Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4364108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 17
Found at i:1887486 original size:41 final size:41
Alignment explanation
Indices: 1887400--1887534 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
1887390 GAATAAGTAA
** *
1887400 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
1887441 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
1887482 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
1887523 TTCGCAACGCGA
1 ATCGCAACGCGA
1887535 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:1887487 original size:20 final size:20
Alignment explanation
Indices: 1887462--1887555 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
1887452 AATTGGGAAA
*
1887462 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
1887482 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
1887503 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
1887523 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
* *
1887543 TTCGCAACACGAT
1 ATCGCAACGCGAT
1887556 TTACATAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.70
21 12 0.20
22 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:1887771 original size:22 final size:22
Alignment explanation
Indices: 1887743--1887786 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1887733 CACTCTCTCA
1887743 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1887765 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1887787 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1889310 original size:18 final size:18
Alignment explanation
Indices: 1889289--1889335 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
1889279 TCCACTTCGG
*
1889289 GAGCCATCA-CCTCGCCCA
1 GAGCCATCATCC-CACCCA
*
1889307 GAGCTATCATCCCACCCA
1 GAGCCATCATCCCACCCA
1889325 GAGCCATCATC
1 GAGCCATCATC
1889336 TGATCGACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.26, C:0.45, G:0.15, T:0.15
Consensus pattern (18 bp):
GAGCCATCATCCCACCCA
Found at i:1889853 original size:19 final size:19
Alignment explanation
Indices: 1889802--1889854 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1889792 AGTTACTTTC
*
1889802 GCAACACGAAATGACTATA
1 GCAACGCGAAATGACTATA
* *
1889821 GCAACGCGGAAATGGCTATC
1 GCAACGC-GAAATGACTATA
*
1889841 GCAATGCGAAATGA
1 GCAACGCGAAATGA
1889855 AATCACAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.15
Consensus pattern (19 bp):
GCAACGCGAAATGACTATA
Found at i:1889877 original size:14 final size:14
Alignment explanation
Indices: 1889854--1889908 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1889844 ATGCGAAATG
*
1889854 AAATCACAACGACA
1 AAATCGCAACGACA
*
1889868 AAATCGCAACGCAAAA
1 AAATCGCAACG--ACA
1889884 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
1889900 AAATCGCAA
1 AAATCGCAA
1889909 AAAGCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 19 0.56
16 4 0.12
18 11 0.32
ACGTcount: A:0.53, C:0.25, G:0.13, T:0.09
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:1889885 original size:32 final size:32
Alignment explanation
Indices: 1889838--1889908 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1889828 GGAAATGGCT
* *
1889838 ATCGCAATGCGAAATGAAATCACAACGACAAA
1 ATCGCAACGCAAAATGAAATCACAACGACAAA
*
1889870 ATCGCAACGCAAAATGAAATCGCAACGACAAA
1 ATCGCAACGCAAAATGAAATCACAACGACAAA
1889902 ATCGCAA
1 ATCGCAA
1889909 AAAGCAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.11
Consensus pattern (32 bp):
ATCGCAACGCAAAATGAAATCACAACGACAAA
Found at i:1889891 original size:18 final size:19
Alignment explanation
Indices: 1889868--1889903 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1889858 CACAACGACA
1889868 AAATCGCAACG-CAAAATG
1 AAATCGCAACGACAAAATG
1889886 AAATCGCAACGACAAAAT
1 AAATCGCAACGACAAAAT
1889904 CGCAAAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.11
Consensus pattern (19 bp):
AAATCGCAACGACAAAATG
Found at i:1889959 original size:13 final size:14
Alignment explanation
Indices: 1889941--1889997 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1889931 TTGTGTTTCG
1889941 CGTTGCGA-TTTGT
1 CGTTGCGATTTTGT
*
1889954 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1889970 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
1889986 CGTTGCGATTTT
1 CGTTGCGATTTT
1889998 ATTTCGCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 8 0.22
14 14 0.38
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1889961 original size:32 final size:31
Alignment explanation
Indices: 1889925--1890012 Score: 131
Period size: 32 Copynumber: 2.8 Consensus size: 31
1889915 AAATTTGCAA
*
1889925 TGCGATTTGTGTTTCGCGTTGCGATTTGTCGT
1 TGCGATTT-TATTTCGCGTTGCGATTTGTCGT
*
1889957 TGCGATTTCATTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTATTTCGCGTTGCGA-TTTGTCGT
*
1889989 TGCGATTTTATTTCGCATTGCGAT
1 TGCGATTTTATTTCGCGTTGCGAT
1890013 AGCCATTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 14 0.27
32 37 0.73
ACGTcount: A:0.10, C:0.17, G:0.26, T:0.47
Consensus pattern (31 bp):
TGCGATTTTATTTCGCGTTGCGATTTGTCGT
Found at i:1889975 original size:18 final size:18
Alignment explanation
Indices: 1889954--1890034 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
1889944 TGCGATTTGT
1889954 CGTTGCGATTTCATTTCG
1 CGTTGCGATTTCATTTCG
*
1889972 CGTTGCGATTT--TGT--
1 CGTTGCGATTTCATTTCG
*
1889986 CGTTGCGATTTTATTTCG
1 CGTTGCGATTTCATTTCG
* **
1890004 CATTGCGATAGCCATTTCCG
1 CGTTGCGAT-TTCATTT-CG
1890024 CGTTGCGATTT
1 CGTTGCGATTT
1890035 TAAGTTTCGT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
14 11 0.23
16 4 0.08
18 19 0.40
19 4 0.08
20 10 0.21
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.43
Consensus pattern (18 bp):
CGTTGCGATTTCATTTCG
Found at i:1892030 original size:19 final size:19
Alignment explanation
Indices: 1891976--1892125 Score: 159
Period size: 19 Copynumber: 8.6 Consensus size: 19
1891966 AAAACAGACT
*
1891976 ATCGCAACGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
1891994 ATCGCAATGCGAAATGAAAA
1 ATCGCAATGCGAAATG-AAA
*
1892014 ACCGCAATGCG-AATG-AA
1 ATCGCAATGCGAAATGAAA
*
1892031 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
1892050 ATCGCAA--CG--A-G-AA
1 ATCGCAATGCGAAATGAAA
1892063 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1892082 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
1892100 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
1892114 ATCGCAATGCGA
1 ATCGCAATGCGA
1892126 TTTTCATTTC
Statistics
Matches: 113, Mismatches: 5, Indels: 29
0.77 0.03 0.20
Matches are distributed among these distances:
13 10 0.09
14 10 0.09
15 3 0.03
16 4 0.04
17 15 0.13
18 28 0.25
19 31 0.27
20 12 0.11
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1892069 original size:32 final size:35
Alignment explanation
Indices: 1891976--1892106 Score: 169
Period size: 37 Copynumber: 3.7 Consensus size: 35
1891966 AAAACAGACT
1891976 ATCGCAACGCGAAATGAAATCGCAATGCGAAATGAAAA
1 ATCGCAA-GCG-AATGAAATCGCAATGCGAAAT-AAAA
*
1892014 ACCGCAATGCGAATGAAATCGCAATGCGAAATAAAA
1 ATCGCAA-GCGAATGAAATCGCAATGCGAAATAAAA
*
1892050 ATCGCAA-CG-A-GAAATCGCAATGCGAAATGAAA
1 ATCGCAAGCGAATGAAATCGCAATGCGAAATAAAA
1892082 ATCGCAATGCGAAATGAAATCGCAA
1 ATCGCAA-GCG-AATGAAATCGCAA
1892107 CGAGAAAATC
Statistics
Matches: 84, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
32 28 0.33
33 1 0.01
34 4 0.05
36 11 0.13
37 31 0.37
38 9 0.11
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (35 bp):
ATCGCAAGCGAATGAAATCGCAATGCGAAATAAAA
Found at i:1892144 original size:51 final size:51
Alignment explanation
Indices: 1892016--1892125 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
1892006 AATGAAAAAC
1892016 CGCAATGCG-AATG-AAATCGCAATGCGAAATAAAAATCGCAACGAGAAAT
1 CGCAATGCGAAATGAAAATCGCAATGCGAAATAAAAATCGCAACGAGAAAT
*
1892065 CGCAATGCGAAATGAAAATCGCAATGCGAAAT-GAAATCGCAACGAGAAAAT
1 CGCAATGCGAAATGAAAATCGCAATGCGAAATAAAAATCGCAACGAG-AAAT
1892116 CGCAATGCGA
1 CGCAATGCGA
1892126 TTTTCATTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
49 9 0.16
50 17 0.30
51 31 0.54
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (51 bp):
CGCAATGCGAAATGAAAATCGCAATGCGAAATAAAAATCGCAACGAGAAAT
Found at i:1892199 original size:20 final size:20
Alignment explanation
Indices: 1892149--1892199 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1892139 TTGCGATTTT
*
1892149 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCG
1892169 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
1892189 CGTTGCGATAG
1 CGTTGCGATAG
1892200 TCAAATGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:1893232 original size:24 final size:24
Alignment explanation
Indices: 1893205--1893258 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1893195 GTATTCGAAA
* *
1893205 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
1893229 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
1893253 TTTGAT
1 TTTGAT
1893259 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:1895119 original size:102 final size:101
Alignment explanation
Indices: 1894922--1895124 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 101
1894912 CTGAAAAAAA
1894922 AGATAACGAAAACGTGTTGTGAGTCAACGTCATGGAGAGTTGAACCATGTTCAACACTTTGTTTG
1 AGATAACGAAAACGTGTTGTGAGTCAACGTCATGGAGAGTTGAACCATGTTCAACACTTTGTTTG
1894987 AAGTACTGGATAATAACTTAAATGGGCTTGTCGATC
66 AAGTACTGGATAATAACTTAAATGGGCTTGTCGATC
1895023 AGATAACG-AAACGTGTTGTGAAGTCAACGTCATGGAGAGTTGAACCATGTTCAAACACTTTGTT
1 AGATAACGAAAACGTGTTGTG-AGTCAACGTCATGGAGAGTTGAACCATGTTC-AACACTTTGTT
1895087 TGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATC
64 TGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATC
1895125 TAAATGCAAG
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
100 12 0.12
101 39 0.39
102 49 0.49
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (101 bp):
AGATAACGAAAACGTGTTGTGAGTCAACGTCATGGAGAGTTGAACCATGTTCAACACTTTGTTTG
AAGTACTGGATAATAACTTAAATGGGCTTGTCGATC
Found at i:1895819 original size:19 final size:19
Alignment explanation
Indices: 1895797--1895888 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
1895787 GGAAATTACT
1895797 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1895816 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1895830 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1895849 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
1895863 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1895882 ATCGCAA
1 ATCGCAA
1895889 CGTGAATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 18 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 25 0.45
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1895897 original size:33 final size:33
Alignment explanation
Indices: 1895798--1895897 Score: 150
Period size: 33 Copynumber: 3.0 Consensus size: 33
1895788 GAAATTACTA
* *
1895798 TCGCAATGCGAAATGAAAATCGCAACGAGAGA-A
1 TCGCAATGCGAAATGAAAATCGCAACGTGA-ATT
1895831 TCGCAATGCGAAATGAAAATCGCAACGCT-AATT
1 TCGCAATGCGAAATGAAAATCGCAACG-TGAATT
1895864 TCGCAATGCGAAATGAAAATCGCAACGTGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGTGAATT
1895897 T
1 T
1895898 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
32 2 0.03
33 60 0.97
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGTGAATT
Found at i:1896090 original size:13 final size:14
Alignment explanation
Indices: 1896074--1896109 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1896064 CATCAATTAA
1896074 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
1896087 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1896101 ACAAATCAA
1 ACAAATCAA
1896110 TTAAACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1897701 original size:33 final size:37
Alignment explanation
Indices: 1897618--1897742 Score: 125
Period size: 39 Copynumber: 3.4 Consensus size: 37
1897608 TCTTTTGGTT
* *
1897618 GAAATGAAAATCGCAA-CGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACCG-CAATGAAAATCGCAACGC
* ** * *
1897655 GAAAGGACTATCGCGA-C-C-A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACCGCAATGAAAATCGCAACGC
1897688 GAAATGAAAATCGCAACCGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACCGC--AATGAAAATCGCAACGC
1897727 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1897743 TGCGATTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
33 25 0.35
34 2 0.03
35 1 0.01
37 13 0.18
38 1 0.01
39 29 0.41
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (37 bp):
GAAATGAAAATCGCAACCGCAATGAAAATCGCAACGC
Found at i:1897710 original size:20 final size:19
Alignment explanation
Indices: 1897618--1897747 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
1897608 TCTTTTGGTT
1897618 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1897635 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
* ** *
1897655 GAAAGGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
1897673 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1897688 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
1897708 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1897727 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1897746 GA
1 GA
1897748 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 9, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
14 10 0.11
15 2 0.02
17 2 0.02
18 15 0.16
19 44 0.46
20 22 0.23
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1898375 original size:20 final size:20
Alignment explanation
Indices: 1898282--1898375 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1898272 CGCTATGTAA
* * *
1898282 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
1898302 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * *
1898322 ATCTCATTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
1898343 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
1898363 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1898376 TTTCCCAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 13 0.21
22 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:1898393 original size:21 final size:21
Alignment explanation
Indices: 1898364--1898456 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
1898354 ATAGTAAGTA
1898364 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1898385 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1898405 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1898426 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1898446 TCGCATTGCGA
1 TCGCATTGCGA
1898457 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:1898394 original size:41 final size:41
Alignment explanation
Indices: 1898303--1898437 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
1898293 AAAGTCAGTA
* * ** *
1898303 TCGCGTTGCGAAAGTAAGTATCTCATTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
1898343 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
1898385 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
1898426 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1898438 TTACTTATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
40 4 0.05
41 76 0.93
42 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:1898438 original size:41 final size:41
Alignment explanation
Indices: 1898364--1898456 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1898354 ATAGTAAGTA
1898364 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1898405 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1898446 TCGCATTGCGA
1 TCGCATTGCGA
1898457 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1904826 original size:21 final size:20
Alignment explanation
Indices: 1904740--1904896 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
1904730 AAATGACCAA
**
1904740 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1904759 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1904779 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1904799 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
1904820 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
1904840 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1904860 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1904881 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1904897 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1904849 original size:41 final size:41
Alignment explanation
Indices: 1904799--1904896 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
1904789 AATCAGTTTC
* *
1904799 CAAAATCGCAACGCGATTCTT-GAAAATCGCAATGCG-ATAGT
1 CAAAATCGCAACGCGATT-TTACAAAATCGCAACGCGAATA-T
* **
1904840 CAAATTCGCATTGCGATTTTACAAAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTTACAAAATCGCAACGCGAATAT
*
1904881 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1904897 ACACATAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 41 0.89
42 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
CAAAATCGCAACGCGATTTTACAAAATCGCAACGCGAATAT
Found at i:1904906 original size:20 final size:20
Alignment explanation
Indices: 1904883--1905056 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
1904873 GCGAATATGA
1904883 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
1904903 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1904923 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
1904943 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
1904963 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
1904983 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
1905003 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
1905023 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
1905044 AAATCGCAACGCG
1 AAATCGCAACGCG
1905057 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:1904910 original size:61 final size:61
Alignment explanation
Indices: 1904739--1904915 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 61
1904729 AAAATGACCA
* * * *
1904739 ACAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATCCCCAGAATCGCAAAT-C-AGTTT
1 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGC-AATGCGAGTTT
* * * * ** * * *
1904798 CCAAAATCGCAACGCGATTCTTGAAAATCGCAATGCGATAGTCAAATTCGCATTGCGATTTT
1 ACAAAATCGCAACGCGAAT-ATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTTT
1904860 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGA-ACACATAAATCGCAATGCG
1 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACA-AAATCGCAATGCG
1904916 TATCCGTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
59 16 0.17
60 5 0.05
61 51 0.55
62 21 0.23
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (61 bp):
ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTTT
Found at i:1904927 original size:40 final size:39
Alignment explanation
Indices: 1904863--1905057 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
1904853 CGATTTTACA
* ** *
1904863 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
1904903 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
1904943 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
1904983 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
1905023 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1905058 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:1904948 original size:60 final size:60
Alignment explanation
Indices: 1904863--1905056 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1904853 CGATTTTACA
* ** * *
1904863 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
1904923 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
1904983 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
1905044 AAATCGCAACGCG
1 AAATCGCAACGCG
1905057 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:1905470 original size:33 final size:33
Alignment explanation
Indices: 1905431--1905501 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1905421 TTCACTTAGA
1905431 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1905464 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1905497 TTTCA
1 TTTCA
1905502 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1905638 original size:41 final size:41
Alignment explanation
Indices: 1905580--1905657 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
1905570 TTGCAGAAGA
*
1905580 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
1905621 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1905658 CGCAAAGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:1905654 original size:21 final size:21
Alignment explanation
Indices: 1905581--1905656 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1905571 TGCAGAAGAG
*
1905581 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
1905602 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
1905622 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
1905643 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
1905657 TCGCAAAGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:1905660 original size:14 final size:14
Alignment explanation
Indices: 1905641--1905697 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1905631 GAGAAATGAA
1905641 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1905655 AATCGCAAAGCGATATGAA
1 AATCGC-AA-CG--A-GAG
1905674 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1905688 AATCGCAACG
1 AATCGCAACG
1905698 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 8 0.22
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1905674 original size:33 final size:33
Alignment explanation
Indices: 1905636--1905700 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1905626 AACGAGAGAA
1905636 ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
1 ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
*
1905669 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
1 ATGAAAATCGCAACGAGAGAATCGCAAAGCGA
1905701 AACCAAAATC
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:0.45, C:0.20, G:0.25, T:0.11
Consensus pattern (33 bp):
ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
Found at i:1905709 original size:33 final size:33
Alignment explanation
Indices: 1905639--1905713 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
1905629 GAGAGAAATG
* **
1905639 AAAATCGCAACGAGAGAATCGCAAAGCGATATG
1 AAAATCGCAACGAGAGAATCGCAAAGCGAAACC
*
1905672 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAAAGCGAAACC
1905705 AAAATCGCA
1 AAAATCGCA
1905714 TTGCGATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAAAGCGAAACC
Found at i:1905749 original size:14 final size:15
Alignment explanation
Indices: 1905730--1905836 Score: 69
Period size: 14 Copynumber: 6.7 Consensus size: 15
1905720 TTTCATTTCG
1905730 CGTTGCGATTC-TCT
1 CGTTGCGATTCTTCT
1905744 CGTTGCGATT-TTCATTT
1 CGTTGCGATTCTTC---T
*
1905761 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC--TTCT
1905780 CGTTGCGATTC-TCT
1 CGTTGCGATTCTTCT
*
1905794 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC--TTCT
1905813 CGTTGCGATTC-TCT
1 CGTTGCGATTCTTCT
1905827 CGTTGCGATT
1 CGTTGCGATT
1905837 TTCATTTCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 28
0.70 0.04 0.26
Matches are distributed among these distances:
14 34 0.45
16 3 0.04
17 15 0.20
19 20 0.27
22 3 0.04
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.46
Consensus pattern (15 bp):
CGTTGCGATTCTTCT
Found at i:1905785 original size:19 final size:19
Alignment explanation
Indices: 1905709--1905822 Score: 110
Period size: 17 Copynumber: 6.7 Consensus size: 19
1905699 GAAACCAAAA
*
1905709 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
1905727 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1905741 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1905760 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1905777 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1905791 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1905810 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1905823 CTCTCGTTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.25
16 6 0.08
17 23 0.29
18 10 0.12
19 21 0.26
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1905788 original size:50 final size:51
Alignment explanation
Indices: 1905714--1905822 Score: 195
Period size: 50 Copynumber: 2.2 Consensus size: 51
1905704 CAAAATCGCA
1905714 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTT-CG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCCG
1905763 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTC-CG
1905815 TTGCGATT
1 TTGCGATT
1905823 CTCTCGTTGC
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
49 6 0.11
50 41 0.72
52 10 0.18
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (51 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCCG
Found at i:1905802 original size:33 final size:33
Alignment explanation
Indices: 1905760--1905844 Score: 170
Period size: 33 Copynumber: 2.6 Consensus size: 33
1905750 GATTTTCATT
1905760 TCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
1 TCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
1905793 TCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
1 TCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
1905826 TCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
1905845 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.09, C:0.24, G:0.20, T:0.47
Consensus pattern (33 bp):
TCGTTGCGATTTTCATTTCGCGTTGCGATTCTC
Found at i:1907782 original size:93 final size:93
Alignment explanation
Indices: 1907451--1907823 Score: 709
Period size: 93 Copynumber: 4.1 Consensus size: 93
1907441 TAGATTGCTT
*
1907451 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1907516 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1907543 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1907608 TTTGTCTTTGTTTTG--TTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1907634 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1907699 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1907727 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1907792 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1907819 AGTAA
1 AGTAA
1907824 TGCAATCCAT
Statistics
Matches: 277, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
91 90 0.32
92 85 0.31
93 102 0.37
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1907800 original size:184 final size:183
Alignment explanation
Indices: 1907451--1907823 Score: 703
Period size: 184 Copynumber: 2.0 Consensus size: 183
1907441 TAGATTGCTT
1907451 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1907516 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
1907581 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTG-TTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGCTTTTGGTTG-A
*
1907634 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1907699 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1907764 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTG-CTTTTGGTTGA
1907819 AGTAA
1 AGTAA
1907824 TGCAATCCAT
Statistics
Matches: 186, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
183 81 0.44
184 90 0.48
185 6 0.03
186 9 0.05
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGCTTTTGGTTGA
Found at i:1907910 original size:19 final size:19
Alignment explanation
Indices: 1907870--1907998 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1907860 ATAGTTACTT
* *
1907870 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1907890 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1907909 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1907928 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1907942 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* *
1907961 TCGCAA--CG--A-TAAGA
1 TCGCAACGCGAAACCAAAA
1907975 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1907994 TCGCA
1 TCGCA
1907999 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 45 0.51
20 13 0.15
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1907949 original size:33 final size:32
Alignment explanation
Indices: 1907906--1907998 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
1907896 CGCGAAACCA
**
1907906 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
1907938 AGAATCGCAACGCGAAACCAAAATCGCAACGAT
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1907971 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1907999 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1907996 original size:52 final size:52
Alignment explanation
Indices: 1907870--1907998 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 52
1907860 ATAGTTACTT
** *
1907870 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
* * * *
1907922 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGATAAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAA-A
*
1907975 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1907999 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.69
53 2 0.03
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
Found at i:1908016 original size:19 final size:19
Alignment explanation
Indices: 1907994--1908128 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1907984 GAAACCAAAA
*
1907994 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1908013 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1908029 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1908046 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1908062 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1908079 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1908098 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1908118 TCGTGTTGCGA
1 TCGCGTTGCGA
1908129 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1908035 original size:14 final size:14
Alignment explanation
Indices: 1908016--1908072 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1908006 TTTCATTTCG
1908016 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1908030 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1908047 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1908063 CGTTGCGATT
1 CGTTGCGATT
1908073 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1908041 original size:33 final size:33
Alignment explanation
Indices: 1907999--1908091 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1907989 CAAAATCGCA
*
1907999 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1908032 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1908065 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1908092 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1910048 original size:14 final size:14
Alignment explanation
Indices: 1910029--1910064 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1910019 ATTGTTTAAT
1910029 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1910043 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1910057 TGATTTGT
1 TGATTTGT
1910065 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1910187 original size:19 final size:19
Alignment explanation
Indices: 1910171--1910268 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1910161 AAAAATGACT
1910171 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1910190 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1910209 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1910223 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1910242 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1910262 ATCGCAA
1 ATCGCAA
1910269 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1910300 original size:53 final size:53
Alignment explanation
Indices: 1910171--1910286 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
1910161 AAAAATGACT
1910171 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1910223 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1910276 ATCGCAATGCG
1 ATCGCAATGCG
1910287 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1910330 original size:33 final size:33
Alignment explanation
Indices: 1910293--1910445 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
1910283 TGCGTTTATA
1910293 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
1910326 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
1910366 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1910397 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1910430 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
1910446 TTCATTTCGC
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 52 0.54
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:1910339 original size:19 final size:19
Alignment explanation
Indices: 1910315--1910531 Score: 240
Period size: 19 Copynumber: 12.4 Consensus size: 19
1910305 GATTCTCTCG
1910315 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1910334 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1910353 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1910367 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1910386 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1910405 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1910419 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1910438 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1910457 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1910471 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1910491 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1910505 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1910524 TTGCGATT
1 TTGCGATT
1910532 GTAATTTCCA
Statistics
Matches: 169, Mismatches: 8, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 29 0.17
16 23 0.14
17 20 0.12
18 3 0.02
19 82 0.49
20 12 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1910350 original size:52 final size:52
Alignment explanation
Indices: 1910293--1910503 Score: 413
Period size: 52 Copynumber: 4.0 Consensus size: 52
1910283 TGCGTTTATA
1910293 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1910345 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1910397 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1910449 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1910502 AT
1 AT
1910504 GTTGGGATTT
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 141 0.89
53 17 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1910475 original size:33 final size:33
Alignment explanation
Indices: 1910334--1910531 Score: 197
Period size: 33 Copynumber: 5.8 Consensus size: 33
1910324 TCATTTCGCA
1910334 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1910367 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
1910403 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
1910438 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1910471 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
1910505 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1910532 GTAATTTCCA
Statistics
Matches: 137, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
31 9 0.07
32 5 0.04
33 62 0.45
34 29 0.21
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.07
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:1912822 original size:12 final size:12
Alignment explanation
Indices: 1912805--1912829 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1912795 TCTTCGGGGA
1912805 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1912817 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1912829 C
1 C
1912830 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1913038 original size:24 final size:24
Alignment explanation
Indices: 1913004--1913050 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1912994 CTGAAACATC
1913004 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1913028 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1913051 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1913761 original size:20 final size:20
Alignment explanation
Indices: 1913733--1913942 Score: 206
Period size: 20 Copynumber: 10.5 Consensus size: 20
1913723 AAATTTCAGT
* * *
1913733 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1913753 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1913773 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1913793 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1913813 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
1913833 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
** *
1913853 GTTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1913873 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1913893 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1913913 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1913933 GTTGCGATTT
1 GTTGCGATTT
1913943 TGGAAAATCG
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 161 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1913959 original size:21 final size:20
Alignment explanation
Indices: 1913909--1914006 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
1913899 ATTTATGTGT
* * * *
1913909 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
1913929 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
1913950 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
1913970 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
1913991 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
1914007 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:1913982 original size:61 final size:60
Alignment explanation
Indices: 1913909--1914065 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
1913899 ATTTATGTGT
*
1913909 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
1913970 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
1914031 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
1914066 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:1914001 original size:41 final size:41
Alignment explanation
Indices: 1913909--1914065 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
1913899 ATTTATGTGT
* * *
1913909 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
1913950 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
1913991 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
1914031 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
1914066 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:1920899 original size:12 final size:12
Alignment explanation
Indices: 1920884--1920908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1920874 CCACCGTCAC
1920884 CCTCATTATCTT
1 CCTCATTATCTT
1920896 CCTCATTATCTT
1 CCTCATTATCTT
1920908 C
1 C
1920909 TCTTAAGAAC
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:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTCATTATCTT
Found at i:1924225 original size:14 final size:15
Alignment explanation
Indices: 1924200--1924240 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1924190 TTTTTCCTGA
* *
1924200 AAAAGGAAAAAAATG
1 AAAAGAAAAAAAAAG
*
1924215 AAAATAAAAAAAAAG
1 AAAAGAAAAAAAAAG
1924230 AAAAGAAAAAA
1 AAAAGAAAAAA
1924241 GTCCGCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:1924756 original size:15 final size:16
Alignment explanation
Indices: 1924730--1924762 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1924720 TTTATGTTGT
1924730 TTTTTTATATTTTATA
1 TTTTTTATATTTTATA
*
1924746 TTTTTTA-ATTTTTTA
1 TTTTTTATATTTTATA
1924761 TT
1 TT
1924763 AAATGATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTATATTTTATA
Found at i:1924924 original size:13 final size:13
Alignment explanation
Indices: 1924902--1924938 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1924892 ATAAAATTCC
*
1924902 CGATTACTCGAAT
1 CGATTGCTCGAAT
*
1924915 TGATTGCTCGAAT
1 CGATTGCTCGAAT
1924928 CGATTGCTCGA
1 CGATTGCTCGA
1924939 CTTTTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (13 bp):
CGATTGCTCGAAT
Found at i:1930709 original size:77 final size:76
Alignment explanation
Indices: 1930615--1930927 Score: 323
Period size: 76 Copynumber: 4.2 Consensus size: 76
1930605 AGTCTCATTT
* *
1930615 AACAAGAAGATTCATTTCACTCGAGATTGTTATTT-TTAAAACAAGATTCATATCGGTTGAGATA
1 AACAAGAAGATTCATTTCACTCAAGATTGTT-TTTCTTAAAACAAGATTCATATCGCTTGAGATA
* *
1930679 TTTTTTTACCCGA
65 -GTTTTTACCCAA
* * *
1930692 AATAAGAAGATTCATTTCACTCAAGATTGTTTTTCTTAAAGCAAGATTCATCTCGCTTGAGATAG
1 AACAAGAAGATTCATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATATCGCTTGAGATAG
*
1930757 TTTTTACTCAA
66 TTTTTACCCAA
* * * *
1930768 AACAAGACA-TTTCATTTCACTCCAGATTGTTTTTCTTAAAACAAGATTCATCTCGCCTGAGATA
1 AACAAGA-AGATTCATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATATCGCTTGAGATA
* * *
1930832 G-TTTCACTCGA
65 GTTTTTACCCAA
* * * * * * * * *
1930843 AAC-AGAAGATTTATCTCACTTAAGATTATTTTTCTTAAAACCAGATTTATCTTGCTTCAGATAG
1 AACAAGAAGATTCATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATATCGCTTGAGATAG
* *
1930907 -TTTCACTCAA
66 TTTTTACCCAA
1930917 AA-AAGAAGATT
1 AACAAGAAGATT
1930928 TTATCTCGCT
Statistics
Matches: 205, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
73 1 0.00
74 67 0.33
75 11 0.05
76 70 0.34
77 56 0.27
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (76 bp):
AACAAGAAGATTCATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATATCGCTTGAGATAG
TTTTTACCCAA
Found at i:1930889 original size:74 final size:74
Alignment explanation
Indices: 1930619--1931163 Score: 317
Period size: 77 Copynumber: 7.2 Consensus size: 74
1930609 TCATTTAACA
* * * * * *
1930619 AGAAGATTCATTTCACTCGAGATTGTTATTT-TTAAAACAAGATTCATATCGGTTGAGATATTTT
1 AGAAGATTTATCTCACTCAAGATTGTT-TTTCTTAAAACAAGATTCATCTCGCTTGAGATA--GT
* *
1930683 TTTACCCGAAATA-
63 TTCACTC-AAA-AC
* * *
1930696 AGAAGATTCATTTCACTCAAGATTGTTTTTCTTAAAGCAAGATTCATCTCGCTTGAGATAGTTTT
1 AGAAGATTTATCTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAG-TTT
*
1930761 TACTCAAAAC
65 CACTCAAAAC
* * * *
1930771 A-AGACATTTCATTTCACTCCAGATTGTTTTTCTTAAAACAAGATTCATCTCGCCTGAGATAGTT
1 AGA-AGATTT-ATCTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTT
*
1930835 TCACTCGAAAC
64 TCACTCAAAAC
* * * * * *
1930846 AGAAGATTTATCTCACTTAAGATTATTTTTCTTAAAACCAGATTTATCTTGCTTCAGATAGTTTC
1 AGAAGATTTATCTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTC
*
1930911 ACTCAAAAA
66 ACTCAAAAC
* ** * ** * ** *
1930920 AGAAGATTTTATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGATTTGTCTCGCTTGAGACAGG
1 AGAAGA-TTTATCTCACTCAAGATTGTTTTTCTT-AAA-ACAAGATTCATCTCGCTTGAGATA-G
*
1930985 TTTCACTCGAAAC
62 TTTCACTCAAAAC
* * * * ** * * * * * * *
1930998 AAAAAAATTATCTCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTATCTCACTTGAGATTGTT
1 AGAAGATTTATCTCACTCAAGATTGTTTTTCT-TAAA-ACAAGATTCATCTCGCTTGAGATAGTT
** *
1931063 TTTCTTAAAAC
64 TCACTCAAAAC
* * ** * ** * * * * *
1931074 --AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAATATTTTATCTCGCTTCAGATAGT
1 AGAAGATTTATCTCACTCAAGATTGTTTTTCT-TAAA-ACAAGA-TTCATCTCGCTTGAGATAGT
*
1931137 TTCACTCGAAAC
63 TTCACTCAAAAC
1931149 AGAAGATTTTATCTC
1 AGAAGA-TTTATCTC
1931164 GGTTAAGATA
Statistics
Matches: 387, Mismatches: 66, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
74 98 0.25
75 71 0.18
76 73 0.19
77 122 0.32
78 23 0.06
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (74 bp):
AGAAGATTTATCTCACTCAAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTC
ACTCAAAAC
Found at i:1930944 original size:39 final size:38
Alignment explanation
Indices: 1930805--1931225 Score: 352
Period size: 39 Copynumber: 11.1 Consensus size: 38
1930795 TGTTTTTCTT
* * *
1930805 AAAACAAGATTCATCTCGCCTGAGATAGTTTCACTCGA
1 AAAAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
* * * * **
1930843 AACAGAAGATTTATCTCACTTAAGATTA-TTT--TTCTT
1 AAAAGAAGATTTATCTCGCTTGAGA-TAGTTTCACTCGA
** * * *
1930879 AAAACCAGATTTATCTTGCTTCAGATAGTTTCACTCAA
1 AAAAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
*
1930917 AAAAGAAGATTTTATCTCGCTTGAGATAGTTTCACTTGA
1 AAAAGAAGA-TTTATCTCGCTTGAGATAGTTTCACTCGA
* * *
1930956 AACAGAAGATTTGTCTCGCTTGAGACAGGTTTCACTCGA
1 AAAAGAAGATTTATCTCGCTTGAGATA-GTTTCACTCGA
* * *
1930995 AACAA-AAAAATTATCTCGCTTGAGATAGTTTTACTCGA
1 AA-AAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
* * * * **
1931033 AACAGAAGATTTATCTCACTTGAGATTGTTT--TTCTT
1 AAAAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
* *
1931069 AAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGA
1 AAAAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
* * * *
1931107 AACATAATATTTTATCTCGCTTCAGATAGTTTCACTCGA
1 AAAAGAAGA-TTTATCTCGCTTGAGATAGTTTCACTCGA
* * * * *
1931146 AACAGAAGATTTTATCTCGGTTAAGATAGTTTAACTGGA
1 AAAAGAAGA-TTTATCTCGCTTGAGATAGTTTCACTCGA
* * *
1931185 AACAA-AATATTTTATCTTGCTTGTGATAGTTTCACTCGA
1 AA-AAGAAGA-TTTATCTCGCTTGAGATAGTTTCACTCGA
1931224 AA
1 AA
1931226 TAGCTTACTC
Statistics
Matches: 302, Mismatches: 69, Indels: 23
0.77 0.18 0.06
Matches are distributed among these distances:
35 2 0.01
36 52 0.17
37 1 0.00
38 89 0.29
39 156 0.52
40 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (38 bp):
AAAAGAAGATTTATCTCGCTTGAGATAGTTTCACTCGA
Found at i:1931067 original size:190 final size:191
Alignment explanation
Indices: 1930817--1931225 Score: 579
Period size: 190 Copynumber: 2.1 Consensus size: 191
1930807 AACAAGATTC
*
1930817 ATCTCGCCTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTAAGATTATTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTAAGATTATTTTTCTTAAA
* * * *
1930882 ACCAGATTTATCTTGCTTCAGATAGTTTCACTCAAAAAAGAAGATTTTATCTCGCTTGAGATAGT
66 ACAAGATTCATCTCGCTTCAGATAGTTTCACTCAAAAAAGAAGATTTTATCTCGCTTCAGATAGT
* * * *
1930947 TTCACTTGAAACAGAAGA-TTTGTCTCGCTTGAGACAGGTTTCACTCGAAACAAAA-AAATT
131 TTCACTCGAAACAGAAGATTTTATCTCGCTTAAGACA-GTTTAACTCGAAACAAAATAAATT
* * *
1931007 ATCTCGCTTGAGATAGTTTTACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTAAGATTATTTTTCTTAAA
* * * * *
1931072 ACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAATATTTTATCTCGCTTCAGATAGT
66 ACAAGATTCATCTCGCTTCAGATAGTTTCACTCAAAAAAGAAGATTTTATCTCGCTTCAGATAGT
* * * **
1931137 TTCACTCGAAACAGAAGATTTTATCTCGGTTAAGATAGTTTAACTGGAAACAAAATATTTT
131 TTCACTCGAAACAGAAGATTTTATCTCGCTTAAGACAGTTTAACTCGAAACAAAATAAATT
* *
1931198 ATCTTGCTTGTGATAGTTTCACTCGAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAA
1931226 TAGCTTACTC
Statistics
Matches: 192, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
190 150 0.78
191 42 0.22
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (191 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTAAGATTATTTTTCTTAAA
ACAAGATTCATCTCGCTTCAGATAGTTTCACTCAAAAAAGAAGATTTTATCTCGCTTCAGATAGT
TTCACTCGAAACAGAAGATTTTATCTCGCTTAAGACAGTTTAACTCGAAACAAAATAAATT
Found at i:1931151 original size:19 final size:19
Alignment explanation
Indices: 1931091--1931151 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
1931081 ATCTCGCTTG
1931091 AGATAGTTTCACTCGAAAC
1 AGATAGTTTCACTCGAAAC
* * ***
1931110 ATAATA-TTTTATCTCGCTTC
1 A-GATAGTTTCA-CTCGAAAC
1931130 AGATAGTTTCACTCGAAAC
1 AGATAGTTTCACTCGAAAC
1931149 AGA
1 AGA
1931152 AGATTTTATC
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (19 bp):
AGATAGTTTCACTCGAAAC
Found at i:1931338 original size:59 final size:59
Alignment explanation
Indices: 1931257--1931535 Score: 301
Period size: 59 Copynumber: 4.8 Consensus size: 59
1931247 TATTGCTCTT
* * *
1931257 ACAA-ACTTCGAAT-TGTAACGCCTTACTTGAGGGATTAACATTTCATTTGCTCGATTC
1 ACAACACTTCGAATCAGTAACGCCTCACTTGAGGGATCAACATTTCATTTGCTCGATTC
* *
1931314 ACAACACTTCGAATCAGTAACGCCTCACTTGAAGGATCAACATTTCCTTTGCTCGATTC
1 ACAACACTTCGAATCAGTAACGCCTCACTTGAGGGATCAACATTTCATTTGCTCGATTC
* * * * * * * *
1931373 ATAATACTTCGAATCAATAACGCCTCATTTAAGGGATCAATATTTCCTTTGCTCAATTC
1 ACAACACTTCGAATCAGTAACGCCTCACTTGAGGGATCAACATTTCATTTGCTCGATTC
* * * * *
1931432 ACTACACTTCGAATTAGCAACGTCTCACTTGAGGGATCAACATTTCATTTGCTCGATTT
1 ACAACACTTCGAATCAGTAACGCCTCACTTGAGGGATCAACATTTCATTTGCTCGATTC
* * * * * * * * *
1931491 GCGACATTTCAAATTAGCAACGCCTCACTCGAGGGACCAATATTT
1 ACAACACTTCGAATCAGTAACGCCTCACTTGAGGGATCAACATTT
1931536 ATAGTAGAGA
Statistics
Matches: 186, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
57 4 0.02
58 9 0.05
59 173 0.93
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (59 bp):
ACAACACTTCGAATCAGTAACGCCTCACTTGAGGGATCAACATTTCATTTGCTCGATTC
Found at i:1933227 original size:24 final size:24
Alignment explanation
Indices: 1933193--1933258 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1933183 CAATTAAGTC
1933193 ATTGTATTTATTTTATTT-TTATGTT
1 ATTGT-TTTATTTTATTTATTAT-TT
* * * *
1933218 GTTTTTTTATGTTGTTTATTATTT
1 ATTGTTTTATTTTATTTATTATTT
1933242 ATTGTTTTATTTT-TTTA
1 ATTGTTTTATTTTATTTA
1933259 ATTAGGTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (24 bp):
ATTGTTTTATTTTATTTATTATTT
Found at i:1933242 original size:16 final size:15
Alignment explanation
Indices: 1933204--1933255 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 15
1933194 TTGTATTTAT
1933204 TTTATTTTTATGTTG
1 TTTATTTTTATGTTG
1933219 -TT-TTTTTATGTTG
1 TTTATTTTTATGTTG
1933232 TTTATTATTTA--TTG
1 TTTATT-TTTATGTTG
1933246 TTTTATTTTT
1 -TTTATTTTT
1933256 TTAATTAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.33
14 10 0.30
15 8 0.24
16 4 0.12
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTATTTTTATGTTG
Found at i:1941709 original size:6 final size:7
Alignment explanation
Indices: 1941684--1941708 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1941674 TATTCGAGAG
1941684 AAAAATA
1 AAAAATA
1941691 AAAAATA
1 AAAAATA
1941698 AAAAATA
1 AAAAATA
1941705 AAAA
1 AAAA
1941709 TTTGGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:1942209 original size:62 final size:62
Alignment explanation
Indices: 1942135--1942358 Score: 273
Period size: 62 Copynumber: 3.7 Consensus size: 62
1942125 GTAGAAACTA
* * *
1942135 AACAATGACACGTCTGAATGATGATGTGTCAACTATCGGACAACATTGACTAAGTCGCACTC
1 AACAATGACACGTCTGAATGATGATGTGTCAACTGTTGGACAACATTGACTAAGTCACACTC
* * *
1942197 AACAATGCCACGTTTGAATGATGATGTGTCAACTGTTGG---ACATT-AGTTAAGTCACACTC
1 AACAATGACACGTCTGAATGATGATGTGTCAACTGTTGGACAACATTGA-CTAAGTCACACTC
* * * *
1942256 AACAAT-ACACGTCTGATTGATGACGTGTCTACTGTTGGACAACATTGGCTAAGTCACACTC
1 AACAATGACACGTCTGAATGATGATGTGTCAACTGTTGGACAACATTGACTAAGTCACACTC
** *
1942317 AACAATGACATATCTGAATGATGA--TGTCAATTGTTGGACAAC
1 AACAATGACACGTCTGAATGATGATGTGTCAACTGTTGGACAAC
1942359 TAACATAAGT
Statistics
Matches: 138, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
58 28 0.20
59 22 0.16
60 16 0.12
61 23 0.17
62 49 0.36
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (62 bp):
AACAATGACACGTCTGAATGATGATGTGTCAACTGTTGGACAACATTGACTAAGTCACACTC
Found at i:1942368 original size:120 final size:120
Alignment explanation
Indices: 1942135--1942371 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 120
1942125 GTAGAAACTA
* *
1942135 AACAATGACACGTCTGAATGATGATGTGTCAACTATCGGACAACATTGACTAAGTCGCACTCAAC
1 AACAATGACACGTCTGAATGATGACGTGTCAACTATCGGACAACATTGACTAAGTCACACTCAAC
* * * * **
1942200 AATGCCACGTTTGAATGATGATGTGTCAACTGTTGGACATTAGTTAAGTCACACTC
66 AATGACACATCTGAATGATGA-GTGTCAACTGTTGGACATAACATAAGTCACACTC
* * * * *
1942256 AACAAT-ACACGTCTGATTGATGACGTGTCTACTGTTGGACAACATTGGCTAAGTCACACTCAAC
1 AACAATGACACGTCTGAATGATGACGTGTCAACTATCGGACAACATTGACTAAGTCACACTCAAC
* *
1942320 AATGACATATCTGAATGATGA-TGTCAATTGTTGGACAACTAACATAAGTCAC
66 AATGACACATCTGAATGATGAGTGTCAACTGTTGGAC-A-TAACATAAGTCAC
1942372 CCTTCTTTCA
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
118 14 0.14
119 1 0.01
120 78 0.79
121 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (120 bp):
AACAATGACACGTCTGAATGATGACGTGTCAACTATCGGACAACATTGACTAAGTCACACTCAAC
AATGACACATCTGAATGATGAGTGTCAACTGTTGGACATAACATAAGTCACACTC
Found at i:1942928 original size:89 final size:89
Alignment explanation
Indices: 1942777--1942947 Score: 315
Period size: 89 Copynumber: 1.9 Consensus size: 89
1942767 CGGAAATTTT
*
1942777 TTGATAAGTCGATAGAGTTCAATTAAGAACTAAAGAGAGAAAATTCTCATAAAACATATTTGATT
1 TTGATAAGTCGATAGAGTTCAATTAAGAACTAAAGAGAGAAAATTCTCACAAAACATATTTGATT
1942842 AAACAAAGTTGATTGATGCAAATC
66 AAACAAAGTTGATTGATGCAAATC
* *
1942866 TTGATAAGTCGATAGAGTTCAATTAATAACTAAAGAGAGAAAATTCTCACAAAACTTATTTGATT
1 TTGATAAGTCGATAGAGTTCAATTAAGAACTAAAGAGAGAAAATTCTCACAAAACATATTTGATT
1942931 AAACAAAGTTGATTGAT
66 AAACAAAGTTGATTGAT
1942948 TTACAAATAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.30
Consensus pattern (89 bp):
TTGATAAGTCGATAGAGTTCAATTAAGAACTAAAGAGAGAAAATTCTCACAAAACATATTTGATT
AAACAAAGTTGATTGATGCAAATC
Found at i:1946873 original size:45 final size:46
Alignment explanation
Indices: 1946801--1946899 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 46
1946791 GTGTGGTCAA
*
1946801 GATGGTTCGACTTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
1 GATGGTTCGAATTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
** ****
1946847 GATGGTTC-AATTCCTTGCATGCACTTGGCTTTTTTGTGTGAACAT
1 GATGGTTCGAATTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
*
1946892 GATTGTTC
1 GATGGTTC
1946900 TGTTGCTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 37 0.82
46 8 0.18
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (46 bp):
GATGGTTCGAATTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
Found at i:1948046 original size:45 final size:46
Alignment explanation
Indices: 1947974--1948072 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 46
1947964 GTGTGGTCAA
*
1947974 GATGGTTCGACTTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
1 GATGGTTCGAATTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
** ****
1948020 GATGGTTC-AATTCCTTGCATGCACTTGGCTTTTTTGTGTGAACAT
1 GATGGTTCGAATTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
*
1948065 GATTGTTC
1 GATGGTTC
1948073 TGTTGCTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 37 0.82
46 8 0.18
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (46 bp):
GATGGTTCGAATTCCTTGCATAAACTTGGCTCCCATGTGTGAACAT
Found at i:1950021 original size:3 final size:3
Alignment explanation
Indices: 1950013--1950048 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
1950003 ATTTATTTAT
1950013 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
1950049 TTTAGTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1950919 original size:10 final size:10
Alignment explanation
Indices: 1950877--1950929 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
1950867 TCATTTTCAA
1950877 CTCCTTT-AG
1 CTCCTTTAAG
1950886 CTAACCTTTAAG
1 CT--CCTTTAAG
*
1950898 CTCCATTAAG
1 CTCCTTTAAG
*
1950908 CTCCTTTGAG
1 CTCCTTTAAG
*
1950918 CTTCTTTAAG
1 CTCCTTTAAG
1950928 CT
1 CT
1950930 AAGTGATCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 2 0.06
10 25 0.69
11 5 0.14
12 4 0.11
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (10 bp):
CTCCTTTAAG
Found at i:1951539 original size:62 final size:60
Alignment explanation
Indices: 1951420--1951572 Score: 193
Period size: 62 Copynumber: 2.5 Consensus size: 60
1951410 TAAGTAAAAC
* *
1951420 TCAATAATTACATGTATAAATGATGATGTGT--CATTGGAAAATATTGGCTAAGTCACAT
1 TCAATAATCACATGTCTAAATGATGATGTGTCACATTGGAAAATATTGGCTAAGTCACAT
* * * *
1951478 TCAACAATCACATGTCTGAATGATGATGTGTCAACTATTGGACAATTTTGGCTAAGTCACAT
1 TCAATAATCACATGTCTAAATGATGATGTGTC-AC-ATTGGAAAATATTGGCTAAGTCACAT
* **
1951540 TTAATAATCACACATCTAAATGATGATGTGTCA
1 TCAATAATCACATGTCTAAATGATGATGTGTCA
1951573 TTTGTTGGAC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
58 27 0.34
61 2 0.03
62 51 0.64
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (60 bp):
TCAATAATCACATGTCTAAATGATGATGTGTCACATTGGAAAATATTGGCTAAGTCACAT
Found at i:1951581 original size:62 final size:59
Alignment explanation
Indices: 1951436--1951609 Score: 190
Period size: 62 Copynumber: 2.9 Consensus size: 59
1951426 ATTACATGTA
* * * **
1951436 TAAATGATGATGTGTCA-TTGGAAAATATTGGCTAAGTCACATTCAACAATCACATGTC
1 TAAATGATGATGTGTCATTTGGACAATATTGGCTAAGTCACATTTAATAATCACACATC
* *
1951494 TGAATGATGATGTGTCAACTATTGGACAATTTTGGCTAAGTCACATTTAATAATCACACATC
1 TAAATGATGATGTGTC-A-T-TTGGACAATATTGGCTAAGTCACATTTAATAATCACACATC
* *
1951556 TAAATGATGATGTGTCATTTGTTGGAC-ATCATTGGTTAAGTCACACTTAATAAT
1 TAAATGATGATGTGTCA--T-TTGGACAAT-ATTGGCTAAGTCACATTTAATAAT
1951610 ACTAAGAGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
58 15 0.15
59 1 0.01
61 3 0.03
62 78 0.80
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (59 bp):
TAAATGATGATGTGTCATTTGGACAATATTGGCTAAGTCACATTTAATAATCACACATC
Found at i:1953871 original size:28 final size:29
Alignment explanation
Indices: 1953816--1953875 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 29
1953806 AAAGTTTGGA
*
1953816 AAAGTTTAAGGACCAAAAGTGTAATTTTC
1 AAAGTTTAAGAACCAAAAGTGTAATTTTC
1953845 AAAGTTTAAGAACC-AAAGTGTAATTTTC
1 AAAGTTTAAGAACCAAAAGTGTAATTTTC
1953873 AAA
1 AAA
1953876 AGTTAGGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (29 bp):
AAAGTTTAAGAACCAAAAGTGTAATTTTC
Found at i:1953877 original size:29 final size:30
Alignment explanation
Indices: 1953815--1953879 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
1953805 TAAAGTTTGG
*
1953815 AAAAGTTTAAGGACCAAAAGTGTAATTTTC
1 AAAAGTTTAAGAACCAAAAGTGTAATTTTC
1953845 -AAAGTTTAAGAACC-AAAGTGTAATTTTC
1 AAAAGTTTAAGAACCAAAAGTGTAATTTTC
1953873 AAAAGTT
1 AAAAGTT
1953880 AGGTGTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (30 bp):
AAAAGTTTAAGAACCAAAAGTGTAATTTTC
Found at i:1956313 original size:20 final size:20
Alignment explanation
Indices: 1956290--1956345 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
1956280 CAACCCGTTT
1956290 TGAACCGAGTCAACCCAACC
1 TGAACCGAGTCAACCCAACC
*
1956310 TGAACCGAGTTAACCCAACC
1 TGAACCGAGTCAACCCAACC
1956330 T-AAGCCGAGTCAACCC
1 TGAA-CCGAGTCAACCC
1956346 GACCCAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.34, C:0.38, G:0.16, T:0.12
Consensus pattern (20 bp):
TGAACCGAGTCAACCCAACC
Found at i:1957902 original size:17 final size:16
Alignment explanation
Indices: 1957861--1957921 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
1957851 TAGTTTTTTA
* *
1957861 AATGAACTATTTTGATG
1 AATGAACTAATTT-ATT
*
1957878 AATAAACTAATTTAATT
1 AATGAACTAATTT-ATT
1957895 AATGAACTAACTTTATT
1 AATGAACTAA-TTTATT
1957912 CAATGAACTA
1 -AATGAACTA
1957922 GAACTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (16 bp):
AATGAACTAATTTATT
Found at i:1957909 original size:18 final size:17
Alignment explanation
Indices: 1957882--1957921 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
1957872 TTGATGAATA
1957882 AACTAATTTAATT-AATG
1 AACTAATTT-ATTCAATG
1957899 AACTAACTTTATTCAATG
1 AACTAA-TTTATTCAATG
1957917 AACTA
1 AACTA
1957922 GAACTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (17 bp):
AACTAATTTATTCAATG
Found at i:1958695 original size:21 final size:21
Alignment explanation
Indices: 1958653--1958695 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1958643 TTTCTGGGCT
* *
1958653 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1958674 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1958695 A
1 A
1958696 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1958768 original size:23 final size:22
Alignment explanation
Indices: 1958724--1958768 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1958714 AATCTCATAG
*
1958724 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
1958746 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
1958769 AAATTGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:1960277 original size:103 final size:103
Alignment explanation
Indices: 1960052--1960269 Score: 393
Period size: 103 Copynumber: 2.1 Consensus size: 103
1960042 GTCGAGGTTC
1960052 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATAC
*
1960117 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
*
1960155 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATAC
*
1960220 TTGATTCC-TAGTATATGTATATGATTCTTAAGGAATGA
66 TTGA-TCCTTAGCATATGTATATGATTCTTAAGGAATGA
1960258 TATGTGGTCCTT
1 TATGTGGTCCTT
1960270 ATGGACATTA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 108 0.97
104 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGAGAAGTCTGGTGAGACACATAC
TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1960343 original size:23 final size:23
Alignment explanation
Indices: 1960285--1960353 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1960275 CATTATTATA
1960285 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
1960308 TGGTACTCCGGTGTAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
** *
1960331 TGGCACTTTGGTGCAATTATACG
1 TGGCACTACGGTGCAATTCTACG
1960354 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:1960592 original size:17 final size:17
Alignment explanation
Indices: 1960578--1960619 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1960568 TAAAATATAT
1960578 ATAATATGTTTATATTC
1 ATAATATGTTTATATTC
1960595 ATAATATGTTTATATTC
1 ATAATATGTTTATATTC
*
1960612 ATTATATG
1 ATAATATG
1960620 CTCATATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (17 bp):
ATAATATGTTTATATTC
Found at i:1960626 original size:17 final size:17
Alignment explanation
Indices: 1960578--1960626 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
1960568 TAAAATATAT
* *
1960578 ATAATATGTTTATATTC
1 ATAATATGCTCATATTC
* *
1960595 ATAATATGTTTATATTC
1 ATAATATGCTCATATTC
*
1960612 ATTATATGCTCATAT
1 ATAATATGCTCATAT
1960627 GACGGAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (17 bp):
ATAATATGCTCATATTC
Found at i:1988512 original size:55 final size:55
Alignment explanation
Indices: 1988422--1988798 Score: 418
Period size: 55 Copynumber: 6.9 Consensus size: 55
1988412 AGTGTACTAT
*
1988422 AGACACTATGTGTGAAAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
1 AGACACTATGTGTG-CAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
* * * *
1988478 AGACACTATGTGTGCAAATCTACGGAATTTATCATGAGTTAATGAATAACCGTAC
1 AGACACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
** ** **
1988533 AGGTACTATGTGTGCAAATCCACTAAATTCATCATGAGTAAATGAATAACCATAC
1 AGACACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
* * * * *
1988588 ATG-CACTAGGTGTACAAATCCACGAAATTTATCATGGGTTGATGAATAACCATAC
1 A-GACACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
* * * **
1988643 AGGCACTATGTGTGCAAATCTACAGAATTCATCATGAGTTGATGAATAACTGTAC
1 AGACACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
* ** * * *
1988698 AGGCACTACATGTGCAATTCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
1 AGACACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
* * * * *
1988753 A-AGTAGTATGTGTGC-AACCCATGGAATTCTTCATGAGTTGATGAAT
1 AGA-CACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAAT
1988799 TACCGTATAT
Statistics
Matches: 272, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
54 28 0.10
55 229 0.84
56 15 0.06
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (55 bp):
AGACACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATAC
Found at i:1988714 original size:165 final size:165
Alignment explanation
Indices: 1988438--1988746 Score: 474
Period size: 165 Copynumber: 1.9 Consensus size: 165
1988428 TATGTGTGAA
* *
1988438 AAATCCACGGAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAATCTACGG
1 AAATCCACGAAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAATCTACAG
* * ** *
1988503 AATTTATCATGAGTTAATGAATAACCGTACAGGTACTATGTGTGCAAATCCACTAAATTCATCAT
66 AATTCATCATGAGTTAATGAATAACCGTACAGGCACTACATGTGCAAATCCACGAAATTCATCAT
1988568 GAGTAAATGAATAACCATACATGCACTAGGTGTAC
131 GAGTAAATGAATAACCATACATGCACTAGGTGTAC
* * *
1988603 AAATCCACGAAATTTATCATGGGTTGATGAATAACCATACAGGCACTATGTGTGCAAATCTACAG
1 AAATCCACGAAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAATCTACAG
* * * *
1988668 AATTCATCATGAGTTGATGAATAACTGTACAGGCACTACATGTGCAATTCCACGGAATTCATCAT
66 AATTCATCATGAGTTAATGAATAACCGTACAGGCACTACATGTGCAAATCCACGAAATTCATCAT
**
1988733 GAGTTGATGAATAA
131 GAGTAAATGAATAA
1988747 TCGTACAAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
165 128 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (165 bp):
AAATCCACGAAATTCATCATGAGTTGATGAATAACCATACAGACACTATGTGTGCAAATCTACAG
AATTCATCATGAGTTAATGAATAACCGTACAGGCACTACATGTGCAAATCCACGAAATTCATCAT
GAGTAAATGAATAACCATACATGCACTAGGTGTAC
Found at i:1992142 original size:25 final size:25
Alignment explanation
Indices: 1992114--1992161 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1992104 GGAAATATGT
*
1992114 GCCTTTGGTTTGGATGAAAAGATGC
1 GCCTTTGGTTTGGACGAAAAGATGC
*
1992139 GCCTTTGGTTTGGACGGAAAGAT
1 GCCTTTGGTTTGGACGAAAAGAT
1992162 TCCAGGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (25 bp):
GCCTTTGGTTTGGACGAAAAGATGC
Found at i:1995310 original size:55 final size:55
Alignment explanation
Indices: 1995237--1995749 Score: 598
Period size: 55 Copynumber: 9.3 Consensus size: 55
1995227 CTAAGTGTAC
* *
1995237 TACAGGAACTATGTGTGCAAATCCACGGAATTTATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* ** * * *
1995292 TAGAGGCACTATGTGTGCAAATCCACATAATTCATAATGAGTTGATGAATAGCCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * *
1995347 TACAAGAACTATGTGTGCAAATCCACGAAATTTATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * * * *
1995402 TACAAGCAATATGTGTGTAAATCTACAGAATTCATCATGAGTTGATGAATAACCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * *
1995457 TACATGCACTATATGTGCAAATCCACGGACTTCATCATGAGTTGATGAATAACCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * * *
1995512 TACATGCACTATGTGTGAAAATCCATGGAATTAATCATTAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * * * * *
1995567 TATAGGTACTATCTGTGCAAATCTACAGAATTCATAATGAGTTGATGAATAACCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * * *
1995622 TACAAGCATTATGTGTGCAATTCCATGAAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
* * * * *
1995677 TACAGGAACTATGTGTGC-AACCCACGAAATTCATCATGCGTTGATGAATTACCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
*
1995731 TATAGGCACTACT-TGTGCA
1 TACAGGCACTA-TGTGTGCA
1995750 TTCTAATAAA
Statistics
Matches: 383, Mismatches: 73, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
54 45 0.12
55 338 0.88
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCG
Found at i:1996662 original size:41 final size:41
Alignment explanation
Indices: 1996617--1996811 Score: 226
Period size: 41 Copynumber: 4.9 Consensus size: 41
1996607 CCACGATAGG
* *
1996617 ATCAAGTTTAATGGAGAATTATTGTATGCTACCATGATCGA
1 ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGA
*
1996658 ATCAAGTTAAATGGTGAATTATTGTATGCT---A--A---A
1 ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGA
* *
1996691 ATCAAGTTGAATGGTGAATTATTGCATGATACCATGATCGAA
1 ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCG-A
*
1996733 ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATTGA
1 ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGA
* * * * *
1996774 ATCAAGTTGAATGATGGAGTATTGCATGCTTCCATGAT
1 ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGAT
1996812 TAAATTGAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
33 28 0.21
36 2 0.02
38 2 0.02
41 62 0.47
42 38 0.29
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (41 bp):
ATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATCGA
Found at i:1996704 original size:33 final size:34
Alignment explanation
Indices: 1996657--1996764 Score: 119
Period size: 42 Copynumber: 3.0 Consensus size: 34
1996647 ACCATGATCG
*
1996657 AATCAAGTTAAATGGTGAATTATTGTATGCTA-A
1 AATCAAGTTGAATGGTGAATTATTGTATGCTACA
*
1996690 AATCAAGTTGAATGGTGAATTATTGCATGATACCATGATCGA
1 AATCAAGTTGAATGGTGAATTATTG--T-AT-GC-T-A-C-A
1996732 AATCAAGTTGAATGGTGAATTATTGTATGCTAC
1 AATCAAGTTGAATGGTGAATTATTGTATGCTAC
1996765 CATGATTGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
33 24 0.38
35 2 0.03
36 3 0.05
37 2 0.03
38 2 0.03
39 3 0.05
40 1 0.02
42 26 0.41
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (34 bp):
AATCAAGTTGAATGGTGAATTATTGTATGCTACA
Found at i:1996812 original size:41 final size:42
Alignment explanation
Indices: 1996689--1996897 Score: 201
Period size: 41 Copynumber: 5.0 Consensus size: 42
1996679 TTGTATGCTA
* *
1996689 AAATCAAGTTGAATGGTGAATTATTGCATGATACCATGATCG
1 AAATCAAGTTGAATGGTGAATTATTGCATGCTACCATGATTG
*
1996731 AAATCAAGTTGAATGGTGAATTATTGTATGCTACCATGATTG
1 AAATCAAGTTGAATGGTGAATTATTGCATGCTACCATGATTG
* * * *
1996773 -AATCAAGTTGAATGATGGAGTATTGCATGCTTCCATGATT-
1 AAATCAAGTTGAATGGTGAATTATTGCATGCTACCATGATTG
* * * * ** *
1996813 AAATTGAA-TTGAATGTTGAACTATTGCATGTTGTCGTGATTG
1 AAA-TCAAGTTGAATGGTGAATTATTGCATGCTACCATGATTG
* * * * * *
1996855 AATTGAA-TTGAATTGTGAATTATTACATGCTGCCAAGATTG
1 AAATCAAGTTGAATGGTGAATTATTGCATGCTACCATGATTG
1996896 AA
1 AA
1996898 CTCGATTGAA
Statistics
Matches: 139, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
41 95 0.68
42 44 0.32
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATCAAGTTGAATGGTGAATTATTGCATGCTACCATGATTG
Found at i:1997461 original size:245 final size:245
Alignment explanation
Indices: 1997011--1997501 Score: 560
Period size: 245 Copynumber: 2.0 Consensus size: 245
1997001 GTTGTGAAAA
* * * * *
1997011 AAAATAATGATTCATTGACAAATAAGATTTAATGTCTTTGGTTAATAGTTAGTCCAATATATAAG
1 AAAATAATGATTCATTGACAAATAAGATTCAATGACCTTGGTTAATAGTTAATCCAAGATATAAG
* * *
1997076 GGCATGACTTAGAGTCTATAGCTCAATTATATATAGGGGACTACAGTCCAACACTACGGTGGTTA
66 GGAATGACTTAGAGTCTAGAGCTCAATTATATATAGGGGACTACAGTCCAACACTACGGTGCTTA
* * * * *
1997141 TTGGCGATAGACAAAGGGTATGTTATGTGGTCTTTGGTGACAGTAGGAGGGTTGACCCGCATTAC
131 TTGGCAATAGACAAAGGGTATGTTATGTGATCTTTGGTGACAGTAGCAGGGTTGACCAGCACTAC
*
1997206 GATACAATTAAAGTGCATGGCGATAGTTGGCTGGAGACTTGATTATCTAG
196 GATACAATTAAAGTGCATGGCGACAGTTGGCTGGAGACTTGATTATCTAG
* *
1997256 AAAATAATTATTCATTGGA-AAATAAGGTTCAATGACCTTGGTTAATAGTTAATCCAAGATATAA
1 AAAATAATGATTCATT-GACAAATAAGATTCAATGACCTTGGTTAATAGTTAATCCAAGATATAA
* * * * * * * *
1997320 GGGAATGCCTTAGAGTCTAGAGCTCATTTGTGTAT-GGGGAAGTACGGTCCAACATTATGGTGCT
65 GGGAATGACTTAGAGTCTAGAGCTCAATTATATATAGGGG-ACTACAGTCCAACACTACGGTGCT
* ** * * * **
1997384 TATTGGTAATAGACGGA-GG-ATGCATTATTTGATCTTTAGG-GATAGTAGCATGGTTGATTAGC
129 TATTGGCAATAGACAAAGGGTATG--TTATGTGATCTTT-GGTGACAGTAGCAGGGTTGACCAGC
* * * * * *
1997446 ACTACGATGCAATTAAGGTGTATTGTGACAGTTGGTTGGAGACTTGATTATCTAG
191 ACTACGATACAATTAAAGTGCATGGCGACAGTTGGCTGGAGACTTGATTATCTAG
1997501 A
1 A
1997502 CTGAACAATA
Statistics
Matches: 203, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
243 3 0.01
244 6 0.03
245 190 0.94
246 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (245 bp):
AAAATAATGATTCATTGACAAATAAGATTCAATGACCTTGGTTAATAGTTAATCCAAGATATAAG
GGAATGACTTAGAGTCTAGAGCTCAATTATATATAGGGGACTACAGTCCAACACTACGGTGCTTA
TTGGCAATAGACAAAGGGTATGTTATGTGATCTTTGGTGACAGTAGCAGGGTTGACCAGCACTAC
GATACAATTAAAGTGCATGGCGACAGTTGGCTGGAGACTTGATTATCTAG
Found at i:1999964 original size:30 final size:30
Alignment explanation
Indices: 1999930--1999996 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
1999920 TAAAGTTTAG
* * *
1999930 AAAAGTTTAAGGACCAAAAGGGTAATTTTT
1 AAAAGTTCAAGGACCAAAAGGATAATTTTC
* *
1999960 AAAAGTTCAGGGACCAAAAGTATAATTTTC
1 AAAAGTTCAAGGACCAAAAGGATAATTTTC
1999990 AAAAGTT
1 AAAAGTT
1999997 AAATGTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (30 bp):
AAAAGTTCAAGGACCAAAAGGATAATTTTC
Found at i:2001301 original size:39 final size:39
Alignment explanation
Indices: 2001240--2001345 Score: 131
Period size: 39 Copynumber: 2.7 Consensus size: 39
2001230 AAGGATACCT
* * * *
2001240 AGTGCATATGGTGGGAATGACCTTATGTGTAAGCATTTC
1 AGTGCATATGGTGGGCACGACCTTATGTGTAAACACTTC
* * *
2001279 GGTGCATACGGTGGGCACGACCTTATTTGTAAACACTTC
1 AGTGCATATGGTGGGCACGACCTTATGTGTAAACACTTC
* *
2001318 AGTGCATGTGGTGGGCACGTCCTTATGT
1 AGTGCATATGGTGGGCACGACCTTATGT
2001346 ACATTATGGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (39 bp):
AGTGCATATGGTGGGCACGACCTTATGTGTAAACACTTC
Found at i:2008690 original size:21 final size:20
Alignment explanation
Indices: 2008666--2008706 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2008656 TTATCCAAAA
2008666 CATTAAAAGT-AATATGTTAAT
1 CATTAAAA-TAAATA-GTTAAT
2008687 CATTAAAATAAATAGTTAAT
1 CATTAAAATAAATAGTTAAT
2008707 TCTCTCTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
CATTAAAATAAATAGTTAAT
Found at i:2008706 original size:20 final size:21
Alignment explanation
Indices: 2008666--2008706 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2008656 TTATCCAAAA
2008666 CATTAAAAGTAATATGTTAAT
1 CATTAAAAGTAATATGTTAAT
2008687 CATTAAAA-TAA-ATAGTTAAT
1 CATTAAAAGTAATAT-GTTAAT
2008707 TCTCTCTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 9 0.47
21 8 0.42
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
CATTAAAAGTAATATGTTAAT
Found at i:2009958 original size:14 final size:14
Alignment explanation
Indices: 2009939--2009971 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2009929 TACGAACTCA
*
2009939 AAACACCCAAGCCC
1 AAACACCCAAACCC
2009953 AAACACCCAAACCC
1 AAACACCCAAACCC
2009967 AAACA
1 AAACA
2009972 TCGAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.45, G:0.03, T:0.00
Consensus pattern (14 bp):
AAACACCCAAACCC
Found at i:2017219 original size:28 final size:27
Alignment explanation
Indices: 2017182--2017235 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
2017172 TCTGCATTTA
2017182 TATGATATATAGT-ATATGATA-ATGATC
1 TATGATATAT-GTGATAT-ATATATGATC
2017209 TATGTATATATGTGATATATATATGAT
1 TATG-ATATATGTGATATATATATGAT
2017236 ATACGGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (27 bp):
TATGATATATGTGATATATATATGATC
Found at i:2017229 original size:11 final size:11
Alignment explanation
Indices: 2017188--2017238 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
2017178 TTTATATGAT
2017188 ATATAGTATATG
1 ATATA-TATATG
*
2017200 ATAATGATCTATG
1 AT-AT-ATATATG
*
2017213 -TATATATGTG
1 ATATATATATG
2017223 ATATATATATG
1 ATATATATATG
2017234 ATATA
1 ATATA
2017239 CGGGAAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
10 5 0.16
11 16 0.50
12 3 0.09
13 7 0.22
14 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (11 bp):
ATATATATATG
Found at i:2017237 original size:7 final size:7
Alignment explanation
Indices: 2017180--2017238 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
2017170 GATCTGCATT
2017180 TATATGA
1 TATATGA
2017187 TATAT-A
1 TATATGA
2017193 GTATATGA
1 -TATATGA
2017201 TA-ATGA
1 TATATGA
*
2017207 TCTATGTA
1 TATATG-A
2017215 TATATG-
1 TATATGA
2017221 TGATAT-A
1 T-ATATGA
2017228 TATATGA
1 TATATGA
2017235 TATA
1 TATA
2017239 CGGGAAACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
6 11 0.26
7 25 0.58
8 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (7 bp):
TATATGA
Found at i:2037700 original size:24 final size:25
Alignment explanation
Indices: 2037668--2037719 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
2037658 AGTCTTCCTG
*
2037668 ATGATGTATAAAACATCTATAT-AC
1 ATGATGTATAAAACATCTACATAAC
2037692 ATGATGTATAAAACATCTACATAAC
1 ATGATGTATAAAACATCTACATAAC
2037717 ATG
1 ATG
2037720 TCATGCATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (25 bp):
ATGATGTATAAAACATCTACATAAC
Found at i:2037884 original size:24 final size:25
Alignment explanation
Indices: 2037852--2037903 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
2037842 AGTCTTCCTG
*
2037852 ATGATGTATAAAACATCTATAT-AC
1 ATGATGTATAAAACATCTACATAAC
2037876 ATGATGTATAAAACATCTACATAAC
1 ATGATGTATAAAACATCTACATAAC
2037901 ATG
1 ATG
2037904 TCATGCATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (25 bp):
ATGATGTATAAAACATCTACATAAC
Found at i:2037911 original size:184 final size:184
Alignment explanation
Indices: 2037602--2037971 Score: 740
Period size: 184 Copynumber: 2.0 Consensus size: 184
2037592 TGTCTTATTG
2037602 AAGTTATAAAAAATGAAATAATATCATGATGATATAAACAAGGTCGACTTATCGCAAGTCTTCCT
1 AAGTTATAAAAAATGAAATAATATCATGATGATATAAACAAGGTCGACTTATCGCAAGTCTTCCT
2037667 GATGATGTATAAAACATCTATATACATGATGTATAAAACATCTACATAACATGTCATGCATGTAT
66 GATGATGTATAAAACATCTATATACATGATGTATAAAACATCTACATAACATGTCATGCATGTAT
2037732 TGCACTCACCTTGACACTTTATATATCCAAAATATGTGCCTCACTATGATCCGC
131 TGCACTCACCTTGACACTTTATATATCCAAAATATGTGCCTCACTATGATCCGC
2037786 AAGTTATAAAAAATGAAATAATATCATGATGATATAAACAAGGTCGACTTATCGCAAGTCTTCCT
1 AAGTTATAAAAAATGAAATAATATCATGATGATATAAACAAGGTCGACTTATCGCAAGTCTTCCT
2037851 GATGATGTATAAAACATCTATATACATGATGTATAAAACATCTACATAACATGTCATGCATGTAT
66 GATGATGTATAAAACATCTATATACATGATGTATAAAACATCTACATAACATGTCATGCATGTAT
2037916 TGCACTCACCTTGACACTTTATATATCCAAAATATGTGCCTCACTATGATCCGC
131 TGCACTCACCTTGACACTTTATATATCCAAAATATGTGCCTCACTATGATCCGC
2037970 AA
1 AA
2037972 TAAACCATTT
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 186 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (184 bp):
AAGTTATAAAAAATGAAATAATATCATGATGATATAAACAAGGTCGACTTATCGCAAGTCTTCCT
GATGATGTATAAAACATCTATATACATGATGTATAAAACATCTACATAACATGTCATGCATGTAT
TGCACTCACCTTGACACTTTATATATCCAAAATATGTGCCTCACTATGATCCGC
Found at i:2042050 original size:20 final size:21
Alignment explanation
Indices: 2042016--2042055 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2042006 TTGTGGGTAG
2042016 AGTACTTATAGTTAAATATAT
1 AGTACTTATAGTTAAATATAT
*
2042037 AGTA-TTATATTTAAATATA
1 AGTACTTATAGTTAAATATA
2042056 AAAATAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
AGTACTTATAGTTAAATATAT
Found at i:2061330 original size:4 final size:4
Alignment explanation
Indices: 2061321--2061352 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2061311 CAACTCTCAC
2061321 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
2061353 CTATTTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:2065932 original size:19 final size:19
Alignment explanation
Indices: 2065908--2065959 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
2065898 TTGGACTCTT
2065908 AGTGCATCGGTGCACAAAG
1 AGTGCATCGGTGCACAAAG
*
2065927 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACAAAG
*
2065946 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
2065960 TGAAATGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (19 bp):
AGTGCATCGGTGCACAAAG
Found at i:2066043 original size:26 final size:26
Alignment explanation
Indices: 2066012--2066061 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2066002 GCATGGTCTT
**
2066012 GTGCATCGATGCATCAAATGCATTGA
1 GTGCATCGATGCAAAAAATGCATTGA
2066038 GTGCATCGATGCAAAAAATGCATT
1 GTGCATCGATGCAAAAAATGCATT
2066062 CGATGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (26 bp):
GTGCATCGATGCAAAAAATGCATTGA
Found at i:2073014 original size:18 final size:19
Alignment explanation
Indices: 2072970--2073015 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
2072960 CAAGTAGTGT
2072970 GCTTGAAA-GCAAAATGAA
1 GCTTGAAATGCAAAATGAA
**
2072988 TATTG-AATGCAAAAT-AA
1 GCTTGAAATGCAAAATGAA
2073005 GCTTGAAATGC
1 GCTTGAAATGC
2073016 TCAAACTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
GCTTGAAATGCAAAATGAA
Done.