Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 31 of 120
Found at i:3428016 original size:90 final size:90
Alignment explanation
Indices: 3427858--3428060 Score: 223
Period size: 90 Copynumber: 2.3 Consensus size: 90
3427848 AGGCTCGACA
* ** * *
3427858 TGTGACGATGGTGGTCGAGGCAACTATCCGCACCATTGCCCAGCATGTGCCGATGGTGTTCGATG
1 TGTGACGATGGTGGTCGAGGCAACTAGCCGCACCAAGGCCCAGCATGTGCCAATGGTGTTCGAGG
* *
3427923 CAACCACCTGAACCAGAGG-CTATCT
66 CAACCACCTGAACCAG-GGCCCAGCT
* * **
3427948 TGTGCCGATGGTGGTCGAGGCAA-TCGCCTGCACCAAGGGTCAGCATGTGCCAATGGTGATT-GA
1 TGTGACGATGGTGGTCGAGGCAACTAGCC-GCACCAAGGCCCAGCATGTGCCAATGGTG-TTCGA
* *
3428011 GGCAACCACTTGCACCAGGGCCCAGCT
64 GGCAACCACCTGAACCAGGGCCCAGCT
* *
3428038 TGTGTCGATGGCGGTCGAGGCAA
1 TGTGACGATGGTGGTCGAGGCAA
3428061 GTGCCCATAC
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
89 5 0.05
90 88 0.93
91 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.32, T:0.21
Consensus pattern (90 bp):
TGTGACGATGGTGGTCGAGGCAACTAGCCGCACCAAGGCCCAGCATGTGCCAATGGTGTTCGAGG
CAACCACCTGAACCAGGGCCCAGCT
Found at i:3428073 original size:90 final size:90
Alignment explanation
Indices: 3427898--3428088 Score: 210
Period size: 90 Copynumber: 2.1 Consensus size: 90
3427888 CACCATTGCC
* * * * *
3427898 CAGCATGTGCCGATGGTGTTCGATGCAACCACCTGAACCAGAGGCTATCTTGTGCCGATGGTGGT
1 CAGCATGTGCCAATGGTGTTCGAGGCAACCACCTGAACCAGAGGCCAGCTTGTGCCGATGGCGGT
**
3427963 CGAGGCAATCGCCTGCACC-AAGGG
66 CGAGGCAATCGCCCACACCAAAGGG
* * *
3427987 TCAGCATGTGCCAATGGTGATT-GAGGCAACCACTTGCACCAG-GGCCCAGCTTGTGTCGATGGC
1 -CAGCATGTGCCAATGGTG-TTCGAGGCAACCACCTGAACCAGAGG-CCAGCTTGTGCCGATGGC
*
3428050 GGTCGAGGCAAGT-GCCCATACCAAAGGG
63 GGTCGAGGCAA-TCGCCCACACCAAAGGG
*
3428078 CAGCCTGTGCC
1 CAGCATGTGCC
3428089 GATGATGGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
89 2 0.02
90 75 0.88
91 8 0.09
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.19
Consensus pattern (90 bp):
CAGCATGTGCCAATGGTGTTCGAGGCAACCACCTGAACCAGAGGCCAGCTTGTGCCGATGGCGGT
CGAGGCAATCGCCCACACCAAAGGG
Found at i:3429779 original size:45 final size:45
Alignment explanation
Indices: 3429647--3429799 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 45
3429637 CGACAAGTGT
* * * * *
3429647 CGATGGTGGTCGAGGCAATCGCCCGCACCATGGCCCAG-TATGTGC
1 CGATGGTGGTCGAGGCAACCGCCTGCACTAGGGACCAGCT-TGTGC
* * * * * *
3429692 CGATGGTGTTCGATGCAGCCGCCTACACTAGGGGCCATCTTGTGC
1 CGATGGTGGTCGAGGCAACCGCCTGCACTAGGGACCAGCTTGTGC
* * *
3429737 CGATGGTGGTCGAGGCAACCACCTGCACTAGGGATCAGCTTGTAC
1 CGATGGTGGTCGAGGCAACCGCCTGCACTAGGGACCAGCTTGTGC
* *
3429782 TGATGGCGGTCGAGGCAA
1 CGATGGTGGTCGAGGCAA
3429800 GTGCCCATAC
Statistics
Matches: 86, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
45 85 0.99
46 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.33, T:0.20
Consensus pattern (45 bp):
CGATGGTGGTCGAGGCAACCGCCTGCACTAGGGACCAGCTTGTGC
Found at i:3430771 original size:26 final size:26
Alignment explanation
Indices: 3430741--3430791 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
3430731 GTTAACTTAG
3430741 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
3430767 GCATACAGAGTTCATTCCCAGTCTA
1 GCATACAGAGTTCATCCCCAGTCTA
3430792 GGATCGGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3431832 original size:30 final size:30
Alignment explanation
Indices: 3431796--3431857 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
3431786 CCCAACTTGC
* *
3431796 AGGCCAGCCCGTGAGACCAAAGCCTGGCAT
1 AGGCCAGCCAGTGAGACCAAAGCCTAGCAT
3431826 AGGCCAGCCAGTGAGACCAAAGCCTAGCAT
1 AGGCCAGCCAGTGAGACCAAAGCCTAGCAT
3431856 AG
1 AG
3431858 CATCCTGCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.29, T:0.10
Consensus pattern (30 bp):
AGGCCAGCCAGTGAGACCAAAGCCTAGCAT
Found at i:3432022 original size:45 final size:45
Alignment explanation
Indices: 3431929--3432036 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
3431919 CAGCATGTAT
* * * * *
3431929 CGATGGTGGTCGAGGCAACTTACCACACAAGGGGCCATCTTGTAC
1 CGATGGTGGTCGAGGCAACTCACCACACAAGGGCCCAGCCTATAC
* * *
3431974 CGATGGTGGTCGAGGCAAC-CACCCGCACCAGGGCCCAGCCTATGC
1 CGATGGTGGTCGAGGCAACTCA-CCACACAAGGGCCCAGCCTATAC
3432019 CGATGGTGGTCGAGGCAA
1 CGATGGTGGTCGAGGCAA
3432037 GTGCCCGTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (45 bp):
CGATGGTGGTCGAGGCAACTCACCACACAAGGGCCCAGCCTATAC
Found at i:3434147 original size:26 final size:26
Alignment explanation
Indices: 3434118--3434168 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3434108 TGATCCGATC
3434118 TTAGAC-TGGGAATGAACTCCGTATGG
1 TTAGACTTGGG-ATGAACTCCGTATGG
3434144 TTAGACTTGGGATGAACTCCGTATG
1 TTAGACTTGGGATGAACTCCGTATG
3434169 CCTAAGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
TTAGACTTGGGATGAACTCCGTATGG
Found at i:3434301 original size:196 final size:196
Alignment explanation
Indices: 3433948--3434324 Score: 456
Period size: 196 Copynumber: 1.9 Consensus size: 196
3433938 CGATTGGGGC
* *
3433948 TTAGACATGGAATAAACTCCGTATGCCTAAGCTAACCCATGAAACAAGCGTACGGGCACTCAGTC
1 TTAGACATGGAATAAACTCCGTATGCCTAAGCTAACCCACGAAACAAGCGTACGGGCACTCAGCC
* * * * * *
3434013 GGCCGAAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGATCCCCTCTGCGTGTTGTCGATCCTG
66 GGCCGAAGAGGCAGAATACACAAGTCAGGGATCGACCCGATACCCTCTACGTGTTGTCGATCCTA
** ** *
3434078 CTGTTGGTCCTGCTGTCGCAGCCCTTGG-TCTGATCCGATCTTAGACTGGGAATGAACTCCGTAT
131 CTGCAGGTCCTGCTACCGCAACCCTTGGTTC-GATCCGATCTTAGACTGGGAATGAACTCCGTAT
3434142 GG
195 GG
* * * ** *
3434144 TTAGACTTGGGATGAACTCCGTATGCCTAAG-TCAACCCACGAAATGAGCGTGCGGGCACTCAGC
1 TTAGACATGGAATAAACTCCGTATGCCTAAGCT-AACCCACGAAACAAGCGTACGGGCACTCAGC
* * **
3434208 CTGCC-AGAGAGGCAGGATACGTAAGTCAGGGATCGACCCGATACCCTCTACGTG-TGATCGATC
65 CGGCCGA-AGAGGCAGAATACACAAGTCAGGGATCGACCCGATACCCTCTACGTGTTG-TCGATC
* * *
3434271 CTACTGCAGGTCCTGCTACCGTAACCCTTGGTTCGGTCTGATCTTAGACTGGGA
128 CTACTGCAGGTCCTGCTACCGCAACCCTTGGTTCGATCCGATCTTAGACTGGGA
3434325 GTGCCTACGT
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
195 4 0.03
196 145 0.96
197 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (196 bp):
TTAGACATGGAATAAACTCCGTATGCCTAAGCTAACCCACGAAACAAGCGTACGGGCACTCAGCC
GGCCGAAGAGGCAGAATACACAAGTCAGGGATCGACCCGATACCCTCTACGTGTTGTCGATCCTA
CTGCAGGTCCTGCTACCGCAACCCTTGGTTCGATCCGATCTTAGACTGGGAATGAACTCCGTATG
G
Found at i:3435159 original size:45 final size:45
Alignment explanation
Indices: 3435098--3435255 Score: 144
Period size: 45 Copynumber: 3.5 Consensus size: 45
3435088 GTACGAGCAC
*
3435098 TTGCCTCGACCGCCATCGACACAGCTGGGCCCTGGTGCTGCG-GA
1 TTGCCTCGACCACCATCGACACAGCTGGGCCCTGGTGCTGCGTGA
* * *
3435142 TTGCCCTCGATCACCATCGACACATGC-CGGCCCTTGGTG-TGGGTGA
1 TTG-CCTCGACCACCATCGACACA-GCTGGGCCC-TGGTGCTGCGTGA
* * * * *
3435188 TTGCCTCGACCACCATCGACCCAAGATGGCCCCTGGTGC-GGGTGG
1 TTGCCTCGACCACCATCGACAC-AGCTGGGCCCTGGTGCTGCGTGA
* * *
3435233 TTGCATCGAACACCATCGGCACA
1 TTGCCTCGACCACCATCGACACA
3435256 TACTGGGTCA
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
44 4 0.04
45 72 0.77
46 17 0.18
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (45 bp):
TTGCCTCGACCACCATCGACACAGCTGGGCCCTGGTGCTGCGTGA
Found at i:3437195 original size:26 final size:26
Alignment explanation
Indices: 3437157--3437209 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3437147 CTGGCTCGAT
*
3437157 CTTAGACTTGGAATGAACTTCGTATG
1 CTTAGACTTGGAATGAACTCCGTATG
3437183 CTTAGA-TTGGGAATGAACTCCGTATG
1 CTTAGACTT-GGAATGAACTCCGTATG
3437209 C
1 C
3437210 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTAGACTTGGAATGAACTCCGTATG
Found at i:3437558 original size:25 final size:26
Alignment explanation
Indices: 3437513--3437564 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
3437503 GTGATCCGAT
*
3437513 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGAGAATGAACTCCATATG
*
3437539 CTTAGACTGAG-ATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCATATG
3437564 C
1 C
3437565 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCATATG
Found at i:3438635 original size:45 final size:44
Alignment explanation
Indices: 3438515--3438636 Score: 111
Period size: 45 Copynumber: 2.7 Consensus size: 44
3438505 GTTCTGCTAT
* * *
3438515 GGGCAGTTGCCTCGACCACCATCGGCACAAGATGGCCCCTAGTGC
1 GGGCAGTTGCCTCAACCACCATC-GCACATGCTGGCCCCTAGTGC
* ** * * * *
3438560 GGGCGGTTGTATCGAA-CACCATCGATACATGCTGGGCCGTGGTGC
1 GGGCAGTTGCCTC-AACCACCATCG-CACATGCTGGCCCCTAGTGC
3438605 GGGCAGTTGCCTCAACCACCATCAGCACATGC
1 GGGCAGTTGCCTCAACCACCATC-GCACATGC
3438637 CGAGCCTCGA
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
44 3 0.05
45 54 0.92
46 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (44 bp):
GGGCAGTTGCCTCAACCACCATCGCACATGCTGGCCCCTAGTGC
Found at i:3439124 original size:26 final size:26
Alignment explanation
Indices: 3439083--3439135 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3439073 CGGGTTCGAT
*
3439083 CTTAGACTTGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* *
3439109 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3439135 C
1 C
3439136 CAAGTCAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3439262 original size:195 final size:196
Alignment explanation
Indices: 3438912--3439289 Score: 485
Period size: 195 Copynumber: 1.9 Consensus size: 196
3438902 TCCGACTGGG
* * *
3438912 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTACGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGCGCTCAG
* * * * * *
3438977 TCGGTCGGAAGGGCAGAATGCGCAAGCCGGGGATCAGCTCGGTCCCCCCTGCGTGCTATCGATCC
66 CCGGCCAGAAGGGCAGAATACGCAAGCCGGGGATCACCTCGGTCCCCCCTACGTGCTATCGATCC
* * *
3439042 TGTTGCTAGTCCTACTACAATAACCCTC-GATCGGGTTCGATCTTAGACTTGGAATGAACTCCGT
131 CGTTGCTAGTCCTACTACAATAACCCTCAG-TCGGGCTCAATCTTAGACTTGGAATGAACTCCGT
3439106 AT
195 AT
* * *
3439108 GCTTAGAC-TGGGGATGAACTCTGTATGCC-AAGTCAACCCATGAAACGAGCGTACGGGCGCTCA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGCGCTCA
* * * * *
3439171 GCCGGCCAGAGGGGCAGAATACGTAAGTCGGGGATCGACCT-GGTCCCCTCTATGTGCTATCGAT
65 GCCGGCCAGAAGGGCAGAATACGCAAGCCGGGGATC-ACCTCGGTCCCCCCTACGTGCTATCGAT
* * * *
3439235 CCCGTTGCTGGTCCTGCTACCATAACCCTCAGTCTGGCTCAATCTTAGACTTGGA
129 CCCGTTGCTAGTCCTACTACAATAACCCTCAGTCGGGCTCAATCTTAGACTTGGA
3439290 GCACACTACG
Statistics
Matches: 155, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
195 126 0.81
196 29 0.19
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (196 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGCGCTCAG
CCGGCCAGAAGGGCAGAATACGCAAGCCGGGGATCACCTCGGTCCCCCCTACGTGCTATCGATCC
CGTTGCTAGTCCTACTACAATAACCCTCAGTCGGGCTCAATCTTAGACTTGGAATGAACTCCGTA
T
Found at i:3440129 original size:45 final size:44
Alignment explanation
Indices: 3440075--3440270 Score: 171
Period size: 45 Copynumber: 4.4 Consensus size: 44
3440065 CACTTACCTG
* * *
3440075 GACCGCCATCGGCATAAATTGGGCCCTGGTGTGGGCGGTTGCCTC
1 GACCACCATCGGCACAAA-TGGGCCCTGGTGCGGGCGGTTGCCTC
* * * * *
3440120 GATCACCATC-G-ACACATGCCGGCCTTTGGTGCGGGCGATTGCGTC
1 GACCACCATCGGCACAAATG--GGCC-CTGGTGCGGGCGGTTGCCTC
* *
3440165 GACCACCATCGGCACAAGATGGCCCCTGGTGCGGGCGGTTGCATC
1 GACCACCATCGGCACAA-ATGGGCCCTGGTGCGGGCGGTTGCCTC
* * * ** *
3440210 GAACACCATCGGCACATATTGGGCCGTGGTGCGACCAGTTGCCTC
1 GACCACCATCGGCACA-AATGGGCCCTGGTGCGGGCGGTTGCCTC
*
3440255 GACCACCATCAGCACA
1 GACCACCATCGGCACA
3440271 TGCCGAGCCC
Statistics
Matches: 120, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 5 0.04
45 99 0.82
46 5 0.04
47 3 0.03
48 3 0.03
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.19
Consensus pattern (44 bp):
GACCACCATCGGCACAAATGGGCCCTGGTGCGGGCGGTTGCCTC
Found at i:3440240 original size:90 final size:90
Alignment explanation
Indices: 3440075--3440270 Score: 209
Period size: 90 Copynumber: 2.2 Consensus size: 90
3440065 CACTTACCTG
* * * * * *
3440075 GACCGCCATCGGCATAAATTGGGCCCTGGTGTGGGCGGTTGCCTCGATCACCATCGACACATGCC
1 GACCACCATCGGCACAAATTGGCCCCTGGTGCGGGCGGTTGCATCGAACACCATCGACACATGCC
* ** *
3440140 GGCCTTTGGTGCGGGC-GATTGCGTC
66 GGCCTGTGGTGCGACCAG-TTGCCTC
* *
3440165 GACCACCATCGGCACAAGA-TGGCCCCTGGTGCGGGCGGTTGCATCGAACACCATCGGCACATAT
1 GACCACCATCGGCACAA-ATTGGCCCCTGGTGCGGGCGGTTGCATCGAACACCATCGACACAT-G
**
3440229 TGGGCC-GTGGTGCGACCAGTTGCCTC
64 CCGGCCTGTGGTGCGACCAGTTGCCTC
*
3440255 GACCACCATCAGCACA
1 GACCACCATCGGCACA
3440271 TGCCGAGCCC
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
90 82 0.93
91 6 0.07
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.19
Consensus pattern (90 bp):
GACCACCATCGGCACAAATTGGCCCCTGGTGCGGGCGGTTGCATCGAACACCATCGACACATGCC
GGCCTGTGGTGCGACCAGTTGCCTC
Found at i:3440768 original size:26 final size:26
Alignment explanation
Indices: 3440719--3440771 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3440709 TCGGTTCGAT
* *
3440719 CTTAGAATGGGAATGAACTTCGTATG
1 CTTAGAATGGGAATCAACTCCGTATG
* *
3440745 CTTAGACTGGGAATCATCTCCGTATG
1 CTTAGAATGGGAATCAACTCCGTATG
3440771 C
1 C
3440772 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGAATGGGAATCAACTCCGTATG
Found at i:3441973 original size:45 final size:45
Alignment explanation
Indices: 3441924--3442024 Score: 109
Period size: 45 Copynumber: 2.2 Consensus size: 45
3441914 ACCTCAACCG
* * *
3441924 CCATCGGCACAAGCTAT-G-CCTTGGTGCGGGCGATTGCCA-CGACCA
1 CCATCGGCACAAG--ATGGCCCCTGGTGCAGGCGATTG-CATCGAACA
* *
3441969 CCATCGGCATAAGATGGCCCCTGGTGCAGGCGGTTGCATCGAACA
1 CCATCGGCACAAGATGGCCCCTGGTGCAGGCGATTGCATCGAACA
3442014 CCATCGGCACA
1 CCATCGGCACA
3442025 TGCTGGGTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.04
44 3 0.06
45 42 0.89
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.17
Consensus pattern (45 bp):
CCATCGGCACAAGATGGCCCCTGGTGCAGGCGATTGCATCGAACA
Found at i:3444222 original size:26 final size:26
Alignment explanation
Indices: 3444191--3444243 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3444181 TCGGTATGAT
*
3444191 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3444217 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3444243 C
1 C
3444244 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3444588 original size:26 final size:26
Alignment explanation
Indices: 3444547--3444599 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
3444537 TCGGTCTGAT
3444547 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3444573 CTTAGACTAGGG-ATGAACTCCGTATG
1 CTTAGACT-GGGAATGAACTCCGTATG
3444599 C
1 C
3444600 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3445621 original size:45 final size:45
Alignment explanation
Indices: 3445572--3445717 Score: 143
Period size: 45 Copynumber: 3.2 Consensus size: 45
3445562 ACCTGAACCG
* *
3445572 CCATCGGCACAAG-TGGGGCCCTAGTGCGGGTGGTTGCCTCGACCA
1 CCATCGGCACAAGAT-GGGCCCTGGTGCGGGCGGTTGCCTCGACCA
* * * * *
3445617 CCATCAGCATAAGAT-GGCTCTTGGTGCGGGCGGTTGCATCGAACA
1 CCATCGGCACAAGATGGGC-CCTGGTGCGGGCGGTTGCCTCGACCA
* * * * * *
3445662 CCATTGGTACATGCTGGGCCGTGGTGCAGGCGGTTGCCTCGACCA
1 CCATCGGCACAAGATGGGCCCTGGTGCGGGCGGTTGCCTCGACCA
3445707 CCATCGGCACA
1 CCATCGGCACA
3445718 TTCTAAGGCC
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
44 3 0.04
45 72 0.91
46 4 0.05
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (45 bp):
CCATCGGCACAAGATGGGCCCTGGTGCGGGCGGTTGCCTCGACCA
Found at i:3446198 original size:26 final size:26
Alignment explanation
Indices: 3446162--3446212 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3446152 GATCCGATCC
*
3446162 TAGACTGGGAATGAACTTCGTATGCT
1 TAGACTGGGAATGAACTCCGTATGCT
*
3446188 TAGATTGGGAATGAACTCCGTATGC
1 TAGACTGGGAATGAACTCCGTATGC
3446213 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
TAGACTGGGAATGAACTCCGTATGCT
Found at i:3446561 original size:26 final size:27
Alignment explanation
Indices: 3446516--3446569 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3446506 CCTGTCCCAT
*
3446516 CTTAGACTTGGGAATAAACTCCTTATG
1 CTTAGACTTGGGAATAAACTCCGTATG
* *
3446543 CTTAGAC-TGGGGATGAACTCCGTATG
1 CTTAGACTTGGGAATAAACTCCGTATG
3446569 C
1 C
3446570 CTAAGTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (27 bp):
CTTAGACTTGGGAATAAACTCCGTATG
Found at i:3447452 original size:13 final size:13
Alignment explanation
Indices: 3447434--3447458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3447424 CAATGGCACA
3447434 TGATGGCACATGG
1 TGATGGCACATGG
3447447 TGATGGCACATG
1 TGATGGCACATG
3447459 CATCGACCAT
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:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:3447585 original size:90 final size:90
Alignment explanation
Indices: 3447491--3447658 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 90
3447481 CTGCCCTTTG
* * * * * * * *
3447491 GTACGGGCATTTACCTCGACCTCCATCGGCAGAAGCTGGGCCC-TGGTGCTGGCGGCTGCCTCGA
1 GTACGGGCATTTACCTCAACCACCATCAGCACAAGAT-GGCCCTTGGTGCGGGCGACTGCATCGA
*
3447555 TCACCATCGGCACAAGCCGACCCTTC
65 ACACCATCGGCACAAGCCGACCCTTC
* * * *
3447581 GTACGGGCGTTTGCCTTAACCACCATCAGCACAAGATGGCCCTTGGTGCGGGCGATTGCATCGAA
1 GTACGGGCATTTACCTCAACCACCATCAGCACAAGATGGCCCTTGGTGCGGGCGACTGCATCGAA
3447646 CACCATCGGCACA
66 CACCATCGGCACA
3447659 TGCTGGGCCG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
89 5 0.08
90 59 0.92
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.19
Consensus pattern (90 bp):
GTACGGGCATTTACCTCAACCACCATCAGCACAAGATGGCCCTTGGTGCGGGCGACTGCATCGAA
CACCATCGGCACAAGCCGACCCTTC
Found at i:3447596 original size:45 final size:45
Alignment explanation
Indices: 3447547--3447658 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
3447537 TGCTGGCGGC
* * *
3447547 TGCCTCGATCACCATCGGCACAAGCCGACCCTTCGTACGGGCGTT
1 TGCCTCGAACACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
* * * * * *
3447592 TGCCT-TAACCACCATCAGCACAAGATGGCCCTTGGTGCGGGCGAT
1 TGCCTCGAA-CACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
*
3447637 TGCATCGAACACCATCGGCACA
1 TGCCTCGAACACCATCGGCACA
3447659 TGCTGGGCCG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
44 1 0.02
45 50 0.94
46 2 0.04
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.19
Consensus pattern (45 bp):
TGCCTCGAACACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
Found at i:3447673 original size:45 final size:45
Alignment explanation
Indices: 3447601--3447705 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
3447591 TTGCCTTAAC
* * *
3447601 CACCATCAGCACAAGATGGCCCTTGGTGCGGGCGATTGCATCGAA
1 CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTGCATCGAA
* * * * * *
3447646 CACCATCGGCACATGCTGGGCCGTGGTGTGGGCGGTTGCCTCGAC
1 CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTGCATCGAA
*
3447691 CACCATCGTCACATG
1 CACCATCGGCACATG
3447706 TCGAGCCTCG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.19
Consensus pattern (45 bp):
CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTGCATCGAA
Found at i:3448182 original size:26 final size:26
Alignment explanation
Indices: 3448146--3448198 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3448136 CCGATTCGAT
3448146 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
3448172 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3448198 C
1 C
3448199 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3454212 original size:26 final size:26
Alignment explanation
Indices: 3454171--3454223 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3454161 CCGGTCCAAT
*
3454171 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3454197 CTTAGACTGAGG-ATGAACTCCGTATG
1 CTTAGACTG-GGAATGAACTCCGTATG
3454223 C
1 C
3454224 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3454709 original size:26 final size:26
Alignment explanation
Indices: 3454679--3454729 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3454669 GGTATGATCC
* *
3454679 TAGACTGGGAATGAACTCTGTATGCT
1 TAGACTGGGAATAAACTCCGTATGCT
3454705 TAGACTGGGAATAAACTCCGTATGC
1 TAGACTGGGAATAAACTCCGTATGC
3454730 CTAATTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (26 bp):
TAGACTGGGAATAAACTCCGTATGCT
Found at i:3454906 original size:158 final size:157
Alignment explanation
Indices: 3454702--3454994 Score: 349
Period size: 158 Copynumber: 1.9 Consensus size: 157
3454692 AACTCTGTAT
* ** * *
3454702 GCTTAGACTGGGAATAAACTCCGTATGCCTAATTCAACCCATGAAACAAGCGTGCGGGCACTGAG
1 GCTTAGACTGGGAATAAACTCCATATGCCTAAGCCAAACCATGAAACAAGCGTACGGGCACTGAG
* * * * * *
3454767 CCGATCGGAGAGGCATAATGCGCAAG-CTGGGGATC-AGCCCGATCCCCCTCTGCGTGCTGTCGG
66 CCGACCGGAGAGGCAGAATAC-CAAGTC-AGGGATCGA-CCCGATCCCCCT-TGCGTGCGGTCGA
3454830 TCCCACTGCCACAACCCTCGATCTGGTTGGG
127 TCCCACTGCCACAACCCTCGATCTGGTTGGG
* * * * ** *
3454861 GCTTAGACT-GGAATGAACTCCATGTGCCTAAGCCAAACCATGAAACGAGCGTATGGGGGCTTAG
1 GCTTAGACTGGGAATAAACTCCATATGCCTAAGCCAAACCATGAAACAAGCGTACGGGCACTGAG
*
3454925 CCGACCGGAGAGGCAGAATACCAAGTCAGGGATCGACCCGGTCCCCCTTGCGTGCGGTCGATCCC
66 CCGACCGGAGAGGCAGAATACCAAGTCAGGGATCGACCCGATCCCCCTTGCGTGCGGTCGATCCC
*
3454990 GCTGC
131 ACTGC
3454995 TGGTCTTGTT
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
156 19 0.17
157 21 0.19
158 63 0.56
159 9 0.08
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (157 bp):
GCTTAGACTGGGAATAAACTCCATATGCCTAAGCCAAACCATGAAACAAGCGTACGGGCACTGAG
CCGACCGGAGAGGCAGAATACCAAGTCAGGGATCGACCCGATCCCCCTTGCGTGCGGTCGATCCC
ACTGCCACAACCCTCGATCTGGTTGGG
Found at i:3455066 original size:26 final size:26
Alignment explanation
Indices: 3455030--3455082 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3455020 CCGATCCGAT
3455030 CTTAGACTGGGAATGAACT-TCGTATG
1 CTTAGACTGGGAATGAACTCT-GTATG
*
3455056 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
3455082 C
1 C
3455083 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:3456522 original size:26 final size:26
Alignment explanation
Indices: 3456481--3456533 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3456471 CCATTCTGAT
*
3456481 CTTAGACTAGGAATGAACTTCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
3456507 CTTAGACT-GGAGATGAACTCCGTATG
1 CTTAGACTAGGA-ATGAACTCCGTATG
3456533 C
1 C
3456534 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:3457215 original size:45 final size:45
Alignment explanation
Indices: 3457125--3457282 Score: 129
Period size: 45 Copynumber: 3.5 Consensus size: 45
3457115 GTACGAGCAC
* * * * * *
3457125 TTGCCTCGACCGCCATTGACACAAGCTGGGCCCTGGTG-TGAGTGG
1 TTGCATCGACCACCATCGGCACAAGATGGGCCCTGGTGCAG-GTGG
** *
3457170 TTGTGTCGACCACCATCGGCACAAGATGGCCCCTGGTGCAGGTGG
1 TTGCATCGACCACCATCGGCACAAGATGGGCCCTGGTGCAGGTGG
* * * * ** * * *
3457215 TTGCATCGAACACAATCGGCACATGTTGGGCAGTGGTGCGGGCGA
1 TTGCATCGACCACCATCGGCACAAGATGGGCCCTGGTGCAGGTGG
*
3457260 TTGCCTCGACCACCATCGGCACA
1 TTGCATCGACCACCATCGGCACA
3457283 TGACGAGCCC
Statistics
Matches: 89, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
45 88 0.99
46 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.20
Consensus pattern (45 bp):
TTGCATCGACCACCATCGGCACAAGATGGGCCCTGGTGCAGGTGG
Found at i:3457774 original size:26 final size:26
Alignment explanation
Indices: 3457724--3457776 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3457714 CCGGTCTGAT
*
3457724 CTTAGACTGGGAATGAACTATGTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
3457750 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTACGTATG
3457776 C
1 C
3457777 CTAATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:3458116 original size:26 final size:26
Alignment explanation
Indices: 3458080--3458132 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3458070 CTGATCTAAT
*
3458080 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
*
3458106 CTTAGACTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
3458132 C
1 C
3458133 CTAAGTCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:3458961 original size:26 final size:26
Alignment explanation
Indices: 3458925--3458977 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3458915 CCGATCCGAT
* *
3458925 CTTAGATTGGGAATGAACTCTGTATG
1 CTTAGAATGGGAATGAACTCCGTATG
*
3458951 CTTAGAATGGGGATGAACTCCGTATG
1 CTTAGAATGGGAATGAACTCCGTATG
3458977 C
1 C
3458978 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGAATGGGAATGAACTCCGTATG
Found at i:3460393 original size:26 final size:26
Alignment explanation
Indices: 3460342--3460394 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3460332 CCGGTCTAAT
*
3460342 CTTAGACTGGGAATGAACTCTTTATG
1 CTTAGACTGGGAATGAACTCTGTATG
*
3460368 CTTAGACTGGGGATGAACT-TCGTATG
1 CTTAGACTGGGAATGAACTCT-GTATG
3460394 C
1 C
3460395 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:3461122 original size:16 final size:15
Alignment explanation
Indices: 3461098--3461131 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3461088 CGCACACACC
*
3461098 CCGGCACCCCTAATCG
1 CCGGAACCCCTAAT-G
3461114 CCGGAACCCCTAATG
1 CCGGAACCCCTAATG
3461129 CCG
1 CCG
3461132 CCAGTTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (15 bp):
CCGGAACCCCTAATG
Found at i:3461795 original size:26 final size:26
Alignment explanation
Indices: 3461766--3461818 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3461756 TCGATCTGAT
* * *
3461766 CTTAGACTGGGAATTAACTCTGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3461792 CTTAGACTGAGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3461818 C
1 C
3461819 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:3462150 original size:26 final size:26
Alignment explanation
Indices: 3462121--3462173 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3462111 CCGGTCTGAT
*
3462121 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
3462147 CTTAGACTGGGGATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
3462173 C
1 C
3462174 CTAAATCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:3463175 original size:44 final size:45
Alignment explanation
Indices: 3463115--3463271 Score: 172
Period size: 45 Copynumber: 3.5 Consensus size: 45
3463105 GTACAGGCAC
* * * *
3463115 TTGCCTCGATCGCCATCGGCACAAGATGGGCCCTGGTGCGGGC-G
1 TTGCCTCGACCACCATCAGCACAAGATGGGCCCTGGTGCGAGCAG
* * *
3463159 GTGCCTCGACCACCATCAGCACAAGATGGCCCCTGGTACGAGCAG
1 TTGCCTCGACCACCATCAGCACAAGATGGGCCCTGGTGCGAGCAG
* * * * * * *
3463204 TTGCATCGAACACCATCAGCACATGCTGGGTCGTGGTGCGAGCAT
1 TTGCCTCGACCACCATCAGCACAAGATGGGCCCTGGTGCGAGCAG
*
3463249 TTGCCTCGACCACCATCGGCACA
1 TTGCCTCGACCACCATCAGCACA
3463272 TGCAGAGCAC
Statistics
Matches: 92, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 36 0.39
45 56 0.61
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.18
Consensus pattern (45 bp):
TTGCCTCGACCACCATCAGCACAAGATGGGCCCTGGTGCGAGCAG
Found at i:3463196 original size:89 final size:90
Alignment explanation
Indices: 3463103--3463271 Score: 198
Period size: 89 Copynumber: 1.9 Consensus size: 90
3463093 GGCTACCTAT
* * * * *
3463103 TGGTAC-AGGCACTTGCCTCGATCGCCATCGGCACAAGATGGGCCCTGGTGCGGGC-GGTGCCTC
1 TGGTACGA-GCACTTGCATCGAACACCATCAGCACAAGATGGGCCCTGGTGCGAGCAGGTGCCTC
3463166 GACCACCATCAGCACAAGATGGCCCC
65 GACCACCATCAGCACAAGATGGCCCC
* * * * * **
3463192 TGGTACGAGCAGTTGCATCGAACACCATCAGCACATGCTGGGTCGTGGTGCGAGCATTTGCCTCG
1 TGGTACGAGCACTTGCATCGAACACCATCAGCACAAGATGGGCCCTGGTGCGAGCAGGTGCCTCG
*
3463257 ACCACCATCGGCACA
66 ACCACCATCAGCACA
3463272 TGCAGAGCAC
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
89 43 0.66
90 22 0.34
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.18
Consensus pattern (90 bp):
TGGTACGAGCACTTGCATCGAACACCATCAGCACAAGATGGGCCCTGGTGCGAGCAGGTGCCTCG
ACCACCATCAGCACAAGATGGCCCC
Found at i:3463596 original size:26 final size:26
Alignment explanation
Indices: 3463545--3463597 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3463535 CCGGTCTGAT
*
3463545 CTTAGACTGGGAATGAACTTCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
3463571 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
3463597 C
1 C
3463598 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:3463826 original size:159 final size:159
Alignment explanation
Indices: 3463570--3463880 Score: 391
Period size: 159 Copynumber: 2.0 Consensus size: 159
3463560 AACTTCATAT
* *
3463570 GCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGAATGCGGGCGTCGAG
1 GCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGAATGCGGGCGTCGAA
** * * * * *
3463635 CCGATTGGAGAGGCATAATGCGCATGCTGGGGATCGA-CTCGATCCCC-CTCTGTATGCTGTCGG
66 CCGACCGAAGAGGCAGAATGCGCAAGCTGGGGATCGACCT-GATCCCCTC-CTGCATGCTGTCGA
3463698 T-CTCGCTACCGCAACCCTCGGTCCGGCTGGG
129 TCCT-GCTACCGCAACCCTCGGTCCGGCTGGG
**
3463729 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTC-
1 GCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGAATGCGGGCG-TCG
* * *
3463792 AACCGACCGAAGAGGCAGAATGCGTAAG-TCGGGGATCGACCTGGTCCCCTCCTGCGTGCTGTCG
64 AACCGACCGAAGAGGCAGAATGCGCAAGCT-GGGGATCGACCTGATCCCCTCCTGCATGCTGTCG
*
3463856 ATCCTGCTGCCGCAACCCTCGGTCC
128 ATCCTGCTACCGCAACCCTCGGTCC
3463881 ACTCCCATCT
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
158 1 0.01
159 122 0.93
160 8 0.06
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.19
Consensus pattern (159 bp):
GCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGAATGCGGGCGTCGAA
CCGACCGAAGAGGCAGAATGCGCAAGCTGGGGATCGACCTGATCCCCTCCTGCATGCTGTCGATC
CTGCTACCGCAACCCTCGGTCCGGCTGGG
Found at i:3463939 original size:26 final size:26
Alignment explanation
Indices: 3463889--3463940 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3463879 CCACTCCCAT
* **
3463889 CTTAGATTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
3463915 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3463941 GTTAAGTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3464086 original size:26 final size:26
Alignment explanation
Indices: 3464050--3464102 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3464040 TCGGTTCAAT
*
3464050 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3464076 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3464102 C
1 C
3464103 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3465022 original size:45 final size:44
Alignment explanation
Indices: 3464850--3465019 Score: 133
Period size: 45 Copynumber: 3.8 Consensus size: 44
3464840 GGCTGCCCTT
* * * * *
3464850 TGGTACGGGCATTTGCCTCAACCGCCATTGGCACAAGCTGGGCC
1 TGGTGCGGGCAGTTGCCTCGACCACCATCGGCACAAGCTGGGCC
* * * * * *
3464894 TTGGTGCGGGTAGTTGCCTAGACCACTATCGGTACAAGATGGCCCC
1 -TGGTGCGGGCAGTTGCCTCGACCACCATCGGCACAAGCTGG-GCC
* * * * * *
3464940 TGGTGCAGGCGGTTGCATCGAACACCATTGGCACATGCTGGGTCC
1 TGGTGCGGGCAGTTGCCTCGACCACCATCGGCACAAGCTGGG-CC
* * *
3464985 TGGAGTGGGCAGTTGCCTCGACCACTATCGGCACA
1 TGGTGCGGGCAGTTGCCTCGACCACCATCGGCACA
3465020 TGCCGAGCCT
Statistics
Matches: 92, Mismatches: 31, Indels: 4
0.72 0.24 0.03
Matches are distributed among these distances:
45 90 0.98
46 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (44 bp):
TGGTGCGGGCAGTTGCCTCGACCACCATCGGCACAAGCTGGGCC
Found at i:3465342 original size:26 final size:26
Alignment explanation
Indices: 3465303--3465355 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3465293 CCAATCTGAT
*
3465303 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3465329 CTTAGACTGAGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3465355 C
1 C
3465356 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:3465703 original size:25 final size:26
Alignment explanation
Indices: 3465657--3465708 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
3465647 CCGGTCTGGT
*
3465657 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACAGGGAATGAACTCCGTATG
3465683 CTTAGACAGGG-ATGAACTCCGTATG
1 CTTAGACAGGGAATGAACTCCGTATG
3465708 C
1 C
3465709 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (26 bp):
CTTAGACAGGGAATGAACTCCGTATG
Found at i:3466716 original size:44 final size:45
Alignment explanation
Indices: 3466638--3466761 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 45
3466628 GGCTGCCCTT
** * * * * *
3466638 TGGTACGGGCACTTACCTCGACCGCCCTCGGCACAAGATGGGCCC
1 TGGTACGGGCAGGTGCCTCGACCACCATCAGCACAAGATGGCCCC
*
3466683 TGGTGCGGGC-GGTGCCTCGACCACCATCAGCACAAGATGGCCCC
1 TGGTACGGGCAGGTGCCTCGACCACCATCAGCACAAGATGGCCCC
* * * *
3466727 TGGTACGGGCAGTTGCATCGAACACCATCAACACA
1 TGGTACGGGCAGGTGCCTCGACCACCATCAGCACA
3466762 TGCTGGGTCG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 36 0.55
45 29 0.45
ACGTcount: A:0.22, C:0.35, G:0.28, T:0.15
Consensus pattern (45 bp):
TGGTACGGGCAGGTGCCTCGACCACCATCAGCACAAGATGGCCCC
Found at i:3467120 original size:26 final size:26
Alignment explanation
Indices: 3467080--3467132 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3467070 CCGGTCCGAT
* *
3467080 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGAAATGAACTCCGTATG
3467106 CTTAGACTGGAAATGAACTCCGTATG
1 CTTAGACTGGAAATGAACTCCGTATG
3467132 C
1 C
3467133 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGAAATGAACTCCGTATG
Found at i:3467633 original size:26 final size:26
Alignment explanation
Indices: 3467597--3467649 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3467587 CCGGTTCAAA
*
3467597 CTTAGATTGGGAATGAACTCCGCATG
1 CTTAGACTGGGAATGAACTCCGCATG
*
3467623 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGCATG
3467649 C
1 C
3467650 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGCATG
Found at i:3468021 original size:516 final size:517
Alignment explanation
Indices: 3467043--3468027 Score: 1332
Period size: 516 Copynumber: 1.9 Consensus size: 517
3467033 AGAATGTGTA
* * * * * * *
3467043 AGCCCGGTCCCTTTCTGTATGCTGTTGCCGGTCCGATCTTAGACTGGGAATGAACTTCGTATGCT
1 AGCCCGGTCCCTCTCTGCATGCTGCTGCCGGTCCAAACTTAGACTGGGAATGAACTCCGCATGCT
* * *
3467108 TAGACTGGAAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCATACGGGCATTAAGCCG
66 TAGACTGGAAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCATACGGGCACTAAGCAG
* * ** * * * * * * *
3467173 ATCGGAGAGGTATAATGCGCAAGCTGGGGATCGATCTGATCACCCTCTGTGTGCTCTCAGTCCCG
131 ACCGGAGAGGCATAACACACAAGCCGAGGATCGATCGGATCACCCTCTGTATGCTATCAGTCCCA
** *
3467238 CTGCTGCAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACC
196 CTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACC
* * * * *
3467303 CACGAAATGAGCGTGCGGGTGCTCAACCGATCAGAGAGGCAGAATGCGTAAGTTGGGGATCGACC
261 CACGAAACGAGCGTACGGGGGCTCAACCGATCAGAAAGGCAGAATGCGTAAGCTGGGGATCGACC
* *
3467368 CGATCCCCTCCTGCGTGCTGTCGATCCTGCTGCTGGTCCTGCTGCCACAACCCTCAGTCCGGTCC
326 CGATCCCCTCCTACGTGCTGTCGATCCTGCTGCTGGTCCTGCTACCACAACCCTCAGTCCGGTCC
* *** * *
3467433 CATCATAGACTGTGAATAAACTTTGTATGCTTAGACTGGGGATGAACTCCGTATGGCTAAGTCAA
391 CATCATAGACTGGGAATAAACTCCATATGCTTAGACTGGGGATGAACTCCGTATGCCTAAATCAA
3467498 CCCACGAAACGAGCGTGAGGGCACTCAGCCACCAGAGAGGCAGGATGCGTAAGTCGAGGATC
456 CCCACGAAACGAGCGTGAGGGCACTCAGCCACCAGAGAGGCAGGATGCGTAAGTCGAGGATC
* * * *
3467560 AGCCTGGTCCCTCTCTGCGTGCTGCTGCCGGTTCAAACTTAGATTGGGAATGAACTCCGCATGCT
1 AGCCCGGTCCCTCTCTGCATGCTGCTGCCGGTCCAAACTTAGACTGGGAATGAACTCCGCATGCT
* ** * *
3467625 TAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGTGTGCGGGCGCTAAGCAG
66 TAGACTGGAAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCATACGGGCACTAAGCAG
* * * *
3467690 GCCGGAGAGGCATAACACACAAGCCGAGGATTGGCTCGGA-C-CCCTTTTGTATGCTATC-GATC
131 ACCGGAGAGGCATAACACACAAGCCGAGGA-TCGATCGGATCACCC-TCTGTATGCTATCAG-TC
3467752 CCACTGCCACAACCCTCGGT-CGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCA
193 CCACTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCA
* * *
3467816 ACCCACGAAACGAGCGTACGGGGGCTCAGCCG-TCTGAAAAGGTAGAATGCGTAAGCTGGGGATC
258 ACCCACGAAACGAGCGTACGGGGGCTCAACCGATCAG-AAAGGCAGAATGCGTAAGCTGGGGATC
* **
3467880 GACCCGATCCCCTCCTACGTGCTGTCGATCCTGGTGCTGGTCCTGCTACCGTAACCCTCAGTCCG
322 GACCCGATCCCCTCCTACGTGCTGTCGATCCTGCTGCTGGTCCTGCTACCACAACCCTCAGTCCG
** * * * *
3467945 GTCTGATCTTGGACTGGGAATGAACTCCATATGCTTAGACTGGGGATGAACTCTGTATGCCTAAA
387 GTCCCATCATAGACTGGGAATAAACTCCATATGCTTAGACTGGGGATGAACTCCGTATGCCTAAA
*
3468010 TCAACCCACGAAATGAGC
452 TCAACCCACGAAACGAGC
3468028 ACACGGGTGC
Statistics
Matches: 401, Mismatches: 63, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
515 3 0.01
516 229 0.57
517 163 0.41
518 6 0.01
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.22
Consensus pattern (517 bp):
AGCCCGGTCCCTCTCTGCATGCTGCTGCCGGTCCAAACTTAGACTGGGAATGAACTCCGCATGCT
TAGACTGGAAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCATACGGGCACTAAGCAG
ACCGGAGAGGCATAACACACAAGCCGAGGATCGATCGGATCACCCTCTGTATGCTATCAGTCCCA
CTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACC
CACGAAACGAGCGTACGGGGGCTCAACCGATCAGAAAGGCAGAATGCGTAAGCTGGGGATCGACC
CGATCCCCTCCTACGTGCTGTCGATCCTGCTGCTGGTCCTGCTACCACAACCCTCAGTCCGGTCC
CATCATAGACTGGGAATAAACTCCATATGCTTAGACTGGGGATGAACTCCGTATGCCTAAATCAA
CCCACGAAACGAGCGTGAGGGCACTCAGCCACCAGAGAGGCAGGATGCGTAAGTCGAGGATC
Found at i:3468135 original size:197 final size:197
Alignment explanation
Indices: 3467780--3468160 Score: 453
Period size: 197 Copynumber: 1.9 Consensus size: 197
3467770 GTCGGCTGGG
* **
3467780 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTACGGGGGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCACACGGGGGCTCAG
* * * * *
3467845 CCGTCTGAAAAGGTAGAATGCGTAAGCTGGGGATCGACCCGATCCCCTCCTACGTGCTGTCGATC
66 CCGGCTGAAAAGGCAGAATGCGTAAACTGGGGATCGACCCGATCCCCTCCTACGTGCTGCCAATC
* * * * * * ** *
3467910 CTGGTGCTGGTCCTGCTACCGTAACCCTCAGTCCGGTCTGATCTTGGACTGGGAATGAACTCCAT
131 CCGCTACGGGTCCTGCTACCGCAACCCTCAGTCCAGTCCAATCTTAGACTGGGAATGAACTCCAT
3467975 AT
196 AT
* * * * *
3467977 GCTTAGAC-TGGGGATGAACTCTGTATGCCTAAATCAACCCACGAAATGAGCACACGGGTGCTCA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCACACGGGGGCTCA
* * * * *
3468041 GTCGGCT-AGAGAGGCAGGATGCGTAAACTGGGGATCGACCCGAT-CCTTTCTACGTGCTGCCAA
65 GCCGGCTGA-AAAGGCAGAATGCGTAAACTGGGGATCGACCCGATCCCCTCCTACGTGCTGCCAA
* *
3468104 TCCCGCTACGGGTCCTAGGTGCCGCAACCCTCAGTCCAGTCCAATCTTAGACTGGGA
129 TCCCGCTACGGGTCCT-GCTACCGCAACCCTCAGTCCAGTCCAATCTTAGACTGGGA
3468161 GCCCACTACG
Statistics
Matches: 152, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
196 29 0.19
197 123 0.81
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.21
Consensus pattern (197 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAACCAACCCACGAAACGAGCACACGGGGGCTCAG
CCGGCTGAAAAGGCAGAATGCGTAAACTGGGGATCGACCCGATCCCCTCCTACGTGCTGCCAATC
CCGCTACGGGTCCTGCTACCGCAACCCTCAGTCCAGTCCAATCTTAGACTGGGAATGAACTCCAT
AT
Found at i:3468889 original size:13 final size:13
Alignment explanation
Indices: 3468871--3468895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3468861 TAATGCCATA
3468871 TGATGGCACATGG
1 TGATGGCACATGG
3468884 TGATGGCACATG
1 TGATGGCACATG
3468896 CATCGACCAT
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:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:3469522 original size:26 final size:26
Alignment explanation
Indices: 3469493--3469565 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
3469483 TCGATCCGAT
3469493 CTTAGACTTGGAATGAACTCCGTATG
1 CTTAGACTTGGAATGAACTCCGTATG
3469519 CTTAGA-TTGGGAATGAACTCCGTATG
1 CTTAGACTT-GGAATGAACTCCGTATG
* * *
3469545 CATAGACTGGGAATAAACTCC
1 CTTAGACTTGGAATGAACTCC
3469566 ACGAAATGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 2 0.05
26 39 0.93
27 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTAGACTTGGAATGAACTCCGTATG
Found at i:3469892 original size:26 final size:26
Alignment explanation
Indices: 3469856--3469908 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3469846 CCGGTCCCAT
3469856 CTTAGACTGGGAATGAACTCTGCATG
1 CTTAGACTGGGAATGAACTCTGCATG
* *
3469882 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGCATG
3469908 C
1 C
3469909 CCAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGCATG
Found at i:3471536 original size:26 final size:26
Alignment explanation
Indices: 3471498--3471550 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3471488 CCGGTCTGAT
*
3471498 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
*
3471524 CTTAGACTAGGAATGAACTTCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
3471550 C
1 C
3471551 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:3471890 original size:26 final size:26
Alignment explanation
Indices: 3471854--3471905 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
3471844 CTGGTCTGAT
3471854 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* * *
3471880 CTTAGATTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
3471906 ACTAAGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:3472812 original size:13 final size:13
Alignment explanation
Indices: 3472794--3472818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3472784 CAATGGCGAA
3472794 TGATGGCACATGG
1 TGATGGCACATGG
3472807 TGATGGCACATG
1 TGATGGCACATG
3472819 CATCGACCAT
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:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:3472898 original size:45 final size:45
Alignment explanation
Indices: 3472821--3473059 Score: 216
Period size: 45 Copynumber: 5.3 Consensus size: 45
3472811 GGCACATGCA
* * *
3472821 TCGACCATCATCGGCACAGGCT-GCCCTTTGGTACGGGCACTTGCC
1 TCGACCACCATCGGCACAAGCTGGCCC-TTGGTACGGGCAGTTGCC
**
3472866 TCGACCACCATCGGCACAAGCTGGGCCC-TGGTACGGGTGGTTGCC
1 TCGACCACCATCGGCACAAGCT-GGCCCTTGGTACGGGCAGTTGCC
* * * * * *
3472911 TAGATCACCATTGACACATGCTGGCCCTTGGTGA-GGG-TGATTGCC
1 TCGACCACCATCGGCACAAGCTGGCCCTTGGT-ACGGGCAG-TTGCC
** * * **
3472956 TCGACCACCATCGGCACAAAATGGCCCTTGGTGCGGGCGGTTGTA
1 TCGACCACCATCGGCACAAGCTGGCCCTTGGTACGGGCAGTTGCC
* * * * *
3473001 TCGAACACCATCGGCACATGCTGGGCCATGGTGCGGGCAGTTGCC
1 TCGACCACCATCGGCACAAGCTGGCCCTTGGTACGGGCAGTTGCC
3473046 TCGACCACCATCGG
1 TCGACCACCATCGG
3473060 TACGTGCCGA
Statistics
Matches: 155, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
44 6 0.04
45 143 0.92
46 2 0.01
47 4 0.03
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.21
Consensus pattern (45 bp):
TCGACCACCATCGGCACAAGCTGGCCCTTGGTACGGGCAGTTGCC
Found at i:3472955 original size:90 final size:90
Alignment explanation
Indices: 3472855--3473059 Score: 243
Period size: 90 Copynumber: 2.3 Consensus size: 90
3472845 CCTTTGGTAC
* ** * * *
3472855 GGGCACTTGCCTCGACCACCATCGGCACAAGCTGGGCCC-TGGTACGGGTGGTTGCCTAGATCAC
1 GGGCAGTTGCCTCGACCACCATCGGCACAAAAT-GGCCCTTGGTACGGGCGGTTGCATAGAACAC
* *
3472919 CATTGACACATGCTGGCCCTTGGTGA
65 CATCGACACATGCTGGCCCATGGTGA
* * * *
3472945 GGG-TGATTGCCTCGACCACCATCGGCACAAAATGGCCCTTGGTGCGGGCGGTTGTATCGAACAC
1 GGGCAG-TTGCCTCGACCACCATCGGCACAAAATGGCCCTTGGTACGGGCGGTTGCATAGAACAC
* * *
3473009 CATCGGCACATGCTGGGCCATGGTGC
65 CATCGACACATGCTGGCCCATGGTGA
3473035 GGGCAGTTGCCTCGACCACCATCGG
1 GGGCAGTTGCCTCGACCACCATCGG
3473060 TACGTGCCGA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
89 5 0.05
90 90 0.94
91 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (90 bp):
GGGCAGTTGCCTCGACCACCATCGGCACAAAATGGCCCTTGGTACGGGCGGTTGCATAGAACACC
ATCGACACATGCTGGCCCATGGTGA
Found at i:3473736 original size:26 final size:26
Alignment explanation
Indices: 3473700--3473752 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3473690 CCAGTCTGAT
*
3473700 CTTATACTGGGAATGAACTCCGTATG
1 CTTAAACTGGGAATGAACTCCGTATG
*
3473726 CTTAAACTGGGGATGAACTCCGTATG
1 CTTAAACTGGGAATGAACTCCGTATG
3473752 C
1 C
3473753 CTAAGTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAAACTGGGAATGAACTCCGTATG
Found at i:3475772 original size:90 final size:89
Alignment explanation
Indices: 3475670--3475869 Score: 211
Period size: 90 Copynumber: 2.2 Consensus size: 89
3475660 ACATGCATCC
* * * * * * *
3475670 ACCATCATCGGCACAGGCTGCCCTTTGGTAAGGGCACTTGCCTCGACCGCCATTGGCACAAGCTG
1 ACCACCATCGGCACAAGCTGCCC-CTGGTAAGGGCACTTGCATCGAACACCATCGGCACAAGCTG
* * *
3475735 GGCCGTGGTGCAAGCGGTTGGCTTG
65 GGCCATGGTGCAAGCAGTTGCCTTG
* ** ** * *
3475760 ACCACCATCGGCACAAGATGGCCCCTGGTGCGGGCGGTTGCATTGAACACCATCGGCACATGCTG
1 ACCACCATCGGCACAAGCT-GCCCCTGGTAAGGGCACTTGCATCGAACACCATCGGCACAAGCTG
**
3475825 GGCCATGGTGCGGGCAGTTGCCTTG
65 GGCCATGGTGCAAGCAGTTGCCTTG
3475850 ACCACCATCGGCACAAGCTG
1 ACCACCATCGGCACAAGCTG
3475870 GGGATCGGCC
Statistics
Matches: 89, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
89 1 0.01
90 84 0.94
91 4 0.04
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (89 bp):
ACCACCATCGGCACAAGCTGCCCCTGGTAAGGGCACTTGCATCGAACACCATCGGCACAAGCTGG
GCCATGGTGCAAGCAGTTGCCTTG
Found at i:3475789 original size:45 final size:45
Alignment explanation
Indices: 3475714--3475871 Score: 192
Period size: 45 Copynumber: 3.5 Consensus size: 45
3475704 CACTTGCCTC
* * * **
3475714 GACCGCCATTGGCACAAGCTGGGCCGTGGTGCAAGCGGTTGGCTT
1 GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGGCTT
* * *
3475759 GACCACCATCGGCACAAGATGGCCCCTGGTGCGGGCGGTT-GCATT
1 GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGGC-TT
* * * *
3475804 GAACACCATCGGCACATGCTGGGCCATGGTGCGGGCAGTTGCCTT
1 GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGGCTT
3475849 GACCACCATCGGCACAAGCTGGG
1 GACCACCATCGGCACAAGCTGGG
3475872 GATCGGCCCG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.02
45 92 0.97
46 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.18
Consensus pattern (45 bp):
GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGGCTT
Found at i:3476898 original size:45 final size:45
Alignment explanation
Indices: 3476825--3476987 Score: 141
Period size: 45 Copynumber: 3.6 Consensus size: 45
3476815 GGCTGTGCTT
** * * * * * *
3476825 TGGTACAGGCACTTCCCTTGACCGCCATCGGTACAAGTTGGGCCT
1 TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGATGGGCCC
* * *
3476870 TAGTACAGGTGGTTGCCTCGACCACCATCGGCACAAGATGGCCCC
1 TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGATGGGCCC
* * * * *
3476915 TGGTAC-GAGCGGTTGCATCGAACACCATCGGCACATGCTGGGCCG
1 TGGTACAG-GCGGTTGCCTCGACCACCATCGGCACAAGATGGGCCC
*
3476960 TGGCACCA-GCGGTTGCCTCGACCACCAT
1 TGGTA-CAGGCGGTTGCCTCGACCACCAT
3476988 TAGCACATGC
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
44 1 0.01
45 91 0.98
46 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (45 bp):
TGGTACAGGCGGTTGCCTCGACCACCATCGGCACAAGATGGGCCC
Found at i:3476994 original size:45 final size:45
Alignment explanation
Indices: 3476880--3477005 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
3476870 TAGTACAGGT
* * * *
3476880 GGTTGCCTCGACCACCATCGGCACAAGATGGCCCCTGGTACGAGC
1 GGTTGCCTCGACCACCATCGGCACATGCTGGCCCCTGGCACCAGC
* * * *
3476925 GGTTGCATCGAACACCATCGGCACATGCTGGGCCGTGGCACCAGC
1 GGTTGCCTCGACCACCATCGGCACATGCTGGCCCCTGGCACCAGC
**
3476970 GGTTGCCTCGACCACCATTAGCACATGCTGAGCCCC
1 GGTTGCCTCGACCACCATCGGCACATGCTG-GCCCC
3477006 GATCGACCCC
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
45 63 0.95
46 3 0.05
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.17
Consensus pattern (45 bp):
GGTTGCCTCGACCACCATCGGCACATGCTGGCCCCTGGCACCAGC
Found at i:3479024 original size:26 final size:26
Alignment explanation
Indices: 3478995--3479045 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3478985 TGATCCGATC
3478995 TTAGAC-TGGGAATGAACTCCGTATGG
1 TTAGACTTGGG-ATGAACTCCGTATGG
3479021 TTAGACTTGGGATGAACTCCGTATG
1 TTAGACTTGGGATGAACTCCGTATG
3479046 CCTAAGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
TTAGACTTGGGATGAACTCCGTATGG
Found at i:3479178 original size:196 final size:196
Alignment explanation
Indices: 3478825--3479201 Score: 456
Period size: 196 Copynumber: 1.9 Consensus size: 196
3478815 CGATTGGGGC
* *
3478825 TTAGACATGGAATAAACTCCGTATGCCTAAGCTAACCCATGAAACAAGCGTACGGGCACTCAGTC
1 TTAGACATGGAATAAACTCCGTATGCCTAAGCTAACCCACGAAACAAGCGTACGGGCACTCAGCC
* * * * * *
3478890 GGCCGAAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGATCCCCTCTGCGTGTTGTCGATCCTG
66 GGCCGAAGAGGCAGAATACACAAGTCAGGGATCGACCCGATACCCTCTACGTGTTGTCGATCCTA
** ** *
3478955 CTGTTGGTCCTGCTGTCGCAGCCCTTGG-TCTGATCCGATCTTAGACTGGGAATGAACTCCGTAT
131 CTGCAGGTCCTGCTACCGCAACCCTTGGTTC-GATCCGATCTTAGACTGGGAATGAACTCCGTAT
3479019 GG
195 GG
* * * ** *
3479021 TTAGACTTGGGATGAACTCCGTATGCCTAAG-TCAACCCACGAAATGAGCGTGCGGGCACTCAGC
1 TTAGACATGGAATAAACTCCGTATGCCTAAGCT-AACCCACGAAACAAGCGTACGGGCACTCAGC
* * **
3479085 CTGCC-AGAGAGGCAGGATACGTAAGTCAGGGATCGACCCGATACCCTCTACGTG-TGATCGATC
65 CGGCCGA-AGAGGCAGAATACACAAGTCAGGGATCGACCCGATACCCTCTACGTGTTG-TCGATC
* * *
3479148 CTACTGCAGGTCCTGCTACCGTAACCCTTGGTTCGGTCTGATCTTAGACTGGGA
128 CTACTGCAGGTCCTGCTACCGCAACCCTTGGTTCGATCCGATCTTAGACTGGGA
3479202 GTGCCTTACG
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
195 4 0.03
196 145 0.96
197 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (196 bp):
TTAGACATGGAATAAACTCCGTATGCCTAAGCTAACCCACGAAACAAGCGTACGGGCACTCAGCC
GGCCGAAGAGGCAGAATACACAAGTCAGGGATCGACCCGATACCCTCTACGTGTTGTCGATCCTA
CTGCAGGTCCTGCTACCGCAACCCTTGGTTCGATCCGATCTTAGACTGGGAATGAACTCCGTATG
G
Found at i:3480031 original size:45 final size:44
Alignment explanation
Indices: 3479982--3480139 Score: 151
Period size: 45 Copynumber: 3.5 Consensus size: 44
3479972 GTACGAGCAC
*
3479982 TTGCCTCGATCGCCATCGACACAAGCTGGGCCCTGGTGCTGGCGG
1 TTGCCTCGATCACCATCGACACAAGCTGGGCCCTGGTGCTGG-GG
* *
3480027 TTGCCTCGATCACCATCGACACATGC-CGGCCCTTGGTG-TGGGTG
1 TTGCCTCGATCACCATCGACACAAGCTGGGCCC-TGGTGCTGGG-G
* * * *
3480071 ATTGCCTCGACCACCATCGAC-CTAAGATGGCCCCTGGTGCGGGTGG
1 -TTGCCTCGATCACCATCGACAC-AAGCTGGGCCCTGGTGCTGG-GG
* * *
3480117 TTGCATCGAACACCATCGGCACA
1 TTGCCTCGATCACCATCGACACA
3480140 TACTGGGTCA
Statistics
Matches: 93, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 10 0.11
45 73 0.78
46 8 0.09
47 1 0.01
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.21
Consensus pattern (44 bp):
TTGCCTCGATCACCATCGACACAAGCTGGGCCCTGGTGCTGGGG
Found at i:3480754 original size:146 final size:146
Alignment explanation
Indices: 3480488--3480755 Score: 335
Period size: 146 Copynumber: 1.8 Consensus size: 146
3480478 TCGGTTAGGG
* *
3480488 CTTAGAGCGGGAATCAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGAGCTCAGC
1 CTTAGAGCGGGAATCAACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCAGGAGCTCAGC
* * ** * * *
3480553 TGCCAGAGTGGCAGGATGCGCAAGTCGAGGATCAGCCCGGTCCCCCTTTGTGTGCTGCTGCCTAT
66 AGCCAGAGAGGCAAAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTTTGCGTGCTGCTGCCTAT
3480618 CTGCTGCAGGTTCTAT
131 CTGCTGCAGGTTCTAT
* * * *
3480634 CTTAGA-CTGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCAGGCGTTGAG
1 CTTAGAGC-GGGAATCAACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCAGGAGCTCAG
* * * *
3480698 CCAGCCGGAGAGGCAAAATGTGCAAGCC-AGGGATC-GCCTGATCCCCTTTTGCGTGCTG
65 -CAGCCAGAGAGGCAAAATGCGCAAGCCGA-GGATCAGCCCGATCCCCCTTTGCGTGCTG
3480756 TCGGTCCCGC
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
145 1 0.01
146 76 0.75
147 25 0.25
ACGTcount: A:0.23, C:0.28, G:0.29, T:0.20
Consensus pattern (146 bp):
CTTAGAGCGGGAATCAACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCAGGAGCTCAGC
AGCCAGAGAGGCAAAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTTTGCGTGCTGCTGCCTAT
CTGCTGCAGGTTCTAT
Found at i:3480996 original size:26 final size:25
Alignment explanation
Indices: 3480960--3481011 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
3480950 CCAAACTGAT
*
3480960 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAAAT-CGTATG
* *
3480986 CTTAGATTGGGGATGAAATCGTATG
1 CTTAGACTGGGAATGAAATCGTATG
3481011 C
1 C
3481012 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (25 bp):
CTTAGACTGGGAATGAAATCGTATG
Found at i:3482069 original size:26 final size:26
Alignment explanation
Indices: 3482031--3482083 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3482021 CTGGCTCGAT
*
3482031 CTTAGACTTGGAATGAACTTCGTATG
1 CTTAGACTTGGAATGAACTCCGTATG
3482057 CTTAGA-TTGGGAATGAACTCCGTATG
1 CTTAGACTT-GGAATGAACTCCGTATG
3482083 C
1 C
3482084 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTAGACTTGGAATGAACTCCGTATG
Found at i:3482426 original size:26 final size:26
Alignment explanation
Indices: 3482385--3482437 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3482375 GTGATCCGAT
3482385 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
3482411 CTTAGACT-GGAGATGAACTCCGTATG
1 CTTAGACTGGGA-ATGAACTCCATATG
3482437 C
1 C
3482438 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:3484178 original size:195 final size:193
Alignment explanation
Indices: 3483811--3484185 Score: 438
Period size: 195 Copynumber: 1.9 Consensus size: 193
3483801 TCCGACTGGG
* *
3483811 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGAGTGTACAAGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGTGTACAAGCGCTCAG
* * * * *
3483876 TCAGCCAGAGGGGCAGAATGCACAAGCCGGGGTCAGCCGGTCCCCCTGCGTGCTATCGATCCTGC
66 CCAGCCAGAGGGGCAGAATACACAAGCCGGGATCAGCCGGTCCCCCTACGTGCTATCGATCCCGC
* *
3483941 TGCTGGTCCTACTACAGTAACCCTCGATCCGGTTCGATCTTAGACTTGGAATGAACTCCGTAT
131 TGCAGGTCCTACTACAGTAACCCTCGATCCGGTTCAATCTTAGACTTGGAATGAACTCCGTAT
* ** * * **
3484004 GCTTAGAC-TGGGGATGAACTTTGTATGCC-AAGTCAACCCATGAAACGAGTGTGCGGGCGCTCA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGTGTACAAGCGCTCA
** *
3484067 GCC-GACCAGAGGGGCAGAATACGTAAGTCGAGGATC-GACCTGGTCCCCTCTACGTGCTATCGA
65 GCCAG-CCAGAGGGGCAGAATACACAAGCCG-GGATCAG-CC-GGTCCCC-CTACGTGCTATCGA
* * *
3484130 TCCCGTTGCAGGTCCTGCTACCA-TAACCCTC-AGTCTGGTTCAATCTTAGACTTGGA
125 TCCCGCTGCAGGTCCTACTA-CAGTAACCCTCGA-TCCGGTTCAATCTTAGACTTGGA
3484186 GCATACTACG
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
191 1 0.01
192 53 0.35
193 30 0.20
194 8 0.05
195 58 0.38
196 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (193 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGTGTACAAGCGCTCAG
CCAGCCAGAGGGGCAGAATACACAAGCCGGGATCAGCCGGTCCCCCTACGTGCTATCGATCCCGC
TGCAGGTCCTACTACAGTAACCCTCGATCCGGTTCAATCTTAGACTTGGAATGAACTCCGTAT
Found at i:3485022 original size:45 final size:44
Alignment explanation
Indices: 3484969--3485159 Score: 154
Period size: 45 Copynumber: 4.3 Consensus size: 44
3484959 CACTTACCTG
* **
3484969 GACCACCATCGGCACAAATTGGGCCCTGGTGTGGGCGGTTGCCTC
1 GACCACCATCAGCACAAA-TGGGCCCTGGTACGGGCGGTTGCCTC
* * * *
3485014 GATCACCATCAGCAC--ATGCCAGCCCTTGGTACGGGTGATTGCCTC
1 GACCACCATCAGCACAAATG--GGCCC-TGGTACGGGCGGTTGCCTC
* * * *
3485059 GACCACCATCGGCACAAGATGGCCCCTGGTACGGGTGGTTGCGTC
1 GACCACCATCAGCACAA-ATGGGCCCTGGTACGGGCGGTTGCCTC
* * * * * *
3485104 GAACACCATCAGCACATATTGGG-CCTGGTGCAGCCAGTTGCCTC
1 GACCACCATCAGCACA-AATGGGCCCTGGTACGGGCGGTTGCCTC
3485148 GACCACCATCAG
1 GACCACCATCAG
3485160 TACATGCTGA
Statistics
Matches: 115, Mismatches: 24, Indels: 15
0.75 0.16 0.10
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 30 0.26
45 75 0.65
46 4 0.03
48 3 0.03
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.19
Consensus pattern (44 bp):
GACCACCATCAGCACAAATGGGCCCTGGTACGGGCGGTTGCCTC
Found at i:3485653 original size:26 final size:26
Alignment explanation
Indices: 3485617--3485669 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3485607 TTAGTTCGAT
* *
3485617 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATCAACTCCATATG
3485643 CTTAGACTGGGAATCAACTCCATATG
1 CTTAGACTGGGAATCAACTCCATATG
3485669 C
1 C
3485670 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATCAACTCCATATG
Found at i:3489128 original size:26 final size:26
Alignment explanation
Indices: 3489097--3489149 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3489087 TCGGTATGAT
*
3489097 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3489123 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3489149 C
1 C
3489150 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3489480 original size:25 final size:26
Alignment explanation
Indices: 3489452--3489503 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3489442 TTGGTCCGAT
3489452 CTTAGACT-AGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
* *
3489477 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3489503 C
1 C
3489504 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:3489651 original size:195 final size:195
Alignment explanation
Indices: 3489281--3489654 Score: 425
Period size: 195 Copynumber: 1.9 Consensus size: 195
3489271 TCCGGTTGGG
*
3489281 GCTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGAGGGCACAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGAGGGCACAA
** * * * * *
3489346 TTGGCCAAAAAGGCATAATGCGCAAGTCAGGGATCGACTCGATCCTCTCTACGTGCTGTCGATCC
66 CCGGCCAAAAAGGCAGAATACGCAAGCCAGGGATCGACCCGATCCTCTCTACGTGCTATCGATCC
* * * ** * *
3489411 TGCTGCTAGTCCTGCAACCGCAACCTTAGGTTTGGTCCGATCTTAGACTAGAATGAACTCCGTAT
131 TACTGCGAGTCCTGCAACCGCAACCCTAGGTCCGATCCAATCTTAGACTAGAATGAACTCCGTAT
* * * *
3489476 GCTTAGAC-TGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGTGTGTG-GGGCACT
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGAGGGCA--
* * * *
3489539 CAACCGGCCAGAGAGGCAGGATACGTAAGCC-GAGGATCGACCCGATCC-CT-TCACGTGCTATC
63 CAACCGGCCAAAAAGGCAGAATACGCAAGCCAG-GGATCGACCCGATCCTCTCT-ACGTGCTATC
* ** *
3489601 GATCCTACTGCGGGTCCTGCTGCCGCAACCCTCGGTCCGATCCAATCTTAGACT
126 GATCCTACTGCGAGTCCTGCAACCGCAACCCTAGGTCCGATCCAATCTTAGACT
3489655 GGGAGTGCAC
Statistics
Matches: 147, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
194 7 0.05
195 104 0.71
196 36 0.24
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (195 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGAGGGCACAA
CCGGCCAAAAAGGCAGAATACGCAAGCCAGGGATCGACCCGATCCTCTCTACGTGCTATCGATCC
TACTGCGAGTCCTGCAACCGCAACCCTAGGTCCGATCCAATCTTAGACTAGAATGAACTCCGTAT
Found at i:3490528 original size:45 final size:45
Alignment explanation
Indices: 3490479--3490594 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
3490469 CGGGGCCCTA
* * *
3490479 GTGCGGGTGGTTGCCTCGACCACCATTAGCACAAGATGGCCCTTG
1 GTGCGGGCGGTTGCATCGACCACCATTAGCACAAGATGGCCCGTG
* * * * * *
3490524 GTGCGGGCGGTTGCATCGAACACCATTGGTACATGCTGGGCCGTG
1 GTGCGGGCGGTTGCATCGACCACCATTAGCACAAGATGGCCCGTG
* *
3490569 GTGCAGGCGGTTGCTTCGACCACCAT
1 GTGCGGGCGGTTGCATCGACCACCAT
3490595 CGGCACATTC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (45 bp):
GTGCGGGCGGTTGCATCGACCACCATTAGCACAAGATGGCCCGTG
Found at i:3491082 original size:26 final size:26
Alignment explanation
Indices: 3491046--3491096 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3491036 GATCCGATCC
*
3491046 TAGACTGGGAATGAACTTCGTATGCT
1 TAGACTGGGAATGAACTCCGTATGCT
*
3491072 TAGATTGGGAATGAACTCCGTATGC
1 TAGACTGGGAATGAACTCCGTATGC
3491097 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
TAGACTGGGAATGAACTCCGTATGCT
Found at i:3491428 original size:26 final size:26
Alignment explanation
Indices: 3491399--3491451 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3491389 CCTATCCCAT
* *
3491399 CTTAGATTGGGAATGAACTCCTTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
3491425 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3491451 C
1 C
3491452 CTAAGTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3492478 original size:45 final size:45
Alignment explanation
Indices: 3492429--3492540 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
3492419 TGCTGGCGGC
* *
3492429 TGCCTCGATCACCATCGGCACAAGCCGACCCTTCGTACGGGCGAT
1 TGCCTCGAACACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
* * * * *
3492474 TGCCT-TAACCACCATCGGCACAAGATGGCCCTTGGTGCGGGCGAT
1 TGCCTCGAA-CACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
* *
3492519 TACATCGAACACCATCGGCACA
1 TGCCTCGAACACCATCGGCACA
3492541 TGCTGGGCCG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.02
45 52 0.95
46 2 0.04
ACGTcount: A:0.23, C:0.35, G:0.24, T:0.18
Consensus pattern (45 bp):
TGCCTCGAACACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
Found at i:3492555 original size:45 final size:45
Alignment explanation
Indices: 3492483--3492587 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
3492473 TTGCCTTAAC
* *
3492483 CACCATCGGCACAAGATGGCCCTTGGTGCGGGCGATTACATCGAA
1 CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTACATCGAA
* * * * * * *
3492528 CACCATCGGCACATGCTGGGCCGTGGTGTGGGCGGTTGCCTCGAC
1 CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTACATCGAA
*
3492573 CACCATCGTCACATG
1 CACCATCGGCACATG
3492588 TCGAGCCTCG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.19
Consensus pattern (45 bp):
CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTACATCGAA
Found at i:3493064 original size:26 final size:26
Alignment explanation
Indices: 3493028--3493080 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3493018 CCGGTTCGAT
3493028 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
3493054 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
3493080 C
1 C
3493081 CTAAGTCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:3499619 original size:26 final size:26
Alignment explanation
Indices: 3499570--3499620 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
3499560 GGTATGATCC
**
3499570 TAGACTAGGAATGAACTCTGTATGCT
1 TAGACTAGGAATGAACTCCATATGCT
*
3499596 TAGACTGGGAATGAACTCCATATGC
1 TAGACTAGGAATGAACTCCATATGC
3499621 CTAAGTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (26 bp):
TAGACTAGGAATGAACTCCATATGCT
Found at i:3499828 original size:158 final size:157
Alignment explanation
Indices: 3499593--3499885 Score: 342
Period size: 158 Copynumber: 1.9 Consensus size: 157
3499583 AACTCTGTAT
* ** * *
3499593 GCTTAGACTGGGAATGAACTCCATATGCCTAAGTCAATTCACGAAACAAGCGTGCGGGCGCTGAG
1 GCTTAGACTGAGAATGAACTCCATATGCCTAAGTCAAACCACGAAACAAGCGTACGGGCGCTCAG
* * * * * * *
3499658 CCGGTCGAAGAGGCATAAT-GCGTAAG-CTGGGGATCGGCCCGGTCCCCCTCTGCGTGCTGTCGG
66 CCGGCCGAAGAGGCAGAATAAC--AAGTC-AGGGATCGACCCGGTCCCCCT-TGCGTGCGGTCGA
3499721 TCCCACTGCCACAACCCTCAGTCCGGTTGGG
127 TCCCACTGCCACAACCCTCAGTCCGGTTGGG
* * * * *
3499752 GCTTAGACT-AGAATGAACTCCATATGCTTAAG-CGAAACCACGAAACGAGTGTATGGGGGCTCA
1 GCTTAGACTGAGAATGAACTCCATATGCCTAAGTC-AAACCACGAAACAAGCGTACGGGCGCTCA
*
3499815 GCCGGCCGGAGAGGCAGAATAACAAGTCAGGGATCGACCCGGTCCCCCTTGCGTGCGGTCGATCC
65 GCCGGCCGAAGAGGCAGAATAACAAGTCAGGGATCGACCCGGTCCCCCTTGCGTGCGGTCGATCC
*
3499880 CGCTGC
130 CACTGC
3499886 TGGTCTTGTT
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
156 19 0.17
157 23 0.21
158 60 0.54
159 10 0.09
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.18
Consensus pattern (157 bp):
GCTTAGACTGAGAATGAACTCCATATGCCTAAGTCAAACCACGAAACAAGCGTACGGGCGCTCAG
CCGGCCGAAGAGGCAGAATAACAAGTCAGGGATCGACCCGGTCCCCCTTGCGTGCGGTCGATCCC
ACTGCCACAACCCTCAGTCCGGTTGGG
Found at i:3499957 original size:26 final size:26
Alignment explanation
Indices: 3499921--3499973 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3499911 CCAATCCGAT
3499921 CTTAGACTGGGAATGAACT-TCGTATG
1 CTTAGACTGGGAATGAACTCT-GTATG
*
3499947 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
3499973 C
1 C
3499974 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:3501401 original size:26 final size:26
Alignment explanation
Indices: 3501372--3501424 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3501362 CCGTTCTGAT
*
3501372 CTTAGACTAGGAATGAAGTTCGTATG
1 CTTAGACTAGGAATGAACTTCGTATG
* *
3501398 CTTAGACTGGGGATGAACTTCGTATG
1 CTTAGACTAGGAATGAACTTCGTATG
3501424 C
1 C
3501425 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTTCGTATG
Found at i:3501822 original size:27 final size:28
Alignment explanation
Indices: 3501792--3501852 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
3501782 AGACGACTCG
** *
3501792 TTTTTTATTTTTCATGA-TTTTTAAAAC
1 TTTTTTATGGTTCAAGATTTTTTAAAAC
*
3501819 -TTTTTATGGTTCAAGATTTTTTAAAAT
1 TTTTTTATGGTTCAAGATTTTTTAAAAC
3501846 TTTTTTA
1 TTTTTTA
3501853 GAAGGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 13 0.46
27 9 0.32
28 6 0.21
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTTTTATGGTTCAAGATTTTTTAAAAC
Found at i:3502070 original size:45 final size:45
Alignment explanation
Indices: 3502014--3502177 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 45
3502004 GGTACGGGCA
* * * *
3502014 GTTGTCTCGACCGCCATCGACACAAGCTGGGCCCTGGTGCGAGCG
1 GTTGCCTCGACCACCATCGGCACAAGATGGGCCCTGGTGCGAGCG
* *
3502059 GTTGCCTCGACCACCATCGGCACAAGATGGCCCCTGGTGC-AGGTG
1 GTTGCCTCGACCACCATCGGCACAAGATGGGCCCTGGTGCGA-GCG
* * * * * ** *
3502104 GTTGCATCGAACACAATCGGCACATGTTGGGCAGTGGTGCGGGCG
1 GTTGCCTCGACCACCATCGGCACAAGATGGGCCCTGGTGCGAGCG
*
3502149 GTTGCCTCGACCACCATCGGCACATGATG
1 GTTGCCTCGACCACCATCGGCACAAGATG
3502178 AGCCTCGATC
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.01
45 96 0.99
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.19
Consensus pattern (45 bp):
GTTGCCTCGACCACCATCGGCACAAGATGGGCCCTGGTGCGAGCG
Found at i:3502651 original size:26 final size:26
Alignment explanation
Indices: 3502615--3502667 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3502605 CTGGTCTGAT
3502615 CTTAGACTGGGAATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
3502641 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTACGTATG
3502667 C
1 C
3502668 CTAAGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:3503000 original size:26 final size:26
Alignment explanation
Indices: 3502971--3503023 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3502961 CCGATCTGAT
3502971 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* * *
3502997 CTTAGACTGGGGATGAAGTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3503023 C
1 C
3503024 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3504530 original size:45 final size:45
Alignment explanation
Indices: 3504456--3504574 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
3504446 CCTTTGGTAC
* ** * * *
3504456 GGGCACTTGCCTCGACTGCCATCGACACAAGTTGGGCCCTGGAGT
1 GGGCAGTTGCCTCGACCACCATCGGCACAAGATGGCCCCTGGAGT
* **
3504501 GGGCAGTTGCCTCGACCACCATTGGCACAAGATGGCCCCTGGTTT
1 GGGCAGTTGCCTCGACCACCATCGGCACAAGATGGCCCCTGGAGT
** * *
3504546 GGGTGGTTGCATCGAACACCATCGGCACA
1 GGGCAGTTGCCTCGACCACCATCGGCACA
3504575 TGCTGGGCTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.20
Consensus pattern (45 bp):
GGGCAGTTGCCTCGACCACCATCGGCACAAGATGGCCCCTGGAGT
Found at i:3505270 original size:26 final size:26
Alignment explanation
Indices: 3505234--3505286 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3505224 CCGATCTAAT
3505234 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
* *
3505260 CTTAGACTGGGGATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
3505286 C
1 C
3505287 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:3506695 original size:26 final size:26
Alignment explanation
Indices: 3506656--3506708 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3506646 TCGATCTGAT
* *
3506656 CTTAGACTGGGAATTAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3506682 CTTAGACTGAGAATGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
3506708 C
1 C
3506709 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:3507039 original size:26 final size:26
Alignment explanation
Indices: 3507010--3507062 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3507000 CCGGTCTGAT
*
3507010 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTACGTATG
*
3507036 CTTAGACTGGGGATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
3507062 C
1 C
3507063 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:3508986 original size:26 final size:26
Alignment explanation
Indices: 3508950--3509002 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3508940 TCGGTTCAAA
*
3508950 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3508976 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
3509002 C
1 C
3509003 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:3509560 original size:16 final size:15
Alignment explanation
Indices: 3509536--3509569 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3509526 CGCACACCCC
*
3509536 CCGGCACCCCTAATCG
1 CCGGAACCCCTAAT-G
3509552 CCGGAACCCCTAATG
1 CCGGAACCCCTAATG
3509567 CCG
1 CCG
3509570 CCAGTTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (15 bp):
CCGGAACCCCTAATG
Found at i:3509715 original size:13 final size:13
Alignment explanation
Indices: 3509697--3509721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3509687 CAATGGCACA
3509697 TGATGGCACATGG
1 TGATGGCACATGG
3509710 TGATGGCACATG
1 TGATGGCACATG
3509722 ATCAACCGTC
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:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:3509812 original size:45 final size:44
Alignment explanation
Indices: 3509763--3509913 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 44
3509753 GTATGGGTAT
* *
3509763 TTGCCTCAACCGCCATTGGCACAAGCTGGGCCTTGGTGCGGGCAG
1 TTGCCTCAACCACCATTGGCACAAGCT-GGCCCTGGTGCGGGCAG
* * * *
3509808 TTGCCT-AGACCACTATTGGCACAAGATGGCCCCTGGTGCAGGCGG
1 TTGCCTCA-ACCACCATTGGCACAAGCTGG-CCCTGGTGCGGGCAG
* * * * * *
3509853 TTGCATCGAA-CACCATCGGCACATGCTAGGTCCTGGAGTGGGCAG
1 TTGCCTC-AACCACCATTGGCACAAGCT-GGCCCTGGTGCGGGCAG
*
3509898 TTGCCTCGACCACCAT
1 TTGCCTCAACCACCAT
3509914 CGACACATGC
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
44 4 0.05
45 74 0.90
46 3 0.04
47 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (44 bp):
TTGCCTCAACCACCATTGGCACAAGCTGGCCCTGGTGCGGGCAG
Found at i:3510588 original size:26 final size:26
Alignment explanation
Indices: 3510559--3510611 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3510549 CCGGTCTGGT
*
3510559 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATAAACTCCGTATG
* *
3510585 CTTAGACTGGGGATAAACTTCGTATG
1 CTTAGACTGGGAATAAACTCCGTATG
3510611 C
1 C
3510612 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATAAACTCCGTATG
Found at i:3510761 original size:196 final size:196
Alignment explanation
Indices: 3510404--3510767 Score: 459
Period size: 196 Copynumber: 1.9 Consensus size: 196
3510394 ACATGTTATG
* *
3510404 AACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGAGGGCTCAGCCGACCGGAGAGGCAG
1 AACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGAGGGCTCAGCCGACCAGAGAGGAAG
* * * * *
3510469 AATGCGCAAGTCGAGGATCGACCCGGTCCCCCCCTGCGTGTTGCCAATCCTACTGCTAGTCCTGC
66 AATGCGCAAGTCGAGGATCGACCCGATCCCCCCCTGCGTGCTGCCAATCCCACTACGAGTCCTGC
* ***
3510534 TATCGCAACCCTCATCCGGTCTGGTCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGAT
131 TATCACAACCCTCATCCGGTCTAACCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGAT
3510599 A
196 A
* * *
3510600 AACTTCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCG-GGCGCTCAGCCGACCAGAGAGGTA
1 AACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGAGG-GCTCAGCCGACCAGAGAGG-A
* * * * * *
3510664 AG-ATGCGCAAGTCGGGGATCGACCCGAT-CCCCTCTGCGTGCTGTCGATCCCATTACGGGT-CT
64 AGAATGCGCAAGTCGAGGATCGACCCGATCCCCCCCTGCGTGCTGCCAATCCCACTACGAGTCCT
*
3510726 GACTA-CTACAACCCTCACTCTGGTCTAACCTTAGACTGGGAA
129 G-CTATC-ACAACCCTCA-TCCGGTCTAACCTTAGACTGGGAA
3510768 CACACTACGT
Statistics
Matches: 142, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
194 4 0.03
195 37 0.26
196 99 0.70
197 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.20
Consensus pattern (196 bp):
AACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGAGGGCTCAGCCGACCAGAGAGGAAG
AATGCGCAAGTCGAGGATCGACCCGATCCCCCCCTGCGTGCTGCCAATCCCACTACGAGTCCTGC
TATCACAACCCTCATCCGGTCTAACCTTAGACTGGGAATGAACTCCGTATGCTTAGACTGGGGAT
A
Found at i:3511603 original size:44 final size:44
Alignment explanation
Indices: 3511555--3511639 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
3511545 TACGGGCACT
** * *
3511555 TGCCTCGACTGCCATCGGAACAAGATGGGCCCTGGTGCGGGTGG
1 TGCCTCGACCACCATCGGAACAAGATGGCCCCTGGTACGGGTGG
*
3511599 TGCCTCGACCACCATCGGCACAAGATGGCCCCTGGTACGGG
1 TGCCTCGACCACCATCGGAACAAGATGGCCCCTGGTACGGG
3511640 CAGTTGCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.18, C:0.32, G:0.34, T:0.16
Consensus pattern (44 bp):
TGCCTCGACCACCATCGGAACAAGATGGCCCCTGGTACGGGTGG
Found at i:3511712 original size:45 final size:45
Alignment explanation
Indices: 3511514--3511713 Score: 143
Period size: 45 Copynumber: 4.5 Consensus size: 45
3511504 GGCAAATACA
* * * * *
3511514 TCGACCATCATTGGCACAGGCT-GCCCTTTGGTACGGGCACTTGCC
1 TCGACCACCATCGGCACATGCTGGCCC-CTGGTACGGGCAGTTGCC
** * * * * * * *
3511559 TCGACTGCCATCGGAACAAGATGGGCCCTGGTGCGGG-TGGTGCC
1 TCGACCACCATCGGCACATGCTGGCCCCTGGTACGGGCAGTTGCC
* * *
3511603 TCGACCACCATCGGCACAAGATGGCCCCTGGTACGGGCAGTTGCA
1 TCGACCACCATCGGCACATGCTGGCCCCTGGTACGGGCAGTTGCC
* * * ** * ** *
3511648 TCGAACACTATCAGCACATGCTGGGTCGTGGTGTGGGCATTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCCTGGTACGGGCAGTTGCC
3511693 TCGACCACCATCGGCACATGC
1 TCGACCACCATCGGCACATGC
3511714 AGAGCCCCGA
Statistics
Matches: 117, Mismatches: 36, Indels: 4
0.75 0.23 0.03
Matches are distributed among these distances:
44 36 0.31
45 78 0.67
46 3 0.03
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.20
Consensus pattern (45 bp):
TCGACCACCATCGGCACATGCTGGCCCCTGGTACGGGCAGTTGCC
Found at i:3512020 original size:26 final size:26
Alignment explanation
Indices: 3511984--3512036 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3511974 CCGGTCTGAT
*
3511984 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
3512010 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
3512036 C
1 C
3512037 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:3512859 original size:26 final size:26
Alignment explanation
Indices: 3512830--3512882 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3512820 ACGGTCTGAT
*
3512830 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTATATG
*
3512856 CTTAGACTGGGGATGAACTCTATATG
1 CTTAGACTGGGAATGAACTCTATATG
3512882 C
1 C
3512883 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTATATG
Found at i:3513765 original size:13 final size:13
Alignment explanation
Indices: 3513747--3513771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3513737 TAATGCCATA
3513747 TGATGGCACATGG
1 TGATGGCACATGG
3513760 TGATGGCACATG
1 TGATGGCACATG
3513772 CATCGACCAT
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:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:3514407 original size:26 final size:26
Alignment explanation
Indices: 3514369--3514441 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
3514359 CCGGTCTGAT
3514369 CTTAGACTT-GGAATGAACTCCGTATG
1 CTTAGA-TTGGGAATGAACTCCGTATG
*
3514395 CTTAGATTGGGAATGAACTCTGTATG
1 CTTAGATTGGGAATGAACTCCGTATG
* *
3514421 CATAGACTGGGAATGAACTCC
1 CTTAGATTGGGAATGAACTCC
3514442 ACGAAATGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
CTTAGATTGGGAATGAACTCCGTATG
Found at i:3514857 original size:170 final size:170
Alignment explanation
Indices: 3514562--3514993 Score: 474
Period size: 170 Copynumber: 2.5 Consensus size: 170
3514552 CCGGCTGGGG
* * * * * * * *
3514562 CTTAGAC-ATGGAATGAACTTCGTATACCTAAGCCAACCCATGAAACAAGCGTGTGGGCACTCAA
1 CTTAGACTA-GGAATGAACTACGTATGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCACTCAG
* * * ** * * ** * * *
3514626 CCGGCCAGAGAGCCAGAATATGCAAGTCGGGGATCG-ACTCGGTCCCCCCTGCGTGCTGTCGATC
65 CCAGCCAGAGAGGCAGGATGCGTAAGCCAAGGATAGAAC-CGGTCCCCCCTGCATACTGTCGATC
* * *
3514690 CTACTGCTGGTCCTGCTGCCGCAACCCTCGGTCCGATCCCAT
129 CCACTGCTGGTCCTGCTGCCACAACCCTCGGTCCGATCCAAT
* * *
3514732 CTTAGACTGGGAATGAACT-CTGTATGCCTAAGTTAACCCACGAAACGAGAGTGCGGGCGCTCAG
1 CTTAGACTAGGAATGAACTAC-GTATGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCACTCAG
* *
3514796 CCAGCCAGAGAGGTAGGATGCGTAAGCCAAGGATAGAACCGGTCCCCTCTGCATACTGTCGATCC
65 CCAGCCAGAGAGGCAGGATGCGTAAGCCAAGGATAGAACCGGTCCCCCCTGCATACTGTCGATCC
* * *
3514861 CGCTGCTGGTCCTGCTGCCATAACCCTCGGTCTGATCCAAT
130 CACTGCTGGTCCTGCTGCCACAACCCTCGGTCCGATCCAAT
* * *
3514902 CTTAGACTAGGAGTGAACTACGTATGCCTAAGTCAACCCACGAAACGAGTGTGCGGGCACTTAGC
1 CTTAGACTAGGAATGAACTACGTATGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCACTCAGC
* * * *
3514967 CGGTCGGAGAGGCGGGATGCGTAAGCC
66 CAGCCAGAGAGGCAGGATGCGTAAGCC
3514994 GTGGATCGAT
Statistics
Matches: 217, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
169 1 0.00
170 213 0.98
171 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (170 bp):
CTTAGACTAGGAATGAACTACGTATGCCTAAGTCAACCCACGAAACGAGAGTGCGGGCACTCAGC
CAGCCAGAGAGGCAGGATGCGTAAGCCAAGGATAGAACCGGTCCCCCCTGCATACTGTCGATCCC
ACTGCTGGTCCTGCTGCCACAACCCTCGGTCCGATCCAAT
Found at i:3515794 original size:45 final size:45
Alignment explanation
Indices: 3515661--3515906 Score: 172
Period size: 45 Copynumber: 5.5 Consensus size: 45
3515651 GGCACATGCT
* * * **
3515661 TCGACCATCATCGGCACAGGCT--GCCCTTTGGTACGGGCACTTGCC
1 TCGACCACCATCGGCACATGCTGGGCCC--TGGTGCGGGCGGTTGCC
* * * * *
3515706 TCGACCGCCATGGGCACAAGCTGGGCCCTGGTGTGGGCAGTTGCC
1 TCGACCACCATCGGCACATGCTGGGCCCTGGTGCGGGCGGTTGCC
* * * * *
3515751 TCGACCACCATCGGTACATGCTGGCCCCTAGTGCAGGCGGTTGCA
1 TCGACCACCATCGGCACATGCTGGGCCCTGGTGCGGGCGGTTGCC
** * * ** *
3515796 TTAAACACCATCGGCACATGCTGGGCCATGGTATGGGCGGTTGCA
1 TCGACCACCATCGGCACATGCTGGGCCCTGGTGCGGGCGGTTGCC
** * * * * * *
3515841 TCGAAGACTATCAGTACATGCTGGACCGTGGTGCGGACGGTTGCC
1 TCGACCACCATCGGCACATGCTGGGCCCTGGTGCGGGCGGTTGCC
**
3515886 TCGACCACCATCATCACATGC
1 TCGACCACCATCGGCACATGC
3515907 CAAGACCCGG
Statistics
Matches: 155, Mismatches: 44, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
45 151 0.97
47 4 0.03
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.21
Consensus pattern (45 bp):
TCGACCACCATCGGCACATGCTGGGCCCTGGTGCGGGCGGTTGCC
Found at i:3515895 original size:90 final size:90
Alignment explanation
Indices: 3515701--3515906 Score: 216
Period size: 90 Copynumber: 2.3 Consensus size: 90
3515691 GTACGGGCAC
* * * * * * * *
3515701 TTGCCTCGACCGCCATGGGCACAAGCTGGGCCCTGGTGTGGGCAGTTGCCTCGACCACCATCGGT
1 TTGCCTCGACCACCATCGGCACATGCTGGGCCATGGTATGGGCAGTTGCATCGAACACCATCAGT
*
3515766 ACATGCTGGCCCCTAGTGCAGGCGG
66 ACATGCTGGACCCTAGTGCAGGCGG
* ** * * * *
3515791 TTGCATTAAACACCATCGGCACATGCTGGGCCATGGTATGGGCGGTTGCATCGAAGACTATCAGT
1 TTGCCTCGACCACCATCGGCACATGCTGGGCCATGGTATGGGCAGTTGCATCGAACACCATCAGT
* *
3515856 ACATGCTGGACCGTGGTGC-GGACGG
66 ACATGCTGGACCCTAGTGCAGG-CGG
**
3515881 TTGCCTCGACCACCATCATCACATGC
1 TTGCCTCGACCACCATCGGCACATGC
3515907 CAAGACCCGG
Statistics
Matches: 91, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
89 2 0.02
90 89 0.98
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (90 bp):
TTGCCTCGACCACCATCGGCACATGCTGGGCCATGGTATGGGCAGTTGCATCGAACACCATCAGT
ACATGCTGGACCCTAGTGCAGGCGG
Found at i:3516383 original size:26 final size:26
Alignment explanation
Indices: 3516345--3516397 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3516335 CCGGTCTGAT
*
3516345 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTAGGAATGAACTCCATATG
*
3516371 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCATATG
3516397 C
1 C
3516398 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCATATG
Found at i:3517756 original size:45 final size:45
Alignment explanation
Indices: 3517667--3517905 Score: 212
Period size: 45 Copynumber: 5.3 Consensus size: 45
3517657 GGCACATGCA
* * * **
3517667 TCGACCATCATCGGCACAGGCT-GCCCTTTGGTACGGGCACTTGCC
1 TCGACCACCATCGGCACAAGCTGGCCC-TTGGTGCGGGCGGTTGCC
* * *
3517712 TCGACCGCCATGGGCACAAGCTGGGCCC-TAGTGCGGGCGGTTGCC
1 TCGACCACCATCGGCACAAGCT-GGCCCTTGGTGCGGGCGGTTGCC
* * * * * * * *
3517757 TAGATCACCATCGACACATGCTGTCCCTTGGTGAGGGTGATTGCC
1 TCGACCACCATCGGCACAAGCTGGCCCTTGGTGCGGGCGGTTGCC
** **
3517802 TCGACCACCATCGGCACAAAATGGCCCTTGGTGCGGGCGGTTGTA
1 TCGACCACCATCGGCACAAGCTGGCCCTTGGTGCGGGCGGTTGCC
* * * * * *
3517847 TTGAACACCATCGGCACATGCTGGGCCATGGTGCGGGCAGTTGCC
1 TCGACCACCATCGGCACAAGCTGGCCCTTGGTGCGGGCGGTTGCC
3517892 TCGACCACCATCGG
1 TCGACCACCATCGG
3517906 TACGTGCCGA
Statistics
Matches: 148, Mismatches: 43, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
44 4 0.03
45 140 0.95
47 4 0.03
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.21
Consensus pattern (45 bp):
TCGACCACCATCGGCACAAGCTGGCCCTTGGTGCGGGCGGTTGCC
Found at i:3517879 original size:90 final size:90
Alignment explanation
Indices: 3517701--3517905 Score: 234
Period size: 90 Copynumber: 2.3 Consensus size: 90
3517691 CCTTTGGTAC
* * * ** * *
3517701 GGGCACTTGCCTCGACCGCCATGGGCACAAGCTGGGCCCTAGTGCGGGCGGTTGCCTAGATCACC
1 GGGCAGTTGCCTCGACCACCATCGGCACAAAATGGGCCCTAGTGCGGGCGGTTGCATAGAACACC
* *
3517766 ATCGACACATGCTGTCCCTTGGTGA
66 ATCGACACATGCTGGCCCATGGTGA
* * * *
3517791 GGG-TGATTGCCTCGACCACCATCGGCACAAAAT-GGCCCTTGGTGCGGGCGGTTGTATTGAACA
1 GGGCAG-TTGCCTCGACCACCATCGGCACAAAATGGGCCC-TAGTGCGGGCGGTTGCATAGAACA
* * *
3517854 CCATCGGCACATGCTGGGCCATGGTGC
64 CCATCGACACATGCTGGCCCATGGTGA
3517881 GGGCAGTTGCCTCGACCACCATCGG
1 GGGCAGTTGCCTCGACCACCATCGG
3517906 TACGTGCCGA
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
89 5 0.05
90 89 0.94
91 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.20
Consensus pattern (90 bp):
GGGCAGTTGCCTCGACCACCATCGGCACAAAATGGGCCCTAGTGCGGGCGGTTGCATAGAACACC
ATCGACACATGCTGGCCCATGGTGA
Found at i:3518582 original size:26 final size:26
Alignment explanation
Indices: 3518546--3518598 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3518536 CCAGTCTGAT
* *
3518546 CTTATACTGGGAATAAACTTCGTATG
1 CTTAAACTGGGAATAAACTCCGTATG
* *
3518572 CTTAAACTGGGGATGAACTCCGTATG
1 CTTAAACTGGGAATAAACTCCGTATG
3518598 C
1 C
3518599 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAAACTGGGAATAAACTCCGTATG
Found at i:3520503 original size:13 final size:13
Alignment explanation
Indices: 3520485--3520509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3520475 CAATGGCACA
3520485 TGATGGCACATGG
1 TGATGGCACATGG
3520498 TGATGGCACATG
1 TGATGGCACATG
3520510 CATCCACCAT
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:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
TGATGGCACATGG
Found at i:3520634 original size:45 final size:45
Alignment explanation
Indices: 3520559--3520716 Score: 217
Period size: 45 Copynumber: 3.5 Consensus size: 45
3520549 CACTTCCCTC
* * *
3520559 GACCGCCATTGGCACAAGCTGGGCCGTGGTGCGGGCGGTTGCCTT
1 GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGCCTT
* * * *
3520604 GACCACCATCGGCACAAGATGGCCCCTGGTGCGGGCGGTTGCATT
1 GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGCCTT
* * *
3520649 GAACACCATCGACACATGCTGGGCCATGGTGCGGGCGGTTGCCTT
1 GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGCCTT
*
3520694 AACCACCATCGGCACAAGCTGGG
1 GACCACCATCGGCACAAGCTGGG
3520717 GATCGGCCTG
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.18
Consensus pattern (45 bp):
GACCACCATCGGCACAAGCTGGGCCATGGTGCGGGCGGTTGCCTT
Done.