Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 9 of 325
Found at i:3044884 original size:45 final size:44
Alignment explanation
Indices: 3044796--3044890 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 44
3044786 TTACACATCT
3044796 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
3044840 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
3044885 ATTACA
1 ATTACA
3044891 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.43
45 26 0.57
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:3044890 original size:16 final size:16
Alignment explanation
Indices: 3044869--3044906 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3044859 TTGATTTGCT
*
3044869 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
3044885 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
3044901 AATACA
1 ATTACA
3044907 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:3045864 original size:22 final size:23
Alignment explanation
Indices: 3045839--3045884 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3045829 CAACCAAATC
*
3045839 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAGATA
*
3045861 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
3045884 A
1 A
3045885 CGTCATCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:3045890 original size:23 final size:23
Alignment explanation
Indices: 3045846--3045890 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3045836 ATCAATTCAA
* *
3045846 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
3045869 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
3045891 CACATATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:3048800 original size:42 final size:42
Alignment explanation
Indices: 3048737--3048863 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
3048727 CTTCGTTTTC
** * *
3048737 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
3048780 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
3048821 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
3048862 TC
1 TC
3048864 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:3049005 original size:31 final size:31
Alignment explanation
Indices: 3048970--3049118 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
3048960 CTTGTCACTT
*
3048970 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
3049001 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3049032 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
3049063 GTAGCAGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3049094 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
3049119 TGTCATTTAT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:3049206 original size:50 final size:51
Alignment explanation
Indices: 3049101--3049222 Score: 167
Period size: 50 Copynumber: 2.4 Consensus size: 51
3049091 CAAGTAGCTG
* * * *
3049101 AAGCTACCACTTTTCACTTGTCATTTATCATTAATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTATCATTAATCAGATAAATGTAGCCA
* *
3049152 AAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAATGTAGCCA
1 AAGCTATCACTTATCACTTGTCA-TTTATCATTAATCAGATAAATGTAGCCA
3049202 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
3049223 TGCCATGGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
50 42 0.67
51 21 0.33
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTATCATTAATCAGATAAATGTAGCCA
Found at i:3052423 original size:41 final size:41
Alignment explanation
Indices: 3052375--3052475 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
3052365 TATTCGGGAT
3052375 TTATTGCCTAGCAGACTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGACTTTGTGCCGGTGTATTAAATCAGGC
*
3052416 TTATTGCCTAGCA-AGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGA-CTTTGTGCCGGTGTATTAAATCAGGC
*
3052457 TTATTGCCTAGCAGGCTTT
1 TTATTGCCTAGCAGACTTT
3052476 ATATGCCTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.98
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGACTTTGTGCCGGTGTATTAAATCAGGC
Found at i:3055725 original size:42 final size:42
Alignment explanation
Indices: 3055635--3055806 Score: 160
Period size: 42 Copynumber: 4.0 Consensus size: 42
3055625 CTTCATTTTC
** * *
3055635 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
3055678 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
3055719 TCGATGCC----CCTAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
3055764 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
3055805 TC
1 TC
3055807 TCACTGATGC
Statistics
Matches: 108, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
38 18 0.17
41 13 0.12
42 40 0.37
43 2 0.02
44 2 0.02
45 14 0.13
47 1 0.01
49 18 0.17
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:3055948 original size:31 final size:31
Alignment explanation
Indices: 3055913--3056059 Score: 242
Period size: 31 Copynumber: 4.7 Consensus size: 31
3055903 CTTGTCACTT
*
3055913 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3055944 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
3055975 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3056006 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
3056037 GTAGCCGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
3056060 GTTGTCATTT
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.01
31 106 0.99
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:3060667 original size:23 final size:24
Alignment explanation
Indices: 3060629--3060673 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
3060619 GAGGATTTAT
3060629 AATATTCCGGGTGTGTTTGGGTTC
1 AATATTCCGGGTGTGTTTGGGTTC
*
3060653 AATATT-CTGGTGTGTTTGGGT
1 AATATTCCGGGTGTGTTTGGGT
3060674 GGAATCCGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.13, C:0.09, G:0.33, T:0.44
Consensus pattern (24 bp):
AATATTCCGGGTGTGTTTGGGTTC
Found at i:3061827 original size:11 final size:11
Alignment explanation
Indices: 3061811--3061836 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3061801 GGATATATAT
3061811 TTGGTTGTAAA
1 TTGGTTGTAAA
3061822 TTGGTTGTAAA
1 TTGGTTGTAAA
3061833 TTGG
1 TTGG
3061837 AAGTATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (11 bp):
TTGGTTGTAAA
Found at i:3064584 original size:39 final size:39
Alignment explanation
Indices: 3064473--3064576 Score: 163
Period size: 39 Copynumber: 2.7 Consensus size: 39
3064463 TGGGGTTTCA
* * *
3064473 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
3064512 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
3064551 GTTTAGCACTTTTGTGTTTCAGTTAG
1 GTTTAGCACTTATGTGCTTCAGTTAG
3064577 ATTTCGGGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.40
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:3067842 original size:121 final size:120
Alignment explanation
Indices: 3067627--3067905 Score: 420
Period size: 121 Copynumber: 2.3 Consensus size: 120
3067617 CATCCATTGT
* * *
3067627 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAGAGTAAAGGCATTGGAAAAT
1 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGACAATGGAAAAT
*
3067692 CAACATTGAAATAAGTAGTTATAATTATTGTCAACTGTTTCCATAAATTAAATTCA
66 CAACATTGAAATAAGTAGTTATAATTATTGTCAACTGTTCCCATAAATTAAATT-A
* * *
3067748 TTTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGATAATGGACAAT
1 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGACAATGGAAAAT
* * *
3067813 TAACATTGAAATTAA-TAGTTATAATTATTGTCAACTGTTCCCCTAAATTCAATTA
66 CAACATTGAAA-TAAGTAGTTATAATTATTGTCAACTGTTCCCATAAATTAAATTA
*
3067868 ATTAGGAGAAAACAATTAATAAA-TTATA-TTATATTAAA
1 ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAA
3067906 ATTAGATTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
118 10 0.07
119 4 0.03
120 23 0.16
121 105 0.72
122 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (120 bp):
ATTAGGAGAAAACAATTAATAAAGTAATAGTTATATTAAATGTTAAAGTAAAGACAATGGAAAAT
CAACATTGAAATAAGTAGTTATAATTATTGTCAACTGTTCCCATAAATTAAATTA
Found at i:3079529 original size:21 final size:21
Alignment explanation
Indices: 3079503--3079545 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3079493 GGTTCGCTGT
*
3079503 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
3079524 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
3079545 A
1 A
3079546 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:3079545 original size:16 final size:16
Alignment explanation
Indices: 3079526--3079558 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3079516 TGTATTGGAT
*
3079526 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
3079542 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
3079558 T
1 T
3079559 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:3079603 original size:45 final size:44
Alignment explanation
Indices: 3079537--3079631 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
3079527 GGATTAGAGG
* *
3079537 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
3079582 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
3079626 TGTAAT
1 TGTAAT
3079632 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:3079814 original size:18 final size:17
Alignment explanation
Indices: 3079793--3079827 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3079783 TTATTATTTA
*
3079793 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3079811 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3079828 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3079821 original size:28 final size:27
Alignment explanation
Indices: 3079751--3079823 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
3079741 TTTATTATCA
*
3079751 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
3079779 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
3079806 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
3079824 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:3079940 original size:144 final size:147
Alignment explanation
Indices: 3079712--3079983 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
3079702 ATGATTATTG
3079712 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
3079777 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
3079842 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
3079861 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
3079923 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
3079984 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:3079958 original size:18 final size:17
Alignment explanation
Indices: 3079937--3079971 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3079927 TTATTATTAA
*
3079937 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3079955 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3079972 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3080015 original size:54 final size:54
Alignment explanation
Indices: 3079957--3080135 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
3079947 ATTAAAATAT
*
3079957 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
3080011 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
3080074 TAT
53 -AC
*
3080077 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
3080131 ATAAT
1 ATAAT
3080136 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:3080017 original size:61 final size:61
Alignment explanation
Indices: 3079952--3080139 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
3079942 TTTTAATTAA
*
3079952 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
3080013 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
3080072 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
3080133 AATATAT
1 AATATAT
3080140 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:3080050 original size:120 final size:120
Alignment explanation
Indices: 3079920--3080142 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
3079910 ATCATATTTA
* *
3079920 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3079985 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
3080040 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
3080105 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
3080143 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:3080078 original size:18 final size:17
Alignment explanation
Indices: 3080057--3080091 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3080047 TTATTATTAA
3080057 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
3080075 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
3080092 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:3080154 original size:17 final size:16
Alignment explanation
Indices: 3080132--3080178 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
3080122 ACTCAAATCA
3080132 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
3080149 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
3080163 TAAATATATGATTTAA
1 T-AATATATGATTTAA
3080179 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:3080179 original size:17 final size:17
Alignment explanation
Indices: 3080151--3080184 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3080141 ATTATAACTA
*
3080151 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
3080168 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
3080185 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:3080327 original size:93 final size:92
Alignment explanation
Indices: 3080217--3080411 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
3080207 GATTATAGTT
* * *
3080217 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
3080280 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
3080310 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
3080375 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
3080402 TATGAATTTA
1 TATGAATTTA
3080412 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:3094084 original size:37 final size:37
Alignment explanation
Indices: 3094033--3094180 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
3094023 TAGCTAGGCT
****
3094033 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
3094070 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
3094107 ACCACTTATCACTTTTTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
3094144 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
3094181 GCTAAAACTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:3097166 original size:22 final size:22
Alignment explanation
Indices: 3097136--3097178 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3097126 TAAAATGCTT
3097136 AAATAATAATT-TAATATAATTA
1 AAATAATAATTATAAT-TAATTA
*
3097158 AAATCATAATTATAATTAATT
1 AAATAATAATTATAATTAATT
3097179 CTCTAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATAATAATTATAATTAATTA
Found at i:3104867 original size:18 final size:19
Alignment explanation
Indices: 3104841--3104878 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3104831 TTTAAAAATA
* *
3104841 TAAATTTTAGAAA-TATTT
1 TAAAATTTACAAATTATTT
3104859 TAAAATTTACAAATTATTT
1 TAAAATTTACAAATTATTT
3104878 T
1 T
3104879 GTAGTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
TAAAATTTACAAATTATTT
Found at i:3110143 original size:37 final size:37
Alignment explanation
Indices: 3110093--3110164 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
3110083 AAACATGACT
3110093 AAGATTACATCCTAATCATTCTTGAAAATACTTCTGC
1 AAGATTACATCCTAATCATTCTTGAAAATACTTCTGC
3110130 AAGATTACATCCTAATCATTCTTGAAAATACTTCT
1 AAGATTACATCCTAATCATTCTTGAAAATACTTCT
3110165 TCATTATCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (37 bp):
AAGATTACATCCTAATCATTCTTGAAAATACTTCTGC
Found at i:3121367 original size:34 final size:34
Alignment explanation
Indices: 3121277--3121367 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
3121267 CTAAATATTG
* *
3121277 TATTAGAAAAT-TAGATATATAATTAAGGGTATA
1 TATTAAAAAATATATATATATAATTAAGGGTATA
* *
3121310 AATTGAAAAAA-AAATCAT-TATAATTAAGGGTATA
1 TATT-AAAAAATATAT-ATATATAATTAAGGGTATA
*
3121344 TATTAAAAAATATATATAGATAAT
1 TATTAAAAAATATATATATATAAT
3121368 GGTTTAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
33 11 0.24
34 33 0.72
35 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.11, T:0.34
Consensus pattern (34 bp):
TATTAAAAAATATATATATATAATTAAGGGTATA
Found at i:3129815 original size:4 final size:4
Alignment explanation
Indices: 3129806--3129833 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
3129796 TCAATATGAA
3129806 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3129834 GTATGTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:3135270 original size:20 final size:20
Alignment explanation
Indices: 3135232--3135272 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3135222 TTATCTGATA
*
3135232 AATTTATATTTTAGGAAATT
1 AATTTATATTTTAGAAAATT
3135252 AATTTAATATTTTA-AAAATT
1 AATTT-ATATTTTAGAAAATT
3135272 A
1 A
3135273 TAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AATTTATATTTTAGAAAATT
Found at i:3135306 original size:16 final size:17
Alignment explanation
Indices: 3135265--3135307 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
3135255 TTAATATTTT
3135265 AAAAATTATAAATATATA
1 AAAAATTA-AAATATATA
**
3135283 AATTATTAAAAT-TATA
1 AAAAATTAAAATATATA
3135299 AAAAATTAA
1 AAAAATTAA
3135308 TTTTAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 6 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATTAAAATATATA
Found at i:3138708 original size:15 final size:15
Alignment explanation
Indices: 3138688--3138719 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3138678 AGCAATCTTG
3138688 TTCCAGTGTACCTGT
1 TTCCAGTGTACCTGT
3138703 TTCCAGTGTACCTGT
1 TTCCAGTGTACCTGT
3138718 TT
1 TT
3138720 AAGCAATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (15 bp):
TTCCAGTGTACCTGT
Found at i:3161098 original size:21 final size:21
Alignment explanation
Indices: 3161072--3161133 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
3161062 ATTGGGTGGA
3161072 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
3161093 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* *
3161114 TCAACT-TT-TGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
3161133 T
1 T
3161134 TATGCACATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 26 0.67
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:3169028 original size:43 final size:44
Alignment explanation
Indices: 3168965--3169093 Score: 156
Period size: 46 Copynumber: 2.9 Consensus size: 44
3168955 CTTTTATTCA
* * * *
3168965 TTCACCGACATT-TTGCCTGCTAGGCTCG-AGGCCTGATATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-ATAATG
3169007 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCG-AAGGCCCGAATAATG
* *
3169052 TCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
3169094 TAATACCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.14
43 15 0.20
44 4 0.05
45 20 0.26
46 26 0.34
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAATG
Found at i:3169143 original size:38 final size:38
Alignment explanation
Indices: 3169086--3169248 Score: 218
Period size: 38 Copynumber: 4.2 Consensus size: 38
3169076 GGCTCAAAGG
* * * * *
3169086 CCCGAATATAATACCAGCACTAGGCCTACTGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
3169124 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
3169162 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
3169200 CCCGGTTATATTACCAGCACGAAGCCCGCGGGATTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTTAA
3169239 GCCCGGATAT
1 -CCCGGATAT
3169249 CATATTTCGA
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 99 0.88
39 5 0.04
40 8 0.07
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:3174712 original size:46 final size:44
Alignment explanation
Indices: 3174622--3174736 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
3174612 TCGACATTTC
* * *
3174622 GCCTGCTAGGCTCG--AGGCCTGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAAGGCCCGA-ATAATTTCACCGGCATAATA
3174665 GCCTGCTAGGCTCGAAAGGCCCGAATAATGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATAAT-T-TCACCGGCATAATA
*
3174711 GCCTACTAGGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATA
3174737 TAATACCAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.22
44 4 0.06
45 21 0.33
46 25 0.39
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAAGGCCCGAATAATTTCACCGGCATAATA
Found at i:3174778 original size:38 final size:38
Alignment explanation
Indices: 3174729--3174853 Score: 169
Period size: 38 Copynumber: 3.2 Consensus size: 38
3174719 GGCTCAAAGG
* * * * *
3174729 CCCGAATATAATACCAGCACTAGGCCTACTGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
3174767 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
3174805 CCCGGTTATATTACCAGCACGAAGCCTGCGGGATTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTTAA
3174844 GCCCGGATAT
1 -CCCGGATAT
3174854 CATATTTCGA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 64 0.83
39 5 0.06
40 8 0.10
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:3177935 original size:16 final size:16
Alignment explanation
Indices: 3177867--3177935 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
3177857 CACATTTTTT
3177867 ATTTTTTATTT-TCAAA
1 ATTTTTTATTTAT-AAA
* *
3177883 ATTTTTTATTTTTAATTT
1 ATTTTTTATTTATAA--A
*
3177901 ATCTTTTTAATTA-ATAA
1 AT-TTTTTATTTATA-AA
3177918 ATTTTTTATTTATAAA
1 ATTTTTTATTTATAAA
3177934 AT
1 AT
3177936 CAAATAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
16 26 0.62
17 4 0.10
18 3 0.07
19 9 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTTATTTATAAA
Found at i:3177980 original size:16 final size:16
Alignment explanation
Indices: 3177939--3177980 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3177929 ATAAAATCAA
*
3177939 ATAATTATT-GTAAAT
1 ATAATTTTTAGTAAAT
*
3177954 ATTATTTTTTAGTAAAT
1 A-TAATTTTTAGTAAAT
3177971 ATAATTTTTA
1 ATAATTTTTA
3177981 TACGTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 14 0.64
17 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
ATAATTTTTAGTAAAT
Found at i:3180050 original size:2 final size:2
Alignment explanation
Indices: 3180045--3180077 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3180035 TAATGAACAA
3180045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3180078 AAGAACAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3180569 original size:17 final size:17
Alignment explanation
Indices: 3180547--3180581 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3180537 TTTTCATGTC
3180547 ATTTAATGATTAAATTA
1 ATTTAATGATTAAATTA
3180564 ATTTAATGATTAAATTA
1 ATTTAATGATTAAATTA
3180581 A
1 A
3180582 CGGTTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTTAATGATTAAATTA
Found at i:3184036 original size:72 final size:72
Alignment explanation
Indices: 3183914--3184057 Score: 175
Period size: 72 Copynumber: 2.0 Consensus size: 72
3183904 TGATTTGAAT
* * * * * *
3183914 GATTTACTATTTTGTTGTCTGTAATACTTCATAACCCTGTTCTGATGACGGATACGGGTTAG-GG
1 GATTGACTATTCTGTTGTCTGTAATACTCCATAACCCTGTTCAGACGACGGATACGAGTTAGAGG
3183978 TGTTACA
66 TGTTACA
* *
3183985 GATTGACTATTCTGTTGTCTTGTAATACTCCGTAACCTTGTTCCAG-CGACGGATACGAGTTAGA
1 GATTGACTATTCTGTTGTC-TGTAATACTCCATAACCCTGTT-CAGACGACGGATACGAGTTAGA
*
3184049 TGTGTTACA
64 GGTGTTACA
3184058 TATAAATAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
71 17 0.28
72 34 0.56
73 10 0.16
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (72 bp):
GATTGACTATTCTGTTGTCTGTAATACTCCATAACCCTGTTCAGACGACGGATACGAGTTAGAGG
TGTTACA
Found at i:3188418 original size:19 final size:19
Alignment explanation
Indices: 3188394--3188432 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3188384 GCTTTTTTTC
3188394 TTGGGTTATATAGTTATGT
1 TTGGGTTATATAGTTATGT
3188413 TTGGGTTATATAGTTATGT
1 TTGGGTTATATAGTTATGT
3188432 T
1 T
3188433 AAAAGGGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.54
Consensus pattern (19 bp):
TTGGGTTATATAGTTATGT
Found at i:3198019 original size:2 final size:2
Alignment explanation
Indices: 3198012--3198043 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3198002 TTTACCAATA
3198012 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3198044 CCTCCCCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3219650 original size:21 final size:22
Alignment explanation
Indices: 3219626--3219671 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
3219616 AATTTAGTCT
*
3219626 ATTTACTTTTTAA-ATT-TTAAA
1 ATTTAC-TATTAACATTGTTAAA
3219647 ATTTACTATTAACATTGTTAAA
1 ATTTACTATTAACATTGTTAAA
3219669 ATT
1 ATT
3219672 ATTTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAACATTGTTAAA
Found at i:3225842 original size:15 final size:16
Alignment explanation
Indices: 3225812--3225850 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
3225802 TATTAAAAAT
3225812 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
3225829 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
3225844 ATAATTT
1 ATAATTT
3225851 TTGATTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:3225843 original size:24 final size:23
Alignment explanation
Indices: 3225783--3225851 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
3225773 AATTGAAATT
* *
3225783 AAATTGTATATTTTTATGATATTA
1 AAATT-TATATTTTTATAATTTTA
* * *
3225807 AAA-ATATAATTTTATTATTTTA
1 AAATTTATATTTTTATAATTTTA
3225829 ATAATTTATATTTTTATAATTTT
1 A-AATTTATATTTTTATAATTTT
3225852 TGATTGATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 16 0.44
23 2 0.06
24 18 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (23 bp):
AAATTTATATTTTTATAATTTTA
Found at i:3237816 original size:3 final size:3
Alignment explanation
Indices: 3237802--3237839 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
3237792 ATAAAACCCT
*
3237802 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
3237840 ATTGTTCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:3244717 original size:39 final size:38
Alignment explanation
Indices: 3244674--3244783 Score: 161
Period size: 39 Copynumber: 2.9 Consensus size: 38
3244664 TGAAGTATAT
3244674 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGCACAC
1 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGC-CAC
* * **
3244713 AAGTGCTAAACGGAATCCTAAAGGCTAACTGAAG-CAC
1 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGCCAC
3244750 -AGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGC
1 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGC
3244784 TCATCAGAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 29 0.47
37 3 0.05
39 30 0.48
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (38 bp):
AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGCCAC
Found at i:3244773 original size:36 final size:37
Alignment explanation
Indices: 3244674--3244783 Score: 159
Period size: 36 Copynumber: 2.9 Consensus size: 37
3244664 TGAAGTATAT
3244674 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGCACAC
1 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAG--CAC
* * **
3244713 AAGTGCTAAACGGAATCCTAAAGGCTAACTGAAGCAC
1 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGCAC
3244750 -AGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGC
1 AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGC
3244784 TCATCAGAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
36 30 0.48
37 3 0.05
39 30 0.48
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (37 bp):
AAGTGCTAAATGGAAGCCCGAAGGCTAACTGAAGCAC
Found at i:3247913 original size:46 final size:46
Alignment explanation
Indices: 3247861--3248036 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
3247851 TGGTTGAGCA
*
3247861 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
3247907 TTCGAACTCGTTGAGTTGAGGCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
3247952 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
3248000 -CCCAAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3248037 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 56 0.53
47 26 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3248017 original size:93 final size:93
Alignment explanation
Indices: 3247858--3248028 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
3247848 GGATGGTTGA
* * *
3247858 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAGT
3247923 TGAGGCCGAGTTCGTGAGATGTAACTAG
66 TGAGGCCGAGTTCGTGAGATGTAACTAG
* *
3247951 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAA-CTCGTTGAG
*
3248015 TTGAGTCCGAGTTC
65 TTGAGGCCGAGTTC
3248029 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAGT
TGAGGCCGAGTTCGTGAGATGTAACTAG
Found at i:3248491 original size:12 final size:12
Alignment explanation
Indices: 3248474--3248503 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
3248464 TTTCACATGA
3248474 AAGAAACAGGGG
1 AAGAAACAGGGG
3248486 AAGAAACAGGGG
1 AAGAAACAGGGG
3248498 AAGAAA
1 AAGAAA
3248504 AAGAATTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.37, T:0.00
Consensus pattern (12 bp):
AAGAAACAGGGG
Found at i:3251211 original size:46 final size:46
Alignment explanation
Indices: 3251144--3251318 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
3251134 TGTAACCCGC
3251144 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCTCAT
*
3251190 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGT-TACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCCT--TCT-CAT
* * * ** * *
3251240 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCTCAT
* *
3251283 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
3251319 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 4 0.04
46 61 0.56
47 26 0.24
48 6 0.06
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCTCAT
Found at i:3256767 original size:59 final size:59
Alignment explanation
Indices: 3256690--3256801 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
3256680 TTTTTATCAC
*
3256690 CTAATTATGAAAAGTTACAAAAT-AGTCACCCAAATATTAATAAATTTATTTTTAGGTCA
1 CTAATTATAAAAAGTTACAAAATGA-TCACCCAAATATTAATAAATTTATTTTTAGGTCA
* ** * *
3256749 CTAATTATAAAAAGTTACAAGATGATCACTTAACTATTAGTAAATTTATTTTT
1 CTAATTATAAAAAGTTACAAAATGATCACCCAAATATTAATAAATTTATTTTT
3256802 TAATCCCTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 45 0.98
60 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (59 bp):
CTAATTATAAAAAGTTACAAAATGATCACCCAAATATTAATAAATTTATTTTTAGGTCA
Found at i:3265843 original size:24 final size:24
Alignment explanation
Indices: 3265812--3265862 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
3265802 AATAATTTTA
3265812 TATATATTATTGATACATGGAAAT
1 TATATATTATTGATACATGGAAAT
3265836 TATATATTATTGATACATGGAAAT
1 TATATATTATTGATACATGGAAAT
3265860 TAT
1 TAT
3265863 TGTACTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (24 bp):
TATATATTATTGATACATGGAAAT
Found at i:3266816 original size:37 final size:38
Alignment explanation
Indices: 3266750--3266827 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
3266740 ATAAGAGTTG
* **
3266750 AAAATAGATATTATGTAAAAATCTGAAAT-AAATAAAT
1 AAAATAGAAATTATGTAAAAAAATGAAATAAAATAAAT
*
3266787 AAAATAGAAATT-TGTAAAAAAATGAAAATAAAATGAAT
1 AAAATAGAAATTATGTAAAAAAATG-AAATAAAATAAAT
3266825 AAA
1 AAA
3266828 TAAATACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 10 0.29
37 15 0.43
38 10 0.29
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (38 bp):
AAAATAGAAATTATGTAAAAAAATGAAATAAAATAAAT
Found at i:3266928 original size:20 final size:20
Alignment explanation
Indices: 3266891--3266928 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3266881 TAATAGGACA
*
3266891 GTAATAATAGTAATAATACG
1 GTAATAATAGTAAAAATACG
3266911 GTAATAA-AGTAGAAAATA
1 GTAATAATAGTA-AAAATA
3266929 ATAATGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (20 bp):
GTAATAATAGTAAAAATACG
Found at i:3267047 original size:20 final size:20
Alignment explanation
Indices: 3267024--3267061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3267014 TAACACAATA
3267024 TTAATAAAAATAATAATAGG
1 TTAATAAAAATAATAATAGG
* *
3267044 TTAATAATAATAGTAATA
1 TTAATAAAAATAATAATA
3267062 AAAAGGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TTAATAAAAATAATAATAGG
Found at i:3267159 original size:3 final size:3
Alignment explanation
Indices: 3267145--3267200 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
3267135 TAGTATATAG
*
3267145 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3267193 AAT AAT AA
1 AAT AAT AA
3267201 CACTCTCCCC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3267163 original size:15 final size:15
Alignment explanation
Indices: 3267111--3267196 Score: 90
Period size: 15 Copynumber: 5.9 Consensus size: 15
3267101 ACGTTACTAA
3267111 TAATAATAATAA-AG
1 TAATAATAATAATAG
* *
3267125 -AA-AACAGTAATAG
1 TAATAATAATAATAG
*
3267138 T-ATATAGAATAATAG
1 TAATA-ATAATAATAG
*
3267153 TAATAATAATAATAA
1 TAATAATAATAATAG
*
3267168 TAATAATAATAATAA
1 TAATAATAATAATAG
3267183 TAATAATAATAATA
1 TAATAATAATAATA
3267197 ATAACACTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.10
13 5 0.08
14 1 0.02
15 46 0.75
16 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:3268924 original size:13 final size:13
Alignment explanation
Indices: 3268906--3268974 Score: 66
Period size: 13 Copynumber: 5.0 Consensus size: 13
3268896 GGTGATGGAG
3268906 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
*
3268919 TTAGTGGGGTGTTGGAG
1 TTAGT-GGG-G-TGG-T
3268936 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
*
3268949 TTAATGGGGTGGT
1 TTAGTGGGGTGGT
* *
3268962 ATAATGGGGTGGT
1 TTAGTGGGGTGGT
3268975 ATTTGGGTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
13 29 0.60
14 6 0.12
15 2 0.04
16 6 0.12
17 5 0.10
ACGTcount: A:0.13, C:0.00, G:0.51, T:0.36
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:3268935 original size:30 final size:30
Alignment explanation
Indices: 3268895--3268959 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
3268885 CAGGCAAGTA
*
3268895 GGGTGATGGAGTTAGTGGGGTGGTTTAGTG
1 GGGTGATGGAGTTAGTGGGGTGGTTTAATG
*
3268925 GGGTGTTGGAGTTAGTGGGGTGGTTTAATG
1 GGGTGATGGAGTTAGTGGGGTGGTTTAATG
3268955 GGGTG
1 GGGTG
3268960 GTATAATGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.12, C:0.00, G:0.54, T:0.34
Consensus pattern (30 bp):
GGGTGATGGAGTTAGTGGGGTGGTTTAATG
Found at i:3268941 original size:17 final size:16
Alignment explanation
Indices: 3268895--3268946 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
3268885 CAGGCAAGTA
3268895 GGGTGATGGAGTTAGT-
1 GGGTG-TGGAGTTAGTG
*
3268911 GGG-GTGG-TTTAGTG
1 GGGTGTGGAGTTAGTG
3268925 GGGTGTTGGAGTTAGTG
1 GGGTG-TGGAGTTAGTG
3268942 GGGTG
1 GGGTG
3268947 GTTTAATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.17
14 6 0.20
15 2 0.07
16 6 0.20
17 11 0.37
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.33
Consensus pattern (16 bp):
GGGTGTGGAGTTAGTG
Found at i:3269305 original size:44 final size:43
Alignment explanation
Indices: 3269261--3269503 Score: 161
Period size: 44 Copynumber: 5.6 Consensus size: 43
3269251 TCCAGCCTAT
3269261 TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTA
1 TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTA
* * * * *** * * * *
3269304 TTCCAGTACTGTTTAGGGAGATAA--CATATATAATTTTCAACCTGT
1 TTCC-CTACTGCTTAGGGGGATAAGGC-T-CACCGTCTTCGATCT-A
*
3269349 TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTG
1 TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTA
* * * * *** * *
3269392 CTCTACTACTGCTTAGGGAGATAA-GATCTATAATTTTC-AGTTTA
1 TTC-CCTACTGCTTAGGGGGATAAGGCTC-ACCGTCTTCGA-TCTA
* *
3269436 TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTTTTCGATCTG
1 TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTA
* *
3269479 CTCCACTACTGCTTAGGGAGATAAG
1 TTCC-CTACTGCTTAGGGGGATAAG
3269504 ATTTGTAATT
Statistics
Matches: 145, Mismatches: 43, Indels: 23
0.69 0.20 0.11
Matches are distributed among these distances:
42 1 0.01
43 40 0.28
44 98 0.68
45 5 0.03
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (43 bp):
TTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTA
Found at i:3269353 original size:88 final size:88
Alignment explanation
Indices: 3269219--3269676 Score: 578
Period size: 88 Copynumber: 5.2 Consensus size: 88
3269209 CAATCTGCTT
* * * *
3269219 CACTACTGCTTAGGGAGATAAGATTTGTAACTTCCAGCCTATTTCCCTACTGCTTAGGGGGATAA
1 CACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
*
3269284 GGCTCACCGTCTTCGATCTATTC
66 GGCTCACCGTCTTCGATCTACTC
* * * * * *
3269307 CAGTACTGTTTAGGGAGATAACATATATAATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAA
1 CACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
*
3269372 GGCTCACCGTCTTCGATCTGCTC
66 GGCTCACCGTCTTCGATCTACTC
* * *
3269395 TACTACTGCTTAGGGAGATAAGATCTATAATTTTCAG--TTTATTCCCTACTGCTTAGGGGGATA
1 CACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGT-TTCCCTACTGCTTAGGGGGATA
* *
3269458 AGGCTCACCGTTTTCGATCTGCTC
65 AGGCTCACCGTCTTCGATCTACTC
*
3269482 CACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
1 CACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
* * *
3269547 GGCTTACCGTCTTCAACCTACTC
66 GGCTCACCGTCTTCGATCTACTC
* * * * * * * * * *
3269570 CACTATTACTTAGGGAGATAGGGTGGTCTGTCATCTTCAGCCAGTTTTCTTACTGTTTAGGGGGA
1 CACTACTGCTTAGGGAGATA---AGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGA
*
3269635 TAAGGCTCACCGTCTTCGATCTAATC
63 TAAGGCTCACCGTCTTCGATCTACTC
3269661 CACTACTGCTTAGGGA
1 CACTACTGCTTAGGGA
3269677 TAGGTTGGTG
Statistics
Matches: 319, Mismatches: 45, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
86 2 0.01
87 79 0.25
88 167 0.52
89 2 0.01
91 69 0.22
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (88 bp):
CACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAA
GGCTCACCGTCTTCGATCTACTC
Found at i:3269515 original size:175 final size:175
Alignment explanation
Indices: 3269207--3269676 Score: 586
Period size: 175 Copynumber: 2.7 Consensus size: 175
3269197 GAATTTTTGT
* * * *
3269207 TTCAATCTGCT-TCACTACTGCTTAGGGAGATAAGATTTGTAACTTCCAGCCTATTTCCCTACTG
1 TTCAATCTGCTCT-ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTA-TTCCCTACTG
* * *
3269271 CTTAGGGGGATAAGGCTCACCGTCTTCGATCTATTCCAGTACTGTTTAGGGAGATAACATATATA
64 CTTAGGGGGATAAGGCTCACCGTCTTCGATCTAATCCACTACTGCTTAGGGAGATAACATATATA
3269336 ATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTC
129 ATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTC
* * *
3269383 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGTTTATTCCCTACTGCT
1 TTCAATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTATTCCCTACTGCT
* ** * * *
3269448 TAGGGGGATAAGGCTCACCGTTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAAT
66 TAGGGGGATAAGGCTCACCGTCTTCGATCTAATCCACTACTGCTTAGGGAGATAACATATATAAT
* *
3269513 TTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTTACCGTC
131 TTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTC
* * * * * * * * * *
3269558 TTCAACCTACTCCACTATTACTTAGGGAGATAGGGTGGTCTGTCATCTTCAGCCAGTT-TT-CTT
1 TTCAATCTGCTCTACTACTGCTTAGGGAGATA---AGATCTGTAATTTTCAG-C--TTATTCCCT
*
3269621 ACTGTTTAGGGGGATAAGGCTCACCGTCTTCGATCTAATCCACTACTGCTTAGGGA
60 ACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTAATCCACTACTGCTTAGGGA
3269677 TAGGTTGGTG
Statistics
Matches: 253, Mismatches: 34, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
175 138 0.55
176 44 0.17
177 1 0.00
178 12 0.05
179 54 0.21
180 2 0.01
181 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (175 bp):
TTCAATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTATTCCCTACTGCT
TAGGGGGATAAGGCTCACCGTCTTCGATCTAATCCACTACTGCTTAGGGAGATAACATATATAAT
TTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTC
Found at i:3269516 original size:44 final size:43
Alignment explanation
Indices: 3269310--3269547 Score: 138
Period size: 44 Copynumber: 5.4 Consensus size: 43
3269300 TCTATTCCAG
* * * ** *
3269310 TACTGTTTAGGGAGATAACATATATAATTTTCAACCTGTTTCCC
1 TACTGCTTAGGGAGATAAGATTTATAATTTTCAGTCTG-CTCCC
* ** * *** * *
3269354 TACTGCTTAGGGGGATAAGGCTCACCGTCTTC-GATCTGCTCTAC
1 TACTGCTTAGGGAGATAAGATTTATAATTTTCAG-TCTGCTC-CC
* * **
3269398 TACTGCTTAGGGAGATAAGATCTATAATTTTCAGTTTATTCCC
1 TACTGCTTAGGGAGATAAGATTTATAATTTTCAGTCTGCTCCC
* ** * ***
3269441 TACTGCTTAGGGGGATAAGGCTCACCGTTTTC-GATCTGCTCCAC
1 TACTGCTTAGGGAGATAAGATTTATAATTTTCAG-TCTGCTCC-C
* * *
3269485 TACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTTCCC
1 TACTGCTTAGGGAGATAAGATTTATAATTTTCAGTCTG-CTCCC
*
3269529 TACTGCTTAGGGGGATAAG
1 TACTGCTTAGGGAGATAAG
3269548 GCTTACCGTC
Statistics
Matches: 137, Mismatches: 50, Indels: 14
0.68 0.25 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.23
44 99 0.72
45 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (43 bp):
TACTGCTTAGGGAGATAAGATTTATAATTTTCAGTCTGCTCCC
Found at i:3269960 original size:64 final size:63
Alignment explanation
Indices: 3269878--3270003 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 63
3269868 CATGTATCTG
3269878 TGCTTATGCCAAACAATTAGAATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGA
1 TGCTTATGCCAAACAATTAGAATACTATGATCGAAATGAATCAAATGCTCC-AACTAGATGTGA
* * * * * *
3269942 TGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCCAATGTTCCAACTAGATGTG
1 TGCTTATGCCAAACAATTAGAATACTATGATCGAAATGAATCAAATGCTCCAACTAGATGTG
3270004 TTATGAATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 11 0.20
64 45 0.80
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (63 bp):
TGCTTATGCCAAACAATTAGAATACTATGATCGAAATGAATCAAATGCTCCAACTAGATGTGA
Found at i:3271627 original size:13 final size:14
Alignment explanation
Indices: 3271611--3271656 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3271601 TTTTTTGTTG
3271611 TTTTT-GTT-TTTAT
1 TTTTTCGTTCTTT-T
3271624 TTTTTCGTTCTTTT
1 TTTTTCGTTCTTTT
* *
3271638 TTTTTCTTTCTTTC
1 TTTTTCGTTCTTTT
3271652 TTTTT
1 TTTTT
3271657 GGCTGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 5 0.17
14 21 0.72
15 3 0.10
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTTTCGTTCTTTT
Found at i:3271637 original size:23 final size:22
Alignment explanation
Indices: 3271600--3271642 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3271590 CTTCTACAAT
* *
3271600 TTTTTTTGTTGTTTTTGTTTTTA
1 TTTTTTCGTTCTTTTT-TTTTTA
3271623 TTTTTTCGTTCTTTTTTTTT
1 TTTTTTCGTTCTTTTTTTTT
3271643 CTTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (22 bp):
TTTTTTCGTTCTTTTTTTTTTA
Found at i:3271638 original size:18 final size:18
Alignment explanation
Indices: 3271617--3271656 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3271607 GTTGTTTTTG
*
3271617 TTTTTATTT-TTTCGTTC
1 TTTTTTTTTCTTTCGTTC
*
3271634 TTTTTTTTTCTTTCTTTC
1 TTTTTTTTTCTTTCGTTC
3271652 TTTTT
1 TTTTT
3271657 GGCTGTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTCTTTCGTTC
Found at i:3272248 original size:9 final size:9
Alignment explanation
Indices: 3272222--3272260 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
3272212 TTCAATCAAG
*
3272222 TTAATCGAG
1 TTAATCGAA
3272231 TTAATCGAA
1 TTAATCGAA
3272240 TTAATCGAA
1 TTAATCGAA
*
3272249 TCAAATCGAA
1 T-TAATCGAA
3272259 TT
1 TT
3272261 TGTTTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (9 bp):
TTAATCGAA
Found at i:3277295 original size:20 final size:20
Alignment explanation
Indices: 3277258--3277295 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3277248 TAATAGGACA
*
3277258 GTAATAATAGTAATAATACG
1 GTAATAATAGTAAAAATACG
3277278 GTAATAA-AGTAGAAAATA
1 GTAATAATAGTA-AAAATA
3277296 ATAATGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (20 bp):
GTAATAATAGTAAAAATACG
Found at i:3278719 original size:11 final size:12
Alignment explanation
Indices: 3278703--3278731 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
3278693 ATCAAAAATT
3278703 AAAAAGAAA-AA
1 AAAAAGAAAGAA
3278714 AAAAAGAAAGAA
1 AAAAAGAAAGAA
3278726 AAAAAG
1 AAAAAG
3278732 GAGGAGCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:3278766 original size:40 final size:40
Alignment explanation
Indices: 3278722--3278802 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
3278712 AAAAAAAGAA
3278722 AGAAAAAAAGGAGGAGCGGTTTCTACGTTAAAAGCTAAAC
1 AGAAAAAAAGGAGGAGCGGTTTCTACGTTAAAAGCTAAAC
*
3278762 AGAAAAAAAGGGGGAGCGGTTTCTACGTTAAAAGCTAAAC
1 AGAAAAAAAGGAGGAGCGGTTTCTACGTTAAAAGCTAAAC
3278802 A
1 A
3278803 TCTTTTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.17
Consensus pattern (40 bp):
AGAAAAAAAGGAGGAGCGGTTTCTACGTTAAAAGCTAAAC
Found at i:3289588 original size:28 final size:28
Alignment explanation
Indices: 3289548--3289611 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
3289538 TTTAATTAAG
*
3289548 AATTTTTTATACCTGATATATTTTTTAC
1 AATTTTTTATACCTGATATAATTTTTAC
*
3289576 AATTTTTTATACCTGTTATAATTTTTAC
1 AATTTTTTATACCTGATATAATTTTTAC
3289604 AATTTTTT
1 AATTTTTT
3289612 TAAAATTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.59
Consensus pattern (28 bp):
AATTTTTTATACCTGATATAATTTTTAC
Found at i:3307336 original size:45 final size:46
Alignment explanation
Indices: 3307280--3307387 Score: 146
Period size: 46 Copynumber: 2.4 Consensus size: 46
3307270 GTCTCTCATT
*
3307280 TATGGTCTTATTTATTTT-TGACATGATGCCATAGTGTCTTTCAAC
1 TATGGTCTTATTTATTTTCTGACATGATGCCATAGTATCTTTCAAC
* * * *
3307325 TATGGTTTTATTTATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TATGGTCTTATTTATTTTCTGACATGATGCCATAGTATCTTTCAAC
* *
3307371 CATGGTCTTGTTTATTT
1 TATGGTCTTATTTATTT
3307388 CATATCACGT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
45 17 0.31
46 37 0.69
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (46 bp):
TATGGTCTTATTTATTTTCTGACATGATGCCATAGTATCTTTCAAC
Found at i:3307376 original size:46 final size:46
Alignment explanation
Indices: 3307350--3307579 Score: 298
Period size: 46 Copynumber: 5.0 Consensus size: 46
3307340 TTTCTGTCAT
**** *
3307350 GTTGCCATGGTATCTTTCAACCATGGTCTTGTTTATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* * *
3307396 GTTGTCATGTTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
** * * *
3307442 GTTGTTATGGTATCTTTCAACTATGGTTTTACACATTTTATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* *
3307488 GTTGCTATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* * *
3307534 ATTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
3307580 AGAGCACACT
Statistics
Matches: 160, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:3307508 original size:138 final size:138
Alignment explanation
Indices: 3307316--3307576 Score: 362
Period size: 138 Copynumber: 1.9 Consensus size: 138
3307306 TGCCATAGTG
*** * * * * *
3307316 TCTTTCAACTATGGTTTTATTTATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACTATGGTTTTACACATTTTATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTA
*** * *
3307381 TTTATTTCATATCACG-TTGTCATGTTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTT
66 CACATTTCATATCA-GATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTT
3307445 GTTATGGTA
130 GTTATGGTA
*
3307454 TCTTTCAACTATGGTTTTACACATTTTATATCAGGTTGCTATGATATCTTTCAACCATGGTCTTA
1 TCTTTCAACTATGGTTTTACACATTTTATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTA
* *
3307519 CACATTTCATATCAGATTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
66 CACATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
3307577 CAGAGAGCAC
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 105 0.99
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (138 bp):
TCTTTCAACTATGGTTTTACACATTTTATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTA
CACATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTG
TTATGGTA
Found at i:3309686 original size:11 final size:11
Alignment explanation
Indices: 3309666--3309700 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
3309656 AATAATTAAC
3309666 AATAAAATAAT
1 AATAAAATAAT
*
3309677 AATGAAATAAT
1 AATAAAATAAT
3309688 AATAAAATAAT
1 AATAAAATAAT
3309699 AA
1 AA
3309701 AATAACTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:3309734 original size:20 final size:20
Alignment explanation
Indices: 3309668--3309743 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
3309658 TAATTAACAA
*
3309668 TAAAATAATA-ATGAAATAAT
1 TAAAATAATATAT-AACTAAT
* *
3309688 AATAAAATAATAAAATAACTCAT
1 --TAAAATAAT-ATATAACTAAT
*
3309711 TAAAATAATATATATCTAAT
1 TAAAATAATATATAACTAAT
3309731 T-AAATAAT-TATAA
1 TAAAATAATATATAA
3309744 AATATCATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.09
19 7 0.15
20 9 0.20
21 9 0.20
22 9 0.20
23 6 0.13
24 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (20 bp):
TAAAATAATATATAACTAAT
Found at i:3310394 original size:35 final size:35
Alignment explanation
Indices: 3310348--3310418 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
3310338 CCACAACAAG
3310348 GTTTGATATCAAAAGACCTAATATCCCACTTTCCT
1 GTTTGATATCAAAAGACCTAATATCCCACTTTCCT
3310383 GTTTGATATCAAAAGACCTAATATCCCACTTTCCT
1 GTTTGATATCAAAAGACCTAATATCCCACTTTCCT
3310418 G
1 G
3310419 ACTCTTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (35 bp):
GTTTGATATCAAAAGACCTAATATCCCACTTTCCT
Found at i:3311130 original size:31 final size:31
Alignment explanation
Indices: 3311095--3311154 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
3311085 GAAAATCCTA
*
3311095 AAGCTCAAG-CTTCAATATGAGAATAATTGTC
1 AAGCTCAAGTC-TCAATATGAGAACAATTGTC
*
3311126 AAGCTTAAGTCTCAATATGAGAACAATTG
1 AAGCTCAAGTCTCAATATGAGAACAATTG
3311155 CCAATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (31 bp):
AAGCTCAAGTCTCAATATGAGAACAATTGTC
Found at i:3313730 original size:24 final size:24
Alignment explanation
Indices: 3313686--3313745 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
3313676 GATGTGAATT
3313686 TAATGAAAATAATTTACTAAATAAA-
1 TAAT-AAAATAATTTACTAAA-AAAG
*
3313711 TAATAAAATATATTT-TTAAAAAAG
1 TAATAAAATA-ATTTACTAAAAAAG
*
3313735 TACTAAAATAA
1 TAATAAAATAA
3313746 AATAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 4 0.13
24 19 0.61
25 8 0.26
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
TAATAAAATAATTTACTAAAAAAG
Found at i:3316750 original size:60 final size:60
Alignment explanation
Indices: 3316686--3316804 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
3316676 GCTGGCAGAG
*
3316686 ATAATGGAGCT-GGAGCTGGAGCTGGAGCCGCTGCAGCTAGTGGTTTTGGAGCTGGTGGAA
1 ATAAT-GAGCTCGGAGCTGGAGCTGGAGCCGCTGCAGCTAGTGGTTTTGGAGATGGTGGAA
*** * *
3316746 ATAATGCTTTCGGAGCTGGAGCTGGAGCCGCTGGAGCTGGTGGTTTTGGAGATGGTGGA
1 ATAATGAGCTCGGAGCTGGAGCTGGAGCCGCTGCAGCTAGTGGTTTTGGAGATGGTGGA
3316805 GATGATGGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 2 0.04
60 50 0.96
ACGTcount: A:0.18, C:0.14, G:0.42, T:0.25
Consensus pattern (60 bp):
ATAATGAGCTCGGAGCTGGAGCTGGAGCCGCTGCAGCTAGTGGTTTTGGAGATGGTGGAA
Found at i:3320811 original size:19 final size:19
Alignment explanation
Indices: 3320762--3320812 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
3320752 ATATATAAAA
* *
3320762 TATAAATTTTAA-ATACTT
1 TATAAAATTTAATATAATT
* *
3320780 TTTAAACTATTAATATAATT
1 TATAAAAT-TTAATATAATT
3320800 TATAAAATTTAAT
1 TATAAAATTTAAT
3320813 TTAAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.23
19 9 0.35
20 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TATAAAATTTAATATAATT
Found at i:3321417 original size:27 final size:25
Alignment explanation
Indices: 3321387--3321448 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
3321377 AAATATTTTA
* *
3321387 AAATAATAATAAATTTATATTTATATT
1 AAATAAAAAT-AA-TTATATTGATATT
*
3321414 AAATAAAAATCATTATATTGATATT
1 AAATAAAAATAATTATATTGATATT
3321439 AAATATAAAA
1 AAATA-AAAA
3321449 GAGTCCCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.55
26 5 0.16
27 9 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATAAAAATAATTATATTGATATT
Found at i:3321515 original size:6 final size:6
Alignment explanation
Indices: 3321504--3321531 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3321494 ACGGGTGGTG
3321504 GGGAGA GGGAGA GGGAGA GGGAGA GGGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGA
3321532 TGGAGTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:3321626 original size:18 final size:18
Alignment explanation
Indices: 3321603--3321640 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3321593 TTAAAATTAT
3321603 TTTTTTACATTT-TTATAA
1 TTTTTTA-ATTTCTTATAA
*
3321621 TTTTTTATTTTCTTATAA
1 TTTTTTAATTTCTTATAA
3321639 TT
1 TT
3321641 AAGATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTAATTTCTTATAA
Found at i:3341699 original size:40 final size:40
Alignment explanation
Indices: 3341643--3341728 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
3341633 ATAGTCAGAG
*
3341643 AAAGATTCTCATAGCAGATTATTCTAAAACAGGATAAAGA
1 AAAGATTCTCACAGCAGATTATTCTAAAACAGGATAAAGA
3341683 AAAGATTCTCACAGCAGATTATTCTAAAACAGGATAAAGA
1 AAAGATTCTCACAGCAGATTATTCTAAAACAGGATAAAGA
3341723 AAAGAT
1 AAAGAT
3341729 ATTATGTAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (40 bp):
AAAGATTCTCACAGCAGATTATTCTAAAACAGGATAAAGA
Found at i:3353367 original size:19 final size:18
Alignment explanation
Indices: 3353325--3353423 Score: 65
Period size: 19 Copynumber: 5.2 Consensus size: 18
3353315 TAAAGAGATC
* *
3353325 ATTTAATATCTATATTTGA
1 ATTTAATATTTA-ATTTAA
* *
3353344 TTTTAATATTCAATTTAA
1 ATTTAATATTTAATTTAA
* *
3353362 TATTTAAATTTTTTATCTT-A
1 -ATTT-AATATTTAAT-TTAA
* *
3353382 ATTTAATAATTAAATTTGA
1 ATTTAAT-ATTTAATTTAA
3353401 ATTTAATATTTAATTTAA
1 ATTTAATATTTAATTTAA
3353419 TATTT
1 -ATTT
3353424 GAATTAAACA
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
18 19 0.31
19 32 0.52
20 8 0.13
21 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTAATATTTAATTTAA
Found at i:3353430 original size:12 final size:13
Alignment explanation
Indices: 3353391--3353428 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
3353381 AATTTAATAA
3353391 TTAA-ATTTGAAT
1 TTAATATTTGAAT
3353403 TTAATATTT-AAT
1 TTAATATTTGAAT
3353415 TTAATATTTGAAT
1 TTAATATTTGAAT
3353428 T
1 T
3353429 AAACAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (13 bp):
TTAATATTTGAAT
Found at i:3355249 original size:214 final size:215
Alignment explanation
Indices: 3354874--3355307 Score: 728
Period size: 213 Copynumber: 2.0 Consensus size: 215
3354864 AATTGTTAGG
3354874 ATTTTGTTGAATTCTAAATCTCATAGTTCTTTTGAGGGCTTCTAGTTCTAGTTATGTTTTCCTTT
1 ATTTTGTTGAATTCTAAATCTCATAGTTCTTTTGAGGGCTTCTAGTTCTAGTTATGTTTTCCTTT
*
3354939 GGTATATAGCTTCTTCCATAGCACTTGAAGATGTTCGATTCTTCTTGTATTCTACAATATTTATA
66 GGTATATAGCTTCTTCCATAGCACTTGAAGATGTTCGATTCTTCTTGGATTCTACAATATTTATA
* * *
3355004 GCTGGACAAACTTAAAAAGAGAAGAGG-AAAAAAAGAGAGCAATCAATCTATGGTTGTTGTTACC
131 GCGGGACAAACTTAAAAAGAAAAGAGGAAAAAAAAAAGAGCAATCAATCTATGGTTGTTGTTACC
3355068 GCATGACGATGTATCTAACC
196 GCATGACGATGTATCTAACC
3355088 ATTTTGTTGAATTCTAAATCTCATAGTTCTTTTGAGGGCTTCTAGTTCTAGTTATGTTTTCCTTT
1 ATTTTGTTGAATTCTAAATCTCATAGTTCTTTTGAGGGCTTCTAGTTCTAGTTATGTTTTCCTTT
* * *
3355153 GGTATA-ATCTTTTTCCATAGCACTTGAAGATGTTCTATTCTTCTTGGATTCTACAATATTTATA
66 GGTATATAGCTTCTTCCATAGCACTTGAAGATGTTCGATTCTTCTTGGATTCTACAATATTTATA
* *
3355217 GCGGGACAAATTTAAAAAGAAAAGAGGGAAAAAAAAAAAAAGAGCAATCAATTTATGGTTGTTGT
131 GCGGGACAAACTTAAAAAGAAAAGA-GG---AAAAAAAAAAGAGCAATCAATCTATGGTTGTTGT
*
3355282 TACTGCATGACGATGTATCTAACC
192 TACCGCATGACGATGTATCTAACC
3355306 AT
1 AT
3355308 ATAACGAACA
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
213 76 0.37
214 73 0.36
218 56 0.27
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (215 bp):
ATTTTGTTGAATTCTAAATCTCATAGTTCTTTTGAGGGCTTCTAGTTCTAGTTATGTTTTCCTTT
GGTATATAGCTTCTTCCATAGCACTTGAAGATGTTCGATTCTTCTTGGATTCTACAATATTTATA
GCGGGACAAACTTAAAAAGAAAAGAGGAAAAAAAAAAGAGCAATCAATCTATGGTTGTTGTTACC
GCATGACGATGTATCTAACC
Found at i:3358715 original size:2 final size:2
Alignment explanation
Indices: 3358708--3358734 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3358698 AATGCACACT
3358708 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3358735 GTTACCCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3370018 original size:31 final size:30
Alignment explanation
Indices: 3369964--3370029 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
3369954 CTATTGGAGG
* *
3369964 TTTTCTTTTAAGTTATTAAATTATTTAAATAT
1 TTTTATTTTAAGTCATTAAATTA-TTAAAT-T
*
3369996 TTTTATTTTAA-TCATTGAATTATTAAATT
1 TTTTATTTTAAGTCATTAAATTATTAAATT
3370025 TTTTA
1 TTTTA
3370030 AAATATTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.19
30 6 0.19
31 9 0.29
32 10 0.32
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTTATTTTAAGTCATTAAATTATTAAATT
Found at i:3370327 original size:22 final size:21
Alignment explanation
Indices: 3370302--3370344 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
3370292 TAAATAAAAT
3370302 TTTAAAATAATTTAATAATTAA
1 TTTAAAATAATTTAA-AATTAA
* **
3370324 TTTATAATTTTTTAAAATTAA
1 TTTAAAATAATTTAAAATTAA
3370345 GTTATTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAAAATAATTTAAAATTAA
Found at i:3370367 original size:16 final size:14
Alignment explanation
Indices: 3370328--3370370 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
3370318 AATTAATTTA
*
3370328 TAATTTTTTAAAAT
1 TAATTTATTAAAAT
*
3370342 TAAGTTATTAAAAT
1 TAATTTATTAAAAT
3370356 GTAAATTTATTAAAA
1 -T-AATTTATTAAAA
3370371 AAATTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 1 0.04
16 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (14 bp):
TAATTTATTAAAAT
Found at i:3376629 original size:42 final size:42
Alignment explanation
Indices: 3376536--3376629 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
3376526 GAGGCATTCA
*
3376536 ACATGAAGAGCCTGTTAAGATAAAATGCTCAAATCTTAACAG
1 ACATGAAGAGCCTGTTAAGATAAAATGCTCAAATCTAAACAG
*
3376578 ACATAAAGAGCCTGTTAAGATAAAATGCTCAAATGC-AAACAG
1 ACATGAAGAGCCTGTTAAGATAAAATGCTCAAAT-CTAAACAG
* *
3376620 GCCTGAAGAG
1 ACATGAAGAG
3376630 GTAATTTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (42 bp):
ACATGAAGAGCCTGTTAAGATAAAATGCTCAAATCTAAACAG
Found at i:3381689 original size:23 final size:23
Alignment explanation
Indices: 3381657--3381757 Score: 79
Period size: 21 Copynumber: 4.4 Consensus size: 23
3381647 TTAACAAGTC
*
3381657 AATAACTTAAATAAAATATTTTA
1 AATAATTTAAATAAAATATTTTA
3381680 AATAATTTAATTATGAAAAT-TTTTA
1 AATAATTTAA--AT-AAAATATTTTA
*
3381705 AATAATTT-AAT-AAATTTTTTA
1 AATAATTTAAATAAAATATTTTA
* *
3381726 AATGA-TTAAA-AATAA-ATTTATT
1 AATAATTTAAATAA-AATATTT-TA
3381748 AATAATTTAA
1 AATAATTTAA
3381758 TGATATTAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
20 6 0.09
21 15 0.23
22 9 0.14
23 13 0.20
24 1 0.02
25 15 0.23
26 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (23 bp):
AATAATTTAAATAAAATATTTTA
Found at i:3392813 original size:20 final size:18
Alignment explanation
Indices: 3392767--3392816 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
3392757 TGGTAAAAGA
*
3392767 TTATAAAAAATATTAAAT
1 TTATTAAAAATATTAAAT
*
3392785 TTAAATAAAAATATTTGAAAT
1 TT-ATTAAAAATA-TT-AAAT
3392806 TTATTAAAAAT
1 TTATTAAAAAT
3392817 TAGAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 8 0.31
20 10 0.38
21 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TTATTAAAAATATTAAAT
Found at i:3392826 original size:21 final size:22
Alignment explanation
Indices: 3392802--3392845 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
3392792 AAAATATTTG
3392802 AAATTTATTAAAA-AT-TAGAAA
1 AAATTTA-TAAAATATATAGAAA
3392823 AAATTTATAAAATATATAGAAA
1 AAATTTATAAAATATATAGAAA
3392845 A
1 A
3392846 TTATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAATTTATAAAATATATAGAAA
Found at i:3392859 original size:20 final size:20
Alignment explanation
Indices: 3392767--3392860 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 20
3392757 TGGTAAAAGA
*
3392767 TTATAAAAAATAT--TAAAT
1 TTATAAAAAATATAGAAAAT
* *
3392785 TTAAATAAAAATATTTG-AAAT
1 TTATA-AAAAATA-TAGAAAAT
*
3392806 TTATTAAAAAT-TAGAAAAAAT
1 TTATAAAAAATATAG--AAAAT
*
3392827 TTATAAAATATATAGAAAA-
1 TTATAAAAAATATAGAAAAT
3392846 TTATAAATAAATATA
1 TTATAAA-AAATATA
3392861 AATAAATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
18 6 0.10
19 14 0.23
20 17 0.28
21 20 0.33
22 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
TTATAAAAAATATAGAAAAT
Found at i:3392885 original size:28 final size:29
Alignment explanation
Indices: 3392812--3392890 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 29
3392802 AAATTTATTA
* *
3392812 AAAATTAGAAA-AAATTTATAAAATATATAG
1 AAAATTATAAATAAA-TTAT-AAATAAATAG
*
3392842 AAAATTATAAATAAA-TATAAATAAATAT
1 AAAATTATAAATAAATTATAAATAAATAG
*
3392870 AAAATTCTTAAA-AAATTATAA
1 AAAATT-ATAAATAAATTATAA
3392891 CAATTTATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 17 0.40
29 12 0.29
30 10 0.24
31 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATTATAAATAAATTATAAATAAATAG
Found at i:3402809 original size:6 final size:6
Alignment explanation
Indices: 3402800--3402824 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3402790 ATGGCAGCAA
3402800 CTGAAG CTGAAG CTGAAG CTGAAG C
1 CTGAAG CTGAAG CTGAAG CTGAAG C
3402825 AGAGCAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (6 bp):
CTGAAG
Found at i:3454112 original size:16 final size:16
Alignment explanation
Indices: 3454073--3454103 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3454063 ACAGGGAAAG
3454073 AAAG-AAAGGAAAGAA
1 AAAGAAAAGGAAAGAA
3454088 AAAGAAAAGGAAAGAA
1 AAAGAAAAGGAAAGAA
3454104 GGAGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGGAAAGAA
Found at i:3464353 original size:18 final size:18
Alignment explanation
Indices: 3464330--3464367 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
3464320 TCAGACGCTA
3464330 ATTATATATAAATTACAC
1 ATTATATATAAATTACAC
*
3464348 ATTATATATAAATTATAC
1 ATTATATATAAATTACAC
3464366 AT
1 AT
3464368 GCAAGCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTATATATAAATTACAC
Found at i:3464435 original size:5 final size:5
Alignment explanation
Indices: 3464434--3464464 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
3464424 TAATATATTA
*
3464434 TATAT TATAT TATAT TATAT TATAT AATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
3464465 GTATGTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:3468317 original size:59 final size:58
Alignment explanation
Indices: 3468211--3468329 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 58
3468201 GGCATTTTAC
* * *
3468211 CAAAAACGTCGCTAAAAACAGAGCAATAGCGGCGTTTTTATAAAAAACGTCGCTAAAAA
1 CAAAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTAT-AAAAACGCCGCTAAAAA
* * *
3468270 CAAAATCGCCGCTAAAAACCAGAGCAATAGCGGCATTTTTGGT-AAAACGCCTCTAAAAA
1 CAAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCATTTTT-ATAAAAACGCCGCTAAAAA
3468329 C
1 C
3468330 CAGAGCATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 31 0.60
60 20 0.38
61 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (58 bp):
CAAAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTATAAAAACGCCGCTAAAAA
Found at i:3468344 original size:41 final size:41
Alignment explanation
Indices: 3468271--3468612 Score: 438
Period size: 41 Copynumber: 8.4 Consensus size: 41
3468261 CGCTAAAAAC
* ** *
3468271 AAAATCGCCGCTAAAAACCAGAGCAATAGCGGCATTTTTGGT
1 AAAA-CGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
3468313 AAAACGCCTCTAAAAACCAGAGCATTGGCGGCGCTTT-GGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG-T
** * *
3468354 AAAACGCCGCTAAAAATAAGAGTATTA-CGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
3468394 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTCGTT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * *
3468435 AAAATGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
3468476 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
3468517 AAAACGCCGCTAAAAACTAGAGAATTAGCGGCGCTTTC-GT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * * *
3468557 TAAACGCCACTAAAAACTAGAGCATTAGCGACGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
3468598 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
3468613 GTCATATAAT
Statistics
Matches: 266, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
40 72 0.27
41 190 0.71
42 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:3468415 original size:81 final size:80
Alignment explanation
Indices: 3468271--3468612 Score: 420
Period size: 81 Copynumber: 4.2 Consensus size: 80
3468261 CGCTAAAAAC
* ** * * *
3468271 AAAATCGCCGCTAAAAACCAGAGCAA-TAGCGGCATTTTTGGTAAAACGCCTCTAAAAACCAGAG
1 AAAA-CGCCGCTAAAAA-TAGAG-AATTAGCGGC-GCTTTCGTAAAACGCCGCTAAAAATCAGAG
* *
3468335 CATTGGCGGCGCTTTGGAT
62 CATTAGCGGCGCTTTCGAT
*
3468354 AAAACGCCGCTAAAAATAAGAGTATTA-CGGCGCTTTCGATAAAACGCCGCTAAAAATCAGAGCA
1 AAAACGCCGCTAAAAAT-AGAGAATTAGCGGCGCTTTCG-TAAAACGCCGCTAAAAATCAGAGCA
*
3468418 TTAGCGGCGCTTTCGTT
64 TTAGCGGCGCTTTCGAT
* * *
3468435 AAAATGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCA
1 AAAACGCCGCTAAAAAT-AGAGAATTAGCGGCGC-TTTCGTAAAACGCCGCTAAAAATCAGAGCA
3468500 TTAGCGGCGCTTTCGAT
64 TTAGCGGCGCTTTCGAT
* *
3468517 AAAACGCCGCTAAAAACTAGAGAATTAGCGGCGCTTTCGTTAAACGCCACTAAAAA-CTAGAGCA
1 AAAACGCCGCTAAAAA-TAGAGAATTAGCGGCGCTTTCGTAAAACGCCGCTAAAAATC-AGAGCA
* *
3468581 TTAGCGACGCTTTCGGT
64 TTAGCGGCGCTTTCGAT
3468598 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
3468613 GTCATATAAT
Statistics
Matches: 230, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
80 5 0.02
81 121 0.53
82 95 0.41
83 9 0.04
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (80 bp):
AAAACGCCGCTAAAAATAGAGAATTAGCGGCGCTTTCGTAAAACGCCGCTAAAAATCAGAGCATT
AGCGGCGCTTTCGAT
Found at i:3468564 original size:163 final size:163
Alignment explanation
Indices: 3468271--3468612 Score: 501
Period size: 163 Copynumber: 2.1 Consensus size: 163
3468261 CGCTAAAAAC
* *
3468271 AAAATCGCCGCTAAAAACCAGAGCAATAGCGGCATTTTTGGTAAAACGCCTCTAAAAACCAGAGC
1 AAAAT-GCCGCTAAAAACCAGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAACCAGAGC
* * *
3468336 ATTGGCGGCGCTTTGGATAAAACGCCGCTAAAAATAAGAGTATTACGGCGCTTTCGATAAAACGC
65 ATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAATAAGAGAATTACGGCGCTTTCGATAAAACGC
* * *
3468401 CGCTAAAAA-TCAGAGCATTAGCGGCGCTTTCGTT
130 CACTAAAAACT-AGAGCATTAGCGACGCTTTCGGT
* * * *
3468435 AAAATGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCA
1 AAAATGCCGCTAAAAACCAGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
*
3468500 TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACT-AGAGAATTAGCGGCGCTTTCG-TTAAACG
66 TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAA-TAAGAGAATTA-CGGCGCTTTCGATAAAACG
3468563 CCACTAAAAACTAGAGCATTAGCGACGCTTTCGGT
129 CCACTAAAAACTAGAGCATTAGCGACGCTTTCGGT
*
3468598 AAAACGCCGCTAAAA
1 AAAATGCCGCTAAAA
3468613 GTCATATAAT
Statistics
Matches: 161, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
163 143 0.89
164 18 0.11
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (163 bp):
AAAATGCCGCTAAAAACCAGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTCGATAAAACGCCGCTAAAAATAAGAGAATTACGGCGCTTTCGATAAAACGCC
ACTAAAAACTAGAGCATTAGCGACGCTTTCGGT
Found at i:3468571 original size:122 final size:120
Alignment explanation
Indices: 3468271--3468612 Score: 447
Period size: 122 Copynumber: 2.8 Consensus size: 120
3468261 CGCTAAAAAC
* ** * * *
3468271 AAAATCGCCGCTAAAAACCAGAGCAA-TAGCGGCATTTTTGGTAAAACGCCTCTAAAAACCAGAG
1 AAAA-CGCCGCTAAAAACTAGAG-AATTAGCGGC-GCTTTCGTTAAACGCCACTAAAAA-CAGAG
* *
3468335 CATTGGCGGCGC-TTTGGATAAAACGCCGCTAAAAATAAGAGTATTACGGCGCTTTCGAT
62 CATTAGCGGCGCTTTTGG-TAAAACGCCGCTAAAAATAAGAGCATTACGGCGCTTTCGAT
* * *
3468394 AAAACGCCGCTAAAAA-TCAGAGCATTAGCGGCGCTTTCGTTAAAATGCCGCTAAAAATCAGAGC
1 AAAACGCCGCTAAAAACT-AGAGAATTAGCGGCGCTTTCGTT-AAACGCCACTAAAAA-CAGAGC
*
3468458 ATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTCGAT
63 ATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAGCATTA-CGGCGCTTTCGAT
3468517 AAAACGCCGCTAAAAACTAGAGAATTAGCGGCGCTTTCGTTAAACGCCACTAAAAACTAGAGCAT
1 AAAACGCCGCTAAAAACTAGAGAATTAGCGGCGCTTTCGTTAAACGCCACTAAAAAC-AGAGCAT
* *
3468582 TAGCGACGCTTTCGGTAAAACGCCGCTAAAA
65 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
3468613 GTCATATAAT
Statistics
Matches: 195, Mismatches: 17, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
121 7 0.04
122 127 0.65
123 60 0.31
124 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (120 bp):
AAAACGCCGCTAAAAACTAGAGAATTAGCGGCGCTTTCGTTAAACGCCACTAAAAACAGAGCATT
AGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAGCATTACGGCGCTTTCGAT
Found at i:3468835 original size:16 final size:16
Alignment explanation
Indices: 3468816--3468851 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3468806 ATAATAAATT
3468816 ATGGAATTAAAATTGA
1 ATGGAATTAAAATTGA
3468832 ATGGAATTAAAATTGA
1 ATGGAATTAAAATTGA
3468848 ATGG
1 ATGG
3468852 GGTTTGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (16 bp):
ATGGAATTAAAATTGA
Found at i:3483106 original size:26 final size:26
Alignment explanation
Indices: 3483070--3483121 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
3483060 AATAAACTCT
*
3483070 CAGAGCTAGCTAAAATTTATGGTTTA
1 CAGAGCTAGCTAAAATGTATGGTTTA
3483096 CAGAGCTAGCTAAAATGTATGGTTTA
1 CAGAGCTAGCTAAAATGTATGGTTTA
3483122 AAAACTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (26 bp):
CAGAGCTAGCTAAAATGTATGGTTTA
Done.