Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 196 of 290
Found at i:67437628 original size:27 final size:27
Alignment explanation
Indices: 67437544--67437629 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
67437534 GGGTAAAACA
* * *
67437544 TTACCATAAAAGGGAAAAACAGTCATT
1 TTACCACATAAGGGAAAAATAGTCATT
* *
67437571 TTAACACATAA-AGACAAAATAGTCATT
1 TTACCACATAAGGGA-AAAATAGTCATT
* *
67437598 TTACCTCATAAGGGTAAAATAGTCATT
1 TTACCACATAAGGGAAAAATAGTCATT
67437625 TTACC
1 TTACC
67437630 GATTAAAGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
26 2 0.04
27 45 0.94
28 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (27 bp):
TTACCACATAAGGGAAAAATAGTCATT
Found at i:67438555 original size:23 final size:23
Alignment explanation
Indices: 67438529--67438576 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
67438519 AAACGGGTAT
67438529 GATTCGGCTAAAGAAGTAAAGAA
1 GATTCGGCTAAAGAAGTAAAGAA
* *
67438552 GATTCGGCTAGATAAGTAAAGAA
1 GATTCGGCTAAAGAAGTAAAGAA
67438575 GA
1 GA
67438577 AGACGTACAG
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:0.46, C:0.08, G:0.27, T:0.19
Consensus pattern (23 bp):
GATTCGGCTAAAGAAGTAAAGAA
Found at i:67441070 original size:27 final size:27
Alignment explanation
Indices: 67441038--67441135 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
67441028 ACATAGGGGT
* *
67441038 AAAACAGTTATCTTACCATAAAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
67441065 AGAACAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
67441092 AAAACAGTCATTTTACC-TCATAAA-GGC
1 AAAACAGTCATTTTACCAT-A-AAAGGGC
*
67441119 AAAACAGTTATTTTACC
1 AAAACAGTCATTTTACC
67441136 GACAGTTATT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 58 0.97
28 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATAAAAGGGC
Found at i:67441096 original size:54 final size:54
Alignment explanation
Indices: 67441027--67441135 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 54
67441017 AAATATACAT
* * * *
67441027 CACATAGGGGTAAAACAGTTATCTTA-C-CATAAAAGGGCAGAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTACCTCAT-AAA-GGCAAAACAGTCATTTTAC
* *
67441081 CACATAAGGGCAAAACAGTCATTTTACCTCATAAAGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTACCTCATAAAGGCAAAACAGTCATTTTAC
67441135 C
1 C
67441136 GACAGTTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 40 0.85
55 4 0.09
56 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCATCTTACCTCATAAAGGCAAAACAGTCATTTTAC
Found at i:67441142 original size:15 final size:15
Alignment explanation
Indices: 67441122--67441152 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
67441112 TAAAGGCAAA
67441122 ACAGTTATTTTACCG
1 ACAGTTATTTTACCG
67441137 ACAGTTATTTTACCG
1 ACAGTTATTTTACCG
67441152 A
1 A
67441153 TTAAGGGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (15 bp):
ACAGTTATTTTACCG
Found at i:67441757 original size:12 final size:12
Alignment explanation
Indices: 67441740--67441765 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67441730 AAATGAAACA
67441740 TATGTGTTAGAT
1 TATGTGTTAGAT
67441752 TATGTGTTAGAT
1 TATGTGTTAGAT
67441764 TA
1 TA
67441766 CTAAGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
TATGTGTTAGAT
Found at i:67449429 original size:43 final size:43
Alignment explanation
Indices: 67449327--67449418 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
67449317 TAAGAAGATA
* * * *
67449327 TCTGGGACATTAGCA-TCATATATGATTTCACGTAAGACCCTG
1 TCTGGGACAGTGGCATTGATATATGATTACACGTAAGACCCTG
* *
67449369 TCTGGGACAGTGGCATTGATATTTGATTACATGTAAGACCAC-G
1 TCTGGGACAGTGGCATTGATATATGATTACACGTAAGACC-CTG
67449412 TCTGGGA
1 TCTGGGA
67449419 TGTTGGCATT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 13 0.31
43 28 0.67
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TCTGGGACAGTGGCATTGATATATGATTACACGTAAGACCCTG
Found at i:67449746 original size:16 final size:16
Alignment explanation
Indices: 67449725--67449762 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
67449715 TGAAAATTTG
*
67449725 ATATGAAATGTACGAT
1 ATATGAAATATACGAT
*
67449741 ATATGAAATATATGAT
1 ATATGAAATATACGAT
67449757 A-ATGAA
1 ATATGAA
67449763 CGATATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.32
Consensus pattern (16 bp):
ATATGAAATATACGAT
Found at i:67451490 original size:27 final size:27
Alignment explanation
Indices: 67451457--67451512 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
67451447 CACAACAAAA
67451457 CATAACACCAATCCAAGCAATTACAAT
1 CATAACACCAATCCAAGCAATTACAAT
67451484 CATAACACCAATCCAAGCAATTACAAT
1 CATAACACCAATCCAAGCAATTACAAT
67451511 CA
1 CA
67451513 ACTAATTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.18
Consensus pattern (27 bp):
CATAACACCAATCCAAGCAATTACAAT
Found at i:67452319 original size:42 final size:42
Alignment explanation
Indices: 67452197--67452359 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 42
67452187 CACTCGGTAC
* * ***
67452197 CATACTAATGCCATATCCTAGATATGGTCTTACATGTAATCT
1 CATACTGATGCCATATCCCAGATATGGTCTTACACAAAATCT
* * * * * *
67452239 CTTATTGATGCCAATAGCCTAGCTATGGTCTTAAACAAAATCT
1 CATACTGATGCC-ATATCCCAGATATGGTCTTACACAAAATCT
*
67452282 CATA-TCGATGCCATATCCC-GTATATGGTCTTACACAAAGTCT
1 CATACT-GATGCCATATCCCAG-ATATGGTCTTACACAAAATCT
67452324 CATACTGATGCCATATCCCAGATATGGTCTTACACA
1 CATACTGATGCCATATCCCAGATATGGTCTTACACA
67452360 TAAACTTAGT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 65 0.64
43 35 0.35
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
CATACTGATGCCATATCCCAGATATGGTCTTACACAAAATCT
Found at i:67461553 original size:27 final size:27
Alignment explanation
Indices: 67461523--67461629 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
67461513 ATATATACAA
* *
67461523 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
67461550 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
67461577 CACATAAAGGTAAAACATTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
67461604 CATATAAGGGAAAAACAGTCAATTTT
1 CACATAAGGGCAAAACAGTC-ATTTT
67461630 CAATTTGGGG
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 62 0.93
28 5 0.07
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:67465178 original size:27 final size:27
Alignment explanation
Indices: 67465051--67465183 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
67465041 ATATATACAA
* * *
67465051 CACATAGGGGCAACACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
67465078 CACATAAGGGCAAAACAATCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
67465105 CACATAAGGGCAAAACAATCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
67465132 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
67465159 CACATTAGAGCAAAATAGTCTTTTT
1 CACATAAGGGCAAAACAGTCATTTT
67465184 TCAACTTGGG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:67465345 original size:86 final size:86
Alignment explanation
Indices: 67465192--67465351 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 86
67465182 TTTCAACTTG
* * * * * * * *
67465192 GGGTCTAGGTATACTTACCGACCTAACAGTAAGTCCATAGTTGTCTCCAGTGACCCGTGTAATCT
1 GGGTCTAGGTATACTTACCGACCCAACAGTAAGTCCACACTAGTCTCCAGCGACCCATGCAACCT
67465257 TAACAGTCATTTTAAAATTTA
66 TAACAGTCATTTTAAAATTTA
* * * * *
67465278 GGGTCTAGGTATACTTACTGACCCAATAGTAGGTCCACACTAGTTTCGAGCGACCCATGCAACCT
1 GGGTCTAGGTATACTTACCGACCCAACAGTAAGTCCACACTAGTCTCCAGCGACCCATGCAACCT
67465343 TAACAGTCA
66 TAACAGTCA
67465352 AACAGTAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 61 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (86 bp):
GGGTCTAGGTATACTTACCGACCCAACAGTAAGTCCACACTAGTCTCCAGCGACCCATGCAACCT
TAACAGTCATTTTAAAATTTA
Found at i:67468742 original size:27 final size:27
Alignment explanation
Indices: 67468712--67468817 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
67468702 ATATATACAA
*
67468712 CACATAAGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
67468739 CACATAAGGGCAAAACAATCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
67468766 CACATAAGGGCAAAACAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
67468793 CACATTAGAGCAAAATAGTCTTTTT
1 CACATAAGGGCAAAACAGTCATTTT
67468818 TCAACTTGGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:67470792 original size:42 final size:44
Alignment explanation
Indices: 67470727--67470829 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
67470717 TAATTATGGG
** * *
67470727 CACTTAGTGTACGAAATCAAGATAGTTTC-GAT-TATATATT-T
1 CACTTAGTGTGTGAGATCAAGATAGCTTCAGATATATATATTGT
* * *
67470768 AGACTTAGTGTGTGAGATCGAGATAGCTTCAGCTATATATATTGT
1 -CACTTAGTGTGTGAGATCAAGATAGCTTCAGATATATATATTGT
67470813 CACTTAGTGTGTGAGAT
1 CACTTAGTGTGTGAGAT
67470830 TGATACAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 23 0.46
43 2 0.04
44 24 0.48
45 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (44 bp):
CACTTAGTGTGTGAGATCAAGATAGCTTCAGATATATATATTGT
Found at i:67473526 original size:29 final size:29
Alignment explanation
Indices: 67473504--67473561 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
67473494 GTGAATGATT
67473504 GAAATTTTGGGCATGTGAAGTGAAAGAAA
1 GAAATTTTGGGCATGTGAAGTGAAAGAAA
67473533 GAAATTTTGGGCATGTGAAGTGAAAGAAA
1 GAAATTTTGGGCATGTGAAGTGAAAGAAA
67473562 CAAAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.31, T:0.24
Consensus pattern (29 bp):
GAAATTTTGGGCATGTGAAGTGAAAGAAA
Found at i:67474841 original size:65 final size:66
Alignment explanation
Indices: 67474696--67474849 Score: 168
Period size: 65 Copynumber: 2.3 Consensus size: 66
67474686 TGCACTCTAC
* * * * ** **
67474696 CGCAGCTCTTTATGAGCGTCCTGTTTATTGATCGATTGTGATTCTTGCATATGTTGTGGACACAA
1 CGCAGCTCTTTGTGAGCGTCCTGTTTATCGATCAATTGTGATTCCTGCATACATTGCAGACACAA
67474761 A
66 A
** * *
67474762 TACAGCTCTGTGTGAGTGTCCTG-TTATGCGATCAATTGTGA-TCCTGCATACATTGCAGACACA
1 CGCAGCTCTTTGTGAGCGTCCTGTTTAT-CGATCAATTGTGATTCCTGCATACATTGCAGACACA
67474825 AA
65 AA
*
67474827 CGCAGCTCTTTGTGAGCATCCTG
1 CGCAGCTCTTTGTGAGCGTCCTG
67474850 ATGTGGCTCA
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
65 41 0.59
66 29 0.41
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (66 bp):
CGCAGCTCTTTGTGAGCGTCCTGTTTATCGATCAATTGTGATTCCTGCATACATTGCAGACACAA
A
Found at i:67475612 original size:16 final size:16
Alignment explanation
Indices: 67475591--67475622 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
67475581 ATTTAAATGA
67475591 ATGGTAAGTTTATTAT
1 ATGGTAAGTTTATTAT
67475607 ATGGTAAGTTTATTAT
1 ATGGTAAGTTTATTAT
67475623 CATGTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
ATGGTAAGTTTATTAT
Found at i:67477332 original size:18 final size:18
Alignment explanation
Indices: 67477309--67477346 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
67477299 TTCATAAACC
67477309 ACGATAATTCAAATTAGA
1 ACGATAATTCAAATTAGA
67477327 ACGATAATTCAAATTAGA
1 ACGATAATTCAAATTAGA
67477345 AC
1 AC
67477347 AATTCACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (18 bp):
ACGATAATTCAAATTAGA
Found at i:67477917 original size:22 final size:21
Alignment explanation
Indices: 67477883--67477932 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
67477873 ACACGACACT
67477883 AGAGGCA-TCGAAGATG-AGTAA
1 AGAGGCACTCGAAG-TGCAG-AA
67477904 CAGAGGCACT-GAAGTGCAGAA
1 -AGAGGCACTCGAAGTGCAGAA
67477925 AGAGGCAC
1 AGAGGCAC
67477933 CAATGTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.31
21 4 0.15
22 13 0.50
23 1 0.04
ACGTcount: A:0.40, C:0.16, G:0.34, T:0.10
Consensus pattern (21 bp):
AGAGGCACTCGAAGTGCAGAA
Found at i:67484288 original size:28 final size:28
Alignment explanation
Indices: 67484248--67484302 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
67484238 AAAAGCTTTT
67484248 TAAAATAATACCTGTTTTTCCTTCATTG
1 TAAAATAATACCTGTTTTTCCTTCATTG
*
67484276 TAAAGTAATACCTGTTTTTCCTTCATT
1 TAAAATAATACCTGTTTTTCCTTCATT
67484303 TCCAAAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.47
Consensus pattern (28 bp):
TAAAATAATACCTGTTTTTCCTTCATTG
Found at i:67490709 original size:26 final size:26
Alignment explanation
Indices: 67490673--67490782 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
67490663 CATGAAATTC
67490673 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
67490699 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
67490725 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
67490751 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
67490777 TTATCA
1 TTATCA
67490783 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:67491848 original size:28 final size:28
Alignment explanation
Indices: 67491808--67491881 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
67491798 CTATGTACAG
*
67491808 CACTTAGTGTGCGAAATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTAAGAATGA
67491836 CACTTAGTGTGCGAGAA-ATTAAGAATGA
1 CACTTAGTGTGCGA-AATATTAAGAATGA
*
67491864 CATTTAGTGTGCGAAATA
1 CACTTAGTGTGCGAAATA
67491882 GCGAATCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.05
28 38 0.90
29 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTAAGAATGA
Found at i:67494582 original size:30 final size:30
Alignment explanation
Indices: 67494548--67494608 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
67494538 TCCTTAACTC
67494548 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
67494578 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
67494608 A
1 A
67494609 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
Found at i:67506322 original size:50 final size:50
Alignment explanation
Indices: 67506183--67506331 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
67506173 AGCTATCTTT
* * * * * *
67506183 TACACATATTGGCCTACACTTAATACTACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTACACTTAGTACTACACATGTGA-CCAAACCATCGGG
* * *
67506234 TACGCATAGTAGCCTACACTTAGTACTACACATTTGACCAAACCATCTGG
1 TACACATAGTAGCCTACACTTAGTACTACACATGTGACCAAACCATCGGG
* * *
67506284 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGACCAT
1 TACACATAGTAGCCTACACTTAGTACTACACATGTGACC-AA-ACCAT
67506332 TTTAAACACA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 43 0.52
51 34 0.41
52 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACATAGTAGCCTACACTTAGTACTACACATGTGACCAAACCATCGGG
Found at i:67514012 original size:23 final size:24
Alignment explanation
Indices: 67513986--67514048 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 24
67513976 GGTACATTTG
67513986 TAATTTAA-ATACTTAATTACTTA
1 TAATTTAATATACTTAATTACTTA
67514009 TAATTTAAATATATACTTAATTACTTA
1 TAATTT--A-ATATACTTAATTACTTA
67514036 TAATTTAAGTATA
1 TAATTTAA-TATA
67514049 AAGATATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 6 0.17
24 1 0.03
25 6 0.17
26 1 0.03
27 21 0.60
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATTTAATATACTTAATTACTTA
Found at i:67514032 original size:27 final size:27
Alignment explanation
Indices: 67513994--67514048 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
67513984 TGTAATTTAA
67513994 ATACTTAATTACTTATAATTTAAATAT
1 ATACTTAATTACTTATAATTTAAATAT
*
67514021 ATACTTAATTACTTATAATTTAAGTAT
1 ATACTTAATTACTTATAATTTAAATAT
67514048 A
1 A
67514049 AAGATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (27 bp):
ATACTTAATTACTTATAATTTAAATAT
Found at i:67514857 original size:16 final size:17
Alignment explanation
Indices: 67514807--67514857 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
67514797 ATGGAAATAT
*
67514807 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
67514824 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
67514843 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
67514858 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:67514876 original size:22 final size:21
Alignment explanation
Indices: 67514817--67514859 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
67514807 AATCTTTAAG
67514817 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
67514836 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
67514857 GAT
1 GAT
67514860 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:67517738 original size:25 final size:26
Alignment explanation
Indices: 67517710--67517767 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
67517700 TCCGATATAT
67517710 GGCTCTTC-GGAGCTTCCTGATTAAA
1 GGCTCTTCAGGAGCTTCCTGATTAAA
* *
67517735 GGCTCTTTCATGAGCTTTCTGATTAAA
1 GGCTC-TTCAGGAGCTTCCTGATTAAA
67517762 GGCTCT
1 GGCTCT
67517768 CTAGAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 4 0.14
27 20 0.69
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GGCTCTTCAGGAGCTTCCTGATTAAA
Found at i:67517811 original size:25 final size:24
Alignment explanation
Indices: 67517782--67517876 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
67517772 AACTTTTTGA
67517782 TATTGGCTCACTTGAAGCTTCCCGT
1 TATTGGCTCACTTG-AGCTTCCCGT
* *
67517807 TATTGGTTC-GTATGAGCTTCCCGT
1 TATTGGCTCACT-TGAGCTTCCCGT
* * *
67517831 TAATGGCTCTCTGGAGCTTCCCGT
1 TATTGGCTCACTTGAGCTTCCCGT
*
67517855 TACTTGGCTCACATGAGCTTCC
1 TA-TTGGCTCACTTGAGCTTCC
67517877 TGTTTACATG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 31 0.54
25 26 0.46
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (24 bp):
TATTGGCTCACTTGAGCTTCCCGT
Found at i:67519516 original size:13 final size:13
Alignment explanation
Indices: 67519500--67519524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67519490 TATTTTAAAT
67519500 TAAAAATAAAAAA
1 TAAAAATAAAAAA
67519513 TAAAAATAAAAA
1 TAAAAATAAAAA
67519525 TTCTAAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:67526546 original size:57 final size:57
Alignment explanation
Indices: 67526402--67526549 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 57
67526392 TTGACCTCAT
* * *
67526402 TATAAAAAGGATTTAGCCTGAACGGGTAATACTAATGTAAACCCTCTCGAGCATATGT
1 TATAAAAAGGATTTAGCCTGAAC-AGTAATCCTAATGTAAACCCTCTCGAGCATATGC
* ** * * * *
67526460 TACAATTAGGGTTTAGCCT-AGACAGGTAATCCTAAT-TGAGCTCT-TCTGAGCATATGC
1 TATAAAAAGGATTTAGCCTGA-ACA-GTAATCCTAATGTAAACCCTCTC-GAGCATATGC
67526517 TATAAAAAGGATTTAGCCTGAACTAGTAATCCT
1 TATAAAAAGGATTTAGCCTGAAC-AGTAATCCT
67526550 GTTATACGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
56 2 0.03
57 40 0.56
58 29 0.41
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (57 bp):
TATAAAAAGGATTTAGCCTGAACAGTAATCCTAATGTAAACCCTCTCGAGCATATGC
Found at i:67540698 original size:40 final size:40
Alignment explanation
Indices: 67540643--67540731 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
67540633 TGTTATAGTT
*
67540643 CGCAGGATTTGTGCTGGTAATAGATATCAGGGTTAAATCC
1 CGCAGGCTTTGTGCTGGTAATAGATATCAGGGTTAAATCC
*
67540683 CGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATCC
1 CGCAGGCTTTGTGCTGGTAATAGATATCAGGGTTAAATCC
67540723 CGCAGGCTT
1 CGCAGGCTT
67540732 AATACAGGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
CGCAGGCTTTGTGCTGGTAATAGATATCAGGGTTAAATCC
Found at i:67543730 original size:33 final size:33
Alignment explanation
Indices: 67543693--67543837 Score: 102
Period size: 32 Copynumber: 4.5 Consensus size: 33
67543683 TACCCAAATG
* *
67543693 GTACAATTTGAAAAGGTTATGTACACCTTGTGT
1 GTACAACTTGAAAAGGTAATGTACACCTTGTGT
* *
67543726 GTAC-ACTTG-AAAGGTTAA-GTATACTTTGTGT
1 GTACAACTTGAAAAGG-TAATGTACACCTTGTGT
* * * * * *
67543757 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTAATGTACACCTTGTGT
* * **
67543790 GTACCACTTGGAAAGG-AATGTACACCTTAAGT
1 GTACAACTTGAAAAGGTAATGTACACCTTGTGT
*
67543822 GTACAACTAGAAAAGG
1 GTACAACTTGAAAAGG
67543838 AAAGGTCCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
31 20 0.22
32 35 0.39
33 34 0.38
34 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTAATGTACACCTTGTGT
Found at i:67543739 original size:31 final size:31
Alignment explanation
Indices: 67543704--67543826 Score: 81
Period size: 33 Copynumber: 3.9 Consensus size: 31
67543694 TACAATTTGA
*
67543704 AAAGGTTATGTACACCTTGTGTGTACACTTG
1 AAAGGTAATGTACACCTTGTGTGTACACTTG
* * *
67543735 AAAGGTTAA-GTATACTTTGTGTATAC-CATATG
1 AAAGG-TAATGTACACCTTGTGTGTACAC-T-TG
* * * *
67543767 AAAAGGAAAGGTATACTTTGTGTGTACCACTTGG
1 -AAAGGTAATGTACACCTTGTGTGTA-CACTT-G
**
67543801 AAAGG-AATGTACACCTTAAGTGTACA
1 AAAGGTAATGTACACCTTGTGTGTACA
67543827 ACTAGAAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
30 1 0.01
31 22 0.30
32 20 0.27
33 26 0.36
34 3 0.04
35 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (31 bp):
AAAGGTAATGTACACCTTGTGTGTACACTTG
Found at i:67545839 original size:14 final size:14
Alignment explanation
Indices: 67545820--67545847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67545810 ACAAAAAGAA
67545820 AATATCATCTTATT
1 AATATCATCTTATT
67545834 AATATCATCTTATT
1 AATATCATCTTATT
67545848 TTCTCATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATCATCTTATT
Found at i:67549138 original size:24 final size:23
Alignment explanation
Indices: 67549075--67549174 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 23
67549065 GACTCACCAT
*
67549075 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCATATGAGCTTACT-AT-T-TC
** * *
67549101 AGCTTGTAAGAGCTTACTATTATT
1 AGCTCATATGAGCTTACTATT-TC
* *
67549125 AGCTCAT-TGAAGCTTACCACTTC
1 AGCTCATATG-AGCTTACTATTTC
67549148 AGCTCATATGAGCTTACTA-TTC
1 AGCTCATATGAGCTTACTATTTC
67549170 AGCTC
1 AGCTC
67549175 GATAAAGCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
22 8 0.13
23 17 0.27
24 19 0.31
25 2 0.03
26 16 0.26
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (23 bp):
AGCTCATATGAGCTTACTATTTC
Found at i:67549183 original size:22 final size:23
Alignment explanation
Indices: 67549125--67549187 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
67549115 TACTATTATT
67549125 AGCTCAT-TGAAGCTTACCACTTC
1 AGCTCATAT-AAGCTTACCACTTC
* *
67549148 AGCTCATATGAGCTTACTA-TTC
1 AGCTCATATAAGCTTACCACTTC
67549170 AGCTCGATA-AAGCTTACC
1 AGCTC-ATATAAGCTTACC
67549188 GTTTAAGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 15 0.44
23 18 0.53
24 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (23 bp):
AGCTCATATAAGCTTACCACTTC
Found at i:67556745 original size:24 final size:23
Alignment explanation
Indices: 67556718--67556793 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
67556708 CAGCTTGTAA
*
67556718 GAGCTTATTGTTATCAGCTCAT-T
1 GAGCTTATTGTT-TCAACTCATAT
* *
67556741 GGAGCTTATCGTTTCAACTCGTAT
1 -GAGCTTATTGTTTCAACTCATAT
*
67556765 GAGCTTATTG-TTCAGCTCGATA-
1 GAGCTTATTGTTTCAACTC-ATAT
67556787 GAGCTTA
1 GAGCTTA
67556794 CCATTTCAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 14 0.32
23 18 0.41
24 12 0.27
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (23 bp):
GAGCTTATTGTTTCAACTCATAT
Found at i:67556772 original size:23 final size:22
Alignment explanation
Indices: 67556742--67556793 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
67556732 CAGCTCATTG
67556742 GAGCTTATCGTTTCAACTCG-TA
1 GAGCTTATCG-TTCAACTCGATA
* *
67556764 TGAGCTTATTGTTCAGCTCGATA
1 -GAGCTTATCGTTCAACTCGATA
67556787 GAGCTTA
1 GAGCTTA
67556794 CCATTTCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (22 bp):
GAGCTTATCGTTCAACTCGATA
Found at i:67557468 original size:33 final size:33
Alignment explanation
Indices: 67557431--67557495 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
67557421 TGGTACTATG
67557431 TTTTGGTTGAATTAAATGTTCAATTATGGTATT
1 TTTTGGTTGAATTAAATGTTCAATTATGGTATT
67557464 TTTTGGTTGAATTAAATGTTCAATTATGGTAT
1 TTTTGGTTGAATTAAATGTTCAATTATGGTAT
67557496 GTTACCGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (33 bp):
TTTTGGTTGAATTAAATGTTCAATTATGGTATT
Found at i:67559884 original size:29 final size:28
Alignment explanation
Indices: 67559794--67559904 Score: 100
Period size: 28 Copynumber: 3.9 Consensus size: 28
67559784 CCTATATATG
* * *
67559794 TATGGCCCACTAGG-CCTAATCTCTTTCA
1 TATGG-CCACTAGGCCCAAATCACATTCA
* * * *
67559822 TACGGCCTACTAGG-CCTATTCACATTTA
1 TATGGCC-ACTAGGCCCAAATCACATTCA
* *
67559850 TGTGGCCCATTAGGCCCAAATCACATTCA
1 TATGG-CCACTAGGCCCAAATCACATTCA
67559879 TATGGCCACTAGGCCCAAATCACATT
1 TATGGCCACTAGGCCCAAATCACATT
67559905 TACAGTCATG
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.03
28 48 0.72
29 17 0.25
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
TATGGCCACTAGGCCCAAATCACATTCA
Found at i:67560154 original size:16 final size:16
Alignment explanation
Indices: 67560120--67560170 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
67560110 GTAGCCAAAC
67560120 TTTCGACTTTTC-GGCA
1 TTTCGACTTTTCAGG-A
*
67560136 TTTC-AGCTTTTCAGTA
1 TTTCGA-CTTTTCAGGA
67560152 TTTCGACTTTTCAGGA
1 TTTCGACTTTTCAGGA
67560168 TTT
1 TTT
67560171 ACCGATCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.03
16 27 0.90
17 2 0.07
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTCGACTTTTCAGGA
Found at i:67567663 original size:28 final size:27
Alignment explanation
Indices: 67567561--67567667 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 27
67567551 CCTATAAATG
* *
67567561 TATGGCCCACTAGGCCCAATCTCTTTCA
1 TATGG-CCACTAGGCCCAATCACATTCA
* * * * *
67567589 TATAGCCCATTAGGCCCATTCATATTTA
1 TAT-GGCCACTAGGCCCAATCACATTCA
*
67567617 TGTGGCC-CATAGGCCCAAATCACATTCA
1 TATGGCCAC-TAGGCCC-AATCACATTCA
67567645 TATGGCCACTAGGCCCAAATCAC
1 TATGGCCACTAGGCCC-AATCAC
67567668 GTTTACAGTC
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 10 0.16
28 49 0.80
29 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (27 bp):
TATGGCCACTAGGCCCAATCACATTCA
Found at i:67569506 original size:30 final size:30
Alignment explanation
Indices: 67569472--67569532 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
67569462 TTCCCGAGCC
67569472 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
67569502 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
67569532 T
1 T
67569533 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:67570348 original size:64 final size:63
Alignment explanation
Indices: 67570267--67570450 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
67570257 AGACATTATG
*
67570267 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
67570330 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
67570395 TA
62 TA
** * * * *
67570397 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
67570451 CGAACTTTAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 19 0.19
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:67587153 original size:30 final size:30
Alignment explanation
Indices: 67587118--67587177 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
67587108 TATTTTATTA
67587118 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGTATTTG
*
67587148 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGTATTTG
67587178 CTTGTTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGTATTTG
Found at i:67589840 original size:15 final size:16
Alignment explanation
Indices: 67589814--67589843 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
67589804 AAGATATTAA
67589814 AAAAAATGAAAATTCC
1 AAAAAATGAAAATTCC
67589830 AAAAAAT-AAAATTC
1 AAAAAATGAAAATTC
67589844 ACACTTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAATGAAAATTCC
Found at i:67590002 original size:22 final size:21
Alignment explanation
Indices: 67589973--67590014 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
67589963 TAAAATTTAT
*
67589973 TACTTTTCCATCTTTCCACTC
1 TACTTTTCCATCCTTCCACTC
67589994 TACTCTTTCCATCCTTCCACT
1 TACT-TTTCCATCCTTCCACT
67590015 TCCCCGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.45
Consensus pattern (21 bp):
TACTTTTCCATCCTTCCACTC
Found at i:67596046 original size:22 final size:22
Alignment explanation
Indices: 67596021--67596065 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
67596011 TTTAATAAAG
67596021 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
67596043 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
67596065 A
1 A
67596066 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:67599765 original size:22 final size:22
Alignment explanation
Indices: 67599737--67599781 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
67599727 CACCTAAAAG
67599737 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
67599759 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
67599781 A
1 A
67599782 CAATTTCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:67604748 original size:15 final size:15
Alignment explanation
Indices: 67604730--67604761 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
67604720 TGTGTTTGAT
*
67604730 AAAAATTAAGTGCTG
1 AAAAATTAAGTACTG
67604745 AAAAATTAAGTACTG
1 AAAAATTAAGTACTG
67604760 AA
1 AA
67604762 TTTTTATTGC
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:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (15 bp):
AAAAATTAAGTACTG
Found at i:67614263 original size:27 final size:26
Alignment explanation
Indices: 67614179--67614252 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
67614169 TTTCAAGCGT
* * * *
67614179 AATATGGAAGGAAACTTTTGTGGCGT
1 AATATGAAAGGAAGCCTTTGTGGCGC
67614205 AATATGAAAGGAAGCCTTTGTGGCGC
1 AATATGAAAGGAAGCCTTTGTGGCGC
67614231 AATATGAAAGGAATGCCTTTGT
1 AATATGAAAGGAA-GCCTTTGT
67614253 TGCGAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 35 0.81
27 8 0.19
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (26 bp):
AATATGAAAGGAAGCCTTTGTGGCGC
Found at i:67619272 original size:42 final size:44
Alignment explanation
Indices: 67619217--67619350 Score: 159
Period size: 43 Copynumber: 3.1 Consensus size: 44
67619207 CTTCCATGTT
* * *
67619217 ATCACATAT-CGATGCCACTGTCCCAGATAGGGTCTTACACG-A
1 ATCACATATACGATGCCAATGTCCCAGACACGGTCTTACACGTA
*
67619259 ATCA-ATATACGATGCCAATGTCTCAGACACGGTCTTACACGTA
1 ATCACATATACGATGCCAATGTCCCAGACACGGTCTTACACGTA
* * * * *
67619302 ATCACA-ATACAATGCCAATATCCAAGACATGGTCTTACATGTA
1 ATCACATATACGATGCCAATGTCCCAGACACGGTCTTACACGTA
67619345 ATCACA
1 ATCACA
67619351 ACTCAATAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.05
42 32 0.41
43 42 0.53
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (44 bp):
ATCACATATACGATGCCAATGTCCCAGACACGGTCTTACACGTA
Found at i:67627979 original size:13 final size:13
Alignment explanation
Indices: 67627961--67627985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67627951 TTGACTTGCA
67627961 CACACGGCCATGC
1 CACACGGCCATGC
67627974 CACACGGCCATG
1 CACACGGCCATG
67627986 TCTCTGCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.24, T:0.08
Consensus pattern (13 bp):
CACACGGCCATGC
Found at i:67629702 original size:20 final size:20
Alignment explanation
Indices: 67629677--67629715 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67629667 TGTATTCGTA
*
67629677 AAATTTTAGAATTTTTCATC
1 AAATTTTAGAACTTTTCATC
*
67629697 AAATTTTATAACTTTTCAT
1 AAATTTTAGAACTTTTCAT
67629716 TTTAGCCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTTTAGAACTTTTCATC
Found at i:67635827 original size:20 final size:20
Alignment explanation
Indices: 67635802--67635898 Score: 167
Period size: 20 Copynumber: 4.8 Consensus size: 20
67635792 ACAATATTGA
67635802 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
67635822 TATGATATGCATATGATATG
1 TATGATATGCACATGATATG
*
67635842 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
67635862 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
67635882 TATGATATGCACATGAT
1 TATGATATGCACATGAT
67635899 GTATTCATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:67635828 original size:9 final size:9
Alignment explanation
Indices: 67635814--67635890 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
67635804 TGATATGCAC
67635814 ATGATATGT
1 ATGATATGT
67635823 ATGATATGCAT
1 ATGATATG--T
67635834 ATGATATGT
1 ATGATATGT
* *
67635843 ACGATATGCAC
1 ATGATATG--T
67635854 ATGATATGT
1 ATGATATGT
* *
67635863 ACGATATGCAC
1 ATGATATG--T
67635874 ATGATATGT
1 ATGATATGT
67635883 ATGATATG
1 ATGATATG
67635891 CACATGATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:67636251 original size:31 final size:31
Alignment explanation
Indices: 67636216--67636279 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
67636206 CATTTACAGT
*
67636216 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
67636247 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67636278 AA
1 AA
67636280 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67640150 original size:20 final size:21
Alignment explanation
Indices: 67640116--67640154 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
67640106 TTTACAGCAC
67640116 ATGTATTCATAAAATTTTAGA
1 ATGTATTCATAAAATTTTAGA
*
67640137 ATGT-TTCATCAAATTTTA
1 ATGTATTCATAAAATTTTA
67640155 CAACTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (21 bp):
ATGTATTCATAAAATTTTAGA
Found at i:67643135 original size:47 final size:47
Alignment explanation
Indices: 67643066--67643161 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
67643056 AGCTCTAAAG
*
67643066 TAAGACATTTTGGCGAGTTCCTTGGTACCTAAAGTTATAGTCTGTAT
1 TAAGACATTTTGGCGAGTTCCTTCGTACCTAAAGTTATAGTCTGTAT
* * *
67643113 TAAGACATTTTGGTGAGTTCCTTCGTACCTAGAGTTATAGTTTGTAT
1 TAAGACATTTTGGCGAGTTCCTTCGTACCTAAAGTTATAGTCTGTAT
67643160 TA
1 TA
67643162 TTTTGGTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.41
Consensus pattern (47 bp):
TAAGACATTTTGGCGAGTTCCTTCGTACCTAAAGTTATAGTCTGTAT
Found at i:67648020 original size:93 final size:94
Alignment explanation
Indices: 67647871--67648105 Score: 221
Period size: 93 Copynumber: 2.5 Consensus size: 94
67647861 GACATTTGGG
* ** * *
67647871 TGATATGTGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATTATGAGAGCCATTA
1 TGATATGTGT-CTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCACAAGACGAGAGCCAGTA
* *
67647934 TAAGATC-ATGTCTAGGACATGGCA-CTGGCT
64 TAAGA-CAATGTCTAGGACATGGCATCAGCCT
* * *
67647964 TGATATGTGTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCTAGTGT
1 TGATATGTGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAAGACGAGAGCCAGTAT
* *
67648028 AAGACAATGTTTGGGACATGGCATCAGCCT
65 AAGACAATGTCTAGGACATGGCATCAGCCT
* * *
67648058 TGAGATATGAAAG-CTAGTGTAAAACCATGTCTGGGACATGACATCGGC
1 T--GATATG--TGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
67648106 TTGATATGTG
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
91 9 0.08
92 18 0.15
93 46 0.39
94 5 0.04
96 6 0.05
97 1 0.01
98 32 0.27
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (94 bp):
TGATATGTGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAGACGAGAGCCAGTATA
AGACAATGTCTAGGACATGGCATCAGCCT
Found at i:67648093 original size:50 final size:48
Alignment explanation
Indices: 67647975--67648296 Score: 205
Period size: 50 Copynumber: 6.6 Consensus size: 48
67647965 GATATGTGTC
* * * *
67647975 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-A-AGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTTGAGATATGAAAG-T
* *
67648023 AGTGTAAGACAATGTTTGGGACATGGCATCAGCCTTGAGATATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTTGAGATATGAAAG-T
* * * *
67648073 AGTGTAAAACCATGTCTGGGACATGACATCGGCTT--GATATG--TGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCTTGAGATATGAAAGT
* * * * * ** * * *
67648117 CAATCTAAGACCATGTCTAGGACATGGTATTGGCAC-CAATAGATGATAGT
1 -AGTGTAAGACCATGTCTGGGACATGGCA-TCGC-CTTGAGATATGAAAGT
* * * *
67648167 CGGTATAAGACCATGTCTGGGACATGGCATCAGCCTTGATATATGAGAGT
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTTGAGATATGAAAGT
* * * *
67648217 CAGTGTAAAACCATGTCTGGGACATGGCATCGACTTTGATG-TGTG-AACT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCG-CCTTGA-GATATGAAAGT
67648266 AGTGTAAGACCATGT-TCGGGACATGGCATCG
1 AGTGTAAGACCATGTCT-GGGACATGGCATCG
67648297 GTATCTTACC
Statistics
Matches: 216, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.00
45 23 0.11
46 2 0.01
47 8 0.04
48 64 0.30
49 10 0.05
50 108 0.50
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCTTGAGATATGAAAGT
Found at i:67648232 original size:145 final size:143
Alignment explanation
Indices: 67647940--67648297 Score: 400
Period size: 145 Copynumber: 2.5 Consensus size: 143
67647930 ATTATAAGAT
* * * *
67647940 CATGTCTAGGACATGGCA-CTGGCTTGATATGTGTCAGTGTAAGACCATGTCTGGGACATGGCAT
1 CATGTCTGGGACATGGCATC-GGCTTGATATGTGTCAATCTAAGACCATGTCTAGGACATGGCAT
** * *
67648004 CGGCATTAAGACGAGAGCTAGTGTAAGACAATGTTTGGGACATGGCATCAGCCTTGAGATATGAA
65 CGGCACAAAGACGAGAGCTAGTATAAGACAATGTCTGGGACATGGCATCAGCCTTGAGATATGAA
67648069 AGCTAGTGTAAAAC
130 AGCTAGTGTAAAAC
* * *
67648083 CATGTCTGGGACATGACATCGGCTTGATATGTGTCAATCTAAGACCATGTCTAGGACATGGTATT
1 CATGTCTGGGACATGGCATCGGCTTGATATGTGTCAATCTAAGACCATGTCTAGGACATGGCATC
* * * * *
67648148 GGCACCAATAGATGATAG-TCGGTATAAGACCATGTCTGGGACATGGCATCAGCCTTGATATATG
66 GGCA-CAA-AGACGAGAGCT-AGTATAAGACAATGTCTGGGACATGGCATCAGCCTTGAGATATG
*
67648212 AGAG-TCAGTGTAAAAC
128 AAAGCT-AGTGTAAAAC
* * * * * *
67648228 CATGTCTGGGACATGGCATCGACTTTGATGTGTGAACTAGTGTAAGACCATGT-TCGGGACATGG
1 CATGTCTGGGACATGGCATCGGC-TTGATATGTG-TC-AATCTAAGACCATGTCT-AGGACATGG
67648292 CATCGG
62 CATCGG
67648298 TATCTTACCC
Statistics
Matches: 180, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
143 60 0.33
144 4 0.02
145 80 0.44
146 9 0.05
147 2 0.01
148 25 0.14
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (143 bp):
CATGTCTGGGACATGGCATCGGCTTGATATGTGTCAATCTAAGACCATGTCTAGGACATGGCATC
GGCACAAAGACGAGAGCTAGTATAAGACAATGTCTGGGACATGGCATCAGCCTTGAGATATGAAA
GCTAGTGTAAAAC
Found at i:67651373 original size:40 final size:39
Alignment explanation
Indices: 67651318--67651425 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 39
67651308 TTAAAACACA
* *
67651318 AATGCCTTTGGGACTTAATCCGAATATAATAACCAGCACG
1 AATGCCTTCGGGACTTAACCCG-ATATAATAACCAGCACG
67651358 AATGCCTTCGGGACTTAACCCTGATATAATAACCAGCACG
1 AATGCCTTCGGGACTTAACCC-GATATAATAACCAGCACG
67651398 AATGCCTTCGGGACTTAACCCGGATATA
1 AATGCCTTCGGGACTTAACCC-GATATA
67651426 TATATTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 63 0.98
41 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGATATAATAACCAGCACG
Found at i:67658716 original size:40 final size:40
Alignment explanation
Indices: 67658661--67658808 Score: 244
Period size: 40 Copynumber: 3.7 Consensus size: 40
67658651 AAAAAACACA
* * *
67658661 AATGCCTTTGGGACTTAATCCGGATATAATAACC-GAAACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACCAG-CACG
*
67658701 AATGCCTTCGGGACTTAACCCTGATATAATAACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACCAGCACG
67658741 AATGCCTTCGGGACTTAACCCGGATATAATAACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACCAGCACG
67658781 AATGCCTTCGGGACTTAACCCGGATATA
1 AATGCCTTCGGGACTTAACCCGGATATA
67658809 TATATTCCTC
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
40 101 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATAATAACCAGCACG
Found at i:67661666 original size:15 final size:15
Alignment explanation
Indices: 67661646--67661677 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
67661636 TTCATGCTTC
67661646 ATTCAGCCAAGGAAG
1 ATTCAGCCAAGGAAG
67661661 ATTCAGCCAAGGAAG
1 ATTCAGCCAAGGAAG
67661676 AT
1 AT
67661678 GATAATGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.16
Consensus pattern (15 bp):
ATTCAGCCAAGGAAG
Found at i:67669175 original size:20 final size:20
Alignment explanation
Indices: 67669152--67669193 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
67669142 ATCTAAGTAA
67669152 GACAAATCTCATCAAAGTCT
1 GACAAATCTCATCAAAGTCT
67669172 GACAAATCTCATCAAAGTCT
1 GACAAATCTCATCAAAGTCT
67669192 GA
1 GA
67669194 AGAGATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (20 bp):
GACAAATCTCATCAAAGTCT
Found at i:67670519 original size:40 final size:40
Alignment explanation
Indices: 67670443--67670526 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
67670433 TGACATATCA
* * *
67670443 GCTAAATATGGCACTTACTGTGCGGTTCGGTGTAGCTTTG
1 GCTAAATATGGCACTTACTGTGCGATTCGGTATAGCTTCG
* * *
67670483 GCTAAATTTGGCACTTAGTGTGCGATTTGAG-ATAGCTTCG
1 GCTAAATATGGCACTTACTGTGCGATTCG-GTATAGCTTCG
67670523 GCTA
1 GCTA
67670527 TGTACAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.35
Consensus pattern (40 bp):
GCTAAATATGGCACTTACTGTGCGATTCGGTATAGCTTCG
Found at i:67670593 original size:28 final size:28
Alignment explanation
Indices: 67670562--67670664 Score: 163
Period size: 28 Copynumber: 3.7 Consensus size: 28
67670552 TTAAATATGG
67670562 CACTTAGTGTGCGAAATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
*
67670590 CACTTAGTGTG-TAAGATATTGAGAATGA
1 CACTTAGTGTGCGAA-ATATTGAGAATGA
* *
67670618 CACTTAGTGTGCGAGATATTAAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
67670646 CACTTAGTGTGCGAAATAT
1 CACTTAGTGTGCGAAATAT
67670665 CGAATGATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
27 2 0.03
28 65 0.96
29 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGA
Found at i:67672463 original size:16 final size:16
Alignment explanation
Indices: 67672442--67672474 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67672432 TAAGAATTGT
67672442 TTTAATTAGACAGATA
1 TTTAATTAGACAGATA
67672458 TTTAATTAGACAGATA
1 TTTAATTAGACAGATA
67672474 T
1 T
67672475 ACTTTCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TTTAATTAGACAGATA
Found at i:67673289 original size:26 final size:26
Alignment explanation
Indices: 67673260--67673309 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
67673250 CTGGGCATTC
67673260 TATGTGCAC-ATTT-ATTCTCATAAGTA
1 TATGTG-ACTATTTAATT-TCATAAGTA
67673286 TATGTGACTATTTAATTTCATAAG
1 TATGTGACTATTTAATTTCATAAG
67673310 GAATTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 17 0.77
27 3 0.14
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (26 bp):
TATGTGACTATTTAATTTCATAAGTA
Found at i:67690646 original size:46 final size:46
Alignment explanation
Indices: 67690596--67690946 Score: 490
Period size: 46 Copynumber: 7.6 Consensus size: 46
67690586 TGCCATAATG
*
67690596 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTA
* * * *
67690642 TCTTTCAACCATGGTCTTATTCATTTTC-TATCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTA
* * *
67690688 TCTTTCAACCATGGTCCTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* *
67690734 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* *
67690780 TCTTTCAACCATGGTCTTATTCAATTCATGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
67690826 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
** *
67690872 TCTTTCAACCATGGTCTTACAAATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* *
67690918 TCTTTCAACCATGGTCTTATTTATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
67690947 TTCAAAGAGC
Statistics
Matches: 275, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.01
46 271 0.99
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
Found at i:67692644 original size:68 final size:68
Alignment explanation
Indices: 67692572--67692972 Score: 802
Period size: 68 Copynumber: 5.9 Consensus size: 68
67692562 TGCTCTCTGT
67692572 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
1 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
67692637 AGA
66 AGA
67692640 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
1 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
67692705 AGA
66 AGA
67692708 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
1 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
67692773 AGA
66 AGA
67692776 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
1 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
67692841 AGA
66 AGA
67692844 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
1 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
67692909 AGA
66 AGA
67692912 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATA
1 TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATA
67692973 CACATGTATT
Statistics
Matches: 333, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 333 1.00
ACGTcount: A:0.17, C:0.16, G:0.04, T:0.63
Consensus pattern (68 bp):
TTCGTTTGCTTTTTCTTCATTTCTATTCTTTTTTCTTTCTTTATTTCTTTATATATATATATACC
AGA
Found at i:67703906 original size:27 final size:27
Alignment explanation
Indices: 67703875--67703935 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
67703865 TTTGGGCCAA
*
67703875 GTTGGGCCATGTGGGCCCCACAGGCAT
1 GTTGGGCCATGTGGGCCCCACAGACAT
** * *
67703902 GTTGGATCGTGTGGGCCTCACAGACAT
1 GTTGGGCCATGTGGGCCCCACAGACAT
67703929 G-TGGGCC
1 GTTGGGCC
67703936 CCACACGGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (27 bp):
GTTGGGCCATGTGGGCCCCACAGACAT
Found at i:67708958 original size:12 final size:14
Alignment explanation
Indices: 67708925--67708959 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
67708915 CAAGTCACAT
67708925 GCCTGTGTGCTAAC
1 GCCTGTGTGCTAAC
67708939 GCCTGTGTGCTAA-
1 GCCTGTGTGCTAAC
67708952 GCC-GTGTG
1 GCCTGTGTG
67708960 GAGCATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 3 0.14
14 13 0.62
ACGTcount: A:0.11, C:0.26, G:0.34, T:0.29
Consensus pattern (14 bp):
GCCTGTGTGCTAAC
Found at i:67716504 original size:27 final size:27
Alignment explanation
Indices: 67716473--67716532 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
67716463 TTAAGCTTGG
67716473 TGGGCCACACGGGATTGTAGGCCCACA
1 TGGGCCACACGGGATTGTAGGCCCACA
*
67716500 TGGGCCACACGGGCTTGTAGGCCCACA
1 TGGGCCACACGGGATTGTAGGCCCACA
67716527 TGGGCC
1 TGGGCC
67716533 CGCATTGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (27 bp):
TGGGCCACACGGGATTGTAGGCCCACA
Found at i:67722958 original size:24 final size:24
Alignment explanation
Indices: 67722926--67722980 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
67722916 GAAGTGGTTG
67722926 AGGGGAGTTCAAATTGAGTAGTTA
1 AGGGGAGTTCAAATTGAGTAGTTA
*
67722950 AGGGGAGTTCAAATTGAGTAGTTG
1 AGGGGAGTTCAAATTGAGTAGTTA
67722974 AGGGGAG
1 AGGGGAG
67722981 GTGTGATCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.40, T:0.25
Consensus pattern (24 bp):
AGGGGAGTTCAAATTGAGTAGTTA
Found at i:67726636 original size:17 final size:17
Alignment explanation
Indices: 67726614--67726650 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
67726604 TAGTAGCTAG
67726614 CTAATCTCAGAAATCTT
1 CTAATCTCAGAAATCTT
67726631 CTAATCTCAGAAATCTT
1 CTAATCTCAGAAATCTT
67726648 CTA
1 CTA
67726651 GCAATCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (17 bp):
CTAATCTCAGAAATCTT
Found at i:67729630 original size:79 final size:81
Alignment explanation
Indices: 67729494--67729678 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
67729484 TTGAATGATG
*
67729494 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
67729558 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
67729573 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
67729635 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
67729653 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
67729679 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:67729692 original size:40 final size:39
Alignment explanation
Indices: 67729495--67729678 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
67729485 TGAATGATGT
* * *
67729495 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
67729535 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
67729575 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
67729613 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
67729654 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
67729679 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:67729700 original size:79 final size:79
Alignment explanation
Indices: 67729495--67729711 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
67729485 TGAATGATGT
** * * * **
67729495 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
67729558 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
67729575 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
67729640 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
67729654 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
67729712 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:67737600 original size:79 final size:81
Alignment explanation
Indices: 67737464--67737648 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
67737454 TTGAATGATG
*
67737464 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
67737528 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
67737543 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
67737605 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
67737623 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
67737649 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:67737662 original size:40 final size:40
Alignment explanation
Indices: 67737465--67737648 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
67737455 TGAATGATGT
* * * *
67737465 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
67737505 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
67737545 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
67737583 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
67737624 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
67737649 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:67737670 original size:79 final size:79
Alignment explanation
Indices: 67737517--67737681 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
67737507 GGACTAAGAT
* **
67737517 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
67737582 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
67737596 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
67737659 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
67737675 CCGAAGG
1 CCGAAGG
67737682 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:67740953 original size:24 final size:24
Alignment explanation
Indices: 67740921--67740966 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
67740911 GACATTGTGC
67740921 TAAGTGAAATAAGACCATGGCATT
1 TAAGTGAAATAAGACCATGGCATT
*
67740945 TAAGTGAAATAAGTCCATGGCA
1 TAAGTGAAATAAGACCATGGCA
67740967 ATGTGCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (24 bp):
TAAGTGAAATAAGACCATGGCATT
Found at i:67740999 original size:28 final size:28
Alignment explanation
Indices: 67740916--67741003 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 28
67740906 GATATGACAT
* * *
67740916 TGTGCTAAGTGAAATAAGACCATGGC-A
1 TGTGCTAATTGAAATAAGTCCATAGCAA
* *
67740943 T-T--TAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAATTGAAATAAGTCCATAGCAA
** *
67740968 TGTGCTAATTGAAATAAGTTTATAGCAT
1 TGTGCTAATTGAAATAAGTCCATAGCAA
67740996 TGTGCTAA
1 TGTGCTAA
67741004 GTGAGAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.39
25 2 0.04
26 2 0.04
27 1 0.02
28 26 0.51
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (28 bp):
TGTGCTAATTGAAATAAGTCCATAGCAA
Found at i:67741086 original size:51 final size:51
Alignment explanation
Indices: 67741031--67741128 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
67741021 TGAACCTTAG
*
67741031 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTT-GACTACAAGGGTGGTACTATGTGAAGGCCACTTTGT
*
67741082 GAATAAAATAGCTTTGACTACAAGGGTGGTACTATGTGCAGGCCACT
1 GAATAAAATAGCTTTGACTACAAGGGTGGTACTATGTGAAGGCCACT
67741129 GTTTATCCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 3 0.07
51 41 0.93
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGT
Found at i:67760315 original size:24 final size:24
Alignment explanation
Indices: 67760240--67760315 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
67760230 TAAGTGACCT
67760240 ATTTAATTTAATAATTAGCCACCC
1 ATTTAATTTAATAATTAGCCACCC
* * ** ** *
67760264 AGTAAATTT--TTTTTAAGTGACCT
1 ATTTAATTTAATAATT-AGCCACCC
67760287 ATTTAATTTAATAATTAGCCACCC
1 ATTTAATTTAATAATTAGCCACCC
67760311 ATTTA
1 ATTTA
67760316 GTATCGTTTC
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 3 0.09
23 12 0.34
24 17 0.49
25 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (24 bp):
ATTTAATTTAATAATTAGCCACCC
Found at i:67761074 original size:24 final size:24
Alignment explanation
Indices: 67761042--67761158 Score: 153
Period size: 24 Copynumber: 4.9 Consensus size: 24
67761032 TCGGTCAAGG
*
67761042 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATGC
* * *
67761066 TAACCCGCACACATAGTGCCTTGC
1 AAATCCGCACACATAGTGCCATGC
* * * *
67761090 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
*
67761114 AAATCCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
67761138 AAATCCGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
67761159 ATGTCATTTC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.21
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATGC
Found at i:67761552 original size:17 final size:17
Alignment explanation
Indices: 67761530--67761563 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
67761520 CCCCACTTAA
*
67761530 TATATTATAACTTATTT
1 TATATTATAACATATTT
67761547 TATATTATAACATATTT
1 TATATTATAACATATTT
67761564 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:67763771 original size:46 final size:46
Alignment explanation
Indices: 67763721--67763896 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
67763711 TGGTTGAGCA
67763721 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * * *
67763767 TCCGAACTCGTTGAGTTGAGTTTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G
* *
67763812 CATCCGAACTCGTTGAGTTGATTCTGAGTTCACCTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * * * **
67763860 CCCGAGCTCGTGGAGTTGTGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
67763897 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.56
47 27 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:67763887 original size:93 final size:93
Alignment explanation
Indices: 67763718--67763887 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
67763708 GGATGGTTGA
* * *
67763718 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGCCCGAACTCGTGGAGT
**
67763783 TGAGTTTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
67763811 GCATCCGAACTCGTTGAGTTGATTCTGAGTTCACCTATGGATGCGAATGCCCGAGCTCGTGGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGCCCGAACTCGTGGAGT
*
67763876 TGTGTCCGAGTT
66 TGAGTCCGAGTT
67763888 TGCTTATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGCCCGAACTCGTGGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:67766154 original size:24 final size:24
Alignment explanation
Indices: 67766100--67766154 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
67766090 ATTTCATTTC
*
67766100 TACCATGTATTATGTGTCTTAATGT
1 TACCATGTATTATATG-CTTAATGT
*
67766125 T-TCATGTATTATATG-TTAATTGT
1 TACCATGTATTATATGCTTAA-TGT
67766148 TACCATG
1 TACCATG
67766155 AAAACATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.16
23 4 0.16
24 16 0.64
25 1 0.04
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (24 bp):
TACCATGTATTATATGCTTAATGT
Found at i:67767940 original size:15 final size:15
Alignment explanation
Indices: 67767916--67767947 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
67767906 TGAGTAGCCA
67767916 AATGTATTGGCTTAT
1 AATGTATTGGCTTAT
*
67767931 AATGTTTTGGCTTAT
1 AATGTATTGGCTTAT
67767946 AA
1 AA
67767948 GCCTAATTAT
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:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (15 bp):
AATGTATTGGCTTAT
Found at i:67769732 original size:43 final size:43
Alignment explanation
Indices: 67769677--67769916 Score: 258
Period size: 43 Copynumber: 5.7 Consensus size: 43
67769667 ATATCATACA
* * *
67769677 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
67769720 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * * * * *
67769761 ATACCGATGTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
*
67769804 ATGCCAACATCCCAGACGTGGTCTTACACG-AATCAAATA-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* * * * * * *
67769845 ATGCCGATGTCCAAGACATGGTCATACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
*
67769888 ATGCCAACGTCCCATACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
67769917 AAATACACAT
Statistics
Matches: 160, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
41 49 0.31
42 37 0.23
43 73 0.46
44 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:67769827 original size:84 final size:84
Alignment explanation
Indices: 67769685--67769916 Score: 333
Period size: 84 Copynumber: 2.8 Consensus size: 84
67769675 CAATGCCAAC
* * *
67769685 GTCCCAAACGTGGTCTTACATGTAATCATATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACA
1 GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACA
*
67769748 CGAATCAAATATGATACCGAT
64 CGAATCAAATACGATACCGAT
*
67769769 GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
*
67769834 AATCAAATACGATGCCGAT
66 AATCAAATACGATACCGAT
* * ** *
67769853 GTCCAAGACATGGTCATACACATAATCACATATCGATGCCAACGTCCCATACGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACAC
67769917 AAATACACAT
Statistics
Matches: 134, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
83 1 0.01
84 131 0.98
85 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
AATCAAATACGATACCGAT
Found at i:67769926 original size:127 final size:127
Alignment explanation
Indices: 67769677--67769931 Score: 302
Period size: 127 Copynumber: 2.0 Consensus size: 127
67769667 ATATCATACA
* * * *
67769677 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCAAGACAGGGT
* * * **
67769742 CTTACACGAATCAAATATGATACCGATGTCCCAGACATGGTCTTACATGTAATCACATATCG
66 CATACACGAATCAAATATGATACCAACGTCCCAGACATGGTCTTACATCAAATCACATATCG
* *
67769804 ATGCCAACATCCCAGACGTGGTCTTACACG-AATCAAATA-CGATGCCGA-TGTCCAAGACATGG
1 ATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCC-ACTGTCCAAGACAGGG
* * * * *
67769866 TCATACACATAATCACATATCGATGCCAACGTCCCATACGTGGTCTTACA-CAAATACACATATC
65 TCATACAC-GAATCAAATAT-GATACCAACGTCCCAGACATGGTCTTACATCAAAT-CACATATC
67769930 G
127 G
67769931 A
1 A
67769932 AAATCGTATG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
125 26 0.24
126 21 0.19
127 61 0.56
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (127 bp):
ATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCAAGACAGGGT
CATACACGAATCAAATATGATACCAACGTCCCAGACATGGTCTTACATCAAATCACATATCG
Found at i:67789050 original size:29 final size:28
Alignment explanation
Indices: 67789018--67789124 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 28
67789008 ATAATATGAT
*
67789018 TTGGGCCTAATGGGTCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* ** *
67789047 TTGGGCCTAGTGGAACATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
*
67789076 TTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
*
67789104 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
67789125 CATATATGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.02
28 20 0.32
29 42 0.67
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:67793732 original size:30 final size:30
Alignment explanation
Indices: 67793687--67793755 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
67793677 CTCTTTGCTC
* *
67793687 TTTTCTTTCGGTTTAATCACTTGTTTTACT
1 TTTTCTCTCGATTTAATCACTTGTTTTACT
*
67793717 TTTTCTCTCGATTTAATCACTTGTTTTCCT
1 TTTTCTCTCGATTTAATCACTTGTTTTACT
*
67793747 TTTTTTCTC
1 TTTTCTCTC
67793756 ACTTTTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.12, C:0.20, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTCTCTCGATTTAATCACTTGTTTTACT
Found at i:67803350 original size:30 final size:30
Alignment explanation
Indices: 67803314--67803373 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
67803304 AATTAAAACA
*
67803314 AACCAATGTTTTCTTGAAATAGTTTAGATT
1 AACCAATGTTTTCTTGAAATAATTTAGATT
67803344 AACCAATGTTTTCTTGAAATAATTTAGATT
1 AACCAATGTTTTCTTGAAATAATTTAGATT
67803374 TTAATCATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (30 bp):
AACCAATGTTTTCTTGAAATAATTTAGATT
Found at i:67806285 original size:17 final size:17
Alignment explanation
Indices: 67806249--67806296 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
67806239 AATCAAAATT
67806249 TATTTTATAATAAGATAA
1 TATTTTATAATAA-ATAA
67806267 TATTTTATAATAAATAA
1 TATTTTATAATAAATAA
*
67806284 TATCTTAT-ATAAA
1 TATTTTATAATAAA
67806297 CTTAATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 5 0.17
17 11 0.38
18 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:67811833 original size:40 final size:41
Alignment explanation
Indices: 67811789--67811866 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
67811779 AAACATTTAT
*
67811789 TGTTAAAATTATATTATTAAATATAAATA-TTAAATATGAA
1 TGTTAAAATTATAATATTAAATATAAATATTTAAATATGAA
* ** *
67811829 TGTTAACATTATAATATTTTATATTAATATTTAAATAT
1 TGTTAAAATTATAATATTAAATATAAATATTTAAATAT
67811867 TTAAAAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 24 0.75
41 8 0.25
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (41 bp):
TGTTAAAATTATAATATTAAATATAAATATTTAAATATGAA
Found at i:67812787 original size:39 final size:39
Alignment explanation
Indices: 67812733--67812811 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
67812723 ACATGATTAT
67812733 AATTTTGACCCATTGCGTAAAGCGTAAGTGCAATACATA
1 AATTTTGACCCATTGCGTAAAGCGTAAGTGCAATACATA
67812772 AATTTTGACCCATTGCGTAAAGCGTAAGTGCAATACATA
1 AATTTTGACCCATTGCGTAAAGCGTAAGTGCAATACATA
67812811 A
1 A
67812812 CCCAACATCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (39 bp):
AATTTTGACCCATTGCGTAAAGCGTAAGTGCAATACATA
Found at i:67817572 original size:10 final size:10
Alignment explanation
Indices: 67817544--67817578 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
67817534 TGTTTAGTGG
67817544 AAAATTTTCT
1 AAAATTTTCT
*
67817554 -AAGTTTTCT
1 AAAATTTTCT
67817563 AAAATTTTCT
1 AAAATTTTCT
67817573 AAAATT
1 AAAATT
67817579 GTCGGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (10 bp):
AAAATTTTCT
Found at i:67822598 original size:27 final size:27
Alignment explanation
Indices: 67822567--67822863 Score: 423
Period size: 27 Copynumber: 11.0 Consensus size: 27
67822557 CAAAATGATT
*
67822567 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
67822594 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
67822621 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
67822648 AAAATACCCTTGTAGGATAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
67822675 GAAATACCCCTGTAGGCTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
67822702 GAAATACCCCTGTAGGCTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
67822729 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
67822756 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
67822783 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
67822810 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
67822837 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
67822864 ATTTTGCCCC
Statistics
Matches: 246, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 246 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:67823284 original size:22 final size:22
Alignment explanation
Indices: 67823254--67823315 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
67823244 AATTATTCTG
* *
67823254 ATTATGGCTTTGCGCCAACCT-
1 ATTATGGCTATGTGCCAACCTA
*
67823275 ATATATGGCTGTGTGCCAACCTA
1 AT-TATGGCTATGTGCCAACCTA
67823298 ATTATGGCTATGTGCCAA
1 ATTATGGCTATGTGCCAA
67823316 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (22 bp):
ATTATGGCTATGTGCCAACCTA
Found at i:67823504 original size:27 final size:27
Alignment explanation
Indices: 67823474--67823543 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
67823464 ATTCTGTTAA
* *
67823474 GTGGCTTTGCCAC-ATTATCTGTTTCTG
1 GTGGCTATGCCACAAATATCTG-TTCTG
67823501 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
* * *
67823528 GTAGCCATGCTACAAA
1 GTGGCTATGCCACAAA
67823544 CTCTATGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.81
28 7 0.19
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTATGCCACAAATATCTGTTCTG
Found at i:67823663 original size:6 final size:6
Alignment explanation
Indices: 67823646--67823782 Score: 59
Period size: 6 Copynumber: 22.3 Consensus size: 6
67823636 TTGCATTCAC
* * * * *
67823646 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
67823696 ATTCTG ATTCTA ATTATG ATTCTA ATTTTG ATTCTG ATTCTG -TCACTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* *
67823745 ATT-TCG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCT-G ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
67823783 AATGTTTATT
Statistics
Matches: 95, Mismatches: 23, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
5 6 0.06
6 77 0.81
7 9 0.09
8 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:67823680 original size:25 final size:25
Alignment explanation
Indices: 67823652--67823710 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
67823642 TCACATTCTA
* * *
67823652 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTAATTCTGTCACCTAATACTG
*
67823677 ATTCTAATTCTGTCACCTAATTCTG
1 ATTCTAATTCTGTCACCTAATACTG
67823702 ATTCTAATT
1 ATTCTAATT
67823711 ATGATTCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTAATTCTGTCACCTAATACTG
Found at i:67823710 original size:12 final size:12
Alignment explanation
Indices: 67823674--67823737 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
67823664 TTACCTGATA
67823674 CTGATTCTAATT
1 CTGATTCTAATT
*
67823686 CTG-TCACCTAATT
1 CTGAT--TCTAATT
67823699 CTGATTCTAATT
1 CTGATTCTAATT
*
67823711 ATGATTCTAATT
1 CTGATTCTAATT
* *
67823723 TTGATTCTGATT
1 CTGATTCTAATT
67823735 CTG
1 CTG
67823738 TCACTTGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
11 1 0.02
12 32 0.74
13 9 0.21
14 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.48
Consensus pattern (12 bp):
CTGATTCTAATT
Found at i:67843059 original size:46 final size:46
Alignment explanation
Indices: 67842999--67843272 Score: 451
Period size: 46 Copynumber: 6.0 Consensus size: 46
67842989 TTTGACATGA
* * * * * * *
67842999 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
67843045 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
67843091 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
67843137 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
67843183 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
67843229 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
67843273 AGAGCACACT
Statistics
Matches: 218, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 214 0.98
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:67844524 original size:122 final size:122
Alignment explanation
Indices: 67844307--67844552 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
67844297 ATGTATATAA
67844307 CACTTGTAAGTAACATTATCTATATATATTTTTTATTTACTTTTATGAATATTCAAGCTGTCCAT
1 CACTTGTAAGTAACATTATCTATATATATTTTTTATTTACTTTTATGAATATTCAAGCTGTCCAT
*
67844372 CTGTGTCATAGTCACTAAATTATTTATATCTGGAGCTATAGAGCTCCAAATTAAGAT
66 CTGTGTCATAGTCACTAAATTATTTATATCTGGAGATATAGAGCTCCAAATTAAGAT
67844429 CACTTGTAAGTAACATTATCTATATATATTTTTTATTTACTTTTATGAATATTCAAGCTGTCCAT
1 CACTTGTAAGTAACATTATCTATATATATTTTTTATTTACTTTTATGAATATTCAAGCTGTCCAT
67844494 CTGTGTCATAGTCACTAAATTATTTATATCTGGAGATATAGAGCTCCAAATTAAGAT
66 CTGTGTCATAGTCACTAAATTATTTATATCTGGAGATATAGAGCTCCAAATTAAGAT
67844551 CA
1 CA
67844553 AAAAATTTTC
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (122 bp):
CACTTGTAAGTAACATTATCTATATATATTTTTTATTTACTTTTATGAATATTCAAGCTGTCCAT
CTGTGTCATAGTCACTAAATTATTTATATCTGGAGATATAGAGCTCCAAATTAAGAT
Found at i:67845530 original size:3 final size:3
Alignment explanation
Indices: 67845522--67845558 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
67845512 ACATATATAT
67845522 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67845559 TCATTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:67849513 original size:56 final size:56
Alignment explanation
Indices: 67849453--67849640 Score: 324
Period size: 56 Copynumber: 3.4 Consensus size: 56
67849443 TCCCAGATAG
67849453 GGTCTTACTCGCACACATATAATGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATAATGGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
67849509 GGTCTTACTCGCACATATATAACGGAATCACATATCGATGCCAACGTACTAAATGT
1 GGTCTTACTCGCACACATATAATGGAATCACATATCGATGCCAACGTATTAAACGT
67849565 GGTCTTACTCGCACACATATAATGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATAATGGAATCACATATCGATGCCAACGTATTAAACGT
*
67849621 GGTCTTACTC-AACACATATA
1 GGTCTTACTCGCACACATATA
67849641 TCCATGCCAT
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
55 9 0.07
56 114 0.93
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATAATGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:67884658 original size:13 final size:13
Alignment explanation
Indices: 67884640--67884664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67884630 TTACTTTTCT
67884640 TTTAATTTCTTTG
1 TTTAATTTCTTTG
67884653 TTTAATTTCTTT
1 TTTAATTTCTTT
67884665 ATTCAGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTAATTTCTTTG
Found at i:67888631 original size:30 final size:30
Alignment explanation
Indices: 67888555--67888631 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
67888545 GGTTGACACA
* *
67888555 CCCTTTTCATAATTCGACAACCGAAGTTAT
1 CCCTTTTCATAATTTGACAACCGAAGCTAT
* * *
67888585 CCCATTTCATAGTTTGACAACTGAAGCTAT
1 CCCTTTTCATAATTTGACAACCGAAGCTAT
67888615 CCCTTTTCATAATTTGA
1 CCCTTTTCATAATTTGA
67888632 TGGTCCTCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (30 bp):
CCCTTTTCATAATTTGACAACCGAAGCTAT
Found at i:67888647 original size:30 final size:30
Alignment explanation
Indices: 67888613--67888751 Score: 120
Period size: 30 Copynumber: 4.7 Consensus size: 30
67888603 AACTGAAGCT
*
67888613 ATCCCTTTTCATAATTTGATGGTCCTCACC
1 ATCCCTTTTCATAATTCGATGGTCCTCACC
** * *
67888643 ATCCCTTTTCATTGTTCGATGTTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCCTCACC
* * ** **
67888673 ATCCCTTTTCATAATTTGATAG-CCAAAGTT
1 ATCCCTTTTCATAATTCGATGGTCCTCA-CC
* ** *
67888703 ATCCCTTTTCGTTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCCTCACC
67888733 ATCCCTTTTCATAA-TCGAT
1 ATCCCTTTTCATAATTCGAT
67888752 AGCCAAGGCT
Statistics
Matches: 79, Mismatches: 28, Indels: 5
0.71 0.25 0.04
Matches are distributed among these distances:
29 7 0.09
30 70 0.89
31 2 0.03
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCCTCACC
Found at i:67888677 original size:60 final size:60
Alignment explanation
Indices: 67888613--67888771 Score: 205
Period size: 60 Copynumber: 2.7 Consensus size: 60
67888603 AACTGAAGCT
* ** *
67888613 ATCCCTTTTCATAATTTGATGGTCCTCA-CCATCCCTTTTCATTGTTCGATGTTCGTCACC
1 ATCCCTTTTCATAATTTGATAG-CCAAAGCCATCCCTTTTCATTGTTCGATGGTCGTCACC
** *
67888673 ATCCCTTTTCATAATTTGATAGCCAAAGTTATCCCTTTTCGTTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATTGTTCGATGGTCGTCACC
* * *
67888733 ATCCCTTTTCATAA-TCGATAGCCAAGGCTATCCCTTTTC
1 ATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTC
67888772 GTATTCGATA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
59 25 0.28
60 63 0.72
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATTGTTCGATGGTCGTCACC
Done.