Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 159 of 345
Found at i:44015224 original size:80 final size:80
Alignment explanation
Indices: 44015046--44015233 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
44015036 TTCGAATGAT
* *
44015046 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
44015111 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
44015126 ATCCGGACTAAGAT-CCGAAGGCTTTTGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGC-TTTGAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* * *
44015187 CATTCGTGCGAGTTATTGTA
62 CATACGTGCGAGTTACT-AA
*
44015207 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
44015234 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:44023378 original size:19 final size:20
Alignment explanation
Indices: 44023350--44023396 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
44023340 GTCTTTTCGC
* *
44023350 GAAATTTAATACACATGAA-
1 GAAATGTAATACAAATGAAT
*
44023369 GAAATGTAATGCAAATGAAT
1 GAAATGTAATACAAATGAAT
44023389 G-AATGTAA
1 GAAATGTAA
44023397 AAAAAAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (20 bp):
GAAATGTAATACAAATGAAT
Found at i:44023441 original size:14 final size:14
Alignment explanation
Indices: 44023422--44023451 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44023412 ATTCCAATTC
*
44023422 AATTTCATTAGAAG
1 AATTTCACTAGAAG
44023436 AATTTCACTAGAAG
1 AATTTCACTAGAAG
44023450 AA
1 AA
44023452 AATTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (14 bp):
AATTTCACTAGAAG
Found at i:44027915 original size:49 final size:48
Alignment explanation
Indices: 44027862--44027954 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
44027852 AGAGGGTTTA
* *
44027862 AAATAAATAATATATAAAATAGTTT-AACTACATAATGTATATAAATTTG
1 AAATAAATAATATAT-AAA-AGTTTAAAATAAATAATGTATATAAATTTG
*
44027911 AAATAAATAATATGTAAAAGTTTAAAATAAATAATGTATATAAA
1 AAATAAATAATATATAAAAGTTTAAAATAAATAATGTATATAAA
44027955 AAGAAAATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 5 0.12
48 21 0.52
49 14 0.35
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (48 bp):
AAATAAATAATATATAAAAGTTTAAAATAAATAATGTATATAAATTTG
Found at i:44027938 original size:24 final size:24
Alignment explanation
Indices: 44027857--44027955 Score: 94
Period size: 24 Copynumber: 4.0 Consensus size: 24
44027847 AATAAAGAGG
44027857 GTTTAAAATAAATAATATATAAAATA
1 GTTTAAAATAAATAATATAT-AAA-A
* * *
44027883 GTTT-AACTACATAATGTATATAAA
1 GTTTAAAATAAATAATATATA-AAA
* *
44027907 -TTTGAAATAAATAATATGTAAAA
1 GTTTAAAATAAATAATATATAAAA
44027930 GTTTAAAATAAATAATGTATATAAAA
1 GTTTAAAATAAATAA--TATATAAAA
44027956 AGAAAATCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
23 6 0.10
24 27 0.46
25 14 0.24
26 12 0.20
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (24 bp):
GTTTAAAATAAATAATATATAAAA
Found at i:44028138 original size:2 final size:2
Alignment explanation
Indices: 44028131--44028161 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
44028121 AAGAGAATTA
44028131 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 A
44028162 AAGATCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44038316 original size:40 final size:40
Alignment explanation
Indices: 44038242--44038419 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
44038232 GAGTCACGTA
** *
44038242 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
44038281 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
44038321 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
44038361 CCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
44038401 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
44038420 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:44042290 original size:48 final size:48
Alignment explanation
Indices: 44042238--44042411 Score: 215
Period size: 48 Copynumber: 3.6 Consensus size: 48
44042228 TATGTGTGCT
* *
44042238 AGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGGCCATGATATGAGAGCC
* * * * *
44042286 AGTGTAAGACCATGTTTGGAACATGGTATCGGCGATGTTGTGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATATGAGAGCC
* * * * *
44042334 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATATGAGAGCC
*
44042382 AGTATAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTTTGGAACATGGCATC
44042412 AGCAATTCAT
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
47 3 0.03
48 102 0.97
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGATATGAGAGCC
Found at i:44046745 original size:50 final size:51
Alignment explanation
Indices: 44046670--44046793 Score: 187
Period size: 50 Copynumber: 2.5 Consensus size: 51
44046660 TGGCAACCAG
* * *
44046670 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAGGACAAGTGA-AAC
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAAGACAAATGACAAA
44046720 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAAGACAAATGACAAA
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAAGACAAATGACAAA
* * *
44046771 TGAAAAGTGGTAGCTTCGACTAC
1 TGATAAGTGATAGCTTCGGCTAC
44046794 CTGATTAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (51 bp):
TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAAGACAAATGACAAA
Found at i:44046809 original size:31 final size:31
Alignment explanation
Indices: 44046771--44046881 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
44046761 AAATGACAAA
*
44046771 TGAAAAGTGGTAGCTTCGACTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGACTACCTGATCAG
* * *
44046802 TGAAAAGTGGTTGCTTTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGACTACCTGATCAG
* * *
44046833 TGAAAAATGGTAGCTCCGACTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGACTACCTGATCAG
*
44046864 TGAATAGTGGTAGCTTCG
1 TGAAAAGTGGTAGCTTCG
44046882 GCTATAAGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGACTACCTGATCAG
Found at i:44047017 original size:48 final size:47
Alignment explanation
Indices: 44046908--44047127 Score: 276
Period size: 48 Copynumber: 4.7 Consensus size: 47
44046898 GATTTCCGTA
* * * * * *
44046908 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTTCTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTG-ATC-GTG
44046955 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCAGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATC-GTG
44047003 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGAT-CGTG
*
44047051 TAAGACCATAGCTAGGCTATGGCATCGATATGTGA-A--T-AT-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCGTG
44047093 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
44047128 AGATGTATAA
Statistics
Matches: 160, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 35 0.22
44 2 0.01
45 1 0.01
47 26 0.16
48 84 0.52
49 11 0.07
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCGTG
Found at i:44047098 original size:42 final size:42
Alignment explanation
Indices: 44047000--44047145 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
44046990 TATGTGATCA
*
44047000 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATGTGA-A---GAT
*
44047046 CCGTGTAAGACCATAGCTAGGCTATGGCATCGA-TATGTGAATAT
1 --GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATGTGAAGAT
*
44047090 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCATTATGTGAAGAT
* *
44047132 GTATAAGAGCATAG
1 GTGTAAGACCATAG
44047146 TTGAACTATG
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
41 1 0.01
42 50 0.55
44 2 0.02
47 1 0.01
48 37 0.41
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCATTATGTGAAGAT
Found at i:44047155 original size:42 final size:41
Alignment explanation
Indices: 44047003--44047161 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 41
44046993 GTGATCAGTG
** *
44047003 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGAACTATGGCATC-ATATGTGA-A---GAT--GTA
* * *
44047051 TAAGACCATAGCT-AGGCTATGGCATCGATATGTGAATATGTG
1 TAAGACCATAGCTGA-ACTATGGCATC-ATATGTGAAGATGTA
**
44047093 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTA
1 TAAGACCATAGCTGAACTATGGCATCA-TATGTGAAGATGTA
* *
44047135 TAAGAGCATAGTTGAACTATGGCATCA
1 TAAGACCATAGCTGAACTATGGCATCA
44047162 AGAAAATGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 62 0.63
44 2 0.02
47 1 0.01
48 33 0.33
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (41 bp):
TAAGACCATAGCTGAACTATGGCATCATATGTGAAGATGTA
Found at i:44048099 original size:75 final size:75
Alignment explanation
Indices: 44047982--44048141 Score: 248
Period size: 75 Copynumber: 2.1 Consensus size: 75
44047972 ACTTGGAGAT
* * *
44047982 ACGGGCGTGTGGCCCGGCCGTGTGGTTAGATTTTCATACTAACGTCATAAAGAAAAAGTTACACG
1 ACGGGCGTGTGGCCCGACCGTATGGTTAGATTTGCATACTAACGTCATAAAGAAAAAGTTACACG
44048047 TCCTGAGGAC
66 TCCTGAGGAC
* * * * *
44048057 ACGGGCGTGTGGCCCGACCGTATGGTTCGATTTGCATGCTAACGTCATAAATAGAAAGTTACACT
1 ACGGGCGTGTGGCCCGACCGTATGGTTAGATTTGCATACTAACGTCATAAAGAAAAAGTTACACG
44048122 TCCTGAGGAC
66 TCCTGAGGAC
44048132 ACGGGCGTGT
1 ACGGGCGTGT
44048142 CAAAGACACA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (75 bp):
ACGGGCGTGTGGCCCGACCGTATGGTTAGATTTGCATACTAACGTCATAAAGAAAAAGTTACACG
TCCTGAGGAC
Found at i:44050830 original size:55 final size:53
Alignment explanation
Indices: 44050767--44050904 Score: 168
Period size: 53 Copynumber: 2.6 Consensus size: 53
44050757 GCAAGGAAAT
* *
44050767 CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAAGATAC
* * * * * *
44050822 CATGTAAGACCATGCCAAGGCATGGCAATGATGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAAGATAC
* *
44050875 CACGTAAGACCATGTCAAGACATGGAAATG
1 CATGTAAGACCATGTCAAGACATGGCAATG
44050905 GTAAGTTTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 39 0.55
54 3 0.04
55 29 0.41
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAAGATAC
Found at i:44079699 original size:29 final size:29
Alignment explanation
Indices: 44079657--44079738 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
44079647 TATATATGTG
*
44079657 AATTATCGAGCACTAAGTGTGCGGAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
44079686 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
44079715 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
44079739 TCTCATTGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:44079810 original size:71 final size:71
Alignment explanation
Indices: 44079694--44079852 Score: 309
Period size: 71 Copynumber: 2.2 Consensus size: 71
44079684 AAAATTATCG
44079694 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
44079759 AATAAT
66 AATAAT
*
44079765 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
44079830 AATAAT
66 AATAAT
44079836 AGCACTAAGTGTGCGAA
1 AGCACTAAGTGTGCGAA
44079853 TATAACAAGT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 87 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (71 bp):
AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
AATAAT
Found at i:44084301 original size:40 final size:40
Alignment explanation
Indices: 44084256--44084423 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44084246 CGGAATATAA
44084256 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44084296 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44084336 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * * *
44084376 CCGGATATAATTTCCAGCATAATTGTCTTTGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44084416 CCGGATAT
1 CCGGATAT
44084424 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44091014 original size:28 final size:29
Alignment explanation
Indices: 44090983--44091054 Score: 137
Period size: 28 Copynumber: 2.5 Consensus size: 29
44090973 GTGACGAGAT
44090983 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44091011 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44091040 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44091055 GAGCTCGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 25 0.58
29 18 0.42
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44091083 original size:58 final size:58
Alignment explanation
Indices: 44090983--44091114 Score: 135
Period size: 58 Copynumber: 2.3 Consensus size: 58
44090973 GTGACGAGAT
* * *
44090983 TGGCACTAAGTGTGC-ATGCTGGAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTCGAAAATATGGCACTAAGTGTGCAGGCT-GAAATCACA
** ** * * *
44091040 TGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTCGAA-AATATGGCACTAAGTGTGCAGGCTGAAATCACA
44091098 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
44091115 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
57 25 0.40
58 37 0.60
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGATGCTCGAAAATATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:44098664 original size:28 final size:29
Alignment explanation
Indices: 44098633--44098704 Score: 128
Period size: 28 Copynumber: 2.5 Consensus size: 29
44098623 GTGACGAGAT
44098633 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
44098661 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44098690 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44098705 GAGCTCGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 24 0.59
29 17 0.41
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44098720 original size:29 final size:29
Alignment explanation
Indices: 44098688--44098764 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
44098678 GCTGGAAATA
* *
44098688 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
** * * *
44098717 TATGGCACTGTGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
*
44098746 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
44098765 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:44098732 original size:58 final size:58
Alignment explanation
Indices: 44098633--44098764 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 58
44098623 GTGACGAGAT
* * *
44098633 TGGCACTAAGTGTGC-ATGCTGGAAAATATGGCACTGAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTCGAAAATATGGCACTGAGTGTGCAGGCT-GAAATCACA
** * * * *
44098690 TGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTCGAA-AATATGGCACTGAGTGTGCAGGCTGAAATCACA
44098748 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
44098765 AATCGAGTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
57 25 0.40
58 38 0.60
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGATGCTCGAAAATATGGCACTGAGTGTGCAGGCTGAAATCACA
Found at i:44108298 original size:25 final size:26
Alignment explanation
Indices: 44108270--44108320 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
44108260 TTTATTTCAT
*
44108270 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
44108295 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
44108321 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:44108312 original size:26 final size:24
Alignment explanation
Indices: 44108282--44108330 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
44108272 AATAAAAAAT
*
44108282 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
44108308 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
44108331 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:44108350 original size:21 final size:21
Alignment explanation
Indices: 44108301--44108359 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
44108291 ATAATAAATC
*
44108301 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
44108321 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
44108343 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
44108360 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:44108436 original size:15 final size:16
Alignment explanation
Indices: 44108406--44108438 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44108396 AAATGGTTAT
44108406 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
44108423 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
44108438 A
1 A
44108439 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:44112143 original size:18 final size:20
Alignment explanation
Indices: 44112088--44112134 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
44112078 ACTTTTTTCT
44112088 TTTTACTTTTCCCT-CAAAAC
1 TTTTAC-TTTCCCTCCAAAAC
44112108 TTTTACTTTCCCTCCAAAA-
1 TTTTACTTTCCCTCCAAAAC
44112127 TTTTACTT
1 TTTTACTT
44112135 CCTCCCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTACTTTCCCTCCAAAAC
Found at i:44112180 original size:74 final size:72
Alignment explanation
Indices: 44112035--44112197 Score: 226
Period size: 74 Copynumber: 2.3 Consensus size: 72
44112025 CACTCATACC
* *
44112035 CTTTTACTTTTCCC-CAAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTTTC
1 CTTTTAC-TTTCCCTCCAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTCTC
44112099 CCTCAAAA
65 CCTCAAAA
* *
44112107 CTTTTACTTTCCCTCCAAAATTTTACTTCCTCCCAAACTCCCAGAACTTTTTTCTTTTTACCTTC
1 CTTTTACTTTCCCTCCAAAATTTAACTT-CTCCCAAAC-CCCAAAACTTTTTTCTTTTTA-CTTC
44112172 TCCC-CAAAA
63 TCCCTCAAAA
44112181 CTTTTAC-TT-CCTCCAAA
1 CTTTTACTTTCCCTCCAAA
44112198 CCCCAAAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
71 6 0.07
72 27 0.33
73 11 0.13
74 32 0.39
75 7 0.08
ACGTcount: A:0.25, C:0.33, G:0.01, T:0.41
Consensus pattern (72 bp):
CTTTTACTTTCCCTCCAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTCTCC
CTCAAAA
Found at i:44119581 original size:35 final size:35
Alignment explanation
Indices: 44119508--44119775 Score: 254
Period size: 35 Copynumber: 7.7 Consensus size: 35
44119498 TCCTCATTGA
* ** *
44119508 AATACCATACCTACATTTCAT-ACTTGGTATGGAA
1 AATACCATACCTACGTTTCATAACTCAGTATGGAC
* *
44119542 AATACCATACCTACGTTTCATAACTCAATATGGAA
1 AATACCATACCTACGTTTCATAACTCAGTATGGAC
* *
44119577 AATACCATAACTACGTTTCATAACTCAATATGGAC
1 AATACCATACCTACGTTTCATAACTCAGTATGGAC
* * * *
44119612 GATGCCATACCTACATGTCATAACTCAGTATGGAC
1 AATACCATACCTACGTTTCATAACTCAGTATGGAC
* * * *
44119647 GATGCCATACCTACGTATCATAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCATAACTCAGTATGGAC
* * * * *
44119682 GATGCCATACCTACGTATCATAGCTCAGTATGGTC
1 AATACCATACCTACGTTTCATAACTCAGTATGGAC
* * * **
44119717 AATGCCATACCTAC-TTATCA-AGCTCGGTATGGTT
1 AATACCATACCTACGTT-TCATAACTCAGTATGGAC
* *
44119751 GATACCATACCTACGTATCATAACT
1 AATACCATACCTACGTTTCATAACT
44119776 TTGCCACGGG
Statistics
Matches: 206, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
34 48 0.23
35 158 0.77
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCATAACTCAGTATGGAC
Found at i:44119696 original size:105 final size:105
Alignment explanation
Indices: 44119512--44119775 Score: 307
Period size: 105 Copynumber: 2.5 Consensus size: 105
44119502 CATTGAAATA
* * * *
44119512 CCATACCTACATTTCAT-ACTTGGTATGGAAAATACCATACCTACGTTTCATAACTCAATATGGA
1 CCATACCTACATATCATAACTCGGTATGGAAGATACCATACCTACGTATCATAACTCAATATGGA
* *
44119576 AAATACCATAACTACGTTTCATAACTCAATATGGACGATG
66 AAATACCATAACTACGTATCATAACTCAATATGGACAATG
* * * * * *
44119616 CCATACCTACATGTCATAACTCAGTATGGACGATGCCATACCTACGTATCATAGCTCAGTATGGA
1 CCATACCTACATATCATAACTCGGTATGGAAGATACCATACCTACGTATCATAACTCAATATGGA
** * * * * *
44119681 CGATGCCATACCTACGTATCATAGCTCAGTATGGTCAATG
66 AAATACCATAACTACGTATCATAACTCAATATGGACAATG
* * **
44119721 CCATACCTACTTATCA-AGCTCGGTATGGTTGATACCATACCTACGTATCATAACT
1 CCATACCTACATATCATAACTCGGTATGGAAGATACCATACCTACGTATCATAACT
44119776 TTGCCACGGG
Statistics
Matches: 133, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
104 49 0.37
105 84 0.63
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (105 bp):
CCATACCTACATATCATAACTCGGTATGGAAGATACCATACCTACGTATCATAACTCAATATGGA
AAATACCATAACTACGTATCATAACTCAATATGGACAATG
Found at i:44123156 original size:47 final size:48
Alignment explanation
Indices: 44123056--44123169 Score: 149
Period size: 47 Copynumber: 2.4 Consensus size: 48
44123046 CATAGTGTAA
* * *
44123056 CTATGGTCTTACACATAACCACATATCACATACCGAAGCCATAGCCTAG
1 CTATGGTCTTAAACAGAACCACATATCACA-ACCGAAGCCATAGCCCAG
* * *
44123105 CTATGGTCTTAAACGGAAGCACATATCAC-ACCGATGCCATAGCCCAG
1 CTATGGTCTTAAACAGAACCACATATCACAACCGAAGCCATAGCCCAG
*
44123152 CTATGGTCTTATACAGAA
1 CTATGGTCTTAAACAGAA
44123170 ATCACATAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 32 0.56
49 25 0.44
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (48 bp):
CTATGGTCTTAAACAGAACCACATATCACAACCGAAGCCATAGCCCAG
Found at i:44125086 original size:35 final size:35
Alignment explanation
Indices: 44125017--44125246 Score: 275
Period size: 35 Copynumber: 6.6 Consensus size: 35
44125007 CATTGAAATA
* ** * *
44125017 CCATACCTACATTTCAT-ACTTGGTATGGAAAATA
1 CCATACCTACGTTTCATAACTCAGTATGGACAATG
* * *
44125051 CCATACCTACGTTTCATAACTCAATATGGAAAATA
1 CCATACCTACGTTTCATAACTCAGTATGGACAATG
*
44125086 CCATAACTACGTTTCATAACTCAGTATGGACAATG
1 CCATACCTACGTTTCATAACTCAGTATGGACAATG
* * *
44125121 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACGTTTCATAACTCAGTATGGACAATG
* * *
44125156 CCATACCTACGTATCATAGCTCAGTATGGACGATG
1 CCATACCTACGTTTCATAACTCAGTATGGACAATG
* *
44125191 CCATACCTAC-TTATCATAGCTCAGTATGGTCAATG
1 CCATACCTACGTT-TCATAACTCAGTATGGACAATG
*
44125226 CCATACCTACGTATCATAACT
1 CCATACCTACGTTTCATAACT
44125247 TTGCCACGGG
Statistics
Matches: 173, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
34 17 0.10
35 155 0.90
36 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (35 bp):
CCATACCTACGTTTCATAACTCAGTATGGACAATG
Found at i:44125288 original size:12 final size:12
Alignment explanation
Indices: 44125271--44125297 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44125261 CCATGGTCTT
44125271 ATCCGTCAATTC
1 ATCCGTCAATTC
44125283 ATCCGTCAATTC
1 ATCCGTCAATTC
44125295 ATC
1 ATC
44125298 ACTGGCCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (12 bp):
ATCCGTCAATTC
Found at i:44129924 original size:15 final size:15
Alignment explanation
Indices: 44129904--44129935 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44129894 TCATTCTTAC
*
44129904 CATAGCACCTTATCA
1 CATAGCACCTTACCA
44129919 CATAGCACCTTACCA
1 CATAGCACCTTACCA
44129934 CA
1 CA
44129936 ATCAATCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.38, G:0.06, T:0.22
Consensus pattern (15 bp):
CATAGCACCTTACCA
Found at i:44148755 original size:29 final size:29
Alignment explanation
Indices: 44148721--44148852 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
44148711 TACTCGATTT
** * *
44148721 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
44148750 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
44148779 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44148808 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44148837 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44148853 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44155980 original size:45 final size:44
Alignment explanation
Indices: 44155895--44156052 Score: 194
Period size: 45 Copynumber: 3.6 Consensus size: 44
44155885 CGACATTTCA
* *
44155895 CCTGCTAGGCTCGAA-GCCC-AATATCATTTCACCAGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAT-ATCTCACCAGCATTATAG
* * *
44155938 CCTACTAGGCTCGAAGGCCCGAATAGTATCTCACCAGTATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATA-TATCTCACCAGCATTATAG
** * *
44155983 CCTGCTAGGCTCAAAGGCCCGAATATTATCTCTTCGGCATCATAG
1 CCTGCTAGGCTCAAAGGCCCGAATA-TATCTCACCAGCATTATAG
44156028 CCTGCTAGGCTCAAAGGCCCGAATA
1 CCTGCTAGGCTCAAAGGCCCGAATA
44156053 ATACCGTACG
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
43 14 0.14
44 4 0.04
45 82 0.81
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (44 bp):
CCTGCTAGGCTCAAAGGCCCGAATATATCTCACCAGCATTATAG
Found at i:44158557 original size:28 final size:28
Alignment explanation
Indices: 44158523--44158587 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
44158513 TCAGTGTACG
* *
44158523 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
44158551 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
44158579 AAATATTGA
1 AAATATTGA
44158588 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:44158704 original size:39 final size:39
Alignment explanation
Indices: 44158660--44158960 Score: 451
Period size: 39 Copynumber: 7.7 Consensus size: 39
44158650 GGCTTTATAA
*
44158660 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
44158699 TGGTGTTATATCCGGGCTAAGTCCTGACGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
44158738 TGGTGTTATATTCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
44158777 TGGTGTTATATCTGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
44158816 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
44158855 TGGTGTTATATTCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
44158894 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
* *
44158933 TAGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
44158961 CATGCTTTGT
Statistics
Matches: 241, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 220 0.91
40 21 0.09
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:44167764 original size:25 final size:25
Alignment explanation
Indices: 44167715--44167781 Score: 116
Period size: 25 Copynumber: 2.6 Consensus size: 25
44167705 ATCGATAGAA
44167715 ATTATAAGTTGAGAAGAATTTATTTTG
1 ATTATAAGTTGAG--GAATTTATTTTG
44167742 ATTATAAGTTGAGGAATTTATTTTG
1 ATTATAAGTTGAGGAATTTATTTTG
44167767 ATTATAAGTTGAGGA
1 ATTATAAGTTGAGGA
44167782 TTTTGCTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 27 0.68
27 13 0.32
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (25 bp):
ATTATAAGTTGAGGAATTTATTTTG
Found at i:44172270 original size:46 final size:46
Alignment explanation
Indices: 44172217--44172386 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
44172207 TGTGTGTGCT
*
44172217 AGTGTAAGACATGTGTGGGACATGCATCGGCCACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAAGAGCC
*
44172263 AGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GACAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-AGAGCC
* *
44172310 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATGAAGAGCC
44172356 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
44172387 ATAGATATGT
Statistics
Matches: 109, Mismatches: 5, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
45 12 0.11
46 58 0.53
47 29 0.27
48 9 0.08
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAAGAGCC
Found at i:44173668 original size:12 final size:12
Alignment explanation
Indices: 44173651--44173685 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
44173641 CCCTACTTCC
44173651 TCTTTACTATTA
1 TCTTTACTATTA
44173663 TCTTTACTATTA
1 TCTTTACTATTA
*
44173675 TTTTTACTATT
1 TCTTTACTATT
44173686 TTACAGGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (12 bp):
TCTTTACTATTA
Found at i:44176463 original size:17 final size:17
Alignment explanation
Indices: 44176441--44176487 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
44176431 AGGCAACCCA
*
44176441 ATTTTTATTTTTATTTT
1 ATTTTTATTATTATTTT
*
44176458 ATTTTTCTTATTATTTT
1 ATTTTTATTATTATTTT
44176475 ATTATTTATTATT
1 ATT-TTTATTATT
44176488 TTCAGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTATTATTATTTT
Found at i:44177380 original size:99 final size:99
Alignment explanation
Indices: 44177203--44177381 Score: 272
Period size: 99 Copynumber: 1.8 Consensus size: 99
44177193 TAATTTCTAA
* *
44177203 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCGGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
* *
44177268 TTCGATATGTTCCTAGGAATAATAAAAAAATTAG
66 TACGATATATTCCTAGGAATAATAAAAAAATTAG
* *
44177302 GAATGTGCTGGGCGGAGTAACTGGGGT-AGGGTGCTTGGGTTGTCATCTCTCTTCGTGTCAAAAG
1 GAATGTGCTGGGCGGAGTAACCGGGGTGA-GGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAG
44177366 GTAC-AGTATATTCCTA
65 GTACGA-TATATTCCTA
44177382 AGTAAAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
98 2 0.03
99 70 0.97
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (99 bp):
GAATGTGCTGGGCGGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
TACGATATATTCCTAGGAATAATAAAAAAATTAG
Found at i:44178994 original size:12 final size:12
Alignment explanation
Indices: 44178977--44179010 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
44178967 CCTACTTCCC
44178977 CTTTACTATTAT
1 CTTTACTATTAT
44178989 CTTTACTATTAT
1 CTTTACTATTAT
*
44179001 TTTTACTATT
1 CTTTACTATT
44179011 TTACAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTTACTATTAT
Found at i:44181480 original size:23 final size:24
Alignment explanation
Indices: 44181451--44181517 Score: 100
Period size: 23 Copynumber: 2.8 Consensus size: 24
44181441 GGCCTAGCTT
44181451 CTTTTAATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
44181474 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
44181498 CTATATCATAACTGGGGCAT
1 CT-TTTAATAACTGGGGCAT
44181518 TGTAACACCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 18 0.45
24 7 0.17
25 15 0.38
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:44181517 original size:25 final size:24
Alignment explanation
Indices: 44181455--44181517 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 24
44181445 TAGCTTCTTT
*
44181455 TAATAACTGGGGCA-AAGCCCTTT
1 TAATAACTGGGGCATAAGCCCTTA
44181478 TAATAACTGGGGCATAAGCCCTATA
1 TAATAACTGGGGCATAAGCCCT-TA
*
44181503 TCATAACTGGGGCAT
1 TAATAACTGGGGCAT
44181518 TGTAACACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 14 0.39
24 7 0.19
25 15 0.42
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (24 bp):
TAATAACTGGGGCATAAGCCCTTA
Found at i:44183003 original size:29 final size:28
Alignment explanation
Indices: 44182917--44183017 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 28
44182907 TACTCAATCA
* *
44182917 CGCACACTTAGTGCCAT-GATTCAAGCC
1 CGCACACTTAGTGCCATACATTCAAGCT
* * * *
44182944 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
*
44182973 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
44183002 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
44183018 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 41 0.69
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:44190951 original size:29 final size:28
Alignment explanation
Indices: 44190863--44190964 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
44190853 TACTCAATCA
* *
44190863 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * * *
44190892 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCGTACA-TTCAAGCT
44190921 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
44190950 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
44190965 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 53 0.91
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:44192722 original size:20 final size:20
Alignment explanation
Indices: 44192697--44192735 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
44192687 TATGAATACA
44192697 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
44192717 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
44192736 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:44192741 original size:20 final size:20
Alignment explanation
Indices: 44192698--44192742 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
44192688 ATGAATACAT
**
44192698 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
44192718 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
44192738 CATGT
1 CATGT
44192743 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:44198295 original size:29 final size:27
Alignment explanation
Indices: 44198261--44198363 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
44198251 TACTCAATCA
*
44198261 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
44198290 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
44198319 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
44198348 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
44198364 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:44202355 original size:31 final size:31
Alignment explanation
Indices: 44202317--44202379 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
44202307 CTTTTCACAC
*
44202317 TTCATATTTCGTAACATTGGGCCGAAGCCTT
1 TTCATATTTCATAACATTGGGCCGAAGCCTT
** *
44202348 TTCATATTTCATATTATTGGGTCGAAGCCTT
1 TTCATATTTCATAACATTGGGCCGAAGCCTT
44202379 T
1 T
44202380 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (31 bp):
TTCATATTTCATAACATTGGGCCGAAGCCTT
Found at i:44202701 original size:25 final size:24
Alignment explanation
Indices: 44202591--44202740 Score: 232
Period size: 25 Copynumber: 6.2 Consensus size: 24
44202581 GGCCTAGCTT
44202591 CTTTTAATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
44202614 CTTTTAATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
44202637 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
44202661 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
44202685 CTATATCATAACTGGGGCATAAGCC
1 CT-TTTAATAACTGGGGCATAAGCC
* *
44202710 CTTTATCATAACTAGGGCATAAGCC
1 CTTT-TAATAACTGGGGCATAAGCC
44202735 CTTTTA
1 CTTTTA
44202741 CACTTCCTCC
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 41 0.34
24 33 0.28
25 45 0.38
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:44202820 original size:20 final size:20
Alignment explanation
Indices: 44202789--44202856 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
44202779 TTATGAATAC
44202789 ATCATGGTGCATATCATACAT
1 ATCAT-GTGCATATCATACAT
44202810 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44202830 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44202850 ACCATGT
1 ATCATGT
44202857 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 39 0.89
21 5 0.11
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44206924 original size:40 final size:40
Alignment explanation
Indices: 44206879--44207046 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44206869 CGGAATATAA
*
44206879 CCGGATATAATCACGT-GCACAAATGACTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44206919 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44206959 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44206999 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
44207039 CCGGATAT
1 CCGGATAT
44207047 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44209398 original size:28 final size:28
Alignment explanation
Indices: 44209329--44209429 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44209319 GACAAGATTG
* * * *
44209329 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44209359 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44209387 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44209416 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44209430 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44212281 original size:2 final size:2
Alignment explanation
Indices: 44212274--44212298 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44212264 TGATTTGTGG
44212274 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44212299 GTAAGTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44219125 original size:26 final size:26
Alignment explanation
Indices: 44219094--44219147 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
44219084 AGTGTTAAAT
44219094 GAGCTAAATATGTTGTTATAGATCAA
1 GAGCTAAATATGTTGTTATAGATCAA
44219120 GAGCTAAATATGTTGTTATAGATCAA
1 GAGCTAAATATGTTGTTATAGATCAA
44219146 GA
1 GA
44219148 AAGGCGTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
GAGCTAAATATGTTGTTATAGATCAA
Found at i:44221321 original size:40 final size:40
Alignment explanation
Indices: 44221277--44221399 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
44221267 GTGCTAAGTG
* *
44221277 ACTAAATCCGGAATAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
* * * * *
44221317 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGTGAGCT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
**
44221357 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGAATAAGAT-CCGAAGGCATTCGTGCGAGTT
44221397 ACT
1 ACT
44221400 GTAACCGGGC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 68 0.99
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:44221420 original size:80 final size:80
Alignment explanation
Indices: 44221242--44221429 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
44221232 TTCGAATGAT
* *
44221242 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
44221307 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
44221322 ATCCGGACTAAGAT-CCGAAGGCTTTCGAG-TGAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
44221383 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
44221403 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
44221430 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 80 0.88
81 9 0.10
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:44224730 original size:84 final size:83
Alignment explanation
Indices: 44224585--44224750 Score: 314
Period size: 84 Copynumber: 2.0 Consensus size: 83
44224575 ATGGGCGTGT
*
44224585 TGTCCAGCCGTTTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACGA
1 TGTCCAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACGA
44224650 GCAAGAGACAAGGCCATG
66 GCAAGAGACAAGGCCATG
44224668 TGTCTCAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
1 TGTC-CAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
44224733 AGCAAGAGACAAGGCCAT
65 AGCAAGAGACAAGGCCAT
44224751 AAGACACGGA
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 4 0.05
84 77 0.95
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (83 bp):
TGTCCAGCCGTGTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACGA
GCAAGAGACAAGGCCATG
Found at i:44231008 original size:30 final size:30
Alignment explanation
Indices: 44230927--44231001 Score: 150
Period size: 30 Copynumber: 2.5 Consensus size: 30
44230917 TAATTTCCCA
44230927 GCCTAGGGGCAAAATCATAATTCTGCAAAG
1 GCCTAGGGGCAAAATCATAATTCTGCAAAG
44230957 GCCTAGGGGCAAAATCATAATTCTGCAAAG
1 GCCTAGGGGCAAAATCATAATTCTGCAAAG
44230987 GCCTAGGGGCAAAAT
1 GCCTAGGGGCAAAAT
44231002 TGTAATTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (30 bp):
GCCTAGGGGCAAAATCATAATTCTGCAAAG
Found at i:44244218 original size:40 final size:40
Alignment explanation
Indices: 44244147--44244360 Score: 299
Period size: 40 Copynumber: 5.4 Consensus size: 40
44244137 AAACCAAGTA
* *
44244147 CCTTCGGGATTTAGCT-GGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATG
44244186 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
* *
44244226 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
* *
44244266 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
* * *
44244306 CCTTCGGGACTTAGCTCGGA-ATTAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCTCGGATA-TAGTAACTCGCACAAATG
*
44244346 CCTTCGGGACCTAGC
1 CCTTCGGGACTTAGC
44244361 CCGGTTATCA
Statistics
Matches: 160, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
Found at i:44246277 original size:7 final size:7
Alignment explanation
Indices: 44246265--44246290 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44246255 ACAGAAATCG
44246265 CTTGTCA
1 CTTGTCA
44246272 CTTGTCA
1 CTTGTCA
44246279 CTTGTCA
1 CTTGTCA
44246286 CTTGT
1 CTTGT
44246291 AGCCAAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.46
Consensus pattern (7 bp):
CTTGTCA
Found at i:44246324 original size:31 final size:31
Alignment explanation
Indices: 44246296--44246528 Score: 360
Period size: 31 Copynumber: 7.5 Consensus size: 31
44246286 CTTGTAGCCA
*
44246296 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
** *
44246327 GTGCTACCATTTTTCACTGATCAGGTAG-TCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCT-G
*
44246358 GAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
44246389 AAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
44246420 AAGCTACCACTTTTCACTGATCAGGCAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
44246451 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
44246482 AAGCTACCACTTTTCACTGATCAGGTAACTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
44246513 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
44246529 GTTGTCATTT
Statistics
Matches: 184, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
30 1 0.01
31 182 0.99
32 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:44246607 original size:50 final size:50
Alignment explanation
Indices: 44246546--44246682 Score: 238
Period size: 50 Copynumber: 2.7 Consensus size: 50
44246536 TTTGCCATTG
44246546 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
* * * *
44246596 ATCAGATAAGTGTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTG
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
44246646 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
44246683 GTTTCCATGG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (50 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
Found at i:44256570 original size:29 final size:28
Alignment explanation
Indices: 44256512--44256608 Score: 153
Period size: 28 Copynumber: 3.4 Consensus size: 28
44256502 AGTAAGTCCA
44256512 CACACTTAGTGCT-TAATATTCAAACTCG
1 CACACTTAGTGCTATAA-ATTCAAACTCG
44256540 CACACTTAGTGCTATGAAATTCAAACTCG
1 CACACTTAGTGCTAT-AAATTCAAACTCG
44256569 CACACTTAGTGCTATACAATT-AAACTCG
1 CACACTTAGTGCTATA-AATTCAAACTCG
44256597 CACACTTAGTGC
1 CACACTTAGTGC
44256609 CAATCTCATT
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
28 33 0.50
29 31 0.47
30 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTATAAATTCAAACTCG
Found at i:44271290 original size:30 final size:30
Alignment explanation
Indices: 44271235--44271365 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
44271225 ATAGTGAATC
*
44271235 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
44271264 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
44271294 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
44271322 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
44271352 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44271366 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:44271345 original size:58 final size:58
Alignment explanation
Indices: 44271234--44271365 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
44271224 TATAGTGAAT
* * * * *
44271234 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
44271293 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
44271351 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44271366 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:44273586 original size:27 final size:27
Alignment explanation
Indices: 44273529--44273589 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
44273519 ACCCCAGTTT
**
44273529 GTAAAATTACCAAAATACCCCCGATTT
1 GTAAAATTACCAAAATACCCCCGATAG
* *
44273556 GTAAAATTACCAAATTA-CCCCTATAAG
1 GTAAAATTACCAAAATACCCCCGAT-AG
44273583 GTAAAAT
1 GTAAAAT
44273590 GATTGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.26
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCCGATAG
Found at i:44274185 original size:23 final size:23
Alignment explanation
Indices: 44274158--44274211 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
44274148 ATATATATAC
* *
44274158 TAGCAGCTTTGTTGCGTTACTAT
1 TAGCAGCTTTGTTACATTACTAT
44274181 TAGCAGCTTTGTTACATTACTAT
1 TAGCAGCTTTGTTACATTACTAT
44274204 TAGCAGCT
1 TAGCAGCT
44274212 ACGCTGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (23 bp):
TAGCAGCTTTGTTACATTACTAT
Found at i:44286972 original size:23 final size:23
Alignment explanation
Indices: 44286945--44286992 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
44286935 ATACTAGTAA
*
44286945 CTTTGCTACGTTACTATTAGCAG
1 CTTTGCTACATTACTATTAGCAG
*
44286968 CTTTGCTGCATTACTATTAGCAG
1 CTTTGCTACATTACTATTAGCAG
44286991 CT
1 CT
44286993 ACGCTACGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (23 bp):
CTTTGCTACATTACTATTAGCAG
Found at i:44288070 original size:16 final size:16
Alignment explanation
Indices: 44288049--44288087 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
44288039 TAAGTGACAT
44288049 TATGATTATGATTGAC
1 TATGATTATGATTGAC
44288065 TATGATTATGATTGAC
1 TATGATTATGATTGAC
44288081 TATGATT
1 TATGATT
44288088 GTGGATAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (16 bp):
TATGATTATGATTGAC
Found at i:44290771 original size:18 final size:18
Alignment explanation
Indices: 44290748--44290792 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
44290738 TTACATGGGT
44290748 AATAATCCTCGATCTCAA
1 AATAATCCTCGATCTCAA
44290766 AATAATCCTCGATCTCAA
1 AATAATCCTCGATCTCAA
44290784 AATAATCCT
1 AATAATCCT
44290793 TATAGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAATCCTCGATCTCAA
Found at i:44296543 original size:245 final size:245
Alignment explanation
Indices: 44296113--44296837 Score: 1389
Period size: 245 Copynumber: 3.0 Consensus size: 245
44296103 TTGATTGATG
*
44296113 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGA-AATAGCTTTTTG
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTAT-GACAATAGCTTTTCG
44296177 TATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAG
65 TATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAG
44296242 TGAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTAT
130 TGAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTAT
44296307 GTTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
195 GTTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
44296358 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGACAATAGCTTTTCGT
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGACAATAGCTTTTCGT
44296423 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
66 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
44296488 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
131 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
44296553 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
196 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
* *
44296603 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGACAATAGCTTTTCGT
44296668 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
66 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
* *
44296733 GAGGATGTTAAGCTCTGTGATATTTTGATCAAAGGTAATCACATAGATAAGGGGAGACACCTATG
131 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
44296798 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTT
196 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTT
44296838 TGATTTACCT
Statistics
Matches: 474, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
244 2 0.00
245 472 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (245 bp):
TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGACAATAGCTTTTCGT
ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
Found at i:44305626 original size:23 final size:22
Alignment explanation
Indices: 44305555--44305627 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
44305545 AAGTTTGATT
* *
44305555 GAGCTGAACAGTAAGCTCTTTC
1 GAGCTGAATAGTAAGCTCTTAC
* ** *
44305577 GAGCTGAATCGGTAAGCTCCGAT
1 GAGCTGAAT-AGTAAGCTCTTAC
*
44305600 GAGCTGAAATAGTAAGCTCTTCC
1 GAGCTG-AATAGTAAGCTCTTAC
44305623 GAGCT
1 GAGCT
44305628 ATGGTGAGTC
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
22 8 0.21
23 27 0.71
24 3 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (22 bp):
GAGCTGAATAGTAAGCTCTTAC
Found at i:44307216 original size:29 final size:29
Alignment explanation
Indices: 44307155--44307244 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
44307145 CACATACCTG
*
44307155 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
44307183 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
44307212 TATATGACCCATTAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
44307241 TATA
1 TATA
44307245 GTCATGCTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:44308243 original size:4 final size:4
Alignment explanation
Indices: 44308234--44308265 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
44308224 CACATATTTA
44308234 AAAT AAAT AAAT AAAT AAAT AAAT AAA- AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
44308266 CACCTACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:44312801 original size:56 final size:56
Alignment explanation
Indices: 44312677--44312807 Score: 158
Period size: 56 Copynumber: 2.3 Consensus size: 56
44312667 AGACAAGGTC
* *
44312677 TTACTCATACACATATATCAGAGTTACATATCGATGCCAACGCATTAAACGTGGTA
1 TTACTCAAACACATATATCAGAGTCACATATCGATGCCAACGCATTAAACGTGGTA
* * * * * *
44312733 TTATTCACACACATATAT-AGAAGTCACATATCGATGCTAACGTATTAAATGTGGTC
1 TTACTCAAACACATATATCAG-AGTCACATATCGATGCCAACGCATTAAACGTGGTA
44312789 TTACT-AGAACACATATATC
1 TTACTCA-AACACATATATC
44312808 GATGCCATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
55 3 0.05
56 60 0.95
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (56 bp):
TTACTCAAACACATATATCAGAGTCACATATCGATGCCAACGCATTAAACGTGGTA
Found at i:44317091 original size:14 final size:13
Alignment explanation
Indices: 44317068--44317099 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
44317058 GGAATATCAA
44317068 AACAATAATTAAG
1 AACAATAATTAAG
44317081 AACACATAATTAAG
1 AACA-ATAATTAAG
44317095 AACAA
1 AACAA
44317100 GTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:44324321 original size:40 final size:40
Alignment explanation
Indices: 44324272--44324478 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
44324262 TCTTCGGAAT
* * *
44324272 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
44324311 TTAACCCGGATTTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGA-TATAATCACTAGCACAAATGCCTTCGGGTC
* *
44324352 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTC-GGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
44324391 TTAG-CCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
44324430 TTAGCCCGGATATAATCGCTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
44324470 TTAGCCCGG
1 TTAGCCCGG
44324479 GTATCATTCA
Statistics
Matches: 141, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
38 25 0.18
39 19 0.13
40 66 0.47
41 31 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:44332508 original size:40 final size:40
Alignment explanation
Indices: 44332459--44332666 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
44332449 TCTTCGGAAT
* * *
44332459 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
44332498 TTAACCCGGATTTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGA-TATAATCACTAGCACAAATGCCTTCGGGTC
* *
44332539 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
44332579 TTAG-CCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
44332618 TTAGCCCGGATATAATCGCTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
44332658 TTAGCCCGG
1 TTAGCCCGG
44332667 GTATCATTCA
Statistics
Matches: 143, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 36 0.25
40 76 0.53
41 31 0.22
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:44335661 original size:30 final size:29
Alignment explanation
Indices: 44335567--44335668 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
44335557 TATAGTGAAT
* * *
44335567 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
44335596 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
44335624 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
44335654 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44335669 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:44348166 original size:24 final size:24
Alignment explanation
Indices: 44348114--44348272 Score: 97
Period size: 24 Copynumber: 6.5 Consensus size: 24
44348104 AATGACATTG
* *
44348114 GCACTAAGTGTGCAGATTTTGAATG
1 GCACTATGTGTGCAGA-TTTGAATA
* *
44348139 GCACTATGTGTGCGGAATTGAATA
1 GCACTATGTGTGCAGATTTGAATA
*
44348163 GCACTATGTGTGCTGATTTGAAT-
1 GCACTATGTGTGCAGATTTGAATA
* * ** * *
44348186 GTCAATACGAGTGTGTGGATTTCTAA-G
1 G-CACTA--TGTGTGCAGATTT-GAATA
* * * * * *
44348213 GCATTATGTGTGCGGGTTAGCATG
1 GCACTATGTGTGCAGATTTGAATA
*
44348237 GCACTAAGTGTGCAGATTTGAATA
1 GCACTATGTGTGCAGATTTGAATA
44348261 GCACTATGTGTG
1 GCACTATGTGTG
44348273 TGAAATTGAT
Statistics
Matches: 102, Mismatches: 26, Indels: 13
0.72 0.18 0.09
Matches are distributed among these distances:
23 2 0.02
24 69 0.68
25 14 0.14
26 14 0.14
27 3 0.03
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCAGATTTGAATA
Found at i:44358813 original size:40 final size:40
Alignment explanation
Indices: 44358764--44358971 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
44358754 TCTTCGGAAT
* * *
44358764 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
44358803 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
44358843 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
44358883 TTAGCCCGGCTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
44358923 TTAACCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
44358963 TTAGCCCGG
1 TTAGCCCGG
44358972 GTATCATTCA
Statistics
Matches: 141, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 137 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:44368595 original size:28 final size:28
Alignment explanation
Indices: 44368557--44368618 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
44368547 CTATATGAAA
*
44368557 ACAC-ATTAAAGAATGTCAAGAGTTATC
1 ACACTATTAAAGAATGTCAAGAGTCATC
* *
44368584 ACACTATTAAAGAATGTTAGGAGTCATC
1 ACACTATTAAAGAATGTCAAGAGTCATC
44368612 ACACTAT
1 ACACTAT
44368619 CACAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (28 bp):
ACACTATTAAAGAATGTCAAGAGTCATC
Found at i:44370183 original size:24 final size:24
Alignment explanation
Indices: 44370142--44370264 Score: 132
Period size: 23 Copynumber: 5.2 Consensus size: 24
44370132 AAGCTCTTCA
44370142 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
44370167 TGAGCTGAAAACAGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
*
44370191 TGAGCTG--AACAGTAAGCT-TTT
1 TGAGCTGAAAACAGTAAGCTCTAT
* * * *
44370212 TCGACCT-AAATCAGTAAGCTCCAA
1 T-GAGCTGAAAACAGTAAGCTCTAT
44370236 TGAGCTG-AAACAGTAAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
44370258 ATGAGCT
1 -TGAGCT
44370265 ATGGTGAGTC
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
21 3 0.04
22 15 0.18
23 32 0.39
24 24 0.29
25 8 0.10
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:44381333 original size:27 final size:26
Alignment explanation
Indices: 44381293--44381404 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
44381283 AGGAAGCGTC
*
44381293 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44381320 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
44381347 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* ** *
44381375 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
44381401 CTGG
1 CTGG
44381405 CAGCCATACT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:44381397 original size:54 final size:54
Alignment explanation
Indices: 44381293--44381404 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
44381283 AGGAAGCGTC
* *
44381293 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * *
44381347 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
44381401 CTGG
1 CTGG
44381405 CAGCCATACT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:44388049 original size:40 final size:39
Alignment explanation
Indices: 44387992--44388141 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
44387982 TTGGAATGAT
* * * *
44387992 ATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAA-TAA
* * *
44388032 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TAATAA
** **
44388072 ATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG-TAATAA
* *
44388112 ATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
44388142 GAATCACTAT
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 85 0.92
41 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATAA
Found at i:44388089 original size:80 final size:80
Alignment explanation
Indices: 44387990--44388143 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
44387980 CATTGGAATG
* * ** *
44387990 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTACATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
44388055 TTCGTGCGAGTTGAT
66 ATCGTGCGAGTTGAT
** * * *
44388070 ATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
44388135 ATCGTGCGA
66 ATCGTGCGA
44388144 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGAT
Found at i:44388158 original size:40 final size:40
Alignment explanation
Indices: 44388034--44388197 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
44388024 GTAATTACAT
* * * *
44388034 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATAT
1 CCGGGCTAAGACCCGAAGGCAATCGTGCGA-ATCACTATAA
** * * *
44388074 CCGGGCTAAGACCCGAAGGCCTTTGTGC-AAGTTACCA-AA
1 CCGGGCTAAGACCCGAAGGCAATCGTGCGAA-TCACTATAA
*
44388113 TCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
1 -CCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
* * * * * *
44388154 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCACTATAT
1 CCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
44388194 CCGG
1 CCGG
44388198 TTAAATCTCG
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
39 4 0.04
40 92 0.92
41 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.19
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
Found at i:44388196 original size:80 final size:80
Alignment explanation
Indices: 44388032--44388201 Score: 173
Period size: 80 Copynumber: 2.1 Consensus size: 80
44388022 TAGTAATTAC
* * * * * * **
44388032 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCCTT
1 ATCCGGGTTAAGACCCGAAGGCAATCGTGCGAGATCATATAACCGGGCTAAGACCCGAAGACAAT
* * *
44388097 TGTGCAAGTTACCAA
66 CGAGCAAGTCACCAA
* *
44388112 ATCCGGGTTAAGACCCGAAGGCAATCGTGCGA-ATCACTATAACCGGGCTAGGTCCCGAAGACAA
1 ATCCGGGTTAAGACCCGAAGGCAATCGTGCGAGATCA-TATAACCGGGCTAAGACCCGAAGACAA
* * *
44388176 TCGAGCGAGTCACTAT
65 TCGAGCAAGTCACCAA
44388192 ATCC-GGTTAA
1 ATCCGGGTTAA
44388202 ATCTCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
79 8 0.11
80 65 0.89
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.20
Consensus pattern (80 bp):
ATCCGGGTTAAGACCCGAAGGCAATCGTGCGAGATCATATAACCGGGCTAAGACCCGAAGACAAT
CGAGCAAGTCACCAA
Found at i:44395107 original size:40 final size:38
Alignment explanation
Indices: 44395058--44395164 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 38
44395048 ATCACGATTT
*
44395058 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44395098 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
*
44395137 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44395165 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
38 3 0.05
39 29 0.48
40 29 0.48
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44395164 original size:39 final size:39
Alignment explanation
Indices: 44395058--44395207 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
44395048 ATCACGATTT
*
44395058 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
44395098 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTA
* * * ** *
44395137 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
44395177 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
44395208 TCATTCAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.03
39 30 0.33
40 58 0.64
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:44403191 original size:80 final size:80
Alignment explanation
Indices: 44403107--44403255 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44403097 TATGGTAACC
* * * *
44403107 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44403171 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44403187 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44403252 CCGG
66 CCGG
44403256 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44403197 original size:40 final size:38
Alignment explanation
Indices: 44403148--44403255 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44403138 ATCACGATTT
*
44403148 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44403188 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44403228 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44403256 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44405218 original size:19 final size:18
Alignment explanation
Indices: 44405194--44405230 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
44405184 TTATGTTTCA
44405194 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
44405213 TATTATTATATATTTATT
1 TATTATTATATATTTATT
44405231 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:44405242 original size:17 final size:14
Alignment explanation
Indices: 44405202--44405232 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44405192 CATATTATTA
*
44405202 TATTATTTATTTAT
1 TATTATATATTTAT
44405216 TATTATATATTTAT
1 TATTATATATTTAT
44405230 TAT
1 TAT
44405233 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:44405926 original size:126 final size:126
Alignment explanation
Indices: 44405691--44405934 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
44405681 CATTGATCTT
* * *
44405691 CTCTCAAAAGTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
44405756 ACTTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
44405817 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
* *
44405882 ACATACTGGGTTTCGCTTTCTTTGTTTGTTTTGAGTATTCGAATATCCTCTTA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
44405935 AGGCTAAAAC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:44412413 original size:27 final size:28
Alignment explanation
Indices: 44412379--44412447 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
44412369 TACTCGATCA
* *
44412379 CGCACACTTAGTGCCATATATTC-AGCT
1 CGCACACTTAGTGCCATATAATCAAACT
*
44412406 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCCATATAATCAAACT
44412434 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44412448 TGTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATAATCAAACT
Found at i:44413817 original size:18 final size:18
Alignment explanation
Indices: 44413785--44413822 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
44413775 TCCACACCCA
44413785 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
44413805 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
44413822 T
1 T
44413823 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:44420829 original size:43 final size:43
Alignment explanation
Indices: 44420735--44420876 Score: 144
Period size: 43 Copynumber: 3.2 Consensus size: 43
44420725 GTGAAGTCAG
* ** *
44420735 ATCTTATCTCTCTGAAGTGGCAGAGGAATAGATCGAAGATTACAA
1 ATCTTATCTCTCTGAAGTTGCAGA-GAGCAGATTGAAGA-TACAA
* *
44420780 ACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAA
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGAAGATACAA
* * *
44420823 GTCTTATCT-TCCTGAAGTTGCAG-GAAGCAGACTGAAAGTTACAA
1 ATCTTATCTCT-CTGAAGTTGCAGAG-AGCAGATTG-AAGATACAA
44420867 ATCTTATCTC
1 ATCTTATCTC
44420877 CATGTATCGG
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.02
43 31 0.38
44 26 0.32
45 22 0.27
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGAAGATACAA
Found at i:44421073 original size:176 final size:176
Alignment explanation
Indices: 44420779--44421427 Score: 1145
Period size: 176 Copynumber: 3.7 Consensus size: 176
44420769 GAAGATTACA
44420779 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* * *
44420844 AGGAAGCAGACTGAAAGTTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAGATGG
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
*
44420909 CGAGTCTTATCTCCATATATCGGCTATAGAGCAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGGCTATAGAGTAGATTTTAGCCACC
* * *
44420955 AACCTTATCTCTCTAAAATTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGT
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
*
44421020 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAGGATGG
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
* *
44421085 CGAGTCTTATCTCCATATATTGGCTATGGAGTAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGGCTATAGAGTAGATTTTAGCCACC
44421131 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* *
44421196 AGGAAGCAGACTGAAAGTTGCAGATCTTATCTCCATGTATCGGCTATGGAACAGATCGAGGATGG
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
*
44421261 CGAGTCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGGCTATAGAGTAGATTTTAGCCACC
* * *
44421307 AATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGAAGATACAAGTCTTATCTTCCTGAAGTTGT
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
*
44421372 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGAT
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
44421428 TTTAGCCACC
Statistics
Matches: 448, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 448 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
CGAGTCTTATCTCCATATATCGGCTATAGAGTAGATTTTAGCCACC
Found at i:44421356 original size:43 final size:45
Alignment explanation
Indices: 44421308--44421404 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 45
44421298 TTAGCCACCA
*
44421308 ATCTTATCTCT-CTGAAGTTGCA-GAGAGCAGATTG-AAGATACA-
1 ATCTTATCTCTCCTGAAGTTGCAGGA-AGCAGACTGAAAGATACAG
* *
44421350 AGTCTTATCT-TCCTGAAGTTGTAGGAAGCAGACTGAAAGTTACAG
1 A-TCTTATCTCTCCTGAAGTTGCAGGAAGCAGACTGAAAGATACAG
44421395 ATCTTATCTC
1 ATCTTATCTC
44421405 CATGTATCGG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.04
43 26 0.57
44 17 0.37
45 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (45 bp):
ATCTTATCTCTCCTGAAGTTGCAGGAAGCAGACTGAAAGATACAG
Found at i:44421454 original size:131 final size:132
Alignment explanation
Indices: 44421265--44421502 Score: 329
Period size: 131 Copynumber: 1.8 Consensus size: 132
44421255 GGATGGCGAG
* *
44421265 TCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACCAATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAATCTTATCTCCCTGAAGTTGCA
**
44421330 G-AGAGCAGATTGAAGAT-ACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAGTTAC
66 GTAGAGCAGATTGAAG-TCACAAACCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAGTTAC
44421393 AGA
130 AGA
* ** *
44421396 TCTTATCTCCATGTATCGGCTATTGAGCAGATTTTAGCCACC-GGCTTTGTCTCCCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAATC-TTATCTCCCTGAAGTTGC
* * * *
44421460 AGTGGAGTAGGTTGAAGTCACAAACCTTATCTTCTTGAAGTTG
65 AGTAGAGCAGATTGAAGTCACAAACCTTATCTTCCTGAAGTTG
44421503 CTGTAAGACT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
130 1 0.01
131 59 0.64
132 32 0.35
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAATCTTATCTCCCTGAAGTTGCA
GTAGAGCAGATTGAAGTCACAAACCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAGTTACA
GA
Found at i:44422784 original size:3 final size:3
Alignment explanation
Indices: 44422771--44422823 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
44422761 TTGGATTACT
*
44422771 TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44422819 TTA TT
1 TTA TT
44422824 TTTTATTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:44423102 original size:12 final size:12
Alignment explanation
Indices: 44423066--44423103 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44423056 AATATTCTTT
44423066 TTTTTAAATTT-
1 TTTTTAAATTTA
* *
44423077 TTTTTATATATA
1 TTTTTAAATTTA
44423089 TTTTTAAATTTA
1 TTTTTAAATTTA
44423101 TTT
1 TTT
44423104 ATGTATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTAAATTTA
Found at i:44423104 original size:22 final size:23
Alignment explanation
Indices: 44423066--44423110 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
44423056 AATATTCTTT
*
44423066 TTTTTAAATTTTTTTTATATATA
1 TTTTTAAATTTTATTTATATATA
*
44423089 TTTTTAAA-TTTATTTATGTATA
1 TTTTTAAATTTTATTTATATATA
44423111 ATTCGATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTAAATTTTATTTATATATA
Found at i:44424308 original size:18 final size:18
Alignment explanation
Indices: 44424285--44424320 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44424275 TATAACAAGT
44424285 AGGGTGATGGAGGTAGTG
1 AGGGTGATGGAGGTAGTG
44424303 AGGGTGATGGAGGTAGTG
1 AGGGTGATGGAGGTAGTG
44424321 GACGGTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.56, T:0.22
Consensus pattern (18 bp):
AGGGTGATGGAGGTAGTG
Found at i:44424354 original size:37 final size:37
Alignment explanation
Indices: 44424304--44424374 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
44424294 GAGGTAGTGA
44424304 GGGTGATGGAGGTAGTGGACGGTTTAGTAGGGTGTGG
1 GGGTGATGGAGGTAGTGGACGGTTTAGTAGGGTGTGG
*
44424341 GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
1 GGGTGATGGAGGTAGTGGACGGTTTAGTAGGGTG
44424375 ATGGAGTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.17, C:0.01, G:0.54, T:0.28
Consensus pattern (37 bp):
GGGTGATGGAGGTAGTGGACGGTTTAGTAGGGTGTGG
Found at i:44424374 original size:29 final size:29
Alignment explanation
Indices: 44424341--44424403 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
44424331 TAGGGTGTGG
44424341 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
44424370 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
44424399 GGGTG
1 GGGTG
44424404 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:44424626 original size:37 final size:37
Alignment explanation
Indices: 44424579--44424653 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
44424569 CTAACTCCAT
44424579 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
**
44424616 CACCCTACTAAACTGTCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
44424653 C
1 C
44424654 TACCTCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.53, G:0.01, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:44424655 original size:18 final size:18
Alignment explanation
Indices: 44424632--44424667 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44424622 ACTAAACTGT
44424632 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
44424650 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
44424668 TACTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.61, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:44424751 original size:11 final size:11
Alignment explanation
Indices: 44424735--44424778 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
44424725 GGGGATTTGG
44424735 AGAGGAATTTT
1 AGAGGAATTTT
*
44424746 AGAGGATTTTT
1 AGAGGAATTTT
*
44424757 AGAGGATTTTT
1 AGAGGAATTTT
* *
44424768 GGGGGAATTTT
1 AGAGGAATTTT
44424779 TTAGAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (11 bp):
AGAGGAATTTT
Found at i:44438426 original size:40 final size:40
Alignment explanation
Indices: 44438371--44438465 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
44438361 TATGTGCATA
* *
44438371 GCATTCGTGCGGGTTATTATAACCGGGTTCAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
44438411 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
*
44438451 GCATTCGTGCTGGTT
1 GCATTCGTGCAGGTT
44438466 GTTACATCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:44439722 original size:12 final size:13
Alignment explanation
Indices: 44439695--44439724 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44439685 TGGCCTGACC
44439695 AAAAATTCTGGAA
1 AAAAATTCTGGAA
44439708 AAAAATTCTGGAA
1 AAAAATTCTGGAA
44439721 AAAA
1 AAAA
44439725 CTAATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (13 bp):
AAAAATTCTGGAA
Found at i:44441684 original size:63 final size:62
Alignment explanation
Indices: 44441604--44441786 Score: 174
Period size: 63 Copynumber: 2.8 Consensus size: 62
44441594 CATAATTTTG
* *
44441604 GCTCTCTTGTAC-ACATGGTG-AGCACTTAGTACCACCCATGTGACCTAGC-CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGCA-CAC-TAGTACCACCCATGTGACCTAGCACA-TATATCCCGT
44441666 A
62 A
* * * * *
44441667 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG--C-ACA-CTAGTACCACCCATGTGACCTAGC-ACATATATCCCG
44441732 TA
61 TA
* *
44441734 GCTCTCTTGTCTACATGGTGTACACTAGTATCACCCATGTGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGCACACTAGTACCACCCATGTGACCTAGC-ACAT
44441787 CATAATGTCT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.43
64 2 0.02
66 21 0.21
67 30 0.31
68 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (62 bp):
GCTCTCTTGTCTACATGGTGCACACTAGTACCACCCATGTGACCTAGCACATATATCCCGTA
Found at i:44442354 original size:30 final size:30
Alignment explanation
Indices: 44442320--44442380 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44442310 TCCTTAATTC
44442320 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44442350 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44442380 A
1 A
44442381 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.