Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 164 of 310
Found at i:53774594 original size:8 final size:8
Alignment explanation
Indices: 53774583--53774625 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
53774573 GCAAATCCCA
53774583 AAATGCCG
1 AAATGCCG
53774591 AAATGCCG
1 AAATGCCG
*
53774599 AAATGCTG
1 AAATGCCG
* *
53774607 AAATGTCA
1 AAATGCCG
*
53774615 AAATGCTG
1 AAATGCCG
53774623 AAA
1 AAA
53774626 AGTCGAAAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (8 bp):
AAATGCCG
Found at i:53774602 original size:16 final size:16
Alignment explanation
Indices: 53774575--53774625 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
53774565 CTATATCAGC
* *
53774575 AAATCCCAAAATGCCG
1 AAATGCCAAAATGCTG
*
53774591 AAATGCCGAAATGCTG
1 AAATGCCAAAATGCTG
*
53774607 AAATGTCAAAATGCTG
1 AAATGCCAAAATGCTG
53774623 AAA
1 AAA
53774626 AGTCGAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (16 bp):
AAATGCCAAAATGCTG
Found at i:53776597 original size:49 final size:49
Alignment explanation
Indices: 53776522--53776619 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
53776512 AAAATGCCAA
* * * *
53776522 AATTCTGGCATTTCGTGGGCTTGTGAGTGTGAGCGTGCTCAGAAGACGT
1 AATTCTGGCATTTCATGGGCTCGTGAGTGTGAGAGTGCTCACAAGACGT
*
53776571 AATTCTGGCATTTCATGGGCTCGTGAGTGTGCGAGTGCTCACAAGACGT
1 AATTCTGGCATTTCATGGGCTCGTGAGTGTGAGAGTGCTCACAAGACGT
53776620 TTAGAAATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (49 bp):
AATTCTGGCATTTCATGGGCTCGTGAGTGTGAGAGTGCTCACAAGACGT
Found at i:53789135 original size:40 final size:40
Alignment explanation
Indices: 53789084--53789247 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
53789074 GCCGTCGGGG
* * *
53789084 CTTAGCCCGG-ATATGGTCACTAGCACAAATGCCTTCGAAA
1 CTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGAGA
* *
53789124 CTTAGCCCGG-ATATAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGAGA
** *
53789164 CTTAGCCCGGAATTAGTAACTCCCACAAATGCCTTCGCGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGAGA
* * * *
53789204 CTTAGCCCGGAATTAATCACTAGCACAAATGTCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGAGA
53789244 CTTA
1 CTTA
53789248 ATCCCGTTAG
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 108 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGAGA
Found at i:53789191 original size:80 final size:80
Alignment explanation
Indices: 53789063--53789247 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 80
53789053 GGATATAACC
* * * * * *
53789063 ACTCGCAC-AAGGCCGTCGGGGCTTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGAAACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACCACAAATGCCTTCGAAACTT
*
53789127 AGCCCGG-ATATAGTA
66 AGCCCGGAAT-TAATA
* **
53789142 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCCCACAAATGCCTTCGCGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTACCACAAATGCCTTCGAAACT
*
53789206 TAGCCCGGAATTAATC
65 TAGCCCGGAATTAATA
* *
53789222 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
53789248 ATCCCGTTAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 9 0.10
80 79 0.88
81 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACCACAAATGCCTTCGAAACTT
AGCCCGGAATTAATA
Found at i:53790987 original size:19 final size:19
Alignment explanation
Indices: 53790963--53791001 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
53790953 AGAGGGAGCA
53790963 GGATTTCACAGCATTGGTG
1 GGATTTCACAGCATTGGTG
*
53790982 GGATTTCATAGCATTGGTG
1 GGATTTCACAGCATTGGTG
53791001 G
1 G
53791002 AAAAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (19 bp):
GGATTTCACAGCATTGGTG
Found at i:53797066 original size:24 final size:24
Alignment explanation
Indices: 53796951--53797064 Score: 165
Period size: 24 Copynumber: 4.8 Consensus size: 24
53796941 GAAATGACTT
*
53796951 TGGCACTATGTGTGCGAACTTGTA
1 TGGCACTATGTGTGCGGACTTGTA
53796975 TGGCACTATGTGTGCGGACTTGTA
1 TGGCACTATGTGTGCGGACTTGTA
* *
53796999 TGACACTATGTGTGCGGAATTGTA
1 TGGCACTATGTGTGCGGACTTGTA
* * *
53797023 TGGCACTATGTGTGCAGATTTATA
1 TGGCACTATGTGTGCGGACTTGTA
*
53797047 TGGCACTAAGTGTGCGGA
1 TGGCACTATGTGTGCGGA
53797065 TTGGAATGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGACTTGTA
Found at i:53797081 original size:48 final size:48
Alignment explanation
Indices: 53796954--53797081 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 48
53796944 ATGACTTTGG
* * * * *
53796954 CACTATGTGTGC-GAACTTGTATGGCACTATGTGTGCGGACTTGTATGA
1 CACTAAGTGTGCGGAA-TTGAATGGCAATATGTGTGCAGACTTATATGA
* * * * *
53797002 CACTATGTGTGCGGAATTGTATGGCACTATGTGTGCAGATTTATATGG
1 CACTAAGTGTGCGGAATTGAATGGCAATATGTGTGCAGACTTATATGA
*
53797050 CACTAAGTGTGCGG-ATTGGAATGTCAATATGT
1 CACTAAGTGTGCGGAATT-GAATGGCAATATGT
53797082 ATGTGAATTG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 3 0.04
48 64 0.91
49 3 0.04
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (48 bp):
CACTAAGTGTGCGGAATTGAATGGCAATATGTGTGCAGACTTATATGA
Found at i:53797081 original size:72 final size:72
Alignment explanation
Indices: 53796951--53797109 Score: 180
Period size: 72 Copynumber: 2.2 Consensus size: 72
53796941 GAAATGACTT
* * * * *
53796951 TGGCACTATGTGTGCGAACTTGTATGGCACTATGTGTGCGGACTTGTATGACACTATGTGTGCGG
1 TGGCACTATGTGTGCGAACTTATATGGCACTAAGTGTGCGGACTTGAATGACAATATGTATG-GG
53797016 AATTG-TA
65 AATTGCTA
* * *
53797023 TGGCACTATGTGTGC-AGATTTATATGGCACTAAGTGTGCGGA-TTGGAATGTCAATATGTATGT
1 TGGCACTATGTGTGCGA-ACTTATATGGCACTAAGTGTGCGGACTT-GAATGACAATATGTATGG
53797086 GAATTGCTA
64 GAATTGCTA
* *
53797095 AGACACTATGTGTGC
1 TGGCACTATGTGTGC
53797110 TGGCTAACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
71 9 0.12
72 65 0.88
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAACTTATATGGCACTAAGTGTGCGGACTTGAATGACAATATGTATGGGA
ATTGCTA
Found at i:53801747 original size:24 final size:24
Alignment explanation
Indices: 53801719--53801834 Score: 178
Period size: 24 Copynumber: 4.8 Consensus size: 24
53801709 GAAATGACTT
*
53801719 TGGCACTATGTGTGCGGACTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
53801743 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
* * *
53801767 TGGCACTATATGTGCAGAATTGTA
1 TGGCACTATGTGTGCGGATTTGTA
* *
53801791 TGGCACTATGTGTGCAGATTTATA
1 TGGCACTATGTGTGCGGATTTGTA
53801815 TGGCACTATGTGTGCGGATT
1 TGGCACTATGTGTGCGGATT
53801835 GGAATGTCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 84 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGTA
Found at i:53801868 original size:72 final size:72
Alignment explanation
Indices: 53801720--53801876 Score: 190
Period size: 72 Copynumber: 2.2 Consensus size: 72
53801710 AAATGACTTT
* * * * * *
53801720 GGCACTATGTGTGCGGACTTGTATGGCACTATGTGTGCGGATTTGTATGGCACTATATGTGCAGA
1 GGCACTATGTGTGCAGACTTATATGGCACTATGTGTGCGGATTGGAATGGCAATATATATGCAGA
* *
53801785 ATTGTAT
66 ATTCTAA
* * * *
53801792 GGCACTATGTGTGCAGATTTATATGGCACTATGTGTGCGGATTGGAATGTCAATATGTATG-TGA
1 GGCACTATGTGTGCAGACTTATATGGCACTATGTGTGCGGATTGGAATGGCAATATATATGCAGA
53801856 ATTACTAA
66 ATT-CTAA
53801864 GGCACTATGTGTG
1 GGCACTATGTGTG
53801877 TGGGCTAACA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
71 5 0.07
72 67 0.93
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (72 bp):
GGCACTATGTGTGCAGACTTATATGGCACTATGTGTGCGGATTGGAATGGCAATATATATGCAGA
ATTCTAA
Found at i:53819655 original size:43 final size:43
Alignment explanation
Indices: 53819620--53819774 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 43
53819610 TGTGTTTTCG
* * *
53819620 TGTAAGACCATGTCTAGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGACGTCGGCATCGATATGTGATTACA
* * * *
53819663 TGTAAGACCATGTCTGGGACATCGACAT-GGTATTTGATT-CA
1 TGTAAGACCATGTCTGGGACGTCGGCATCGATATGTGATTACA
* * *
53819704 TGTAAGACCCTGTCTGGGACAG-CAGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTCGGCATCGATATGTGATTACA
* *
53819747 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTCGGCAT
53819775 TGTACGATAT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 24 0.26
42 20 0.22
43 48 0.52
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTCGGCATCGATATGTGATTACA
Found at i:53819720 original size:41 final size:43
Alignment explanation
Indices: 53819644--53819766 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 43
53819634 TAGGACGTTG
* * * *
53819644 GCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACATC-
1 GCATCGATATTTGATTACATGTAAGACCCTGTCTGGGACAGCA
*
53819686 GACAT-GGTATTTGATT-CATGTAAGACCCTGTCTGGGACAGCA
1 G-CATCGATATTTGATTACATGTAAGACCCTGTCTGGGACAGCA
53819728 GCATCGATATTTGATTACATGTAAGACCAC-GTCTGGGAC
1 GCATCGATATTTGATTACATGTAAGACC-CTGTCTGGGAC
53819767 GTTGGCATTG
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
41 25 0.36
42 21 0.30
43 23 0.33
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
GCATCGATATTTGATTACATGTAAGACCCTGTCTGGGACAGCA
Found at i:53819950 original size:16 final size:16
Alignment explanation
Indices: 53819926--53819956 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53819916 TGGTTATTTG
*
53819926 ATATGTGATGCAAATT
1 ATATATGATGCAAATT
53819942 ATATATGATGCAAAT
1 ATATATGATGCAAAT
53819957 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:53819966 original size:19 final size:18
Alignment explanation
Indices: 53819942--53819985 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
53819932 GATGCAAATT
53819942 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
53819961 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
53819979 AGTATAT
1 A-TATAT
53819986 TCGGCCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:53826590 original size:72 final size:72
Alignment explanation
Indices: 53826473--53826618 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
53826463 TCGAAGCTTC
53826473 CTGGGGCTCGCCGGTTATTACCGACGATTTGTAAAAGGTTTCTCGATGATAGCTGCACCGTTGAA
1 CTGGGGCTCGCCGGTTATTACCGACGATTTGTAAAAGGTTTCTCGATGATAGCTGCACCGTTGAA
53826538 GAAACTA
66 GAAACTA
*
53826545 CTGGGGCTCGCCGGTTATTACCGACGATTTGTAAAAGGTTTCTCGATGATAGCTGCACCGTTGAC
1 CTGGGGCTCGCCGGTTATTACCGACGATTTGTAAAAGGTTTCTCGATGATAGCTGCACCGTTGAA
53826610 GAAACTA
66 GAAACTA
53826617 CT
1 CT
53826619 CCAAAAAGAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (72 bp):
CTGGGGCTCGCCGGTTATTACCGACGATTTGTAAAAGGTTTCTCGATGATAGCTGCACCGTTGAA
GAAACTA
Found at i:53827041 original size:66 final size:66
Alignment explanation
Indices: 53826935--53827065 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
53826925 TTATTCGGAC
*
53826935 CACAAAAGTCTTAAATATTTGATGACTCAAAGAGATCTAAATCTGTGACAAAGACGTTGGCTTGA
1 CACAAAAGTCTTAAATATTTGATGACTCAAAGAGATCTAAATCTGCGACAAAGACGTTGGCTTGA
53827000 A
66 A
53827001 CACAAAAGTCTTAAATATTTGATGACTCAAAGAGATCTAAATCTGCGACAAAGACGTTGGCTTGA
1 CACAAAAGTCTTAAATATTTGATGACTCAAAGAGATCTAAATCTGCGACAAAGACGTTGGCTTGA
53827066 GTTGTTGAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (66 bp):
CACAAAAGTCTTAAATATTTGATGACTCAAAGAGATCTAAATCTGCGACAAAGACGTTGGCTTGA
A
Found at i:53830208 original size:27 final size:28
Alignment explanation
Indices: 53830124--53830221 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
53830114 CCTGAGATTG
* * * *
53830124 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
53830153 GCACTAAGTGTGCGAGTTTGACTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
53830181 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53830208 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
53830222 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53830232 original size:27 final size:27
Alignment explanation
Indices: 53830152--53830234 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
53830142 TAAATTGTAC
* *
53830152 AGCACTAAGTGTGCGAGTTTGACTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
53830180 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
53830207 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
53830234 A
1 A
53830235 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:53830235 original size:29 final size:27
Alignment explanation
Indices: 53830124--53830235 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
53830114 CCTGAGATTG
** * *
53830124 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
53830153 GCACTAAGTGTGCGAGTTTGACTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
53830181 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
53830208 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
53830236 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 22 0.31
28 27 0.39
29 21 0.30
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:53831357 original size:78 final size:78
Alignment explanation
Indices: 53831228--53831383 Score: 285
Period size: 78 Copynumber: 2.0 Consensus size: 78
53831218 TGAGTCTACT
* *
53831228 TTCATATAGACGAAACGAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACTCTTGTGGA
1 TTCATATAGAAGAAACGAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACTCTTGTGAA
53831293 ACAGGGCCAGAGC
66 ACAGGGCCAGAGC
*
53831306 TTCATATAGAAGAAACGAAACGACCATATGAGGTGTATGTTAGGAGATAATTAAACTCTTGTGAA
1 TTCATATAGAAGAAACGAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACTCTTGTGAA
53831371 ACAGGGCCAGAGC
66 ACAGGGCCAGAGC
53831384 GGTTTCTGGA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (78 bp):
TTCATATAGAAGAAACGAAACGACCATATGAGCTGTATGTTAGGAGATAATTAAACTCTTGTGAA
ACAGGGCCAGAGC
Found at i:53832716 original size:26 final size:26
Alignment explanation
Indices: 53832675--53832726 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
53832665 GATTGAATGA
53832675 AGATTTAAAGCTACTAATGGGTATTT
1 AGATTTAAAGCTACTAATGGGTATTT
*
53832701 AGATTTAAAG-TAACTAGTGGGTATTT
1 AGATTTAAAGCT-ACTAATGGGTATTT
53832727 TGGATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (26 bp):
AGATTTAAAGCTACTAATGGGTATTT
Found at i:53838671 original size:40 final size:39
Alignment explanation
Indices: 53838640--53838849 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
53838630 GGACTAAGAT
* *
53838640 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
53838680 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
53838720 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
53838760 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
53838800 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
53838839 CCGAAGGCATT
1 CCGAAGGCATT
53838850 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:53838803 original size:120 final size:120
Alignment explanation
Indices: 53838587--53838849 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
53838577 TTGAATGCTG
* *
53838587 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
53838651 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
53838707 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
53838770 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
53838826 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53838850 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:53838869 original size:79 final size:80
Alignment explanation
Indices: 53838588--53838884 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
53838578 TGAATGCTGT
* ** * * * **
53838588 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
53838651 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
53838668 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
53838732 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
53838748 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
53838812 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
53838827 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
53838885 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:53844005 original size:43 final size:42
Alignment explanation
Indices: 53843866--53844021 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 42
53843856 TGATATGTGC
* * *
53843866 TTTTGTCTAAGACCATGTCTGGGACATTGGCATC-AACCTAAGA
1 TTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTA--TATGA
* * * *
53843909 TTTATATGTAATACCATGTCTAGGACATTGACA--GTATATTGA
1 TTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGTATA-TGA
** *
53843951 GATTGCATGTAAGACCATGGCTGGGACATTGGCATCGTATTATGA
1 TTTTG--TGTAAGACCATGTCTGGGACATTGGCATCGTA-TATGA
* *
53843996 TTTTGTGTAAGACCCTATCTGGGACA
1 TTTTGTGTAAGACCATGTCTGGGACA
53844022 GTTGCTTTGA
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 45 0.52
44 24 0.28
45 9 0.10
46 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
Found at i:53845796 original size:55 final size:55
Alignment explanation
Indices: 53845736--53845840 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
53845726 TTAAGTCAGT
** * *** *
53845736 GTTGTACATGGGCAGGCCACACGGGGGTGTGCCATGGCCGTGTTTTAAAGATAGC
1 GTTGTACACAGGCAGGCCACACAGACATGTGCCATGGCCATGTTTTAAAGATAGC
*
53845791 GTTGTACACAGTCAGGCCACACAGACATGTGCCATGGCCATGTTTTAAAG
1 GTTGTACACAGGCAGGCCACACAGACATGTGCCATGGCCATGTTTTAAAG
53845841 TCAGTGTTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (55 bp):
GTTGTACACAGGCAGGCCACACAGACATGTGCCATGGCCATGTTTTAAAGATAGC
Found at i:53856027 original size:27 final size:27
Alignment explanation
Indices: 53855997--53856175 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
53855987 ATATTGAGCC
* * * *
53855997 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53856024 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53856051 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53856079 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53856106 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53856133 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53856160 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
53856176 TACAATTTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53856136 original size:82 final size:81
Alignment explanation
Indices: 53856018--53856173 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53856008 TGCTATATAA
* *
53856018 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53856083 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53856100 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53856164 CACTTAGTGC
65 CACTTAGTGC
53856174 TATACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53865795 original size:40 final size:40
Alignment explanation
Indices: 53865717--53865940 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
53865707 ACCCAAGTAT
* *
53865717 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
53865756 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
53865796 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
53865836 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
53865879 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
53865919 CCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53865941 CATCCAAAAA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:53865913 original size:83 final size:80
Alignment explanation
Indices: 53865717--53865940 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
53865707 ACCCAAGTAT
* * * *
53865717 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* **
53865781 CACTAGCATGAATGC
66 CACTAACACAAATGC
* *
53865796 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
53865860 CAACTACTCACACAAATGC
66 C-ACTA---ACACAAATGC
* *
53865879 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
53865941 CATCCAAAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 65 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAACACAAATGC
Found at i:53869599 original size:54 final size:53
Alignment explanation
Indices: 53869514--53869645 Score: 210
Period size: 54 Copynumber: 2.5 Consensus size: 53
53869504 ATCGCAATAA
* *
53869514 GGGATTTAGCCTGGACTAGTAATCCCGACATCACCTTATGAGATTACGATATGG
1 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGATTACGATAT-G
*
53869568 GGGATTTATCCTGGACTGGTAATCCCAACATCACCTTATGAGATTACGATATG
1 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGATTACGATATG
* *
53869621 AGGATTTAGCCTGGGCTGGTAATCC
1 GGGATTTAGCCTGGACTGGTAATCC
53869646 TGGCATAGGA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 23 0.32
54 49 0.68
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (53 bp):
GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGATTACGATATG
Found at i:53871506 original size:40 final size:40
Alignment explanation
Indices: 53871443--53871676 Score: 330
Period size: 40 Copynumber: 5.9 Consensus size: 40
53871433 ATTCGGATTG
53871443 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53871482 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
53871522 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53871562 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
53871602 ATAACTGGGCTAAGTCCCGAAGGCATGTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * * *
53871642 ATATCCGGGCTAAGACCCGACGGC-CTTGTGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53871677 GGTTATATCG
Statistics
Matches: 174, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 22 0.13
40 152 0.87
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53874005 original size:55 final size:55
Alignment explanation
Indices: 53873938--53874059 Score: 163
Period size: 55 Copynumber: 2.2 Consensus size: 55
53873928 TTTAAGTCGG
* * * * *
53873938 TGTTGTATACGGGCAGGCCATACGGGCGTGTGCCATGGACGTGTTTTAAAGACAC
1 TGTTGTACACGGGCAGGCCACACGAGCGTGTGCCATGGACATGTTTGAAAGACAC
* * *
53873993 TGTTGTACACGGGCAGGCCACACGAGCGTGTGCCATGGCCATGTTTGAAAGTCAG
1 TGTTGTACACGGGCAGGCCACACGAGCGTGTGCCATGGACATGTTTGAAAGACAC
*
53874048 TGTTGCACACGG
1 TGTTGTACACGG
53874060 ACTAAGGGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.21, C:0.22, G:0.33, T:0.24
Consensus pattern (55 bp):
TGTTGTACACGGGCAGGCCACACGAGCGTGTGCCATGGACATGTTTGAAAGACAC
Found at i:53894350 original size:22 final size:22
Alignment explanation
Indices: 53894323--53894399 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
53894313 CATGCATATG
53894323 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
53894345 TGTGATGAATG-TGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
53894370 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCCGAATGGCCAA
53894392 TGTGATAA
1 TGTGATAA
53894400 ATGTGAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 16 0.37
23 10 0.23
24 9 0.21
25 8 0.19
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:53894365 original size:47 final size:47
Alignment explanation
Indices: 53894296--53894487 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
53894286 AGCCAAGGCA
*
53894296 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53894343 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53894390 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
53894437 AATGTGATGAACGTGGAA-GTGTATATATGTGATAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
53894484 AATG
1 AATG
53894488 CGAAATGTGT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 127 0.98
48 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:53894444 original size:22 final size:22
Alignment explanation
Indices: 53894323--53894444 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
53894313 CATGCATATG
*
53894323 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
53894345 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
* *
53894370 TGTGATAAGGCCGAATGACCAA
1 TGTGATAAGGCAGAATGGCCAA
*
53894392 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
53894417 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
53894439 TGTGAT
1 TGTGAT
53894445 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 36
0.64 0.06 0.31
Matches are distributed among these distances:
22 22 0.29
23 19 0.25
24 18 0.24
25 16 0.21
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:53894519 original size:46 final size:46
Alignment explanation
Indices: 53894461--53894551 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
53894451 GGAAGTGTAT
* *
53894461 ATATGTGATAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
53894507 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
53894552 AGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGATAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:53896318 original size:40 final size:40
Alignment explanation
Indices: 53896258--53897349 Score: 2094
Period size: 40 Copynumber: 27.3 Consensus size: 40
53896248 ATTCGAATGA
*
53896258 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
** *
53896298 TATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
* *
53896338 TATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896378 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896418 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896458 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896498 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896538 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896578 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896618 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896658 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896698 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896738 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896778 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896818 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896858 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896898 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896938 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53896978 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897018 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897058 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897098 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897138 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897178 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897218 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
*
53897258 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
* * *
53897298 TATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
53897338 TATCCGGGCTAA
1 TATCCGGGCTAA
53897350 ACCTTGAAGG
Statistics
Matches: 1044, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 1044 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAACATTCGTGCTAGTGATG
Found at i:53897486 original size:57 final size:57
Alignment explanation
Indices: 53897377--53897487 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
53897367 GCTGGAATCA
* *
53897377 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* * * **
53897434 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCACTATGTGTGTGAAATCAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGT
53897488 CAGTGGGCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:53905035 original size:47 final size:47
Alignment explanation
Indices: 53904970--53905213 Score: 371
Period size: 47 Copynumber: 5.2 Consensus size: 47
53904960 CATGGAAACA
* * ** *
53904970 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGCCTATGGCATCGG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCAG
*
53905018 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCGTCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
*
53905065 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCGTCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
53905112 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGAATCAA
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* **
53905159 TGTGATATGTGCTTCTGTGTAAGACCATATCCAGGATATGGCATCAG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
53905206 TGTGATAT
1 TGTGATAT
53905214 ATGATCCATG
Statistics
Matches: 182, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 171 0.94
48 11 0.06
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (47 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:53923503 original size:19 final size:19
Alignment explanation
Indices: 53923446--53923504 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
53923436 GCTTATGCGC
*
53923446 CAAGATGCACC-TCGTGTGT
1 CAAGATGC-CCTTTGTGTGT
* *
53923465 CAAGATGCCCTTTATATGT
1 CAAGATGCCCTTTGTGTGT
* *
53923484 CAATATGCGCTTTGTGTGT
1 CAAGATGCCCTTTGTGTGT
53923503 CA
1 CA
53923505 GGACGCACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 2 0.06
19 30 0.94
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (19 bp):
CAAGATGCCCTTTGTGTGT
Found at i:53927220 original size:10 final size:10
Alignment explanation
Indices: 53927205--53927244 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
53927195 GGGTATTTTA
53927205 TATTTAAAAT
1 TATTTAAAAT
*
53927215 TATTTAAAAA
1 TATTTAAAAT
* *
53927225 AATATAAAAT
1 TATTTAAAAT
53927235 TATTTAAAAT
1 TATTTAAAAT
53927245 AATAAATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:53927251 original size:17 final size:20
Alignment explanation
Indices: 53927209--53927248 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53927199 ATTTTATATT
53927209 TAAAATTATTTAAAAAAATA
1 TAAAATTATTTAAAAAAATA
*
53927229 TAAAATTATTTAAAATAATA
1 TAAAATTATTTAAAAAAATA
53927249 AATAATCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATTATTTAAAAAAATA
Found at i:53927339 original size:20 final size:19
Alignment explanation
Indices: 53927276--53927377 Score: 63
Period size: 18 Copynumber: 5.5 Consensus size: 19
53927266 ATAAAATTAA
53927276 TAAAAA-ATAAAAAAATTT
1 TAAAAATATAAAAAAATTT
* *
53927294 GCAAAATTTATGAAAAAAA-TT
1 -TAAAA-ATAT-AAAAAAATTT
53927315 T-AAAATATAAAAAAATTAT
1 TAAAAATATAAAAAAATT-T
* * *
53927334 TAAAAATAT--AGAAAGTG
1 TAAAAATATAAAAAAATTT
* *
53927351 CAAAAATAT-AGAAAATTT
1 TAAAAATATAAAAAAATTT
53927369 TAAAAATAT
1 TAAAAATAT
53927378 TATTACAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
17 15 0.24
18 21 0.33
19 9 0.14
20 7 0.11
21 4 0.06
22 7 0.11
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
TAAAAATATAAAAAAATTT
Found at i:53927373 original size:17 final size:17
Alignment explanation
Indices: 53927308--53927373 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
53927298 AATTTATGAA
* *
53927308 AAAAATTTAAAATATAAA
1 AAAATTTTAAAATAT-AG
53927326 AAAATTATTAAAAATATAG
1 AAAATT-TT-AAAATATAG
* ***
53927345 AAAGTGCAAAAATATAG
1 AAAATTTTAAAATATAG
53927362 AAAATTTTAAAA
1 AAAATTTTAAAA
53927374 ATATTATTAC
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 7 0.19
20 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAATTTTAAAATATAG
Found at i:53927408 original size:21 final size:21
Alignment explanation
Indices: 53927351--53927410 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
53927341 ATAGAAAGTG
*
53927351 CAAAAAT-ATAGAAAATT-TT
1 CAAAAATAATATAAAATTATT
*
53927370 -AAAAATATTATTACAAATTATT
1 CAAAAATAATA-TA-AAATTATT
53927392 CAAAAATAATATAAAATTA
1 CAAAAATAATATAAAATTA
53927411 AAAATAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 1 0.03
21 11 0.33
22 4 0.12
23 9 0.27
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
CAAAAATAATATAAAATTATT
Found at i:53927747 original size:10 final size:10
Alignment explanation
Indices: 53927729--53927791 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
53927719 TAAGCGTCTA
*
53927729 ATAACATTTT
1 ATAATATTTT
53927739 ATAATATTTT
1 ATAATATTTT
*
53927749 -TAAAATTTTT
1 ATAATA-TTTT
53927759 ATAA-ATTTT
1 ATAATATTTT
*
53927768 TTAATAATTTT
1 ATAAT-ATTTT
*
53927779 -CAATATTTT
1 ATAATATTTT
53927788 ATAA
1 ATAA
53927792 AATCATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.37
10 19 0.44
11 8 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
ATAATATTTT
Found at i:53927760 original size:20 final size:21
Alignment explanation
Indices: 53927735--53927778 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
53927725 TCTAATAACA
53927735 TTTTAT-AATATTTTTAA-AAT
1 TTTTATAAAT-TTTTTAATAAT
53927755 TTTTATAAATTTTTTAATAAT
1 TTTTATAAATTTTTTAATAAT
53927776 TTT
1 TTT
53927779 CAATATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATAAATTTTTTAATAAT
Found at i:53927766 original size:29 final size:29
Alignment explanation
Indices: 53927729--53927792 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
53927719 TAAGCGTCTA
*
53927729 ATAACATTTTATAATATTTTTAAA-ATTTTT
1 ATAA-ATTTTATAATAATTTTAAATA-TTTT
* *
53927759 ATAAATTTTTTAATAATTTTCAATATTTT
1 ATAAATTTTATAATAATTTTAAATATTTT
53927788 ATAAA
1 ATAAA
53927793 ATCATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (29 bp):
ATAAATTTTATAATAATTTTAAATATTTT
Found at i:53927890 original size:38 final size:38
Alignment explanation
Indices: 53927806--53927890 Score: 86
Period size: 38 Copynumber: 2.3 Consensus size: 38
53927796 ATAATTATTA
* **
53927806 CATTTTT--TTTATATATTTTTTAATTTATATTTTTAT
1 CATTTTTAATTTATATAATTTTTAATTTATAAATTTAT
* * *
53927842 CATATATAATTTATATAATTTTTATTTTAATAAATTT-T
1 CATTTTTAATTTATATAATTTTTAATTT-ATAAATTTAT
53927880 CATTTTTAATT
1 CATTTTTAATT
53927891 ATTTTTAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
36 5 0.13
38 27 0.71
39 6 0.16
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (38 bp):
CATTTTTAATTTATATAATTTTTAATTTATAAATTTAT
Found at i:53928432 original size:29 final size:29
Alignment explanation
Indices: 53928399--53928464 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
53928389 ATTTTAGAAA
53928399 ATTTTTAAAATTTTAACTTTTTAATATAT
1 ATTTTTAAAATTTTAACTTTTTAATATAT
* * *
53928428 A-TTTTATAATTTTTAATTTTTTTATATAT
1 ATTTTTA-AAATTTTAACTTTTTAATATAT
53928457 -TTTTTAAA
1 ATTTTTAAA
53928465 TATAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTAAAATTTTAACTTTTTAATATAT
Found at i:53928472 original size:27 final size:27
Alignment explanation
Indices: 53928423--53928491 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
53928413 AACTTTTTAA
* * *
53928423 TATATATTTTATAATTTTTAATTTTTT
1 TATATATTTTATAAATATAAATTTTTT
*
53928450 TATATATTTTTTAAATATAAA--TTTT
1 TATATATTTTATAAATATAAATTTTTT
53928475 TAT-T-TTTTATAAATATA
1 TATATATTTTATAAATATA
53928492 TTGAATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 7 0.19
27 17 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TATATATTTTATAAATATAAATTTTTT
Found at i:53928692 original size:18 final size:19
Alignment explanation
Indices: 53928655--53928692 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
53928645 AAATCGAGTT
*
53928655 ATTTGAGTAGACTCAAATA
1 ATTTGAATAGACTCAAATA
*
53928674 ATTTGAATA-ACTTAAATA
1 ATTTGAATAGACTCAAATA
53928692 A
1 A
53928693 CTCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (19 bp):
ATTTGAATAGACTCAAATA
Found at i:53930120 original size:13 final size:13
Alignment explanation
Indices: 53930102--53930126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53930092 ATTAGCTTGA
53930102 ATGAAACATGTTC
1 ATGAAACATGTTC
53930115 ATGAAACATGTT
1 ATGAAACATGTT
53930127 TCTGGTTGCA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAAACATGTTC
Found at i:53933410 original size:26 final size:26
Alignment explanation
Indices: 53933380--53933439 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
53933370 TTCTTTTCGG
53933380 TCTAATTTCATTAAACATCCTCGACC
1 TCTAATTTCATTAAACATCCTCGACC
53933406 TCTAATTTCATTAAACATCCTCGACC
1 TCTAATTTCATTAAACATCCTCGACC
53933432 TCTAATTT
1 TCTAATTT
53933440 AAAATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.38
Consensus pattern (26 bp):
TCTAATTTCATTAAACATCCTCGACC
Found at i:53942456 original size:38 final size:38
Alignment explanation
Indices: 53942397--53942575 Score: 205
Period size: 38 Copynumber: 4.7 Consensus size: 38
53942387 GATACAATTA
* * * *
53942397 CACCAGCACAAAGCCTACTAGGCACATAGCCCAAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* *
53942435 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* * *
53942473 CAACGACACAAAGCCTGCTAGGCACAAAGCCCGAATAC
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
** ** * *
53942511 CATTGGCACAAAATCTACTAGGCACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* *
53942549 CACCAGTACAAAGCCTGCTAGGCACAA
1 CACCGGCACAAAGCCTGCTAGGCACAA
53942576 TGTAACATCC
Statistics
Matches: 115, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 115 1.00
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
Found at i:53942504 original size:76 final size:76
Alignment explanation
Indices: 53942397--53942575 Score: 234
Period size: 76 Copynumber: 2.4 Consensus size: 76
53942387 GATACAATTA
* * * * * *
53942397 CACCAGCACAAAGCCTACTAGGCACATAGCCCAAATATCACCGGCACAAAGCCTGCTAGGCATAA
1 CACCAGCACAAAGCCTGCTAGGCACAAAGCCCAAATACCACCGGCACAAAACCTACTAGGCACAA
53942462 AGCCTGAATAT
66 AGCCTGAATAT
* * ** *
53942473 CAAC-GACACAAAGCCTGCTAGGCACAAAGCCCGAATACCATTGGCACAAAATCTACTAGGCACA
1 CACCAG-CACAAAGCCTGCTAGGCACAAAGCCCAAATACCACCGGCACAAAACCTACTAGGCACA
53942537 AAGCCTGAATAT
65 AAGCCTGAATAT
*
53942549 CACCAGTACAAAGCCTGCTAGGCACAA
1 CACCAGCACAAAGCCTGCTAGGCACAA
53942576 TGTAACATCC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
75 1 0.01
76 86 0.98
77 1 0.01
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (76 bp):
CACCAGCACAAAGCCTGCTAGGCACAAAGCCCAAATACCACCGGCACAAAACCTACTAGGCACAA
AGCCTGAATAT
Found at i:53943687 original size:17 final size:16
Alignment explanation
Indices: 53943647--53943688 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53943637 TGAATGTTGT
53943647 ATTGTATG-TAATGTG
1 ATTGTATGTTAATGTG
53943662 ATT-TATGTTAATGTG
1 ATTGTATGTTAATGTG
*
53943677 CCTTGTATGTTA
1 -ATTGTATGTTA
53943689 TGATAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 10 0.43
16 2 0.09
17 7 0.30
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (16 bp):
ATTGTATGTTAATGTG
Found at i:53952145 original size:19 final size:19
Alignment explanation
Indices: 53952121--53952161 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
53952111 TCATATTGGA
53952121 AGAATGAATTTACCCGAAG
1 AGAATGAATTTACCCGAAG
53952140 AGAATGAATTTACCCGAAG
1 AGAATGAATTTACCCGAAG
53952159 AGA
1 AGA
53952162 TTAAGGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AGAATGAATTTACCCGAAG
Found at i:53955561 original size:142 final size:138
Alignment explanation
Indices: 53955295--53955563 Score: 316
Period size: 142 Copynumber: 1.9 Consensus size: 138
53955285 TTAGGTGATA
* * * * *
53955295 TGTGTTCTAGTGTAAGACATGTCTGAGACATGCATCGGCCATATTATGGGAGCCAGTGTAAGACA
1 TGTGTTCTAGTGTAAGACATGCCTGAGACATGCATCGACCATATGATGAGAGCCAGTGCAAGACA
53955360 TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
66 TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
53955425 TAGCTTGT
131 TAGCTTGT
*
53955433 TGTGTGTC-AGTGTAAGACCTGCCTGAGACATGGCATCGACACCGATA-GATGAGAGCCAGTGCA
1 TGTGT-TCTAGTGTAAGACATGCCTGAGACAT-GCATCG--ACC-ATATGATGAGAGCCAGTGCA
* * * *
53955496 AGACCTGTCTGGGATATGACATC-AGCCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCT-AG
61 AGACATGTCTGGGAGATG-CATCGA-CCTCGAGATAT-ACAAGCT-AGTGTAAAACCTGTCTGA-
53955557 GACATGG
121 GACATGG
53955564 AATCGATTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
138 26 0.23
139 8 0.07
141 34 0.31
142 42 0.38
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (138 bp):
TGTGTTCTAGTGTAAGACATGCCTGAGACATGCATCGACCATATGATGAGAGCCAGTGCAAGACA
TGTCTGGGAGATGCATCGACCTCGAGATATACAAGCTAGTGTAAAACCTGTCTGAGACATGGCGT
TAGCTTGT
Found at i:53957372 original size:22 final size:22
Alignment explanation
Indices: 53957347--53957390 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53957337 TTATGGGCAA
53957347 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
53957369 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
53957391 TAAGTGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (22 bp):
GATGAAGGCTTGGAAAATAGCC
Found at i:53958697 original size:14 final size:14
Alignment explanation
Indices: 53958654--53958689 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
53958644 CCCTACTCCC
*
53958654 TTAATAAAAAGATA
1 TTAATGAAAAGATA
53958668 TTAATGAAAAGATA
1 TTAATGAAAAGATA
53958682 TTAATGAA
1 TTAATGAA
53958690 TGAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (14 bp):
TTAATGAAAAGATA
Found at i:53961233 original size:46 final size:44
Alignment explanation
Indices: 53961129--53961236 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
53961119 TGTCTTTGAC
** * * *
53961129 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
53961173 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
53961219 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
53961237 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:53971153 original size:29 final size:29
Alignment explanation
Indices: 53971111--53971168 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
53971101 AGCCATACGG
53971111 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
53971140 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
53971169 TCTAGGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AATGTACCTCTTATTTATTCAAAATCCTT
Found at i:53972044 original size:25 final size:25
Alignment explanation
Indices: 53972016--53972065 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
53972006 TGAGATAATT
* *
53972016 CACCACAA-AGGCTTTTCAAATGATA
1 CACCACAAGA-GCTTTCCAAAGGATA
53972041 CACCACAAGAGCTTTCCAAAGGATA
1 CACCACAAGAGCTTTCCAAAGGATA
53972066 TTCCATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (25 bp):
CACCACAAGAGCTTTCCAAAGGATA
Found at i:53972078 original size:25 final size:24
Alignment explanation
Indices: 53972050--53972115 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
53972040 ACACCACAAG
* *
53972050 AGCTTTCCAAAGGATATT-CCATAA
1 AGCTTCCCAAAGAAT-TTGCCATAA
53972074 TAGCTTCCCAAAGAATTTGCCATAA
1 -AGCTTCCCAAAGAATTTGCCATAA
53972099 AGGCTTCCCAAAGAATT
1 A-GCTTCCCAAAGAATT
53972116 CACCACAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 3 0.08
25 34 0.92
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (24 bp):
AGCTTCCCAAAGAATTTGCCATAA
Found at i:54008574 original size:13 final size:13
Alignment explanation
Indices: 54008556--54008583 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54008546 GTTATTCATA
54008556 ATTAATATGAATT
1 ATTAATATGAATT
54008569 ATTAATATGAATT
1 ATTAATATGAATT
54008582 AT
1 AT
54008584 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:54008814 original size:18 final size:18
Alignment explanation
Indices: 54008791--54008827 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
54008781 ATATTTAATA
54008791 TCTTTTTTTATATCTTAG
1 TCTTTTTTTATATCTTAG
54008809 TCTTTTTTTATATCTTAG
1 TCTTTTTTTATATCTTAG
54008827 T
1 T
54008828 TATATTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (18 bp):
TCTTTTTTTATATCTTAG
Found at i:54008895 original size:17 final size:17
Alignment explanation
Indices: 54008873--54008911 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
54008863 CTGACTCCAT
*
54008873 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
54008890 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
54008907 TTTTA
1 TTTTA
54008912 CATCTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:54009020 original size:152 final size:152
Alignment explanation
Indices: 54008848--54009137 Score: 580
Period size: 152 Copynumber: 1.9 Consensus size: 152
54008838 TTATATTAAT
54008848 ATATTACTAATATTACTGACTCCATTTTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTAC
1 ATATTACTAATATTACTGACTCCATTTTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTAC
54008913 ATCTAAATGATATAGAAATAGAAAATTTTTTATATAGATTTCATTTAATCGATCGATTTAATAGA
66 ATCTAAATGATATAGAAATAGAAAATTTTTTATATAGATTTCATTTAATCGATCGATTTAATAGA
54008978 TTTAATATGTTATATTAATATA
131 TTTAATATGTTATATTAATATA
54009000 ATATTACTAATATTACTGACTCCATTTTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTAC
1 ATATTACTAATATTACTGACTCCATTTTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTAC
54009065 ATCTAAATGATATAGAAATAGAAAATTTTTTATATAGATTTCATTTAATCGATCGATTTAATAGA
66 ATCTAAATGATATAGAAATAGAAAATTTTTTATATAGATTTCATTTAATCGATCGATTTAATAGA
54009130 TTTAATAT
131 TTTAATAT
54009138 AGATTAAATT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 138 1.00
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (152 bp):
ATATTACTAATATTACTGACTCCATTTTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTAC
ATCTAAATGATATAGAAATAGAAAATTTTTTATATAGATTTCATTTAATCGATCGATTTAATAGA
TTTAATATGTTATATTAATATA
Found at i:54009047 original size:17 final size:17
Alignment explanation
Indices: 54009025--54009063 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
54009015 CTGACTCCAT
*
54009025 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
54009042 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
54009059 TTTTA
1 TTTTA
54009064 CATCTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:54009159 original size:31 final size:31
Alignment explanation
Indices: 54009124--54009183 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
54009114 CGATCGATTT
54009124 AATAGATTTAATATAGATTAAATTTATTTTG
1 AATAGATTTAATATAGATTAAATTTATTTTG
54009155 AATAGATTTAATATAGATTAAATTTATTT
1 AATAGATTTAATATAGATTAAATTTATTT
54009184 CTATTTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (31 bp):
AATAGATTTAATATAGATTAAATTTATTTTG
Found at i:54009294 original size:15 final size:17
Alignment explanation
Indices: 54009274--54009305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54009264 TCATTTCATT
54009274 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
54009289 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
54009306 AGATTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:54014697 original size:43 final size:42
Alignment explanation
Indices: 54014640--54014741 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
54014630 TCCAGTTTTG
*
54014640 ACACGGCCTGGACACACGGGCGTGTCTACTGGTCATGTGTGAC
1 ACACGGCCT-GACACACGAGCGTGTCTACTGGTCATGTGTGAC
*
54014683 ACACGGCCTAGACACACGAGCGTGTCTACTGGTCGTGTGTGAC
1 ACACGGCCT-GACACACGAGCGTGTCTACTGGTCATGTGTGAC
*
54014726 ACACGGGCTGACACAC
1 ACACGGCCTGACACAC
54014742 AGGCCTCCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 7 0.13
43 48 0.87
ACGTcount: A:0.22, C:0.29, G:0.30, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGACACACGAGCGTGTCTACTGGTCATGTGTGAC
Found at i:54028429 original size:46 final size:46
Alignment explanation
Indices: 54028379--54028554 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
54028369 TGGTTGAGCA
54028379 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54028425 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
54028470 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54028518 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54028555 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54028535 original size:93 final size:93
Alignment explanation
Indices: 54028376--54028547 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54028366 GGATGGTTGA
* *
54028376 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54028441 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
54028469 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54028534 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
54028548 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54031327 original size:47 final size:45
Alignment explanation
Indices: 54031223--54031347 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 45
54031213 TGCACCGATT
* **
54031223 CCATGTCCCAGACATAGTCTTACACTGACACATCTCG-TAGCGGAT-
1 CCATGTCCCAGACATAGTCTTACACTGACTC-TCTCGAT-GTTGATG
*
54031268 TCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCGATGTTGATG
1 CCATGTCCCAGACATAGTCTTACACT-G-ACTC-TCTCGATGTTGATG
*
54031315 CCATGTCCCAGACATGGTCTTACACTGACTCTC
1 CCATGTCCCAGACATAGTCTTACACTGACTCTC
54031348 ATAATGTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
44 10 0.14
45 17 0.25
46 16 0.23
47 16 0.23
48 10 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CCATGTCCCAGACATAGTCTTACACTGACTCTCTCGATGTTGATG
Found at i:54042422 original size:13 final size:13
Alignment explanation
Indices: 54042404--54042430 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54042394 CTCAGATCGA
54042404 ACAGCCGTATCAG
1 ACAGCCGTATCAG
54042417 ACAGCCGTATCAG
1 ACAGCCGTATCAG
54042430 A
1 A
54042431 AGTCCCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (13 bp):
ACAGCCGTATCAG
Found at i:54049903 original size:46 final size:44
Alignment explanation
Indices: 54049816--54050037 Score: 200
Period size: 46 Copynumber: 4.8 Consensus size: 44
54049806 TATATCTATA
* *
54049816 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCT-GTAGG
*
54049862 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCT-GTAGG
* * *
54049908 CCGATGCATGTCCCAAACATGTCTTACACTAGGGCTCGTCT-TAATG
1 CCGATGCATGTCCCAGACATGTCTTACACT--GGCTCATCTGT-AGG
* *
54049954 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CTCAT-CTGTAGG
* *
54050002 TCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
54050038 CACAAGTGGC
Statistics
Matches: 148, Mismatches: 15, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
44 16 0.11
45 15 0.10
46 66 0.45
47 26 0.18
48 23 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCATCTGTAGG
Found at i:54049980 original size:94 final size:92
Alignment explanation
Indices: 54049863--54050033 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
54049853 ATCTCGTAGT
*
54049863 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAAAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAAAC
54049926 ATGTCTTACACTAGGGCTCGTCTTAATGC
64 ATGTCTTACACTAGGGCTCGTCTTAATGC
* * * *
54049955 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAAC
54050020 ATGTCTTACACTAG
64 ATGTCTTACACTAG
54050034 CTCACACAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 50 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACAT
GTCTTACACTAGGGCTCGTCTTAATGC
Found at i:54056032 original size:89 final size:89
Alignment explanation
Indices: 54055881--54056061 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 89
54055871 ACATAGAAAG
*
54055881 AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
1 AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
54055946 TCCATTACCATTGCTCTCGATTAC
66 TCCATTACCATTGCTCTCGATTAC
* * *
54055970 AAGGCATCAATTATAATAAGACCTTTTCTCCAGTAGCCATGCTCAATTTTATCTGTGTACTATTA
1 AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
*
54056035 TCCATTACCATTGCTCTTGATTAC
66 TCCATTACCATTGCTCTCGATTAC
54056059 AAG
1 AAG
54056062 ATTTGGCAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (89 bp):
AAGGCATCAATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
TCCATTACCATTGCTCTCGATTAC
Found at i:54060332 original size:20 final size:20
Alignment explanation
Indices: 54060293--54060333 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
54060283 CCCCTGCAAT
*
54060293 CTAAAATTTTCAAATTTTTC
1 CTAAAATTTTCAAATGTTTC
54060313 CTAAAA-TTTCATAATGTTTC
1 CTAAAATTTTCA-AATGTTTC
54060333 C
1 C
54060334 GATTTAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.46
Consensus pattern (20 bp):
CTAAAATTTTCAAATGTTTC
Found at i:54062895 original size:25 final size:25
Alignment explanation
Indices: 54062866--54062948 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
54062856 GAATAAAAAC
*
54062866 TCACCACAACAGCTTTCCAAATAAT
1 TCACCACAAAAGCTTTCCAAATAAT
** *
54062891 TCACCGTAAAAGCTTTCCAAATGAT
1 TCACCACAAAAGCTTTCCAAATAAT
* ** *
54062916 ACACCACAAGGGC-TTCCAAAAGAAT
1 TCACCACAAAAGCTTTCC-AAATAAT
54062941 TCACCACA
1 TCACCACA
54062949 TAGGGTTTCT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
24 4 0.09
25 41 0.91
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (25 bp):
TCACCACAAAAGCTTTCCAAATAAT
Found at i:54062962 original size:25 final size:25
Alignment explanation
Indices: 54062917--54062967 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
54062907 CCAAATGATA
54062917 CACCACAAGGGCTTCCAAAAGAATT
1 CACCACAAGGGCTTCCAAAAGAATT
* *
54062942 CACCACATAGGG-TTTCTAAAGAATT
1 CACCACA-AGGGCTTCCAAAAGAATT
54062967 C
1 C
54062968 TTGATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (25 bp):
CACCACAAGGGCTTCCAAAAGAATT
Found at i:54070316 original size:16 final size:18
Alignment explanation
Indices: 54070276--54070316 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
54070266 TTATCTCGAT
*
54070276 AATCAATTCAAATATGTC
1 AATCAACTCAAATATGTC
54070294 AATCAACTCAAATA-GTC
1 AATCAACTCAAATATGTC
54070311 -ATCAAC
1 AATCAAC
54070317 AACTTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (18 bp):
AATCAACTCAAATATGTC
Found at i:54072224 original size:8 final size:8
Alignment explanation
Indices: 54072200--54072229 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
54072190 CGGTGTAGTT
54072200 ATATATAC
1 ATATATAC
54072208 ATATA-AC
1 ATATATAC
54072215 ATATATAC
1 ATATATAC
54072223 ATATATA
1 ATATATA
54072230 TGAGTAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATATAC
Found at i:54104760 original size:14 final size:13
Alignment explanation
Indices: 54104742--54104766 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54104732 GATTTTGAAA
54104742 AAAAAATAGGCTC
1 AAAAAATAGGCTC
54104755 AAAAAATAGGCT
1 AAAAAATAGGCT
54104767 TGGACAAGAA
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:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAATAGGCTC
Found at i:54105242 original size:6 final size:6
Alignment explanation
Indices: 54105231--54105257 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54105221 TGATGTATTA
54105231 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
54105258 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:54105814 original size:23 final size:24
Alignment explanation
Indices: 54105755--54105821 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
54105745 GCGCAAATGA
54105755 TTATTTTATATT--AAT-TTTTTTG
1 TTATTTT-TATTAAAATATTTTTTG
* *
54105777 TTTTTTTTAAATAAAATATTTTTT-
1 TTATTTTT-ATTAAAATATTTTTTG
54105801 TTATTTTTATTAAAAATATTT
1 TTATTTTTATT-AAAATATTT
54105822 AAATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.03
22 8 0.22
23 2 0.06
24 19 0.53
25 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (24 bp):
TTATTTTTATTAAAATATTTTTTG
Found at i:54106156 original size:23 final size:23
Alignment explanation
Indices: 54106122--54106185 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
54106112 TCTATACCGA
* *
54106122 AAGAGAGAAAAAAAAATAGAGAA-
1 AAGAAAGAAAAAAAAAGA-AGAAG
*
54106145 AGGAGAAGAAAAAAAGAAGAAGAAG
1 AAGA-AAGAAAAAAA-AAGAAGAAG
54106170 AAGAAAGAAAAAAAAA
1 AAGAAAGAAAAAAAAA
54106186 AGGTAATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.15
24 23 0.68
25 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
AAGAAAGAAAAAAAAAGAAGAAG
Found at i:54106427 original size:60 final size:61
Alignment explanation
Indices: 54106335--54106468 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
54106325 TGAATGTAAT
* * * *
54106335 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
54106396 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
54106457 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
54106469 GTTTAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
60 55 0.85
61 10 0.15
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
Found at i:54109738 original size:33 final size:33
Alignment explanation
Indices: 54109673--54109767 Score: 84
Period size: 33 Copynumber: 2.9 Consensus size: 33
54109663 CATCCTGACT
* * * * **
54109673 CGTATCCACCTCAGCACTCCGCTCCTTTCGGCC
1 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
54109706 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
1 CGTATCCACCACCGTACTCCACTCCTCCCGGCC
* * * *
54109739 CATAT-CATTCGCCGTACTCCACTTCTCCC
1 CGTATCCA-CCACCGTACTCCACTCCTCCC
54109768 AGCTCAAGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 2 0.04
33 49 0.96
ACGTcount: A:0.15, C:0.49, G:0.12, T:0.24
Consensus pattern (33 bp):
CGTATCCACCACCGTACTCCACTCCTCCCGGCC
Found at i:54115038 original size:20 final size:21
Alignment explanation
Indices: 54114992--54115038 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
54114982 AACGATATAT
*
54114992 AAATATATACGTATATGTATTA
1 AAATATATACGTATA-GTAATA
54115014 AAATATATACGTA-A-TAATA
1 AAATATATACGTATAGTAATA
54115033 AGAATA
1 A-AATA
54115039 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATAGTAATA
Found at i:54115065 original size:27 final size:26
Alignment explanation
Indices: 54115013--54115065 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
54115003 TATATGTATT
* *
54115013 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
54115039 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
54115066 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:54115066 original size:47 final size:49
Alignment explanation
Indices: 54114974--54115116 Score: 131
Period size: 47 Copynumber: 3.0 Consensus size: 49
54114964 ATAACTAATA
*
54114974 ATAATAATAACGATATATAAATATATACGTATATGTATTAAAATATATAC
1 ATAATAATAACGATATAAAAATATATACG-ATATGTATTAAAATATATAC
* *
54115024 GTAATAATAA-GA-ATAAAAAGTATATAC-ATA-GTATTAAAAATATGTAC
1 ATAATAATAACGATATAAAAA-TATATACGATATGTATT-AAAATATATAC
* * *
54115071 ATAAT-ATAATG-T-TAAAAATACATAC-ATAATATAGTTAAAATATATA
1 ATAATAATAACGATATAAAAATATATACGAT-ATGTA-TTAAAATATATA
54115117 TATATACATA
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
45 8 0.10
46 16 0.20
47 29 0.37
48 8 0.10
49 9 0.11
50 9 0.11
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (49 bp):
ATAATAATAACGATATAAAAATATATACGATATGTATTAAAATATATAC
Found at i:54115085 original size:25 final size:23
Alignment explanation
Indices: 54114992--54115461 Score: 154
Period size: 23 Copynumber: 19.7 Consensus size: 23
54114982 AACGATATAT
* *
54114992 AAATATATACGT-ATAT-GTATTA
1 AAATATATACATAATATAGT-TAA
* *
54115014 AAATATATACGTAATAATAAGAATAA
1 AAATATATACATAAT-AT-AG-TTAA
*
54115040 AAAGTATATACAT-A-GTA-TTAA
1 AAA-TATATACATAATATAGTTAA
*
54115061 AAATATGTACATAATATAATGTTAA
1 AAATATATACATAATAT-A-GTTAA
*
54115086 AAATACATACATAATATAGTTAA
1 AAATATATACATAATATAGTTAA
* *
54115109 AATATATATATATACATA-AGAT-A
1 AA-ATATATACATA-ATATAGTTAA
* * * * *
54115132 ATATGTA-AGAAAAAATA-TATAA
1 AAATATATACATAATATAGT-TAA
* * *
54115154 ATAATATAGTA-TTAAAATATTTACA
1 A-AATATA-TACATAATATAGTTA-A
* * * **
54115179 TAATATATACATATTAGAAATAA
1 AAATATATACATAATATAGTTAA
*
54115202 AAA-A-ATGACTATTAATAATA-CTACA
1 AAATATAT-AC-A-TAAT-ATAGTTA-A
*
54115227 TAAATATATGCATATATATA-TTAA
1 -AAATATATACATA-ATATAGTTAA
* *
54115251 AGATAAATACATAATAATA-TTAA
1 AAATATATACATAAT-ATAGTTAA
* *
54115274 AAGTATGTACATAATATAGTGTTAA
1 AAATATATACATAATATA--GTTAA
*
54115299 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG---TT-AA
* *
54115326 AAATATATACATAAGATAATATAA
1 AAATATATACATAATATAGT-TAA
54115350 AAATATATACATGAA-ATAGTATAAA
1 AAATATATACAT-AATATAGT-T-AA
54115375 AAATATATA-ACTAATAATA-TTAA
1 AAATATATACA-TAAT-ATAGTTAA
54115398 AAATATATACATAATATA-TATAA
1 AAATATATACATAATATAGT-TAA
* * *
54115421 AAACATATACGATATATATATATTAG
1 AAATATATAC-ATA-ATATA-GTTAA
54115447 AAATA-ATA-ATAATAT
1 AAATATATACATAATAT
54115462 GAAAAAAACT
Statistics
Matches: 345, Mismatches: 52, Indels: 102
0.69 0.10 0.20
Matches are distributed among these distances:
20 10 0.03
21 14 0.04
22 35 0.10
23 82 0.24
24 71 0.21
25 78 0.23
26 24 0.07
27 29 0.08
28 2 0.01
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
AAATATATACATAATATAGTTAA
Found at i:54115289 original size:23 final size:23
Alignment explanation
Indices: 54114992--54115127 Score: 59
Period size: 25 Copynumber: 5.7 Consensus size: 23
54114982 AACGATATAT
* *
54114992 AAATATATACGT-ATATGTATT-A
1 AAATATATACATAATA-ATATTAA
* *
54115014 AAATATATACGTAATAATAAGAATAA
1 AAATATATAC---ATAATAATATTAA
*
54115040 AAAGTATATAC---ATAGTATTAA
1 AAA-TATATACATAATAATATTAA
* *
54115061 AAATATGTACATAATATAATGTTAA
1 AAATATATACAT-A-ATAATATTAA
*
54115086 AAATACATACATAAT-ATAGTTAA
1 AAATATATACATAATAATA-TTAA
*
54115109 AATATATATATATACATAA
1 AA-ATATATACATA-ATAA
54115128 GATAATATGT
Statistics
Matches: 84, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
20 6 0.07
21 10 0.12
22 12 0.14
23 8 0.10
24 10 0.12
25 23 0.27
26 8 0.10
27 7 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATATATACATAATAATATTAA
Found at i:54115437 original size:23 final size:23
Alignment explanation
Indices: 54115257--54115443 Score: 112
Period size: 24 Copynumber: 7.7 Consensus size: 23
54115247 TTAAAGATAA
**
54115257 ATACATAATA-ATATTAAAAGTAT
1 ATACATAATATATA-TAAAAACAT
* * * *
54115280 GTACATAATATAGTGTTAAAAATAC
1 ATACATAATATA-T-ATAAAAACAT
*
54115305 ATACATAATATAGTTATTAAAAAATAT
1 ATACATAATATA--TA-T-AAAAACAT
* *
54115332 ATACATAAGATAATATAAAAATAT
1 ATACATAATAT-ATATAAAAACAT
54115356 ATACATGAA-ATAGTATAAAAA-AT
1 ATACAT-AATATA-TATAAAAACAT
* *
54115379 ATATAACTAATA-ATATTAAAAATAT
1 ATA-CA-TAATATATA-TAAAAACAT
54115404 ATACATAATATATATAAAAACAT
1 ATACATAATATATATAAAAACAT
54115427 ATACGATATATATATAT
1 ATAC-ATA-ATATATAT
54115444 TAGAAATAAT
Statistics
Matches: 135, Mismatches: 12, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
23 34 0.25
24 42 0.31
25 37 0.27
26 4 0.03
27 17 0.13
28 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (23 bp):
ATACATAATATATATAAAAACAT
Found at i:54115651 original size:26 final size:26
Alignment explanation
Indices: 54115622--54115679 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
54115612 ACATTTAAAA
54115622 AATATAACTAAAT-ATAAT-ATAACAAT
1 AATATAA--AAATAATAATGATAACAAT
*
54115648 AATATAAAAATAATAGTGATAACAAT
1 AATATAAAAATAATAATGATAACAAT
54115674 AATATA
1 AATATA
54115680 TATAACATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 21 0.72
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
AATATAAAAATAATAATGATAACAAT
Found at i:54115684 original size:15 final size:15
Alignment explanation
Indices: 54115623--54115686 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
54115613 CATTTAAAAA
*
54115623 ATATAACTA-AATAT
1 ATATAACAATAATAT
54115637 AATATAACAAT-A-AT
1 -ATATAACAATAATAT
54115651 ATA-AA-AATAATAGT
1 ATATAACAATAATA-T
*
54115665 -GATAACAATAATAT
1 ATATAACAATAATAT
54115679 ATATAACA
1 ATATAACA
54115687 TGAATAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 3 0.08
12 3 0.08
13 5 0.13
14 6 0.15
15 22 0.56
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (15 bp):
ATATAACAATAATAT
Found at i:54117433 original size:44 final size:46
Alignment explanation
Indices: 54117329--54117438 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 46
54117319 TCGTTGTGAT
* * * *
54117329 CTGCTCTTCTGCAACTTCA-GAGAGATGAGATCTGGTATCTTCAAT
1 CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
* * *
54117374 CTACTCTGCTACAACTTCAGGA-AGATGA-AACTTGTAACTTCAAC
1 CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
54117418 CTGCTCTGCTGCAACTTCAGG
1 CTGCTCTGCTGCAACTTCAGG
54117439 CAGGCAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 31 0.56
45 22 0.40
46 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (46 bp):
CTGCTCTGCTGCAACTTCAGGAGAGATGAGAACTGGTAACTTCAAC
Found at i:54117474 original size:44 final size:45
Alignment explanation
Indices: 54117426--54117514 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
54117416 ACCTGCTCTG
* *
54117426 CTGCAACTTCAGGCAGGCAAAATCT-GTATCTTCGATCAGCTCCA
1 CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
* *
54117470 CTGCAACTTCAGGAAGGAAAAATTTGGTGTCTTCGATCAGCTCCA
1 CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
54117515 ACCTTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (45 bp):
CTGCAACTTCAGGAAGGAAAAATCTGGTATCTTCGATCAGCTCCA
Found at i:54117762 original size:29 final size:29
Alignment explanation
Indices: 54117710--54117765 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
54117700 AATAGAAAAT
* *
54117710 ACCTCAGCGTGTGATCCGAGGCTCAACTC
1 ACCTCAGCGTATGATCCGAAGCTCAACTC
54117739 ACCTCAGCGTATGA-CCTGAAGCTCAAC
1 ACCTCAGCGTATGATCC-GAAGCTCAAC
54117766 ACATCTCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.20
Consensus pattern (29 bp):
ACCTCAGCGTATGATCCGAAGCTCAACTC
Found at i:54117890 original size:89 final size:89
Alignment explanation
Indices: 54117739--54117901 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 89
54117729 GGCTCAACTC
* * * * *** *
54117739 ACCTCAGCGTATGACCTGAAGCTCAACACATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
54117804 AATTGAAAAATAGAAATTGAAAAT
66 AATTGAAAAATAGAAATTGAAAAT
* * * * * *
54117828 ACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTTAAAAAACAGG
1 ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
54117893 AATTGAAAA
66 AATTGAAAA
54117902 TACCTAGCGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (89 bp):
ACCTCAGCGTATGACCTGAAGCTCAACACACCTCTCGCAATACGAGTTGACTTTTAAAAAACAGA
AATTGAAAAATAGAAATTGAAAAT
Found at i:54117936 original size:74 final size:75
Alignment explanation
Indices: 54117809--54117975 Score: 228
Period size: 74 Copynumber: 2.2 Consensus size: 75
54117799 ACATAAATTG
* * *
54117809 AAAAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
54117874 TTGACTTTTA
66 TTGACTTTTA
* * *
54117884 AAAAACAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
* *
54117948 TTGATTTTTT
66 TTGACTTTTA
** *
54117958 TGAAACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
54117976 ACGGAAATTG
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 59 0.74
75 21 0.26
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTA
Found at i:54117987 original size:88 final size:89
Alignment explanation
Indices: 54117884--54118045 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
54117874 TTGACTTTTA
* * * * * *
54117884 AAAAACAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGGAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGAG
*
54117948 TTGATTTTTTTGAAACATAAATTG
66 TTGACTTTTTTGAAACATAAATTG
* *
54117972 AAAAAC-GGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACAGG-AATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
54118036 GTTGACTTTT
65 GTTGACTTTT
54118046 AAAAAACGAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 2 0.03
88 20 0.32
89 41 0.65
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (89 bp):
AAAAACAGGAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTTTGAAACATAAATTG
Found at i:54118020 original size:163 final size:165
Alignment explanation
Indices: 54117739--54118439 Score: 842
Period size: 163 Copynumber: 4.3 Consensus size: 165
54117729 GGCTCAACTC
* * * * * *
54117739 ACCTCAGCGTATGACCTGAAGCTCAACACATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * * * *
54117804 AATTGAAAAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
54117869 ACGAGTTGA-CTTTTAAAAAACAGGAA-TTGAAAAT
131 ACGAGTTGATCTTTTAAAAAACA-GAATTTGAAAAT
* *
54117903 ACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * *
54117967 AATTGAAAAACGGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
54118032 ACGAGTTGA-CTTTTAAAAAACGAGAA-TTGAAAAT
131 ACGAGTTGATCTTTTAAAAAAC-AGAATTTGAAAAT
* * * * *
54118066 ACCTCAGCATGTAACCTGTGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGAGA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * * *
54118131 AATTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
* * * *
54118196 ATGAGTTGATTTTTTTGAAAAATAGAATTTGAAAAT
131 ACGAGTTGA-TCTTTTAAAAAACAGAATTTGAAAAT
* * * *
54118232 ACCTCGGCATGTGACCCGAGGCTCAACTTACCTCCCGCAATATGAGTTGA--TTTTT----C---
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * *
54118288 ---TGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
* * *
54118350 ATGAGTTGATTTTTTGAAAAACAGAATTTGAAAAT
131 ACGAGTTGATCTTTTAAAAAACAGAATTTGAAAAT
* * * *
54118385 ATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
54118440 GAAAAACAGA
Statistics
Matches: 475, Mismatches: 55, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
153 71 0.15
154 63 0.13
155 3 0.01
163 147 0.31
164 127 0.27
165 4 0.01
166 60 0.13
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (165 bp):
ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
AATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAAT
ACGAGTTGATCTTTTAAAAAACAGAATTTGAAAAT
Found at i:54118135 original size:75 final size:76
Alignment explanation
Indices: 54117972--54118139 Score: 216
Period size: 75 Copynumber: 2.2 Consensus size: 76
54117962 ACATAAATTG
* *
54117972 AAAAACG-GAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
*
54118036 GTTGACTTTTA
66 GTTAACTTTTA
* * * *
54118047 AAAAACGAG-AATTGAAAATACCTCAGCATGTAACCTGTGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
* *
54118111 GTTAATTTTTT
66 GTTAACTTTTA
**
54118122 TGAAA-GAGAAATTGAAAA
1 AAAAACGAGAAATTGAAAA
54118140 ACAGAAATTA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 3 0.04
75 76 0.95
76 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (76 bp):
AAAAACGAGAAATTGAAAATACCTCAACATGTAACCCGAGGCTCAACTCACCTCTCGCAATACGA
GTTAACTTTTA
Found at i:54118413 original size:76 final size:76
Alignment explanation
Indices: 54118133--54118450 Score: 494
Period size: 77 Copynumber: 4.2 Consensus size: 76
54118123 GAAAGAGAAA
* * * * * * *
54118133 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
54118198 GAGTTGATTTTT
66 GAGTTGA-TTTT
* * * *
54118210 TTGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTACCTCCCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
54118275 GAGTTGATTTT
66 GAGTTGATTTT
*
54118286 TCTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 T-TGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATA
54118351 TGAGTTGATTTT
65 TGAGTTGATTTT
*
54118363 TTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
54118428 GAGTTGA-TTT
66 GAGTTGATTTT
54118438 TTGAAAAACAGAA
1 TTGAAAAACAGAA
54118451 ATTAAAACAT
Statistics
Matches: 224, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
75 16 0.07
76 74 0.33
77 134 0.60
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (76 bp):
TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTT
Found at i:54118418 original size:153 final size:152
Alignment explanation
Indices: 54118133--54118457 Score: 508
Period size: 153 Copynumber: 2.1 Consensus size: 152
54118123 GAAAGAGAAA
*
54118133 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGTTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATAT
* *
54118198 GAGTTGATTTTTTTGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTAC
66 GAGTTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
*
54118263 CTCCCGCAATATGAGTTGATTTT
131 CTCCCACAATATGAGTTGA-TTT
* * * * * * *
54118286 TCTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 T-TGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATA
*
54118351 TGAGTTGA-TTTTTTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCA
65 TGAGTTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCA
*
54118415 CCTCTCACAATATGAGTTGATTT
130 CCTCCCACAATATGAGTTGATTT
54118438 TTGAAAAACAGAAATTAAAA
1 TTGAAAAACAGAAATTAAAA
54118458 CATCAAAGTA
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
151 17 0.11
152 4 0.03
153 72 0.46
154 63 0.40
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (152 bp):
TTGAAAAACAGAAATTAAAAATACCTCGACACGTAACCCAAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTTTTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
CTCCCACAATATGAGTTGATTT
Found at i:54130652 original size:20 final size:21
Alignment explanation
Indices: 54130606--54130652 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
54130596 AACGATATAT
*
54130606 AAATATATACGTATATCTATTA
1 AAATATATACGTATA-CTAATA
54130628 AAATATATACGTA-A-TAATA
1 AAATATATACGTATACTAATA
54130647 AGAATA
1 A-AATA
54130653 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATACTAATA
Found at i:54130679 original size:27 final size:26
Alignment explanation
Indices: 54130627--54130679 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
54130617 TATATCTATT
* *
54130627 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
54130653 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
54130680 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:54130693 original size:25 final size:24
Alignment explanation
Indices: 54130665--54130732 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
54130655 AAGTATATAC
*
54130665 ATAGTATTAAAAATATGTACATAAT
1 ATAGT-TTAAAAATATATACATAAT
* *
54130690 ATAGCGTTAAAAATACATACATAAT
1 ATAG-TTTAAAAATATATACATAAT
*
54130715 ATAGTTAAAAAATATATA
1 ATAGTTTAAAAATATATA
54130733 TATACGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
ATAGTTTAAAAATATATACATAAT
Found at i:54130839 original size:14 final size:14
Alignment explanation
Indices: 54130820--54130849 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
54130810 AGAAATAAAA
54130820 AAACGACTATTAAT
1 AAACGACTATTAAT
54130834 AAACGACTATTAAT
1 AAACGACTATTAAT
54130848 AA
1 AA
54130850 TACTACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (14 bp):
AAACGACTATTAAT
Found at i:54130939 original size:25 final size:25
Alignment explanation
Indices: 54130870--54131079 Score: 174
Period size: 23 Copynumber: 8.6 Consensus size: 25
54130860 ATATATGTAT
* *
54130870 ATATA-TATTAAAGATAAATACATA
1 ATATAGTATTAAAAATATATACATA
* *
54130894 ATA-A-TATTAAAAGTATGTACATA
1 ATATAGTATTAAAAATATATACATA
* *
54130917 ATATAGTGTTAAAAATACATACATA
1 ATATAGTATTAAAAATATATACATA
54130942 ATATAGTTATTAAAAATATATATACATA
1 ATATAG-TATT-AAAA-ATATATACATA
* *
54130970 AGATAATA-TAAAAATATATACATGA
1 ATATAGTATTAAAAATATATACAT-A
*
54130995 A-ATAGTATAAAAAATATATA-ACTA
1 ATATAGTATTAAAAATATATACA-TA
54131019 ATA-A-TATTAAAAATATATACATA
1 ATATAGTATTAAAAATATATACATA
* *
54131042 ACATA-TA-TAAAAACATATACGAT-
1 ATATAGTATTAAAAATATATAC-ATA
*
54131065 ATATA-TATTAGAAAT
1 ATATAGTATTAAAAAT
54131080 GATAATAATA
Statistics
Matches: 153, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
23 55 0.36
24 34 0.22
25 40 0.26
26 4 0.03
27 6 0.04
28 14 0.09
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
ATATAGTATTAAAAATATATACATA
Found at i:54130988 original size:28 final size:28
Alignment explanation
Indices: 54130927--54131060 Score: 84
Period size: 24 Copynumber: 5.3 Consensus size: 28
54130917 ATATAGTGTT
* * * *
54130927 AAAA-ATACATACATAATATAGTTATTA
1 AAAATATATATACATAAGATAGATATAA
54130954 AAAATATATATACATAAGATA-ATAT--
1 AAAATATATATACATAAGATAGATATAA
54130979 AAAA-ATATATACATGAA-ATAG-TATAA
1 AAAATATATATACAT-AAGATAGATATAA
*
54131005 AAAATATATA-AC-T-A-ATA-ATAT-T
1 AAAATATATATACATAAGATAGATATAA
*
54131027 AAAA-ATATATACATAACAT--ATATAA
1 AAAATATATATACATAAGATAGATATAA
54131052 AAACATATA
1 AAA-ATATA
54131061 CGATATATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 28
0.73 0.04 0.23
Matches are distributed among these distances:
21 5 0.06
22 6 0.07
23 8 0.09
24 21 0.24
25 12 0.14
26 7 0.08
27 15 0.17
28 14 0.16
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAATATATATACATAAGATAGATATAA
Found at i:54130991 original size:52 final size:47
Alignment explanation
Indices: 54130925--54131060 Score: 159
Period size: 48 Copynumber: 2.7 Consensus size: 47
54130915 TAATATAGTG
* *
54130925 TTAAAAATACATACATAATATAGTTATTAAAAATATATATACATAAGATAATA
1 TTAAAAATATATACATAA-ATAG-TATAAAAAATATATA-AC-T-A-ATAATA
54130978 -TAAAAATATATACATGAAATAGTATAAAAAATATATAACTAATAATA
1 TTAAAAATATATACAT-AAATAGTATAAAAAATATATAACTAATAATA
54131025 TTAAAAATATATACATAACATA-TATAAAAACATATA
1 TTAAAAATATATACATAA-ATAGTATAAAAA-ATATA
54131061 CGATATATAT
Statistics
Matches: 77, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
47 16 0.21
48 24 0.31
49 1 0.01
50 2 0.03
51 14 0.18
52 18 0.23
53 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.32
Consensus pattern (47 bp):
TTAAAAATATATACATAAATAGTATAAAAAATATATAACTAATAATA
Found at i:54131200 original size:15 final size:15
Alignment explanation
Indices: 54131180--54131209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54131170 CTAATAATAT
*
54131180 TAATAATAGATATAA
1 TAATAATAAATATAA
54131195 TAATAATAAATATAA
1 TAATAATAAATATAA
54131210 ATGCATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:54134572 original size:10 final size:10
Alignment explanation
Indices: 54134536--54134592 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
54134526 TAAAAAAATT
*
54134536 AATTTTTTTA
1 AATTTTTTAA
*
54134546 ACTTTATTTACA
1 AATTT-TTTA-A
*
54134558 CATTTTTTAA
1 AATTTTTTAA
54134568 AATTTTTTAA
1 AATTTTTTAA
* *
54134578 AATTATTTAG
1 AATTTTTTAA
54134588 AATTT
1 AATTT
54134593 GTTGTAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 26 0.70
11 7 0.19
12 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (10 bp):
AATTTTTTAA
Done.