTATTTAA
1 ATTTTGTTAATATTTTATTTAACTATTTAA
*
1937989 ATTTT-TTAATATTTTATTTAATTATTT
1 ATTTTGTTAATATTTTATTTAACTATTT
1938016 TTTTTGCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (30 bp):
ATTTTGTTAATATTTTATTTAACTATTTAA
Found at i:1940009 original size:9 final size:9
Alignment explanation
Indices: 1939995--1940024 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1939985 TATTTGGTCT
1939995 TGACGACGA
1 TGACGACGA
1940004 TGACGACGA
1 TGACGACGA
*
1940013 CGACGACGA
1 TGACGACGA
1940022 TGA
1 TGA
1940025 TGATGGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.33, T:0.10
Consensus pattern (9 bp):
TGACGACGA
Found at i:1940254 original size:33 final size:34
Alignment explanation
Indices: 1940216--1940298 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 34
1940206 TAATACTTAC
*
1940216 TTTATTTTGTTAATTTGGTTGGA-TTTGTT-TTAG
1 TTTATTTTGTTAATTTGGTTGGACTTT-TTGTTAA
*
1940249 TTTATTTTGTTAATTTTGTTGGACTTTTTGTTAA
1 TTTATTTTGTTAATTTGGTTGGACTTTTTGTTAA
1940283 TTTATTTTGTTAATTT
1 TTTATTTTGTTAATTT
1940299 TGTTTATTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 24 0.52
34 22 0.48
ACGTcount: A:0.17, C:0.01, G:0.16, T:0.66
Consensus pattern (34 bp):
TTTATTTTGTTAATTTGGTTGGACTTTTTGTTAA
Found at i:1940292 original size:13 final size:13
Alignment explanation
Indices: 1940274--1940298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1940264 TTGTTGGACT
1940274 TTTTGTTAATTTA
1 TTTTGTTAATTTA
1940287 TTTTGTTAATTT
1 TTTTGTTAATTT
1940299 TGTTTATTAC
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:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTGTTAATTTA
Found at i:1940292 original size:34 final size:33
Alignment explanation
Indices: 1940216--1940302 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 33
1940206 TAATACTTAC
* *
1940216 TTTATTTTGTTAATTTGGTTGGATTTGTTTTAG
1 TTTATTTTGTTAATTTTGTTGGATTTGTTTTAA
1940249 TTTATTTTGTTAATTTTGTTGGACTTT-TTGTTAA
1 TTTATTTTGTTAATTTTGTTGGA-TTTGTT-TTAA
1940283 TTTATTTTGTTAATTTTGTT
1 TTTATTTTGTTAATTTTGTT
1940303 TATTACCATT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
33 24 0.48
34 26 0.52
ACGTcount: A:0.16, C:0.01, G:0.16, T:0.67
Consensus pattern (33 bp):
TTTATTTTGTTAATTTTGTTGGATTTGTTTTAA
Found at i:1943650 original size:21 final size:22
Alignment explanation
Indices: 1943599--1943647 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1943589 AACACAATAA
*
1943599 AATTTTACACATAAACGTAAAT
1 AATTTTAAACATAAACGTAAAT
1943621 AATTTTAAACATAAACGTAAAT
1 AATTTTAAACATAAACGTAAAT
*
1943643 CATTT
1 AATTT
1943648 AAATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (22 bp):
AATTTTAAACATAAACGTAAAT
Found at i:1945919 original size:16 final size:18
Alignment explanation
Indices: 1945888--1945920 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1945878 ACGCAGACTA
1945888 ATTTTTGTCTTTAAAATG
1 ATTTTTGTCTTTAAAATG
1945906 ATTTTT-TC-TTAAAAT
1 ATTTTTGTCTTTAAAAT
1945921 TGTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTTGTCTTTAAAATG
Found at i:1947419 original size:13 final size:13
Alignment explanation
Indices: 1947401--1947433 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1947391 AATAGTCCTT
*
1947401 TTATCTTTTTTTA
1 TTATCTTTTTTGA
1947414 TTATCTTTTTTGA
1 TTATCTTTTTTGA
1947427 TTATCTT
1 TTATCTT
1947434 ATCTGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (13 bp):
TTATCTTTTTTGA
Found at i:1949830 original size:22 final size:22
Alignment explanation
Indices: 1949803--1949853 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1949793 GTCGGGTCGA
1949803 ACCCATCAGGTTCAGGTCCCAT
1 ACCCATCAGGTTCAGGTCCCAT
*
1949825 ACCCATTAGGTTCAGGTCCCAT
1 ACCCATCAGGTTCAGGTCCCAT
*
1949847 GCCCATC
1 ACCCATC
1949854 CCTATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (22 bp):
ACCCATCAGGTTCAGGTCCCAT
Found at i:1954952 original size:23 final size:23
Alignment explanation
Indices: 1954889--1954946 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
1954879 TATTAGATAC
1954889 CGCTTATATAATGTAATAGGTAG
1 CGCTTATATAATGTAATAGGTAG
1954912 CGCTTATATAATGTAATAGGTAG
1 CGCTTATATAATGTAATAGGTAG
1954935 CGCTTATATAAT
1 CGCTTATATAAT
1954947 AAAATATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (23 bp):
CGCTTATATAATGTAATAGGTAG
Found at i:1955005 original size:110 final size:110
Alignment explanation
Indices: 1954807--1955143 Score: 568
Period size: 110 Copynumber: 3.1 Consensus size: 110
1954797 ACAGGTAAAA
* * *
1954807 ATATGATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAGCAC
1 ATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCAAGCAC
1954872 AATAACATATT-AGATACCGCTTATATAATGTAATAGGTAGCGCTT
66 AATAACATATTAAGA-ACCGCTTATATAATGTAATAGGTAGCGCTT
1954917 ATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCAAGCAC
1 ATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCAAGCAC
*
1954982 AATAACATATTAAGAACCGCTTATATAACGTAATAGGTAGCGCTT
66 AATAACATATTAAGAACCGCTTATATAATGTAATAGGTAGCGCTT
* * *
1955027 ATATAATGTAATAGGTAGCGTTTATATAATAAAATATGTTAATTACTAAAAACATTATCAAACAC
1 ATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCAAGCAC
* * *
1955092 AATAACATATTAGGAACCGCTTATATAATGTAATAAGTAGCACTT
66 AATAACATATTAAGAACCGCTTATATAATGTAATAGGTAGCGCTT
1955137 ATATAAT
1 ATATAAT
1955144 AAAATATGTT
Statistics
Matches: 215, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
110 212 0.99
111 3 0.01
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (110 bp):
ATATAATGTAATAGGTAGCGCTTATATAATAAAATATGTTAATTACTGAAAACATTATCAAGCAC
AATAACATATTAAGAACCGCTTATATAATGTAATAGGTAGCGCTT
Found at i:1955056 original size:23 final size:23
Alignment explanation
Indices: 1954999--1955056 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
1954989 TATTAAGAAC
*
1954999 CGCTTATATAACGTAATAGGTAG
1 CGCTTATATAATGTAATAGGTAG
1955022 CGCTTATATAATGTAATAGGTAG
1 CGCTTATATAATGTAATAGGTAG
*
1955045 CGTTTATATAAT
1 CGCTTATATAAT
1955057 AAAATATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (23 bp):
CGCTTATATAATGTAATAGGTAG
Found at i:1955097 original size:87 final size:87
Alignment explanation
Indices: 1955022--1955332 Score: 523
Period size: 87 Copynumber: 3.6 Consensus size: 87
1955012 TAATAGGTAG
**
1955022 CGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATATGTTAATTACTAAAAACATTATCA
1 CGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATATGTTAATTACTAAAAACATTATCA
*
1955087 AACACAATAACATATTAGGAAC
66 AGCACAATAACATATTAGGAAC
* *
1955109 CGCTTATATAATGTAATAAGTAGCACTTATATAATAAAATATGTTAATTACTGAAAACATTATCA
1 CGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATATGTTAATTACTAAAAACATTATCA
1955174 AGCACAATAACATATTAGGAAC
66 AGCACAATAACATATTAGGAAC
*
1955196 CGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTAATTACTAAAAACATTATCA
1 CGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATATGTTAATTACTAAAAACATTATCA
* *
1955261 AGCACAATAACATATTAGGTAG
66 AGCACAATAACATATTAGGAAC
* * *
1955283 CGCTTATATAACGTAATATGTAGCGCTTATATAATAAAATATGTTAATTA
1 CGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATATGTTAATTA
1955333 TTTAATTTCT
Statistics
Matches: 210, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 210 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (87 bp):
CGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATATGTTAATTACTAAAAACATTATCA
AGCACAATAACATATTAGGAAC
Found at i:1955293 original size:23 final size:23
Alignment explanation
Indices: 1955267--1955316 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1955257 ATCAAGCACA
*
1955267 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1955290 ATAACGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1955313 ATAA
1 ATAA
1955317 TAAAATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1955323 original size:23 final size:23
Alignment explanation
Indices: 1955279--1955326 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1955269 AACATATTAG
**
1955279 GTAGCGCTTATATAACGTAATAT
1 GTAGCGCTTATATAACAAAATAT
*
1955302 GTAGCGCTTATATAATAAAATAT
1 GTAGCGCTTATATAACAAAATAT
1955325 GT
1 GT
1955327 TAATTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (23 bp):
GTAGCGCTTATATAACAAAATAT
Found at i:1955597 original size:24 final size:24
Alignment explanation
Indices: 1955570--1955621 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1955560 AACATCAAAT
1955570 ACAATAA-AACAATATTATTTATTA
1 ACAATAATAACAATATTATTT-TTA
*
1955594 ACAA-AATAATAATATTATTTTTA
1 ACAATAATAACAATATTATTTTTA
1955617 A-AATA
1 ACAATA
1955622 TTAGAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
ACAATAATAACAATATTATTTTTA
Found at i:1955649 original size:14 final size:14
Alignment explanation
Indices: 1955630--1955674 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1955620 TATTAGAATA
*
1955630 ATTTATTTAATATT
1 ATTTATTAAATATT
1955644 ATTTATGTAAATATT
1 ATTTAT-TAAATATT
1955659 A-TTATTAAAATATT
1 ATTTATT-AAATATT
1955673 AT
1 AT
1955675 ATCTATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 1 0.04
14 18 0.67
15 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTTATTAAATATT
Found at i:1955688 original size:28 final size:30
Alignment explanation
Indices: 1955657--1955732 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 30
1955647 TATGTAAATA
* *
1955657 TTATTATTAAAATATTAT-ATCTA-TA-ATT
1 TTATTAATAAAAAATTATGAT-TATTACATT
*
1955685 TTATAAATAAAAAATTATGATTATTACATT
1 TTATTAATAAAAAATTATGATTATTACATT
1955715 TTATTAA-AATAAAATTAT
1 TTATTAATAA-AAAATTAT
1955733 TATAAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 17 0.43
29 6 0.15
30 17 0.43
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (30 bp):
TTATTAATAAAAAATTATGATTATTACATT
Found at i:1956767 original size:20 final size:20
Alignment explanation
Indices: 1956739--1956795 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
1956729 GGTAAAACGC
1956739 TACCAGTTTTGTTATTTTTT
1 TACCAGTTTTGTTATTTTTT
* *
1956759 TACCGGTTTTTTTTATTTTTT
1 TACCAG-TTTTGTTATTTTTT
1956780 TACCAGTTTTGTTATT
1 TACCAGTTTTGTTATT
1956796 GTTGGGCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.65
Consensus pattern (20 bp):
TACCAGTTTTGTTATTTTTT
Found at i:1957152 original size:24 final size:24
Alignment explanation
Indices: 1957132--1957192 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
1957122 AATACAATAA
1957132 AATAATATTATTTATTAACAAAGT
1 AATAATATTATTTATTAACAAAGT
1957156 AATAATATTATTTATTAACAAAGT
1 AATAATATTATTTATTAACAAAGT
1957180 AATAATATTATTT
1 AATAATATTATTT
1957193 TTCAAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (24 bp):
AATAATATTATTTATTAACAAAGT
Found at i:1957267 original size:28 final size:28
Alignment explanation
Indices: 1957232--1957321 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
1957222 TATTTATGTC
1957232 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
1957260 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
* ** *
1957288 TATATT-TTATTAAAATAAAATTATTAT
1 AATATTATTATTAAAATATTATGATTAT
1957315 AA-ATTAT
1 AATATTAT
1957322 ATTTATTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 3 0.06
27 17 0.36
28 25 0.53
29 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:1957324 original size:31 final size:31
Alignment explanation
Indices: 1957261--1957329 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
1957251 TATATCTATA
*
1957261 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
1957291 ATTTTATTAAA-ATAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
1957322 A-TTTATTA
1 ATTTTATTA
1957330 TTTTTTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:1957375 original size:799 final size:779
Alignment explanation
Indices: 1955570--1958856 Score: 5149
Period size: 799 Copynumber: 4.2 Consensus size: 779
1955560 AACATCAAAT
*
1955570 ACAATAAAACAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTTA
1 ACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTTA
*
1955635 TTTAATATTATTTATGTAAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAAT
66 TTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAAT
*
1955700 TATGATTATTACATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAAG
131 TATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAAG
* * *
1955765 AATAATATCTCATTAATTATATTATAATGAGAGAATAATTAAACATATGTGGCGATACATTTTCT
196 AATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTCT
1955830 AAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAC
261 AAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAC
* *
1955895 AACAATAACAAAACATGTAAAAATTACCGAAAACATCATTATTTTAACAAAACATGTAAAGCGCT
326 AACAATAACAAAACATGTAAAAATTACCGAAAACATCATTATTTTAACAAAACAGGTAAAACGCT
* * *
1955960 ACCGG-TTTTATTATTTTTTTTACTGGTTTTGTTATTGTTGGGCACTTTACTGGAAATGTTAAAA
391 ACCGGATTTTATTTTTTTTTTTAC-CGTTTTGTTATTGTTGGGCACTTTACCGGAAATGTTAAAA
* *
1956024 AACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGATAATTTTTACCGGTTTTTTTATGCCCA
455 AACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACCGGTTTTGTTATGCCCA
1956089 ACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATACAAA
520 ACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATACAAA
* **
1956154 TTAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGAAAAAAAGAACACGGTATT
585 TTAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGAAAAAAAGGACACAATATT
1956219 TCTATTTCGATATTAGCTTTCAAATAAAAAAATAAAAAAAATTATATATAATTACAATATAATTT
650 TCTATTTCGATATTAGCTTTCAAATAAAAAAAT-AAAAAAATTATATATAATTACAATATAATTT
* * * *
1956284 TAAAAAATAATCATAATGAAGTGATGAAAAATAATCATAATTACAATATAATTATA-AACATAAA
714 TAAAAAATAATCATAATGAAGTGATGAAAAATAATCATAATTACAATAAAATAATATCACATAAT
1956348 A
779 A
* *
1956349 TACAATAAAATAATATTATTTATTAACAAAATAATAATAATATTTTTAAAATGTTAGAATAATTT
1 -ACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTT
1956414 ATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAA
65 ATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAA
* *
1956479 CTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTTATTTTTTATAATAA
130 TTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAA
*
1956544 GAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTT
195 GAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTC
*
1956609 TAAAAGTATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATA
260 TAAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATA
*
1956674 CAACAATAACAAAACATGTAAAAATTACTGAAAACATCATTATTTTAACAAAACAGGTAAAACGC
325 CAACAATAACAAAACATGTAAAAATTACCGAAAACATCATTATTTTAACAAAACAGGTAAAACGC
1956739 TACCAGTTTTGTTATTTTTTTACCGGTTTTTTTTATTTTTTTACCAGTTTTGTTATTGTTGGGCA
390 TACC-G----G--A---TTTTA--------TTTT-TTTTTTTACC-GTTTTGTTATTGTTGGGCA
*
1956804 CTTTACCGGAAATGTTAAAAAATATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTT
435 CTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTT
*
1956869 TACCGGTTTTATTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTA
500 TACCGGTTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTA
*
1956934 GTAAACACAAATTATACAAATTAATTTTAATTTTTTTAGTTTGTAAGTT-ACTACAATATAACTA
565 GTAAACACAAATTATACAAATTAATTTTAA-TTTTTTAGTTTGTAAGTTGTC-ACAATATAACTA
1956998 ATG-AAAAAAGGACACAATATTTCTATTTCGATATTAGCTTTCAAATAAAAAAATAAAAAAATTA
628 ATGAAAAAAAGGACACAATATTTCTATTTCGATATTAGCTTTCAAATAAAAAAATAAAAAAATTA
* * ** * *
1957062 TATATAATTACAATATAATTTTAAAAAATAATCATAATTACAAT-AT-AATTATAAACATCAAAT
693 TATATAATTACAATATAATTTTAAAAAATAATCATAATGA-AGTGATGAAAAATAATCAT-AATT
* ** *
1957125 ACAATAAAATAATATTATTTATTA
756 ACAATAAAATAATATCACATAATA
* * *
1957149 ACAA-AGTAATAATATTATTTATTAACAAAGTAATAATATTATTTTTCAAATATTAGAATAATTT
1 ACAATA-AAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTT
1957213 ATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAA
65 ATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAA
1957278 TTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAA
130 TTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAA
1957343 GAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTC
195 GAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTC
* **
1957408 TAAAAGTATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAATTGGTATA
260 TAAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATA
* * * *
1957473 CAACAATAACAAAATAGGTAAAAATTACCGAAAACATCATTATTTTAACAAAACAAGTAAAGCGC
325 CAACAATAACAAAACATGTAAAAATTACCGAAAACATCATTATTTTAACAAAACAGGTAAAACGC
* * * *
1957538 TACCGG-TTTT-GTTATTTTTTTACCGTTTTTGTTATTGTTGGGCACTTCACCGGAAATATTAAA
390 TACCGGATTTTATTTTTTTTTTTACCG-TTTTGTTATTGTTGGGCACTTTACCGGAAATGTT--A
* * *
1957601 AAAAACATTGATGTTTTAGGTAGAAATAATAATATTTTAGGTAATTTTTA-CGCTTCTGTTATGC
452 AAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACCGGTTTTGTTATGC
*
1957665 CCAACAATAAAAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATAC
517 CCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATAC
*
1957730 AAATTAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGAAAAAAAGGACACGAT
582 AAATTAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGAAAAAAAGGACACAAT
*
1957795 ATTTCTATTTCGATATTAGCTTTTAAATAAAAAAATAAAAAAATTATATATAATTACAATATAAT
647 ATTTCTATTTCGATATTAGCTTTCAAATAAAAAAATAAAAAAATTATATATAATTACAATATAAT
* * * *
1957860 TTTAAAAAATAATCATAATGAAGTGATGAAAAATAAGCATAATTACAATATAATTATAAACACCA
712 TTTAAAAAATAATCATAATGAAGTGATGAAAAATAATCATAATTACAATAAAATAAT-ATCA-CA
1957925 -AAT-
775 TAATA
*
1957928 ACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATAAGAATAATTTA
1 ACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTTA
1957993 TTTAATATTATTTATGTCAATATTATTA-T----TA--A-A---AT-A--TTATAAATAAAAAAT
66 TTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAAT
*
1958044 TATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTTATTTTTTATAATAAG
131 TATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAAG
1958109 AATAATATATCATTAATTATATTATAAT--GAGAATAGTTAAAC--ATGTGTCGATACATTTTCT
196 AATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTCT
1958170 AAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAC
261 AAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAC
* * * *
1958235 AACAATAACAAAACAAGTAAAAATTACCGAAAACATAATTATTTTAACAAAACGGGTAAAACACT
326 AACAATAACAAAACATGTAAAAATTACCGAAAACATCATTATTTTAACAAAACAGGTAAAACGCT
*
1958300 ACC-GATTTTTTTTTATTTTTTTACCGATTTTGTTATTGTT-GGCTACTTTACCGGAAAATGTTA
391 ACCGGATTTTATTTT-TTTTTTTACCG-TTTTGTTATTGTTGGGC-ACTTTACCGG-AAATGTTA
* * *
1958363 AAAATCATTAATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACTGGTTTTGTTATGC
452 AAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACCGGTTTTGTTATGC
* **
1958428 CCAACAATAACAAAACCGGTAAAAATAGACTTTTCAATGATAAAATTAAAAAACACAAATTATAC
517 CCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATAC
* * * *
1958493 AAATTAATTTTAACTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGGAAAAAATGACACAGT
582 AAATTAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGAAAAAAAGGACACAAT
1958558 ATTTCTATTTCGATATTAGCTTTCAAAT-----AATAAAAACAATTATATATAATTACAATATAA
647 ATTTCTATTTCGATATTAGCTTTCAAATAAAAAAATAAAAA-AATTATATATAATTACAATATAA
* * * *
1958618 TTTTAAAAAATAATCATAATGAAGTGATAAAAAATAATCATAATTACAATATAATTATA-AACAT
711 TTTTAAAAAATAATCATAATGAAGTGATGAAAAATAATCATAATTACAATAAAATAATATCACAT
1958682 CAA-A
776 -AATA
*
1958686 TATAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTT
1 -ACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTT
*
1958751 ATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATATATAATTTTATAAATAAAAAA
65 ATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAA
*
1958816 TTATGATTATTATATTTTATTAAAATACAATTATTATAAAT
130 TTATGATTATTATATTTTATTAAAATAAAATTATTATAAAT
1958857 ATAATGTAAT
Statistics
Matches: 2324, Mismatches: 121, Indels: 131
0.90 0.05 0.05
Matches are distributed among these distances:
756 2 0.00
757 1 0.00
758 11 0.00
759 170 0.07
760 2 0.00
761 146 0.06
762 53 0.02
763 206 0.09
764 8 0.00
765 107 0.05
766 1 0.00
767 2 0.00
768 2 0.00
770 2 0.00
771 2 0.00
772 1 0.00
773 54 0.02
774 2 0.00
777 1 0.00
778 78 0.03
779 292 0.13
780 441 0.19
781 1 0.00
785 1 0.00
788 4 0.00
791 5 0.00
794 1 0.00
798 11 0.00
799 445 0.19
800 239 0.10
801 33 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (779 bp):
ACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATAATTTA
TTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAAAAAAT
TATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTTTTATAATAAG
AATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTCT
AAAAATATCGACACATATGTTATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAC
AACAATAACAAAACATGTAAAAATTACCGAAAACATCATTATTTTAACAAAACAGGTAAAACGCT
ACCGGATTTTATTTTTTTTTTTACCGTTTTGTTATTGTTGGGCACTTTACCGGAAATGTTAAAAA
ACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACCGGTTTTGTTATGCCCAA
CAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATACAAAT
TAATTTTAATTTTTTAGTTTGTAAGTTGTCACAATATAACTAATGAAAAAAAGGACACAATATTT
CTATTTCGATATTAGCTTTCAAATAAAAAAATAAAAAAATTATATATAATTACAATATAATTTTA
AAAAATAATCATAATGAAGTGATGAAAAATAATCATAATTACAATAAAATAATATCACATAATA
Found at i:1957955 original size:24 final size:25
Alignment explanation
Indices: 1957928--1957996 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 25
1957918 AACACCAAAT
1957928 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
1957952 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
*
1957975 AAATATAAGAATAAT-TTATTTA
1 ACA-ATAAGAATAATATTATTTA
1957997 ATATTATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.18
24 24 0.62
25 8 0.21
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:1958079 original size:33 final size:31
Alignment explanation
Indices: 1958027--1958095 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
1958017 ATTATTAAAA
*
1958027 TATTATAAATAAAAAATTATGATTATTATATTT
1 TATTATAAATAAAAAATTAT-A-AATTATATTT
*
1958060 TATTA-AAATAAAATTATTATAAATTATATTT
1 TATTATAAATAAAA-AATTATAAATTATATTT
1958091 T-TTAT
1 TATTAT
1958096 TTTTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 3 0.09
31 10 0.31
32 9 0.28
33 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
TATTATAAATAAAAAATTATAAATTATATTT
Found at i:1958096 original size:33 final size:33
Alignment explanation
Indices: 1958027--1958095 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
1958017 ATTATTAAAA
*
1958027 TATTATAAATAAAAAATTATGATTATTATATTT
1 TATTATAAATAAAAAATTATAATTATTATATTT
*
1958060 TATTA-AAATAAAATTATTATAA--ATTATATTT
1 TATTATAAATAAAA-AATTATAATTATTATATTT
1958091 T-TTAT
1 TATTAT
1958096 TTTTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 3 0.09
31 10 0.31
32 8 0.25
33 11 0.34
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
TATTATAAATAAAAAATTATAATTATTATATTT
Found at i:1958637 original size:30 final size:29
Alignment explanation
Indices: 1958603--1958678 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 29
1958593 ACAATTATAT
1958603 ATAATTACAATATAATTTTAAAAAATAATC
1 ATAATTACAATATAA-TTTAAAAAATAATC
* * *
1958633 ATAA-T-GAA-GTGA--TAAAAAATAATC
1 ATAATTACAATATAATTTAAAAAATAATC
1958657 ATAATTACAATATAATTATAAA
1 ATAATTACAATATAATT-TAAA
1958679 CATCAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
24 16 0.47
25 1 0.03
26 2 0.06
27 4 0.12
28 2 0.06
29 1 0.03
30 8 0.24
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (29 bp):
ATAATTACAATATAATTTAAAAAATAATC
Found at i:1958805 original size:28 final size:28
Alignment explanation
Indices: 1958755--1958842 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
1958745 TAATTTATTT
* *
1958755 AATATTATTTATGTCAATATTATTATTAA
1 AATATTATATATAT-AATATTATTATTAA
* * *
1958784 AATATTATATATATAATTTTATAAATAA
1 AATATTATATATATAATATTATTATTAA
* *
1958812 AAAATTATGAT-TATTATATT-TTATTAA
1 AATATTAT-ATATATAATATTATTATTAA
1958839 AATA
1 AATA
1958843 CAATTATTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 8 0.17
28 25 0.53
29 14 0.30
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (28 bp):
AATATTATATATATAATATTATTATTAA
Found at i:1959305 original size:198 final size:197
Alignment explanation
Indices: 1958859--1959505 Score: 878
Period size: 198 Copynumber: 3.3 Consensus size: 197
1958849 TTATAAATAT
* * * *
1958859 AATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGATCT
1 AATGTAATAGGTAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTATGAGAAAATAG-TCT
* *** * * *
1958924 ACATAATGTATCGACACAAATTTAA-AAAGTGTCGATACATTTTGTCTAGAATGAATGTCAAACG
65 ACATAATGTATCGACAC-ATTTTAAGTTTGTGTCGATAC-TTTTTTCCAGAATGAATGTCCAACG
* *
1958988 AGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAAT
128 AGGTG-ACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGAT
1959053 AATTAC
192 AATTAC
* *
1959059 AATGTAATAGGTAAATTTACAATGTACTCGGTAGAAATATATCGGTTTTATGAGAAAATATGTCT
1 AATGTAATAGGTAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTATGAGAAAATA-GTCT
* *
1959124 ACATAATATATCGACACATTTTAAGTTTGTATCGATACTTTTTTCCAGAATGAATGTCCAACGAG
65 ACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGTCCAACGAG
* * *
1959189 GTGTATACATAAAGTGTCGATACATTTATTAAAAGTATCTATCCCAAAAA-ATCGAAACTGATAA
130 GTG-ACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
1959253 TTAC
194 TTAC
*
1959257 AATGTAATAGGTAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTTTGAGAAAATAAGTCT
1 AATGTAATAGGTAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTATGAGAAAAT-AGTCT
* *
1959322 ACATAATGTATCAACACGTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATG-CCTAACGA
65 ACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGTCC-AACGA
**
1959386 GGTG-CACGCAAAGTGTCGATACA---ATTAAAATTGTATCGATCCCAAAAACATCGAAACCGAT
129 GGTGACACATAAAGTGTCGATACATTTATTAAAA--GTATCGATCCCAAAAACATCGAAACCGAT
*
1959447 AATTAT
192 AATTAC
* * *
1959453 AATGTAATAGGTAAATTTGCAATGTTA-CCGGTATAAATATACCGATTTTATGA
1 AATGTAATAGGTAAATTTACAATG-TACCCGGTAGAAATATACCGGTTTTATGA
1959506 TAGAATAAAT
Statistics
Matches: 401, Mismatches: 38, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
193 7 0.02
195 15 0.04
196 78 0.19
197 4 0.01
198 137 0.34
199 77 0.19
200 82 0.20
201 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
AATGTAATAGGTAAATTTACAATGTACCCGGTAGAAATATACCGGTTTTATGAGAAAATAGTCTA
CATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGTCCAACGAGG
TGACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATT
AC
Found at i:1959599 original size:23 final size:23
Alignment explanation
Indices: 1959573--1959629 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1959563 GTAATTAACT
* *
1959573 TATTTTATTATATAAGCGCTACC
1 TATTATATTATATAAACGCTACC
1959596 TATTATATTATATAAACGCTACC
1 TATTATATTATATAAACGCTACC
* *
1959619 TAATATGTTAT
1 TATTATATTAT
1959630 TGTGCTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (23 bp):
TATTATATTATATAAACGCTACC
Found at i:1959664 original size:87 final size:87
Alignment explanation
Indices: 1959518--1959684 Score: 289
Period size: 87 Copynumber: 1.9 Consensus size: 87
1959508 GAATAAATCA
* * *
1959518 ATATAAACGCTACCTAATATGTTATTGTATTTGATAATATTTCTAGTAATTAACTTATTTTATTA
1 ATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTAATTAACCTATTTTATTA
1959583 TATAAGCGCTACCTATTATATT
66 TATAAGCGCTACCTATTATATT
* *
1959605 ATATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACCTATTTTATTA
1 ATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTAATTAACCTATTTTATTA
1959670 TATAAGCGCTACCTA
66 TATAAGCGCTACCTA
1959685 ATTTGTTATT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTAATTAACCTATTTTATTA
TATAAGCGCTACCTATTATATT
Found at i:1959670 original size:64 final size:64
Alignment explanation
Indices: 1959593--1959712 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
1959583 TATAAGCGCT
* *
1959593 ACCTATTATATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTA
1 ACCTATTATATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTAATTA
* * * *
1959657 ACCTATTTTATTATATAAGCGCTACCTAATTTGTTATTTTACTTGATAATATTTCC
1 ACCTATTATATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTTCC
1959713 GGTTAAATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (64 bp):
ACCTATTATATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTAATTA
Found at i:1959790 original size:11 final size:11
Alignment explanation
Indices: 1959774--1959798 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1959764 ACTAATCACG
1959774 CCGTTTTTTAA
1 CCGTTTTTTAA
1959785 CCGTTTTTTAA
1 CCGTTTTTTAA
1959796 CCG
1 CCG
1959799 CCGAACAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (11 bp):
CCGTTTTTTAA
Found at i:1969042 original size:16 final size:17
Alignment explanation
Indices: 1969006--1969039 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1968996 CTGAAAAATA
*
1969006 CCTA-GGTATTGATACT
1 CCTATGGTATCGATACT
1969022 CCTATGGTATCGATACT
1 CCTATGGTATCGATACT
1969039 C
1 C
1969040 TATAAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (17 bp):
CCTATGGTATCGATACT
Found at i:1982469 original size:5 final size:5
Alignment explanation
Indices: 1982445--1982584 Score: 65
Period size: 5 Copynumber: 27.4 Consensus size: 5
1982435 AAAATATTAT
* ** * * *
1982445 TAATAA TAATA TAA-A T-ATA TAATA TATTA TGCTA TAATA TTA-A TACTT
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
* * * * *
1982493 TATTA TAATA TGATA TAATTA TATTA TAATA TGATA T-ATA TTAATA T-TTA
1 TAATA TAATA TAATA TAA-TA TAATA TAATA TAATA TAATA -TAATA TAATA
*
1982543 TAATA TACCTATA TAATA TAATA TATTA TAGTATA TAATA TA
1 TAATA TA---ATA TAATA TAATA TAATA TA--ATA TAATA TA
1982585 TATTTTCAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
3 1 0.01
4 12 0.12
5 68 0.67
6 11 0.11
7 4 0.04
8 5 0.05
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (5 bp):
TAATA
Found at i:1982489 original size:21 final size:19
Alignment explanation
Indices: 1982458--1982571 Score: 60
Period size: 21 Copynumber: 5.8 Consensus size: 19
1982448 TAATAATATA
1982458 AATATATAATATATTATGCTAT
1 AATAT-TAATATATTAT--TAT
1982480 AATATTAATACT-TTATTAT
1 AATATTAATA-TATTATTAT
*
1982499 AATA-TGATATAATTATATTAT
1 AATATTAATAT-A-T-TATTAT
* *
1982520 AATATGATATATATTAATAT
1 AATATTA-ATATATTATTAT
* *
1982540 -TTA-TAATATACCTA-TAT
1 AATATTAATATA-TTATTAT
1982557 AATA-TAATATATTAT
1 AATATTAATATATTAT
1982572 AGTATATAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
17 11 0.15
18 16 0.22
19 9 0.12
20 6 0.08
21 20 0.27
22 7 0.10
23 4 0.05
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATTAATATATTATTAT
Found at i:1982546 original size:35 final size:33
Alignment explanation
Indices: 1982505--1982588 Score: 82
Period size: 35 Copynumber: 2.4 Consensus size: 33
1982495 TTATAATATG
1982505 ATATAATTATATTATAATATGATATATATTAATA-T
1 ATATAATTATATTATAATAT-A-ATATATT-ATAGT
*
1982540 TTATAA-TATACCTATATAATATAATATATTATAGT
1 ATATAATTATA--T-TATAATATAATATATTATAGT
1982575 ATATAATATATATT
1 ATATAAT-TATATT
1982589 TTCAAAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
34 8 0.20
35 19 0.46
36 2 0.05
37 12 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
ATATAATTATATTATAATATAATATATTATAGT
Found at i:1982629 original size:38 final size:33
Alignment explanation
Indices: 1982575--1982655 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 33
1982565 ATATTATAGT
1982575 ATATAATATATATTTTCAAAACATATATATACATA
1 ATATAATATATATTTTCAAAA-ATA-ATATACATA
* *
1982610 ATATAATATATACTTTTTTCAAAAATAATATATATT
1 ATATAATATATA---TTTTCAAAAATAATATACATA
1982646 ATATAATATA
1 ATATAATATA
1982656 CTATATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
35 12 0.29
36 17 0.41
37 3 0.07
38 9 0.22
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATAATATATATTTTCAAAAATAATATACATA
Found at i:1983065 original size:43 final size:43
Alignment explanation
Indices: 1983001--1983366 Score: 294
Period size: 43 Copynumber: 8.6 Consensus size: 43
1982991 CAATCCTCGA
* * * *
1983001 ATGACTCCCCTCCGTGGGTTAAGTCATGTGAAATATTCTTCGG
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
** * * * * *
1983044 ATGACTCCCCTTCGCAAGTTAAACCAGGTGAAATGTTATTCGA
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
* * * * * *
1983087 ATTACTCCCCTTCGTGGGTTAATCTAGGTGAAATATTCCTCGG
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
*
1983130 ATGACTCCCCTTCGTGGGTTAAGCC-AGATGAAATATTCTTCGG
1 ATGACTCCCCTTCGCGGGTTAAGCCAAG-TGAAATATTCTTCGG
* * * * *
1983173 ATGACTCCCCTTCGTGGGCTAAACCAAGTGAAATGTTCCTT-GA
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATT-CTTCGG
* * * * **
1983216 ATGACT-CCCTTCACGGGTTAAGCCATGCGAAATATTCCTCAA
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
** *
1983258 ATGACTCCCCTTCGCAAGTTAAGCCAAATGAAATATTCTTCGG
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
* * * *** *
1983301 ATGACT--CC-TCGCTGGTTAAGCTAGGTGAAGCGTTCTTCAG
1 ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
* * *
1983341 ATGAATCCCCTTTGTGGGTTAAGCCA
1 ATGACTCCCCTTCGCGGGTTAAGCCA
1983367 GGTAAAATGC
Statistics
Matches: 254, Mismatches: 61, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
40 28 0.11
41 4 0.02
42 33 0.13
43 184 0.72
44 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
ATGACTCCCCTTCGCGGGTTAAGCCAAGTGAAATATTCTTCGG
Found at i:1983224 original size:129 final size:128
Alignment explanation
Indices: 1982994--1983308 Score: 400
Period size: 129 Copynumber: 2.5 Consensus size: 128
1982984 ATCAGATCAA
* *
1982994 TCCTCGAATGACTCCCCTCCGTGGGTTAAGTCATG-TGAAATATTCTTCGGATGACTCCCCTTCG
1 TCCTCGAATGACTCCCCTTCGTGGGTTAAGCCA-GATGAAATATTCTTCGGATGACTCCCCTTCG
* * * ** * * *
1983058 CAAGTTAAACCAGGTGAAATGTTATTCGAATTACTCCCCTTCGTGGGTTAATCTAGGTGAAATAT
65 CAAGCTAAACCAAGTGAAATGTTATTCGAATGACT-CCCTTCACGGGTTAAGCCAGGCGAAATAT
* *
1983123 TCCTCGGATGACTCCCCTTCGTGGGTTAAGCCAGATGAAATATTCTTCGGATGACTCCCCTTCGT
1 TCCTCGAATGACTCCCCTTCGTGGGTTAAGCCAGATGAAATATTCTTCGGATGACTCCCCTTCGC
** * *
1983188 GGGCTAAACCAAGTGAAATGTTCCTT-GAATGACTCCCTTCACGGGTTAAGCCATGCGAAATAT
66 AAGCTAAACCAAGTGAAATGTT-ATTCGAATGACTCCCTTCACGGGTTAAGCCAGGCGAAATAT
* *** *
1983251 TCCTCAAATGACTCCCCTTCGCAAGTTAAGCCAAATGAAATATTCTTCGGATGACTCC
1 TCCTCGAATGACTCCCCTTCGTGGGTTAAGCCAGATGAAATATTCTTCGGATGACTCC
1983309 TCGCTGGTTA
Statistics
Matches: 162, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
128 76 0.47
129 84 0.52
130 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (128 bp):
TCCTCGAATGACTCCCCTTCGTGGGTTAAGCCAGATGAAATATTCTTCGGATGACTCCCCTTCGC
AAGCTAAACCAAGTGAAATGTTATTCGAATGACTCCCTTCACGGGTTAAGCCAGGCGAAATAT
Found at i:1983289 original size:128 final size:129
Alignment explanation
Indices: 1983029--1983308 Score: 366
Period size: 128 Copynumber: 2.2 Consensus size: 129
1983019 TTAAGTCATG
* * *
1983029 TGAAATATTCTTCGGATGACTCCCCTTCGCAAGTTAAACCAGGTGAAATGTTATTCGAATTACTC
1 TGAAATATTCTTCGGATGACTCCCCTTCGCAAGCTAAACCAAGTGAAATGTTATTCGAATGACTC
** * * * ** *** *
1983094 CCCTTCGTGGGTTAATCTAGGTGAAATATTCCTCGGATGACTCCCCTTCGTGGGTTAAGCCAGA
66 CCCTTCACGGGTTAAGCCAGGCGAAATATTCCTCAAATGACTCCCCTTCGCAAGTTAAGCCAAA
*** *
1983158 TGAAATATTCTTCGGATGACTCCCCTTCGTGGGCTAAACCAAGTGAAATGTTCCTT-GAATGACT
1 TGAAATATTCTTCGGATGACTCCCCTTCGCAAGCTAAACCAAGTGAAATGTT-ATTCGAATGACT
*
1983222 -CCCTTCACGGGTTAAGCCATGCGAAATATTCCTCAAATGACTCCCCTTCGCAAGTTAAGCCAAA
65 CCCCTTCACGGGTTAAGCCAGGCGAAATATTCCTCAAATGACTCCCCTTCGCAAGTTAAGCCAAA
1983286 TGAAATATTCTTCGGATGACTCC
1 TGAAATATTCTTCGGATGACTCC
1983309 TCGCTGGTTA
Statistics
Matches: 131, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
128 75 0.57
129 54 0.41
130 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (129 bp):
TGAAATATTCTTCGGATGACTCCCCTTCGCAAGCTAAACCAAGTGAAATGTTATTCGAATGACTC
CCCTTCACGGGTTAAGCCAGGCGAAATATTCCTCAAATGACTCCCCTTCGCAAGTTAAGCCAAA
Found at i:1993098 original size:44 final size:44
Alignment explanation
Indices: 1993049--1993240 Score: 226
Period size: 44 Copynumber: 4.4 Consensus size: 44
1993039 TGTTAATGAA
*
1993049 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGTC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCC
* ** * *
1993093 ATAAATGAAAATGCATTACGGTGCATTATTGGCTGAAAGGTGCC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCC
** * *
1993137 AT-AATGAAAATATATAACAATGCATTATTGGCTGAAAGGTGCC
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCC
* *** **
1993180 ATAAATAAAAATGCATAATGGTGCATTATTGGCA-AAAGATGTG
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCC
1993223 ATAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAA
1993241 TGGTGCATTA
Statistics
Matches: 125, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
43 61 0.49
44 64 0.51
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCC
Found at i:1993241 original size:43 final size:44
Alignment explanation
Indices: 1993049--1993252 Score: 225
Period size: 43 Copynumber: 4.7 Consensus size: 44
1993039 TGTTAATGAA
** *
1993049 ATAAATGAAAATGCATAACAATGCATTATTGGC-AGAAAGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCTA-AAAGATGCC
* * *
1993093 ATAAATGAAAATGCATTACGGTGCATTATTGGCTGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCTAAAAGATGCC
** ** * *
1993137 AT-AATGAAAATATATAACAATGCATTATTGGCTGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCTAAAAGATGCC
* * **
1993180 ATAAATAAAAATGCATAATGGTGCATTATTGGC-AAAAGATGTG
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCTAAAAGATGCC
*
1993223 ATAAATGAAAATGCATAATGGTGCATTATT
1 ATAAATGAAAATGCATAACGGTGCATTATT
1993253 AACATAAAAG
Statistics
Matches: 136, Mismatches: 22, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
43 73 0.54
44 63 0.46
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCTAAAAGATGCC
Found at i:1993252 original size:87 final size:88
Alignment explanation
Indices: 1993049--1993240 Score: 262
Period size: 87 Copynumber: 2.2 Consensus size: 88
1993039 TGTTAATGAA
* * *
1993049 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGTCATAAATGAAAATGCATTACGG
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCCATAAATAAAAATGCATAACGG
* *
1993114 TGCATTATTGGCTGAAAGGTGCC
66 TGCATTATTGGCTAAAAGATGCC
** * * *
1993137 AT-AATGAAAATATATAACAATGCATTATTGGCTGAAAGGTGCCATAAATAAAAATGCATAATGG
1 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCCATAAATAAAAATGCATAACGG
**
1993201 TGCATTATTGGC-AAAAGATGTG
66 TGCATTATTGGCTAAAAGATGCC
1993223 ATAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAA
1993241 TGGTGCATTA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 8 0.09
87 79 0.89
88 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (88 bp):
ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAAGATGCCATAAATAAAAATGCATAACGG
TGCATTATTGGCTAAAAGATGCC
Found at i:1994032 original size:21 final size:21
Alignment explanation
Indices: 1993982--1994036 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
1993972 AATAATAATA
*
1993982 ATAATAATAATATATTATTATT
1 ATAAT-ATAATATATTATTATC
* *
1994004 ATATTATAATATA-TATTGTGC
1 ATAATATAATATATTATTAT-C
1994025 ATAATAT-ATATA
1 ATAATATAATATA
1994037 CCATATACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.36
21 14 0.50
22 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATAATATAATATATTATTATC
Found at i:1994033 original size:2 final size:2
Alignment explanation
Indices: 1994028--1994147 Score: 51
Period size: 2 Copynumber: 61.0 Consensus size: 2
1994018 ATTGTGCATA
* *
1994028 AT AT AT AT ACC AT AT ACT -T AT AT A- AT AT ACT AT AGT TT AT ACT
1 AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT A-T AT A-T AT AT A-T
* * *
1994071 AT AT AT AT TT AT TT A- AT AT AT AT AT AT AT AT -T CA- AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* *
1994110 A- AT AT AT AT -T TT AT A- AT AT ACT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
1994148 TAAAAATACT
Statistics
Matches: 90, Mismatches: 12, Indels: 32
0.67 0.09 0.24
Matches are distributed among these distances:
1 9 0.10
2 72 0.80
3 9 0.10
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1994085 original size:19 final size:19
Alignment explanation
Indices: 1994063--1994139 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 19
1994053 TATACTATAG
1994063 TTTATACTATATATATTTA
1 TTTATACTATATATATTTA
*
1994082 TTTAATA-TATATATATATA
1 TTT-ATACTATATATATTTA
* * *
1994101 TTCAAAATTAATATATATTTTA
1 TT-TATACT-ATATATA-TTTA
*
1994123 TAATATACTATATATAT
1 T-TTATACTATATATAT
1994140 AAATATATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
19 18 0.41
20 5 0.11
21 14 0.32
22 7 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTATACTATATATATTTA
Found at i:1994135 original size:17 final size:16
Alignment explanation
Indices: 1994048--1994095 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
1994038 CATATACTTA
*
1994048 TATAATATACTATAGTT
1 TATAATATA-TATATTT
*
1994065 TATACTATATATATTT
1 TATAATATATATATTT
*
1994081 ATTTAATATATATAT
1 -TATAATATATATAT
1994096 ATATATTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (16 bp):
TATAATATATATATTT
Found at i:1994168 original size:50 final size:46
Alignment explanation
Indices: 1994086--1994179 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
1994076 TATTTATTTA
* * * * *
1994086 ATATATATATATATATTCAAAATTAATATATATTTTATAATATACT
1 ATATATATAAATATATTAAAAATTAACATATATATTAAAATATACT
1994132 ATATATATAAATATATTAAAAATACTATACACTATATATTAAAATATA
1 ATATATATAAATATATTAAAAAT--TA-ACA-TATATATTAAAATATA
1994180 ATTCAAAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
46 21 0.54
48 2 0.05
49 2 0.05
50 14 0.36
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (46 bp):
ATATATATAAATATATTAAAAATTAACATATATATTAAAATATACT
Found at i:2001482 original size:30 final size:30
Alignment explanation
Indices: 2001437--2001522 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
2001427 TTGTTACAGT
* *
2001437 GACCACCATAGGTCTCCAGGAGCACATGGC
1 GACCTCCATATGTCTCCAGGAGCACATGGC
* *
2001467 GACCTCCATATGTCTCTAGGAGCACATGGT
1 GACCTCCATATGTCTCCAGGAGCACATGGC
*
2001497 GACCTCCATATGTCTTCAGGAGCACA
1 GACCTCCATATGTCTCCAGGAGCACA
2001523 CAGTGACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (30 bp):
GACCTCCATATGTCTCCAGGAGCACATGGC
Found at i:2001529 original size:30 final size:30
Alignment explanation
Indices: 2001432--2001531 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
2001422 GGTGATTGTT
* * *
2001432 ACAGTGACCACCATAGGTCTCCAGGAGCAC
1 ACAGTGACCTCCATATGTCTTCAGGAGCAC
** *
2001462 ATGGCGACCTCCATATGTC-TCTAGGAGCAC
1 ACAGTGACCTCCATATGTCTTC-AGGAGCAC
**
2001492 ATGGTGACCTCCATATGTCTTCAGGAGCAC
1 ACAGTGACCTCCATATGTCTTCAGGAGCAC
2001522 ACAGTGACCT
1 ACAGTGACCT
2001532 ATGGAGCACT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.02
30 56 0.95
31 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (30 bp):
ACAGTGACCTCCATATGTCTTCAGGAGCAC
Found at i:2002079 original size:42 final size:41
Alignment explanation
Indices: 2002023--2002104 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
2002013 AAGGACGACC
* * * *
2002023 GGAGTCTACGACGTTTGAGAATCTGGTGAGGGATGAAGGCT
1 GGAGTCTACGACGTTTAAGAATATGGTGAGAGAGGAAGGCT
* *
2002064 GGAGTCTGCCGACGTTTAAGATTATGGTGAGAGAGGAAGGC
1 GGAGTCT-ACGACGTTTAAGAATATGGTGAGAGAGGAAGGC
2002105 ATCTATAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.26, C:0.12, G:0.39, T:0.23
Consensus pattern (41 bp):
GGAGTCTACGACGTTTAAGAATATGGTGAGAGAGGAAGGCT
Found at i:2011282 original size:29 final size:28
Alignment explanation
Indices: 2011234--2011289 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
2011224 GAATAAAAAT
* * *
2011234 GAAAAATAATAAAATAATAATTCAAAGG
1 GAAAAATAAAAAAAAAATAATTAAAAGG
2011262 GAAAAATAAAAATAAAAATAATTAAAAG
1 GAAAAATAAAAA-AAAAATAATTAAAAG
2011290 AATATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (28 bp):
GAAAAATAAAAAAAAAATAATTAAAAGG
Found at i:2011479 original size:18 final size:17
Alignment explanation
Indices: 2011428--2011505 Score: 61
Period size: 18 Copynumber: 4.5 Consensus size: 17
2011418 AAAAAATTTT
* *
2011428 AAAAACAAATTAAAGAA
1 AAAAAAAAATAAAAGAA
* *
2011445 AAGAAAGAAA-AACA-AA
1 AA-AAAAAAATAAAAGAA
* *
2011461 ATAAAAACATAAAAGAA
1 AAAAAAAAATAAAAGAA
2011478 AAAAGAAAAATAAAAGAA
1 AAAA-AAAAATAAAAGAA
2011496 AAGAAAAAAA
1 AA-AAAAAAA
2011506 GTAGATTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
15 5 0.11
16 6 0.13
17 9 0.19
18 25 0.53
19 2 0.04
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAAAAAAATAAAAGAA
Found at i:2011494 original size:11 final size:11
Alignment explanation
Indices: 2011448--2011497 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
2011438 TAAAGAAAAG
2011448 AAAGAAAAACA
1 AAAGAAAAACA
*
2011459 AAATAAAAACA
1 AAAGAAAAACA
* *
2011470 TAA-AAGAA-A
1 AAAGAAAAACA
*
2011479 AAAGAAAAATA
1 AAAGAAAAACA
2011490 AAAGAAAA
1 AAAGAAAA
2011498 GAAAAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 8 0.25
11 21 0.66
ACGTcount: A:0.82, C:0.04, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAGAAAAACA
Found at i:2011503 original size:24 final size:25
Alignment explanation
Indices: 2011434--2011506 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
2011424 TTTTAAAAAC
*
2011434 AAATTAAAGAAAAGAAAGAAAA-ACA
1 AAATAAAAGAAAAGAAA-AAAAGACA
*
2011459 AAATAAAA-ACATAAAAGAAAAAAGA-A
1 AAATAAAAGA-A-AAGA-AAAAAAGACA
2011485 AAATAAAAGAAAAGAAAAAAAG
1 AAATAAAAGAAAAGAAAAAAAG
2011507 TAGATTAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
24 8 0.20
25 11 0.28
26 17 0.43
27 4 0.10
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.07
Consensus pattern (25 bp):
AAATAAAAGAAAAGAAAAAAAGACA
Found at i:2012686 original size:29 final size:26
Alignment explanation
Indices: 2012650--2012706 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
2012640 ATTTTCAAAA
*
2012650 ATAT-TTTTTTAAAAACTATATATTAT
1 ATATATTTTTT-AAAACTATATACTAT
2012676 ATATATGTTTTTAAAACTATATACTAT
1 ATATAT-TTTTTAAAACTATATACTAT
2012703 ATAT
1 ATAT
2012707 TTTCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 4 0.14
27 19 0.68
28 5 0.18
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (26 bp):
ATATATTTTTTAAAACTATATACTAT
Found at i:2012744 original size:38 final size:38
Alignment explanation
Indices: 2012680--2012882 Score: 238
Period size: 37 Copynumber: 5.4 Consensus size: 38
2012670 TATTATATAT
* * *
2012680 ATGTTTT-TAAAACTATATA--CTATATATTTTCAAAA
1 ATGTTTTCAAAAACTATATATTATATATATTTTTAAAA
* *
2012715 ATATTTTCAAAAGCTATATATTATATATATATTTTAAAA
1 ATGTTTTCAAAAACTATATATTATATATAT-TTTTAAAA
* *
2012754 ATGTTTTC-AAAACTATATAATATATGT-TTTTTAAAA
1 ATGTTTTCAAAAACTATATATTATATATATTTTTAAAA
* *
2012790 ATGTTTTCAAAAATTATATATTAAATATA-TTTTAAAA
1 ATGTTTTCAAAAACTATATATTATATATATTTTTAAAA
* * *
2012827 ATGTTTTCAAAAAATATATATTATATATATATTAAAAA
1 ATGTTTTCAAAAACTATATATTATATATATTTTTAAAA
2012865 ATGTTTTCAAAAAACTAT
1 ATGTTTTC-AAAAACTAT
2012883 TTTTCAAAAC
Statistics
Matches: 142, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.04
36 26 0.18
37 51 0.36
38 37 0.26
39 22 0.15
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
ATGTTTTCAAAAACTATATATTATATATATTTTTAAAA
Found at i:2012771 original size:99 final size:96
Alignment explanation
Indices: 2012585--2012789 Score: 215
Period size: 99 Copynumber: 2.1 Consensus size: 96
2012575 TTCAAAAACA
* * *
2012585 TTTTCAAACTATATATTATATATATTTAAAAATGTTTTCAAAAAATTATATAGATATTTTCAAAA
1 TTTTAAAACTATATACTATATATATTTAAAAATATTTTCAAAAAATTATATAGATATTTT-AAAA
*
2012650 ATATTTTTTTAAAAACTATATATTATATATATG-T
65 ATATTGTTTTAAAAAC-ATATA-TA-ATATATGTT
*
2012684 TTTTAAAACTATATACTATATAT-TTTCAAAAATATTTTCAAAAGCTATATATTATATATATATT
1 TTTTAAAACTATATACTATATATATTT-AAAAATATTTTC-AAA---A-A-ATTATATAGATATT
*
2012748 TT-AAAA-A-TGTTTTCAAAAC-TATATAATATATGTT
59 TTAAAAATATTGTTTTAAAAACATATATAATATATGTT
2012782 TTTTAAAA
1 TTTTAAAA
2012790 ATGTTTTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
97 7 0.08
98 14 0.15
99 36 0.39
100 3 0.03
101 10 0.11
102 1 0.01
103 5 0.05
104 1 0.01
105 15 0.16
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (96 bp):
TTTTAAAACTATATACTATATATATTTAAAAATATTTTCAAAAAATTATATAGATATTTTAAAAA
TATTGTTTTAAAAACATATATAATATATGTT
Found at i:2012939 original size:36 final size:36
Alignment explanation
Indices: 2012883--2012963 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 36
2012873 AAAAAACTAT
*
2012883 TTTTCAAAACTATATAATATATGTTTTC-AAAAC-G
1 TTTTCAAAACTATATAATATATATTTTCGAAAACTG
2012917 TTTTCAAAACTATATAATATATATATTTTCGAAAACTG
1 TTTTCAAAACTATAT-A-ATATATATTTTCGAAAACTG
*
2012955 CTTTCAAAA
1 TTTTCAAAA
2012964 AATATTTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 15 0.37
35 1 0.02
36 11 0.27
37 5 0.12
38 9 0.22
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (36 bp):
TTTTCAAAACTATATAATATATATTTTCGAAAACTG
Found at i:2012996 original size:2 final size:2
Alignment explanation
Indices: 2012984--2013012 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2012974 AAAATTATGT
2012984 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2013013 AATAAATACG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2013706 original size:84 final size:84
Alignment explanation
Indices: 2013573--2014741 Score: 1525
Period size: 84 Copynumber: 13.9 Consensus size: 84
2013563 CAGATAGCTT
* * * * * *
2013573 TTCTCGACTTAAGTTATGCTGTAAATTTGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAATG
1 TTCTCGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
* *
2013638 TCTTATGTTGGCAGATGACCC
64 TCTTTTGTTGGCAGATAACCC
* *
2013659 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCAAACTCGAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* * *
2013724 -TTAGTTGACAGATAAGCC
66 TTTTGTTGGCAGATAACCC
* * *
2013742 TTCTCACCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
*
2013807 TTTTGTTGGTAGATAACCC
66 TTTTGTTGGCAGATAACCC
* * * * * * * *
2013826 TTATCACCTTGAGTTATGTTGGAAATTATGTGCCTTTGAGCTGAGTGTAATTGAGCTCGAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
2013891 TTTTGTTGGCAGATAACCC
66 TTTTGTTGGCAGATAACCC
* * *
2013910 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* *
2013975 TTTTGTTGGTAGATAGCCC
66 TTTTGTTGGCAGATAACCC
* * * * * *
2013994 TTTTCGCCTTGAGTTATGCTGCAAATGATTATGCCTTTGAGTTGAATGTAATCAAACTCGAAGGT
1 TTCTCGCCTTGAGCTATGCTGCAAATGA-TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
*
2014059 CTTTTGTTGGCAGATAGCCC
65 CTTTTGTTGGCAGATAACCC
* *
2014079 TTCTCGCCTTGAGCTATGCTGCAAATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* * *
2014144 TTTTGTTGGTAGATAGCCA
66 TTTTGTTGGCAGATAACCC
** * * *
2014163 TTCTTTCCTTGAGCTATGCTACAAATGATGTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTA
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
*
2014228 TTTTATTGGCAGATAACCC
66 TTTTGTTGGCAGATAACCC
* *
2014247 TTCTCGCCTTGAGATATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* *
2014312 TTTTGTTGGTAGATAGCCC
66 TTTTGTTGGCAGATAACCC
*
2014331 TTCTCGCCTTGAGCTATGCAGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
**
2014396 -TTTGTTAACAGATAACCC
66 TTTTGTTGGCAGATAACCC
** * * * * * * *
2014414 TTCTCATCTTGAGTTATGTTGTAAATTGTATATGCCTTTGAGATGAGCGTAGTCGAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGCAAA-TG-ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
*
2014479 TCTTTTATTGGCAGATAACCC
64 TCTTTTGTTGGCAGATAACCC
* * * * * *
2014500 TTCTCGCCTTGAGCTATGTTGTAAATGATGTGCCTTTAAGCTGAATGTAATTGAACTCGAATGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
*
2014565 TTTTGTTGGCAGATAGCCC
66 TTTTGTTGGCAGATAACCC
* *
2014584 TTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAAATCGAAGG-C
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* **
2014648 CTTTGTTGATAGATAACCC
66 TTTTGTTGGCAGATAACCC
* ** *
2014667 TTCTCGCCTTGAGTTATATTGTAAATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGCAAA-T-GATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
2014732 TCTTTTGTTG
64 TCTTTTGTTG
2014742 AAGGTGTTCT
Statistics
Matches: 950, Mismatches: 125, Indels: 16
0.87 0.11 0.01
Matches are distributed among these distances:
83 144 0.15
84 592 0.62
85 148 0.16
86 66 0.07
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (84 bp):
TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
TTTTGTTGGCAGATAACCC
Found at i:2014141 original size:337 final size:335
Alignment explanation
Indices: 2013573--2014742 Score: 1592
Period size: 337 Copynumber: 3.5 Consensus size: 335
2013563 CAGATAGCTT
* * * * * * *
2013573 TTCTCGACTTAAGTTATGCTGTAAATTTGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAATG
1 TTCTCGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * *
2013638 TCTTATGTTGGCAGAT-GACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGATG
64 TCTTTTGTTGGTAGATAG-CCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTG
*
2013702 AGTGTAATCAAACTCGAAGGTCTTAGTTGACAGATAAG-CCTTCTCACCTTGAGTTATGCTGTAA
128 AGTGTAATCAAACTCGAAGGTCTTTGTTGACAGAT-AGCCCTTCTCACCTTGAGTTATGCTGTAA
* *
2013766 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTATC
192 ATGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTC
* * * * *
2013831 ACCTTGAGTTATGTTGGAAATTATGTGCCTTTGAGCTGAGTGTAATTGAGCTCGAAGGTCTTTTG
257 ACCTTGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATTGAACTCGAAGGTCTTTTG
2013896 TTGGCAGATAACCC
322 TTGGCAGATAACCC
* *
2013910 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTC
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
* * * * *
2013975 TTTTGTTGGTAGATAGCCCTTTTCGCCTTGAGTTATGCTGCAAATGATTATGCCTTTGAGTTGAA
66 TTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGA-TGTGCCTTTGAGCTGAG
* * * *
2014040 TGTAATCAAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAAT
130 TGTAATCAAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGTAAAT
* * * **
2014105 GATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAGCCATTCTTTC
194 GATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTCAC
* * * * * *
2014170 CTTGAGCTATGCTACAAATGATGTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTATTTTATT
259 CTTGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTT
2014235 GGCAGATAACCC
324 GGCAGATAACCC
*
2014247 TTCTCGCCTTGAGATATGCTGCAAATGATGTGCCTTTGAGCT-AAGTGTAATCGAACTCGAAGGT
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAA-TGTAATCGAACTCGAAGGT
*
2014311 CTTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGCTATGCAGCAAATGATGTGCCTTTGAGCTGAG
65 CTTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAG
* * * * *
2014376 TGTAATCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTCTCATCTTGAGTTATGTTGTAAATT
130 TGTAATCAAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGTAAA-T
* * * * * *
2014441 GTATATGCCTTTGAGATGAGCGTAGTCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTCG
194 G-ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTCA
* * *
2014506 CCTTGAGCTATGTTGTAAATGATGTGCCTTTAAGCTGAATGTAATTGAACTCGAATGTCTTTTGT
258 CCTTGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGT
*
2014571 TGGCAGATAGCCC
323 TGGCAGATAACCC
* * *
2014584 TTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAAATCGAAGG-C
1 TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
* * * * ** *
2014648 CTTTGTTGATAGATAACCCTTCTCGCCTTGAGTTATATTGTAAATTGGATGTGCCTTTGAGCTGA
66 TTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAA-T-GATGTGCCTTTGAGCTGA
*
2014713 GTGTAATCGAACTCGAAGGTCTTTTGTTGA
129 GTGTAATCAAACTCGAAGGTC-TTTGTTGA
2014743 AGGTGTTCTT
Statistics
Matches: 733, Mismatches: 89, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
335 111 0.15
336 111 0.15
337 464 0.63
338 40 0.05
339 7 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (335 bp):
TTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
TTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
GTAATCAAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGTAAATGA
TATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTCACCT
TGAGCTATGTTGCAAATGATGTGCCTTTAAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGG
CAGATAACCC
Found at i:2014143 original size:253 final size:252
Alignment explanation
Indices: 2013554--2014741 Score: 1556
Period size: 253 Copynumber: 4.7 Consensus size: 252
2013544 ACAAGACAAT
** ** * * * * *
2013554 TTTTGTTAACAGATAGCTTTTCTCGACTTAAGTTATGCTGTAAATTTGATGTGCCTTTGAACTGA
1 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGA
* * *
2013619 GTGTAATCGAACTCGAATGTCTTATGTTGGCAGATGACCCTTCTCGCCTTGAGCTATGCTGCAAA
64 GTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA
* * * * * *
2013684 TGATGTGCCTTTGAGATGAGTGTAATCAAACTCGAAGGTC-TTAGTTGACAGATAAGCCTTCTCA
129 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* *
2013748 CCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
194 CCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
* * * * * * * *
2013807 TTTTGTTGGTAGATAACCCTTATCACCTTGAGTTATGTTGGAAATTATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* *
2013872 GTAATTGAGCTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATG
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATG
* * * * * *
2013937 ATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTTTGTTGGTAGATAGCCCTTTTCGCC
131 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCC
* * *
2014002 TTGAGTTATGCTGCAAATGATTATGCCTTTGAGTTGAATGTAATCAAACTCGAAGGTC
196 TTGAGTTATGCTGCAAATGA-TGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
* *
2014060 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATATGCCTTTGAGCTGAAT
1 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* * * ** *
2014125 GTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAGCCATTCTTTCCTTGAGCTATGCTACAAATG
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATG
* * *
2014190 ATGTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTATTTTATTGGCAGATAACCCTTCTCGCC
131 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCC
*
2014255 TTGAGATATGCTGCAAATGATGTGCCTTTGAGCT-AAGTGTAATCGAACTCGAAGGTC
196 TTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAA-TGTAATCGAACTCGAAGGTC
* *
2014312 TTTTGTTGGTAGATAGCCCTTCTCGCCTTGAGCTATGCAGCAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
** ** * * *
2014377 GTAATCGAACTCGAAGGTC-TTTGTTAACAGATAACCCTTCTCATCTTGAGTTATGTTGTAAATT
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA-T
* * * * *
2014441 GTATATGCCTTTGAGATGAGCGTAGTCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTCG
130 G-ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* * * * * *
2014506 CCTTGAGCTATGTTGTAAATGATGTGCCTTTAAGCTGAATGTAATTGAACTCGAATGTC
194 CCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
*
2014565 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* * ** * ** *
2014630 GTAATCGAAATCGAAGG-CCTTTGTTGATAGATAACCCTTCTCGCCTTGAGTTATATTGTAAATT
66 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA-T
2014694 GGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
130 -GATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
2014742 AAGGTGTTCT
Statistics
Matches: 818, Mismatches: 109, Indels: 16
0.87 0.12 0.02
Matches are distributed among these distances:
251 145 0.18
252 152 0.19
253 518 0.63
254 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (252 bp):
TTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATG
ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCC
TTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
Found at i:2015724 original size:95 final size:94
Alignment explanation
Indices: 2015515--2015774 Score: 332
Period size: 95 Copynumber: 2.7 Consensus size: 94
2015505 AGCTAGCTGG
* *
2015515 ATCCATAAAGTCGGGACGTTTAACCAATTGCTCTAGAGGGACAACTCA-ATATTGTTGTATAGAT
1 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAGAT-TTATTG--T--AT
*
2015579 ATTATAATCACCTTTATCATGCTAGCTGAATATT
61 ATTATAATCACCTTTATCAGGCTAGCTGAATATT
*
2015613 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCGAGCTTTATTGTATATTA
1 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTC-AGATTTATTGTATATTA
*
2015678 TACTCACCTTTATCAGGCTAGCTGAA-ACTT
65 TAATCACCTTTATCAGGCTAGCTGAATA-TT
* * *
2015708 ATCCATAAAG-CTGGGGCGTTTAACCAATTGCTTTAGAGGGACGACTCAAGTTTTATT-TATA-T
1 ATCCATAAAGTC-GGGGCGTTTAACCAATTGCTCTAGAGGGACAACTC-AGATTTATTGTATATT
2015770 ATAAT
64 ATAAT
2015775 ATTATAATCT
Statistics
Matches: 148, Mismatches: 10, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
93 5 0.03
94 6 0.04
95 83 0.56
97 1 0.01
98 46 0.31
99 6 0.04
100 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (94 bp):
ATCCATAAAGTCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAGATTTATTGTATATTAT
AATCACCTTTATCAGGCTAGCTGAATATT
Found at i:2018445 original size:16 final size:16
Alignment explanation
Indices: 2018424--2018467 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
2018414 TGAAAAAGTC
2018424 CTACCCCACATGATAT
1 CTACCCCACATGATAT
2018440 CTACCCCACATGATAT
1 CTACCCCACATGATAT
*
2018456 CTACCACACATG
1 CTACCCCACATG
2018468 CTTATTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.32, C:0.39, G:0.07, T:0.23
Consensus pattern (16 bp):
CTACCCCACATGATAT
Found at i:2019573 original size:19 final size:19
Alignment explanation
Indices: 2019521--2019573 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
2019511 TTAAAAGGGA
*
2019521 AAAAATAAAAATAAAGAATT
1 AAAAATAATAA-AAAGAATT
*
2019541 AAAAATAATTAAAAGAATAT
1 AAAAATAATAAAAAGAAT-T
*
2019561 TAAAA-AATAAAAA
1 AAAAATAATAAAAA
2019574 AAAGGGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAATAATAAAAAGAATT
Found at i:2019573 original size:49 final size:48
Alignment explanation
Indices: 2019482--2019574 Score: 116
Period size: 49 Copynumber: 1.9 Consensus size: 48
2019472 CATAAAAAGG
* **
2019482 AATAAAAATGAAAAATAATAAAATAATAATTAAAAGGGAAAAAATAAA
1 AATAAAAATGAAAAATAATAAAAGAATAATTAAAAAAGAAAAAATAAA
* *
2019530 AATAAAGAATTAAAAATAATTAAAAGAAT-ATTAAAAAATAAAAAA
1 AATAAA-AATGAAAAATAA-TAAAAGAATAATTAAAAAAGAAAAAA
2019575 AAGGGTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
48 6 0.16
49 24 0.63
50 8 0.21
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (48 bp):
AATAAAAATGAAAAATAATAAAAGAATAATTAAAAAAGAAAAAATAAA
Found at i:2019707 original size:13 final size:12
Alignment explanation
Indices: 2019674--2019718 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
2019664 AATAGCTAAA
**
2019674 TAAAAAAATAAG
1 TAAAAAAATATT
2019686 TAAAAAAATATT
1 TAAAAAAATATT
*
2019698 TAAAACAAATTTT
1 TAAAA-AAATATT
2019711 TAAAAAAA
1 TAAAAAAA
2019719 GAAAGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (12 bp):
TAAAAAAATATT
Found at i:2019743 original size:11 final size:12
Alignment explanation
Indices: 2019729--2019761 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2019719 GAAAGAAAAG
2019729 AAATAAAAAC-A
1 AAATAAAAACAA
2019740 AAATAAAAACATA
1 AAATAAAAACA-A
2019753 AAATAAAAA
1 AAATAAAAA
2019762 AGTAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (12 bp):
AAATAAAAACAA
Found at i:2019757 original size:13 final size:13
Alignment explanation
Indices: 2019729--2019774 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
2019719 GAAAGAAAAG
2019729 AAATAAAAAC--A
1 AAATAAAAACATA
2019740 AAATAAAAACATA
1 AAATAAAAACATA
2019753 AAATAAAAA-AGTA
1 AAATAAAAACA-TA
*
2019766 AAAGAAAAA
1 AAATAAAAA
2019775 AAGAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.32
12 1 0.03
13 20 0.65
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (13 bp):
AAATAAAAACATA
Found at i:2019784 original size:8 final size:8
Alignment explanation
Indices: 2019712--2019784 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
2019702 ACAAATTTTT
2019712 AAAAAAAG
1 AAAAAAAG
2019720 AAAGAAAAG
1 AAA-AAAAG
*
2019729 AAATAAA-
1 AAAAAAAG
* *
2019736 AACAAAAT
1 AAAAAAAG
* *
2019744 AAAAACAT
1 AAAAAAAG
2019752 AAAATAAA-
1 AAAA-AAAG
2019760 AAAGTAAAAG
1 AAA--AAAAG
2019770 AAAAAAAG
1 AAAAAAAG
2019778 AAAAAAA
1 AAAAAAA
2019785 TAGATTAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
7 5 0.09
8 31 0.58
9 13 0.25
10 4 0.08
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.07
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2020900 original size:20 final size:20
Alignment explanation
Indices: 2020871--2020915 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2020861 CTGAAAAAGA
*
2020871 AAAAAAGAAAATTAAT-AAAT
1 AAAAAAGAAAA-AAATAAAAT
*
2020891 AAAAATGAAAAAAATAAAAT
1 AAAAAAGAAAAAAATAAAAT
2020911 AAAAA
1 AAAAA
2020916 CAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAAAAGAAAAAAATAAAAT
Found at i:2021057 original size:2 final size:2
Alignment explanation
Indices: 2021047--2021118 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
2021037 TTTTAAAAAC
2021047 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2021088 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2021119 GTTTTCAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2021167 original size:61 final size:66
Alignment explanation
Indices: 2021097--2021284 Score: 182
Period size: 68 Copynumber: 2.7 Consensus size: 66
2021087 ATATATATAT
* *
2021097 ATATATATATATATATGTATATGTTTTCAAAACTATATAATATATG-TTTTCAAAA-TTTTCAAA
1 ATATATATATATATAT-TA-ATATTTTCAAAACTATATAATATATGTTTTTAAAAACTTTTCAAA
2021160 AAC
64 AAC
2021163 TATATATATATATATATTAAAAATATTTTCAAAACTATATAATATATGTTTTTTTAAAAACGTTT
1 -ATATATATATATATATT---AATATTTTCAAAACTATATAATATATG--TTTTTAAAAAC-TTT
2021228 TCAAAAAC
59 TCAAAAAC
* * *
2021236 TATATATTAAATATATTTTAAAACTATTTTCAAAAACTATATATTATAT
1 -ATATA-TATATATATATT--AA-TATTTTCAA-AACTATATAATATAT
2021285 ATATTTTCCA
Statistics
Matches: 105, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
66 1 0.01
67 16 0.15
68 25 0.24
69 1 0.01
71 8 0.08
73 21 0.20
74 19 0.18
75 14 0.13
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (66 bp):
ATATATATATATATATTAATATTTTCAAAACTATATAATATATGTTTTTAAAAACTTTTCAAAAA
C
Found at i:2021171 original size:37 final size:37
Alignment explanation
Indices: 2021130--2021309 Score: 178
Period size: 37 Copynumber: 4.9 Consensus size: 37
2021120 TTTTCAAAAC
*
2021130 TATATAATATATGTTTTCAAA-ATTTTCAAAAACTATA
1 TATATAATATAT-TTTTAAAATATTTTCAAAAACTATA
* *
2021167 TATAT-ATATATATTAAAAATATTTTC-AAAACTATA
1 TATATAATATATTTTTAAAATATTTTCAAAAACTATA
* *
2021202 TA-ATATATGTTTTTTTAAAA-ACGTTTTCAAAAACTATA
1 TATATA-ATATATTTTTAAAATA--TTTTCAAAAACTATA
2021240 TAT-TAA-ATATATTTTAAAACTATTTTCAAAAACTATA
1 TATATAATATAT-TTTTAAAA-TATTTTCAAAAACTATA
*
2021277 TAT-TATATATATTTTCCAAAATATTTTCAAAAA
1 TATATA-ATATATTTT-TAAAATATTTTCAAAAA
2021310 AACTATTTTT
Statistics
Matches: 120, Mismatches: 10, Indels: 25
0.77 0.06 0.16
Matches are distributed among these distances:
34 2 0.02
35 17 0.14
36 24 0.20
37 39 0.32
38 29 0.24
39 9 0.08
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (37 bp):
TATATAATATATTTTTAAAATATTTTCAAAAACTATA
Found at i:2021273 original size:13 final size:13
Alignment explanation
Indices: 2021225--2021328 Score: 53
Period size: 13 Copynumber: 8.1 Consensus size: 13
2021215 TTTAAAAACG
2021225 TTTTCAAAAACTA
1 TTTTCAAAAACTA
*
2021238 TATATT-AAATA-TA
1 T-T-TTCAAAAACTA
2021251 TTTT--AAAACTA
1 TTTTCAAAAACTA
2021262 TTTTCAAAAACTA
1 TTTTCAAAAACTA
* *
2021275 TATATT-ATATA-TA
1 T-T-TTCAAAAACTA
*
2021288 TTTTCCAAAA-TA
1 TTTTCAAAAACTA
2021300 TTTTCAAAAAAACTA
1 TTTTC--AAAAACTA
2021315 TTTTTC-AAAACTA
1 -TTTTCAAAAACTA
2021328 T
1 T
2021329 ATAATATATG
Statistics
Matches: 71, Mismatches: 8, Indels: 25
0.68 0.08 0.24
Matches are distributed among these distances:
10 3 0.04
11 10 0.14
12 12 0.17
13 22 0.31
14 13 0.18
15 6 0.08
16 5 0.07
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTTCAAAAACTA
Found at i:2021345 original size:24 final size:26
Alignment explanation
Indices: 2021313--2021376 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
2021303 TCAAAAAAAC
2021313 TATTTTTCAAAACTAT-ATA-ATATA
1 TATTTTTCAAAACTATAATATATATA
*
2021337 TGTTTTTCAAAACTATAATATATATA
1 TATTTTTCAAAACTATAATATATATA
*
2021363 TATTTTTGAAAACT
1 TATTTTTCAAAACT
2021377 GCTCTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 15 0.43
25 3 0.09
26 17 0.49
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (26 bp):
TATTTTTCAAAACTATAATATATATA
Found at i:2021356 original size:22 final size:23
Alignment explanation
Indices: 2021315--2021359 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
2021305 AAAAAAACTA
2021315 TTTTTCAAAACTATATAATATATG
1 TTTTTCAAAAC-ATATAATATATG
2021339 TTTTTCAAAAC-TATAATATAT
1 TTTTTCAAAACATATAATATAT
2021360 ATATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTTCAAAACATATAATATATG
Found at i:2022713 original size:33 final size:33
Alignment explanation
Indices: 2022651--2022753 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
2022641 ACAAAGTTTA
* *
2022651 CGAT-AATTGAAATAC-TAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
* *
2022682 CGATAAATTCAAATATTTAAAAACTTTCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
2022715 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
2022748 CGATAA
1 CGATAA
2022754 TTGAAACAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 4 0.06
32 9 0.14
33 51 0.80
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:2022773 original size:21 final size:21
Alignment explanation
Indices: 2022748--2022789 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2022738 CTTCCAAGTT
2022748 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
2022769 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
2022790 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:2025943 original size:26 final size:26
Alignment explanation
Indices: 2025914--2026000 Score: 86
Period size: 26 Copynumber: 3.2 Consensus size: 26
2025904 ACTATAAAGG
2025914 TAAAAAGTGAGACCATTTTATAAAAT
1 TAAAAAGTGAGACCATTTTATAAAAT
* * * **
2025940 TAAAAAAT-AGGAGCCCTTAACTATAAAGG
1 TAAAAAGTGA-GA-CCATT--TTATAAAAT
2025969 TAAAAAGTGAGACCATTTTATAAAAT
1 TAAAAAGTGAGACCATTTTATAAAAT
2025995 TAAAAA
1 TAAAAA
2026001 ATTAAGGACC
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
25 1 0.02
26 21 0.46
27 4 0.09
28 4 0.09
29 15 0.33
30 1 0.02
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (26 bp):
TAAAAAGTGAGACCATTTTATAAAAT
Found at i:2025965 original size:55 final size:54
Alignment explanation
Indices: 2025891--2026069 Score: 223
Period size: 55 Copynumber: 3.2 Consensus size: 54
2025881 TAAGAATTTT
2025891 ATAGGAGCCCTTAACTATAAAGGTAAAAAGTGAGACCATTTTATAAAATTAAAAA
1 ATAGGA-CCCTTAACTATAAAGGTAAAAAGTGAGACCATTTTATAAAATTAAAAA
2025946 ATAGGAGCCCTTAACTATAAAGGTAAAAAGTGAGACCATTTTATAAAATTAAAAA
1 ATAGGA-CCCTTAACTATAAAGGTAAAAAGTGAGACCATTTTATAAAATTAAAAA
* * * * * ** * *
2026001 ATTAAGGACCCTCAATTAGAAAAGTAGAAAGTGAGGATTACTATATAAAATTGAAAAA
1 A-T-AGGACCCTTAACTATAAAGGTAAAAAGTGA-GACCATTTTATAAAATT-AAAAA
2026059 ATAGGACCCTT
1 ATAGGACCCTT
2026070 TAATAATTAG
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
55 56 0.51
56 30 0.27
57 18 0.16
58 6 0.05
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (54 bp):
ATAGGACCCTTAACTATAAAGGTAAAAAGTGAGACCATTTTATAAAATTAAAAA
Found at i:2032044 original size:12 final size:14
Alignment explanation
Indices: 2032014--2032046 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2032004 AAATTATAAG
2032014 AATTAAAAATATCA
1 AATTAAAAATATCA
2032028 AATTAAAAA-AT-A
1 AATTAAAAATATCA
2032040 AATTAAA
1 AATTAAA
2032047 TTTACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 2 0.11
14 9 0.47
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAAAAATATCA
Found at i:2038521 original size:26 final size:26
Alignment explanation
Indices: 2038485--2038534 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2038475 AGACCTTTAG
*
2038485 CTTCAGCTTCAGTGGTGAGTGTCAAT
1 CTTCAGCTTCAATGGTGAGTGTCAAT
2038511 CTTCAGCTTCAATGGTGAGTGTCA
1 CTTCAGCTTCAATGGTGAGTGTCA
2038535 GTACGCATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (26 bp):
CTTCAGCTTCAATGGTGAGTGTCAAT
Found at i:2045323 original size:20 final size:21
Alignment explanation
Indices: 2045255--2045334 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 21
2045245 ATGATGCTAT
*
2045255 AAGAACACTATCGATACTTGG
1 AAGAACAATATCGATACTTGG
* * *
2045276 -TGAATAATATCGATACTAAGG
1 AAGAACAATATCGATACT-TGG
* *
2045297 AATAACACTATCGATA-TTGG
1 AAGAACAATATCGATACTTGG
*
2045317 AAGAACAATATCAATACT
1 AAGAACAATATCGATACT
2045335 AAATGCACGA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 29 0.66
21 4 0.09
22 11 0.25
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (21 bp):
AAGAACAATATCGATACTTGG
Found at i:2046188 original size:33 final size:33
Alignment explanation
Indices: 2046131--2046233 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
2046121 ACAAAGTTTA
* *
2046131 CGAT-AATTGAAATAC-TAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
2046162 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
* *
2046195 TGATAAATTTAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
2046228 CGATAA
1 CGATAA
2046234 TTGAAACAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 4 0.06
32 10 0.15
33 51 0.78
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:2046253 original size:21 final size:21
Alignment explanation
Indices: 2046228--2046269 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2046218 CTTCCAAGTT
*
2046228 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAATTTA
*
2046249 CGATAATTGAAATAAAATTTA
1 CGATAATTGAAACAAAATTTA
2046270 AAAATAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAATTTA
Found at i:2066572 original size:14 final size:14
Alignment explanation
Indices: 2066538--2066574 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2066528 TATAAGATTG
*
2066538 TGTTTGAACTCTGA
1 TGTTTGTACTCTGA
2066552 TGTTTGTACTCTGA
1 TGTTTGTACTCTGA
2066566 TGTTTGTAC
1 TGTTTGTAC
2066575 ATATGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.22, T:0.49
Consensus pattern (14 bp):
TGTTTGTACTCTGA
Found at i:2068550 original size:268 final size:257
Alignment explanation
Indices: 2067926--2068551 Score: 981
Period size: 262 Copynumber: 2.4 Consensus size: 257
2067916 TTATTCATTA
* *
2067926 ATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGTTCGAGTTTCTAATTCATATATTCGGGT
1 ATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
* *
2067990 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGAGTCG
66 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTCA
*
2068055 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATA
131 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATA
*
2068120 TTTAGATATAATTACAATAATACCCTTCTATATATAATTTTTTTCAATTAAGTCACTGTTTT
196 TTTAGATATAATTACAATAATACCCTTCTATATATAATTTTTTCCAATTAAGTCACTGTTTT
2068182 ATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCAGGTCGGATTTCTAATTCATATATT
1 ATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTC--G--GG-TTTCTAATTCATATATT
*
2068247 CGGGTCGAGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCG
61 CGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCG
* *
2068312 GGTCAGGTC-AGGTTCGGGTTTAGGGTGAAAAATATCCGACCCGAACCAAAAAATATATAATTTT
126 AGTCAGGTCGA-GTTCGGGTTTAGGGTGAAAAATACCCGACCCG----AAAAAATATATAATTTT
*
2068376 ATCTTATATATTTAGGA-ATAATTACAATAATACCCCTCTCTATATAT-ATTTTTTCCAATTAAG
186 ACCTTATATATTTA-GATATAATTACAATAATA-CCCT-TCTATATATAATTTTTTCCAATTAAG
*
2068439 TCATTGTTTTT
248 TCACTG-TTTT
2068450 ATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
1 ATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
**
2068515 CGGGTCGGGTGAAACTTTATTCGGGTCGGGTCGGGTC
66 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
2068552 TCGGATGGAG
Statistics
Matches: 341, Mismatches: 14, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
256 13 0.04
257 25 0.07
259 1 0.00
261 2 0.01
262 118 0.35
263 56 0.16
264 2 0.01
266 45 0.13
267 26 0.08
268 53 0.16
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (257 bp):
ATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTCA
GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATA
TTTAGATATAATTACAATAATACCCTTCTATATATAATTTTTTCCAATTAAGTCACTGTTTT
Found at i:2070109 original size:20 final size:21
Alignment explanation
Indices: 2070084--2070130 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2070074 ATTTAGAAAA
2070084 TCGCAACAAAGAA-GTCAAAT
1 TCGCAACAAAGAATGTCAAAT
** *
2070104 TCGCAACACTGAATTTCAAAT
1 TCGCAACAAAGAATGTCAAAT
2070125 TCGCAA
1 TCGCAA
2070131 TTGAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (21 bp):
TCGCAACAAAGAATGTCAAAT
Found at i:2070137 original size:19 final size:19
Alignment explanation
Indices: 2070098--2070169 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
2070088 AACAAAGAAG
*
2070098 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ATTGAATT
2070119 TCAAATTCGCAATTGAATT
1 TCAAATTCGCAATTGAATT
* *
2070138 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAA-TTGAATT
*
2070158 TCGAATTCGCAA
1 TCAAATTCGCAA
2070170 CACGAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 19 0.41
20 17 0.37
21 10 0.22
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (19 bp):
TCAAATTCGCAATTGAATT
Found at i:2070177 original size:40 final size:40
Alignment explanation
Indices: 2070098--2070188 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
2070088 AACAAAGAAG
**
2070098 TCAAATTCGCAACACTGAATTTCAAATTCGCAATTGAATT
1 TCAAATTCGCAACACTGAATTTCAAATTCGCAAACGAATT
* * *
2070138 TCAAATTCGCAACTC-GATTTTCGAATTCGCAACACGAATT
1 TCAAATTCGCAACACTGAATTTCAAATTCGCAA-ACGAATT
*
2070178 T-AATTTCGCAA
1 TCAAATTCGCAA
2070189 TAGGTTTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 24 0.55
40 20 0.45
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (40 bp):
TCAAATTCGCAACACTGAATTTCAAATTCGCAAACGAATT
Found at i:2070187 original size:19 final size:20
Alignment explanation
Indices: 2070020--2070188 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
2070010 AAATGACCAA
* *
2070020 CAAATTCGC-A-ACGAACTC
1 CAAATTCGCAACACGAATTT
* * *
2070038 CAATTTCGCAACTC-AGTTT
1 CAAATTCGCAACACGAATTT
* *
2070057 CCAAATTTGCAACGCGAATTT
1 -CAAATTCGCAACACGAATTT
* * * *
2070078 AGAAAATCGCAACAAAGAA-GT
1 -CAAATTCGCAAC-ACGAATTT
2070099 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAATTT
**
2070120 CAAATTCGCAA-TTGAATTT
1 CAAATTCGCAACACGAATTT
* *
2070139 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGAATTT
*
2070159 CGAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
*
2070179 -AATTTCGCAA
1 CAAATTCGCAA
2070189 TAGGTTTTAG
Statistics
Matches: 114, Mismatches: 29, Indels: 15
0.72 0.18 0.09
Matches are distributed among these distances:
18 8 0.07
19 29 0.25
20 48 0.42
21 26 0.23
22 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:2073833 original size:20 final size:20
Alignment explanation
Indices: 2073810--2073877 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
2073800 AAATCGCAAC
*
2073810 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCACGTT
*
2073830 GCGAATTTGACTTTAACGTT
1 GCGAATTTGACTTTCACGTT
2073850 GCGAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCACGTT
*
2073870 ACGAATTT
1 GCGAATTT
2073878 TACTATCGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (20 bp):
GCGAATTTGACTTTCACGTT
Found at i:2074057 original size:64 final size:64
Alignment explanation
Indices: 2073986--2074140 Score: 274
Period size: 64 Copynumber: 2.4 Consensus size: 64
2073976 AATAAACAAA
*
2073986 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAAC
1 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATATACACATCAATTAAAC
* *
2074050 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATATCCTCATCAATTAAAC
1 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATATACACATCAATTAAAC
2074114 AAATCAACTTTTACAAATCAATATAAA
1 AAATCAACTTTTACAAATCAAT-TAAA
2074141 ATTCAATTAA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 83 0.95
65 4 0.05
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (64 bp):
AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATATACACATCAATTAAAC
Found at i:2076100 original size:14 final size:14
Alignment explanation
Indices: 2076081--2076120 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
2076071 TACGAAAATG
2076081 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2076095 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2076109 AAAATCGCAACG
1 AAAATCGCAACG
2076121 CGAAACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.28, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2076187 original size:20 final size:20
Alignment explanation
Indices: 2076144--2076187 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2076134 GCGTTACAAT
* * *
2076144 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGAATTTAAG
2076164 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
2076184 TTTC
1 TTTC
2076188 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:2077175 original size:19 final size:19
Alignment explanation
Indices: 2077147--2077185 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2077137 TTTGAAAAAG
*
2077147 AAAATGGTTAGGTGATTAA
1 AAAATAGTTAGGTGATTAA
2077166 AAAATAGTTAGGTGATTAA
1 AAAATAGTTAGGTGATTAA
2077185 A
1 A
2077186 CTTGAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AAAATAGTTAGGTGATTAA
Found at i:2080826 original size:21 final size:20
Alignment explanation
Indices: 2080796--2080854 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
2080786 TAAAATGAGT
2080796 ATTTTGACCAGAAGTTTCGAA
1 ATTTT-ACCAGAAGTTTCGAA
2080817 ACTTTTACCAG-AGTTTCGAA
1 A-TTTTACCAGAAGTTTCGAA
2080837 ATTTT-CCAAGACAGTTTC
1 ATTTTACC-AGA-AGTTTC
2080855 CCAAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 10 0.29
21 12 0.35
22 4 0.12
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTTTACCAGAAGTTTCGAA
Found at i:2080833 original size:20 final size:21
Alignment explanation
Indices: 2080796--2080841 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
2080786 TAAAATGAGT
2080796 ATTTTGACCAGAAGTTTCGAA
1 ATTTTGACCAGAAGTTTCGAA
2080817 ACTTTT-ACCAG-AGTTTCGAA
1 A-TTTTGACCAGAAGTTTCGAA
2080837 ATTTT
1 ATTTT
2080842 CCAAGACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 6 0.25
22 4 0.17
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (21 bp):
ATTTTGACCAGAAGTTTCGAA
Found at i:2080930 original size:20 final size:19
Alignment explanation
Indices: 2080862--2080931 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
2080852 TTCCCAAAAA
*
2080862 TTTCGATACTTTC-TAATAG
1 TTTCGAAACTTTCATAA-AG
*
2080881 TTTCGAAACTATTCA-AGAG
1 TTTCGAAACT-TTCATAAAG
*
2080900 TTTCAAAACTTTCATTAAAG
1 TTTCGAAACTTTCA-TAAAG
*
2080920 TTTCGATACTTT
1 TTTCGAAACTTT
2080932 GGGTCCAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 4 0.10
19 20 0.49
20 17 0.41
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (19 bp):
TTTCGAAACTTTCATAAAG
Found at i:2088793 original size:21 final size:21
Alignment explanation
Indices: 2088769--2088808 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2088759 ATAAGTATGC
2088769 ATAA-TGTTGGAATAAAATAAG
1 ATAAGTGTT-GAATAAAATAAG
*
2088790 ATAAGTGTTGATTAAAATA
1 ATAAGTGTTGAATAAAATA
2088809 TAATGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (21 bp):
ATAAGTGTTGAATAAAATAAG
Found at i:2096129 original size:14 final size:14
Alignment explanation
Indices: 2096110--2096137 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2096100 TGAGTATTTA
2096110 GGAATAAGCTTAAT
1 GGAATAAGCTTAAT
2096124 GGAATAAGCTTAAT
1 GGAATAAGCTTAAT
2096138 AAAAGTGGTA
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:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
GGAATAAGCTTAAT
Found at i:2097827 original size:21 final size:23
Alignment explanation
Indices: 2097798--2097874 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 23
2097788 CCCCTCGCTA
*
2097798 TGTATCGATACACT-A-TGAATG
1 TGTACCGATACACTCATTGAATG
*
2097819 TGTACCGATACATTCATTGAATG
1 TGTACCGATACACTCATTGAATG
* * * *
2097842 TGTATCTATACAGTCA--G-AGG
1 TGTACCGATACACTCATTGAATG
2097862 TGTACCGATACAC
1 TGTACCGATACAC
2097875 CCGTTGGGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
20 12 0.27
21 13 0.29
22 1 0.02
23 19 0.42
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (23 bp):
TGTACCGATACACTCATTGAATG
Found at i:2098365 original size:12 final size:13
Alignment explanation
Indices: 2098336--2098369 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
2098326 GTATTATGAT
*
2098336 TTTTCAAATATTG
1 TTTTCAAATATAG
2098349 TTTTCAAA-ATAG
1 TTTTCAAATATAG
2098361 TTTTCAAAT
1 TTTTCAAAT
2098370 TTTTCCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAATATAG
Done.