Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 235 of 240
Found at i:70956888 original size:24 final size:24
Alignment explanation
Indices: 70956855--70956903 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
70956845 CATTTTTTAA
*
70956855 AAAAATTAAAAATTATTTTAAAAAT
1 AAAAATT-AAAAGTATTTTAAAAAT
70956880 AAAAA-TAAAAGTATTTTAAAAAT
1 AAAAATTAAAAGTATTTTAAAAAT
70956903 A
1 A
70956904 TTTTAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.74
24 1 0.04
25 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAATTAAAAGTATTTTAAAAAT
Found at i:70956909 original size:34 final size:36
Alignment explanation
Indices: 70956860--70956930 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
70956850 TTTAAAAAAA
*
70956860 TTAAAAATTATTTTAAAAAT-AAAAATAAAAGTATT
1 TTAAAAATTATTTTAAAAATAAAAAATAAAAATATT
**
70956895 TTAAAAA-TATTTTAAAGTTAAAAAATAAAAATATT
1 TTAAAAATTATTTTAAAAATAAAAAATAAAAATATT
70956930 T
1 T
70956931 ATTTAGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 10 0.31
35 22 0.69
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (36 bp):
TTAAAAATTATTTTAAAAATAAAAAATAAAAATATT
Found at i:70962220 original size:39 final size:39
Alignment explanation
Indices: 70962166--70962240 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
70962156 TTATTTGCAA
* * *
70962166 CATAAGAACCCCCAATCCTCGTCACCGCCCAACACCAAT
1 CATAAGAACCACCAATCCTCATCACCACCCAACACCAAT
*
70962205 CATAAGAGCCACCAATCCTCATCACCACCCAACACC
1 CATAAGAACCACCAATCCTCATCACCACCCAACACC
70962241 CACCATTCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.35, C:0.47, G:0.07, T:0.12
Consensus pattern (39 bp):
CATAAGAACCACCAATCCTCATCACCACCCAACACCAAT
Found at i:70964154 original size:18 final size:18
Alignment explanation
Indices: 70964128--70964165 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
70964118 TGAATTTTAC
*
70964128 AATTTGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
70964146 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
70964164 AA
1 AA
70964166 CATATTGGTA
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:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:70973665 original size:11 final size:11
Alignment explanation
Indices: 70973649--70973676 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
70973639 GTATGTTAGG
70973649 GCTTTGTGTGT
1 GCTTTGTGTGT
70973660 GCTTTGTGTGT
1 GCTTTGTGTGT
70973671 GCTTTG
1 GCTTTG
70973677 CGCATGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.36, T:0.54
Consensus pattern (11 bp):
GCTTTGTGTGT
Found at i:70975082 original size:15 final size:15
Alignment explanation
Indices: 70975047--70975098 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
70975037 TTAAGAATTT
*
70975047 TATTAAATTAT-ATA
1 TATTTAATTATAATA
70975061 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
70975075 TATTTAATAATAAT-
1 TATTTAATTATAATA
70975089 TATGTTAATT
1 TAT-TTAATT
70975099 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:70975134 original size:120 final size:121
Alignment explanation
Indices: 70974996--70975215 Score: 397
Period size: 120 Copynumber: 1.8 Consensus size: 121
70974986 AACACGATTT
* *
70974996 TATATGATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATGATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
*
70975061 TTTTAATTATA-ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATTA
66 TTTTAATTAAATATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATTA
*
70975116 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATGATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
70975181 TTTTAATTAAATATATATTTAATAATAATTATGTT
66 TTTTAATTAAATATATATTTAATAATAATTATGTT
70975216 TAAATATGAT
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 72 0.76
121 23 0.24
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (121 bp):
TATATGATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTAAATATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATTA
Found at i:70975206 original size:19 final size:18
Alignment explanation
Indices: 70975163--70975200 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
70975153 ATTATTAAGA
70975163 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
70975180 ATTTTAATTAAA-TATAT
1 ATTTTAATTAAATTATAT
70975197 ATTT
1 ATTT
70975201 AATAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:70975428 original size:44 final size:45
Alignment explanation
Indices: 70975363--70975453 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
70975353 ACCTCTATTC
* * *
70975363 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
70975407 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
70975452 CA
1 CA
70975454 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:70975455 original size:16 final size:16
Alignment explanation
Indices: 70975434--70975502 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
70975424 GATTAGCTAT
70975434 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
70975450 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
70975467 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
70975483 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
70975499 TACA
1 TACA
70975503 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:70975476 original size:33 final size:32
Alignment explanation
Indices: 70975434--70975502 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
70975424 GATTAGCTAT
70975434 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
70975467 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
70975499 TACA
1 TACA
70975503 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:70976063 original size:22 final size:21
Alignment explanation
Indices: 70976021--70976063 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
70976011 AGTATTTATA
*
70976021 AAATAATTTAAATATCTGTTT
1 AAATAATTTAAATATCAGTTT
*
70976042 AAATAATTTTAAATTTCAGTTT
1 AAATAA-TTTAAATATCAGTTT
70976064 TTTACATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
AAATAATTTAAATATCAGTTT
Found at i:70989168 original size:162 final size:161
Alignment explanation
Indices: 70988868--70989177 Score: 362
Period size: 161 Copynumber: 1.9 Consensus size: 161
70988858 TTGGAAGAAC
*
70988868 AAAATGGAATTCAATCCAAAATTTAATTTGGGGTATGCATTCTCCAGTTCCATCTTCATTTCATT
1 AAAATGGAATTCAATCCAAAATTTAATTTGGGGCATGCATTCTCCAGTTCCATCTTCATTTCATT
* * * * * * * *
70988933 TCACTTATTTTGTCAAATCCGAATACAAAATCAACGCAGAGAAAACCCCACTCCCATTCAAAAAA
66 TCACTTATTTCGCCAAAGCCCAATACAAAAACAACACAGAGAAAACCCAAATCCCATTCAAAAAA
70988998 GCAAACAAAAATCAAATTCACCCATTGGGGGA
131 GCAAAC-AAAATCAAATTCACCCATTGGGGGA
* * * * *
70989030 AAAATGGAA-TCAAATCCGAAATTTTATTTGGGGCATGCATTCTCCCGTTCTATGTTCAATTT-A
1 AAAATGGAATTC-AATCCAAAATTTAATTTGGGGCATGCATTCTCCAGTTCCATCTTC-ATTTCA
* **
70989093 TTT-ACTTATTTCGCCAAAGCCCAATACAAAAACAGA-ACAGGGAAAACCCTAAAT-TGATTCAA
64 TTTCACTTATTTCGCCAAAGCCCAATACAAAAACA-ACACAGAGAAAACCC-AAATCCCATTCAA
70989155 AAACGAG-AAACAAAATCAAATTC
127 AAA--AGCAAACAAAATCAAATTC
70989178 GAACTTGAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
161 60 0.48
162 59 0.47
163 6 0.05
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (161 bp):
AAAATGGAATTCAATCCAAAATTTAATTTGGGGCATGCATTCTCCAGTTCCATCTTCATTTCATT
TCACTTATTTCGCCAAAGCCCAATACAAAAACAACACAGAGAAAACCCAAATCCCATTCAAAAAA
GCAAACAAAATCAAATTCACCCATTGGGGGA
Found at i:70993661 original size:29 final size:30
Alignment explanation
Indices: 70993605--70993663 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
70993595 ATTTCAAAAT
*
70993605 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTTAA-GTGCAATTG
* *
70993636 TATACATGAATTTTAATTTGA-TGCAATT
1 TATACATGAACTTTAATTTAAGTGCAATT
70993664 ACACACGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAAGTGCAATTG
Found at i:70993911 original size:29 final size:30
Alignment explanation
Indices: 70993858--70993929 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 30
70993848 GAATTGGATC
*
70993858 AAATCAAATTTTCATGCATAAAATT-ACATA
1 AAATCAAA-ATTCATGCATAAAATTCACATA
* * *
70993888 AAATCAAAATTCATGTATACAATTGCACATT
1 AAATCAAAATTCATGCATAAAATT-CACATA
70993919 AAATCATAAAT
1 AAATCA-AAAT
70993930 AGTGTGTAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 13 0.37
30 8 0.23
31 10 0.29
32 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTCATGCATAAAATTCACATA
Found at i:70994346 original size:19 final size:19
Alignment explanation
Indices: 70994304--70994346 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
70994294 AGTGTTTGTA
70994304 TAAAAAAATGAAACTTAAG
1 TAAAAAAATGAAACTTAAG
* *
70994323 CAAAAAAATCG-AACTTAAT
1 TAAAAAAAT-GAAACTTAAG
70994342 TAAAA
1 TAAAA
70994347 TGAGCCAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.21
Consensus pattern (19 bp):
TAAAAAAATGAAACTTAAG
Found at i:70998631 original size:21 final size:21
Alignment explanation
Indices: 70998605--70998645 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70998595 ATCTGCTCAA
* *
70998605 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
70998626 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
70998646 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:71019782 original size:29 final size:29
Alignment explanation
Indices: 71019749--71019804 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
71019739 TTTAATCTTT
*
71019749 ATATTTTTATAATGTTATTAATTAGTTTA
1 ATATTTTTATAATGTAATTAATTAGTTTA
71019778 ATATTTTTATAATGTAATTAATTAGTT
1 ATATTTTTATAATGTAATTAATTAGTT
71019805 CAAATAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (29 bp):
ATATTTTTATAATGTAATTAATTAGTTTA
Found at i:71020671 original size:24 final size:24
Alignment explanation
Indices: 71020639--71020686 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
71020629 TATGATGCTA
71020639 GCCTCCAACCACCACTTGGGGTCC
1 GCCTCCAACCACCACTTGGGGTCC
71020663 GCCTCCAACCACCACTTGGGGTCC
1 GCCTCCAACCACCACTTGGGGTCC
71020687 ATCTTCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.17
Consensus pattern (24 bp):
GCCTCCAACCACCACTTGGGGTCC
Found at i:71030961 original size:21 final size:21
Alignment explanation
Indices: 71030935--71030989 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
71030925 ACAGCGGTGG
*
71030935 CGGTGAGATTAGTTACTGTAA
1 CGGTGAGATTAGATACTGTAA
* *
71030956 CGGTGAGATTGGATACTGTAG
1 CGGTGAGATTAGATACTGTAA
*
71030977 CAGTGAGATTAGA
1 CGGTGAGATTAGA
71030990 AACAATGGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:71032193 original size:44 final size:44
Alignment explanation
Indices: 71032139--71032246 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
71032129 CTTGCCTTTA
* *
71032139 GTCTGCCATTTTGGCTTGCACCCACTTGAGCTT-GCATTTAGACC
1 GTCTGCCATTTCGGCTTGCACCCA-TTCAGCTTAGCATTTAGACC
* *
71032183 GTCTGCCATTTCGGCTTGCACCCATTCAGGTTAGCATTTAGACT
1 GTCTGCCATTTCGGCTTGCACCCATTCAGCTTAGCATTTAGACC
* *
71032227 GTCCGCCACTTCGGCTTGCA
1 GTCTGCCATTTCGGCTTGCA
71032247 ATTCGACAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 6 0.11
44 51 0.89
ACGTcount: A:0.16, C:0.31, G:0.21, T:0.32
Consensus pattern (44 bp):
GTCTGCCATTTCGGCTTGCACCCATTCAGCTTAGCATTTAGACC
Found at i:71040552 original size:21 final size:22
Alignment explanation
Indices: 71040523--71040569 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
71040513 CAGAAGGAGT
*
71040523 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
71040545 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
71040566 GAGT
1 GAGT
71040570 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:71054467 original size:4 final size:4
Alignment explanation
Indices: 71054458--71054507 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
71054448 TGAATGGAAT
71054458 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
71054506 CA
1 CA
71054508 CTGTTAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:71060578 original size:14 final size:16
Alignment explanation
Indices: 71060546--71060578 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
71060536 GATTGAATTA
71060546 AGAAAAAGTTTTATAG
1 AGAAAAAGTTTTATAG
71060562 AGAAAAA-TTTT-TAG
1 AGAAAAAGTTTTATAG
71060576 AGA
1 AGA
71060579 TTTTTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 4 0.24
16 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (16 bp):
AGAAAAAGTTTTATAG
Found at i:71061288 original size:3 final size:3
Alignment explanation
Indices: 71061282--71061313 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
71061272 AATAATTATG
*
71061282 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
71061314 GGGTTACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:71065298 original size:23 final size:23
Alignment explanation
Indices: 71065268--71065314 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
71065258 ATCATGTCCC
71065268 TCCCTATGATGGACTCCCAACAT
1 TCCCTATGATGGACTCCCAACAT
71065291 TCCCTATGATGGACTCCCAACAT
1 TCCCTATGATGGACTCCCAACAT
71065314 T
1 T
71065315 TAATATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.28
Consensus pattern (23 bp):
TCCCTATGATGGACTCCCAACAT
Found at i:71068958 original size:20 final size:21
Alignment explanation
Indices: 71068901--71069043 Score: 77
Period size: 20 Copynumber: 7.0 Consensus size: 21
71068891 TCTTTTTGAA
*
71068901 ACAATAC-CAAAAATTATGAG
1 ACAATACAAAAAAATTATGAG
***
71068921 A-AAGTACCTTAAAA-TATGAG
1 ACAA-TACAAAAAAATTATGAG
71068941 ACAATAC-AAAAAATTATGAG
1 ACAATACAAAAAAATTATGAG
* *
71068961 GCAATACTAAAAAA--ATGAAG
1 ACAATACAAAAAAATTATG-AG
*
71068981 A-AATACAAAAAAAATTATAAG
1 ACAATAC-AAAAAAATTATGAG
* **
71069002 AAAATACGAAAAAAAACATGAG
1 ACAATAC-AAAAAAATTATGAG
* *
71069024 ATAGTACCAAAAAAA-TATGA
1 ACAATA-CAAAAAAATTATGA
71069044 TGGGATACCA
Statistics
Matches: 97, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
19 14 0.14
20 34 0.35
21 19 0.20
22 29 0.30
23 1 0.01
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.18
Consensus pattern (21 bp):
ACAATACAAAAAAATTATGAG
Found at i:71068978 original size:19 final size:18
Alignment explanation
Indices: 71068931--71068993 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
71068921 AAAGTACCTT
* *
71068931 AAAATATGAGACAATACA
1 AAAAAATGAGGCAATACA
71068949 AAAAATTATGAGGCAATACTA
1 AAAAA--ATGAGGCAATAC-A
* *
71068970 AAAAAATGAAGAAATACA
1 AAAAAATGAGGCAATACA
71068988 AAAAAA
1 AAAAAA
71068994 ATTATAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 11 0.29
19 10 0.26
20 11 0.29
21 6 0.16
ACGTcount: A:0.65, C:0.08, G:0.11, T:0.16
Consensus pattern (18 bp):
AAAAAATGAGGCAATACA
Found at i:71068986 original size:39 final size:40
Alignment explanation
Indices: 71068901--71068992 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
71068891 TCTTTTTGAA
* * *
71068901 ACAATACCAAAAATTATGAGAAAGTACCTTAAAATATGAG
1 ACAATACAAAAAATTATGAGAAAGTACCTAAAAAAATGAG
*
71068941 ACAATACAAAAAATTATGAGGCAA-TA-CTAAAAAAATGAAG
1 ACAATACAAAAAATTATGA-GAAAGTACCTAAAAAAATG-AG
71068981 A-AATACAAAAAA
1 ACAATACAAAAAA
71068993 AATTATAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 20 0.43
40 23 0.50
41 3 0.07
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.18
Consensus pattern (40 bp):
ACAATACAAAAAATTATGAGAAAGTACCTAAAAAAATGAG
Found at i:71068992 original size:40 final size:40
Alignment explanation
Indices: 71068901--71069016 Score: 105
Period size: 41 Copynumber: 2.9 Consensus size: 40
71068891 TCTTTTTGAA
* * *
71068901 ACAATAC-CAAAAATTATGA-GAAAGTACCTTAAAATATGAG
1 ACAATACAAAAAAATTATGAGGAAA-TA-CTAAAAAAATGAG
*
71068941 ACAATAC-AAAAAATTATGAGGCAATACTAAAAAAATGAAG
1 ACAATACAAAAAAATTATGAGGAAATACTAAAAAAATG-AG
* * *
71068981 A-AATACAAAAAAAATTATAAGAAAATACGAAAAAAA
1 ACAATAC-AAAAAAATTATGAGGAAATACTAAAAAAA
71069017 ACATGAGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
39 14 0.22
40 23 0.36
41 27 0.42
ACGTcount: A:0.62, C:0.09, G:0.10, T:0.18
Consensus pattern (40 bp):
ACAATACAAAAAAATTATGAGGAAATACTAAAAAAATGAG
Found at i:71068993 original size:21 final size:23
Alignment explanation
Indices: 71068969--71069022 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
71068959 AGGCAATACT
71068969 AAAAAAATGAAG-AAATAC-AAA
1 AAAAAAATGAAGAAAATACGAAA
*
71068990 AAAAATTAT-AAGAAAATACGAAA
1 AAAAA-AATGAAGAAAATACGAAA
*
71069013 AAAAACATGA
1 AAAAAAATGA
71069023 GATAGTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 8 0.30
22 10 0.37
23 9 0.33
ACGTcount: A:0.72, C:0.06, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAAAAATGAAGAAAATACGAAA
Found at i:71068994 original size:19 final size:19
Alignment explanation
Indices: 71068943--71068995 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
71068933 AATATGAGAC
* * *
71068943 AATACAAAAAATTATGAGGC
1 AATACAAAAAA-AATGAAGA
*
71068963 AATACTAAAAAAATGAAGA
1 AATACAAAAAAAATGAAGA
71068982 AATACAAAAAAAAT
1 AATACAAAAAAAAT
71068996 TATAAGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.66, C:0.08, G:0.09, T:0.17
Consensus pattern (19 bp):
AATACAAAAAAAATGAAGA
Found at i:71079954 original size:22 final size:23
Alignment explanation
Indices: 71079929--71079972 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
71079919 CTATATTGTC
*
71079929 CAATCAATTATAA-TATAAAATT
1 CAATCAATTACAACTATAAAATT
*
71079951 CAATTAATTACAACTATAAAAT
1 CAATCAATTACAACTATAAAAT
71079973 AAATACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (23 bp):
CAATCAATTACAACTATAAAATT
Found at i:71080345 original size:145 final size:145
Alignment explanation
Indices: 71080147--71080426 Score: 359
Period size: 145 Copynumber: 1.9 Consensus size: 145
71080137 GTAAAAATAA
* * *
71080147 TCACTTTTGTTTGTATTAGATTATATTTTAGTCATTTATATTTGAAATGTTATGTTTTAATCA-T
1 TCACTTTTGTTTGTATTAGAATACATTTTAGTCACTTATATTTGAAATGTTATGTTTTAATCACT
* * * * *
71080211 T-TACATTATCATTTTGTTATGAAGTAGTCAC-TTTTCCGTTCAGCTCCATTACCTCCCTAACGA
66 TGT-C-TTATCATTTTGTTACGAAATAGTCACATTGT-CATTCAGCTCCATTACCTCCCTAACAA
*
71080274 CAATCCTATGTGGGATAG
128 CAACCCTATGTGGGATAG
* * * *
71080292 TCACTTTTGTTTGTCTTATAATACATTTTAGTCACTTCTATTTGAAATGTTATGTTTTAGTCACT
1 TCACTTTTGTTTGTATTAGAATACATTTTAGTCACTTATATTTGAAATGTTATGTTTTAATCACT
* * **
71080357 TGTCTTATCGTTTTGTTACGAAATAGTCACATTGTCATTCATCTCTGTTACCTCCCTAACAACAA
66 TGTCTTATCATTTTGTTACGAAATAGTCACATTGTCATTCAGCTCCATTACCTCCCTAACAACAA
71080422 CCCTA
131 CCCTA
71080427 GATGGCAGTC
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
145 108 0.94
146 6 0.05
147 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (145 bp):
TCACTTTTGTTTGTATTAGAATACATTTTAGTCACTTATATTTGAAATGTTATGTTTTAATCACT
TGTCTTATCATTTTGTTACGAAATAGTCACATTGTCATTCAGCTCCATTACCTCCCTAACAACAA
CCCTATGTGGGATAG
Found at i:71081679 original size:3 final size:3
Alignment explanation
Indices: 71081665--71081696 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
71081655 TAAGGGGATT
*
71081665 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
71081697 TTTTGGTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:71096034 original size:25 final size:25
Alignment explanation
Indices: 71096006--71096058 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
71095996 TAAGCCTATT
71096006 CATAAGAATCAATTCCATCTACATA
1 CATAAGAATCAATTCCATCTACATA
71096031 CATAAGAATCAATTCCATCTACATA
1 CATAAGAATCAATTCCATCTACATA
71096056 CAT
1 CAT
71096059 GGGGTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.28
Consensus pattern (25 bp):
CATAAGAATCAATTCCATCTACATA
Found at i:71097260 original size:12 final size:12
Alignment explanation
Indices: 71097243--71097267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71097233 TGTTTCTTAC
71097243 AAATAAAATAAA
1 AAATAAAATAAA
71097255 AAATAAAATAAA
1 AAATAAAATAAA
71097267 A
1 A
71097268 TATTCGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:71101239 original size:12 final size:12
Alignment explanation
Indices: 71101222--71101246 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71101212 TATTTCTTAC
71101222 AAATAAAATAAA
1 AAATAAAATAAA
71101234 AAATAAAATAAA
1 AAATAAAATAAA
71101246 A
1 A
71101247 TATTCGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:71102816 original size:57 final size:59
Alignment explanation
Indices: 71102755--71102913 Score: 135
Period size: 57 Copynumber: 2.7 Consensus size: 59
71102745 TATATTTAAA
* *
71102755 TTTTTAGAGTTAGGACTAAATTGATAGATTTTATAAATATTGAGGGTCAAA-T-TTG-TT
1 TTTTTAGAATTAGGA-TAAATTGATAGATTTTATAAATATTGAGGGTCAAACTGTTGATG
** * * * * * *
71102812 TTTTTAGAATTATAATTAAAATGACAAATTTTGTAAACATTGAGGGTTAAATCTGTTGATG
1 TTTTTAGAATTAGGA-TAAATTGATAGATTTTATAAATATTGAGGGTCAAA-CTGTTGATG
* * * *
71102873 TTTTTATATTTAGGATCAAATTGATAGAATGTATAAATATT
1 TTTTTAGAATTAGGAT-AAATTGATAGATTTTATAAATATT
71102914 AGAGAGCTAA
Statistics
Matches: 75, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
57 41 0.55
59 1 0.01
60 4 0.05
61 29 0.39
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.43
Consensus pattern (59 bp):
TTTTTAGAATTAGGATAAATTGATAGATTTTATAAATATTGAGGGTCAAACTGTTGATG
Found at i:71109174 original size:11 final size:11
Alignment explanation
Indices: 71109158--71109183 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71109148 GCTACAGTAT
71109158 ATAATAAATAA
1 ATAATAAATAA
71109169 ATAATAAATAA
1 ATAATAAATAA
71109180 ATAA
1 ATAA
71109184 ATAATTCAAT
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:71109180 original size:15 final size:15
Alignment explanation
Indices: 71109160--71109188 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
71109150 TACAGTATAT
71109160 AATAAATAAATAATA
1 AATAAATAAATAATA
71109175 AATAAATAAATAAT
1 AATAAATAAATAAT
71109189 TCAATCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAATAAATAATA
Found at i:71109230 original size:21 final size:21
Alignment explanation
Indices: 71109184--71109223 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
71109174 AAATAAATAA
71109184 ATAATTCAATCTAATTTAAAC
1 ATAATTCAATCTAATTTAAAC
*
71109205 ATAATTCAGTCTAATTTAA
1 ATAATTCAATCTAATTTAA
71109224 TTATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (21 bp):
ATAATTCAATCTAATTTAAAC
Found at i:71113945 original size:16 final size:16
Alignment explanation
Indices: 71113899--71113946 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
71113889 ATTTTGGGAA
71113899 ATTTTTATAAAATTTTT
1 ATTTTTAT-AAATTTTT
* *
71113916 ATTTTTTTAGATTTTT
1 ATTTTTATAAATTTTT
*
71113932 GTTTTTATAAATTTT
1 ATTTTTATAAATTTT
71113947 AATTATTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
ATTTTTATAAATTTTT
Found at i:71118954 original size:81 final size:80
Alignment explanation
Indices: 71118816--71118973 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 80
71118806 TAATTAAGGA
* * *
71118816 TAAAATATTATCATGGAGAATTGATTTGGTGATATAAAATATTTGACATCAAATAATAATCTTTT
1 TAAAATATTAT-ATGGAGAATTGATTTGGTGATATAAAATATATGACATCAAATAATAAACATTT
71118881 AAAAATATATGAAATG
65 AAAAATATATGAAATG
* ** * * *
71118897 TAAAATATTAT-TGGGAGGAATTGGTTTGGTGATATAGGATATATGATATTAATTAATAAACATT
1 TAAAATATTATAT-GGA-GAATTGATTTGGTGATATAAAATATATGACATCAAATAATAAACATT
**
71118961 TGCAAATATATGA
64 TAAAAATATATGA
71118974 TTAAAAATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.02
80 3 0.05
81 60 0.94
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (80 bp):
TAAAATATTATATGGAGAATTGATTTGGTGATATAAAATATATGACATCAAATAATAAACATTTA
AAAATATATGAAATG
Found at i:71137003 original size:15 final size:16
Alignment explanation
Indices: 71136975--71137009 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
71136965 TCTAAAAAAT
71136975 ATATTTATATAATTTA
1 ATATTTATATAATTTA
*
71136991 ATATTTA-ATAATTTT
1 ATATTTATATAATTTA
71137006 ATAT
1 ATAT
71137010 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTATATAATTTA
Found at i:71137018 original size:23 final size:22
Alignment explanation
Indices: 71136978--71137031 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
71136968 AAAAAATATA
71136978 TTTATATAATTTAATATTTAATAAT
1 TTTATAT-ATTTAATA-TTAA-AAT
*
71137003 TTTATATATTT-TTATTAAAAT
1 TTTATATATTTAATATTAAAAT
*
71137024 ATTATATA
1 TTTATATA
71137032 GAATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.37
22 4 0.15
23 2 0.07
24 4 0.15
25 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATATATTTAATATTAAAAT
Found at i:71138722 original size:21 final size:22
Alignment explanation
Indices: 71138698--71138741 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
71138688 TGATTCAAGT
71138698 TTAAATTAAATAAT-AAATATA
1 TTAAATTAAATAATAAAATATA
* *
71138719 TTAAATTTAATCATAAAATATA
1 TTAAATTAAATAATAAAATATA
71138741 T
1 T
71138742 GGGCATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAATTAAATAATAAAATATA
Found at i:71139019 original size:15 final size:16
Alignment explanation
Indices: 71138996--71139035 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
71138986 AAATATAGTA
*
71138996 TTTTGAATATTAATT-
1 TTTTTAATATTAATTG
*
71139011 TTTTTAATATTATTTG
1 TTTTTAATATTAATTG
71139027 TTTTTAATA
1 TTTTTAATA
71139036 AGATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTTTAATATTAATTG
Found at i:71139264 original size:16 final size:18
Alignment explanation
Indices: 71139229--71139264 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
71139219 TAAAAAAGTC
71139229 ATTTTAGCCTTCTATTTA
1 ATTTTAGCCTTCTATTTA
71139247 ATTTTAGCC-TCT-TTTA
1 ATTTTAGCCTTCTATTTA
71139263 AT
1 AT
71139265 CATTGAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTAGCCTTCTATTTA
Found at i:71154690 original size:5 final size:5
Alignment explanation
Indices: 71154680--71154707 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
71154670 AAAAGATAAT
71154680 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
71154708 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:71156128 original size:20 final size:21
Alignment explanation
Indices: 71156103--71156156 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
71156093 TAATTTTGTA
*
71156103 ATTTTTTATGATTTTTA-TTT
1 ATTTTTTATGATTTTAAGTTT
* *
71156123 ATTTTTAAAGATTTTAAGTTT
1 ATTTTTTATGATTTTAAGTTT
*
71156144 TTTTTTGTATGAT
1 ATTTTT-TATGAT
71156157 GACATTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 14 0.54
21 8 0.31
22 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
ATTTTTTATGATTTTAAGTTT
Found at i:71158992 original size:21 final size:21
Alignment explanation
Indices: 71158952--71158992 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
71158942 TTTTTTTTCA
71158952 TATTAATTTTGAGTGTTATTCG
1 TATTAATTTTGAG-GTTATTCG
71158974 TATTAATTTCTGA-GTTATT
1 TATTAATTT-TGAGGTTATT
71158993 GTACAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 9 0.50
23 3 0.17
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (21 bp):
TATTAATTTTGAGGTTATTCG
Found at i:71161750 original size:6 final size:6
Alignment explanation
Indices: 71161739--71161777 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
71161729 TATACATACA
*
71161739 TATATG TATATG TTATATG TGTATG TATATG TATATG TA
1 TATATG TATATG -TATATG TATATG TATATG TATATG TA
71161778 AATGCTCACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:71161765 original size:19 final size:18
Alignment explanation
Indices: 71161741--71161776 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
71161731 TACATACATA
71161741 TATGTATATGTTATATGTG
1 TATGTATATG-TATATGTG
71161760 TATGTATATGTATATGT
1 TATGTATATGTATATGT
71161777 AAATGCTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (18 bp):
TATGTATATGTATATGTG
Found at i:71161938 original size:2 final size:2
Alignment explanation
Indices: 71161933--71161964 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
71161923 ATATATATAT
71161933 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
71161965 TTCCCAAATG
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:71164025 original size:8 final size:8
Alignment explanation
Indices: 71164014--71164040 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
71164004 AAAAAATTAG
71164014 AAAATTTT
1 AAAATTTT
71164022 AAAATTTT
1 AAAATTTT
71164030 AAAATTTT
1 AAAATTTT
71164038 AAA
1 AAA
71164041 TTGGTAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:71164027 original size:16 final size:16
Alignment explanation
Indices: 71164006--71164040 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
71163996 GGCCCTTTAA
71164006 AAAATTAGAAAATTTT
1 AAAATTAGAAAATTTT
**
71164022 AAAATTTTAAAATTTT
1 AAAATTAGAAAATTTT
71164038 AAA
1 AAA
71164041 TTGGTAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAAATTAGAAAATTTT
Found at i:71165042 original size:11 final size:11
Alignment explanation
Indices: 71165028--71165057 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
71165018 AAAATAAAAA
71165028 TAAAATTATTT
1 TAAAATTATTT
*
71165039 TAAAAGTATTT
1 TAAAATTATTT
71165050 TAAAATTA
1 TAAAATTA
71165058 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:71166887 original size:23 final size:23
Alignment explanation
Indices: 71166852--71166903 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
71166842 ACCTACTTTC
* * *
71166852 TTACTGTAATAATTTTCGTGGTA
1 TTACAGTAATAATTTTCGAGATA
*
71166875 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAATAATTTTCGAGATA
71166898 TTACAG
1 TTACAG
71166904 ATATAGACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (23 bp):
TTACAGTAATAATTTTCGAGATA
Found at i:71167821 original size:30 final size:30
Alignment explanation
Indices: 71167757--71167822 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
71167747 AAAGCTTAAG
**
71167757 TACCAAATTAGAAAAAAAATCAAATTCAGG
1 TACCAAATTAGAAAAAAAATCAAATTCAAA
** *
71167787 TACCAAATTAGAAAAATTATCAAGTTCAAA
1 TACCAAATTAGAAAAAAAATCAAATTCAAA
71167817 TACCAA
1 TACCAA
71167823 TTTGACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.23
Consensus pattern (30 bp):
TACCAAATTAGAAAAAAAATCAAATTCAAA
Found at i:71169766 original size:6 final size:6
Alignment explanation
Indices: 71169734--71169795 Score: 79
Period size: 6 Copynumber: 10.2 Consensus size: 6
71169724 ACAACACCTA
* * *
71169734 AACAGT AATCAGT AACTGT AGCAGT AACAGT AATAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
*
71169783 AACAGA AACAGT A
1 AACAGT AACAGT A
71169796 TTCAACACAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 41 0.87
7 6 0.13
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:71169870 original size:45 final size:45
Alignment explanation
Indices: 71169776--71169872 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
71169766 ATAGTAACAG
* *
71169776 TAACAGTAACAGAAACAGTATTCAACACACAAAGTGCTGAATCTA
1 TAACAGTAACAGAAACAGTATTCAACACACAAAATGCTGAACCTA
**
71169821 TAACAGTAAC-GATAACAGTATTTGACACACAAAATG-TCGAACCGT-
1 TAACAGTAACAGA-AACAGTATTCAACACACAAAATGCT-GAACC-TA
71169866 TAACAGT
1 TAACAGT
71169873 TATAGTAGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 3 0.07
45 41 0.91
46 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGAAACAGTATTCAACACACAAAATGCTGAACCTA
Found at i:71171168 original size:8 final size:8
Alignment explanation
Indices: 71171155--71171187 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
71171145 TGCTTTATAT
71171155 ATATAATA
1 ATATAATA
71171163 ATATAATA
1 ATATAATA
*
71171171 TTATAATA
1 ATATAATA
71171179 ATATAATA
1 ATATAATA
71171187 A
1 A
71171188 AACAACATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:71171177 original size:16 final size:17
Alignment explanation
Indices: 71171151--71171186 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
71171141 CATTTGCTTT
71171151 ATATATATAATAATATA
1 ATATATATAATAATATA
71171168 ATAT-TATAATAATATA
1 ATATATATAATAATATA
71171184 ATA
1 ATA
71171187 AAACAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATATAATAATATA
Found at i:71174449 original size:13 final size:14
Alignment explanation
Indices: 71174433--71174470 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
71174423 AAAACATATG
71174433 TTAAAAATTAAAT-
1 TTAAAAATTAAATA
71174446 TTAAAAA-TAAATA
1 TTAAAAATTAAATA
71174459 TTATAAAATTAA
1 TTA-AAAATTAA
71174471 TAATTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 10 0.45
14 4 0.18
15 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAAATTAAATA
Found at i:71174933 original size:20 final size:21
Alignment explanation
Indices: 71174890--71174933 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
71174880 GAATATTTTA
*
71174890 ATATATAAATGTTTAAAATTAT
1 ATATATAAATGTATAAAA-TAT
*
71174912 ATATATATATGTATAAAA-AT
1 ATATATAAATGTATAAAATAT
71174932 AT
1 AT
71174934 GTTAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
22 16 0.80
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
ATATATAAATGTATAAAATAT
Found at i:71175165 original size:14 final size:14
Alignment explanation
Indices: 71175146--71175175 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71175136 TAAATATGAA
*
71175146 ATTTTTTTATTTTT
1 ATTTTTATATTTTT
71175160 ATTTTTATATTTTT
1 ATTTTTATATTTTT
71175174 AT
1 AT
71175176 GTAATAAAAG
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTATATTTTT
Found at i:71176933 original size:3 final size:3
Alignment explanation
Indices: 71176925--71176959 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
71176915 TACTATAATG
71176925 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
71176960 TTTTGAGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:71181690 original size:63 final size:63
Alignment explanation
Indices: 71181613--71181737 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 63
71181603 TGTGTGTCTT
* * *
71181613 CTCTTCAAGGAGGTTAATTTCGCTATTTATATAATGTGATTATTGTATGTGACATTTTAGGTC
1 CTCTTCAAGGAGGTTAATTTCGCTATTTATATAATATGATTATTGCATGTGACATTCTAGGTC
* * * *
71181676 CTCTTCAAGGAGGTTAATTTTGCTATTTATATAATATGGTTCTTGCATGTGACGTTCTAGGT
1 CTCTTCAAGGAGGTTAATTTCGCTATTTATATAATATGATTATTGCATGTGACATTCTAGGT
71181738 AGACCTCCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (63 bp):
CTCTTCAAGGAGGTTAATTTCGCTATTTATATAATATGATTATTGCATGTGACATTCTAGGTC
Found at i:71188356 original size:15 final size:15
Alignment explanation
Indices: 71188326--71188387 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 15
71188316 ACAAGTGAGA
71188326 TTAAAAAATTATTTTT
1 TTAAAAAATTA-TTTT
71188342 TTAAAAAATTATTTT
1 TTAAAAAATTATTTT
*
71188357 TT-AAATA-TATATTT
1 TTAAAAAATTAT-TTT
*
71188371 TT-AAAAATTAATTT
1 TTAAAAAATTATTTT
71188385 TTA
1 TTA
71188388 TATTCTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.08
14 18 0.45
15 8 0.20
16 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAAAATTATTTT
Found at i:71190633 original size:27 final size:28
Alignment explanation
Indices: 71190588--71190648 Score: 106
Period size: 27 Copynumber: 2.2 Consensus size: 28
71190578 TAATAAACAC
*
71190588 AAAAAAATTATTTTAAAAATAAAAAAAT
1 AAAAAAAGTATTTTAAAAATAAAAAAAT
71190616 AAAAAAAGTATTTT-AAAATAAAAAAAT
1 AAAAAAAGTATTTTAAAAATAAAAAAAT
71190643 AAAAAA
1 AAAAAA
71190649 TATTTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 19 0.59
28 13 0.41
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAAGTATTTTAAAAATAAAAAAAT
Found at i:71192495 original size:23 final size:24
Alignment explanation
Indices: 71192469--71192523 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 24
71192459 ATATATATAA
71192469 ATTT-ATTTTTACGACACATCGTT
1 ATTTGATTTTTACGACACATCGTT
71192492 ATTTGA-TTTTACGACACATCGTT
1 ATTTGATTTTTACGACACATCGTT
71192515 ATTTGATTT
1 ATTTGATTT
71192524 ATTGACGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTGATTTTTACGACACATCGTT
Found at i:71199504 original size:6 final size:6
Alignment explanation
Indices: 71199493--71199539 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
71199483 TAATCTTCAT
71199493 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCC
1 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCC
71199540 CTCCGGCTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.15, C:0.68, G:0.00, T:0.17
Consensus pattern (6 bp):
TCCCCA
Found at i:71220225 original size:26 final size:27
Alignment explanation
Indices: 71220180--71220236 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
71220170 AATTTTAAAA
** * *
71220180 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACAATTTTTAGTGTT
71220207 TATTTTTAAAATA-AATTTTTAGTGTT
1 TATTTTTAAAATACAATTTTTAGTGTT
71220233 TATT
1 TATT
71220237 AAAAAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTAGTGTT
Found at i:71221246 original size:3 final size:3
Alignment explanation
Indices: 71221238--71221263 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
71221228 CATTGCACAT
71221238 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
71221264 AAGTTGTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:71221565 original size:30 final size:29
Alignment explanation
Indices: 71221531--71221597 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
71221521 ATTAATAATC
* *
71221531 ATAAAATTATACGTTGATCTTTCAAAAATT
1 ATAAAATT-TAAGTTAATCTTTCAAAAATT
* * *
71221561 ATAAAAATTTAATTTAATTTTTTAAAAATT
1 AT-AAAATTTAAGTTAATCTTTCAAAAATT
71221591 ATAAAAT
1 ATAAAAT
71221598 ATAAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 5 0.16
30 20 0.65
31 6 0.19
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
ATAAAATTTAAGTTAATCTTTCAAAAATT
Found at i:71221605 original size:14 final size:16
Alignment explanation
Indices: 71221586--71221624 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
71221576 AATTTTTTAA
71221586 AAATTATAAAAT-AT-
1 AAATTATAAAATGATG
71221600 AAATTATTAAAATGATG
1 AAATTA-TAAAATGATG
71221617 AAATTATA
1 AAATTATA
71221625 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 6 0.27
16 4 0.18
17 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (16 bp):
AAATTATAAAATGATG
Found at i:71221620 original size:17 final size:15
Alignment explanation
Indices: 71221586--71221623 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
71221576 AATTTTTTAA
71221586 AAATTA-TAAAATAT
1 AAATTATTAAAATAT
71221600 AAATTATTAAAATGAT
1 AAATTATTAAAAT-AT
71221616 GAAATTAT
1 -AAATTAT
71221624 ATTTTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 2 0.10
17 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAATTATTAAAATAT
Found at i:71222849 original size:21 final size:19
Alignment explanation
Indices: 71222819--71222857 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
71222809 CACCGCATAT
71222819 ACTCTCATTTTAATTATAACC
1 ACTCTCA-TTT-ATTATAACC
*
71222840 ACTCTTATTTATTATAAC
1 ACTCTCATTTATTATAAC
71222858 TATAACCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (19 bp):
ACTCTCATTTATTATAACC
Found at i:71223244 original size:25 final size:25
Alignment explanation
Indices: 71223189--71223236 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
71223179 AATTGAAACA
*
71223189 GCAAAAAGAAATGAAGAATGATACT
1 GCAAAAAGAAATGAAGAACGATACT
71223214 GCAAAAAGAAATGAAGAACGATA
1 GCAAAAAGAAATGAAGAACGATA
71223237 GTGTAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.21, T:0.12
Consensus pattern (25 bp):
GCAAAAAGAAATGAAGAACGATACT
Found at i:71223887 original size:21 final size:20
Alignment explanation
Indices: 71223863--71223922 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
71223853 GAAAAATATG
71223863 AAATAATAAAATATATATTTA
1 AAATAATAAAATATAT-TTTA
* *
71223884 AAATAATATAATTTATTTTA
1 AAATAATAAAATATATTTTA
*
71223904 TAA-AAT-AAATATATTTTA
1 AAATAATAAAATATATTTTA
71223922 A
1 A
71223923 TTATTACTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 10 0.30
19 3 0.09
20 6 0.18
21 14 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAATAAAATATATTTTA
Found at i:71225079 original size:3 final size:3
Alignment explanation
Indices: 71225073--71225109 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
71225063 ATTTGACCAA
71225073 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
71225110 GCATAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:71239985 original size:186 final size:187
Alignment explanation
Indices: 71239659--71240019 Score: 462
Period size: 186 Copynumber: 1.9 Consensus size: 187
71239649 AAAATACTCA
** * * * *
71239659 TTTACTAATCTGGTTCTCTTATAGTTGGAATCTATGCTGCCGAAGCTGGAAAAGACCACCGGGAA
1 TTTACTAATCCAGTTCCCTGATAGTTGGAATCTATGCTGCCGAAGCAGGAAAAGACCACCGCGAA
* * *
71239724 CCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTCAGCATTCAATAAATCTC
66 CCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTAAGCATTCAATAAAGCTA
*
71239789 CTTCCAAATCACCCCCTCCGGTAATAAACTGCTTATGCCAATAAATGATGATACTTG
131 CTTCCAAATCACCCACTCCGGTAATAAACTGCTTATGCCAATAAATGATGATACTTG
* *
71239846 TTTACTAATCCAGTTCCCTGATCGTTGGAATC-ATGCTGCC-AAGACAGGAAAAGACCACTGCGA
1 TTTACTAATCCAGTTCCCTGATAGTTGGAATCTATGCTGCCGAAG-CAGGAAAAGACCACCGCGA
* * *
71239909 ACCAAGGGGGTCCTACTCAAAGGGCTTCAGCTTTAGCTGCCTTAAC-TAATGCATTCAA-ATCAG
65 ACCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTAA-GCATTCAATA-AAG
* * ** * *
71239972 CTAC-TCGCAAATCATCCACTCTGGTAATAATTTTCTTATGCCATTAAA
128 CTACTTC-CAAATCACCCACTCCGGTAATAAACTGCTTATGCCAATAAA
71240020 CTCTTTTTTT
Statistics
Matches: 149, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
185 8 0.05
186 114 0.77
187 27 0.18
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (187 bp):
TTTACTAATCCAGTTCCCTGATAGTTGGAATCTATGCTGCCGAAGCAGGAAAAGACCACCGCGAA
CCAAGGGGCTCCGACTCAAAGGGCTTCAGCTTTAGCTGCCTTAACTTAAGCATTCAATAAAGCTA
CTTCCAAATCACCCACTCCGGTAATAAACTGCTTATGCCAATAAATGATGATACTTG
Found at i:71240255 original size:9 final size:9
Alignment explanation
Indices: 71240241--71240265 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71240231 ACAAAGAGCT
71240241 GCAGCTTTA
1 GCAGCTTTA
71240250 GCAGCTTTA
1 GCAGCTTTA
71240259 GCAGCTT
1 GCAGCTT
71240266 CATTTAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (9 bp):
GCAGCTTTA
Found at i:71240630 original size:66 final size:65
Alignment explanation
Indices: 71240552--71240683 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 65
71240542 TGCAGACTCA
* ** * *
71240552 AGTGAAGTGAACCCTTCTGAAGCTGATGATTCTGTAGGGGTTGCCAAAACCAATAAGGAAGACTT
1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGA-TT
71240617 G
65 G
* *
71240618 AGTGAAGCGAACCCTTCTGGAGCTGATGATTCTCAAGAGGTTGCTAAAACCAACAAGGAAGATTG
1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
71240683 A
1 A
71240684 AAACCGAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
65 4 0.07
66 55 0.93
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (65 bp):
AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
Found at i:71245882 original size:2 final size:2
Alignment explanation
Indices: 71245875--71245900 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71245865 TAATGTATTC
71245875 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
71245901 CTTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71248399 original size:21 final size:21
Alignment explanation
Indices: 71248373--71248421 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
71248363 GGGATGCCAA
71248373 CAACAACTAGACGAGATACGC
1 CAACAACTAGACGAGATACGC
* * *
71248394 CAACAATTAGATGAGGTACGC
1 CAACAACTAGACGAGATACGC
*
71248415 CGACAAC
1 CAACAAC
71248422 AATCAGAGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.12
Consensus pattern (21 bp):
CAACAACTAGACGAGATACGC
Found at i:71251614 original size:26 final size:27
Alignment explanation
Indices: 71251562--71251616 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
71251552 TGATGCTCAT
* *
71251562 ATGGTATTTGGTATTTAAATTCAGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
* *
71251589 ATGGT-TTGGGTATTTCAACTCGGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
71251615 AT
1 AT
71251617 TTGTATGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (27 bp):
ATGGTATTGGGTATTTAAACTCAGTGA
Found at i:71254134 original size:15 final size:15
Alignment explanation
Indices: 71254114--71254147 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71254104 GAAAGTTAAT
71254114 AGAAAAAGAATA-AAA
1 AGAAAAAGAA-ACAAA
71254129 AGAAAAAGAAACAAA
1 AGAAAAAGAAACAAA
71254144 AGAA
1 AGAA
71254148 GAATAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (15 bp):
AGAAAAAGAAACAAA
Found at i:71254157 original size:28 final size:28
Alignment explanation
Indices: 71254119--71254173 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
71254109 TTAATAGAAA
71254119 AAGAATAAAAAGAAAAAGA-AACAAAAG
1 AAGAATAAAAAGAAAAAGAGAACAAAAG
*
71254146 AAGAATAGAAAAGAAACAGAGAACAAAA
1 AAGAATA-AAAAGAAAAAGAGAACAAAA
71254174 CGAAAACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 11 0.44
29 7 0.28
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.04
Consensus pattern (28 bp):
AAGAATAAAAAGAAAAAGAGAACAAAAG
Found at i:71254562 original size:22 final size:24
Alignment explanation
Indices: 71254537--71254580 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
71254527 TATGGGAAGA
71254537 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
71254559 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
71254581 GGTTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:71260328 original size:29 final size:29
Alignment explanation
Indices: 71260271--71260327 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
71260261 TTTTCTTCCC
71260271 CTGTTTTCGTTTTGTTCTCTGTTTCTTTT
1 CTGTTTTCGTTTTGTTCTCTGTTTCTTTT
*
71260300 CTGTTCTTC-TTTTGTT-TCTTTTTCTTTT
1 CTGTT-TTCGTTTTGTTCTCTGTTTCTTTT
71260328 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 12 0.46
30 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.11, T:0.72
Consensus pattern (29 bp):
CTGTTTTCGTTTTGTTCTCTGTTTCTTTT
Found at i:71266986 original size:107 final size:105
Alignment explanation
Indices: 71266765--71266987 Score: 233
Period size: 107 Copynumber: 2.1 Consensus size: 105
71266755 CGATGATTGA
* *
71266765 AAATTTAAAA-TTTGAAAAGTATAGGAACTAAAATCAACCAAATTAAAGTATAGTGATTAAATTC
1 AAATTTAAAATTTTGAAAAGTATAGGAACTAAAAACAACCAAATTAAAGTATAGTGATCAAATTC
* **
71266829 ACAGCTTCTGCAAAGGAAATTAAAGTATATAGATTAAATTC
66 ACAACTTCTGCAAAGGAAAGGAAAGTATATAGATTAAA-TC
* * *
71266870 ACAA-CTAAAATTTTGAAAAGTGTAAGG-ACTAAAAACTAACCAAATTAAATTATA-TGGATCAA
1 A-AATTTAAAATTTTGAAAAGTAT-AGGAACTAAAAAC-AACCAAATTAAAGTATAGT-GATCAA
* * *
71266932 ATTCACAACTTTTGCAAAGTGAAAGGATTAGTA-ATAGATTTTAA-C
62 ATTCACAACTTCTGCAAAG-GAAAGGA-AAGTATATAGA-TTAAATC
71266977 AAATTTAAAAT
1 AAATTTAAAAT
71266988 GAAATAAACA
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
105 6 0.06
106 24 0.25
107 49 0.51
108 10 0.10
109 8 0.08
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (105 bp):
AAATTTAAAATTTTGAAAAGTATAGGAACTAAAAACAACCAAATTAAAGTATAGTGATCAAATTC
ACAACTTCTGCAAAGGAAAGGAAAGTATATAGATTAAATC
Found at i:71268174 original size:18 final size:18
Alignment explanation
Indices: 71268147--71268194 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
71268137 ATGTTTAGTT
71268147 ATTT-ATTTTTCAATTTA
1 ATTTAATTTTTCAATTTA
*** *
71268164 ATTTAATTTTTTTGTTTT
1 ATTTAATTTTTCAATTTA
71268182 ATTTAATTTTTCA
1 ATTTAATTTTTCA
71268195 TACAATGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTAATTTTTCAATTTA
Found at i:71297005 original size:17 final size:17
Alignment explanation
Indices: 71296983--71297017 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71296973 ACTTTATATT
71296983 AATTCAATATTGAGAGG
1 AATTCAATATTGAGAGG
71297000 AATTCAATATTGAGAGG
1 AATTCAATATTGAGAGG
71297017 A
1 A
71297018 TAGCCAATTA
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:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (17 bp):
AATTCAATATTGAGAGG
Found at i:71304733 original size:18 final size:19
Alignment explanation
Indices: 71304693--71304736 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
71304683 TTTTATTTAT
*
71304693 AATA-ATTTATTTGATATT
1 AATATATTTATTTGATATA
*
71304711 TATATATTTATTT-ATATA
1 AATATATTTATTTGATATA
71304729 AATATATT
1 AATATATT
71304737 AAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATATATTTATTTGATATA
Found at i:71310848 original size:77 final size:77
Alignment explanation
Indices: 71310721--71310878 Score: 280
Period size: 77 Copynumber: 2.1 Consensus size: 77
71310711 GAAGATGGAC
*
71310721 CCCAAGTAGTTGTTGCTGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
1 CCCAAGTAGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
*
71310786 TTATTGCACCCT
66 TTATTACACCCT
* *
71310798 CCCAAGTGGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCGAGTCCATGAAA
1 CCCAAGTAGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
71310863 TTATTACACCCT
66 TTATTACACCCT
71310875 CCCA
1 CCCA
71310879 TTTTTTCCGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (77 bp):
CCCAAGTAGTTGTTGATGGGAAAAGACAATGAAAGTGGAAATTAAAGAGGTCCCAGTCCATGAAA
TTATTACACCCT
Found at i:71311035 original size:20 final size:20
Alignment explanation
Indices: 71310998--71311034 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71310988 TTTTTTATAT
*
71310998 TTTTTAACAATAAATTTTAA
1 TTTTTAAAAATAAATTTTAA
71311018 TTTTTAAAAAT-AATTTT
1 TTTTTAAAAATAAATTTT
71311035 TTTTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATAAATTTTAA
Found at i:71323093 original size:15 final size:15
Alignment explanation
Indices: 71323073--71323120 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
71323063 TTTATGGAAA
71323073 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
71323088 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
71323102 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
71323118 ATC
1 ATC
71323121 GAGATATTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:71323101 original size:30 final size:31
Alignment explanation
Indices: 71323067--71323130 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
71323057 TCCATATTTA
71323067 TGGAAAATCAAAGATATGGGTATC-AAATAT
1 TGGAAAATCAAAGATATGGGTATCGAAATAT
* *
71323097 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATCGAAATAT
71323128 TGG
1 TGG
71323131 CATAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (31 bp):
TGGAAAATCAAAGATATGGGTATCGAAATAT
Found at i:71327721 original size:15 final size:15
Alignment explanation
Indices: 71327701--71327808 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
71327691 TTTATGGAAA
71327701 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
71327716 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
71327730 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
71327746 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
71327760 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
71327776 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
71327790 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
71327806 ATC
1 ATC
71327809 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:71327738 original size:30 final size:30
Alignment explanation
Indices: 71327697--71327808 Score: 172
Period size: 30 Copynumber: 3.7 Consensus size: 30
71327687 CATATTTATG
*
71327697 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
71327727 GAAAGTCAAAGATATGGGTATCAAAT-ATT
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
71327756 GAAAAGTCAAAGATATGGGTATCAAATATTG
1 G-AAAGTCAAAGATATGGGTATCAAATAATA
71327787 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
71327809 GAGATATTGG
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
29 3 0.04
30 71 0.93
31 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:71327768 original size:60 final size:60
Alignment explanation
Indices: 71327697--71327817 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
71327687 CATATTTATG
71327697 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATC-AAATATT
1 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
* * *
71327756 GAAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAA-TCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
71327817 G
1 G
71327818 GCATAATAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 5 0.09
60 45 0.79
61 7 0.12
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (60 bp):
GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
Found at i:71340009 original size:27 final size:27
Alignment explanation
Indices: 71339968--71340019 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
71339958 CATTTTAGTC
71339968 CTTTGGCACCATTGGTGCCGCCAATCA
1 CTTTGGCACCATTGGTGCCGCCAATCA
*
71339995 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
71340020 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.29
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCA
Found at i:71340125 original size:28 final size:27
Alignment explanation
Indices: 71340079--71340143 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
71340069 TTTTTTTGGT
***
71340079 ATATTTTGGTAAATAAAAATTTTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
71340106 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAGTTATA
71340134 ATATTTTGGT
1 ATATTTTGGT
71340144 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:71340811 original size:16 final size:16
Alignment explanation
Indices: 71340790--71340829 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
71340780 CCTACTCCCT
* *
71340790 CCCAATTTAAACTCAG
1 CCCAATTTAAACCCAA
*
71340806 CCCAATATAAACCCAA
1 CCCAATTTAAACCCAA
71340822 CCCAATTT
1 CCCAATTT
71340830 TTTCTTAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.23
Consensus pattern (16 bp):
CCCAATTTAAACCCAA
Found at i:71340938 original size:43 final size:43
Alignment explanation
Indices: 71340877--71340961 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
71340867 ACCCCTAGCC
71340877 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTCT
1 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTCT
71340920 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTC
1 CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTC
71340962 ACTTTCACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (43 bp):
CAGTAGCCTTAGAACCTGCTCATGCTGCCCATTTCTGATTTCT
Found at i:71341385 original size:9 final size:9
Alignment explanation
Indices: 71341364--71341432 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
71341354 TCAAAGTGTC
*
71341364 AATTCGGGC
1 AATTCGGGT
*
71341373 AATTCGGAT
1 AATTCGGGT
*
71341382 AATTTTCGGTT
1 AA--TTCGGGT
71341393 AATTCGGGT
1 AATTCGGGT
*
71341402 AATTCGGAT
1 AATTCGGGT
*
71341411 AATTTGGGT
1 AATTCGGGT
71341420 AATTCGGGT
1 AATTCGGGT
71341429 AATT
1 AATT
71341433 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
9 42 0.84
11 8 0.16
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (9 bp):
AATTCGGGT
Found at i:71341406 original size:29 final size:27
Alignment explanation
Indices: 71341364--71341432 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 27
71341354 TCAAAGTGTC
* *
71341364 AATTCGGGCAATTCGGATAATTTTCGGTT
1 AATTCGGGTAATTCGGATAA-TTT-GGGT
71341393 AATTCGGGTAATTCGGATAATTTGGGT
1 AATTCGGGTAATTCGGATAATTTGGGT
71341420 AATTCGGGTAATT
1 AATTCGGGTAATT
71341433 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 16 0.42
28 3 0.08
29 19 0.50
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (27 bp):
AATTCGGGTAATTCGGATAATTTGGGT
Found at i:71343154 original size:28 final size:28
Alignment explanation
Indices: 71343110--71343165 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
71343100 TTCATGTTGT
*
71343110 TCATGAGGACAATCAGATATATATAAAG
1 TCATGAGGACAACCAGATATATATAAAG
71343138 TCATGAGGACAACCAGATATATATAAAG
1 TCATGAGGACAACCAGATATATATAAAG
71343166 AAAAGGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.23
Consensus pattern (28 bp):
TCATGAGGACAACCAGATATATATAAAG
Found at i:71346040 original size:33 final size:33
Alignment explanation
Indices: 71345998--71346063 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
71345988 CATGCATTAC
71345998 GAATCGGGACTTATCGTTACTGGATGTCTGAAA
1 GAATCGGGACTTATCGTTACTGGATGTCTGAAA
*
71346031 GAATCGGGACTTATCTTTACTGGATGTCTGAAA
1 GAATCGGGACTTATCGTTACTGGATGTCTGAAA
71346064 AAATGACCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (33 bp):
GAATCGGGACTTATCGTTACTGGATGTCTGAAA
Found at i:71348274 original size:31 final size:31
Alignment explanation
Indices: 71348239--71348297 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
71348229 ATTATTAGAT
* *
71348239 TATTTAAAAGTTTTTATTTAAGTCACTAAAC
1 TATTTAAAAGTTGTTATCTAAGTCACTAAAC
**
71348270 TATTTGGAAGTTGTTATCTAAGTCACTA
1 TATTTAAAAGTTGTTATCTAAGTCACTA
71348298 CTTTGTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (31 bp):
TATTTAAAAGTTGTTATCTAAGTCACTAAAC
Found at i:71349802 original size:27 final size:27
Alignment explanation
Indices: 71349764--71349817 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
71349754 CGGGTCGGGT
* *
71349764 GGCGCCTATGAAGGTGCGTCATAGAGA
1 GGCGCCAATGAAGGTGCCTCATAGAGA
71349791 GGCGCCAATGAAGGTGCCTCATAGAGA
1 GGCGCCAATGAAGGTGCCTCATAGAGA
71349818 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.35, T:0.17
Consensus pattern (27 bp):
GGCGCCAATGAAGGTGCCTCATAGAGA
Found at i:71349948 original size:22 final size:21
Alignment explanation
Indices: 71349922--71350157 Score: 102
Period size: 22 Copynumber: 11.1 Consensus size: 21
71349912 TAGATTAGAA
71349922 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTCTAA-TT
*
71349944 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
71349965 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
* *
71349983 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
* *
71350004 ATTT-TAT--A-ATT-AAATT
1 TTTTGTATGAATATTCTAATT
* * * * *
71350020 TGTATT-TAT-AGTTTTGGATTAGTA
1 T-T-TTGTATGAATATT---CTAATT
*
71350044 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
*
71350063 TTTTGTATGAATATTGTAATTTT
1 TTTTGTATGAATATTCTAA--TT
*
71350086 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
71350111 AATTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
71350135 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTCTAATT
71350156 TT
1 TT
71350158 GTAATTTTGT
Statistics
Matches: 173, Mismatches: 17, Indels: 49
0.72 0.07 0.21
Matches are distributed among these distances:
16 4 0.02
17 4 0.02
18 9 0.05
19 33 0.19
20 19 0.11
21 14 0.08
22 37 0.21
23 21 0.12
24 11 0.06
25 5 0.03
26 1 0.01
27 15 0.09
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTCTAATT
Found at i:71349994 original size:61 final size:60
Alignment explanation
Indices: 71349924--71350105 Score: 171
Period size: 61 Copynumber: 3.0 Consensus size: 60
71349914 GATTAGAATT
*
71349924 TTGTATGAATATTCTAACTTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATG
* * * *
71349985 TTGTATGAATATTGTAATTATTTTATAATTAA-ATTTGT-ATTTATAGTTT-TGGAT-TAGT-AT
1 TTGTATGAATATTGTAATT-TTTTGT-ATGAATA-TTGTAATTT-T--TTTATGAATATTGTAAT
*
71350045 T
60 G
71350046 TTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA--TTTTTT-TATGAATATTGTAAT
71350106 ATTATAATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
57 10 0.10
58 8 0.08
59 5 0.05
60 8 0.08
61 47 0.48
62 12 0.12
63 4 0.04
64 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (60 bp):
TTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATG
Found at i:71350103 original size:80 final size:82
Alignment explanation
Indices: 71349964--71350117 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 82
71349954 ATATTGTAAT
* *
71349964 TTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGT-AT-TT
1 TTTTGTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTATAATGAAATTTGTAATATT
*
71350027 ATAGTTTTGGATTAGTA
66 ATAATTTTGGATTAGTA
* * *
71350044 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATT-TTTTTTGTATG-AATATTGTAATA
1 TTTTGTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTAT-AATGAAAT-TTGTAATA
71350107 TTATAATTTTG
64 TTATAATTTTG
71350118 TATGAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 8 0.12
80 44 0.69
81 2 0.03
82 10 0.16
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (82 bp):
TTTTGTATGAATATTGTAATGTTGTATGAATATTGTAATTATTTTATAATGAAATTTGTAATATT
ATAATTTTGGATTAGTA
Found at i:71350124 original size:27 final size:26
Alignment explanation
Indices: 71350053--71350208 Score: 200
Period size: 27 Copynumber: 6.1 Consensus size: 26
71350043 ATTTTGTATG
71350053 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
71350080 AAT-TTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
71350103 AATATTATAATTTTGTATGAATATTG-
1 AATATT-TAATTTTGTATGAATATTGT
* *
71350129 CA-ATTT--TTTTGTATGAATATTAT
1 AATATTTAATTTTGTATGAATATTGT
*
71350152 AATTTTGTAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
71350179 AATATTATAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
71350206 AAT
1 AAT
71350209 GTCGGGATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
22 15 0.13
23 21 0.19
24 5 0.04
25 6 0.05
26 3 0.03
27 63 0.56
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (26 bp):
AATATTTAATTTTGTATGAATATTGT
Found at i:71350163 original size:49 final size:50
Alignment explanation
Indices: 71350053--71350208 Score: 215
Period size: 49 Copynumber: 3.1 Consensus size: 50
71350043 ATTTTGTATG
* *
71350053 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTTGTATGAATATTAT
*
71350103 AATATTATAATTTTGTATGAATATTGCAA-TTTTTTTGTATGAATATTAT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTTGTATGAATATTAT
* * *
71350152 AATTTTGTAATTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAAT-TT-T--TTTTGTATGAATATTAT
71350206 AAT
1 AAT
71350209 GTCGGGATAT
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
49 45 0.48
50 27 0.29
51 2 0.02
52 1 0.01
54 19 0.20
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (50 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTTGTATGAATATTAT
Found at i:71350181 original size:19 final size:19
Alignment explanation
Indices: 71349920--71350160 Score: 153
Period size: 19 Copynumber: 12.5 Consensus size: 19
71349910 TTTAGATTAG
*
71349920 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
71349939 AACTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
71349961 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
71349981 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
71350000 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
71350023 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
71350043 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
71350061 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
* *
71350080 AATTTTTTTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
71350095 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
71350111 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
71350130 AATTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
71350152 AATTTTGTA
1 AATTTTGTA
71350161 ATTTTGTATG
Statistics
Matches: 175, Mismatches: 23, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 2 0.01
15 6 0.03
16 8 0.05
17 7 0.04
18 5 0.03
19 65 0.37
20 32 0.18
21 1 0.01
22 40 0.23
23 4 0.02
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:71350183 original size:76 final size:69
Alignment explanation
Indices: 71350043--71350204 Score: 243
Period size: 76 Copynumber: 2.2 Consensus size: 69
71350033 TTGGATTAGT
* *
71350043 ATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTTTTTTTGTATGAATATTGTAATAT
1 ATTTTGTATGAATATTGCAATTTTGTATGAATATTATAATTTTTTTTGTATGAATATTGTAATAT
71350108 TATA
66 TATA
71350112 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTATAATTTTGTAATTTTGTATGAATATT
1 ATTTTGTATGAATATTGCAA---TTTTGTATGAATATTATAA-TTT-T--TTTTGTATGAATATT
71350177 GTAATATTATA
59 GTAATATTATA
71350188 ATTTTGTATGAATATTG
1 ATTTTGTATGAATATTG
71350205 TAATGTCGGG
Statistics
Matches: 84, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
69 19 0.23
72 18 0.21
73 3 0.04
74 1 0.01
76 43 0.51
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (69 bp):
ATTTTGTATGAATATTGCAATTTTGTATGAATATTATAATTTTTTTTGTATGAATATTGTAATAT
TATA
Done.