Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 7 of 141
Found at i:1949281 original size:27 final size:28
Alignment explanation
Indices: 1949250--1949302 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
1949240 ACCAAAAATT
1949250 TATTTTAAAAAT-AAAAAATAAAAAAAG
1 TATTTTAAAAATAAAAAAATAAAAAAAG
*
1949277 TATTTTACAAATAAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAAATAAAAAA
1949303 TATATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (28 bp):
TATTTTAAAAATAAAAAAATAAAAAAAG
Found at i:1950082 original size:19 final size:19
Alignment explanation
Indices: 1950058--1950127 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
1950048 TAATAAACAC
1950058 TAAAAAATAATTTTAAAAG
1 TAAAAAATAATTTTAAAAG
***
1950077 TAAAAAATAAAAATAAAAG
1 TAAAAAATAATTTTAAAAG
*
1950096 TATTTTAAAAAT-ATTTTAAAAT
1 TA----AAAAATAATTTTAAAAG
1950118 TAAAAAATAA
1 TAAAAAATAA
1950128 AAATATATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 6 0.15
19 19 0.49
22 8 0.21
23 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAAAATAATTTTAAAAG
Found at i:1952085 original size:17 final size:18
Alignment explanation
Indices: 1952054--1952087 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1952044 AATTTTATAA
*
1952054 TTTTTAATATATTTTATT
1 TTTTTAAAATATTTTATT
1952072 TTTTTAAAAT-TTTTAT
1 TTTTTAAAATATTTTAT
1952088 AATTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAAAATATTTTATT
Found at i:1953686 original size:37 final size:37
Alignment explanation
Indices: 1953633--1953713 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
1953623 TAATCATATT
*
1953633 AAATTATGATACATTCATGATGATGTGATTAAAAATC
1 AAATTATGATACATTCATGATGATGTGATTAAAAAAC
*
1953670 AATTTATGATACATTCATGATGATGTGATTAAAAAAC
1 AAATTATGATACATTCATGATGATGTGATTAAAAAAC
1953707 AAATTAT
1 AAATTAT
1953714 AAATATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (37 bp):
AAATTATGATACATTCATGATGATGTGATTAAAAAAC
Found at i:1959464 original size:33 final size:33
Alignment explanation
Indices: 1959427--1959531 Score: 126
Period size: 33 Copynumber: 3.3 Consensus size: 33
1959417 CAGTTAGTAC
*
1959427 GGATGATGCTCCTTTAAGCAGGACAAGTAGCAG
1 GGATGATGCTCCTTTAAGCAGGCCAAGTAGCAG
* * * *
1959460 GGATG-TG-T-CTATAAGCCGGCCAACTAGTAG
1 GGATGATGCTCCTTTAAGCAGGCCAAGTAGCAG
* *
1959490 GGATGATGCCCCTTCAAGCAGGCCAAGTAGCAG
1 GGATGATGCTCCTTTAAGCAGGCCAAGTAGCAG
1959523 GGATGATGC
1 GGATGATGC
1959532 CCCTATAATC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
30 22 0.38
31 3 0.05
32 2 0.03
33 31 0.53
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (33 bp):
GGATGATGCTCCTTTAAGCAGGCCAAGTAGCAG
Found at i:1959532 original size:33 final size:32
Alignment explanation
Indices: 1959427--1959544 Score: 116
Period size: 33 Copynumber: 3.7 Consensus size: 32
1959417 CAGTTAGTAC
* *
1959427 GGATGATGCTCCTTTAAGCAGGACAAGTAGCAG
1 GGATGATGC-CCCTTAAGCAGGCCAAGTAGCAG
* * * *
1959460 GGATG-TG--TCTATAAGCCGGCCAACTAGTAG
1 GGATGATGCCCCT-TAAGCAGGCCAAGTAGCAG
1959490 GGATGATGCCCCTTCAAGCAGGCCAAGTAGCAG
1 GGATGATGCCCCTT-AAGCAGGCCAAGTAGCAG
*
1959523 GGATGATGCCCCTATAATCAGG
1 GGATGATGCCCCT-TAAGCAGG
1959545 TTGGGTGTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
29 1 0.01
30 20 0.29
31 2 0.03
32 3 0.04
33 41 0.60
34 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (32 bp):
GGATGATGCCCCTTAAGCAGGCCAAGTAGCAG
Found at i:1962246 original size:23 final size:24
Alignment explanation
Indices: 1962220--1962265 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1962210 ACTAAAAATT
1962220 TATTTT-AAAAATAAAAAATAAAG
1 TATTTTAAAAAATAAAAAATAAAG
1962243 TATTTTAAAAAATAAAAAATAAA
1 TATTTTAAAAAATAAAAAATAAA
1962266 AATATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
TATTTTAAAAAATAAAAAATAAAG
Found at i:1962273 original size:24 final size:23
Alignment explanation
Indices: 1962220--1962273 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
1962210 ACTAAAAATT
* *
1962220 TATTTTAAAAATAAAAAATAAAG
1 TATTTAAAAAATAAAAAATAAAA
1962243 TATTTTAAAAAATAAAAAATAAAAA
1 TA-TTTAAAAAATAAAAAAT-AAAA
1962268 TATTTA
1 TATTTA
1962274 TTATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 20 0.74
25 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TATTTAAAAAATAAAAAATAAAA
Found at i:1963153 original size:8 final size:8
Alignment explanation
Indices: 1963135--1963164 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
1963125 TACATTTAAA
1963135 TTTTAACTT
1 TTTTAA-TT
1963144 TTTTAATT
1 TTTTAATT
1963152 TTTTAATT
1 TTTTAATT
1963160 TTTTA
1 TTTTA
1963165 TTCTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTAATT
Found at i:1963171 original size:15 final size:17
Alignment explanation
Indices: 1963136--1963172 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
1963126 ACATTTAAAT
*
1963136 TTTAACTTTTTTAATTT
1 TTTAACTTTTTTAATTC
1963153 TTTAA-TTTTTT-ATTC
1 TTTAACTTTTTTAATTC
1963168 TTTAA
1 TTTAA
1963173 AATTGAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTAACTTTTTTAATTC
Found at i:1966754 original size:24 final size:24
Alignment explanation
Indices: 1966713--1966766 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1966703 GTGGAATTCA
* *
1966713 ATACATATGTAATCGGTGTCATGC
1 ATACATATATAATCGGTGTCATAC
1966737 ATACATATATAGAT-GGTGTCATAC
1 ATACATATATA-ATCGGTGTCATAC
1966761 ATACAT
1 ATACAT
1966767 GCTCTGAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (24 bp):
ATACATATATAATCGGTGTCATAC
Found at i:1966894 original size:20 final size:20
Alignment explanation
Indices: 1966869--1966935 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
1966859 GTGGAATTCA
1966869 ATACATACATAGATGGTGTC
1 ATACATACATAGATGGTGTC
*
1966889 ATACATACATAGA-GAGTTTC
1 ATACATACATAGATG-GTGTC
*
1966909 ATACATACATATATGGTGTC
1 ATACATACATAGATGGTGTC
1966929 ATACATA
1 ATACATA
1966936 TATTCATACA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
ATACATACATAGATGGTGTC
Found at i:1974450 original size:85 final size:86
Alignment explanation
Indices: 1974306--1974476 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 86
1974296 AGTTTTTTTT
1974306 TTCCCTTGTCATCCAACTGTTCAATTGTGTTTTTTGGTCACAAATTGGTTAACATAAAAATCTAA
1 TTCCCTTGTCATCCAACTGTTCAATTGTGTTTTTTGGTCACAAATTGGTTAACATAAAAATCTAA
1974371 ACATTCAAAATTCAAAAATCC
66 ACATTCAAAATTCAAAAATCC
1974392 TTCCCTTGTC-TCCAACTGTTCAATTGTGTTTTTTGGTCACAAATTGGTTAACATAAAAATCTAA
1 TTCCCTTGTCATCCAACTGTTCAATTGTGTTTTTTGGTCACAAATTGGTTAACATAAAAATCTAA
1974456 ACATTCAAAATTCAAAAATCC
66 ACATTCAAAATTCAAAAATCC
1974477 AAGATAGGTG
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.88
86 10 0.12
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (86 bp):
TTCCCTTGTCATCCAACTGTTCAATTGTGTTTTTTGGTCACAAATTGGTTAACATAAAAATCTAA
ACATTCAAAATTCAAAAATCC
Found at i:1976600 original size:22 final size:21
Alignment explanation
Indices: 1976575--1976631 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
1976565 CTTGAAATGC
* *
1976575 ATTTTTTTAAATGTTTTATAAT
1 ATTTTTTTAAAT-TTTAAAAAT
*
1976597 ATTTTTATAAATTTTAAAAAT
1 ATTTTTTTAAATTTTAAAAAT
*
1976618 ATATTTTTGAAATT
1 AT-TTTTTTAAATT
1976632 AATTTTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTTTTAAATTTTAAAAAT
Found at i:1976894 original size:19 final size:22
Alignment explanation
Indices: 1976870--1976911 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1976860 NNNNNNNNNN
1976870 ATTT-AAAATA-ATATT-TAAA
1 ATTTAAAAATATATATTATAAA
1976889 ATTTAAAAATATATATTATAAA
1 ATTTAAAAATATATATTATAAA
1976911 A
1 A
1976912 CATTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 5 0.25
22 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAAAATATATATTATAAA
Found at i:1976969 original size:9 final size:8
Alignment explanation
Indices: 1976944--1976985 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
1976934 TTTTTTAATT
1976944 AAAAAT-A
1 AAAAATAA
1976951 AAAAATAA
1 AAAAATAA
1976959 AAAAATAA
1 AAAAATAA
*
1976967 AAAAAGGAA
1 AAAAA-TAA
*
1976976 AAATATAA
1 AAAAATAA
1976984 AA
1 AA
1976986 CTTAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
7 6 0.20
8 18 0.60
9 6 0.20
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:1976985 original size:23 final size:23
Alignment explanation
Indices: 1976943--1977004 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1976933 GTTTTTTAAT
*
1976943 TAAAAATA-AAAAATAAAAAA-A
1 TAAAAAAAGAAAAATAAAAAACA
* *
1976964 TAAAAAAAGGAAAAATATAAAACT
1 TAAAAAAA-GAAAAATAAAAAACA
1976988 TAAAAAAAGAAAGAATA
1 TAAAAAAAGAAA-AATA
1977005 GGACAAAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
23 15 0.44
24 12 0.35
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (23 bp):
TAAAAAAAGAAAAATAAAAAACA
Found at i:1976991 original size:24 final size:22
Alignment explanation
Indices: 1976943--1977004 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
1976933 GTTTTTTAAT
*
1976943 TAAAAATA-AAAAATAAAAAAA
1 TAAAAAAAGAAAAATAAAAAAA
**
1976964 TAAAAAAAGGAAAAATATAAAACT
1 TAAAAAAA-GAAAAATA-AAAAAA
1976988 TAAAAAAAGAAAGAATA
1 TAAAAAAAGAAA-AATA
1977005 GGACAAAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
23 11 0.32
24 16 0.47
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (22 bp):
TAAAAAAAGAAAAATAAAAAAA
Found at i:1981481 original size:3 final size:3
Alignment explanation
Indices: 1981473--1981523 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
1981463 ACCCATTCCG
1981473 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1981522 TT
1 TT
1981524 GTGTATTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1987890 original size:21 final size:18
Alignment explanation
Indices: 1987839--1987878 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1987829 CATTTTTATT
*
1987839 ATAAAAAATAAATTAGTA
1 ATAAAAATTAAATTAGTA
1987857 ATAAAAATTAAATTAGTA
1 ATAAAAATTAAATTAGTA
1987875 ATAA
1 ATAA
1987879 TTGAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAAAAATTAAATTAGTA
Found at i:1988262 original size:18 final size:17
Alignment explanation
Indices: 1988235--1988269 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1988225 ACTACATCCA
1988235 ATATACTTTTCATTCCT
1 ATATACTTTTCATTCCT
*
1988252 ATATCACTTTTCTTTCCT
1 ATAT-ACTTTTCATTCCT
1988270 TTTTTGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATACTTTTCATTCCT
Found at i:1991712 original size:14 final size:15
Alignment explanation
Indices: 1991693--1991721 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1991683 TTGTGCTAAC
1991693 AAATATG-ATGCTCA
1 AAATATGTATGCTCA
1991707 AAATATGTATGCTCA
1 AAATATGTATGCTCA
1991722 TTACCAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (15 bp):
AAATATGTATGCTCA
Found at i:1994385 original size:24 final size:23
Alignment explanation
Indices: 1994350--1994406 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1994340 GTGGAATTCG
*
1994350 ATACATACATATGTA-ATCGGTGTC
1 ATACATACATATATAGAT-GGT-TC
*
1994374 ATTCATACATATATAGATGGTTC
1 ATACATACATATATAGATGGTTC
1994397 ATACATACAT
1 ATACATACAT
1994407 GCTCTGAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.38
24 16 0.55
25 2 0.07
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
ATACATACATATATAGATGGTTC
Found at i:1994536 original size:20 final size:20
Alignment explanation
Indices: 1994511--1994571 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
1994501 GTGGAATTCA
1994511 ATACATACATAGATGGTGTC
1 ATACATACATAGATGGTGTC
*
1994531 ATACATACATAGA-GAGTTTC
1 ATACATACATAGATG-GTGTC
*
1994551 ATACATACATATATGGTGTC
1 ATACATACATAGATGGTGTC
1994571 A
1 A
1994572 ACCTTACTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (20 bp):
ATACATACATAGATGGTGTC
Found at i:1995639 original size:84 final size:85
Alignment explanation
Indices: 1995526--1995694 Score: 277
Period size: 84 Copynumber: 2.0 Consensus size: 85
1995516 TTATGTATGT
* * * *
1995526 AAGCTGCAATTTTGTGTTTTCTTGTTCTGTTTTGTTTTTGGGGTTTAAATGTGTTGCTTGTTGAG
1 AAGCTGCAAATTTGTGTTTTCTTGCTCTGTTTTCTTTTTGGGGTTTAAATGTGTTGCTTGCTGAG
*
1995591 CATTAATTTAAGTGGGTTTA
66 CATTAATTTAAGCGGGTTTA
1995611 AAGCTG-AAATTTGTGTTTTCTTGCTCTGTTTTCTTTTTGGGGTTTAAATGTGTTGCTTGCTGAG
1 AAGCTGCAAATTTGTGTTTTCTTGCTCTGTTTTCTTTTTGGGGTTTAAATGTGTTGCTTGCTGAG
*
1995675 CATTAATTTGAGCGGGTTTA
66 CATTAATTTAAGCGGGTTTA
1995695 GGTTTTTAAG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 72 0.92
85 6 0.08
ACGTcount: A:0.17, C:0.09, G:0.25, T:0.50
Consensus pattern (85 bp):
AAGCTGCAAATTTGTGTTTTCTTGCTCTGTTTTCTTTTTGGGGTTTAAATGTGTTGCTTGCTGAG
CATTAATTTAAGCGGGTTTA
Found at i:2004747 original size:32 final size:32
Alignment explanation
Indices: 2004711--2004776 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2004701 CATTTTGGTA
2004711 TTGAACTTGGGTTCCAAGGTTCAAATTACTAC
1 TTGAACTTGGGTTCCAAGGTTCAAATTACTAC
2004743 TTGAACTTGGGTTCCAAGGTTCAAATTACTAC
1 TTGAACTTGGGTTCCAAGGTTCAAATTACTAC
2004775 TT
1 TT
2004777 AAAGGGTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGAACTTGGGTTCCAAGGTTCAAATTACTAC
Found at i:2004784 original size:29 final size:31
Alignment explanation
Indices: 2004719--2004784 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
2004709 TATTGAACTT
*
2004719 GGGTTCCAAGGTTCAAATTACTACTTGAACTT
1 GGGTTCCAAGGTTCAAATTACTACTTGAAC-A
2004751 GGGTTCCAAGGTTCAAATTACTACTT-AA-A
1 GGGTTCCAAGGTTCAAATTACTACTTGAACA
2004780 GGGTT
1 GGGTT
2004785 GCTTTTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 5 0.15
31 2 0.06
32 26 0.79
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (31 bp):
GGGTTCCAAGGTTCAAATTACTACTTGAACA
Found at i:2005432 original size:13 final size:12
Alignment explanation
Indices: 2005414--2005464 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
2005404 TCTATTCAAT
2005414 TCAATTAAATAAA
1 TCAATTAAA-AAA
*
2005427 TCAATTTAAAAAT
1 TCAA-TTAAAAAA
*
2005440 TC-ATGAAAAAAA
1 TCAAT-TAAAAAA
2005452 TCAATTAAAAAA
1 TCAATTAAAAAA
2005464 T
1 T
2005465 TCATGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 1 0.03
12 15 0.48
13 10 0.32
14 5 0.16
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (12 bp):
TCAATTAAAAAA
Found at i:2005449 original size:12 final size:12
Alignment explanation
Indices: 2005434--2005474 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
2005424 AAATCAATTT
2005434 AAAAATTCATGA
1 AAAAATTCATGA
* *
2005446 AAAAAATCAATTA
1 AAAAATTC-ATGA
2005459 AAAAATTCATGA
1 AAAAATTCATGA
2005471 AAAA
1 AAAA
2005475 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (12 bp):
AAAAATTCATGA
Found at i:2005454 original size:25 final size:25
Alignment explanation
Indices: 2005424--2005474 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
2005414 TCAATTAAAT
*
2005424 AAATCAATTTAAAAATTCATGAAAA
1 AAATCAATTAAAAAATTCATGAAAA
2005449 AAATCAATTAAAAAATTCATGAAAA
1 AAATCAATTAAAAAATTCATGAAAA
2005474 A
1 A
2005475 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (25 bp):
AAATCAATTAAAAAATTCATGAAAA
Found at i:2005474 original size:13 final size:13
Alignment explanation
Indices: 2005434--2005474 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2005424 AAATCAATTT
2005434 AAAAATTCATGAA
1 AAAAATTCATGAA
*
2005447 AAAAA-TCAAT-TA
1 AAAAATTC-ATGAA
2005459 AAAAATTCATGAA
1 AAAAATTCATGAA
2005472 AAA
1 AAA
2005475 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (13 bp):
AAAAATTCATGAA
Found at i:2006370 original size:14 final size:14
Alignment explanation
Indices: 2006351--2006378 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2006341 TAACAACTTT
2006351 CTAACTGCTTAATA
1 CTAACTGCTTAATA
2006365 CTAACTGCTTAATA
1 CTAACTGCTTAATA
2006379 TTCATCCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CTAACTGCTTAATA
Found at i:2017398 original size:16 final size:16
Alignment explanation
Indices: 2017377--2017416 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
2017367 CGTTTGGTTC
* *
2017377 GGTGTATTGGATTAGA
1 GGTGTAATGGAATAGA
2017393 GGTGTAATGGAATAGA
1 GGTGTAATGGAATAGA
*
2017409 GATGTAAT
1 GGTGTAAT
2017417 AGCAAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
GGTGTAATGGAATAGA
Found at i:2026379 original size:19 final size:19
Alignment explanation
Indices: 2026357--2026411 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
2026347 TACAAATTTG
2026357 GAAGGTATTTTCAAATATA
1 GAAGGTATTTTCAAATATA
**
2026376 GAAGGTATAATCAAATATA
1 GAAGGTATTTTCAAATATA
2026395 GAAGGTATTTTCAAATA
1 GAAGGTATTTTCAAATA
2026412 ATTATACCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (19 bp):
GAAGGTATTTTCAAATATA
Found at i:2039283 original size:143 final size:142
Alignment explanation
Indices: 2039020--2039305 Score: 475
Period size: 143 Copynumber: 2.0 Consensus size: 142
2039010 AAGTGTCACG
* * * *
2039020 AAAAGCTTTCCTGACATAATTATGAATGGAGAAATGATTGAAAATGCCATAAGGAGTGGGGAGAT
1 AAAAACTTTCCTAACATAATTATGAATGGAGAAATGATTGAAAACGCCATAAGGAGTGAGGAGAT
* *
2039085 CGAGGCTGAAGAAAGTAACCGAAGGTCGGCTCCGAAGAAAAAGGAGAATGAGGTGAACAACATGA
66 CAAGGCTGAAGAAAGTAACCGAAGGTCGGCTCCGAAGAAAAAAGAGAATGAGGTGAACAACATGA
2039150 GCACCTATCAACA
131 GCACCTAT-AACA
*
2039163 AAAAACTTTCCTAACATAGTTATGAATGGAGAAATGATTGAAAACGCCATAAGGAGTGAGGAGA-
1 AAAAACTTTCCTAACATAATTATGAATGGAGAAATGATTGAAAACGCCATAAGGAGTGAGGAGAT
*
2039227 CTAAGGCTGGAGAAAGTAACCGAAGGTCGGCTCCGAAGAAAAAAGAGAATGAGGTGAACAACATG
66 C-AAGGCTGAAGAAAGTAACCGAAGGTCGGCTCCGAAGAAAAAAGAGAATGAGGTGAACAACATG
2039292 AGCACCTATAACA
130 AGCACCTATAACA
2039305 A
1 A
2039306 GGGTTACTCA
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
142 6 0.04
143 128 0.96
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (142 bp):
AAAAACTTTCCTAACATAATTATGAATGGAGAAATGATTGAAAACGCCATAAGGAGTGAGGAGAT
CAAGGCTGAAGAAAGTAACCGAAGGTCGGCTCCGAAGAAAAAAGAGAATGAGGTGAACAACATGA
GCACCTATAACA
Found at i:2043049 original size:19 final size:20
Alignment explanation
Indices: 2043025--2043077 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
2043015 ATTTAATACA
2043025 TTCTATATTTGAATAAG-CT
1 TTCTATATTTGAATAAGACT
2043044 TTCTATATTT-AAT-AGACT
1 TTCTATATTTGAATAAGACT
* *
2043062 TTCCATATTTGTATAA
1 TTCTATATTTGAATAA
2043078 ATTTAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 12 0.41
20 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (20 bp):
TTCTATATTTGAATAAGACT
Found at i:2043297 original size:19 final size:19
Alignment explanation
Indices: 2043229--2043298 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
2043219 TATGGAAGGT
*
2043229 ATACCTTCCATATTAG-AA
1 ATACCTTCCATATTTGAAA
*
2043247 AT--CTTCCATATTTGATA
1 ATACCTTCCATATTTGAAA
2043264 ATACC-TCCTATATTTGAAA
1 ATACCTTCC-ATATTTGAAA
*
2043283 ATACCTTCCAAATTTG
1 ATACCTTCCATATTTG
2043299 TATTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 11 0.26
17 3 0.07
18 5 0.12
19 21 0.49
20 3 0.07
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (19 bp):
ATACCTTCCATATTTGAAA
Found at i:2047306 original size:17 final size:18
Alignment explanation
Indices: 2047284--2047327 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
2047274 CAAGTAGCTC
*
2047284 AAAATGATCCAAATC-TG
1 AAAATGATCCAAAACTTG
2047301 AAAATGA-CCAAAACTTG
1 AAAATGATCCAAAACTTG
2047318 -AAATGATCCA
1 AAAATGATCCA
2047328 TAACCATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAATGATCCAAAACTTG
Found at i:2052321 original size:21 final size:22
Alignment explanation
Indices: 2052297--2052355 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
2052287 TTTTACTATA
*
2052297 TTAAAAATAAATTTT-TATTTT
1 TTAAAAATAAATTTTATAATTT
* *
2052318 TTAATAATTATATTTTATAATTT
1 TTAA-AAATAAATTTTATAATTT
2052341 TTAAATAATTAAATT
1 TTAAA-AA-TAAATT
2052356 AATTTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.14
22 10 0.34
23 10 0.34
24 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAAAATAAATTTTATAATTT
Found at i:2053011 original size:10 final size:11
Alignment explanation
Indices: 2052998--2053026 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2052988 ATCAGGTCAG
2052998 ATCAAATC-AA
1 ATCAAATCAAA
2053008 ATCAAATCAAA
1 ATCAAATCAAA
2053019 ATCAAATC
1 ATCAAATC
2053027 TCATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (11 bp):
ATCAAATCAAA
Found at i:2053330 original size:65 final size:65
Alignment explanation
Indices: 2053186--2053315 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
2053176 TTAATTCTTG
* *
2053186 TATAATATGATATATGTTCAAGGTTTACCTCTCCCAATAATATCGTTTCGAAATTTAAATTGTTA
1 TATAATATAATATATGTTCAAGGTTTACCTCTCCCAATAATATCGTTCCGAAATTTAAATTGTTA
* * *
2053251 TATAATATAATATATGTTCGAGGTTTACCTCTCCCAATAATGTTGTTCCGAAATTTAAATTGTTA
1 TATAATATAATATATGTTCAAGGTTTACCTCTCCCAATAATATCGTTCCGAAATTTAAATTGTTA
2053316 ATCTTTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (65 bp):
TATAATATAATATATGTTCAAGGTTTACCTCTCCCAATAATATCGTTCCGAAATTTAAATTGTTA
Found at i:2058217 original size:397 final size:397
Alignment explanation
Indices: 2056585--2058897 Score: 3932
Period size: 398 Copynumber: 5.8 Consensus size: 397
2056575 ATAAAAAACA
* * * * * *
2056585 GCTTTTGAAAAGTTTGATAGTATTTACTATTGCCGTCAAAAAGTACTTTTGAAAATGATAAAGTG
1 GCTTTTGAAAAGTTTGATAATGTTTAC-ATTACTGTCAAAAAGTACTTTTGAGAAT-ATAAAATG
* * * * ** ** * * * *
2056650 TTAATTTTAAACACGGTG-TTGTAAAGTGAAAGATTTGTTGGGGGGTAAAAAAAGGTAACTTCGT
64 TCAATTTTAGACATGATGCCAG-AAAGTGAAAGATTTAATGGGAGATGAAAAAA-GTAACTTTGT
*
2056714 TG-AAAGTACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTA
127 TGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTA
2056778 AAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAA
192 AAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAA
2056843 TTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAA
257 TTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAA
* * * *
2056908 AATTTTTAACCTTCAACTTTTGGAAAAATGTTTTTCAATGAACTTACCTTTTTATCTCCCATTAA
322 AATTTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAA
2056973 ATCTTTCATAT
387 ATCTTTCATAT
* *
2056984 GCTTTTGAAAAGTTTGATAATGTTTACTATTACTGTTAAAAAGTACTTTTGAGAAGATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTAC-ATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGT
2057049 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
65 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
2057114 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
130 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
* *
2057179 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACAAAAAATTT
195 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
2057244 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
260 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
*
2057309 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACATTTTTATCTCCCATTAAATC
325 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
2057374 TTTCATAT
390 TTTCATAT
* * * * * *
2057382 GCTTTTAAAAAGTTTGATAATGTTTATCATTGCCGTTAAAAAGTATTTTTGAGAAGATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTA-CATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGT
* ** * *
2057447 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
65 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
* *
2057512 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCTTAGATTAAAATCATGTTCGGTTTAAAA
130 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
*
2057577 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
195 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
2057642 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
260 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
*
2057707 TTTTAGCCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
325 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
2057772 TTTCATAT
390 TTTCATAT
* *
2057780 GCTTTTGAAAAGTTTGATAATATTTACCATTACTGTCAAAAAGTGCTTTTGAGAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTA-CATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGT
2057845 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
65 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
2057910 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
130 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
2057975 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTT-CAGCCTCAATAGTAAACAAAAAATTT
195 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
2058039 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
260 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
* *
2058104 TTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
325 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
2058169 TTTCATAT
390 TTTCATAT
* * *
2058177 GCTTTTGAAAAGTTTGATAATGTTTATCATTACGGTCAAAAAGTGCATTTGAGAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTA-CATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGT
*
2058242 CAATTTTAGACATGATGCCATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
65 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
*
2058307 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCAGTTTAAAA
130 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
*
2058372 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
195 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
*
2058437 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTAATTCTAACCCAAGCCAAAA-
260 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
2058501 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
325 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
2058566 TTTCATAT
390 TTTCATAT
* * *
2058574 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAAAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTA-CATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGT
*
2058639 CAATTTTAGACATGATGCCATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
65 CAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
*
2058704 AAAATACTTTTCCAAAATTTTTAGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
130 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
* * *
2058769 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACAAAAAATTT
195 AGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
* * *
2058834 GGTAAACAAAGAGCTCTTCAAACCAAACCATGATTTTAAATTGTGATTCTAACCCAAGCCAAAA
260 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAA
2058898 AGCCAAAATT
Statistics
Matches: 1823, Mismatches: 87, Indels: 10
0.95 0.05 0.01
Matches are distributed among these distances:
397 780 0.43
398 992 0.54
399 51 0.03
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (397 bp):
GCTTTTGAAAAGTTTGATAATGTTTACATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGTC
AATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGAA
AAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAAA
GCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTTG
GTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAATT
TTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATCT
TTCATAT
Found at i:2058452 original size:795 final size:796
Alignment explanation
Indices: 2056585--2058979 Score: 4105
Period size: 795 Copynumber: 3.0 Consensus size: 796
2056575 ATAAAAAACA
* * * *
2056585 GCTTTTGAAAAGTTTGATAGTATTTA-CTATTGCCGTCAAAAAGTACTTTTGAAAATGATAAAGT
1 GCTTTTGAAAAGTTTGATAATGTTTATC-ATTGCCGTCAAAAAGTACTTTTGAGAAT-ATAAAAT
* * * * ** * * *
2056649 GTTAATTTTAAACACGGTGTTGTAAAGTGAAAGATTTGTTGGGGGGTAAAAAAAGGTAACTTCGT
64 GTTAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAA-GTAACTTCGT
*
2056714 TG-AAAGTACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTA
128 TGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTA
*
2056778 AAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAA
193 AAAAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAA
2056843 TTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAA
258 TTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAA
* * * *
2056908 AATTTTTAACCTTCAACTTTTGGAAAAATGTTTTTCAATGAACTTACCTTTTTATCTCCCATTAA
323 AATTTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAA
* * *
2056973 ATCTTTCATATGCTTTTGAAAAGTTTGATAATGTTTACTATTACTGTTAAAAAGTACTTTTGAGA
388 ATCTTTCATATGCTTTTGAAAAGTTTGATAATGTTTACCATTACTGTCAAAAAGTGCTTTTGAGA
*
2057038 AGATAAAATGTCAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGT
453 ATATAAAATGTCAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGT
2057103 AACTTTGTTGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGT
518 AACTTTGTTGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGT
2057168 TCGGTTTAAAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAA
583 TCGGTTTAAAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAA
2057233 ACAAAAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACC
648 ACAAAAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACC
* *
2057298 CAAGCCAAAATTTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACATTTTTATCT
713 CAAGCCAAAATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACATTTTTATCT
2057363 CCCATTAAATCTTTCATAT
778 CCCATTAAATCTTTCATAT
* * * *
2057382 GCTTTTAAAAAGTTTGATAATGTTTATCATTGCCGTTAAAAAGTATTTTTGAGAAGATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTATCATTGCCGTCAAAAAGTACTTTTGAGAATATAAAATGT
2057447 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
* *
2057512 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCTTAGATTAAAATCATGTTCGGTTTAAAA
131 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
2057577 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
196 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
2057642 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
261 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
*
2057707 TTTTAGCCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
326 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
*
2057772 TTTCATATGCTTTTGAAAAGTTTGATAATATTTACCATTACTGTCAAAAAGTGCTTTTGAGAATA
391 TTTCATATGCTTTTGAAAAGTTTGATAATGTTTACCATTACTGTCAAAAAGTGCTTTTGAGAATA
2057837 TAAAATGTCAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAAC
456 TAAAATGTCAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAAC
2057902 TTTGTTGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCG
521 TTTGTTGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCG
*
2057967 GTTTAAAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTC-AGCCTCAATAGTAAACA
586 GTTTAAAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACA
2058031 AAAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAA
651 AAAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAA
*
2058096 GCCAAAATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCCC
716 GCCAAAATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACATTTTTATCTCCC
2058161 ATTAAATCTTTCATAT
781 ATTAAATCTTTCATAT
* * * *
2058177 GCTTTTGAAAAGTTTGATAATGTTTATCATTACGGTCAAAAAGTGCATTTGAGAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTATCATTGCCGTCAAAAAGTACTTTTGAGAATATAAAATGT
* ** *
2058242 CAATTTTAGACATGATGCCATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
*
2058307 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCAGTTTAAAA
131 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
2058372 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
196 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
*
2058437 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTAATTCTAACCCAAGCCAAAA-
261 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
2058501 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
326 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
* *
2058566 TTTCATATGCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAAAATA
391 TTTCATATGCTTTTGAAAAGTTTGATAATGTTTACCATTACTGTCAAAAAGTGCTTTTGAGAATA
*
2058631 TAAAATGTCAATTTTAGACATGATGCCATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAAC
456 TAAAATGTCAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAAC
*
2058696 TTTGTTGAAAAATACTTTTCCAAAATTTTTAGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCG
521 TTTGTTGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCG
*
2058761 GTTTAAAAAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACA
586 GTTTAAAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACA
* * *
2058826 AAAAATTTGGTAAACAAAGAGCTCTTCAAACCAAACCATGATTTTAAATTGTGATTCTAACCCAA
651 AAAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAA--C--
* * * * * *
2058891 GCCAAAAAGCCAAAATTTTTAACCTTCGGCTTTTGGAAAAGTATTTTTCAATGAAGTTACTTTTT
712 -CC---AAGCCAAAATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTAC---AT
2058956 TTTTATCTCCCATTAAATCTTTCA
770 TTTTATCTCCCATTAAATCTTTCA
2058980 ATTATAACAT
Statistics
Matches: 1516, Mismatches: 68, Indels: 19
0.95 0.04 0.01
Matches are distributed among these distances:
794 300 0.20
795 552 0.36
796 539 0.36
797 48 0.03
798 1 0.00
800 2 0.00
803 49 0.03
806 25 0.02
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (796 bp):
GCTTTTGAAAAGTTTGATAATGTTTATCATTGCCGTCAAAAAGTACTTTTGAGAATATAAAATGT
TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
TTTCATATGCTTTTGAAAAGTTTGATAATGTTTACCATTACTGTCAAAAAGTGCTTTTGAGAATA
TAAAATGTCAATTTTAGACATGATGCCAGAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAAC
TTTGTTGAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCG
GTTTAAAAAGCTGATTGCTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACA
AAAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAA
GCCAAAATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACATTTTTATCTCCC
ATTAAATCTTTCATAT
Found at i:2059159 original size:28 final size:28
Alignment explanation
Indices: 2059127--2059180 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
2059117 TTAGCCCTAG
2059127 ACAACTATGCATAGTATTAGTATCTCGC
1 ACAACTATGCATAGTATTAGTATCTCGC
* *
2059155 ACAACTATGTATGGTATTAGTATCTC
1 ACAACTATGCATAGTATTAGTATCTC
2059181 ACAACCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (28 bp):
ACAACTATGCATAGTATTAGTATCTCGC
Found at i:2065069 original size:11 final size:11
Alignment explanation
Indices: 2065053--2065077 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2065043 GAAATGTGCC
2065053 TTTACATCACA
1 TTTACATCACA
2065064 TTTACATCACA
1 TTTACATCACA
2065075 TTT
1 TTT
2065078 GATCAGTAAC
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:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTACATCACA
Found at i:2073340 original size:14 final size:14
Alignment explanation
Indices: 2073323--2073393 Score: 65
Period size: 14 Copynumber: 4.8 Consensus size: 14
2073313 TAGTAAAACA
2073323 AAAGTAAAAA-AAAG
1 AAAG-AAAAAGAAAG
*
2073337 AAAGAAAAAGAGAG
1 AAAGAAAAAGAAAG
2073351 AAAGCAAAAATGAAACAG
1 AAAG-AAAAA-G-AA-AG
2073369 AAAGAAAGAAGAAA-
1 AAAGAAA-AAGAAAG
2073383 AAAGAAAAAGA
1 AAAGAAAAAGA
2073394 CGAACAGCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
13 9 0.18
14 18 0.37
15 6 0.12
16 3 0.06
17 5 0.10
18 8 0.16
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:2076542 original size:24 final size:23
Alignment explanation
Indices: 2076511--2076557 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2076501 TATTCACACA
2076511 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
2076534 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
2076558 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:2091383 original size:11 final size:12
Alignment explanation
Indices: 2091370--2091404 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2091360 AATTTACTTC
2091370 AAAAATAAAACA
1 AAAAATAAAACA
*
2091382 AAAAATAAAAAA
1 AAAAATAAAACA
2091394 TAAAAATAAAA
1 -AAAAATAAAA
2091405 ACATTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (12 bp):
AAAAATAAAACA
Found at i:2096461 original size:29 final size:28
Alignment explanation
Indices: 2096429--2096550 Score: 90
Period size: 29 Copynumber: 4.3 Consensus size: 28
2096419 ATTTTAGATA
2096429 TTAAAATATATTTTTATATCATAAAAAAT
1 TTAAAAT-TATTTTTATATCATAAAAAAT
* * *
2096458 TTAAAATTAATTATATA-CATTTAAAAAAA
1 TTAAAATTATTTTTATATCA--TAAAAAAT
* * * * *
2096487 TTCAAATTGATTTTAATAT--TTAGATA-
1 TTAAAATT-ATTTTTATATCATAAAAAAT
*
2096513 TAAAAATATATTTTTATATCATAAAAAAT
1 TTAAAAT-TATTTTTATATCATAAAAAAT
2096542 TTAAAATTA
1 TTAAAATTA
2096551 ATTATATACA
Statistics
Matches: 68, Mismatches: 17, Indels: 17
0.67 0.17 0.17
Matches are distributed among these distances:
26 14 0.21
27 7 0.10
28 14 0.21
29 27 0.40
30 6 0.09
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (28 bp):
TTAAAATTATTTTTATATCATAAAAAAT
Found at i:2096519 original size:84 final size:85
Alignment explanation
Indices: 2096412--2096582 Score: 326
Period size: 84 Copynumber: 2.0 Consensus size: 85
2096402 ATTTAAAGTT
*
2096412 TTTTAATATTTTAGATATTAAAATATATTTTTATATCATAAAAAATTTAAAATTAATTATATACA
1 TTTTAATATTTTAGATATAAAAATATATTTTTATATCATAAAAAATTTAAAATTAATTATATACA
2096477 TTTAAAAAAATTCAAATTGA
66 TTTAAAAAAATTCAAATTGA
2096497 TTTTAATA-TTTAGATATAAAAATATATTTTTATATCATAAAAAATTTAAAATTAATTATATACA
1 TTTTAATATTTTAGATATAAAAATATATTTTTATATCATAAAAAATTTAAAATTAATTATATACA
2096561 TTTAAAAAAATTCAAATTGA
66 TTTAAAAAAATTCAAATTGA
2096581 TT
1 TT
2096583 CAAATAATTA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 77 0.91
85 8 0.09
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (85 bp):
TTTTAATATTTTAGATATAAAAATATATTTTTATATCATAAAAAATTTAAAATTAATTATATACA
TTTAAAAAAATTCAAATTGA
Found at i:2096566 original size:29 final size:29
Alignment explanation
Indices: 2096450--2096578 Score: 99
Period size: 29 Copynumber: 4.6 Consensus size: 29
2096440 TTTTATATCA
*
2096450 TAAAAAATTTAAAATTAATTATATACATT
1 TAAAAAAATTAAAATTAATTATATACATT
* * * *
2096479 TAAAAAAATTCAAATTGATTTTA-ATATT
1 TAAAAAAATTAAAATTAATTATATACATT
* * *
2096507 TAGATATAAAAAT-ATATT-TTTATAT-CA--
1 TA-A-A-AAAATTAAAATTAATTATATACATT
*
2096534 TAAAAAATTTAAAATTAATTATATACATT
1 TAAAAAAATTAAAATTAATTATATACATT
*
2096563 TAAAAAAATTCAAATT
1 TAAAAAAATTAAAATT
2096579 GATTCAAATA
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
24 4 0.05
25 5 0.07
26 7 0.09
27 4 0.05
28 6 0.08
29 39 0.52
30 5 0.07
31 5 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (29 bp):
TAAAAAAATTAAAATTAATTATATACATT
Found at i:2100127 original size:31 final size:31
Alignment explanation
Indices: 2100089--2100151 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2100079 TAAGCCCGTA
2100089 ATATAGGGTTAAATCTTCTAAAAGAAAGTAC
1 ATATAGGGTTAAATCTTCTAAAAGAAAGTAC
2100120 ATATAGGGTTAAATCTTCTAAAAGAAAGTAC
1 ATATAGGGTTAAATCTTCTAAAAGAAAGTAC
2100151 A
1 A
2100152 AGTATTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.29
Consensus pattern (31 bp):
ATATAGGGTTAAATCTTCTAAAAGAAAGTAC
Found at i:2101272 original size:200 final size:194
Alignment explanation
Indices: 2101055--2101410 Score: 468
Period size: 200 Copynumber: 1.8 Consensus size: 194
2101045 TTAATCTAAG
* *
2101055 AAGAAGAAGATAGTTGCATGCAATTATGTATTGTAAGATAAGTAGAATTCTACGTTTTCTCATTA
1 AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTCTAC--TTT-T--TT-
* * * *
2101120 ATTTTTTTC-TCTCTTGCTCTTGCT-T-TTGCTTGGAATTCTTGATCCTGTTT-TGAGTTTTCTA
60 -TTTTTTTCAT-TATTG-TCTTGCTCTCTT-CTTGGAATTCGTGAGCCTGTTTATGAGGTTTCTA
* *
2101181 TTTCTTGTTTTCCTTTATCATTGTAAGATAAGTAGAGTGTTACTTTTATAAAATTAATTTTTAAT
121 TTTCTTATTTTCCTTTATCACTGTAAGATAAGTAGAGTGTTACTTTTATAAAATTAATTTTTAAT
2101246 CTAAGCAGT
186 CTAAGCAGT
* *
2101255 AAGAAGAAGACAGTTGCATGCAATTAGGTGTTGTAAGATAAGTAGAATTTTACTTTTTTTTTTTT
1 AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTCTACTTTTTTTTTTTT
* * *
2101320 TCATTATTGTTTTTCTCTCTTCTTGTAATTCGTGAGCCTGTTTATGAGGTTTCTATTTCTTATTT
66 TCATTATTGTCTTGCTCTCTTCTTGGAATTCGTGAGCCTGTTTATGAGGTTTCTATTTCTTATTT
*
2101385 TCCTTTATTACTGTAAGATAAGTAGA
131 TCCTTTATCACTGTAAGATAAGTAGA
2101411 ATTTTACCTT
Statistics
Matches: 138, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
192 5 0.04
193 32 0.23
194 46 0.33
195 2 0.01
197 1 0.01
198 3 0.02
200 49 0.36
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (194 bp):
AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTCTACTTTTTTTTTTTT
TCATTATTGTCTTGCTCTCTTCTTGGAATTCGTGAGCCTGTTTATGAGGTTTCTATTTCTTATTT
TCCTTTATCACTGTAAGATAAGTAGAGTGTTACTTTTATAAAATTAATTTTTAATCTAAGCAGT
Found at i:2109637 original size:4 final size:4
Alignment explanation
Indices: 2109628--2109670 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
2109618 CAATTCAAGA
2109628 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
2109671 AGGAAAACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:2109855 original size:4 final size:4
Alignment explanation
Indices: 2109846--2109873 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2109836 AATTCAAGAC
2109846 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
2109874 TAAAGGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:2112292 original size:3 final size:3
Alignment explanation
Indices: 2112284--2112348 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
2112274 CATCATGTGC
2112284 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2112332 TAT TAT TAT TAT GTAT T
1 TAT TAT TAT TAT -TAT T
2112349 CTTGTTACAC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2113364 original size:10 final size:11
Alignment explanation
Indices: 2113347--2113372 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2113337 GAAGAGAATG
2113347 GAAAAAAAAAA
1 GAAAAAAAAAA
2113358 GAAAAAAAAAA
1 GAAAAAAAAAA
2113369 GAAA
1 GAAA
2113373 GAAAGTTAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:2115353 original size:21 final size:21
Alignment explanation
Indices: 2115292--2115356 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
2115282 TTTTTTGAAT
*
2115292 TTTCTATATATTTAATTATTTC
1 TTTCTATAT-TTTTATTATTTC
* *
2115314 --TC-ATATTTTT-TAAAATTC
1 TTTCTATATTTTTAT-TATTTC
2115332 TTTCTATATTTTTATTATTTC
1 TTTCTATATTTTTATTATTTC
2115353 TTTC
1 TTTC
2115357 CATTTTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 11
0.67 0.10 0.22
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 4 0.12
20 4 0.12
21 16 0.48
22 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCTATATTTTTATTATTTC
Found at i:2115591 original size:19 final size:19
Alignment explanation
Indices: 2115567--2115604 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2115557 CTTTAATTAC
2115567 TAAATTAAAAAATAAATAT
1 TAAATTAAAAAATAAATAT
* *
2115586 TAAATTGAAAAATGAATAT
1 TAAATTAAAAAATAAATAT
2115605 AATTCGAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAATTAAAAAATAAATAT
Found at i:2135177 original size:18 final size:21
Alignment explanation
Indices: 2135149--2135191 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
2135139 TCACGTAAAT
2135149 AAATAATTT-AAAATT-ATAA
1 AAATAATTTAAAAATTCATAA
2135168 AAAT-ATTTAAAAATTCATAA
1 AAATAATTTAAAAATTCATAA
2135188 AAAT
1 AAAT
2135192 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATAATTTAAAAATTCATAA
Found at i:2135188 original size:10 final size:9
Alignment explanation
Indices: 2135158--2135200 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
2135148 TAAATAATTT
2135158 AAAATTATA
1 AAAATTATA
*
2135167 AAAATATTTA
1 AAAAT-TATA
2135177 AAAATTCATA
1 AAAATT-ATA
*
2135187 AAAATTAAA
1 AAAATTATA
2135196 AAAAT
1 AAAAT
2135201 AAGGCAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:2135198 original size:19 final size:19
Alignment explanation
Indices: 2135158--2135200 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2135148 TAAATAATTT
**
2135158 AAAATTATAAAAATATTTA
1 AAAATTATAAAAATATAAA
2135177 AAAATTCATAAAAAT-TAAA
1 AAAATT-ATAAAAATATAAA
2135196 AAAAT
1 AAAAT
2135201 AAGGCAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAAATATAAA
Found at i:2135487 original size:30 final size:32
Alignment explanation
Indices: 2135419--2135504 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 32
2135409 GTCGGAAATT
* * *
2135419 TAATTAAAATTTTTTAAAACTTT-TAAGGAGCT
1 TAATTAAAATTTTTAAAAATTTTGTAA-GAGCA
2135451 TAATTAAAATTTTTAAAAATTTTGTAA-A-CA
1 TAATTAAAATTTTTAAAAATTTTGTAAGAGCA
* *
2135481 TAATTAAAAATTTTAAAATTTTTG
1 TAATTAAAATTTTTAAAAATTTTG
2135505 AAGGACCTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 23 0.48
31 1 0.02
32 21 0.44
33 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (32 bp):
TAATTAAAATTTTTAAAAATTTTGTAAGAGCA
Found at i:2137044 original size:4 final size:4
Alignment explanation
Indices: 2137035--2137059 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2137025 GGAAAAGCTG
2137035 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
2137060 GCCACTATTT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2146677 original size:4 final size:4
Alignment explanation
Indices: 2146670--2146780 Score: 80
Period size: 4 Copynumber: 26.2 Consensus size: 4
2146660 TTATGCATGC
* * *
2146670 ATGT ATGT AGGGT ATGT AATGT ATGGC ATGGT ATGT A-GTT TTGT ATGT
1 ATGT ATGT A-TGT ATGT -ATGT AT-GT AT-GT ATGT ATG-T ATGT ATGT
* * * *
2146718 ATGT ATGT ATGT ATGT ATGC ATGC ATGT ATGT GTGT ATGT AGGGT ATGTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATG-T
*
2146768 ATGT ACGT ATGT A
1 ATGT ATGT ATGT A
2146781 AATAAGGTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
3 1 0.01
4 63 0.73
5 22 0.26
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (4 bp):
ATGT
Found at i:2151391 original size:33 final size:32
Alignment explanation
Indices: 2151316--2151394 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
2151306 GCAATATTTA
* * * *
2151316 AATGTAAGATCATAGCTGGGCTATGGCATTTT
1 AATGTAAGACCATAACTGGGCTATGGCACTTG
* *
2151348 AATGAAAAGACCATAACTGGGTTATGGCACCTTG
1 AATG-TAAGACCATAACTGGGCTATGGCA-CTTG
2151382 AATGTAAGACCAT
1 AATGTAAGACCAT
2151395 GGTTGGACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 4 0.11
33 28 0.74
34 6 0.16
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (32 bp):
AATGTAAGACCATAACTGGGCTATGGCACTTG
Found at i:2151465 original size:107 final size:101
Alignment explanation
Indices: 2151285--2151504 Score: 280
Period size: 107 Copynumber: 2.1 Consensus size: 101
2151275 AATTGATGGA
* * *
2151285 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGATCATAGCTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTACGGCATTCTAA
* **
2151350 TGAAAAGACCATAACTGGGTTATGGCACCT-TGAATG
66 TGAAAAGACCATAACTGAGTTATGGCA-CTACAAATG
*
2151386 TAAGACCATGGTTGGACCATGGCAGTATATATATACATGTGTAAGACCATAGCTGGGCTACGGCA
1 TAAGACCATGGTTGGACCATGGCA--ATAT-T-TA-A-ATGTAAGACCATAGCTGGGCTACGGCA
* * *
2151451 TTCTGATGATAAGACCATAACTGAGTTATTGCACTACAAATG
60 TTCTAATGAAAAGACCATAACTGAGTTATGGCACTACAAATG
2151493 TAAGACCATGGT
1 TAAGACCATGGT
2151505 AGGGCAGGGC
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
101 24 0.24
103 4 0.04
104 1 0.01
105 2 0.02
106 3 0.03
107 68 0.67
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTACGGCATTCTAA
TGAAAAGACCATAACTGAGTTATGGCACTACAAATG
Found at i:2153379 original size:53 final size:53
Alignment explanation
Indices: 2153320--2153426 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
2153310 GGCCCATTTT
*** * *
2153320 TATTTTAAAATTTTTAAAAAATT-AAAAAAAGTATTTTTAAAATATTTTTAAAA
1 TATTTTAAAATTAACAAAAAATTAAAAAAAAATATTTTAAAAATA-TTTTAAAA
*
2153373 TATTTTAAAATTAACAAAAATTTAAAAAAAAATATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTAACAAAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAA
2153426 T
1 T
2153427 TAAAACCCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 28 0.60
54 19 0.40
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (53 bp):
TATTTTAAAATTAACAAAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAA
Found at i:2153426 original size:10 final size:11
Alignment explanation
Indices: 2153320--2153425 Score: 62
Period size: 11 Copynumber: 9.9 Consensus size: 11
2153310 GGCCCATTTT
2153320 TATTTT-AAAA
1 TATTTTAAAAA
2153330 T-TTTTAAAAA
1 TATTTTAAAAA
**
2153340 -ATTAAAAAAA
1 TATTTTAAAAA
*
2153350 GTATTTTTAAAA
1 -TATTTTAAAAA
*
2153362 TATTTTTAAAA
1 TATTTTAAAAA
2153373 TATTTT-AAAA
1 TATTTTAAAAA
***
2153383 T-TAACAAAAA
1 TATTTTAAAAA
**
2153393 T-TTAAAAAAAAA
1 TATT--TTAAAAA
2153405 TATTTTAAAAA
1 TATTTTAAAAA
2153416 TATTTTAAAA
1 TATTTTAAAA
2153426 TTAAAACCCA
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
9 5 0.07
10 23 0.30
11 32 0.42
12 14 0.18
13 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:2154843 original size:19 final size:20
Alignment explanation
Indices: 2154808--2154845 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2154798 AAAACTAGTA
*
2154808 ACCAAATTTAACTAAAAATG
1 ACCAAATTTAACAAAAAATG
2154828 ACCAAA-TTAACAAAAAAT
1 ACCAAATTTAACAAAAAAT
2154846 ATAAACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCAAATTTAACAAAAAATG
Found at i:2156697 original size:27 final size:25
Alignment explanation
Indices: 2156659--2156709 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
2156649 ATTCTTATAA
2156659 TTTAATTAATTAATTTTAGTCTTTTT
1 TTTAATTAATTAATTTTAGT-TTTTT
*
2156685 TTTAACTTGATTAATTTTAGTTTTT
1 TTTAA-TTAATTAATTTTAGTTTTT
2156710 ATACTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (25 bp):
TTTAATTAATTAATTTTAGTTTTTT
Found at i:2163091 original size:3 final size:3
Alignment explanation
Indices: 2163083--2163129 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
2163073 ATAATTTAAA
* *
2163083 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TTT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2163130 AATTTATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2166982 original size:241 final size:238
Alignment explanation
Indices: 2166489--2167115 Score: 816
Period size: 241 Copynumber: 2.6 Consensus size: 238
2166479 CACCCATGTC
* *
2166489 GGGTATAAGGGTATAGGAACATGATCTTTCAAAGACCACCAAATACATGATTTTTTTTTAAAGAA
1 GGGTATAAGGGTATAGGAACATGATCTTTCAAAGACCTCCAAATACAT--TTTTTTTTAAAAGAA
* * * * *
2166554 AAATGGAACATACCTGTGTCCTAAATAGACTTACATCTGCCACTTACGCTC-AGGTCCGATTAAC
64 AAATGGAACAAACCTGTGTCCTAAATAGACTTATATCTGACACTCACACTCGA-GTCCGATTAAC
* * *
2166618 AAAAAAGTACTAACATG---C-AACTATATGAAAGAATGGTTGCAATTACAAGCTCCAACTCATC
128 AAAAAAGTACTAGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTACAACTCATC
2166679 ATTTCAATTGAAGTACTCATGTCAGATACAACACATATTCATGCAA
193 ATTTCAATTGAAGTACTCATGTCAGATACAACACATATTCATGCAA
* * * * *
2166725 AGGAACAAGAGTATAGGAATATGATCTTTCAAAGACCTCCAAATACATTTTCTTTTTAAAAGGAA
1 GGGTATAAGGGTATAGGAACATGATCTTTCAAAGACCTCCAAATACATTTT-TTTTTAAAA-GAA
* * *
2166790 AAATGGAGCAAACCTGTGTCCTAAATAGGCTTATATTTGACACTCACACTCGAGTCCGATTAACA
64 AAATGGAACAAACCTGTGTCCTAAATAGACTTATATCTGACACTCACACTCGAGTCCGATTAACA
* ** * *
2166855 GAAAAAGTACTAGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACTAGCTATGACTCGTT
129 -AAAAAGTACTAGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTACAACTCATC
* * * * *
2166920 GTTTCAATTTAAGTACTCGTGTCTGATACGACACATATTCATGCAA
193 ATTTCAATTGAAGTACTCATGTCAGATACAACACATATTCATGCAA
* *
2166966 GGGTATAAGGGTATAGGAACATGATCTTTCAAAGACCTCCAAATACA-TTTTTTTTAATAGTAAA
1 GGGTATAAGGGTATAGGAACATGATCTTTCAAAGACCTCCAAATACATTTTTTTTTAAAAGAAAA
* * * * * * *
2167030 ATGGAACAAAACCCGTGTTCTAAAAAGCCTTATATCTAACATTCACACTCGAGTCTGATTAACAA
66 ATGGAAC-AAACCTGTGTCCTAAATAGACTTATATCTGACACTCACACTCGAGTCCGATTAACAA
2167095 AAAAGTACTAGCATGTAACTA
130 AAAAGTACTAGCATGTAACTA
2167116 TATGAAAGAA
Statistics
Matches: 338, Mismatches: 44, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
234 3 0.01
235 8 0.02
236 100 0.30
237 16 0.05
238 32 0.09
239 56 0.17
240 4 0.01
241 119 0.35
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (238 bp):
GGGTATAAGGGTATAGGAACATGATCTTTCAAAGACCTCCAAATACATTTTTTTTTAAAAGAAAA
ATGGAACAAACCTGTGTCCTAAATAGACTTATATCTGACACTCACACTCGAGTCCGATTAACAAA
AAAGTACTAGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTACAACTCATCATT
TCAATTGAAGTACTCATGTCAGATACAACACATATTCATGCAA
Found at i:2174942 original size:22 final size:23
Alignment explanation
Indices: 2174923--2174966 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2174913 AGCCTTTACA
2174923 CTTTTA-TTTTTAAAAATTTAAT
1 CTTTTACTTTTTAAAAATTTAAT
*
2174945 CTTTTACTTTTTAAAATTTTAA
1 CTTTTACTTTTTAAAAATTTAA
2174967 ATTTCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
CTTTTACTTTTTAAAAATTTAAT
Found at i:2175493 original size:12 final size:12
Alignment explanation
Indices: 2175476--2175505 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2175466 CGTTGAATTT
2175476 ATCATCATCGGA
1 ATCATCATCGGA
*
2175488 ATCATCATCGTA
1 ATCATCATCGGA
2175500 ATCATC
1 ATCATC
2175506 TTTTGACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (12 bp):
ATCATCATCGGA
Found at i:2181238 original size:12 final size:12
Alignment explanation
Indices: 2181221--2181245 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2181211 TTCATGACAT
2181221 AATATGTTATAA
1 AATATGTTATAA
2181233 AATATGTTATAA
1 AATATGTTATAA
2181245 A
1 A
2181246 TTAAATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATATGTTATAA
Found at i:2182473 original size:4 final size:4
Alignment explanation
Indices: 2182466--2182493 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2182456 AAAACGTATA
2182466 CATG CATG CATG CATG CATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG
2182494 TATGTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (4 bp):
CATG
Found at i:2182498 original size:4 final size:4
Alignment explanation
Indices: 2182491--2182528 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
2182481 GCATGCATGC
2182491 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
2182529 TTCTAAGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2188777 original size:25 final size:28
Alignment explanation
Indices: 2188749--2188805 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
2188739 CGTTGTTGTT
2188749 GTTTTTTTTT-A-A-TTCCATGTTTTTA
1 GTTTTTTTTTAAGATTTCCATGTTTTTA
2188774 GTTTTTTTTTAATGATTTCCATGTTTTTA
1 GTTTTTTTTTAA-GATTTCCATGTTTTTA
2188803 GTT
1 GTT
2188806 AAAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.36
26 1 0.04
28 1 0.04
29 16 0.57
ACGTcount: A:0.16, C:0.07, G:0.11, T:0.67
Consensus pattern (28 bp):
GTTTTTTTTTAAGATTTCCATGTTTTTA
Found at i:2190665 original size:31 final size:29
Alignment explanation
Indices: 2190595--2190668 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
2190585 AGCTCGTATT
* *
2190595 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
2190624 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
2190655 ACATTTTAGTCACT
1 ACATTTTAGTCACT
2190669 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:2190860 original size:15 final size:17
Alignment explanation
Indices: 2190828--2190861 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2190818 TGGACTAGTT
2190828 AAAAATGAAAAACATAG
1 AAAAATGAAAAACATAG
2190845 AAAAAT-AAAAAC-TAG
1 AAAAATGAAAAACATAG
2190860 AA
1 AA
2190862 CACAATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAATGAAAAACATAG
Found at i:2192573 original size:17 final size:17
Alignment explanation
Indices: 2192551--2192583 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2192541 ATGGATTATT
2192551 AAAAAT-TTATAAAAATA
1 AAAAATATTA-AAAAATA
2192568 AAAAATATTAAAAAAT
1 AAAAATATTAAAAAAT
2192584 TAGTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATATTAAAAAATA
Found at i:2193436 original size:14 final size:14
Alignment explanation
Indices: 2193417--2193456 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2193407 TTGATTGCCA
2193417 GTAAAATATTTTCC
1 GTAAAATATTTTCC
* *
2193431 GTAAAATAATTTCT
1 GTAAAATATTTTCC
*
2193445 GAAAAATATTTT
1 GTAAAATATTTT
2193457 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (14 bp):
GTAAAATATTTTCC
Found at i:2193465 original size:20 final size:20
Alignment explanation
Indices: 2193440--2193479 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2193430 CGTAAAATAA
*
2193440 TTTCTGAAAAATATTTTACT
1 TTTCTGAAAAATAATTTACT
*
2193460 TTTCTGTAAAATAATTTACT
1 TTTCTGAAAAATAATTTACT
2193480 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:2193469 original size:34 final size:35
Alignment explanation
Indices: 2193425--2193491 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
2193415 CAGTAAAATA
2193425 TTTTCCGTAAAATAATTT-CT-GAAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACTAG-AAAATATTTTAC
*
2193459 TTTTCTGTAAAATAATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
2193492 CTGCTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 17 0.57
35 12 0.40
36 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:2200700 original size:20 final size:20
Alignment explanation
Indices: 2200675--2200714 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2200665 CGTAAAATGA
*
2200675 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
2200695 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
2200715 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:2200704 original size:34 final size:35
Alignment explanation
Indices: 2200660--2200726 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
2200650 CAGTAAAATA
*
2200660 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
2200694 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
2200727 CTGCTGCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:2200811 original size:20 final size:19
Alignment explanation
Indices: 2200786--2200832 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
2200776 ACATATATTA
2200786 ATATATATTAATAAATTTTT
1 ATATATATTAAT-AATTTTT
* *
2200806 ATATAT-TAAATTATTTTT
1 ATATATATTAATAATTTTT
*
2200824 ACATATATT
1 ATATATATT
2200833 GCAATGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
20 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATATTAATAATTTTT
Found at i:2209301 original size:42 final size:42
Alignment explanation
Indices: 2209253--2209495 Score: 206
Period size: 42 Copynumber: 5.8 Consensus size: 42
2209243 TCACGTGACA
* * *
2209253 TTCTATAGTACCGATCATCAGGTGAGTAAGAACGGTCCCGCC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* *
2209295 TTCTATAGTATCGATCCTCAGGAGAGTAAGAACGATCCCGTC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* * * * * *
2209337 TGC-AGTGGTAACGATCATCGGGAGAGTAA-AACCTATCACGCC
1 TTCTA-TAGTATCGATCATCAGGAGAGTAAGAA-CGATCCCGCC
* * *
2209379 TTCTATAGTATCTATCATCAGGAGAGTAAGAACGGTCCCGTC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* * * * * * *
2209421 TAT-GATAATAACAATCATAAGGAGAGT-AGGACTGATCACGCC
1 T-TCTATAGTATCGATCATCAGGAGAGTAAGAAC-GATCCCGCC
* * *
2209463 TTCGATAGTATCGATCTTCAGGAGAGTAGGAAC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAAC
2209496 AGTAACGATA
Statistics
Matches: 155, Mismatches: 38, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
41 8 0.05
42 140 0.90
43 7 0.05
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
Found at i:2209364 original size:84 final size:84
Alignment explanation
Indices: 2209264--2209495 Score: 256
Period size: 84 Copynumber: 2.8 Consensus size: 84
2209254 TCTATAGTAC
* * * *
2209264 CGATCATCAGGTGAGTAAGAACGGTCCCGCCTTCTATAGTATCGATCCTCAGGAGAGTAAGAACG
1 CGATCATCAGGAGAGTAAGAACGATCACGCCTTCTATAGTATCGATCATCAGGAGAGTAAGAACG
**
2209329 ATCCCGTC--TGCAGTGGTAA
66 ATCCCGTCTATG-A-TAATAA
* * *
2209348 CGATCATCGGGAGAGTAA-AACCTATCACGCCTTCTATAGTATCTATCATCAGGAGAGTAAGAAC
1 CGATCATCAGGAGAGTAAGAA-CGATCACGCCTTCTATAGTATCGATCATCAGGAGAGTAAGAAC
*
2209412 GGTCCCGTCTATGATAATAA
65 GATCCCGTCTATGATAATAA
* * * * * *
2209432 CAATCATAAGGAGAGT-AGGACTGATCACGCCTTCGATAGTATCGATCTTCAGGAGAGTAGGAAC
1 CGATCATCAGGAGAGTAAGAAC-GATCACGCCTTCTATAGTATCGATCATCAGGAGAGTAAGAAC
2209496 AGTAACGATA
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
83 4 0.03
84 117 0.94
85 1 0.01
86 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (84 bp):
CGATCATCAGGAGAGTAAGAACGATCACGCCTTCTATAGTATCGATCATCAGGAGAGTAAGAACG
ATCCCGTCTATGATAATAA
Found at i:2213453 original size:20 final size:19
Alignment explanation
Indices: 2213424--2213484 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
2213414 TTAACAAAAA
*
2213424 AAAAAATCAAAATCATTTTT
1 AAAAAATCAAAAT-ATTTAT
*
2213444 AAAAATTCAAAATATTTAT
1 AAAAAATCAAAATATTTAT
2213463 AAAAAATCAAAAT-TTTA-
1 AAAAAATCAAAATATTTAT
2213480 AAAAA
1 AAAAA
2213485 TATAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.13
18 4 0.11
19 17 0.45
20 12 0.32
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:2213917 original size:3 final size:3
Alignment explanation
Indices: 2213909--2213940 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2213899 CTCACCCCTA
*
2213909 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2213941 ATGTTAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2217225 original size:20 final size:19
Alignment explanation
Indices: 2217181--2217225 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2217171 AATTTGGTTC
2217181 CAATTAATTTCTTGAGTCT
1 CAATTAATTTCTTGAGTCT
*
2217200 -AGATTACATTTTTTGAGTCT
1 CA-ATTA-ATTTCTTGAGTCT
2217220 CAATTA
1 CAATTA
2217226 TTCCATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 1 0.05
19 4 0.18
20 16 0.73
21 1 0.05
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (19 bp):
CAATTAATTTCTTGAGTCT
Found at i:2226558 original size:17 final size:16
Alignment explanation
Indices: 2226536--2226593 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
2226526 AGAGTGGAAA
2226536 AAAATTTGGAAGGATGG
1 AAAA-TTGGAAGGATGG
* * *
2226553 AAAATTGAAAGGGTTG
1 AAAATTGGAAGGATGG
* *
2226569 AAAACTAGAAGGATGG
1 AAAATTGGAAGGATGG
2226585 AAAA-TGGAA
1 AAAATTGGAA
2226594 AGAAAAAGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (16 bp):
AAAATTGGAAGGATGG
Found at i:2240869 original size:30 final size:31
Alignment explanation
Indices: 2240813--2240875 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
2240803 GGCTCGGCCT
*
2240813 ATTCATCATAATTCATGCAATGTCAAAGAAC
1 ATTCATCATAATTCATGCAATATCAAAGAAC
2240844 ATTCATCATAATTCA-GCAATATCAAAGAAC
1 ATTCATCATAATTCATGCAATATCAAAGAAC
2240874 AT
1 AT
2240876 CTTCAACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (31 bp):
ATTCATCATAATTCATGCAATATCAAAGAAC
Found at i:2248788 original size:22 final size:22
Alignment explanation
Indices: 2248763--2248808 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2248753 GAATTCAATG
* *
2248763 TTCACTTTGGTAATTGAGTTTT
1 TTCAATTTGATAATTGAGTTTT
*
2248785 TTCAATTTGATACTTGAGTTTT
1 TTCAATTTGATAATTGAGTTTT
2248807 TT
1 TT
2248809 TTTTTTGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.15, T:0.57
Consensus pattern (22 bp):
TTCAATTTGATAATTGAGTTTT
Found at i:2249583 original size:113 final size:113
Alignment explanation
Indices: 2249385--2249723 Score: 669
Period size: 113 Copynumber: 3.0 Consensus size: 113
2249375 TTTCAAAATT
*
2249385 TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTGCGGTATTATAAGACATCGTAACTTGAA
1 TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTCCGGTATTATAAGACATCGTAACTTGAA
2249450 TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
66 TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
2249498 TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTCCGGTATTATAAGACATCGTAACTTGAA
1 TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTCCGGTATTATAAGACATCGTAACTTGAA
2249563 TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
66 TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
2249611 TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTCCGGTATTATAAGACATCGTAACTTGAA
1 TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTCCGGTATTATAAGACATCGTAACTTGAA
2249676 TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
66 TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
2249724 CGTCATTTTA
Statistics
Matches: 225, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 225 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (113 bp):
TGGTAGCTTTCTCCAATTTGTTCTTTGAACTTATCTTCCGGTATTATAAGACATCGTAACTTGAA
TTTTTTTTACATTTTTAGATGATGACATGGCACAATTTCAGAATGTCA
Found at i:2250424 original size:25 final size:23
Alignment explanation
Indices: 2250396--2250442 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2250386 ATTTTAAAAT
2250396 CTAAAAAAATAAAGAGACTAAATTC
1 CTAAAAAAAT-AA-AGACTAAATTC
**
2250421 CTAAAAGTATAAAGACTAAATT
1 CTAAAAAAATAAAGACTAAATT
2250443 TCAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (23 bp):
CTAAAAAAATAAAGACTAAATTC
Found at i:2251380 original size:7 final size:7
Alignment explanation
Indices: 2251363--2251395 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
2251353 ATTATTTAAA
2251363 ATATATTT
1 ATAT-TTT
2251371 ATATTTT
1 ATATTTT
2251378 ATATTTT
1 ATATTTT
2251385 ATATTTT
1 ATATTTT
2251392 ATAT
1 ATAT
2251396 ATAGCCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATATTTT
Found at i:2251387 original size:14 final size:15
Alignment explanation
Indices: 2251363--2251397 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
2251353 ATTATTTAAA
2251363 ATATATTTATATTTT
1 ATATATTTATATTTT
2251378 ATAT-TTTATATTTT
1 ATATATTTATATTTT
2251392 ATATAT
1 ATATAT
2251398 AGCCATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATATTTATATTTT
Found at i:2252578 original size:2 final size:2
Alignment explanation
Indices: 2252573--2252604 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2252563 ACACACACAG
*
2252573 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2252605 GAGAGAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2253074 original size:30 final size:31
Alignment explanation
Indices: 2253040--2253107 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
2253030 ACTTAACAGC
* *
2253040 CAATGGCTTAAATAAAAAC-TTCCGATAGTT
1 CAATGACTTAAATAAAAACTTTCCAATAGTT
* * *
2253070 CAATGATTTAAATGAAAACTTTCTAATAGTT
1 CAATGACTTAAATAAAAACTTTCCAATAGTT
2253101 CAATGAC
1 CAATGAC
2253108 CATTTTGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCCAATAGTT
Found at i:2253102 original size:31 final size:30
Alignment explanation
Indices: 2253047--2253106 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
2253037 AGCCAATGGC
*
2253047 TTAAATAAAAACTTCCGATAGTTCAATGAT
1 TTAAATAAAAACTTCCAATAGTTCAATGAT
* *
2253077 TTAAATGAAAACTTTCTAATAGTTCAATGA
1 TTAAATAAAAAC-TTCCAATAGTTCAATGA
2253107 CCATTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
TTAAATAAAAACTTCCAATAGTTCAATGAT
Found at i:2256252 original size:30 final size:30
Alignment explanation
Indices: 2256216--2256280 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
2256206 ACAAAAAAAC
2256216 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
2256246 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
2256276 CTCTC
1 CTCTC
2256281 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:2256453 original size:10 final size:10
Alignment explanation
Indices: 2256438--2256464 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2256428 GTTAATTTTA
2256438 ATTTTTTAAT
1 ATTTTTTAAT
2256448 ATTTTTTAAT
1 ATTTTTTAAT
2256458 ATTTTTT
1 ATTTTTT
2256465 TCTTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:2263555 original size:44 final size:43
Alignment explanation
Indices: 2263456--2263570 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 43
2263446 GGCTCGTACA
* * * *
2263456 ATGCCAACGTCCCAGACGTGGTTTTACATTTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAGTAAATCACAAATCG
* *
2263499 ATACC-ACTGTCCCAGACAG-GGTCTTACACGTAAATCACAAATTG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACA-GTAAATCACAAATCG
*
2263543 ATGCCAACGTCCCAGACGTGATCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
2263571 TGATAACACA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
42 2 0.03
43 22 0.37
44 33 0.56
45 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACAGTAAATCACAAATCG
Found at i:2264019 original size:28 final size:25
Alignment explanation
Indices: 2263988--2264041 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
2263978 TTATATTTGT
2263988 TTTATTATAATAACTTTATAATATATTA
1 TTTATTAT-A-AACTTTATAAT-TATTA
*
2264016 TTTATTATAACCTTTATAATTATTA
1 TTTATTATAAACTTTATAATTATTA
2264041 T
1 T
2264042 AAAAACTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 10 0.40
27 1 0.04
28 8 0.32
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTATAAACTTTATAATTATTA
Found at i:2264020 original size:25 final size:25
Alignment explanation
Indices: 2263992--2264041 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
2263982 ATTTGTTTTA
2263992 TTATAATAA-CTTTATAATATATTAT
1 TTATAATAACCTTTATAAT-TATTAT
*
2264017 TTATTATAACCTTTATAATTATTAT
1 TTATAATAACCTTTATAATTATTAT
2264042 AAAAACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATAATAACCTTTATAATTATTAT
Found at i:2264904 original size:124 final size:125
Alignment explanation
Indices: 2264681--2264952 Score: 397
Period size: 124 Copynumber: 2.2 Consensus size: 125
2264671 TAAGGCCAAA
2264681 CAGGAACTACTGTA-AAAAAAGAGCATCCACGTGGAAGCTTTTTTCATCAATTTTGCTGACAATG
1 CAGGAACTACTGTAGAAAAAA-AGCATCCACGTGGAAGCTTTTTTCATCAA-TTTGCTGACAATG
*
2264745 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTATCAAAATTATTTTTT
64 CATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTATCAAAATTATTTTTT
* * ** * * *
2264807 TAGGAACTACTGTAGAAAAAAAGCGTTTACGT-GAGAGCTTTTTTCATTAA-TTGCTGACAGTGT
1 CAGGAACTACTGTAGAAAAAAAGCATCCACGTGGA-AGCTTTTTTCATCAATTTGCTGACAATGC
* *
2264870 ATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTT
65 ATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTATCAAAATTATTTTTT
*
2264931 CAGGAATTACTGTAGAAAAAAA
1 CAGGAACTACTGTAGAAAAAAA
2264953 AATCCTTATT
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
124 89 0.67
125 2 0.02
126 35 0.27
127 6 0.05
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAAAGCATCCACGTGGAAGCTTTTTTCATCAATTTGCTGACAATGCA
TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTATCAAAATTATTTTTT
Found at i:2265096 original size:34 final size:34
Alignment explanation
Indices: 2265027--2265215 Score: 132
Period size: 34 Copynumber: 5.5 Consensus size: 34
2265017 AAAAAAAGCT
* * * *
2265027 AAACCTAATTTAACTAATTTTTTTGAAAACTCTA
1 AAACCTAATTTAATTAATTTATTTAAAAACCCTA
* * *
2265061 AACCCTAAGTTAATTAATTTATTTAAAACCCCTA
1 AAACCTAATTTAATTAATTTATTTAAAAACCCTA
** ** * ***
2265095 AAACCTAAACCTAAACACAAAGTTA-TTAAAAAAAATA
1 AAACCT-AA--TTTA-ATTAATTTATTTAAAAACCCTA
*
2265132 AAACCTAATTTAATTAATTT-TATTAAAAACTCTA
1 AAACCTAATTTAATTAATTTAT-TTAAAAACCCTA
* **
2265166 AACCCTAAGCTAATTAATTTA-TTAAAAACCCCTA
1 AAACCTAATTTAATTAATTTATTTAAAAA-CCCTA
2265200 AAACCTAATTTAATTA
1 AAACCTAATTTAATTA
2265216 TTAAAAAAAT
Statistics
Matches: 114, Mismatches: 33, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
33 12 0.11
34 77 0.68
35 2 0.02
36 2 0.02
37 15 0.13
38 6 0.05
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (34 bp):
AAACCTAATTTAATTAATTTATTTAAAAACCCTA
Found at i:2265144 original size:105 final size:106
Alignment explanation
Indices: 2264984--2265207 Score: 339
Period size: 105 Copynumber: 2.1 Consensus size: 106
2264974 TTTCCCTAAA
*
2264984 CCCT-AAACCTAGACCTAAACACAACATTATTTAAAAAAAAGCTAAACCTAATTTAACTAATTTT
1 CCCTAAAACCTAAACCTAAACACAACATTATTTAAAAAAAA-CTAAACCTAATTTAACTAATTTT
* * * *
2265048 TTTGAAAACTCTAAACCCTAAGTTAATTAATTTATTTAAAAC
65 ATTAAAAACTCTAAACCCTAAGCTAATTAATTTATTAAAAAC
*
2265090 CCCTAAAACCTAAACCTAAACACAA-AGTTA-TTAAAAAAAA-TAAAACCTAATTTAATTAATTT
1 CCCTAAAACCTAAACCTAAACACAACA-TTATTTAAAAAAAACT-AAACCTAATTTAACTAATTT
2265152 TATTAAAAACTCTAAACCCTAAGCTAATTAATTTATTAAAAAC
64 TATTAAAAACTCTAAACCCTAAGCTAATTAATTTATTAAAAAC
2265195 CCCTAAAACCTAA
1 CCCTAAAACCTAA
2265208 TTTAATTATT
Statistics
Matches: 109, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
104 1 0.01
105 71 0.65
106 15 0.14
107 22 0.20
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (106 bp):
CCCTAAAACCTAAACCTAAACACAACATTATTTAAAAAAAACTAAACCTAATTTAACTAATTTTA
TTAAAAACTCTAAACCCTAAGCTAATTAATTTATTAAAAAC
Found at i:2265180 original size:30 final size:29
Alignment explanation
Indices: 2265142--2265265 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 29
2265132 AAACCTAATT
*
2265142 TAATTAATTTTATTAAAAACTCTAAACCC
1 TAATTAATTTTATTAAAAACCCTAAACCC
* *
2265171 TAAGCTAATTAATTTATTAAAAACCCCTAAAACC
1 TAA-TTAA-T--TTTATTAAAAA-CCCTAAACCC
* **
2265205 TAATTTAATTATTA-AAAAAATACTAAACCC
1 TAA-TTAATT-TTATTAAAAACCCTAAACCC
* *
2265235 TAATTTATTTT-TTAAAATCCCTAAACCC
1 TAATTAATTTTATTAAAAACCCTAAACCC
2265263 TAA
1 TAA
2265266 ACCTAAATTA
Statistics
Matches: 74, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
28 17 0.23
29 8 0.11
30 13 0.18
31 7 0.09
32 3 0.04
33 12 0.16
34 14 0.19
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (29 bp):
TAATTAATTTTATTAAAAACCCTAAACCC
Found at i:2267727 original size:130 final size:132
Alignment explanation
Indices: 2267364--2267751 Score: 430
Period size: 141 Copynumber: 2.9 Consensus size: 132
2267354 GTTATGCGTT
* * * *
2267364 GTTTGAATAATACACTGTTGTGGTTTACATAATTGGGATGATGGTAGCTGCAGAATGGATAATAA
1 GTTTGAATAATATACTGTTGTGGTTAACATAATTGGGATGATGGTAGCTGCAGAATGGATATTGA
* ** * * *
2267429 TTTGGGTTTTGATCCCAAGTCACTGATTTACCATATATTTTTATTACATACACATACATGCATGC
66 TTTGGGGTTTGAT-CCAAGTCACTGATTTACCAT-T-TTTTT-TT-TGT-TATATACATG-ATAC
2267494 ATACATACATA
124 ATA-ATACA-A
* * *
2267505 GTTTGAATAATATACCGTTGTGG-TATACGTAATTGGGATGAGGGTAGCTGCAGAATGGATATTG
1 GTTTGAATAATATACTGTTGTGGTTA-ACATAATTGGGATGATGGTAGCTGCAGAATGGATATTG
2267569 ATTT-GGGTCTTGATTCCAAGTCACTGATTTACC-TTTTTTTTTTGTTATATACATG-TACAT-A
65 ATTTGGGGT-TTGA-TCCAAGTCACTGATTTACCATTTTTTTTTTGTTATATACATGATACATAA
2267630 TAC-A
128 TACAA
* *
2267634 GTTTGAATAATATACTTTTGTGGGTTAACAT-ATCTGGGATGATGGTAGCTGCAGAATGGACATT
1 GTTTGAATAATATACTGTTGT-GGTTAACATAAT-TGGGATGATGGTAGCTGCAGAATGGATATT
* * *
2267698 GGTTTGGGGTTTGAGTCCAAGTCACTGATTCACCATTTTTTTCTTGTTATATAC
64 GATTTGGGGTTTGA-TCCAAGTCACTGATTTACCATTTTTTTTTTGTTATATAC
2267752 GTATATGTGT
Statistics
Matches: 217, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
129 22 0.10
130 59 0.27
131 28 0.13
133 4 0.02
135 8 0.04
136 1 0.00
137 2 0.01
138 5 0.02
139 1 0.00
140 5 0.02
141 81 0.37
142 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.39
Consensus pattern (132 bp):
GTTTGAATAATATACTGTTGTGGTTAACATAATTGGGATGATGGTAGCTGCAGAATGGATATTGA
TTTGGGGTTTGATCCAAGTCACTGATTTACCATTTTTTTTTTGTTATATACATGATACATAATAC
AA
Found at i:2275212 original size:31 final size:29
Alignment explanation
Indices: 2275155--2275212 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
2275145 ATAAATTTAA
*
2275155 AATTTAGTCTCTATATTTTTATTTTTAGG
1 AATTTAGTCTCTATATTTTTAATTTTAGG
2275184 AATTTAGTCACTCTA-ATTTTTAGATTTTA
1 AATTTAGT--CTCTATATTTTTA-ATTTTA
2275213 AAATTTAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 7 0.28
31 10 0.40
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (29 bp):
AATTTAGTCTCTATATTTTTAATTTTAGG
Found at i:2275218 original size:30 final size:28
Alignment explanation
Indices: 2275150--2275219 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
2275140 TCTTTATAAA
*
2275150 TTTAAAATTTAGTCTCTATATTTTTATT
1 TTTAAAATTTAGTCTCTATATTTTTAAT
*
2275178 TTTAGGAATTTAGTCACTCTA-ATTTTTAGAT
1 TTTA-AAATTTAGT--CTCTATATTTTTA-AT
2275209 TTTAAAATTTA
1 TTTAAAATTTA
2275220 AGCCCAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 4 0.11
29 8 0.23
30 13 0.37
31 10 0.29
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.54
Consensus pattern (28 bp):
TTTAAAATTTAGTCTCTATATTTTTAAT
Found at i:2276491 original size:31 final size:31
Alignment explanation
Indices: 2276450--2276522 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
2276440 AACTTTTCGA
*
2276450 AATTGAGTGACCAAAACGTAAACTTACTAAT
1 AATTTAGTGACCAAAACGTAAACTTACTAAT
* *
2276481 AATTTTGTGACCAAAATGTAAACTTACTAAT
1 AATTTAGTGACCAAAACGTAAACTTACTAAT
2276512 AATTTAGTGAC
1 AATTTAGTGAC
2276523 ATTAGGTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (31 bp):
AATTTAGTGACCAAAACGTAAACTTACTAAT
Found at i:2278032 original size:31 final size:31
Alignment explanation
Indices: 2277991--2278049 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2277981 GTCATTGAAC
*
2277991 TATTCGAAAGTT-TTCATTTAAGTCACCAAAA
1 TATTCAAAAGTTCTT-ATTTAAGTCACCAAAA
2278022 TATTCAAAAGTTCTTATTTAAGTCACCA
1 TATTCAAAAGTTCTTATTTAAGTCACCA
2278050 GACTGTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (31 bp):
TATTCAAAAGTTCTTATTTAAGTCACCAAAA
Found at i:2279039 original size:187 final size:189
Alignment explanation
Indices: 2278704--2279079 Score: 738
Period size: 187 Copynumber: 2.0 Consensus size: 189
2278694 AAAAATAATA
2278704 TTTTAATATTTTAAATTAATTTTTAGTTTTTATTTTTAATTTATTCGAAAAAAATTCCAATTTTA
1 TTTTAATATTTTAAATTAATTTTTAGTTTTTATTTTTAATTTATTCGAAAAAAATTCCAATTTTA
2278769 AATTTTAAAATAAAATGGTTTTATTTTTTATTTTTTATTGTTACATTTAAAAGTAAATTATAATC
66 AATTTTAAAATAAAATGGTTTTATTTTTTATTTTTTATTGTTACATTTAAAAGTAAATTATAATC
2278834 TCATTCAAGCTAATAAATAATTTTAAAATTGATATTTGCATAATATTTATGCGCAGGTC
131 TCATTCAAGCTAATAAATAATTTTAAAATTGATATTTGCATAATATTTATGCGCAGGTC
2278893 TTTTAATA-TTTAAATTAA-TTTTAGTTTTTATTTTTAATTTATTCGAAAAAAATTCCAATTTTA
1 TTTTAATATTTTAAATTAATTTTTAGTTTTTATTTTTAATTTATTCGAAAAAAATTCCAATTTTA
2278956 AATTTTAAAATAAAATGGTTTTATTTTTTATTTTTTATTGTTACATTTAAAAGTAAATTATAATC
66 AATTTTAAAATAAAATGGTTTTATTTTTTATTTTTTATTGTTACATTTAAAAGTAAATTATAATC
2279021 TCATTCAAGCTAATAAATAATTTTAAAATTGATATTTGCATAATATTTATGCGCAGGTC
131 TCATTCAAGCTAATAAATAATTTTAAAATTGATATTTGCATAATATTTATGCGCAGGTC
2279080 GAAGCTATAT
Statistics
Matches: 187, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
187 169 0.90
188 10 0.05
189 8 0.04
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.49
Consensus pattern (189 bp):
TTTTAATATTTTAAATTAATTTTTAGTTTTTATTTTTAATTTATTCGAAAAAAATTCCAATTTTA
AATTTTAAAATAAAATGGTTTTATTTTTTATTTTTTATTGTTACATTTAAAAGTAAATTATAATC
TCATTCAAGCTAATAAATAATTTTAAAATTGATATTTGCATAATATTTATGCGCAGGTC
Found at i:2280856 original size:21 final size:21
Alignment explanation
Indices: 2280832--2280878 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2280822 CTTATGGCAT
*
2280832 ATTTTAACCTTTATTTATTT-A
1 ATTTTAACCTTGATTT-TTTGA
*
2280853 ATTTAAACCTTGATTTTTTGA
1 ATTTTAACCTTGATTTTTTGA
2280874 ATTTT
1 ATTTT
2280879 GCCCCAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTAACCTTGATTTTTTGA
Found at i:2286577 original size:31 final size:31
Alignment explanation
Indices: 2286519--2286579 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2286509 TTATTAGGCC
*
2286519 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTTAAATAGTTT
* *
2286550 AGTGACTTAAATGAAGA-TTTTCAAATAGTT
1 AGTGACTTAAATAAAAACTTTT-AAATAGTT
2286580 CAATGACCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTAAATAGTTT
Done.