Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 20 of 290
Found at i:6528358 original size:61 final size:61
Alignment explanation
Indices: 6528263--6528384 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
6528253 GTGTTACACA
*
6528263 AACAGATGGTCAATCTGAATAGATTATTCAGATACTCGAGAATATGTTGAGATATTGCATT
1 AACAGATGGTCAATCTGAACAGATTATTCAGATACTCGAGAATATGTTGAGATATTGCATT
* *
6528324 AACAGATGGTCAATCTGAACGGATTATTCAGATACTCGAGAATATGTTGAGATGTTGCATT
1 AACAGATGGTCAATCTGAACAGATTATTCAGATACTCGAGAATATGTTGAGATATTGCATT
6528385 CTTGAATTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (61 bp):
AACAGATGGTCAATCTGAACAGATTATTCAGATACTCGAGAATATGTTGAGATATTGCATT
Found at i:6530021 original size:30 final size:29
Alignment explanation
Indices: 6529978--6530038 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
6529968 GAAGTAGCCG
6529978 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
6530007 AAGCTAGTTTAAATCTCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
6530037 AA
1 AA
6530039 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:6537843 original size:37 final size:37
Alignment explanation
Indices: 6537790--6537892 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
6537780 CGAATAGTCC
*
6537790 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
6537827 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
6537864 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
6537893 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:6538132 original size:47 final size:48
Alignment explanation
Indices: 6538033--6538193 Score: 279
Period size: 48 Copynumber: 3.4 Consensus size: 48
6538023 ATATACACAC
*
6538033 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
6538081 ATCTCATACATATTTCACACTAGCCATTC-GCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
6538128 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
6538176 ATCTCATACACATTTCAC
1 ATCTCATACATATTTCAC
6538194 TACAAGCTGT
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 45 0.42
48 61 0.58
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:6541787 original size:40 final size:40
Alignment explanation
Indices: 6541741--6542098 Score: 527
Period size: 40 Copynumber: 8.9 Consensus size: 40
6541731 AAATACACAT
* * *
6541741 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
6541781 CACCAGCTCGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
6541821 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
6541861 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
6541901 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
6541941 CACTAGCACGAATGCTCTTCGAGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
6541981 CACCAGCTCAAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
6542021 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
6542061 CGCTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
6542099 CTAACTCTCA
Statistics
Matches: 282, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 282 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:6541954 original size:120 final size:120
Alignment explanation
Indices: 6541741--6542098 Score: 592
Period size: 120 Copynumber: 3.0 Consensus size: 120
6541731 AAATACACAT
* *
6541741 CACCAGCAT-GAATGCTCTTCGGGACCTAGCCCGAATATAACACCAGCTCGAATGCTCTTCGGGA
1 CACCAGC-TCGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGA
* * * * *
6541805 CTTAACCCTGATATAACTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
65 CTTAGCCCAGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
6541861 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
*
6541926 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCCTGGATATAA
66 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
6541981 CACCAGCTCAAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
* * *
6542046 TTAGCCCGGATATATCGCTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
66 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
6542099 CTAACTCTCA
Statistics
Matches: 224, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
119 1 0.00
120 223 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (120 bp):
CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
Found at i:6546052 original size:6 final size:6
Alignment explanation
Indices: 6546043--6546092 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
6546033 TGGAAAAACC
* *
6546043 AAAAGA AAAAGA ACAAGA AAAA-A AGAAAGA GAAAGA AAAAGA AAAGAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAA-AGA
6546092 A
1 A
6546093 TAGAAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 2 0.05
6 30 0.81
7 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:6546064 original size:24 final size:24
Alignment explanation
Indices: 6546044--6546100 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
6546034 GGAAAAACCA
*
6546044 AAAGAAAAAGAACAAGAAAAAAAG
1 AAAGAAAAAGAAAAAGAAAAAAAG
* *
6546068 AAAGAGAAAGAAAAAG-AAAAGAG
1 AAAGAAAAAGAAAAAGAAAAAAAG
6546091 AATAGAAAAA
1 AA-AGAAAAA
6546101 AGAGAGGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (24 bp):
AAAGAAAAAGAAAAAGAAAAAAAG
Found at i:6546075 original size:14 final size:15
Alignment explanation
Indices: 6546045--6546111 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
6546035 GAAAAACCAA
6546045 AAGAAAAAGAACA-AG
1 AAGAAAAAGAA-AGAG
6546060 AA-AAAAAGAAAGAG
1 AAGAAAAAGAAAGAG
6546074 AAAGAAAAAGAAAAGAG
1 -AAGAAAAAG-AAAGAG
* *
6546091 AATAGAAA-AAAGAG
1 AAGAAAAAGAAAGAG
*
6546105 AGGAAAA
1 AAGAAAA
6546112 TTGAAAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.02
14 20 0.47
15 4 0.09
16 12 0.28
17 6 0.14
ACGTcount: A:0.75, C:0.01, G:0.22, T:0.01
Consensus pattern (15 bp):
AAGAAAAAGAAAGAG
Found at i:6546081 original size:17 final size:18
Alignment explanation
Indices: 6546061--6546103 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
6546051 AAGAACAAGA
6546061 AAAAAAGAAAGAGAA-AG
1 AAAAAAGAAAGAGAATAG
6546078 -AAAAAGAAAAGAGAATAG
1 AAAAAAG-AAAGAGAATAG
6546096 AAAAAAGA
1 AAAAAAGA
6546104 GAGGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 3 0.13
19 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAGAGAATAG
Found at i:6546097 original size:18 final size:17
Alignment explanation
Indices: 6546044--6546100 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 17
6546034 GGAAAAACCA
*
6546044 AAAGAAAAAGAACA-AG
1 AAAGAAAAAGAAAAGAG
6546060 -AA-AAAAAG-AAAGAG
1 AAAGAAAAAGAAAAGAG
6546074 AAAGAAAAAGAAAAGAG
1 AAAGAAAAAGAAAAGAG
6546091 AATAGAAAAA
1 AA-AGAAAAA
6546101 AGAGAGGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 2 0.06
14 8 0.23
15 4 0.11
16 6 0.17
17 8 0.23
18 7 0.20
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAGAAAAGAG
Found at i:6549204 original size:20 final size:20
Alignment explanation
Indices: 6549179--6549253 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
6549169 TTAGTTTAAG
6549179 TATTTAATTTGTCTTAAGTT
1 TATTTAATTTGTCTTAAGTT
* *
6549199 TATTTAATGTGTTCTAATTAGTT
1 TATTTAATTTG-TCT--TAAGTT
*
6549222 CAACAATTTAATTTGTCTTAAGTT
1 ----TATTTAATTTGTCTTAAGTT
6549246 TATTTAAT
1 TATTTAAT
6549254 AAGTTCCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 17 0.40
21 3 0.07
23 5 0.12
24 5 0.12
26 3 0.07
27 9 0.21
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.55
Consensus pattern (20 bp):
TATTTAATTTGTCTTAAGTT
Found at i:6549231 original size:47 final size:47
Alignment explanation
Indices: 6549180--6549288 Score: 182
Period size: 47 Copynumber: 2.3 Consensus size: 47
6549170 TAGTTTAAGT
** *
6549180 ATTTAATTTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAACA
1 ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACA
*
6549227 ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACT
1 ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACA
6549274 ATTTAATTTGTCTTA
1 ATTTAATTTGTCTTA
6549289 GCTTATTACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (47 bp):
ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACA
Found at i:6553133 original size:50 final size:53
Alignment explanation
Indices: 6553058--6553190 Score: 161
Period size: 51 Copynumber: 2.6 Consensus size: 53
6553048 TAGCCTGCAC
*
6553058 GCCTGCACTTAGTACTACACACGTGACCTCACCA-TCT-A-ATACACGTAGTA
1 GCCTGCACTTAGTACTACACACGTGACCTCACCAGTCTCAGATACACATAGTA
* * *
6553108 GCCTGCACTTAGTACTACACACGTGA--TCA-CAGTTTTCAGGTACGCATAGTA
1 GCCTGCACTTAGTACTACACACGTGACCTCACCAG-TCTCAGATACACATAGTA
* *
6553159 GCCTGCACTTAGTACTACACATGCGACCTCAC
1 GCCTGCACTTAGTACTACACACGTGACCTCAC
6553191 AATAGATCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
47 2 0.03
48 3 0.04
49 2 0.03
50 27 0.39
51 33 0.47
53 3 0.04
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (53 bp):
GCCTGCACTTAGTACTACACACGTGACCTCACCAGTCTCAGATACACATAGTA
Found at i:6557638 original size:42 final size:42
Alignment explanation
Indices: 6557569--6557667 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
6557559 AAGGTTACTA
* * *
6557569 AGACTATGTGTAAG-CCATATCTGGGATATGGCATCTATATG
1 AGACTTTGTGTAAGACCATATCTAGGATATGGCATCAATATG
6557610 AGACTTTGTGTAAGACCATATCTAGGATATGGCATCAATATG
1 AGACTTTGTGTAAGACCATATCTAGGATATGGCATCAATATG
*
6557652 AGACTTCGTGTAAGAC
1 AGACTTTGTGTAAGAC
6557668 TATAGCTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 13 0.25
42 40 0.75
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
AGACTTTGTGTAAGACCATATCTAGGATATGGCATCAATATG
Found at i:6567689 original size:20 final size:20
Alignment explanation
Indices: 6567664--6567708 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6567654 TGCTAGGGAA
6567664 TATGTTTCTACCAAAGAGAT
1 TATGTTTCTACCAAAGAGAT
*
6567684 TATGTTTCTACCGAAGAGAT
1 TATGTTTCTACCAAAGAGAT
6567704 TATGT
1 TATGT
6567709 GTAAGAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
TATGTTTCTACCAAAGAGAT
Found at i:6568989 original size:21 final size:21
Alignment explanation
Indices: 6568965--6569032 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6568955 ACAGAGTTAA
6568965 AAGAATTGAAAGCTTAGTTGC
1 AAGAATTGAAAGCTTAGTTGC
* * * **
6568986 AAGAGTTGAAAGATAGAGTTAA
1 AAGAATTGAAAGCT-TAGTTGC
*
6569008 AAGAATTGAAAGCTTAGCTGC
1 AAGAATTGAAAGCTTAGTTGC
6569029 AAGA
1 AAGA
6569033 GCATTTAAGA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.24
Consensus pattern (21 bp):
AAGAATTGAAAGCTTAGTTGC
Found at i:6569011 original size:22 final size:22
Alignment explanation
Indices: 6568957--6569019 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
6568947 TGGCTCCAAC
*
6568957 AGAGTTAAAAGAATTGAAAGCT
1 AGAGTTAAAAGAATTGAAAGAT
* ** *
6568979 -TAGTTGCAAGAGTTGAAAGAT
1 AGAGTTAAAAGAATTGAAAGAT
6569000 AGAGTTAAAAGAATTGAAAG
1 AGAGTTAAAAGAATTGAAAG
6569020 CTTAGCTGCA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.48, C:0.03, G:0.25, T:0.24
Consensus pattern (22 bp):
AGAGTTAAAAGAATTGAAAGAT
Found at i:6571725 original size:53 final size:54
Alignment explanation
Indices: 6571596--6571850 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
6571586 ACACAGGTAC
* * * *
6571596 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
6571645 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
6571698 CTCACCAATGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
6571753 CTTATCAATGCCATGTCTTTACATGGTCTTACATGATATCATTTCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
** * * *
6571806 CCTTACCAATTTACATGCCTTGGCATGGTCTTACATGGCATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
6571851 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 50 0.30
54 10 0.06
55 68 0.40
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:6571787 original size:108 final size:110
Alignment explanation
Indices: 6571641--6571843 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 110
6571631 GTATCCTTTT
* * *
6571641 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTGCCTTA-GAAACCTCACC
* *
6571704 AA-TGCCATGTCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGACATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* ** * *
6571749 GAAACTTATCAATGCCATGTCTTTACATGGTCTTACATGATATCATTTCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCA
*
6571814 ATTTACATGCCTTGGCATGGTCTTACATGG
66 ATTGACATGCCTTGGCATGGTCTTACATGG
6571844 CATCCTTAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCA
ATTGACATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:6585710 original size:19 final size:19
Alignment explanation
Indices: 6585686--6585731 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6585676 CTAGTGTCTT
6585686 CCTAGAAAGAGAATTTGTC
1 CCTAGAAAGAGAATTTGTC
6585705 CCTAGAAAGAGAATTTGTC
1 CCTAGAAAGAGAATTTGTC
*
6585724 TCTAGAAA
1 CCTAGAAA
6585732 ATCAAGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (19 bp):
CCTAGAAAGAGAATTTGTC
Found at i:6600675 original size:17 final size:17
Alignment explanation
Indices: 6600653--6600685 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6600643 ATTCATAATA
*
6600653 TAATTAATTTTAATTTT
1 TAATTAAATTTAATTTT
6600670 TAATTAAATTTAATTT
1 TAATTAAATTTAATTT
6600686 GGGTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTAAATTTAATTTT
Found at i:6601575 original size:3 final size:3
Alignment explanation
Indices: 6601567--6601598 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6601557 GTTTAAATTG
6601567 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6601599 AGTCAAAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6601714 original size:2 final size:2
Alignment explanation
Indices: 6601707--6601735 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6601697 TCTATTGCCA
6601707 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6601736 ATCAAACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6602127 original size:14 final size:14
Alignment explanation
Indices: 6602105--6602147 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6602095 TCTAAAATTT
* *
6602105 ATTAATTATTCACC
1 ATTATTTATTCACA
6602119 ATTATTTATTCACA
1 ATTATTTATTCACA
*
6602133 ATTATATATATCACA
1 ATTATTTAT-TCACA
6602148 TCTTCAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTATTTATTCACA
Found at i:6604963 original size:22 final size:21
Alignment explanation
Indices: 6604938--6604992 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6604928 AATATGTTTT
6604938 TTTAGTTATTTTAAAGGA-AAAG
1 TTTAGTTATTTTAAA--ATAAAG
**
6604960 TTTAAATATTTTAAAATAAAG
1 TTTAGTTATTTTAAAATAAAG
*
6604981 TTTTGTTATTTT
1 TTTAGTTATTTT
6604993 TCAACTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 13 0.48
22 13 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTAGTTATTTTAAAATAAAG
Found at i:6605022 original size:149 final size:146
Alignment explanation
Indices: 6604740--6605063 Score: 478
Period size: 147 Copynumber: 2.2 Consensus size: 146
6604730 GAGAAATTTT
* * *
6604740 TATTTTTTTTAAAAAAAGGAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAA
1 TATTTTTTTTAAAAAGAGAAAGTTTTGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAA
* *
6604805 GGAAAAGTTTAAATTTTTAAAAACAAAGTTTTGATCTTTTCAACTATTTTGAAATAAAGCTTTGA
66 GGAAAAGTTTAAATTTTTAAAAACAAAGTTTTGATCTTTTCAACTATTTCGAAATAAAGCTTTAA
6604870 TTTTTAAGAAAAATAG
131 TTTTTAAGAAAAATAG
* *
6604886 TGATTTTTTTTAAAAAGAGAAAGTTTTGATTTTTAAAATAAAAATATGTTTTTTTAGTTATTTTA
1 T-ATTTTTTTTAAAAAGAGAAAGTTTTGATTTTTAAAATAAAAATATG-TTTTTTAGTCATATTA
*
6604951 AAGGAAAAGTTTAAATATTTT-AAAATAAAGTTTTGTTAT-TTTTCAACTATTTCGAAATAAAGC
64 AAGGAAAAGTTTAAAT-TTTTAAAAACAAAGTTTTG--ATCTTTTCAACTATTTCGAAATAAAGC
*
6605014 TTTAATTTTTAAGAAAAGTAG
126 TTTAATTTTTAAGAAAAATAG
*
6605035 TA-ATTTTTTAAAAAGA-AAA-TTTTGATTTT
1 TATTTTTTTTAAAAAGAGAAAGTTTTGATTTT
6605064 GCAAAAAAAA
Statistics
Matches: 163, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
145 10 0.06
146 4 0.02
147 56 0.34
148 44 0.27
149 47 0.29
150 2 0.01
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (146 bp):
TATTTTTTTTAAAAAGAGAAAGTTTTGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAA
GGAAAAGTTTAAATTTTTAAAAACAAAGTTTTGATCTTTTCAACTATTTCGAAATAAAGCTTTAA
TTTTTAAGAAAAATAG
Found at i:6605519 original size:46 final size:47
Alignment explanation
Indices: 6605465--6605559 Score: 156
Period size: 46 Copynumber: 2.0 Consensus size: 47
6605455 TGTTTCTATC
*
6605465 TTTAATAAGTTATTTATACTTATATCTTCCCTTTCA-TTTGCATTTA
1 TTTAATAAGTTATTTACACTTATATCTTCCCTTTCATTTTGCATTTA
*
6605511 TTTAATAAGTTTTTTACACTTATATCTTCCCTTTCATTTTTGCATTTA
1 TTTAATAAGTTATTTACACTTATATCTTCCCTTTCA-TTTTGCATTTA
6605559 T
1 T
6605560 ACCTTATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 34 0.76
48 11 0.24
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (47 bp):
TTTAATAAGTTATTTACACTTATATCTTCCCTTTCATTTTGCATTTA
Found at i:6609018 original size:51 final size:51
Alignment explanation
Indices: 6608941--6609088 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
6608931 TGGATACACG
* *
6608941 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGTTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GCCCAAAGCTATTTTATTCACAAA
*
6608992 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTCACAAA
*
6609043 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTC
6609089 CTTAGGTTCA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 90 0.99
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTCACAAA
Found at i:6609144 original size:28 final size:28
Alignment explanation
Indices: 6609112--6609256 Score: 162
Period size: 28 Copynumber: 5.5 Consensus size: 28
6609102 GGGAAATTTC
6609112 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * *
6609140 TCACTTAG----TTGCTATAGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * *
6609164 TCACTTAGCACATTGGCATGAACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
6609192 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
6609220 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
6609244 TCACTTAGCACAA
1 TCACTTAGCACAA
6609257 GGTCATATCC
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
24 43 0.44
28 55 0.56
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:6609168 original size:52 final size:53
Alignment explanation
Indices: 6609112--6609251 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 53
6609102 GGGAAATTTC
*
6609112 TCACTTAGCACAATGCCATGGACTTATTTCACTTAG-TTGCTATAGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATTGCCATAGACTTATT
* * * *
6609164 TCACTTAGCACATTGGCATGAACTTATTTCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAG---ATTGCCATAGACTTATT
*
6609220 TCACTTAG----ATGCCATGGTCTTATTTCACTTAG
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAG
6609252 CACAAGGTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
52 53 0.71
56 22 0.29
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (53 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATTGCCATAGACTTATT
Found at i:6610776 original size:48 final size:48
Alignment explanation
Indices: 6610672--6610929 Score: 189
Period size: 48 Copynumber: 5.5 Consensus size: 48
6610662 AATTGTGTGA
* * *
6610672 GCTAGTATAAGA-CATGTCTGGGACATG-CATCGACCACATT-A-T-GAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCG---GCATTGAGTCGAGT
* *
6610718 GCCAGTGTAAGACCATATCTGGGACATGACATCGGCATTGAGTCGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGTCGAGT
* * * * * *
6610766 GCTATTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGTCG-AGT
** *
6610814 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCAAC-TATGAGAT-GTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCAT-TGAG-TCGAGT
* * * *
6610860 -C-AGTGTAAGACCATGTCTGGGATATGACATCGGCATGGATATGCGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGA-GT-CGAGT
*
6610908 GCTAGTGTAAGACCTTGTCTGG
1 GCTAGTGTAAGACCATGTCTGG
6610930 AGATGGCATC
Statistics
Matches: 167, Mismatches: 28, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
44 9 0.05
45 20 0.12
46 28 0.17
47 31 0.19
48 59 0.35
49 2 0.01
50 18 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGTCGAGT
Found at i:6610927 original size:142 final size:139
Alignment explanation
Indices: 6610671--6610989 Score: 367
Period size: 142 Copynumber: 2.2 Consensus size: 139
6610661 TAATTGTGTG
*
6610671 AGCTAGTATAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-A-CACA-TATGAGAGCCAGTGTAAGACCATAT
* * * * *
6610736 CTGGGACATGACATCGGCATTGAGTCGAGTGCTATTGTAAGACCATGTCTGGGACATGGCATCGG
63 CTGGGACATGACATCGGCATGGAATCGAGAGCTAGTGTAAGACCATGTCT-GGACATGGCATCAG
6610801 CCTCG-AGACG-T
127 CCTCGTAGACGAT
* *
6610812 AAGCTAGTGTAAGACATGTCTGGGACATGCATCA-AC-TATGAGATGTGTCAGTGTAAGACCATG
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCACACATATGAGA---GCCAGTGTAAGACCATA
* * *
6610875 TCTGGGATATGACATCGGCATGGATATGCGAGAGCTAGTGTAAGACCTTGTCTGGAGATGGCATC
62 TCTGGGACATGACATCGGCATGGA-AT-CGAGAGCTAGTGTAAGACCATGTCTGGACATGGCATC
* *
6610940 AGCCTCGTTGATGAT
125 AGCCTCGTAGACGAT
* *
6610955 AGCTAATGTAAGACCATGTATGGGACATGGCATCA
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCA
6610990 GTATACTTAC
Statistics
Matches: 153, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
137 7 0.05
139 2 0.01
140 37 0.24
141 19 0.12
142 68 0.44
143 14 0.09
144 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (139 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCACACATATGAGAGCCAGTGTAAGACCATATCTG
GGACATGACATCGGCATGGAATCGAGAGCTAGTGTAAGACCATGTCTGGACATGGCATCAGCCTC
GTAGACGAT
Found at i:6618529 original size:48 final size:47
Alignment explanation
Indices: 6618425--6618656 Score: 240
Period size: 48 Copynumber: 4.9 Consensus size: 47
6618415 TTAATTGTGT
*
6618425 GAGCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCACATT--ATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAATGA
* * *
6618471 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGTCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAT-GA
* * **
6618519 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-AT--GA
* * *
6618569 GAGCTAGTGTAAGACCATGTCT-GGACATAGCATCGGCCTCGTTAATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--TGAATGA
*
6618617 TAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
6618657 ACTTACTCTA
Statistics
Matches: 155, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.03
46 11 0.07
47 15 0.10
48 69 0.45
49 29 0.19
50 26 0.17
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAATGA
Found at i:6618623 original size:98 final size:96
Alignment explanation
Indices: 6618426--6618652 Score: 279
Period size: 98 Copynumber: 2.4 Consensus size: 96
6618416 TAATTGTGTG
* *
6618426 AGCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAGTGTAAGACCAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACACATTATGAGAGCCAGTGTAAGACCAT
* *
6618489 GTCTAGGACATGGCATCGGCATTGAGTCGAGT
65 GTCTAGGACATAGCATCGGCATTGAATCGAGT
*
6618521 -GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGA-TATGCGAGAGCTAGTGTAAGAC
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAC--ATTAT--GAGAGCCAGTGTAAGAC
* *
6618584 CATGTCT-GGACATAGCATCGGCCTCGTTAAT-GA-T
62 CATGTCTAGGACATAGCATCGGCAT--TGAATCGAGT
6618618 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
6618653 GCATACTTAC
Statistics
Matches: 116, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
94 10 0.09
95 19 0.16
96 8 0.07
97 17 0.15
98 59 0.51
99 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACATTATGAGAGCCAGTGTAAGACCATG
TCTAGGACATAGCATCGGCATTGAATCGAGT
Found at i:6620109 original size:22 final size:21
Alignment explanation
Indices: 6620070--6620110 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6620060 TGCTAGACAC
*
6620070 AGGGGCACACGCCTGTGTGGG
1 AGGGGCACACGCCCGTGTGGG
*
6620091 AGGGGCAACGCGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
6620111 ATCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.15, C:0.27, G:0.46, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGG
Found at i:6621331 original size:46 final size:45
Alignment explanation
Indices: 6621184--6621407 Score: 195
Period size: 46 Copynumber: 4.8 Consensus size: 45
6621174 ATGGGATAGG
* *
6621184 ATGCCGATGCCATGTCCCGGACATGGTCTTACACTAGCT-T-AACTC
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC
* * * *
6621229 GTAGCCGATGCATGTCCCAAACATGTCTTAGACTGGCT-TACATCTC
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC
* * *
6621275 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC
1 -ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* * * * *
6621321 ACTGCCGATGCCATGTCCAAGACATAGTCTTACATTGGCTCTCGTAAT-
1 A-TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTC
*
6621369 ATGGCCAATGCATGTCCCAGACATGTCTTACACTAGCTC
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
6621408 ACAGTAGTCC
Statistics
Matches: 146, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
44 13 0.09
45 14 0.10
46 66 0.45
47 28 0.19
48 24 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
Found at i:6621383 original size:47 final size:46
Alignment explanation
Indices: 6621282--6621407 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 46
6621272 CTCGAGGCTG
* *
6621282 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCACTGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCACTGCCA
* * *
6621328 ATGCCATGTCCAAGACATAGTCTTACATTGGCTCTCGTAAT-A-TGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-ATCACT-GCCA
6621376 ATGCATGTCCCAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
6621408 ACAGTAGTCC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
46 16 0.24
47 27 0.40
48 24 0.35
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCACTGCCA
Found at i:6624009 original size:14 final size:16
Alignment explanation
Indices: 6623977--6624016 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 16
6623967 TTGAGAGAAA
6623977 AAGAAAAGAAATTGAAG
1 AAGAAAA-AAATTGAAG
6623994 AAGAAAAAAA-TG-AG
1 AAGAAAAAAATTGAAG
6624008 AA-AAAAAAA
1 AAGAAAAAAA
6624017 AATTAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 2 0.09
16 3 0.13
17 7 0.30
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (16 bp):
AAGAAAAAAATTGAAG
Found at i:6632561 original size:105 final size:101
Alignment explanation
Indices: 6632378--6632574 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 101
6632368 AATTGACGGA
* *
6632378 TAAGACCATGGTTGGACCATAGCAATATTTAAATGTAATACCACAGCTAGGCTATGGCATTTCAG
1 TAAGACCATGGTTGGACCATAGCAATATTTAAATGTAAGACCACAGCTAGGCTATGGCATCTCAG
6632443 TGAAAAGACCATAACTGGGTTATGGCACCGTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACCGTGAACG
* ** * *
6632479 TAAGGCCATGGTTGGACCATAGCAGTATATGTATATGTGTAAGACCATAGCTTGGCTATGGCATC
1 TAAGACCATGGTTGGACCATAGCA--ATAT-T-TAAATGTAAGACCACAGCTAGGCTATGGCATC
* * *
6632544 -CTGATGATAAGACCATAATTGGGTTATGGCA
62 TCAG-TGAAAAGACCATAACTGGGTTATGGCA
6632575 TTACAAGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 23 0.28
103 4 0.05
104 3 0.04
105 51 0.63
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATAGCAATATTTAAATGTAAGACCACAGCTAGGCTATGGCATCTCAG
TGAAAAGACCATAACTGGGTTATGGCACCGTGAACG
Found at i:6635854 original size:16 final size:15
Alignment explanation
Indices: 6635819--6635848 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6635809 AATACTAAAT
6635819 CTCATCCATATCAAA
1 CTCATCCATATCAAA
6635834 CTCATACCATATCAA
1 CTCAT-CCATATCAA
6635849 TATCATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
CTCATCCATATCAAA
Found at i:6636376 original size:5 final size:5
Alignment explanation
Indices: 6636366--6636390 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6636356 AATTAAATAA
6636366 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
6636391 TGTTTTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:6637422 original size:27 final size:27
Alignment explanation
Indices: 6637375--6637586 Score: 213
Period size: 27 Copynumber: 7.9 Consensus size: 27
6637365 CGAGGCTGCA
* *
6637375 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
6637402 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
6637428 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* * *
6637455 AGATAATTGTGGCATAGCCACTAG-GAC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
*
6637482 AGATATATGTCGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* * *
6637509 AGATAATTGTGGCATAGCCACTAG-GAC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
*
6637536 AGATATATGTCGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
6637563 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
6637587 GACGCTTCCT
Statistics
Matches: 154, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
26 12 0.08
27 135 0.88
28 7 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:6637464 original size:54 final size:54
Alignment explanation
Indices: 6637392--6637589 Score: 335
Period size: 54 Copynumber: 3.7 Consensus size: 54
6637382 GTGACGAAGT
* * *
6637392 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTCGCAGAGC
*
6637446 CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTCGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTCGCAGAGC
*
6637500 CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTCGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTCGCAGAGC
6637554 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
6637590 GCTTCCTCCA
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
53 5 0.04
54 133 0.96
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTCGCAGAGC
Found at i:6639239 original size:26 final size:26
Alignment explanation
Indices: 6639209--6639264 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
6639199 TGAAATTCCC
6639209 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6639235 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6639261 ATCA
1 ATCA
6639265 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6641330 original size:20 final size:20
Alignment explanation
Indices: 6641275--6641336 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
6641265 ATAGTGATAT
6641275 ACAGAGGCACCGAAGTGCAA
1 ACAGAGGCACCGAAGTGCAA
** * *
6641295 GTAGAAGCATCGAAGTGCAA
1 ACAGAGGCACCGAAGTGCAA
*
6641315 ACAGAGGCACCAAAGTGCAA
1 ACAGAGGCACCGAAGTGCAA
6641335 AC
1 AC
6641337 CCATACAAGC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.23, G:0.27, T:0.08
Consensus pattern (20 bp):
ACAGAGGCACCGAAGTGCAA
Found at i:6642246 original size:11 final size:10
Alignment explanation
Indices: 6642208--6642253 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
6642198 GTATTTATGT
6642208 TTTTAACATA
1 TTTTAACATA
6642218 TTTTAAACATA
1 TTTT-AACATA
*
6642229 ATTTAACATTA
1 TTTTAACA-TA
*
6642240 TTTTAACTTA
1 TTTTAACATA
6642250 TTTT
1 TTTT
6642254 TCTCTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAACATA
Found at i:6646708 original size:28 final size:28
Alignment explanation
Indices: 6646652--6646719 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
6646642 CAATTTTTTG
* * **
6646652 TTCTTGATTTGTTATTCTCAATTGTCAA
1 TTCTCGATTTTTTATTCTCAATTCCCAA
6646680 TTCTCGATTTTTTATTCTCAATTCCCAA
1 TTCTCGATTTTTTATTCTCAATTCCCAA
*
6646708 TTC-CAATTTTTT
1 TTCTCGATTTTTT
6646720 TTTTAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 8 0.23
28 27 0.77
ACGTcount: A:0.21, C:0.19, G:0.06, T:0.54
Consensus pattern (28 bp):
TTCTCGATTTTTTATTCTCAATTCCCAA
Found at i:6646859 original size:15 final size:16
Alignment explanation
Indices: 6646837--6646873 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
6646827 GTAATAAAAT
*
6646837 ATTATTAAATTATTTA
1 ATTATTAAATTAGTTA
6646853 A-TATT-AATTAGTTA
1 ATTATTAAATTAGTTA
6646867 ATTATTA
1 ATTATTA
6646874 TGATGTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 9 0.50
15 8 0.44
16 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATTAAATTAGTTA
Found at i:6649623 original size:27 final size:25
Alignment explanation
Indices: 6649561--6649627 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
6649551 GGCCCGGATA
* *
6649561 AGCTTCTTGTTACATGGCTCAGATG
1 AGCTTCTTGATATATGGCTCAGATG
*
6649586 AGCATCTTGATATATGGCTCGAGAGTG
1 AGCTTCTTGATATATGGCTC-AGA-TG
*
6649613 TGCTTCTTGAT-TATG
1 AGCTTCTTGATATATG
6649628 TGCGCTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 17 0.49
26 7 0.20
27 11 0.31
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.37
Consensus pattern (25 bp):
AGCTTCTTGATATATGGCTCAGATG
Found at i:6657053 original size:13 final size:13
Alignment explanation
Indices: 6657030--6657063 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6657020 AAACATATTA
6657030 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
6657044 TAAAATTTTGTGT
1 TAAAATTTTGTGT
6657057 TAGAAAT
1 TA-AAAT
6657064 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:6658373 original size:39 final size:40
Alignment explanation
Indices: 6658288--6658373 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 40
6658278 GGACTAAGAT
*
6658288 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATC
* *
6658328 CCGAAGGCATTTGTGTGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATC
6658367 CCGAAGG
1 CCGAAGG
6658374 TACTTGGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
39 15 0.35
40 28 0.65
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATC
Found at i:6676978 original size:5 final size:5
Alignment explanation
Indices: 6676968--6676997 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6676958 TCAAATTATT
6676968 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
6676998 TTGCATTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:6677634 original size:21 final size:21
Alignment explanation
Indices: 6677605--6677654 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6677595 TTATTAAAAA
6677605 TATAAAAATAAG-AAAAAAATT
1 TATAAAAAT-AGTAAAAAAATT
* *
6677626 TATAGAAATTGTAAAAAAATT
1 TATAAAAATAGTAAAAAAATT
6677647 TATAAAAA
1 TATAAAAA
6677655 CTACAAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (21 bp):
TATAAAAATAGTAAAAAAATT
Found at i:6677892 original size:19 final size:19
Alignment explanation
Indices: 6677846--6677888 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6677836 TAGTATGATA
*
6677846 ATTTTTATATTTTTTTATG
1 ATTTTTATATTTCTTTATG
*
6677865 AATTTTATATTTCTTTAT-
1 ATTTTTATATTTCTTTATG
6677883 ATTTTT
1 ATTTTT
6677889 TATAATATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTATATTTCTTTATG
Found at i:6677971 original size:61 final size:63
Alignment explanation
Indices: 6677870--6677991 Score: 146
Period size: 61 Copynumber: 2.0 Consensus size: 63
6677860 TTATGAATTT
* * * *
6677870 TATATTTCTTTATATTTTTTATAATATTCTTACGACTTTTTA-A-AATTTTATAATTTTTTTC
1 TATATTTCTATATATTTTATATAATATTCTTACGACTTTTTATATAATTTTACAATCTTTTTC
6677931 TATATTTCTATATATTTTATA-AATTTTATT-TTACGA-TTTTTATATAATTTTACAATCTTTT
1 TATATTTCTATATATTTTATATAA---TATTCTTACGACTTTTTATATAATTTTACAATCTTTT
6677992 ATAATTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
60 2 0.04
61 25 0.48
62 7 0.13
63 18 0.35
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (63 bp):
TATATTTCTATATATTTTATATAATATTCTTACGACTTTTTATATAATTTTACAATCTTTTTC
Found at i:6678001 original size:10 final size:10
Alignment explanation
Indices: 6677843--6678022 Score: 51
Period size: 10 Copynumber: 18.0 Consensus size: 10
6677833 TTTTAGTATG
6677843 ATAA-TTTTT
1 ATAATTTTTT
*
6677852 ATATTTTTTT
1 ATAATTTTTT
6677862 ATGAA--TTTT
1 AT-AATTTTTT
6677871 AT-ATTTCTTT
1 ATAATTT-TTT
6677881 AT-ATTTTTT
1 ATAATTTTTT
*
6677890 ATAATATTCTT
1 ATAAT-TTTTT
** *
6677901 ACGACTTTTT
1 ATAATTTTTT
*
6677911 A-AA-ATTTT
1 ATAATTTTTT
6677919 ATAATTTTTT
1 ATAATTTTTT
* *
6677929 -TCTATATTTCT
1 AT-AAT-TTTTT
*
6677940 AT-ATATTTT
1 ATAATTTTTT
6677949 ATAAATTTTATT
1 AT-AATTTT-TT
*
6677961 TTACGATTTTTAT
1 ATA--ATTTTT-T
6677974 ATAA--TTTT
1 ATAATTTTTT
* *
6677982 ACAATCTTTT
1 ATAATTTTTT
6677992 ATAATTTTTTT
1 ATAA-TTTTTT
*
6678003 ATGA-TTTTT
1 ATAATTTTTT
6678012 ATAACTTTTTT
1 ATAA-TTTTTT
6678023 TGAAAAAAAT
Statistics
Matches: 126, Mismatches: 22, Indels: 44
0.66 0.11 0.23
Matches are distributed among these distances:
7 1 0.01
8 9 0.07
9 35 0.28
10 38 0.30
11 30 0.24
12 5 0.04
13 8 0.06
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:6678807 original size:34 final size:32
Alignment explanation
Indices: 6678710--6678826 Score: 137
Period size: 34 Copynumber: 3.5 Consensus size: 32
6678700 GTTTAGAATT
*
6678710 TTTTTTAAAAATTAATTAAATTAGGTTTTAGGG
1 TTTTTAAAAAATTAATTAAATTAGG-TTTAGGG
* *
6678743 GTTTTAAGTAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAA-AAAATTAATTAAATTA-GGTTTAGGG
*
6678777 TTTTTAAAAAATTTAATTAAATTAGAGTTTAGAG
1 TTTTTAAAAAA-TTAATTAAATTAG-GTTTAGGG
*
6678811 TTTTTTAAAAA-TAATT
1 TTTTTAAAAAATTAATT
6678827 TTGTGTTTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
32 5 0.07
33 9 0.12
34 57 0.78
35 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (32 bp):
TTTTTAAAAAATTAATTAAATTAGGTTTAGGG
Found at i:6679130 original size:98 final size:97
Alignment explanation
Indices: 6678953--6679164 Score: 316
Period size: 98 Copynumber: 2.2 Consensus size: 97
6678943 TGAGGAAACG
* * *
6678953 GTTCTAAAAAAATAGTGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAA
1 GTTCTGAAAAAATAATGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAA
* * *
6679018 AGCTTCCACATGGACGTTCTTTTTCTACAGTA
66 AGCTCCCACATGGACGCTCTTTTTCTACAATA
* * *
6679050 GTTTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTAAAAA
1 G-TTCTGAAAAAATAATGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAA
*
6679115 AAGCTCCCACGTGGACGCTCTTTTTCTACAATA
65 AAGCTCCCACATGGACGCTCTTTTTCTACAATA
6679148 GTTCTTGAAAAAATAAT
1 GTTC-TGAAAAAATAAT
6679165 TTTGAGAAGA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
97 4 0.04
98 99 0.96
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (97 bp):
GTTCTGAAAAAATAATGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAA
AGCTCCCACATGGACGCTCTTTTTCTACAATA
Found at i:6679280 original size:126 final size:126
Alignment explanation
Indices: 6679050--6679396 Score: 536
Period size: 126 Copynumber: 2.7 Consensus size: 126
6679040 TTCTACAGTA
* * * * *
6679050 GTTTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTAAAAA
1 GTTT-TGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAA
*
6679115 AAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
65 AAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
* *
6679177 GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGTAGGACT-CACTGAT-AGCAAAATTATTGAAA
1 GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGA-TGCACTG-TCAGCAAAATTACTGAAA
*
6679240 AAAGCTCCCACGTGGACATTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
64 AAAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
* ** *
6679303 ATTCGGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAA
1 GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA
6679368 AGCTCCCACGTGGACACTCTTTTTCTACA
66 AGCTCCCACGTGGACACTCTTTTTCTACA
6679397 GTAATTCCTG
Statistics
Matches: 200, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
125 2 0.01
126 192 0.96
127 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (126 bp):
GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA
AGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
Found at i:6682902 original size:18 final size:18
Alignment explanation
Indices: 6682876--6682919 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6682866 AATGGGGAAA
* * *
6682876 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
6682894 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
6682912 AGGATACA
1 AGGATACA
6682920 CACCTAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:6684485 original size:25 final size:24
Alignment explanation
Indices: 6684448--6684499 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
6684438 ACTGCTATAA
* *
6684448 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTACAAAATGAAAAA-AAATT
6684472 AAAATTACATAAATGAAAAAAAATT
1 AAAATTACA-AAATGAAAAAAAATT
6684497 AAA
1 AAA
6684500 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAAAATT
Found at i:6684517 original size:29 final size:29
Alignment explanation
Indices: 6684461--6684518 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
6684451 ATTATAAAAT
* *
6684461 AAAAATTAATTAAAATTACATAAATGAAA
1 AAAAATTAAATAAAATTACAAAAATGAAA
*
6684490 AAAAATTAAATAATATT-CAAAAATTGAAA
1 AAAAATTAAATAAAATTACAAAAA-TGAAA
6684519 TTAGCCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAATTAAATAAAATTACAAAAATGAAA
Found at i:6689327 original size:29 final size:28
Alignment explanation
Indices: 6689295--6689360 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
6689285 TGCCGGTGTT
6689295 TATATTATCA-AGTACTATGTATCGGTGAC
1 TATATTATCAGA-TACTATGTATCGGTG-C
* * *
6689324 TATAGTATCAGATACTTTGTATTGGTGC
1 TATATTATCAGATACTATGTATCGGTGC
6689352 TCATATTAT
1 T-ATATTAT
6689361 ATTGGGCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 28 0.90
30 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (28 bp):
TATATTATCAGATACTATGTATCGGTGC
Found at i:6697736 original size:42 final size:41
Alignment explanation
Indices: 6697677--6697804 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 41
6697667 TGAGTTTCCA
*
6697677 TTTAACCCTATTGGGTTTTCGTTCATCCT-TTTTGAGCTT-TCG
1 TTTAACCCTA-TGGGTTTCCGTTCA-CCTCTTTTGAGCTTCT-G
*
6697719 TTTAACCCTATCGGGTTTCCGTTCAGCTCTTTTGAGCTTCTG
1 TTTAACCCTAT-GGGTTTCCGTTCACCTCTTTTGAGCTTCTG
** * * *
6697761 TTTAACCCTTATGGGTTTCTATTCAACTCTTATGAGCTTTTG
1 TTTAACCC-TATGGGTTTCCGTTCACCTCTTTTGAGCTTCTG
6697803 TT
1 TT
6697805 CAATCCTTAC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
41 3 0.04
42 68 0.91
43 4 0.05
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.48
Consensus pattern (41 bp):
TTTAACCCTATGGGTTTCCGTTCACCTCTTTTGAGCTTCTG
Found at i:6697806 original size:21 final size:21
Alignment explanation
Indices: 6697739--6697807 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
6697729 TCGGGTTTCC
* * *
6697739 GTTCAGCTCTTTTGAGCTTCT
1 GTTCAACTCTTATGAGCTTTT
* * *
6697760 GTTTAACCCTTATG-GGTTTCT
1 GTTCAACTCTTATGAGCTTT-T
*
6697781 ATTCAACTCTTATGAGCTTTT
1 GTTCAACTCTTATGAGCTTTT
6697802 GTTCAA
1 GTTCAA
6697808 TCCTTACGAG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 3 0.09
21 28 0.80
22 4 0.11
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
GTTCAACTCTTATGAGCTTTT
Found at i:6697813 original size:42 final size:41
Alignment explanation
Indices: 6697709--6697822 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
6697699 TCATCCTTTT
* * ** * *
6697709 TGAGCTTTCGTTTAACCCTATCGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTTTGTTTAACCTTAT-GGGTTTCTATTCAACTCTTA
*
6697751 TGAGCTTCTGTTTAACCCTTATGGGTTTCTATTCAACTCTTA
1 TGAGCTTTTGTTTAA-CCTTATGGGTTTCTATTCAACTCTTA
* * *
6697793 TGAGCTTTTGTTCAATCCTTACGAGTTTCT
1 TGAGCTTTTGTTTAA-CCTTATGGGTTTCT
6697823 GTTTAGCACT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 54 0.92
43 5 0.08
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.45
Consensus pattern (41 bp):
TGAGCTTTTGTTTAACCTTATGGGTTTCTATTCAACTCTTA
Found at i:6697825 original size:21 final size:20
Alignment explanation
Indices: 6697751--6697825 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
6697741 TCAGCTCTTT
* *
6697751 TGAGCTTCTGTTTAACCCTTA
1 TGAGTTTCTGTTCAA-CCTTA
* *
6697772 TGGGTTTCTATTCAACTCTTA
1 TGAGTTTCTGTTCAAC-CTTA
6697793 TGAGCTTT-TGTTCAATCCTTA
1 TGAG-TTTCTGTTCAA-CCTTA
*
6697814 CGAGTTTCTGTT
1 TGAGTTTCTGTT
6697826 TAGCACTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.09
21 35 0.81
22 4 0.09
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (20 bp):
TGAGTTTCTGTTCAACCTTA
Found at i:6704495 original size:19 final size:18
Alignment explanation
Indices: 6704460--6704513 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6704450 ATTTTATTTG
*
6704460 TTTTCTTTTAAATTTTAT
1 TTTTCTTTTTAATTTTAT
*
6704478 TTTTCTTTTTTATGTTTAT
1 TTTTCTTTTTAAT-TTTAT
* * *
6704497 GTTTATTTTTATTTTTA
1 TTTTCTTTTTAATTTTA
6704514 GTTGTGTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTTAATTTTAT
Found at i:6705494 original size:145 final size:145
Alignment explanation
Indices: 6705231--6705521 Score: 528
Period size: 145 Copynumber: 2.0 Consensus size: 145
6705221 CACACATTTG
* *
6705231 ATTTGATATACTAAGATGATAAAGGCACTTAGGTTTCAGCCCACTTATTCCATAAAAGCCCTACC
1 ATTTGATATACTAACATGATAAAGGCACTTAGGTTTCAACCCACTTATTCCATAAAAGCCCTACC
6705296 TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATCGTTTCTTGATTTTTCCAATAAT
66 TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATCGTTTCTTGATTTTTCCAATAAT
6705361 GTTAACCCATAACTC
131 GTTAACCCATAACTC
*
6705376 ATTTGATATACTAACATGATAAAGGCACTTAGGTTTTAACCCACTTATTCCATAAAAGCCCTACC
1 ATTTGATATACTAACATGATAAAGGCACTTAGGTTTCAACCCACTTATTCCATAAAAGCCCTACC
* * *
6705441 TTCGTAATTAACCTTTAATGAACTCCATTGAGCCTAACACATCGTTTCTTGATTTTTCCATTAAT
66 TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATCGTTTCTTGATTTTTCCAATAAT
6705506 GTTAACCCATAACTC
131 GTTAACCCATAACTC
6705521 A
1 A
6705522 ATTTTTCGTT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 140 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (145 bp):
ATTTGATATACTAACATGATAAAGGCACTTAGGTTTCAACCCACTTATTCCATAAAAGCCCTACC
TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATCGTTTCTTGATTTTTCCAATAAT
GTTAACCCATAACTC
Found at i:6706217 original size:14 final size:12
Alignment explanation
Indices: 6706167--6706219 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 12
6706157 CCAATGCATG
*
6706167 ATTATTTTGTGA
1 ATTATTTTGAGA
6706179 ATTATTTTGAGA
1 ATTATTTTGAGA
6706191 CATTATTTATGAGA
1 -ATTATTT-TGAGA
6706205 ATTATAATTTGAGA
1 ATTAT--TTTGAGA
6706219 A
1 A
6706220 AATTAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 11 0.31
13 12 0.33
14 11 0.31
15 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (12 bp):
ATTATTTTGAGA
Found at i:6707613 original size:11 final size:11
Alignment explanation
Indices: 6707597--6707622 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6707587 AAATTTTAAG
6707597 TTTTTTTCTTT
1 TTTTTTTCTTT
6707608 TTTTTTTCTTT
1 TTTTTTTCTTT
6707619 TTTT
1 TTTT
6707623 ACTTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:6712087 original size:21 final size:21
Alignment explanation
Indices: 6712063--6712105 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6712053 GGAAGAAAAC
6712063 TAACCTTTTATATTATCTTAT
1 TAACCTTTTATATTATCTTAT
* *
6712084 TAACCTTTTATTTTATTTTAT
1 TAACCTTTTATATTATCTTAT
6712105 T
1 T
6712106 TTATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
TAACCTTTTATATTATCTTAT
Found at i:6714111 original size:38 final size:38
Alignment explanation
Indices: 6714063--6714137 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
6714053 CTTGATTAAA
* *
6714063 AAAAGGAAAAGACCATCATTGAAATATATCATGGCATT
1 AAAAGGAAAAGACCATCATTGAAAGATACCATGGCATT
*
6714101 AAAAGGAAAAGACCATGATTGAAAGATACCATGGCAT
1 AAAAGGAAAAGACCATCATTGAAAGATACCATGGCAT
6714138 CCCCGAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (38 bp):
AAAAGGAAAAGACCATCATTGAAAGATACCATGGCATT
Found at i:6714280 original size:18 final size:19
Alignment explanation
Indices: 6714232--6714280 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
6714222 TGTTATATGA
6714232 ATAAGCAT-TTTTGAATAT
1 ATAAGCATGTTTTGAATAT
6714250 ATAAG-AGTGTTTTGAATAT
1 ATAAGCA-TGTTTTGAATAT
*
6714269 -TATGCATGTTTT
1 ATAAGCATGTTTT
6714281 ACGTAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 15 0.56
19 11 0.41
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (19 bp):
ATAAGCATGTTTTGAATAT
Found at i:6717728 original size:24 final size:24
Alignment explanation
Indices: 6717698--6717745 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6717688 AAGAGTTATG
6717698 ATTTAAGGATAATGTTCTTTTTTT
1 ATTTAAGGATAATGTTCTTTTTTT
6717722 ATTTAAGGATAATGTTCTTTTTTT
1 ATTTAAGGATAATGTTCTTTTTTT
6717746 TCTTACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (24 bp):
ATTTAAGGATAATGTTCTTTTTTT
Found at i:6718983 original size:20 final size:20
Alignment explanation
Indices: 6718960--6719004 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
6718950 AGGAATATCT
*
6718960 ATACCTTAGGAAATA-TATTG
1 ATACCTTAAGAAA-AGTATTG
6718980 ATACCTTAAGAAAAGTATTG
1 ATACCTTAAGAAAAGTATTG
6719000 ATACC
1 ATACC
6719005 GGATCGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATACCTTAAGAAAAGTATTG
Found at i:6719095 original size:33 final size:33
Alignment explanation
Indices: 6719057--6719121 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
6719047 TGGTATTGAT
6719057 ATCTTGTAAAATATCGATACTTTGGAGCAATTC
1 ATCTTGTAAAATATCGATACTTTGGAGCAATTC
*
6719090 ATCTTGTAAAATATTGATACTTTGGAGCAATT
1 ATCTTGTAAAATATCGATACTTTGGAGCAATT
6719122 ATAACTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (33 bp):
ATCTTGTAAAATATCGATACTTTGGAGCAATTC
Found at i:6724304 original size:25 final size:24
Alignment explanation
Indices: 6724259--6724328 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
6724249 GTATAAAATA
**
6724259 AATATAA--AAAAAATATGTACAT
1 AATATAATTAAAAAATACATACAT
*
6724281 AATATAGTGTAAAAAATACATACAT
1 AATATAAT-TAAAAAATACATACAT
6724306 AATATAATTAAAATATATACATA
1 AATATAATTAAAA-A-ATACATA
6724329 AGATAACATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 6 0.15
24 5 0.13
25 21 0.54
26 7 0.18
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (24 bp):
AATATAATTAAAAAATACATACAT
Found at i:6724325 original size:22 final size:22
Alignment explanation
Indices: 6724259--6724334 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
6724249 GTATAAAATA
** *
6724259 AATATAAAAAAAATATGTACAT
1 AATATAATTAAAATATATACAT
* *
6724281 AATATAGTGTAAAAAATACATACAT
1 AATATAAT-T--AAAATATATACAT
6724306 AATATAATTAAAATATATACAT
1 AATATAATTAAAATATATACAT
*
6724328 AAGATAA
1 AATATAA
6724335 CATGTAGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 24 0.56
24 1 0.02
25 18 0.42
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
AATATAATTAAAATATATACAT
Found at i:6724409 original size:27 final size:25
Alignment explanation
Indices: 6724347--6724407 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
6724337 TGTAGAAAAA
*
6724347 AAATATATATAAATAATATAGTATT
1 AAATATATATAAATAAAATAGTATT
* *
6724372 AAAGATATATACATAAAATAGTA-T
1 AAATATATATAAATAAAATAGTATT
6724396 AATATATATATA
1 AA-ATATATATA
6724408 TATACGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (25 bp):
AAATATATATAAATAAAATAGTATT
Found at i:6724495 original size:25 final size:26
Alignment explanation
Indices: 6724441--6724504 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 26
6724431 TACACCTAAT
*
6724441 ATATTAAAAGAATATATATATAATATA
1 ATATTAAAA-AATATATATAAAATATA
6724468 ATATTAAAAAATATA-ATAAAATATA
1 ATATTAAAAAATATATATAAAATATA
*
6724493 ATAATAACAAAA
1 ATATTAA-AAAA
6724505 AAAGAGAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 15 0.44
26 10 0.29
27 9 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
ATATTAAAAAATATATATAAAATATA
Found at i:6724498 original size:13 final size:13
Alignment explanation
Indices: 6724462--6724499 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
6724452 ATATATATAT
*
6724462 AATATAATATTAA
1 AATATAATAATAA
*
6724475 AAAAT-ATAATAA
1 AATATAATAATAA
6724487 AATATAATAATAA
1 AATATAATAATAA
6724500 CAAAAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAATAATAA
Found at i:6725012 original size:30 final size:30
Alignment explanation
Indices: 6724976--6725073 Score: 151
Period size: 30 Copynumber: 3.3 Consensus size: 30
6724966 AGGTACAAGT
* **
6724976 GGTGGTGGAGCAATTGTGGCTAACGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
6725006 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
6725036 GGTGGTGGAGTAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
6725066 GGTGGTGG
1 GGTGGTGG
6725074 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.50, T:0.26
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:6725063 original size:18 final size:18
Alignment explanation
Indices: 6725010--6725064 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
6725000 GGAGTAGGTG
*
6725010 GTGGAGCAAGTGTGGCTA
1 GTGGAGTAAGTGTGGCTA
6725028 GTGGAGT-AG-GT-G---
1 GTGGAGTAAGTGTGGCTA
6725040 GTGGAGTAAGTGTGGCTA
1 GTGGAGTAAGTGTGGCTA
6725058 GTGGAGT
1 GTGGAGT
6725065 TGGTGGTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
12 7 0.23
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 13 0.43
ACGTcount: A:0.20, C:0.05, G:0.49, T:0.25
Consensus pattern (18 bp):
GTGGAGTAAGTGTGGCTA
Found at i:6732847 original size:26 final size:26
Alignment explanation
Indices: 6732818--6732869 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6732808 TTTAGTTTCC
**
6732818 TTAATTGTAGTTCCTTTTTCTACAAG
1 TTAATTGTAGTTCCTTAGTCTACAAG
* *
6732844 TTAATTTTAGTTTCTTAGTCTACAAG
1 TTAATTGTAGTTCCTTAGTCTACAAG
6732870 AATAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (26 bp):
TTAATTGTAGTTCCTTAGTCTACAAG
Found at i:6734894 original size:16 final size:15
Alignment explanation
Indices: 6734873--6734912 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
6734863 CTGCCATAAT
6734873 GAGAGA-AGAAAAGA
1 GAGAGAGAGAAAAGA
*
6734887 GAGAGAGAGGAAAGA
1 GAGAGAGAGAAAAGA
6734902 GA-AG-GAGAAAA
1 GAGAGAGAGAAAA
6734913 ATGTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 8 0.35
15 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
GAGAGAGAGAAAAGA
Found at i:6735223 original size:246 final size:245
Alignment explanation
Indices: 6734747--6735228 Score: 772
Period size: 246 Copynumber: 2.0 Consensus size: 245
6734737 ATGTGAATGC
* *
6734747 CATAATAGAATAATTAGAAGCTTATAATATCAAAGCTTTACTCAAAAGAATGTTGATTGATATAT
1 CATAATAGAACAATTAAAAGCTTATAATATCAAAGCTTTACTCAAAAGAATGTTGATTGATATAT
* *
6734812 GCGAGAAAATTACAAGGAACTTAAAATAACCAAGTTGCAGAGATGAATATGCTGCCATAATGAGA
66 GCGAGAAAATTACAAGGAACTTAAAATAACCAAGTTGCAGAAACGAATATGCTGCCATAATGAGA
*
6734877 GAAGAAAAGAGAGAGAGAGGAAAGAGAAGGAGAAAAATGTAAATAAAAAGAAGAAAATAAGGTAA
131 GAAGAAAAGAGAAAGAGAGGAAAGAGAAGGAGAAAAATGTAAATAAAAAGAAGAAAATAAGGTAA
** * *
6734942 AAGAATTGAAGAATATAATTTTTTTCTTGAAGTTTAAATGACGTGGCATGT
196 AAGAATACAAAAATATAA-TCTTTTCTTGAAGTTTAAATGACGTGGCATGT
*
6734993 CATAATAGAACAATTAAAAGCTTATAATATCACAGCTTTACTCAAAAGAATGTTGATTGATATAT
1 CATAATAGAACAATTAAAAGCTTATAATATCAAAGCTTTACTCAAAAGAATGTTGATTGATATAT
* *
6735058 GCGAGATAATTACAAGGAACTTTAAATAACCAAGTTGCAGAAACGAATATGCTGCCCATAATGAG
66 GCGAGAAAATTACAAGGAACTTAAAATAACCAAGTTGCAGAAACGAATATGCTG-CCATAATGAG
* *
6735123 AGAAGAAAAGAGAAAAAGAGAGGAAAGAGGAGGAGAAAAATGTAGATAAAAAGAAGAAAATAAGG
130 AGAAGAAAAGAG--AAAGAGAGGAAAGAGAAGGAGAAAAATGTAAATAAAAAGAAGAAAATAAGG
6735188 TAAAAGAATAACAAAAATATAA-CTTTT-TT-AAGTTTAAATGA
193 TAAAAGAAT-ACAAAAATATAATCTTTTCTTGAAGTTTAAATGA
6735229 AGTGACGTGT
Statistics
Matches: 218, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
246 124 0.57
247 24 0.11
248 4 0.02
249 57 0.26
250 9 0.04
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.23
Consensus pattern (245 bp):
CATAATAGAACAATTAAAAGCTTATAATATCAAAGCTTTACTCAAAAGAATGTTGATTGATATAT
GCGAGAAAATTACAAGGAACTTAAAATAACCAAGTTGCAGAAACGAATATGCTGCCATAATGAGA
GAAGAAAAGAGAAAGAGAGGAAAGAGAAGGAGAAAAATGTAAATAAAAAGAAGAAAATAAGGTAA
AAGAATACAAAAATATAATCTTTTCTTGAAGTTTAAATGACGTGGCATGT
Found at i:6736366 original size:10 final size:10
Alignment explanation
Indices: 6736350--6736394 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
6736340 AAAAAGAAAA
6736350 GGTGGGGTAG
1 GGTGGGGTAG
*
6736360 TGTGGGGTAG
1 GGTGGGGTAG
*
6736370 GGTAGGGTAG
1 GGTGGGGTAG
6736380 GGTGAGGGTTAG
1 GGTG-GGG-TAG
6736392 GGT
1 GGT
6736395 TAGGGTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
11 3 0.10
12 6 0.21
ACGTcount: A:0.13, C:0.00, G:0.62, T:0.24
Consensus pattern (10 bp):
GGTGGGGTAG
Found at i:6736374 original size:15 final size:16
Alignment explanation
Indices: 6736350--6736401 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
6736340 AAAAAGAAAA
* *
6736350 GGTG-GGGTAGTGTGG
1 GGTGAGGGTAGGGTAG
6736365 GGT-AGGGTAGGGTAG
1 GGTGAGGGTAGGGTAG
6736380 GGTGAGGGTTAGGGTTAG
1 GGTGAGGG-TAGGG-TAG
6736398 GGTG
1 GGTG
6736402 TTTACAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 15 0.48
16 4 0.13
17 5 0.16
18 7 0.23
ACGTcount: A:0.13, C:0.00, G:0.62, T:0.25
Consensus pattern (16 bp):
GGTGAGGGTAGGGTAG
Found at i:6736718 original size:7 final size:8
Alignment explanation
Indices: 6736703--6736727 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6736693 TAAAATTTGA
6736703 TTTATTTT
1 TTTATTTT
6736711 TTTATTTT
1 TTTATTTT
6736719 TTTATTTT
1 TTTATTTT
6736727 T
1 T
6736728 AAATTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:6738757 original size:5 final size:5
Alignment explanation
Indices: 6738747--6738771 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6738737 AGTGTCGGGT
6738747 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
6738772 AGATGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:6740986 original size:19 final size:20
Alignment explanation
Indices: 6740959--6741000 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
6740949 ATAAATTACA
6740959 AAATAATTT-TCAAAAA-TTC
1 AAATAATTTAT-AAAAATTTC
*
6740978 AAATTATTTATAAAAATTTC
1 AAATAATTTATAAAAATTTC
6740998 AAA
1 AAA
6741001 ATTTATACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAATTTATAAAAATTTC
Found at i:6741004 original size:18 final size:18
Alignment explanation
Indices: 6740970--6741007 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6740960 AATAATTTTC
6740970 AAAAATTCAAATTATTTAT
1 AAAAATTCAAA-TATTTAT
6740989 AAAAATTTCAAA-ATTTAT
1 AAAAA-TTCAAATATTTAT
6741007 A
1 A
6741008 CTTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAATATTTAT
Found at i:6745934 original size:54 final size:52
Alignment explanation
Indices: 6745760--6745931 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 52
6745750 TACATGGGAG
*
6745760 CACTTATCACTTTTTTCCGATGCCATAGCCCAGCTATGGTCTTATACG-GAT
1 CACTTATCACTTTTTTCCGATGCCATAGCCCAGCTATGGTCTTATACGATAT
** *
6745811 CACTTGTATCA-TCTTAATCCGAAGCCATAGCCCAGCTATGGTCTTATACGGATAT
1 CAC-T-TATCACT-TTTTTCCGATGCCATAGCCCAGCTATGGTCTTATAC-GATAT
*
6745866 CACTTATCACTTGTTTTTCGATGCCATAGCCCAGCTATGGTCTTATACGAATAT
1 CACTTATCACTT-TTTTCCGATGCCATAGCCCAGCTATGGTCTTATACG-ATAT
6745920 CACTTATCACTT
1 CACTTATCACTT
6745932 GTTGCCATGG
Statistics
Matches: 105, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
51 3 0.03
52 2 0.02
53 45 0.43
54 50 0.48
55 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTATCACTTTTTTCCGATGCCATAGCCCAGCTATGGTCTTATACGATAT
Found at i:6754205 original size:15 final size:15
Alignment explanation
Indices: 6754182--6754229 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
6754172 TATCAAATTT
6754182 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* *
6754197 ATTTTGATTGAATTC
1 ATATTGATTGAAATC
6754212 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
6754226 ATAT
1 ATAT
6754230 ATTATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:6754884 original size:18 final size:19
Alignment explanation
Indices: 6754863--6754903 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6754853 AATGAAATGA
6754863 GAAATTGA-AT-TGAGAATT
1 GAAATTGATATATGAG-ATT
6754881 GAAATTGATATATGAGATT
1 GAAATTGATATATGAGATT
6754900 GAAA
1 GAAA
6754904 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (19 bp):
GAAATTGATATATGAGATT
Found at i:6756928 original size:53 final size:51
Alignment explanation
Indices: 6756782--6756929 Score: 163
Period size: 53 Copynumber: 2.8 Consensus size: 51
6756772 TCTCCGATAT
*
6756782 CATAGCCCAGCTATGGTCTTATACG-GATCACTTGTATCACCTTAATCCGAAGC
1 CATAGCCCAGCTATGGTCTTATACGATATCAC-T-TATCA-CTTAATCCGAAGC
* * * * *
6756835 CATAGCCCAGTTATGGTCTTATACGGATATCGCTTATCACTTATTTTCGATGC
1 CATAGCCCAGCTATGGTCTTATAC-GATATCACTTATCACTTA-ATCCGAAGC
* *
6756888 CATGGCCCAACTATGGTCTTATACGAATATCACTTATCACTT
1 CATAGCCCAGCTATGGTCTTATACG-ATATCACTTATCACTT
6756930 GTTGCCATGG
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
52 5 0.06
53 70 0.86
54 2 0.02
55 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (51 bp):
CATAGCCCAGCTATGGTCTTATACGATATCACTTATCACTTAATCCGAAGC
Found at i:6761551 original size:34 final size:34
Alignment explanation
Indices: 6761513--6761577 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
6761503 GAATGGTATG
6761513 TGATGGAACTCAGATGAAACTCTATCAGGAAATA
1 TGATGGAACTCAGATGAAACTCTATCAGGAAATA
* *
6761547 TGATGGAACTCAGGTGAAACTCTGTCAGGAA
1 TGATGGAACTCAGATGAAACTCTATCAGGAA
6761578 GAGTTTGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (34 bp):
TGATGGAACTCAGATGAAACTCTATCAGGAAATA
Found at i:6763079 original size:27 final size:26
Alignment explanation
Indices: 6763037--6763090 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
6763027 GGAGGAAGCT
*
6763037 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTAGTGGCTATGCCAC-AATATCTG
*
6763064 TTCTAGTGGCTCTGCCACAATATCTG
1 TTCTAGTGGCTATGCCACAATATCTG
6763090 T
1 T
6763091 ATCTGGTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TTCTAGTGGCTATGCCACAATATCTG
Found at i:6763103 original size:27 final size:26
Alignment explanation
Indices: 6763049--6763121 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
6763039 CTGGTGGCTA
* **
6763049 TGCCACAAATATCTGTTCTAGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTAACTC
6763076 TGCCACAATATCTGTATCTGGTAACTC
1 TGCCACAATATCTGT-TCTGGTAACTC
**
6763103 TATCACAATATCTGTTCTG
1 TGCCACAATATCTGTTCTG
6763122 TCAGCCATGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 13 0.32
27 27 0.68
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTAACTC
Found at i:6769219 original size:34 final size:35
Alignment explanation
Indices: 6769172--6769239 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
6769162 ACAAGGTAAA
6769172 CAAATAAAAGTATTA-TTTTTTTATGAGCAGGAAG
1 CAAATAAAAGTATTATTTTTTTTATGAGCAGGAAG
6769206 CAAA-AAAAGGTATTATTTTTTTTATGAGCAGGAA
1 CAAATAAAA-GTATTATTTTTTTTATGAGCAGGAA
6769240 TGGTATGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 4 0.12
34 10 0.31
35 18 0.56
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (35 bp):
CAAATAAAAGTATTATTTTTTTTATGAGCAGGAAG
Found at i:6770779 original size:27 final size:26
Alignment explanation
Indices: 6770741--6770827 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
6770731 TGGATAAAGC
6770741 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
6770768 GTTCTTGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
** * *
6770794 GTATCTGGTAACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
6770821 GTTCTGG
1 GTTCTGG
6770828 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:6774290 original size:10 final size:11
Alignment explanation
Indices: 6774267--6774295 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
6774257 TGTATAAAAC
6774267 TTATTTTATTA
1 TTATTTTATTA
6774278 TTATTTT-TTA
1 TTATTTTATTA
6774288 TTATTTTA
1 TTATTTTA
6774296 AAGATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:6774439 original size:18 final size:18
Alignment explanation
Indices: 6774418--6774456 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6774408 GAAATATTTA
*
6774418 TTTGAT-GTTTTTAGTATT
1 TTTGATAGTTTATA-TATT
6774436 TTTGATAGTTTATATATT
1 TTTGATAGTTTATATATT
6774454 TTT
1 TTT
6774457 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTGATAGTTTATATATT
Found at i:6774456 original size:19 final size:18
Alignment explanation
Indices: 6774411--6774457 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
6774401 TTGTTGAGAA
*
6774411 ATATTTATTTGATGTTTTT
1 ATATTT-TTTGATGTTTAT
6774430 AGTA-TTTTTGATAGTTTAT
1 A-TATTTTTTGAT-GTTTAT
6774449 ATATTTTTT
1 ATATTTTTT
6774458 AAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (18 bp):
ATATTTTTTGATGTTTAT
Found at i:6774479 original size:12 final size:12
Alignment explanation
Indices: 6774458--6774491 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6774448 TATATTTTTT
*
6774458 AAAATTATATAA
1 AAAATAATATAA
6774470 AAAATAATATAA
1 AAAATAATATAA
*
6774482 AAATTAATAT
1 AAAATAATAT
6774492 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:6776854 original size:4 final size:4
Alignment explanation
Indices: 6776845--6776877 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
6776835 CCTTTTCCCC
6776845 CTTT CTTT CTTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT
6776878 TTCTCCCCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:6776862 original size:21 final size:21
Alignment explanation
Indices: 6776838--6776878 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6776828 AATTTTCCCT
6776838 TTTCCCCCTTTCTTTCTTTTC
1 TTTCCCCCTTTCTTTCTTTTC
***
6776859 TTTCTTTCTTTCTTTCTTTT
1 TTTCCCCCTTTCTTTCTTTT
6776879 TCTCCCCTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTCCCCCTTTCTTTCTTTTC
Found at i:6786967 original size:19 final size:20
Alignment explanation
Indices: 6786917--6786960 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6786907 AAATAGATAT
*
6786917 TTATT-TAAATATTAAATTA
1 TTATTATAATTATTAAATTA
*
6786936 TTGTTATAATTATT-AATTA
1 TTATTATAATTATTAAATTA
6786955 TTATTA
1 TTATTA
6786961 ATATTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATTATAATTATTAAATTA
Found at i:6788550 original size:50 final size:50
Alignment explanation
Indices: 6788461--6788640 Score: 234
Period size: 50 Copynumber: 3.5 Consensus size: 50
6788451 CATTGATCAG
* * * * *
6788461 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCAGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
6788512 GTAGCTGAAGCTATCAATTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCAGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
6788562 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCAGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
6788612 GTAGCCAAAGAAGCTATCACTTATCACTT
1 GTAG-C--AGAAGCTATCACTTATCACTT
6788641 GTTGCCATGG
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
50 73 0.63
51 22 0.19
53 20 0.17
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (50 bp):
GTAGCAGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:6790722 original size:23 final size:23
Alignment explanation
Indices: 6790696--6790782 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
6790686 GCTTTATGGA
*
6790696 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCATGTGTCGTATT
* * *
6790719 TCAGGCACCTCGTGTGCCGTA--
1 TCAGGCACTTCATGTGTCGTATT
*
6790740 TCAGGCACTTCGTGTGTC--ATT
1 TCAGGCACTTCATGTGTCGTATT
* *
6790761 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTCATGTGTCGTAT
6790783 ACTAATCAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 1 0.02
21 31 0.61
23 19 0.37
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACTTCATGTGTCGTATT
Found at i:6792398 original size:47 final size:47
Alignment explanation
Indices: 6792334--6792595 Score: 301
Period size: 47 Copynumber: 5.6 Consensus size: 47
6792324 ATCCATAAGT
6792334 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
6792381 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T---C
6792427 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
6792474 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T---C
6792520 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
6792567 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
6792596 CATTTGCATC
Statistics
Matches: 180, Mismatches: 17, Indels: 36
0.77 0.07 0.15
Matches are distributed among these distances:
42 2 0.01
43 16 0.09
44 2 0.01
46 56 0.31
47 84 0.47
49 2 0.01
50 16 0.09
51 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:6792449 original size:93 final size:93
Alignment explanation
Indices: 6792290--6792644 Score: 649
Period size: 93 Copynumber: 3.8 Consensus size: 93
6792280 CCATAAGTGT
* * * *
6792290 ACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 ACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
6792354 GAGCTCGGATGCCTAGTTACATCTCTCGA
65 GAGCTCGGATGCCTAGTTACATCTCTCGA
6792383 ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
6792448 AGCTCGGATGCCTAGTTACATCTCTCGA
66 AGCTCGGATGCCTAGTTACATCTCTCGA
6792476 ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
6792541 AGCTCGGATGCCTAGTTACATCTCTCGA
66 AGCTCGGATGCCTAGTTACATCTCTCGA
6792569 ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
*
6792634 AGTTCGGATGC
66 AGCTCGGATGC
6792645 TCAACCATCC
Statistics
Matches: 256, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 2 0.01
93 254 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTCGA
Found at i:6792641 original size:46 final size:46
Alignment explanation
Indices: 6792280--6792641 Score: 336
Period size: 46 Copynumber: 7.8 Consensus size: 46
6792270 TGTAACCCGC
* * * *
6792280 CCATAAGTGTACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* *
6792326 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
6792376 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
6792419 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
6792469 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
6792512 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
6792562 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
6792605 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
6792642 TGCTCAACCA
Statistics
Matches: 261, Mismatches: 27, Indels: 56
0.76 0.08 0.16
Matches are distributed among these distances:
42 3 0.01
43 24 0.09
44 3 0.01
45 2 0.01
46 117 0.45
47 84 0.32
49 3 0.01
50 22 0.08
51 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:6794908 original size:40 final size:40
Alignment explanation
Indices: 6794855--6795010 Score: 208
Period size: 40 Copynumber: 3.9 Consensus size: 40
6794845 GGACATAGCT
* * *
6794855 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTATAGTA
* *
6794895 ACTCGCACCAATGCCTTCAGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGG-TTATAGTA
* *
6794935 ACTCGTACAAATGCCTTCAGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTA-TAGTA
*
6794975 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTAT
6795011 CATCCGAATA
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 97 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTATAGTA
Found at i:6800138 original size:32 final size:34
Alignment explanation
Indices: 6800101--6800168 Score: 84
Period size: 36 Copynumber: 2.0 Consensus size: 34
6800091 TTTTTCCTTT
* *
6800101 TTTTTTGTTTTTTTA-AGTTTTTTATTTATTTAC
1 TTTTTAGTTTTTTTATAGTCTTTTATTTATTTAC
*
6800134 TTTTTAAGTTTTTTTATTTGTCTTTTATTTATTTA
1 TTTTT-AGTTTTTTTA-TAGTCTTTTATTTATTTA
6800169 TTTATTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 5 0.17
34 9 0.31
36 15 0.52
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (34 bp):
TTTTTAGTTTTTTTATAGTCTTTTATTTATTTAC
Found at i:6800211 original size:23 final size:22
Alignment explanation
Indices: 6800184--6800260 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
6800174 TTATTATTGG
*
6800184 TTTTATAAAATTTGAAATGTATA
1 TTTTATAAAATTTTAAAT-TATA
**
6800207 TTTTA-AATGTTTTATAA-TATTA
1 TTTTATAAAATTTTA-AATTA-TA
6800229 TTTT-TAAAATTTTAAA-TATA
1 TTTTATAAAATTTTAAATTATA
*
6800249 TTTTTTAAAATT
1 TTTTATAAAATT
6800261 ATTTTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.13
21 13 0.29
22 19 0.42
23 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTATAAAATTTTAAATTATA
Found at i:6800213 original size:21 final size:21
Alignment explanation
Indices: 6800189--6800260 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
6800179 ATTGGTTTTA
* *
6800189 TAAAATTTGAAATGTATATTT
1 TAAAATTTTAAATATATATTT
*
6800210 TAAATGTTTTATAATAT-TATTTT
1 TAAA-ATTTTA-AATATATA-TTT
*
6800233 TAAAATTTTAAATATATTTTT
1 TAAAATTTTAAATATATATTT
6800254 TAAAATT
1 TAAAATT
6800261 ATTTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 19 0.45
22 12 0.29
23 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TAAAATTTTAAATATATATTT
Found at i:6800266 original size:33 final size:33
Alignment explanation
Indices: 6800216--6800293 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
6800206 ATTTTAAATG
* *
6800216 TTTTATAATATTATTTTTAAAATTTTAAATA-TA
1 TTTTTTAAAATTATTTTTAAAA-TTTAAATATTA
6800249 TTTTTTAAAATTATTTTTAAAATTTAAATATTA
1 TTTTTTAAAATTATTTTTAAAATTTAAATATTA
6800282 TTTTTTAAAATT
1 TTTTTTAAAATT
6800294 TAAATATGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 8 0.19
33 34 0.81
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TTTTTTAAAATTATTTTTAAAATTTAAATATTA
Done.