Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 255 of 410
Found at i:78747027 original size:30 final size:30
Alignment explanation
Indices: 78746991--78747091 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
78746981 GACAAGATTG
* * *
78746991 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78747021 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
78747049 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
78747078 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78747092 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:78747103 original size:29 final size:28
Alignment explanation
Indices: 78747020--78747095 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
78747010 AAAATTGTAC
* *
78747020 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
78747048 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
78747077 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
78747096 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:78748943 original size:29 final size:29
Alignment explanation
Indices: 78748905--78748961 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
78748895 CATCGGGTTA
78748905 AATATTCTCTCTAAATACTTTCATAAAAT
1 AATATTCTCTCTAAATACTTTCATAAAAT
78748934 AATATTCTCTCTAAATACTTTCATAAAA
1 AATATTCTCTCTAAATACTTTCATAAAA
78748962 CATTGGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (29 bp):
AATATTCTCTCTAAATACTTTCATAAAAT
Found at i:78763719 original size:40 final size:40
Alignment explanation
Indices: 78763627--78763807 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
78763617 CGAATGGTGT
* *
78763627 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAAA
* *
78763668 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAA
* * * * *
78763708 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAA
* * * *
78763748 CCGGGCTAATTCCTGAAGGCAATTGTGTG-AA-TCACTATAA
1 CCGGGCTAAGTCCCGAAGGC-ATT-TGTGCAAGTTACTAAAA
*
78763788 CCGGGCTATGT-CCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
78763808 ATCGAGCGAG
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 7 0.06
40 76 0.65
41 30 0.26
42 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAA
Found at i:78771755 original size:40 final size:40
Alignment explanation
Indices: 78771663--78771841 Score: 205
Period size: 40 Copynumber: 4.5 Consensus size: 40
78771653 CGAATGGTGT
* * *
78771663 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
78771704 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
78771744 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
78771784 CCGGGCTAATTCCTGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
78771824 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
78771842 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 90 0.78
41 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:78771866 original size:80 final size:80
Alignment explanation
Indices: 78771697--78771867 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
78771687 GTGCTAAGTG
* * * * * *
78771697 ACTAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
78771762 GCATTCGTGCGAGTT
66 ACAATCGAGCGAGTC
* * * * * *
78771777 ATTAAATCCGGGCTAATTCCTGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
78771842 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
*
78771857 ACTATATCCGG
1 ACTAAATCCGG
78771868 TTAAATTCCG
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:78775537 original size:27 final size:27
Alignment explanation
Indices: 78775502--78775788 Score: 184
Period size: 27 Copynumber: 10.6 Consensus size: 27
78775492 CAAATTAATG
* *
78775502 AAATGCCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* * * *
78775529 AAGTACCCTCGATTTATAGAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCA
*** * ** * *
78775556 TTTTACCCTTGATTTACAGAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCA
*** * **
78775583 TTTTACCCTCAATTTACAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* **
78775610 AAATACTCTCGATGAGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* * *
78775637 AAATACCCTTGGTTTGTAAAATTGCCA
1 AAATACCCTCGATTTGTAAAATTACCA
*
78775664 AAATACCC-CTGGTTTGTAAAATTACCA
1 AAATACCCTC-GATTTGTAAAATTACCA
* * ** *
78775691 AAATACCCTTGGTTTACAATATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* *
78775718 AAATACCC-CTGGTTTGTAAAATTATCA
1 AAATACCCTC-GATTTGTAAAATTACCA
* * **
78775745 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
78775772 AAATACCC-CTGATTTGT
1 AAATACCCTC-GATTTGT
78775789 GAAAGTATTG
Statistics
Matches: 206, Mismatches: 49, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
27 206 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCA
Found at i:78775644 original size:54 final size:54
Alignment explanation
Indices: 78775595--78775788 Score: 282
Period size: 54 Copynumber: 3.6 Consensus size: 54
78775585 TTACCCTCAA
* * **
78775595 TTTACAAAATTACCAAAATA-CTCTCGATGAGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGG
** *
78775649 TTTGTAAAATTGCCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
* *
78775703 TTTACAATATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
*
78775757 TTTACAAAATTACCAAAATACCCCTGATTTGT
1 TTTACAAAATTACCAAAATACCCCTGGTTTGT
78775789 GAAAGTATTG
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 122 0.98
55 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
Found at i:78775671 original size:81 final size:81
Alignment explanation
Indices: 78775586--78775779 Score: 232
Period size: 81 Copynumber: 2.4 Consensus size: 81
78775576 ATTACCGTTT
** * *
78775586 TACCCTCAATTTACAAAATTACCAAAATACTCTCGATGAGTA-AA-ATTACCAAAATACCCTTGG
1 TACCCTCGGTTTACAAAATTACCAAAATACCCTCG--GAGTACAATATTACCAAAATACCCCTGG
*
78775649 TTTGTAAAATTGCCAAAA
64 TTTGTAAAATTACCAAAA
** * **
78775667 TACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAATATTACCAAAATACCCCTGGT
1 TACCCTC-GGTTTACAAAATTACCAAAATACCCTCGGAGTACAATATTACCAAAATACCCCTGGT
*
78775731 TTGTAAAATTATCAAAA
65 TTGTAAAATTACCAAAA
*
78775748 TACCCTTGGTTTACAAAATTACCAAAATACCC
1 TACCCTCGGTTTACAAAATTACCAAAATACCC
78775780 CTGATTTGTG
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
79 3 0.03
80 3 0.03
81 89 0.94
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCGGTTTACAAAATTACCAAAATACCCTCGGAGTACAATATTACCAAAATACCCCTGGTT
TGTAAAATTACCAAAA
Found at i:78775828 original size:27 final size:27
Alignment explanation
Indices: 78775798--78775851 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
78775788 TGAAAGTATT
**
78775798 GAAATACCGTTATAGGGTAGAAATACC
1 GAAATACCCCTATAGGGTAGAAATACC
* *
78775825 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTATAGGGTAGAAATACC
78775852 ATTTTGCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAGAAATACC
Found at i:78775988 original size:21 final size:21
Alignment explanation
Indices: 78775963--78776012 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
78775953 ATATTGTTAT
78775963 ACATGATAGGACATGATATGC
1 ACATGATAGGACATGATATGC
* **
78775984 ACATGATATGTTATGATATGC
1 ACATGATAGGACATGATATGC
78776005 ACATGATA
1 ACATGATA
78776013 TGCTATGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (21 bp):
ACATGATAGGACATGATATGC
Found at i:78775989 original size:11 final size:11
Alignment explanation
Indices: 78775963--78776015 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
78775953 ATATTGTTAT
*
78775963 ACATGATA-GG
1 ACATGATATGC
78775973 ACATGATATGC
1 ACATGATATGC
78775984 ACATGATATG-
1 ACATGATATGC
**
78775994 TTATGATATGC
1 ACATGATATGC
78776005 ACATGATATGC
1 ACATGATATGC
78776016 TATGTTATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 16 0.44
11 20 0.56
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:78776013 original size:21 final size:21
Alignment explanation
Indices: 78775975--78776019 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
78775965 ATGATAGGAC
*
78775975 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
78775996 ATGATATGCACATGATATGCT
1 ATGATATGCACATGATATGCT
78776017 ATG
1 ATG
78776020 TTATACTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:78776103 original size:24 final size:24
Alignment explanation
Indices: 78776071--78776117 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
78776061 AGGAAGTGCA
**
78776071 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
78776094 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
78776118 GGGCAGTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:78777933 original size:93 final size:93
Alignment explanation
Indices: 78777821--78777991 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
78777811 GCCCATAAGT
* *
78777821 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78777886 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
78777914 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78777979 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78777992 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78778007 original size:46 final size:46
Alignment explanation
Indices: 78777813--78777993 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
78777803 TGTAACCCGC
* * *
78777813 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
78777859 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
78777909 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
78777952 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
78777994 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:78780402 original size:30 final size:30
Alignment explanation
Indices: 78780358--78780446 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
78780348 CAAAGATAAC
78780358 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
78780387 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
78780417 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
78780447 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:78780406 original size:15 final size:15
Alignment explanation
Indices: 78780358--78780437 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
78780348 CAAAGATAAC
*
78780358 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
78780372 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
78780387 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
78780402 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
78780417 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
78780432 AAGAAA
1 AAGAAA
78780438 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:78780446 original size:15 final size:15
Alignment explanation
Indices: 78780369--78780446 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
78780359 AGAAAACCGA
78780369 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
78780384 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
78780398 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
78780413 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
78780429 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
78780444 ATA
1 ATA
78780447 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:78783513 original size:93 final size:93
Alignment explanation
Indices: 78783401--78783571 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
78783391 GCCCATAAGT
* *
78783401 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78783466 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
78783494 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78783559 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78783572 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78783587 original size:46 final size:46
Alignment explanation
Indices: 78783393--78783573 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
78783383 TGTAACCCGC
* * *
78783393 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
78783439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
78783489 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
78783532 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
78783574 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:78786483 original size:29 final size:28
Alignment explanation
Indices: 78786449--78786551 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
78786439 TACTCAATCA
*
78786449 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
78786478 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
78786507 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
78786536 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78786552 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:78794503 original size:29 final size:28
Alignment explanation
Indices: 78794469--78794571 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
78794459 TACTCAATCA
*
78794469 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
78794498 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
78794527 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
78794556 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78794572 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:78798286 original size:27 final size:27
Alignment explanation
Indices: 78798256--78798351 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
78798246 ATAGTGAATC
78798256 CGCACACTTAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTATATATTCAACT
*
78798283 CGCACACTTAGTGCTATATAATC-ACT
1 CGCACACTTAGTGCTATATATTCAACT
* * * *
78798309 CGCACACTTAGTGCTGTACAATTTTAACC
1 CGCACACTTAGTGCTATA-TA-TTCAACT
78798338 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78798352 CATACCCTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 20 0.33
27 23 0.38
28 1 0.02
29 16 0.27
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATATTCAACT
Found at i:78798316 original size:26 final size:27
Alignment explanation
Indices: 78798256--78798351 Score: 122
Period size: 26 Copynumber: 3.5 Consensus size: 27
78798246 ATAGTGAATC
*
78798256 CGCACACTTAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTATATAATCAACT
78798283 CGCACACTTAGTGCTATATAATC-ACT
1 CGCACACTTAGTGCTATATAATCAACT
* * * *
78798309 CGCACACTTAGTGCTGTACAATTTTAACC
1 CGCACACTTAGTGCTATATAA--TCAACT
78798338 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78798352 CATACCCTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 22 0.36
27 22 0.36
28 1 0.02
29 16 0.26
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:78798407 original size:28 final size:29
Alignment explanation
Indices: 78798339--78798437 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
78798329 ATTTTAACCC
*** *
78798339 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
78798367 CGCACAC--AGTGCCGTATA-TTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
78798394 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
78798423 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
78798438 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.20
27 9 0.15
28 10 0.16
29 30 0.49
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:78806104 original size:28 final size:28
Alignment explanation
Indices: 78806039--78806139 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78806029 ATAGTGAATC
*
78806039 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
78806068 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
78806096 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
78806126 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78806140 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:78806188 original size:29 final size:29
Alignment explanation
Indices: 78806156--78806228 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
78806146 CTTCGAGCTC
*
78806156 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
78806185 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
78806214 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
78806229 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:78816750 original size:40 final size:40
Alignment explanation
Indices: 78816358--78816743 Score: 575
Period size: 40 Copynumber: 9.7 Consensus size: 40
78816348 TCGAATGATG
* * *
78816358 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
78816398 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
78816438 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
78816478 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
78816518 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
78816558 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
78816598 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
78816638 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
78816678 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
78816719 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
78816744 AACGAGTAGC
Statistics
Matches: 323, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
39 1 0.00
40 312 0.97
41 10 0.03
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78822553 original size:40 final size:39
Alignment explanation
Indices: 78822388--78822571 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78822378 AAATTGAATG
* * *
78822388 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78822428 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78822468 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78822508 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78822547 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78822572 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78822596 original size:80 final size:81
Alignment explanation
Indices: 78822428--78822616 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78822418 GCTGGAAATT
* * * *
78822428 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78822493 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78822509 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78822572 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78822588 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78822617 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78833407 original size:28 final size:28
Alignment explanation
Indices: 78833338--78833438 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78833328 GACAAGATTG
* * * *
78833338 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
78833368 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
78833396 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
78833425 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78833439 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78833432 original size:29 final size:28
Alignment explanation
Indices: 78833367--78833438 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
78833357 AAAATTGTAC
*
78833367 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
78833395 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
78833424 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
78833439 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:78841142 original size:28 final size:28
Alignment explanation
Indices: 78841073--78841173 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78841063 GACAAGCTTG
* * * *
78841073 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
78841103 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
78841131 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
78841160 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78841174 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78841167 original size:29 final size:28
Alignment explanation
Indices: 78841102--78841173 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
78841092 AAAATTGTAC
*
78841102 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
78841130 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
78841159 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
78841174 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:78845327 original size:31 final size:31
Alignment explanation
Indices: 78845284--78845347 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
78845274 CCTTTTCATA
*
78845284 TTTCATAATTCATAACAGTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
78845315 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
78845346 TT
1 TT
78845348 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:78845587 original size:24 final size:24
Alignment explanation
Indices: 78845554--78845707 Score: 258
Period size: 24 Copynumber: 6.4 Consensus size: 24
78845544 CTGGAGGCCG
78845554 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
78845578 AGCCCTTTTTTAATAACTGGGGCATA
1 AGCCC--TTTTAATAACTGGGGCATA
78845604 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
78845627 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
78845651 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
78845675 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
78845699 AGCCCTTTT
1 AGCCCTTTT
78845708 GCACTTCCTC
Statistics
Matches: 125, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
23 24 0.19
24 78 0.62
25 17 0.14
26 6 0.05
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:78845771 original size:11 final size:11
Alignment explanation
Indices: 78845756--78845811 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
78845746 TCATAAATAC
78845756 ATCATGTGCAT
1 ATCATGTGCAT
*
78845767 GTCAT-T-CAT
1 ATCATGTGCAT
78845776 ATCATGTGCAT
1 ATCATGTGCAT
*
78845787 ATCA--TACAT
1 ATCATGTGCAT
*
78845796 GTCATGTGCAT
1 ATCATGTGCAT
78845807 ATCAT
1 ATCAT
78845812 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:78845781 original size:20 final size:20
Alignment explanation
Indices: 78845756--78845822 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
78845746 TCATAAATAC
* *
78845756 ATCATGTGCATGTCATTCAT
1 ATCATGTGCATATCATACAT
78845776 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78845796 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78845816 ACCATGT
1 ATCATGT
78845823 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78845887 original size:25 final size:25
Alignment explanation
Indices: 78845859--78845906 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
78845849 ATGTATAAAC
* * *
78845859 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
78845884 CCTATGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
78845907 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:78847054 original size:18 final size:17
Alignment explanation
Indices: 78847027--78847060 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
78847017 TAGGGAAGAA
78847027 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
78847044 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
78847061 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:78849689 original size:27 final size:27
Alignment explanation
Indices: 78849657--78849744 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
78849647 AGAATTACTG
**
78849657 AATACCCTTGGTTTAAAAAATTACCAA
1 AATACCCTTGGTTTGTAAAATTACCAA
* *
78849684 AATACCCATAGTTTGTAAAATTACCAA
1 AATACCCTTGGTTTGTAAAATTACCAA
78849711 AATACCCTTGGTTTGTAAAATTACCAA
1 AATACCCTTGGTTTGTAAAATTACCAA
78849738 AATACCC
1 AATACCC
78849745 CTAATTTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATACCCTTGGTTTGTAAAATTACCAA
Found at i:78849758 original size:27 final size:27
Alignment explanation
Indices: 78849674--78849858 Score: 162
Period size: 27 Copynumber: 6.9 Consensus size: 27
78849664 TTGGTTTAAA
* * * *
78849674 AAATTACCAAAATACCCATAGTTTGTA
1 AAATTACCAAAATACCCCTAATTTTTG
* ** * *
78849701 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAATTTTTG
78849728 AAATTACCAAAATACCCCTAATTTTTG
1 AAATTACCAAAATACCCCTAATTTTTG
* **
78849755 AAATTACGAAAATA-CCAAAATTTTTG
1 AAATTACCAAAATACCCCTAATTTTTG
*
78849781 AAATTACCAAAATACCCCTAA-TTTGG
1 AAATTACCAAAATACCCCTAATTTTTG
** *
78849807 AAAATTACTGAAATACCCCTAA-TTTGG
1 -AAATTACCAAAATACCCCTAATTTTTG
*
78849834 AAAATTA-CATAAATACCCCTGATTT
1 -AAATTACCA-AAATACCCCTAATTT
78849859 ACAAAATTAT
Statistics
Matches: 135, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 27 0.20
27 106 0.79
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTTTG
Found at i:78849796 original size:80 final size:81
Alignment explanation
Indices: 78849674--78849831 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 81
78849664 TTGGTTTAAA
* * * ** *
78849674 AAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCAAAATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAA
78849739 ATACCCCTAATTTTTG
66 ATACCCCTAATTTTTG
* * * **
78849755 AAATTACGAAAATA-CCAAAATTTTTGAAATTACCAAAATACCCCTAATTTGGAAAATTACTGAA
1 AAATTACCAAAATACCCAAAATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAA
78849819 ATACCCCTAATTT
66 ATACCCCTAATTT
78849832 GGAAAATTAC
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 53 0.80
81 13 0.20
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCAAAATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAA
ATACCCCTAATTTTTG
Found at i:78849839 original size:80 final size:80
Alignment explanation
Indices: 78849673--78849850 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
78849663 CTTGGTTTAA
* * * ** *
78849673 AAAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAA
1 AAAATTA-CAAAATA-CCAAAATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAA
*
78849738 AATACCCCTAATTTTTG
64 AATACCCCTAATTTTGG
* * **
78849755 -AAATTACGAAAATACCAAAATTTTTGAAATTACCAAAATACCCCTAATTTGGAAAATTACTGAA
1 AAAATTAC-AAAATACCAAAATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAA
78849819 ATACCCCTAA-TTTGG
65 ATACCCCTAATTTTGG
78849834 AAAATTACATAAATACC
1 AAAATTACA-AAATACC
78849851 CCTGATTTAC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
79 5 0.06
80 65 0.79
81 12 0.15
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (80 bp):
AAAATTACAAAATACCAAAATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAAA
TACCCCTAATTTTGG
Found at i:78849864 original size:27 final size:27
Alignment explanation
Indices: 78849673--78849895 Score: 131
Period size: 27 Copynumber: 8.3 Consensus size: 27
78849663 CTTGGTTTAA
* * *
78849673 AAAATTACCA-AAATACCCATAGTTTGT
1 AAAATTA-CATAAATACCCCTAATTTGG
* ** *
78849700 AAAATTACCA-AAATACCCTTGGTTTGT
1 AAAATTA-CATAAATACCCCTAATTTGG
*
78849727 AAAATTACCA-AAATACCCCTAATTTTTG
1 AAAATTA-CATAAATACCCCTAA-TTTGG
** *
78849755 -AAATTACGA-AAATA-CCAAAATTTTTG
1 AAAATTAC-ATAAATACCCCTAA-TTTGG
78849781 -AAATTACCA-AAATACCCCTAATTTGG
1 AAAATTA-CATAAATACCCCTAATTTGG
78849807 AAAATTAC-TGAAATACCCCTAATTTGG
1 AAAATTACAT-AAATACCCCTAATTTGG
* **
78849834 AAAATTACATAAATACCCCTGATTTAC
1 AAAATTACATAAATACCCCTAATTTGG
* * ** * *
78849861 AAAATTATAGAAATACCATTACTTTGC
1 AAAATTACATAAATACCCCTAATTTGG
78849888 AAAATTAC
1 AAAATTAC
78849896 TGGAATACCT
Statistics
Matches: 165, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 28 0.17
27 133 0.81
28 4 0.02
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACATAAATACCCCTAATTTGG
Found at i:78849866 original size:107 final size:107
Alignment explanation
Indices: 78849674--78849867 Score: 255
Period size: 107 Copynumber: 1.8 Consensus size: 107
78849664 TTGGTTTAAA
* * * ** *
78849674 AAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCATAATTTGGAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAA
***
78849739 ATACCCCTAATTTTTGAAATTACGAAAATACCAAAATTTTTG
66 ATACCCCTAATTTACAAAATTACGAAAATACCAAAATTTTTG
* **
78849781 AAATTACCAAAATACCCCTAATTTGGAAAATTACTGAAATACCCCTAATTTGGAAAATTA-CATA
1 AAATTACCAAAATACCCATAATTTGGAAAATTACCAAAATACCCCTAATTTGGAAAATTACCA-A
*
78849845 AATACCCCTGATTTACAAAATTA
65 AATACCCCTAATTTACAAAATTA
78849868 TAGAAATACC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
106 2 0.03
107 71 0.97
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (107 bp):
AAATTACCAAAATACCCATAATTTGGAAAATTACCAAAATACCCCTAATTTGGAAAATTACCAAA
ATACCCCTAATTTACAAAATTACGAAAATACCAAAATTTTTG
Found at i:78850222 original size:41 final size:41
Alignment explanation
Indices: 78850177--78850256 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
78850167 CAAGAAATTG
78850177 AGGATCCCATAGTTGCTTGACGAAT-GTGGATCCACCGATTA
1 AGGATCCCATAGTTGCTTGACG-ATCGTGGATCCACCGATTA
* *
78850218 AGGATCGCATGGTTGCTTGACGATCGTGGATCCACCGAT
1 AGGATCCCATAGTTGCTTGACGATCGTGGATCCACCGAT
78850257 GGCTTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 2 0.06
41 34 0.94
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
AGGATCCCATAGTTGCTTGACGATCGTGGATCCACCGATTA
Found at i:78850448 original size:22 final size:22
Alignment explanation
Indices: 78850396--78850449 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
78850386 GCCAATTATT
*
78850396 CTAATTATGGCTTTGCGCCAAC
1 CTAATTATGGCTCTGCGCCAAC
*
78850418 CTACA-TATGGCTCTGTGCCAAC
1 CTA-ATTATGGCTCTGCGCCAAC
78850440 CTAATTATGG
1 CTAATTATGG
78850450 TTGTGTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (22 bp):
CTAATTATGGCTCTGCGCCAAC
Found at i:78850456 original size:22 final size:21
Alignment explanation
Indices: 78850396--78850457 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
78850386 GCCAATTATT
*
78850396 CTAATTATGGCTTTGCGCCAAC
1 CTAATTATGG-TTTGTGCCAAC
*
78850418 CTACA-TATGGCTCTGTGCCAAC
1 CTA-ATTATGG-TTTGTGCCAAC
78850440 CTAATTATGGTTGTGTGC
1 CTAATTATGGTT-TGTGC
78850458 TAAACGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.06
22 31 0.91
23 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (21 bp):
CTAATTATGGTTTGTGCCAAC
Found at i:78850649 original size:25 final size:25
Alignment explanation
Indices: 78850557--78850675 Score: 103
Period size: 25 Copynumber: 4.8 Consensus size: 25
78850547 GTTACTCTAG
* * * *
78850557 TTGAAGGCTTTGTGCTGATATGCTA
1 TTGATGGCTTCGTGCCGATATGTTA
* **
78850582 TTGAAGGCTTCGTGTTGATATGTTA
1 TTGATGGCTTCGTGCCGATATGTTA
* * *
78850607 TTGATGGCTTTGTACCGATATGATA
1 TTGATGGCTTCGTGCCGATATGTTA
* *
78850632 TTGATGGCTACGTGCCGATCTGTTA
1 TTGATGGCTTCGTGCCGATATGTTA
* * *
78850657 TCGATGGCTTTGTGTCGAT
1 TTGATGGCTTCGTGCCGAT
78850676 TGTATTATCA
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.40
Consensus pattern (25 bp):
TTGATGGCTTCGTGCCGATATGTTA
Found at i:78850656 original size:50 final size:50
Alignment explanation
Indices: 78850557--78850669 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 50
78850547 GTTACTCTAG
* * * * * **
78850557 TTGAAGGCTTTGTGCTGATATGCTATTGAAGGCTTCGTGTTGATATGTTA
1 TTGATGGCTTTGTACCGATATGATATTGAAGGCTACGTGCCGATATGTTA
* *
78850607 TTGATGGCTTTGTACCGATATGATATTGATGGCTACGTGCCGATCTGTTA
1 TTGATGGCTTTGTACCGATATGATATTGAAGGCTACGTGCCGATATGTTA
*
78850657 TCGATGGCTTTGT
1 TTGATGGCTTTGT
78850670 GTCGATTGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (50 bp):
TTGATGGCTTTGTACCGATATGATATTGAAGGCTACGTGCCGATATGTTA
Found at i:78851926 original size:43 final size:43
Alignment explanation
Indices: 78851879--78852037 Score: 178
Period size: 43 Copynumber: 3.6 Consensus size: 43
78851869 TGTATTCGCA
* * *
78851879 TAAGACCACGTTTGGGACGTTGGCATCGTTATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATG
* *
78851922 TAAGACC-CTGTCTGAGACAG-TAGCATCGATATGTGATTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACATG
* *
78851965 TAAGACCATGTCTGGGATGTTGGCATTGTACGATATGTGATTACATG
1 TAAGACCACGTCTGGGACGTTGGCA---T-CGATATGTGATTACATG
*
78852012 TAAGACCACGTCTGGGATGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
78852038 TGTACGATAT
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
42 2 0.02
43 52 0.53
44 2 0.02
46 1 0.01
47 41 0.42
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATG
Found at i:78852009 original size:47 final size:47
Alignment explanation
Indices: 78851948--78852050 Score: 197
Period size: 47 Copynumber: 2.2 Consensus size: 47
78851938 ACAGTAGCAT
*
78851948 CGATATGTGATTACATGTAAGACCATGTCTGGGATGTTGGCATTGTA
1 CGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATTGTA
78851995 CGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATTGTA
1 CGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATTGTA
78852042 CGATATGTG
1 CGATATGTG
78852051 TGACTATTCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (47 bp):
CGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATTGTA
Found at i:78859821 original size:27 final size:27
Alignment explanation
Indices: 78859761--78859972 Score: 187
Period size: 27 Copynumber: 8.0 Consensus size: 27
78859751 ATATACACAA
* * * * *
78859761 CACATAGGGGCAAAACATTCATCTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* * * *
78859788 TACATAAGGGAAAAACAATCATTTTTC
1 CACATAAGGGAAAAATAGTCATTTTAC
** *
78859815 CTTATAA-GGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
78859841 CACATAAGGG-CAAA-AGTCATTTTAT
1 CACATAAGGGAAAAATAGTCATTTTAC
* * *
78859866 CTCGTAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* * * *
78859893 TATATAAGGGAAAAAGAATCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* * *
78859920 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
78859947 CACATAAGGGAAAAATAGTCATTTTA
1 CACATAAGGGAAAAATAGTCATTTTA
78859973 TCAATTAGGG
Statistics
Matches: 147, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
25 18 0.12
26 26 0.18
27 103 0.70
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
CACATAAGGGAAAAATAGTCATTTTAC
Found at i:78859940 original size:54 final size:53
Alignment explanation
Indices: 78859768--78859972 Score: 236
Period size: 54 Copynumber: 3.9 Consensus size: 53
78859758 CAACACATAG
* * * * *
78859768 GGGCAAAACATTCATCTTACTACATAAGGGAAAAACAATCATTTTTCCTTATAA
1 GGGCAAAACAGTCATTTTACCACATAAGGGAAAAAGAATCATTTTACC-TATAA
* * * *
78859822 -GGCAAAATAGTCATTTTACCACATAAGGGCAAAAG--TCATTTTATCTCGTAA
1 GGGCAAAACAGTCATTTTACCACATAAGGGAAAAAGAATCATTTTACCT-ATAA
* * *
78859873 GGGCAAAATAGTCATTTTACTATATAAGGGAAAAAGAATCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCACATAAGGGAAAAAGAATCATTTTACC-TATAA
* *
78859927 GGGCAAAACAGTCATTTTACCACATAAGGGAAAAATAGTCATTTTA
1 GGGCAAAACAGTCATTTTACCACATAAGGGAAAAAGAATCATTTTA
78859973 TCAATTAGGG
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
50 1 0.01
51 11 0.09
52 32 0.25
53 29 0.23
54 53 0.42
55 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (53 bp):
GGGCAAAACAGTCATTTTACCACATAAGGGAAAAAGAATCATTTTACCTATAA
Found at i:78860221 original size:27 final size:27
Alignment explanation
Indices: 78860178--78860238 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
78860168 ATATGCTCTA
* *
78860178 CATTTTACCGCATAAGGGCAAAACAGT
1 CATTTTACCACAAAAGGGCAAAACAGT
*
78860205 CATTTTACCACAAAAGGGCAAAATAGT
1 CATTTTACCACAAAAGGGCAAAACAGT
78860232 CATTTTA
1 CATTTTA
78860239 TAAATCAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (27 bp):
CATTTTACCACAAAAGGGCAAAACAGT
Found at i:78865833 original size:13 final size:13
Alignment explanation
Indices: 78865799--78865833 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
78865789 ATAGATTTTG
*
78865799 GGACACACAGCTA
1 GGACACACGGCTA
78865812 GGACACACGGCTA
1 GGACACACGGCTA
*
78865825 GGGCACACG
1 GGACACACG
78865834 CTCGTGTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.31, T:0.06
Consensus pattern (13 bp):
GGACACACGGCTA
Found at i:78866105 original size:55 final size:55
Alignment explanation
Indices: 78866013--78866137 Score: 169
Period size: 55 Copynumber: 2.3 Consensus size: 55
78866003 AGTGTCAATC
* *
78866013 TAACAGGTTCGACCACGGGTATTAGACATGGGAGTGTCGCACGCCCGTGTTGTTT
1 TAACAGGTTCGACCACGGGTATTACACACGGGAGTGTCGCACGCCCGTGTTGTTT
* * * * *
78866068 TAACAGGTTCGCCCACGGTTCTTCCACACGGGCGTGTCGCACGCCCGTGTTGTTT
1 TAACAGGTTCGACCACGGGTATTACACACGGGAGTGTCGCACGCCCGTGTTGTTT
**
78866123 TGGCAGGTTCGACCA
1 TAACAGGTTCGACCA
78866138 TGGCCATGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.26
Consensus pattern (55 bp):
TAACAGGTTCGACCACGGGTATTACACACGGGAGTGTCGCACGCCCGTGTTGTTT
Found at i:78872233 original size:39 final size:39
Alignment explanation
Indices: 78872179--78872298 Score: 204
Period size: 39 Copynumber: 3.1 Consensus size: 39
78872169 AATTTTATTA
* * *
78872179 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATAAATTT
78872218 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATAAATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATAAATTT
*
78872257 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATAAATTT
78872296 CCA
1 CCA
78872299 TACACATTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATAAATTT
Found at i:78877397 original size:27 final size:27
Alignment explanation
Indices: 78877338--78877606 Score: 340
Period size: 27 Copynumber: 10.0 Consensus size: 27
78877328 ATATATACAA
* * ** *
78877338 CACATAGGGGCAATATAGTCAGCTTAA
1 CACATAAGGGCAAAATAGTCATTTTAC
*
78877365 TACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
78877392 CTCATAAAGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
78877419 CACATCAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
78877446 CTCATAAGGGCAAAATAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
78877473 CATATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
78877500 CACATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
78877527 CTCATAGGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
78877554 CACATAATGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
78877581 CACATAAGCGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
78877607 TCAATTAAGG
Statistics
Matches: 206, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 206 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:78880978 original size:93 final size:93
Alignment explanation
Indices: 78880871--78881042 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
78880861 GCCCATAAGT
* *
78880871 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAATGAACTCAGACTCAACTCA
78880935 ACAAGCTCGGATGCCTAGTTACATCTCTC
65 ACAAGCTCGGATGCCTAGTTACATCTCTC
** * **
78880964 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAATGAACTCGGACTCTTCTCAA
1 GAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
* *
78881029 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
78881043 CAAACATCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 3 0.04
93 66 0.96
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:78887531 original size:90 final size:90
Alignment explanation
Indices: 78887417--78887601 Score: 352
Period size: 90 Copynumber: 2.1 Consensus size: 90
78887407 ATCTTTTATG
*
78887417 AATTAAAGAAAAGCTTTGTTATGGTAACCGAACATATATACTACTAAATACATATGTTTCATACT
1 AATTAAAGAAAAGCTTTGTCATGGTAACCGAACATATATACTACTAAATACATATGTTTCATACT
78887482 TAGCAAAGAACGTAGGTCATATCCA
66 TAGCAAAGAACGTAGGTCATATCCA
*
78887507 AATTAAAGAAAAGCTTTGTCATGGTAACTGAACATATATACTACTAAATACATATGTTTCATACT
1 AATTAAAGAAAAGCTTTGTCATGGTAACCGAACATATATACTACTAAATACATATGTTTCATACT
78887572 TAGCAAAGAACGTAGGTCATATCCA
66 TAGCAAAGAACGTAGGTCATATCCA
78887597 AATTA
1 AATTA
78887602 CTAATCACCT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (90 bp):
AATTAAAGAAAAGCTTTGTCATGGTAACCGAACATATATACTACTAAATACATATGTTTCATACT
TAGCAAAGAACGTAGGTCATATCCA
Found at i:78893125 original size:2 final size:2
Alignment explanation
Indices: 78893118--78893161 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
78893108 AAAATAATAA
78893118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78893160 AT
1 AT
78893162 GTTATAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78909293 original size:27 final size:28
Alignment explanation
Indices: 78909236--78909305 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
78909226 AAATTTGTAC
**
78909236 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
78909264 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
78909291 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
78909306 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:78909314 original size:27 final size:27
Alignment explanation
Indices: 78909236--78909317 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
78909226 AAATTTGTAC
* *
78909236 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
78909264 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
78909291 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
78909318 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:78928557 original size:30 final size:29
Alignment explanation
Indices: 78928463--78928564 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
78928453 TATAGTGAAT
* * *
78928463 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
78928492 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
78928520 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
78928550 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
78928565 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:78931568 original size:40 final size:40
Alignment explanation
Indices: 78931513--78931722 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
78931503 AACATTGGAA
78931513 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78931553 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78931593 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
78931633 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
78931672 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
78931713 CTATATCCGG
1 ATATATCCGG
78931723 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:78939753 original size:40 final size:39
Alignment explanation
Indices: 78939588--78939771 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78939578 AAATTGAATG
* * *
78939588 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78939628 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78939668 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78939708 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78939747 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78939772 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78939796 original size:80 final size:81
Alignment explanation
Indices: 78939628--78939816 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78939618 GCTGGAAATT
* * * *
78939628 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78939693 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78939709 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78939772 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78939788 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78939817 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78947866 original size:40 final size:39
Alignment explanation
Indices: 78947701--78947884 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78947691 AAATTGAATG
* * *
78947701 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78947741 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78947781 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78947821 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78947860 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78947885 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78947909 original size:80 final size:81
Alignment explanation
Indices: 78947741--78947929 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78947731 GCTGGAAATT
* * * *
78947741 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78947806 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78947822 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78947885 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78947901 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78947930 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78953580 original size:40 final size:40
Alignment explanation
Indices: 78953362--78953573 Score: 281
Period size: 40 Copynumber: 5.3 Consensus size: 40
78953352 GGGCTAAGTC
* *
78953362 CCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
*
78953401 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
*
78953441 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
**
78953481 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
* *
78953520 CCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-T
1 -CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT
78953560 CCCGAAGGCATTTG
1 -CCGAAGGCATTTG
78953574 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 20 0.13
40 137 0.86
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:78953591 original size:80 final size:79
Alignment explanation
Indices: 78953360--78953606 Score: 263
Period size: 80 Copynumber: 3.1 Consensus size: 79
78953350 CTGGGCTAAG
* * **
78953360 TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GACTAAGATCCGAAGGCATTTGTGCGAGTTA
1 TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGTTA
* *
78953423 CTAATTCCGGACTAAGA
65 CTAAATCCGG-TTAA-A
**
78953440 T-CCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGTTAC
*
78953504 TAAATCCGGGTTAAG
66 TAAATCC-GGTTAAA
* * *
78953519 TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-T
1 TCCCGAAGGCATTTGTGCGAGTTACTA-AATCCAGACTAAGAT-CCGAAGGCATTTGAACGAGTT
*
78953581 AGCTATATCCGGTTAAA
64 A-CTAAATCCGGTTAAA
*
78953598 TTCCGAAGG
1 TCCCGAAGG
78953607 TACGTGATTC
Statistics
Matches: 147, Mismatches: 13, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
79 38 0.26
80 105 0.71
81 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
TCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGTTAC
TAAATCCGGTTAAA
Found at i:78955044 original size:8 final size:9
Alignment explanation
Indices: 78955026--78955050 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
78955016 CCATTCTTCC
78955026 TTTTTCTTT
1 TTTTTCTTT
78955035 TTTTTCTTT
1 TTTTTCTTT
78955044 TTTTTCT
1 TTTTTCT
78955051 CTCTTCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:78955864 original size:8 final size:8
Alignment explanation
Indices: 78955851--78955880 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
78955841 CTAGATCGAC
78955851 AAAAGCCG
1 AAAAGCCG
78955859 AAAAGCCG
1 AAAAGCCG
*
78955867 AAATGCCG
1 AAAAGCCG
78955875 AAAAGC
1 AAAAGC
78955881 TGATATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:78956339 original size:27 final size:27
Alignment explanation
Indices: 78956296--78956408 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 27
78956286 GAGGAAGAGT
*
78956296 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
* *
78956323 TCTGGTGGCTCTTCCAC-ATATATCTGT
1 TCTGGTGGCTCTGCCACAAT-TATCTGA
* * *
78956350 TATGGTGGCTCTGCCACAGTTATCTATA
1 TCTGGTGGCTCTGCCACAATTATCT-GA
* * * *
78956378 TCTGGTGACTCTGTCAC-ATTACCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGA
78956404 TCTGG
1 TCTGG
78956409 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.68
28 15 0.22
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:78956404 original size:54 final size:54
Alignment explanation
Indices: 78956298--78956404 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
78956288 GGAAGAGTTC
* *
78956298 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTTCCACATATATCTGTTA
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTTCCACATATACCTGTTA
* * *
78956352 TGGTGGCTCTGCCACAGTTATCTATATCTGGTGACTCTGT-CACAT-TACCTGTT
1 TGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCT-TCCACATATACCTGTT
78956405 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 28 0.61
55 17 0.37
56 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTTCCACATATACCTGTTA
Found at i:78957572 original size:27 final size:27
Alignment explanation
Indices: 78957442--78957815 Score: 254
Period size: 27 Copynumber: 13.9 Consensus size: 27
78957432 GAATACTTTA
* ** * *
78957442 ATTTACCAAATTACTGAAATGCCCTCA
1 ATTTACAAAATTACCAAAATACCCTCG
* * *
78957469 ATTTATAAAATTACCAAAGTATCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* *** *
78957496 ATTTACAGAATTACCATTTTACCTTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* **** *
78957523 ATTTACAGAATTACCTTTTTACCCTCA
1 ATTTACAAAATTACCAAAATACCCTCG
78957550 ATTTACAAAATTACCAAAATACCCTCG
1 ATTTACAAAATTACCAAAATACCCTCG
* * *
78957577 A-TCAGTAAAATTACCAAAATACCATCG
1 ATTTA-CAAAATTACCAAAATACCCTCG
* ** *
78957604 A-TCAGTAAATTACCAAAATACCCTTG
1 ATTTACAAAATTACCAAAATACCCTCG
* ** * *
78957630 GTTTGTAAAATTACTAAAATACCC-CT
1 ATTTACAAAATTACCAAAATACCCTCG
** * *
78957656 AGTTTGTAAAATTACCAAAAAACCCTTG
1 A-TTTACAAAATTACCAAAATACCCTCG
* *
78957684 GTTTAAAAAATTACCAAAATA-CCTCTG
1 ATTTACAAAATTACCAAAATACCCTC-G
* ** *
78957711 GTTTGTAAAATTACCAAAATACCCTTG
1 ATTTACAAAATTACCAAAATACCCTCG
*
78957738 GTTTACAAAATTACCAAAATACCC-CTG
1 ATTTACAAAATTACCAAAATACCCTC-G
* ** * *
78957765 GTTTGTAAAATTACGAAAATACCCTTG
1 ATTTACAAAATTACCAAAATACCCTCG
78957792 ATTTACAAAATTACCAAAATACCC
1 ATTTACAAAATTACCAAAATACCC
78957816 CTGATTTGTG
Statistics
Matches: 276, Mismatches: 63, Indels: 16
0.78 0.18 0.05
Matches are distributed among these distances:
26 23 0.08
27 250 0.91
28 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
ATTTACAAAATTACCAAAATACCCTCG
Found at i:78957687 original size:54 final size:54
Alignment explanation
Indices: 78957610--78957844 Score: 355
Period size: 54 Copynumber: 4.4 Consensus size: 54
78957600 ATCGATCAGT
** * *
78957610 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
* * *
78957664 AAATTACCAAAAAACCCTTGGTTTAAAAAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
78957718 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
78957772 AAATTACGAAAATACCCTTGATTTACAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
78957826 AAATTA-CAGAAATACCCTT
1 AAATTACCA-AAATACCCTT
78957845 ATAGGGTAGA
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 1 0.01
54 165 0.99
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:78957839 original size:81 final size:81
Alignment explanation
Indices: 78957550--78957842 Score: 292
Period size: 81 Copynumber: 3.6 Consensus size: 81
78957540 TTTACCCTCA
** * **
78957550 ATTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATA-CCATCGATCAGT-AA
1 ATTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCAT-GGTTTGTAAA
78957612 ATTACCAAAATACCCTTG
64 ATTACCAAAATACCCTTG
* ** * * * **
78957630 GTTTGTAAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAAAACCCTTGGTTTAAAAAA
1 ATTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCATGGTTTGTAAAA
78957694 TTACCAAAATA-CCTCTG
65 TTACCAAAATACCCT-TG
* ** * * ** *
78957711 GTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAAT
1 ATTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCATGGTTTGTAAAAT
*
78957776 TACGAAAATACCCTTG
66 TACCAAAATACCCTTG
*
78957792 ATTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTA-CAGAAATACCC
1 ATTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA-AAATACCC
78957843 TTATAGGGTA
Statistics
Matches: 174, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
79 1 0.01
80 41 0.24
81 129 0.74
82 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
ATTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCATGGTTTGTAAAAT
TACCAAAATACCCTTG
Found at i:78957864 original size:27 final size:27
Alignment explanation
Indices: 78957825--78957887 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
78957815 CCTGATTTGT
* *
78957825 GAAATTACAGAAATACCCTTATAGGGTA
1 GAAA-TACCGAAATACCCCTATAGGGTA
*
78957853 GAAATACCGAAATACCCCTGTAGGGTA
1 GAAATACCGAAATACCCCTATAGGGTA
*
78957880 GAATTACC
1 GAAATACC
78957888 ATTTTGCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (27 bp):
GAAATACCGAAATACCCCTATAGGGTA
Found at i:78958023 original size:11 final size:11
Alignment explanation
Indices: 78957999--78958050 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
78957989 ATATTGTTAT
78957999 ACATGATA-GG
1 ACATGATATGG
78958009 ACATGATATGG
1 ACATGATATGG
78958020 ACATGATAT-G
1 ACATGATATGG
** *
78958030 TTATGATATGC
1 ACATGATATGG
78958041 ACATGATATG
1 ACATGATATG
78958051 CTATAATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 16 0.46
11 19 0.54
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (11 bp):
ACATGATATGG
Found at i:78958025 original size:21 final size:21
Alignment explanation
Indices: 78957999--78958048 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
78957989 ATATTGTTAT
*
78957999 ACATGATAGGACATGATATGG
1 ACATGATAGGACATGATATGC
* **
78958020 ACATGATATGTTATGATATGC
1 ACATGATAGGACATGATATGC
78958041 ACATGATA
1 ACATGATA
78958049 TGCTATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (21 bp):
ACATGATAGGACATGATATGC
Found at i:78958049 original size:21 final size:21
Alignment explanation
Indices: 78958011--78958059 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
78958001 ATGATAGGAC
* *
78958011 ATGATATGGACATGATATGTT
1 ATGATATGCACATGATATGCT
78958032 ATGATATGCACATGATATGCT
1 ATGATATGCACATGATATGCT
*
78958053 ATAATAT
1 ATGATAT
78958060 ACTCATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:78958139 original size:24 final size:24
Alignment explanation
Indices: 78958107--78958153 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
78958097 AGGAAGTGCA
**
78958107 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
78958130 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
78958154 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:78958374 original size:31 final size:30
Alignment explanation
Indices: 78958339--78958420 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
78958329 CGTTTACAGT
* **
78958339 AAAGGCTTCGGCCCAGTGATATGGTTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGGTTAAACA
* **
78958370 AAAGGCTTCGGTCCAGTA-ACCGTTAAACA
1 AAAGGCTTCGGCCCAGTATATGGTTAAACA
78958399 AAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
78958421 TCGAGACTGA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 23 0.56
30 2 0.05
31 16 0.39
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGGTTAAACA
Found at i:78960064 original size:29 final size:29
Alignment explanation
Indices: 78959974--78960069 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
78959964 GTGAGCATGA
* * * *
78959974 ATATGCATGTGATTTGGGCCTAATGAGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* **
78960003 ATACGAATACGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
78960032 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
78960061 ATATAAATG
1 ATATGAATG
78960070 AGATTGACCA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:78963442 original size:40 final size:39
Alignment explanation
Indices: 78963398--78963507 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 39
78963388 ATATCACGAT
78963398 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-AC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCAC
* *
78963438 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGAAG-CAC
* * *
78963478 TAGCACAATTGCCTTCGGGTCTTAACCCGG
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGG
78963508 TTATAATTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.02
39 2 0.03
40 59 0.95
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGAAGCAC
Found at i:78970351 original size:48 final size:48
Alignment explanation
Indices: 78970285--78970529 Score: 472
Period size: 48 Copynumber: 5.1 Consensus size: 48
78970275 GCGGAAATTG
78970285 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78970333 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78970381 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78970429 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78970477 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78970525 ATGTA
1 ATGTA
78970530 GGCGATGTGT
Statistics
Matches: 193, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 193 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:78975807 original size:43 final size:43
Alignment explanation
Indices: 78975757--78975914 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
78975747 GTTATCGAGA
* * * *
78975757 TGTGATTACATGTAAGACCATGTCTGGAACATTGGAATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
78975800 TCTGATTACGTGTAAGACCATATCTGGGACATTGGCATCATAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
78975843 TGTGATTTCATGTAAGA-CACTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCA-TATCTGGGACATTGGCATCGTAT
*
78975885 ATGTGATAACATGTAAGACCATATCTGGGA
1 -TGTGATTACATGTAAGACCATATCTGGGA
78975915 TATGACATTG
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.04
43 90 0.94
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:78975903 original size:86 final size:86
Alignment explanation
Indices: 78975757--78975914 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 86
78975747 GTTATCGAGA
* * * *
78975757 TGTGATTACATGTAAGACCATGTCTGGAACATTGGAATTGTATTCTGATTACGTGTAAGACCATA
1 TGTGATTACATGTAAGACCATGTCTGGAACAGTGGAATCGTATTCTGATAACATGTAAGACCATA
78975822 TCTGGGACATTGGCATCATAT
66 TCTGGGACATTGGCATCATAT
* * * *
78975843 TGTGATTTCATGTAAGA-CACTGTCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCA
1 TGTGATTACATGTAAGACCA-TGTCTGGAACAGTGGAATCGTAT-TCTGATAACATGTAAGACCA
78975906 TATCTGGGA
64 TATCTGGGA
78975915 TATGACATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 4 0.06
86 58 0.94
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (86 bp):
TGTGATTACATGTAAGACCATGTCTGGAACAGTGGAATCGTATTCTGATAACATGTAAGACCATA
TCTGGGACATTGGCATCATAT
Found at i:78979211 original size:21 final size:21
Alignment explanation
Indices: 78979185--78979227 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
78979175 ATGGAGCAAA
*
78979185 GTTTTTCATCCTATCTACTAT
1 GTTTTTCATCCTACCTACTAT
78979206 GTTTTTCATCCTACCTACTAT
1 GTTTTTCATCCTACCTACTAT
78979227 G
1 G
78979228 CGAGTAGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.49
Consensus pattern (21 bp):
GTTTTTCATCCTACCTACTAT
Found at i:78981250 original size:22 final size:19
Alignment explanation
Indices: 78981222--78981263 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
78981212 TGATAATCTT
78981222 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
78981244 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
78981263 T
1 T
78981264 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:78984200 original size:40 final size:40
Alignment explanation
Indices: 78984155--78984322 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
78984145 CGGAATATAA
78984155 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78984195 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78984235 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
78984275 CCGGATATAATCTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
78984315 CCGGATAT
1 CCGGATAT
78984323 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78984305 original size:80 final size:80
Alignment explanation
Indices: 78984171--78984320 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
78984161 ATAATCACGT
* *
78984171 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCTCGCACGAATGCCTTCGGGAT-TTAGC
78984235 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
78984251 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCTC-GCACGAA-TGCCTTCGGGATTTAG
78984314 CCCGGAT
64 CCCGGAT
78984321 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATCTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:78988202 original size:2 final size:2
Alignment explanation
Indices: 78988195--78988219 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
78988185 TCATGACATG
78988195 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
78988220 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78989571 original size:14 final size:15
Alignment explanation
Indices: 78989540--78989570 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78989530 TAGGATTAAG
78989540 TTAATTAGGAATTTT
1 TTAATTAGGAATTTT
78989555 TTAATTAGGAATTTT
1 TTAATTAGGAATTTT
78989570 T
1 T
78989571 ATTCTCGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (15 bp):
TTAATTAGGAATTTT
Found at i:78991268 original size:22 final size:22
Alignment explanation
Indices: 78991242--78991286 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
78991232 ATTATGTGTA
78991242 TTAATTCATGATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
78991264 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
78991286 T
1 T
78991287 GGATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:78993758 original size:40 final size:40
Alignment explanation
Indices: 78993714--78993789 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
78993704 TGGTGCCTCA
78993714 TATAGCCAAAGCTA-TTCCAACTCGCACACTTAGTGCTATT
1 TATAGCCAAAGCTATTTCCAAC-CGCACACTTAGTGCTATT
* **
78993754 TATAGCCGAAGCTATTTTGAACCGCACACTTAGTGC
1 TATAGCCAAAGCTATTTCCAACCGCACACTTAGTGC
78993790 CGAACATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 27 0.84
41 5 0.16
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (40 bp):
TATAGCCAAAGCTATTTCCAACCGCACACTTAGTGCTATT
Found at i:78994902 original size:20 final size:20
Alignment explanation
Indices: 78994879--78994917 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
78994869 GTACACGTCC
78994879 GTGTGCTTTGAGACACGCCG
1 GTGTGCTTTGAGACACGCCG
*
78994899 GTGTGCTTTGGGACACGCC
1 GTGTGCTTTGAGACACGCC
78994918 CATGTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.26, G:0.36, T:0.26
Consensus pattern (20 bp):
GTGTGCTTTGAGACACGCCG
Found at i:78994923 original size:20 final size:20
Alignment explanation
Indices: 78994880--78994923 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
78994870 TACACGTCCG
**
78994880 TGTGCTTTGAGACACGCCGG
1 TGTGCTTTGAGACACGCCCA
*
78994900 TGTGCTTTGGGACACGCCCA
1 TGTGCTTTGAGACACGCCCA
78994920 TGTG
1 TGTG
78994924 GAAATAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.25, G:0.34, T:0.27
Consensus pattern (20 bp):
TGTGCTTTGAGACACGCCCA
Found at i:79009032 original size:93 final size:93
Alignment explanation
Indices: 79008904--79009074 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
79008894 GCCCCTAAGT
* *
79008904 GAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTC-A
79008969 C-GAGTTCGGATGCCTAGTTACATCTCAC
65 CTGAGTTCGGATGCCTAGTTACATCTCAC
* *
79008997 GAACTTGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
79009061 CTGAGTTCGGATGC
65 CTGAGTTCGGATGC
79009075 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
TGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:79009069 original size:46 final size:46
Alignment explanation
Indices: 79008899--79009071 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 46
79008889 AACCCGCCCC
* * *
79008899 TAAGTGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
*
79008945 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
79008993 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
79009038 TAAGTGAACTCGGACTCAACTC-ACTGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAAC-GAGTTCGGA
79009072 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.06
46 54 0.51
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:79018084 original size:13 final size:13
Alignment explanation
Indices: 79018066--79018092 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79018056 CACAAACCAT
79018066 AAAATTTTCACAC
1 AAAATTTTCACAC
79018079 AAAATTTTCACAC
1 AAAATTTTCACAC
79018092 A
1 A
79018093 TAATAAACTC
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:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:79025564 original size:13 final size:13
Alignment explanation
Indices: 79025546--79025570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79025536 ACAAACCATA
79025546 AAATTTTCACACG
1 AAATTTTCACACG
79025559 AAATTTTCACAC
1 AAATTTTCACAC
79025571 ATACTAATTC
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:79031440 original size:30 final size:29
Alignment explanation
Indices: 79031401--79031458 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
79031391 GTAGCCGAAA
79031401 CTAGTTAAATCGCACACTTAGTGCCAAAG
1 CTAGTTAAATCGCACACTTAGTGCCAAAG
79031430 CTAGTTTAAATCGCACACTTAGTGCCAAA
1 CTAG-TTAAATCGCACACTTAGTGCCAAA
79031459 ACTTCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (29 bp):
CTAGTTAAATCGCACACTTAGTGCCAAAG
Found at i:79038654 original size:29 final size:29
Alignment explanation
Indices: 79038621--79038680 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
79038611 CAAGTAGCCG
79038621 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTT-GTGCCA
**
79038650 AAGCTAGTTTAAATCTTACACTTGTGCCA
1 AAGCTAGTTTAAATCGCACACTTGTGCCA
79038679 AA
1 AA
79038681 ACTTCCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTTAAATCGCACACTTGTGCCA
Found at i:79041954 original size:27 final size:28
Alignment explanation
Indices: 79041924--79041988 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
79041914 AACGTGGTGT
* *
79041924 AGCCACTAGTATCAG-AATACGTGGCAA
1 AGCCACTAGTAACAGAAAAACGTGGCAA
* *
79041951 AGCCAC-AGGAACAGTAAAAACGTGGTAA
1 AGCCACTAGTAACAG-AAAAACGTGGCAA
79041979 AGCCACTAGT
1 AGCCACTAGT
79041989 GCAGTACTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.20
27 6 0.20
28 16 0.53
29 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (28 bp):
AGCCACTAGTAACAGAAAAACGTGGCAA
Found at i:79046299 original size:28 final size:27
Alignment explanation
Indices: 79046236--79046305 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
79046226 ATAGTGAGTC
79046236 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
79046263 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
79046291 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79046306 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:79046472 original size:105 final size:106
Alignment explanation
Indices: 79046333--79046545 Score: 401
Period size: 105 Copynumber: 2.0 Consensus size: 106
79046323 GCACACTTAG
*
79046333 TGCCAATCTCATGATCATAAATGTTCATACCCGCACACTTAGTGCCGAAATCAACAACTATATAC
1 TGCCAATCTCATGATCA-AAATGTTCATACCCGCACACTTAGTGCCAAAATCAACAACTATATAC
79046398 ATCTCACCTCTTTTCTTTTCATTCAATACTTTCATCACCACA
65 ATCTCACCTCTTTTCTTTTCATTCAATACTTTCATCACCACA
79046440 TGCCAATCTCATGATC-AAATGTTCATACCCGCACACTTAGTGCCAAAATCAACAACTATATACA
1 TGCCAATCTCATGATCAAAATGTTCATACCCGCACACTTAGTGCCAAAATCAACAACTATATACA
79046504 TCTCACCTCTTTTCTTTTCATTCAATACTTTCATCACCACA
66 TCTCACCTCTTTTCTTTTCATTCAATACTTTCATCACCACA
79046545 T
1 T
79046546 ACATACATGT
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 89 0.85
107 16 0.15
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.33
Consensus pattern (106 bp):
TGCCAATCTCATGATCAAAATGTTCATACCCGCACACTTAGTGCCAAAATCAACAACTATATACA
TCTCACCTCTTTTCTTTTCATTCAATACTTTCATCACCACA
Found at i:79060285 original size:68 final size:67
Alignment explanation
Indices: 79060239--79060383 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 67
79060229 ATACTATGTG
* *
79060239 GTAGCTAGGTCACATGTGT-GATAC-GG-G-ATGTATACCATGTAGACAAGAGAGCTACGGGATA
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAATG-ACACCATGTAGACAAGAGAGCTACGAGATA
79060300 AAC
65 AAC
** * *
79060303 GTAGCTAGGTTGCATGTGTGGTTCCAGGTGAATGACACCATGTAGACAAGAGAGCTACGAGATAA
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAATGACACCATGTAGACAAGAGAGCTACGAGATAA
79060368 A-
66 AC
* *
79060369 TTGGCTAGGTCACAT
1 GTAGCTAGGTCACAT
79060384 AGGTGGTACT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
64 17 0.25
65 3 0.04
66 13 0.19
67 31 0.46
68 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGGATACAGGTGAATGACACCATGTAGACAAGAGAGCTACGAGATAA
AC
Found at i:79068693 original size:31 final size:31
Alignment explanation
Indices: 79068655--79068733 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
79068645 CTTGACATAT
79068655 ACTGGGCCGAAGCCTTTTCATAAATCATACC
1 ACTGGGCCGAAGCCTTTTCATAAATCATACC
* *
79068686 ACTGGGCCGAATCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATACC
*
79068717 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
79068734 ACTGCAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATACC
Found at i:79068811 original size:58 final size:58
Alignment explanation
Indices: 79068747--79068863 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
79068737 GCAAACGGTA
79068747 TGGCCCTTAGGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCAT
1 TGGCCCTTAGGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCAT
79068805 TGGCCCTTAGGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCAT
1 TGGCCCTTAGGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCAT
79068863 T
1 T
79068864 TCAATATCAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (58 bp):
TGGCCCTTAGGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCAT
Found at i:79068861 original size:42 final size:42
Alignment explanation
Indices: 79068815--79068906 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
79068805 TGGCCCTTAG
* ** *
79068815 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
79068857 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
79068899 GCCCATTT
1 GCCCATTT
79068907 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:79069122 original size:26 final size:26
Alignment explanation
Indices: 79069056--79069199 Score: 220
Period size: 26 Copynumber: 5.6 Consensus size: 26
79069046 TTAATAATTA
79069056 GGGCA-AAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTG
**
79069081 GGGCA-AAGCCCTTTTCAATAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTG
*
79069106 GGGCATAAGCCATTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTG
**
79069132 GGGCATAAGCCCTTTTCAATAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTG
79069158 GGGCATAAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTG
*
79069184 GGGCATAAGCCTTTTT
1 GGGCATAAGCCCTTTT
79069200 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 28 0.26
26 79 0.74
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
GGGCATAAGCCCTTTTCGGTAAACTG
Found at i:79069161 original size:52 final size:52
Alignment explanation
Indices: 79069056--79069199 Score: 256
Period size: 52 Copynumber: 2.8 Consensus size: 52
79069046 TTAATAATTA
79069056 GGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTG
*
79069106 GGGCATAAGCCATTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTG
*
79069158 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCTTTTT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
79069200 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 5 0.06
51 24 0.27
52 60 0.67
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (52 bp):
GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTG
Found at i:79070102 original size:27 final size:27
Alignment explanation
Indices: 79070002--79070085 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
79069992 GGGCATATTC
* *
79070002 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
79070029 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTACCCTACAGGGGCTTTACG
79070056 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
79070083 GTC
1 GTC
79070086 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:79070167 original size:27 final size:27
Alignment explanation
Indices: 79070137--79070189 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
79070127 GGGTGTTTTG
79070137 GTAAATCTATAAACCAAGGGTATTTCA
1 GTAAATCTATAAACCAAGGGTATTTCA
* * * *
79070164 GTAATTTTGTAAACCAATGGTATTTC
1 GTAAATCTATAAACCAAGGGTATTTC
79070190 CATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAAATCTATAAACCAAGGGTATTTCA
Found at i:79070195 original size:27 final size:27
Alignment explanation
Indices: 79070146--79070254 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
79070136 GGTAAATCTA
79070146 TAAACCAAGGGTATTTCAGTAATTTTG
1 TAAACCAAGGGTATTTCAGTAATTTTG
*
79070173 TAAACCAATGGTATTTCCA-TAATTTT-
1 TAAACCAAGGGTATTT-CAGTAATTTTG
** * *
79070199 TAGAAAGTTAAGGGTATTTCTGTAACTTTG
1 T--AAA-CCAAGGGTATTTCAGTAATTTTG
* * **
79070229 TAAATCAGGGGTATTTTGGTAATTTT
1 TAAACCAAGGGTATTTCAGTAATTTT
79070255 ACAAATTAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.02
27 39 0.60
28 9 0.14
29 15 0.23
30 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TAAACCAAGGGTATTTCAGTAATTTTG
Done.