Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 196 of 433
Found at i:61809068 original size:21 final size:21
Alignment explanation
Indices: 61809054--61809100 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
61809044 CCTAACACTT
61809054 AACCCCTAACCCCTAAGCCTTA
1 AACCCC-AACCCCTAAGCCTTA
* * *
61809076 AACCCCAACCCTTAAACCATA
1 AACCCCAACCCCTAAGCCTTA
61809097 AACC
1 AACC
61809101 ATAATCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.38, C:0.45, G:0.02, T:0.15
Consensus pattern (21 bp):
AACCCCAACCCCTAAGCCTTA
Found at i:61809090 original size:14 final size:15
Alignment explanation
Indices: 61809061--61809093 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
61809051 CTTAACCCCT
*
61809061 AACCCCTAAGCCTTA
1 AACCCCTAACCCTTA
61809076 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
61809090 AACC
1 AACC
61809094 ATAAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.36, C:0.45, G:0.03, T:0.15
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:61809101 original size:7 final size:7
Alignment explanation
Indices: 61809088--61809182 Score: 50
Period size: 7 Copynumber: 13.4 Consensus size: 7
61809078 CCCCAACCCT
61809088 TAAACCA
1 TAAACCA
61809095 TAAACCA
1 TAAACCA
* *
61809102 TAATCTA
1 TAAACCA
*
61809109 TAAACCT
1 TAAACCA
61809116 TAAA--A
1 TAAACCA
61809121 TAGTAACTCA
1 TA--AAC-CA
* **
61809131 TACACTT
1 TAAACCA
*
61809138 TAAACCT
1 TAAACCA
61809145 TAAACCA
1 TAAACCA
* *
61809152 TATACCC
1 TAAACCA
61809159 TAAACCA
1 TAAACCA
*
61809166 TAAACCC
1 TAAACCA
*
61809173 TAAACTA
1 TAAACCA
61809180 TAA
1 TAA
61809183 TGATAATTAA
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.03
7 57 0.89
8 2 0.03
10 3 0.05
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:61809164 original size:14 final size:14
Alignment explanation
Indices: 61809138--61809182 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
61809128 TCATACACTT
*
61809138 TAAACCTTAAACCA
1 TAAACCCTAAACCA
*
61809152 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
61809166 TAAACCCTAAACTA
1 TAAACCCTAAACCA
61809180 TAA
1 TAA
61809183 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:61809412 original size:25 final size:25
Alignment explanation
Indices: 61809367--61809414 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
61809357 AGCGCCTAAA
*
61809367 CCTTAAACCCCAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
61809392 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
61809415 CATAATCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:61809417 original size:15 final size:15
Alignment explanation
Indices: 61809395--61809429 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61809385 AAACCACCCT
*
61809395 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
61809409 TAAACCCATAATCCA
1 TAAACCCATAATCCA
61809424 TAAACC
1 TAAACC
61809430 TTAAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:61809434 original size:22 final size:22
Alignment explanation
Indices: 61809390--61809434 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
61809380 CCCTTAAACC
* *
61809390 ACCCTTAAACCATAATCCCTAA
1 ACCCATAAACCATAAACCCTAA
* *
61809412 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCCTAA
61809434 A
1 A
61809435 ATTGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCATAAACCATAAACCCTAA
Found at i:61809862 original size:40 final size:40
Alignment explanation
Indices: 61809807--61809906 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
61809797 TTTGCGGCAT
* *
61809807 TTTTTGAAAAA-CGCCGCTAAAGATGAAGCAT-TAGCGGCG
1 TTTTTAAAAAAGCGCCGCTAAAGATGAA-CATATAGCAGCG
* *
61809846 TTTTCT-AAAAAGCGCCGCTAAAGGTGTACATATAGCAGCG
1 TTTT-TAAAAAAGCGCCGCTAAAGATGAACATATAGCAGCG
*
61809886 TTTTTAAAAAAGCGCTGCTAA
1 TTTTTAAAAAAGCGCCGCTAA
61809907 TACTCGATCT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
39 13 0.25
40 40 0.75
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (40 bp):
TTTTTAAAAAAGCGCCGCTAAAGATGAACATATAGCAGCG
Found at i:61809946 original size:39 final size:40
Alignment explanation
Indices: 61809886--61809969 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
61809876 TATAGCAGCG
* * *
61809886 TTTTTAAAAAAGCGCTGCTAATACTCGATCTTTAGTGGCA
1 TTTTTAAAAAAGCACCGCTAATACTCGATCTTTAGCGGCA
* ** *
61809926 TTTTT-AAAAAGCACCGCTAATGCTCTTTCTTTAGCGGCG
1 TTTTTAAAAAAGCACCGCTAATACTCGATCTTTAGCGGCA
61809965 TTTTT
1 TTTTT
61809970 CATTCAAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 32 0.86
40 5 0.14
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (40 bp):
TTTTTAAAAAAGCACCGCTAATACTCGATCTTTAGCGGCA
Found at i:61822957 original size:28 final size:29
Alignment explanation
Indices: 61822925--61823023 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61822915 ATAATAAGCC
*
61822925 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
61822953 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
61822981 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
61823010 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61823024 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:61830970 original size:28 final size:29
Alignment explanation
Indices: 61830938--61831036 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61830928 ATAATAAGCC
*
61830938 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
61830966 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
61830994 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
61831023 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61831037 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:61844310 original size:41 final size:40
Alignment explanation
Indices: 61844250--61844364 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 40
61844240 AAGAGTAGTG
*
61844250 TTGAATTGCACATAGGTGCCTCTATTTGTACTTCAGTACCC
1 TTGAATTGCACATACGTGCC-CTATTTGTACTTCAGTACCC
* * * *
61844291 TTGAATTGCACATACGTGCCCTTGTTTTTAGTTCGGTACCC
1 TTGAATTGCACATACGTGCCC-TATTTGTACTTCAGTACCC
** * *
61844332 -CAAATTGCACATACGTTCCCCTATGTGTACTTC
1 TTGAATTGCACATACG-TGCCCTATTTGTACTTC
61844365 GATACCCCTA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
40 22 0.37
41 38 0.63
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGAATTGCACATACGTGCCCTATTTGTACTTCAGTACCC
Found at i:61844371 original size:40 final size:40
Alignment explanation
Indices: 61844253--61844381 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
61844243 AGTAGTGTTG
* * **
61844253 AATTGCACATAGGTGCCTCTATTTGTACTTC-AGTACCCTTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGA-TACCC-CA
* * * * *
61844294 AATTGCACATACGTGCCCTTGTTTTTAGTTCGGTACCCCA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCA
* *
61844334 AATTGCACATACGTTCCCCTATGTGTACTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC-A
61844375 AA-TGCAC
1 AATTGCAC
61844382 TTTTGTAACC
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
40 37 0.53
41 33 0.47
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCA
Found at i:61845123 original size:30 final size:30
Alignment explanation
Indices: 61845089--61845146 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61845079 GTGTGACTTA
*
61845089 GCCGTATGTGACACACGGCTTGATGACACG
1 GCCGTATGTGACACACGGCCTGATGACACG
* *
61845119 GCCGTGTGTGACACATGGCCTGATGACA
1 GCCGTATGTGACACACGGCCTGATGACA
61845147 TGACTGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (30 bp):
GCCGTATGTGACACACGGCCTGATGACACG
Found at i:61845156 original size:30 final size:30
Alignment explanation
Indices: 61845090--61845157 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
61845080 TGTGACTTAG
* * *
61845090 CCGTATGTGACACACGGCTTGATGACACGG
1 CCGTGTGTGACACACGGCCTGATGACACGA
* *
61845120 CCGTGTGTGACACATGGCCTGATGACATGA
1 CCGTGTGTGACACACGGCCTGATGACACGA
*
61845150 CTGTGTGT
1 CCGTGTGT
61845158 CCCCTATAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (30 bp):
CCGTGTGTGACACACGGCCTGATGACACGA
Found at i:61852427 original size:28 final size:28
Alignment explanation
Indices: 61852366--61852463 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
61852356 TCACAAATTG
** * *
61852366 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
61852395 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
61852423 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
61852451 GCACTAAGTGTGC
1 GCACTAAGTGTGC
61852464 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:61855909 original size:6 final size:6
Alignment explanation
Indices: 61855898--61855984 Score: 108
Period size: 6 Copynumber: 14.8 Consensus size: 6
61855888 AAAATGTAAT
* *
61855898 TAAAAA TAAAAA TAAAAA TAAAAT TATATAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA
* *
61855947 T-AAAA T-AAAA T-AAAA TAAAAA TAAACA TAAAGA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
61855985 TTTCTTTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 15 0.21
6 53 0.74
7 4 0.06
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:61855914 original size:25 final size:26
Alignment explanation
Indices: 61855886--61855984 Score: 83
Period size: 25 Copynumber: 4.2 Consensus size: 26
61855876 AACTTATCTA
**
61855886 AAAAAATGTAATTA-AAAATAAAAAT
1 AAAAAATAAAATTATAAAATAAAAAT
*
61855911 -AAAAATAAAATTATATAATAAAAAT
1 AAAAAATAAAATTATAAAATAAAAAT
61855936 -AAAAATAAAA--ATAAAAT-AAAAT
1 AAAAAATAAAATTATAAAATAAAAAT
*
61855958 --AAAATAAAA--ATAAACATAAAGAT
1 AAAAAATAAAATTATAAA-ATAAAAAT
61855981 AAAA
1 AAAA
61855985 TTTCTTTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
21 14 0.22
22 7 0.11
23 10 0.16
24 11 0.17
25 22 0.34
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (26 bp):
AAAAAATAAAATTATAAAATAAAAAT
Found at i:61855936 original size:31 final size:31
Alignment explanation
Indices: 61855898--61855986 Score: 124
Period size: 33 Copynumber: 2.8 Consensus size: 31
61855888 AAAATGTAAT
*
61855898 TAAAAATAAAAATAAAAATAAAATTATATAA
1 TAAAAATAAAAATAAAAATAAAATTATAAAA
*
61855929 TAAAAATAAAAATAAAAATAAAATAAAATAAAA
1 TAAAAATAAAAATAAAAATAAAAT--TATAAAA
* *
61855962 TAAAAATAAACATAAAGATAAAATT
1 TAAAAATAAAAATAAAAATAAAATT
61855987 TCTTTATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
31 24 0.47
33 27 0.53
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (31 bp):
TAAAAATAAAAATAAAAATAAAATTATAAAA
Found at i:61858884 original size:29 final size:29
Alignment explanation
Indices: 61858842--61858981 Score: 151
Period size: 29 Copynumber: 4.9 Consensus size: 29
61858832 GTGAGCATGA
* *
61858842 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* *
61858870 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
** * *
61858899 ATATGAATATGAATTGGGCCTGATGGGCT
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* *
61858928 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
*
61858957 ATATGAA--TGAGATTGGGCCAAATGG
1 ATATGAAGGTGA-ATTGGGCCTAATGG
61858982 CTATATGCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
27 3 0.03
28 16 0.16
29 80 0.81
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAAGGTGAATTGGGCCTAATGGGCC
Found at i:61863729 original size:44 final size:44
Alignment explanation
Indices: 61863680--61863765 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
61863670 ACACGCGCGC
61863680 ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
1 ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
** * * * * *
61863724 ATATATATATTCGAAGGTATCTCGATGTCGTACACTAAGTGC
1 ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGC
61863766 CCATAATTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (44 bp):
ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
Found at i:61870077 original size:14 final size:14
Alignment explanation
Indices: 61870060--61870087 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61870050 GAGAAGATAA
61870060 ATGAGTGTTGAGGG
1 ATGAGTGTTGAGGG
61870074 ATGAGTGTTGAGGG
1 ATGAGTGTTGAGGG
61870088 GTTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
ATGAGTGTTGAGGG
Found at i:61871655 original size:29 final size:29
Alignment explanation
Indices: 61871623--61871757 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
61871613 ATACCCTCCG
** * *
61871623 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
61871652 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
61871681 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
61871710 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
61871739 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
61871758 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:61871690 original size:58 final size:58
Alignment explanation
Indices: 61871570--61871758 Score: 177
Period size: 58 Copynumber: 3.3 Consensus size: 58
61871560 ACTCGATTTT
* * * *** *
61871570 GCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCTC
1 GCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCAC
** * ** * * *
61871628 GCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCAT
1 GCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCAC
* *
61871686 GCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCAC
61871744 GCACACTTAGTGCCG
1 GCACACTTAGTGCCG
61871759 ATCTCGTCAC
Statistics
Matches: 104, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 93 0.89
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCAC
Found at i:61872653 original size:143 final size:143
Alignment explanation
Indices: 61872395--61872692 Score: 587
Period size: 143 Copynumber: 2.1 Consensus size: 143
61872385 AAATTCTATA
61872395 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
61872460 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
*
61872525 AGGAAGACAACAT
131 AGGAAAACAACAT
61872538 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
61872603 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
61872668 AGGAAAACAACAT
131 AGGAAAACAACAT
61872681 GCATGGCCGAAT
1 GCATGGCCGAAT
61872693 TTTAACTCAC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 154 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.21
Consensus pattern (143 bp):
GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
AGGAAAACAACAT
Found at i:61879631 original size:28 final size:29
Alignment explanation
Indices: 61879591--61879712 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
61879581 TCGCACACCC
* * * *
61879591 AGTGCCGTATTTTTCCAGCTTGCACAC-A
1 AGTGCCATATATTTCCAGCATGCACACTT
* *
61879619 AGTGTCATATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
* *
61879648 AGTGCCTTATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
61879677 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61879706 AGTGCCA
1 AGTGCCA
61879713 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 24 0.29
29 60 0.71
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:61879703 original size:58 final size:57
Alignment explanation
Indices: 61879524--61879711 Score: 166
Period size: 58 Copynumber: 3.3 Consensus size: 57
61879514 TACTCGATTT
* * *** *
61879524 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACA-AGTGCCATATATTTCC-AGCA
** * ** * *
61879582 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACAAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACAAGTGCCATATATTTCCAGCA
* * *
61879639 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACAC-AAGTGCCATATATTTCCAGCA
61879697 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
61879712 AATCTCGTCA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
56 4 0.04
57 44 0.42
58 56 0.54
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (57 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACAAGTGCCATATATTTCCAGCA
Found at i:61880614 original size:145 final size:143
Alignment explanation
Indices: 61880349--61880648 Score: 573
Period size: 145 Copynumber: 2.1 Consensus size: 143
61880339 AAATTCTATA
61880349 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
61880414 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
*
61880479 AGGAAGACAACAT
131 AGGAAAACAACAT
61880492 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCC--
61880557 TTTTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCAC
64 TTTTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCAC
61880622 CAAGGAAAACAACAT
129 CAAGGAAAACAACAT
61880637 GCATGGCCGAAT
1 GCATGGCCGAAT
61880649 TTTAACTCAC
Statistics
Matches: 154, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 63 0.41
145 91 0.59
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (143 bp):
GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
AGGAAAACAACAT
Found at i:61882017 original size:34 final size:34
Alignment explanation
Indices: 61881979--61882047 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
61881969 AAAAGAGCTC
61881979 ATCCATAGATAATTTTACTTTTATATAAAAATTA
1 ATCCATAGATAATTTTACTTTTATATAAAAATTA
61882013 ATCCATAGATAATTTTACTTTTATATAAAAATTA
1 ATCCATAGATAATTTTACTTTTATATAAAAATTA
61882047 A
1 A
61882048 CTTAAACCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (34 bp):
ATCCATAGATAATTTTACTTTTATATAAAAATTA
Found at i:61882261 original size:32 final size:35
Alignment explanation
Indices: 61882202--61882267 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 35
61882192 ATAATAAATT
*
61882202 ATTATTATAATTAATATAATTTATTATTTTAATAA
1 ATTATTATAATTAATATAAATTATTATTTTAATAA
*
61882237 ATTATT-TAA-TAATTTAAATT-TTATTTTAATA
1 ATTATTATAATTAATATAAATTATTATTTTAATA
61882268 GTAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.38
33 9 0.31
34 3 0.10
35 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
ATTATTATAATTAATATAAATTATTATTTTAATAA
Found at i:61882347 original size:15 final size:15
Alignment explanation
Indices: 61882329--61882385 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
61882319 TATCAATATT
61882329 AATATTTTAATAATA
1 AATATTTTAATAATA
*
61882344 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
61882363 AATATATTAATAATA
1 AATATTTTAATAATA
*
61882378 AATGTTTT
1 AATATTTT
61882386 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:61882868 original size:14 final size:14
Alignment explanation
Indices: 61882846--61882886 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
61882836 TTTCCAGAAA
61882846 AGAAGTCATTTTCC
1 AGAAGTCATTTTCC
*
61882860 AGAAATCATTTTCC
1 AGAAGTCATTTTCC
*
61882874 GGAAGTCATTTTC
1 AGAAGTCATTTTC
61882887 AATGAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (14 bp):
AGAAGTCATTTTCC
Found at i:61884766 original size:9 final size:9
Alignment explanation
Indices: 61884752--61884794 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
61884742 TGGGTCTTAT
61884752 TGAATTTTG
1 TGAATTTTG
61884761 TGAATTTTG
1 TGAATTTTG
61884770 TGAATTTTG
1 TGAATTTTG
*
61884779 TGTATTTTG
1 TGAATTTTG
*
61884788 TGTATTT
1 TGAATTT
61884795 ATGAAATAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (9 bp):
TGAATTTTG
Found at i:61885286 original size:49 final size:43
Alignment explanation
Indices: 61885194--61885362 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
61885184 TATTGAGATG
*
61885194 TGATTACATGTAAGCCCATGTCTGGGACATTGGCATTGTATTT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTT
*
61885237 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TT
*** * * * * * *
61885280 TGATTTTGTGTAAGACCCTTTCTGGGATAGTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TT
* * * *
61885323 TGATAACATGTAAGACCATATCTGGGATA-TGACATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
61885363 GAGCTTTATG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
42 7 0.07
43 97 0.93
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTT
Found at i:61888063 original size:23 final size:23
Alignment explanation
Indices: 61887999--61888053 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
61887989 ACGTTTACCG
61887999 CTATTAGCAACTTTGCTGCGTTA
1 CTATTAGCAACTTTGCTGCGTTA
61888022 CTATTAGCAACTTTGCTGCGTTA
1 CTATTAGCAACTTTGCTGCGTTA
61888045 CTATTAGCA
1 CTATTAGCA
61888054 GCTACGCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (23 bp):
CTATTAGCAACTTTGCTGCGTTA
Found at i:61888260 original size:33 final size:34
Alignment explanation
Indices: 61888198--61888269 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
61888188 ATAGGCCTAC
* * * *
61888198 ACTGTTACTGCATAGGGCTTAGGCACAGACTG-T
1 ACTGTTACTGAATAAGGCTCAGGCACAGACCGTT
* *
61888231 ACTGTTATTGAATAAGGCTCAGGCCCAGACCGTT
1 ACTGTTACTGAATAAGGCTCAGGCACAGACCGTT
61888265 ACTGT
1 ACTGT
61888270 ATGTATTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGTTACTGAATAAGGCTCAGGCACAGACCGTT
Found at i:61891037 original size:28 final size:28
Alignment explanation
Indices: 61890982--61891096 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 28
61890972 GTGGGCATGA
* * *
61890982 ATATGAATGTGACTGGGCCTAATGGGGC
1 ATATAAATGTGATTGGGCCTAATGGGCC
61891010 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
61891039 ATATACAA-GTGATTTGGGCCTAATGGGCC
1 ATATA-AATGTGA-TTGGGCCTAATGGGCC
* * *
61891068 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
61891096 A
1 A
61891097 GATACAGGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
28 29 0.37
29 47 0.60
30 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:61896538 original size:27 final size:27
Alignment explanation
Indices: 61896508--61896610 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 27
61896498 TAAAATTACC
* *
61896508 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
61896535 AAAATTACCGAAATACCCTC-AGTTTGC
1 AAAATTACCAAAATACCCTCGA-TTTGT
* **
61896562 AAAATTACTAAAATACCCTCGACATGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
61896589 AAAATTATCAAAGTACCCTCGA
1 AAAATTACCAAAATACCCTCGA
61896611 ATTACAAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 61 0.97
28 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:61896619 original size:54 final size:53
Alignment explanation
Indices: 61896501--61896626 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 53
61896491 CCAGTTGTAA
** * **
61896501 AATTACCAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCCTC
1 AATTA-CAAAATTACTAAAATACCCTCGACATGTAAAATTACCGAAATACCCTC
* * *
61896555 AGTTTGCAAAATTACTAAAATACCCTCGACATGTAAAATTATC-AAAGTACCCTC
1 A-ATTACAAAATTACTAAAATACCCTCGACATGTAAAATTACCGAAA-TACCCTC
61896609 GAATTACAAAAATTACTA
1 -AATTAC-AAAATTACTA
61896627 TTTTACCCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
53 3 0.05
54 42 0.72
55 13 0.22
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (53 bp):
AATTACAAAATTACTAAAATACCCTCGACATGTAAAATTACCGAAATACCCTC
Found at i:61896660 original size:27 final size:27
Alignment explanation
Indices: 61896602--61896850 Score: 295
Period size: 27 Copynumber: 9.2 Consensus size: 27
61896592 ATTATCAAAG
* *
61896602 TACCCTCGAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
*
61896630 TACCCTCGATTTAC-AAATATACTATTT
1 TACCCTCGATTTACAAAAT-TACTGTTT
* *
61896657 TACCCTCAATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * * *
61896684 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
61896711 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
61896738 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
61896765 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
61896792 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
61896819 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
61896846 TACCC
1 TACCC
61896851 CTAGGGTGTT
Statistics
Matches: 199, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.03
27 176 0.88
28 18 0.09
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:61896739 original size:81 final size:80
Alignment explanation
Indices: 61896602--61896850 Score: 345
Period size: 81 Copynumber: 3.1 Consensus size: 80
61896592 ATTATCAAAG
* * ** *
61896602 TACCCTCGAATTACAAAAATTACTATTTTACCCTCGATTTACAAATATACTATTTTACCCTCAAT
1 TACCCTCGATTTAC-AAAATTATTATTTTACCCTCGATTTACAAAT-TACCGTTTTACCCTCGAT
* *
61896667 TTATAAAATTATCGTTT
64 TTACAAAATTACCGTTT
* * *
61896684 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTACA-AATTACCGTTTTACCCTCGATT
61896749 TACAAAATTACCGTTT
65 TACAAAATTACCGTTT
* *
61896765 TACCCTCGATTTACAAAATTATTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTAC-AAATTACCGTTTTACCCTCGATT
*
61896830 TACAAAATTACCATTT
65 TACAAAATTACCGTTT
61896846 TACCC
1 TACCC
61896851 CTAGGGTGTT
Statistics
Matches: 149, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
81 133 0.89
82 16 0.11
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTACAAATTACCGTTTTACCCTCGATTT
ACAAAATTACCGTTT
Found at i:61897390 original size:31 final size:31
Alignment explanation
Indices: 61897355--61897433 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
61897345 TTGCATTCAC
* *
61897355 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
61897386 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
61897417 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
61897434 AGTTTTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:61897394 original size:6 final size:6
Alignment explanation
Indices: 61897355--61897433 Score: 72
Period size: 6 Copynumber: 12.8 Consensus size: 6
61897345 TTGCATTCAC
* * *
61897355 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
61897404 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
61897434 AGTTTTGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 48 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:61897442 original size:18 final size:18
Alignment explanation
Indices: 61897355--61897433 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
61897345 TTGCATTCAC
*
61897355 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
61897373 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
* *
61897392 ATTCTAATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
61897411 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
61897429 ATTCT
1 ATTCT
61897434 AGTTTTGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.06
18 15 0.31
19 27 0.56
20 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:61900061 original size:46 final size:46
Alignment explanation
Indices: 61899994--61900215 Score: 324
Period size: 46 Copynumber: 4.8 Consensus size: 46
61899984 TGTAACCCGC
* * *
61899994 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61900040 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61900090 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61900133 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61900179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61900216 TGCCCAAATA
Statistics
Matches: 158, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 2 0.01
46 114 0.72
47 32 0.20
48 2 0.01
49 1 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61902176 original size:30 final size:30
Alignment explanation
Indices: 61902132--61902220 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
61902122 CAAAGATAAC
*
61902132 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
61902161 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
61902191 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
61902221 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:61902180 original size:15 final size:14
Alignment explanation
Indices: 61902132--61902214 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
61902122 CAAAGATAAC
*
61902132 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
61902146 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
61902161 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
61902176 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
61902191 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
61902206 AAGAAACCC
1 AAGAAACCC
61902215 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:61902220 original size:15 final size:15
Alignment explanation
Indices: 61902143--61902220 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
61902133 AGAAAACCGA
61902143 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
61902158 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
61902172 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61902187 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61902203 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61902218 ATA
1 ATA
61902221 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61905263 original size:93 final size:93
Alignment explanation
Indices: 61905151--61905322 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61905141 GCCCATAAGT
* *
61905151 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61905216 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61905244 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61905309 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61905323 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61905318 original size:46 final size:46
Alignment explanation
Indices: 61905143--61905318 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61905133 TGTAACCCGC
* * *
61905143 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61905189 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61905239 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61905282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61905319 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, 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 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61907921 original size:23 final size:23
Alignment explanation
Indices: 61907894--61907951 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
61907884 ATGTTTACCG
*
61907894 CTATTAGCATCTTTCCTGTGTTA
1 CTATTAGCATCTTTCCTATGTTA
* * **
61907917 CTATTAGTAGCTTTGTTATGTTA
1 CTATTAGCATCTTTCCTATGTTA
61907940 CTATTAGCATCT
1 CTATTAGCATCT
61907952 ACACTGCAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (23 bp):
CTATTAGCATCTTTCCTATGTTA
Found at i:61910623 original size:29 final size:29
Alignment explanation
Indices: 61910581--61910685 Score: 183
Period size: 29 Copynumber: 3.6 Consensus size: 29
61910571 TCTTGACATA
61910581 TACTGGGCCGAAGCCTTTCGTTTAATGGT
1 TACTGGGCCGAAGCCTTTCGTTTAATGGT
*
61910610 TACTGGGCTGAAGCCTTTCGTTTAATGGT
1 TACTGGGCCGAAGCCTTTCGTTTAATGGT
*
61910639 TACTGGGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAATGGT
*
61910668 TACTGGGCCGAATCCTTT
1 TACTGGGCCGAAGCCTTT
61910686 TCATAAATCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (29 bp):
TACTGGGCCGAAGCCTTTCGTTTAATGGT
Found at i:61910787 original size:42 final size:42
Alignment explanation
Indices: 61910740--61910831 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
61910730 TGGCCCATAG
* ** * *
61910740 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAACGTATGCAA
*
61910782 GCCCATTTCAATATCATATGAAATACCAATGAACGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAACGTATGCAA
61910824 GCCCATTT
1 GCCCATTT
61910832 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAACGTATGCAA
Found at i:61911009 original size:25 final size:25
Alignment explanation
Indices: 61910964--61911047 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
61910954 CTAGAGTCCT
61910964 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
***
61910988 AGCCCTTTTTGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
61911013 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
61911039 AGCCCTTTT
1 AGCCCTTTT
61911048 GCACCTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 32 0.62
26 10 0.19
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:61911122 original size:20 final size:20
Alignment explanation
Indices: 61911097--61911163 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
61911087 TTATGAATAC
61911097 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
61911117 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
61911137 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
61911157 ATCATGT
1 ATCATGT
61911164 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:61911901 original size:27 final size:27
Alignment explanation
Indices: 61911871--61911935 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
61911861 GGGCATATTC
61911871 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
61911898 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
61911925 GTCTTTTTACC
1 GTCATTTTACC
61911936 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:61912084 original size:56 final size:54
Alignment explanation
Indices: 61911966--61912123 Score: 147
Period size: 56 Copynumber: 2.9 Consensus size: 54
61911956 TTTCATCCTA
* * * * * *
61911966 CAAGGGTGTTTTGGTAAATCTACAAACCAATGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
* * * *
61912020 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTGTAAAC
* * * * *
61912076 TAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTT
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCAGTAATTTT
61912124 ACAAACTAGG
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
54 32 0.39
55 16 0.19
56 35 0.42
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:61912167 original size:54 final size:54
Alignment explanation
Indices: 61911969--61912152 Score: 145
Period size: 54 Copynumber: 3.4 Consensus size: 54
61911959 CATCCTACAA
* * ** * ** * *
61911969 GGGTGTTTTGGTAAATCTACAAACCAATGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTCTACAAATTAAGGGTATTTCAGTAATTTTACAAACTAG
* * * * * * ** *
61912023 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAA-TTCTACAAA-TTAAGGGTATTTCAGTAATTTTACAAACTAG
* *
61912079 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTCTACAAATTAAGGGTATTTCAGTAATTTTACAAACTAG
*
61912133 GGGTGTTTTGGTAATTCTAC
1 GGGTATTTTGGTAATTCTAC
61912153 CCTATAGGGG
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
54 53 0.51
55 16 0.15
56 35 0.34
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTCTACAAATTAAGGGTATTTCAGTAATTTTACAAACTAG
Found at i:61912445 original size:54 final size:54
Alignment explanation
Indices: 61912160--61912508 Score: 231
Period size: 54 Copynumber: 6.4 Consensus size: 54
61912150 TACCCTATAG
* * ** *
61912160 GGGTATTTTAGTAATTT-CACAATCGAGGGTAAAATGGTAATTTTGTAAATCAA
1 GGGTAATTTAGTAATTTGTACAATCGAGGGTAAAACAGTAATTTTATAAATCAA
*** * *
61912213 GGGTAAAACAGTAATTCTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAATTTAGTAATT-TGTACAATCGAGGGTAAAACAGTAATTTTATAAATCAA
* * * *** * * *
61912267 GGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTAGG
1 GGGTAATTTAGTAATTTGTACAA-TCGAGGGTAAAACAGTAATTTTATAAATCA-A
* * * ** * *
61912323 GGGTATTTTAGTAATTT-TACAAGCAAGGGGTATTATAGTAATTTTGTAAATCAA
1 GGGTAATTTAGTAATTTGTACAATCGA-GGGTAAAACAGTAATTTTATAAATCAA
* ** *
61912377 AGGTAAAATAGTAATTCTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAATTTAGTAATT-TGTACAATCGAGGGTAAAACAGTAATTTTATAAATCAA
* * * * *** * * *
61912431 GGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAGG
1 GGGTAATTTAGTAATTTGTACAA-TCGAGGGTAAAACAGTAATTTTATAAATCA-A
*
61912487 GGGTATTTTAGTAATTT-TACAA
1 GGGTAATTTAGTAATTTGTACAA
61912509 ACCAGGGGTA
Statistics
Matches: 224, Mismatches: 61, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
53 18 0.08
54 91 0.41
55 83 0.37
56 32 0.14
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (54 bp):
GGGTAATTTAGTAATTTGTACAATCGAGGGTAAAACAGTAATTTTATAAATCAA
Found at i:61912450 original size:137 final size:136
Alignment explanation
Indices: 61912222--61912584 Score: 383
Period size: 137 Copynumber: 2.7 Consensus size: 136
61912212 AGGGTAAAAC
* * * * **** *
61912222 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATT-TTT
1 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
* * *
61912286 ACAAGTCGAGGGTATTTCAGTAATTTTACAAATTAGGGGGTATTTTAGTAATTTTAC-AAGCAAG
66 A-AA-TCAAGGGTATTTCAGTAATTTTACAAATT-GAGGGTATTTCAGTAATTTTACAAAGCAAG
61912350 GGGTATTAT
128 GGGTATTAT
* *
61912359 AGTAATTTTGTAAATCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
1 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
* * ** *
61912424 AAATCAAGGGTACTTT-GGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAGGG
66 AAATCAAGGGTA-TTTCAGTAA-TTTTACAAATTGAGGGTATTTCAGTAATTTTACAAAGCAAGG
*
61912488 GGTATTTT
129 GGTATTAT
** * * *** *
61912496 AGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAT
1 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
61912561 AAATCGAA-GGCATTTCAGTAATTT
66 AAATC-AAGGGTATTTCAGTAATTT
61912585 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
136 38 0.20
137 145 0.77
138 5 0.03
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (136 bp):
AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCAAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAAGCAAGGGG
TATTAT
Found at i:61912544 original size:27 final size:27
Alignment explanation
Indices: 61911997--61912545 Score: 200
Period size: 27 Copynumber: 20.1 Consensus size: 27
61911987 ACAAACCAAT
* * * * *
61911997 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCGAG
* *
61912024 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCGAG
* *
61912053 GGTATTTCT-GTAATTTTGTAAAT-TAGG
1 GGTATTT-TAGTAATTTTATAAATCGA-G
* * **
61912080 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTTAGTAATTTTATAAATCGAG
** * *
61912107 GGTATTTCGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATCGA-G
* * * *** *
61912134 GGTGTTTTGGTAATTCTACCCTATAG-G
1 GGTATTTTAGTAATTTTA-TAAATCGAG
* *
61912161 GGTATTTTAGTAATTTCA-CAATCGAG
1 GGTATTTTAGTAATTTTATAAATCGAG
*** * * *
61912187 GGTAAAATGGTAATTTTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCGAG
**** * *
61912214 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCGAG
**** *
61912241 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCGAG
* *
61912268 GGTACTTTGGTAATTTT-TACAAGTCGAG
1 GGTATTTTAGTAATTTTATA-AA-TCGAG
* * * *
61912296 GGTATTTCAGTAATTTTACAAATTAGGG
1 GGTATTTTAGTAATTTTATAAA-TCGAG
* * *
61912324 GGTATTTTAGTAATTTTA-CAAGCAAGG
1 GGTATTTTAGTAATTTTATAAATCGA-G
* * * *
61912351 GGTATTATAGTAATTTTGTAAATCAAA
1 GGTATTTTAGTAATTTTATAAATCGAG
*** * *
61912378 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCGAG
**** * *
61912405 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCGAG
* * *
61912432 GGTACTTTGGTAATTTT-TACAAGTTGAG
1 GGTATTTTAGTAATTTTATA-AA-TCGAG
* * * *
61912460 GGTATTTCAGTAATTTTACAAATTAGGG
1 GGTATTTTAGTAATTTTATAAA-TCGAG
* *
61912488 GGTATTTTAGTAATTTTACAAA-CCAGG
1 GGTATTTTAGTAATTTTATAAATCGA-G
*
61912515 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCGAG
61912542 GGTA
1 GGTA
61912546 AAACGGTAAT
Statistics
Matches: 406, Mismatches: 94, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
25 4 0.01
26 20 0.05
27 256 0.63
28 109 0.27
29 17 0.04
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCGAG
Found at i:61912583 original size:164 final size:164
Alignment explanation
Indices: 61912159--61912567 Score: 667
Period size: 164 Copynumber: 2.5 Consensus size: 164
61912149 CTACCCTATA
* * * ** *
61912159 GGGGTATTTTAGTAATTTCACAATCGA-GGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACA
1 GGGGTATTTTAGTAATTTTACAAACAAGGGGTATTATAGTAATTTTGTAAATCAAGGGTAAAACA
*
61912223 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTAC
66 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTTAC
61912288 AAGTCGAGGGTATTTCAGTAATTTTACAAATTAG
131 AAGTCGAGGGTATTTCAGTAATTTTACAAATTAG
* * *
61912322 GGGGTATTTTAGTAATTTTACAAGCAAGGGGTATTATAGTAATTTTGTAAATCAAAGGTAAAATA
1 GGGGTATTTTAGTAATTTTACAAACAAGGGGTATTATAGTAATTTTGTAAATCAAGGGTAAAACA
61912387 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTTAC
66 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTTAC
*
61912452 AAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
131 AAGTCGAGGGTATTTCAGTAATTTTACAAATTAG
* * * *
61912486 GGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACG
1 GGGGTATTTTAGTAATTTTACAAACAAGGGGTATTATAGTAATTTTGTAAATCAAGGGTAAAACA
*
61912551 GTAATTCTATAAATCGA
66 GTAATTCTGTAAATCGA
61912568 AGGCATTTCA
Statistics
Matches: 227, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
163 24 0.11
164 203 0.89
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (164 bp):
GGGGTATTTTAGTAATTTTACAAACAAGGGGTATTATAGTAATTTTGTAAATCAAGGGTAAAACA
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTTAC
AAGTCGAGGGTATTTCAGTAATTTTACAAATTAG
Found at i:61915047 original size:63 final size:64
Alignment explanation
Indices: 61914971--61915099 Score: 233
Period size: 63 Copynumber: 2.0 Consensus size: 64
61914961 TGTTTAAGTA
*
61914971 AAGAATGATATCTGGTAAAGAAACAAATTTTGGTCT-GGAAAAGATGGTGAGTTAAGAATCATG
1 AAGAATGATATCTGGCAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
*
61915034 AAGAATGATATCTGGCAAAGAAACAAATTTTTGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
1 AAGAATGATATCTGGCAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
61915098 AA
1 AA
61915100 AAGAATGTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 34 0.54
64 29 0.46
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (64 bp):
AAGAATGATATCTGGCAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
Found at i:61917274 original size:250 final size:250
Alignment explanation
Indices: 61916833--61917329 Score: 994
Period size: 250 Copynumber: 2.0 Consensus size: 250
61916823 AACTCAGTTC
61916833 ATTTTCCACATGTGAATACTACTTATCCTTTAGAGAAGTTAGTTGAACTATATATTGCAGAGATA
1 ATTTTCCACATGTGAATACTACTTATCCTTTAGAGAAGTTAGTTGAACTATATATTGCAGAGATA
61916898 ATATGCCTTCATGGAATTCCTTCTTCCATAGAGTTTGATAGAGATCCAAGGTTTACCTTGAGGTT
66 ATATGCCTTCATGGAATTCCTTCTTCCATAGAGTTTGATAGAGATCCAAGGTTTACCTTGAGGTT
61916963 TTGGAATTAGTTATAGATACCTTTTTGAACTAAGCTGTAGTTTAGTACTACATTTCATCCTCAAA
131 TTGGAATTAGTTATAGATACCTTTTTGAACTAAGCTGTAGTTTAGTACTACATTTCATCCTCAAA
61917028 CTGATGGTCAGTCTGAAAGAGTTATTTAGATTATGGAAGATATGTTAAGAAGTGT
196 CTGATGGTCAGTCTGAAAGAGTTATTTAGATTATGGAAGATATGTTAAGAAGTGT
61917083 ATTTTCCACATGTGAATACTACTTATCCTTTAGAGAAGTTAGTTGAACTATATATTGCAGAGATA
1 ATTTTCCACATGTGAATACTACTTATCCTTTAGAGAAGTTAGTTGAACTATATATTGCAGAGATA
61917148 ATATGCCTTCATGGAATTCCTTCTTCCATAGAGTTTGATAGAGATCCAAGGTTTACCTTGAGGTT
66 ATATGCCTTCATGGAATTCCTTCTTCCATAGAGTTTGATAGAGATCCAAGGTTTACCTTGAGGTT
61917213 TTGGAATTAGTTATAGATACCTTTTTGAACTAAGCTGTAGTTTAGTACTACATTTCATCCTCAAA
131 TTGGAATTAGTTATAGATACCTTTTTGAACTAAGCTGTAGTTTAGTACTACATTTCATCCTCAAA
61917278 CTGATGGTCAGTCTGAAAGAGTTATTTAGATTATGGAAGATATGTTAAGAAG
196 CTGATGGTCAGTCTGAAAGAGTTATTTAGATTATGGAAGATATGTTAAGAAG
61917330 CTATGTAATT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
250 247 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (250 bp):
ATTTTCCACATGTGAATACTACTTATCCTTTAGAGAAGTTAGTTGAACTATATATTGCAGAGATA
ATATGCCTTCATGGAATTCCTTCTTCCATAGAGTTTGATAGAGATCCAAGGTTTACCTTGAGGTT
TTGGAATTAGTTATAGATACCTTTTTGAACTAAGCTGTAGTTTAGTACTACATTTCATCCTCAAA
CTGATGGTCAGTCTGAAAGAGTTATTTAGATTATGGAAGATATGTTAAGAAGTGT
Found at i:61919413 original size:49 final size:49
Alignment explanation
Indices: 61919328--61919572 Score: 319
Period size: 49 Copynumber: 4.9 Consensus size: 49
61919318 TAGCCAAAGC
* * *
61919328 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
61919377 TATCCGGTGCACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
61919427 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * * ** *
61919478 TATCAGGTACGCATAGTAGCCTGCACTTAGTTTTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
61919527 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
61919573 TCACAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 82 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:61920261 original size:30 final size:30
Alignment explanation
Indices: 61920216--61920275 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61920206 CCTTTAATAC
61920216 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
61920246 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
61920276 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:61922328 original size:15 final size:16
Alignment explanation
Indices: 61922299--61922332 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
61922289 AATAGAGAAG
61922299 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
61922315 CCAAG-ATAAAGAAAT
1 CCAAGAATAAAGAAAT
61922330 CCA
1 CCA
61922333 TAATACGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:61925197 original size:50 final size:50
Alignment explanation
Indices: 61925082--61925265 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 50
61925072 TCTAGTAGCA
* * * * *
61925082 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* ** * *
61925131 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* *
61925181 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTATCAGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-TTATCAGGTACACG
61925232 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
61925266 CACAATAGCT
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 32 0.28
50 43 0.37
51 40 0.34
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
Found at i:61925245 original size:101 final size:99
Alignment explanation
Indices: 61925082--61925265 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
61925072 TCTAGTAGCA
* * **
61925082 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
61925147 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * **
61925181 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATCAGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
61925246 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
61925266 CACAATAGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.38
100 2 0.03
101 44 0.59
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:61925947 original size:30 final size:30
Alignment explanation
Indices: 61925913--61925972 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61925903 CTTTAATATG
61925913 AACTTTTGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTTGAAAAATTACAC-TTTTGCCCCTA
* *
61925943 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
61925973 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTTGCCCCTA
Found at i:61927383 original size:38 final size:38
Alignment explanation
Indices: 61927329--61927413 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
61927319 AGAATGAAAG
* *
61927329 AAAGAAGAGGAAAAGAATGGTGCAAGAACCTATTCCAA
1 AAAGAAGAGGAAAAGAATGGTCCAAGAACCCATTCCAA
* *
61927367 AAAGAAGAGGAGAAGAATGGTCCAAGAACCCATTGCAA
1 AAAGAAGAGGAAAAGAATGGTCCAAGAACCCATTCCAA
61927405 AAAGAAGAG
1 AAAGAAGAG
61927414 AAATTGATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.26, T:0.11
Consensus pattern (38 bp):
AAAGAAGAGGAAAAGAATGGTCCAAGAACCCATTCCAA
Found at i:61935489 original size:14 final size:14
Alignment explanation
Indices: 61935470--61935499 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61935460 CACATCCCAA
*
61935470 AAATTGGGTTAGTG
1 AAATTGGGTTAATG
61935484 AAATTGGGTTAATG
1 AAATTGGGTTAATG
61935498 AA
1 AA
61935500 TCGAGAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (14 bp):
AAATTGGGTTAATG
Found at i:61936093 original size:16 final size:18
Alignment explanation
Indices: 61936074--61936111 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
61936064 ATATTCTCAT
61936074 TTTTTTCA-TTTCT-TCC
1 TTTTTTCATTTTCTCTCC
61936090 -TTTTTCATTTTCTCTCC
1 TTTTTTCATTTTCTCTCC
61936107 TTTTT
1 TTTTT
61936112 GAAAAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 3 0.16
18 4 0.21
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTCATTTTCTCTCC
Found at i:61936095 original size:15 final size:17
Alignment explanation
Indices: 61936075--61936111 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
61936065 TATTCTCATT
61936075 TTTTTCA-TTTCT-TCC
1 TTTTTCATTTTCTCTCC
61936090 TTTTTCATTTTCTCTCC
1 TTTTTCATTTTCTCTCC
61936107 TTTTT
1 TTTTT
61936112 GAAAAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTCATTTTCTCTCC
Found at i:61939262 original size:27 final size:27
Alignment explanation
Indices: 61939222--61939327 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
61939212 AGGAAGCGTC
*
61939222 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
61939249 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
61939276 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
61939304 CTGGTGACTCTGTCAC-ATTATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
61939328 TTCTAGCAGC
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.04
27 49 0.70
28 18 0.26
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:61939328 original size:54 final size:54
Alignment explanation
Indices: 61939222--61939331 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
61939212 AGGAAGCGTC
* *
61939222 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
61939276 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
61939330 CT
1 CT
61939332 AGCAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:61946075 original size:55 final size:56
Alignment explanation
Indices: 61946010--61946124 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
61946000 AGCATGGCTG
* * *
61946010 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
61946066 CCAGA-ACAGATATACGTGGCAGGGCCACTAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
61946121 CCAG
1 CCAG
61946125 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:61946120 original size:28 final size:27
Alignment explanation
Indices: 61946035--61946124 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
61946025 GTGACAGAGT
*
61946035 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
61946064 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
61946091 CACTAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
61946119 CACCAG
1 CACCAG
61946125 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:61946287 original size:28 final size:28
Alignment explanation
Indices: 61946230--61946320 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
61946220 AAATTAACCC
*
61946230 TAGGGGTATAGA-GGTCA-TTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
61946257 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
61946285 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
61946313 TAGGGGTA
1 TAGGGGTA
61946321 CTCTAGTACA
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
26 1 0.02
27 14 0.23
28 46 0.75
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:61958309 original size:40 final size:40
Alignment explanation
Indices: 61958235--61958380 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
61958225 CCGCACCAAG
* * * * * *
61958235 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
61958275 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
61958315 GCCTTCGGGTCTTAGCCCGCATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
61958355 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
61958381 TTTCCAGCAT
Statistics
Matches: 87, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:61958395 original size:40 final size:40
Alignment explanation
Indices: 61958267--61958418 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
61958257 ATCACGATTT
* * * **
61958267 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
61958307 GCACGAA-TGCCTTCGGGTCTTAGCCCGCATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
61958347 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
61958387 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
61958419 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:61966620 original size:24 final size:25
Alignment explanation
Indices: 61966593--61966644 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
61966583 GCCTAGCCTC
* *
61966593 TTTTAAT-AATTGGGGCGAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
61966617 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
61966642 TTT
1 TTT
61966645 CGCACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:61966747 original size:21 final size:21
Alignment explanation
Indices: 61966694--61966734 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61966684 AATGAGTATA
*
61966694 TCATAGCATATCATGTGCATC
1 TCATAACATATCATGTGCATC
61966715 TCATAACATATCATGTGCAT
1 TCATAACATATCATGTGCAT
61966735 ACCATGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (21 bp):
TCATAACATATCATGTGCATC
Found at i:61968650 original size:19 final size:20
Alignment explanation
Indices: 61968626--61968663 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
61968616 CACAACCCAA
61968626 TACCAAATT-TTAAAAATTC
1 TACCAAATTCTTAAAAATTC
*
61968645 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
61968664 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTC
Found at i:61976211 original size:30 final size:29
Alignment explanation
Indices: 61976117--61976218 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
61976107 TATAGTGAAT
* * *
61976117 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
61976146 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
61976174 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
61976204 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
61976219 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:61984029 original size:30 final size:29
Alignment explanation
Indices: 61983935--61984036 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
61983925 TATAGTGAAT
* * *
61983935 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
61983964 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
61983992 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
61984022 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
61984037 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:61985690 original size:21 final size:22
Alignment explanation
Indices: 61985666--61985723 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
61985656 AATGAGTATA
61985666 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
61985687 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
61985709 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
61985724 ATTGCAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:61987618 original size:19 final size:20
Alignment explanation
Indices: 61987594--61987631 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
61987584 CACAACCCAA
61987594 TACCAAATT-TTAAAAATTC
1 TACCAAATTCTTAAAAATTC
*
61987613 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
61987632 ACGACAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTC
Found at i:61993436 original size:24 final size:25
Alignment explanation
Indices: 61993409--61993460 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
61993399 GCCTAGCCTC
61993409 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
** *
61993433 TTTTGGTAAACTGGGGCACAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
61993458 TTT
1 TTT
61993461 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:61993652 original size:26 final size:27
Alignment explanation
Indices: 61993604--61993654 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
61993594 ATAATTAAAC
*
61993604 CCTAGGGGGAATAATGGTCATTTTTTT
1 CCTAGGGGGAATAATAGTCATTTTTTT
* *
61993631 CCTAGGGGTAA-AATAGTTATTTTT
1 CCTAGGGGGAATAATAGTCATTTTT
61993655 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (27 bp):
CCTAGGGGGAATAATAGTCATTTTTTT
Found at i:61996542 original size:29 final size:28
Alignment explanation
Indices: 61996444--61996557 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
61996434 TGAGCATGAT
*
61996444 TATGAATATGATTGGGCCTAACGGGCCA
1 TATGAATATGATTGGGCCTAATGGGCCA
* *
61996472 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATATGA-TTGGGCCTAATGGGCCA
** *
61996501 TAT-ACAGGTGATTTGGGCCTAATAGGCCA
1 TATGA-ATATGA-TTGGGCCTAATGGGCCA
* *
61996530 TATGAATAAGATTGGGCTTAATGGGCCA
1 TATGAATATGATTGGGCCTAATGGGCCA
61996558 AATACAGGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.34
29 47 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
TATGAATATGATTGGGCCTAATGGGCCA
Found at i:61996554 original size:57 final size:58
Alignment explanation
Indices: 61996455--61996566 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
61996445 ATGAATATGA
* ** *
61996455 TTGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGAT
1 TTGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATGGGCCAAATACAGGTGAT
* * *
61996513 TTGGGCCTAATAGGCCATATGAATAAGA-TTGGGCTTAATGGGCCAAATACAGGT
1 TTGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATGGGCCAAATACAGGT
61996567 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (58 bp):
TTGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATGGGCCAAATACAGGTGAT
Found at i:62004921 original size:24 final size:24
Alignment explanation
Indices: 62004877--62004924 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
62004867 TAATTCAATC
*
62004877 TAACCATATTAAGCACACATATAT
1 TAACCATATTAAACACACATATAT
*
62004901 TAACCATATTATAAC-CTCATATAT
1 TAACCATATTA-AACACACATATAT
62004925 ATATTCACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (24 bp):
TAACCATATTAAACACACATATAT
Found at i:62014385 original size:29 final size:29
Alignment explanation
Indices: 62014351--62014453 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
62014341 TAATCAGCCG
*
62014351 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
62014380 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
* * *
62014409 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATACATTTCAAACT
*
62014438 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
62014454 ATCTCTCAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 3 0.04
29 65 0.96
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:62016789 original size:37 final size:37
Alignment explanation
Indices: 62016738--62016820 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
62016728 TTATTACGAA
*
62016738 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
62016775 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
*
62016812 GTCTCACCC
1 GTCTTACCC
62016821 GGAACATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
Found at i:62016927 original size:48 final size:48
Alignment explanation
Indices: 62016868--62017067 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
62016858 TGTTACAACA
*
62016868 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
62016916 TTCACATTAGCCATTCAGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
62016964 TTCACATTAGCCCTTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
62017012 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
62017060 TTCACATT
1 TTCACATT
62017068 CATCACATCG
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:62017114 original size:18 final size:18
Alignment explanation
Indices: 62017083--62017118 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62017073 CATCGGCCAT
*
62017083 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
62017101 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
62017119 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:62017114 original size:75 final size:75
Alignment explanation
Indices: 62017028--62017177 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
62017018 TTAGCCATTC
62017028 GGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 GGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTAT
62017093 CACATATATA
66 CACATATATA
62017103 GGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 GGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTAT
62017168 CACATATATA
66 CACATATATA
62017178 TACACCTTCA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (75 bp):
GGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATA
Found at i:62017242 original size:96 final size:97
Alignment explanation
Indices: 62017134--62017373 Score: 401
Period size: 96 Copynumber: 2.5 Consensus size: 97
62017124 CACACATATG
*
62017134 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
62017199 TCGGCCATTAGGCCTTATCAC-ATATATACTC
66 TCGGCCATTAGGCCTTATCACAATATATACAC
*
62017230 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
62017295 TTGGCCATTAGGCCTTATCACATATATATATACAC
66 TCGGCCATTAGGCCTTATCAC--A-ATATATACAC
*
62017330 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
62017374 CATCTCATAC
Statistics
Matches: 135, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
96 83 0.61
100 52 0.39
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (97 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATACAC
Found at i:62017343 original size:51 final size:49
Alignment explanation
Indices: 62017134--62017373 Score: 403
Period size: 49 Copynumber: 4.9 Consensus size: 49
62017124 CACACATATG
*
62017134 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
62017183 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
62017230 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
62017279 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
62017330 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
62017374 CATCTCATAC
Statistics
Matches: 181, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
47 44 0.24
49 89 0.49
51 48 0.27
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:62026875 original size:29 final size:29
Alignment explanation
Indices: 62026841--62026943 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
62026831 TAATCAGCCG
** *
62026841 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
62026870 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
62026899 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
62026928 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
62026944 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:62044227 original size:21 final size:22
Alignment explanation
Indices: 62044179--62044228 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
62044169 TATTAAAGAG
**
62044179 TGTTGTGATTGCATCTGACTCT
1 TGTTGTGGGTGCATCTGACTCT
*
62044201 TG-TGTGGGTGCATCTGGCT-T
1 TGTTGTGGGTGCATCTGACTCT
62044221 TGTTGTGG
1 TGTTGTGG
62044229 TTGTATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.34, T:0.44
Consensus pattern (22 bp):
TGTTGTGGGTGCATCTGACTCT
Found at i:62046715 original size:47 final size:48
Alignment explanation
Indices: 62046603--62046873 Score: 183
Period size: 47 Copynumber: 5.8 Consensus size: 48
62046593 GTTATTGTGG
* * * * *
62046603 GCTAGTGAAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGA-GATGATAA
* * * *
62046650 GC-AGTGTAAGACCGTGTCTGGGATATGGCATCGGTATTGAGATGAGT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATGA-TAA
* * *
62046698 -CTAGTGTAAGA-CATGTCTGGGACGT-GCATCGGCCTCGAGA-GGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAGATGATAA
* * *
62046743 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCTACGAGATGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAGATGATAA
* * *
62046789 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGAT-ATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGATAA
* * * *
62046836 GCTAGTGTAAGACCGTGTCTGGGATATGTCATCAGCAC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
62046874 TTTACCCATG
Statistics
Matches: 175, Mismatches: 33, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 65 0.37
47 80 0.46
48 25 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGATAA
Found at i:62046750 original size:46 final size:46
Alignment explanation
Indices: 62046606--62046822 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 46
62046596 ATTGTGGGCT
* * * * * * *
62046606 AGTGAAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAGGATAGCC
* * * * *
62046652 AGTGTAAGACCGTGTCTGGGATATGGCATCGG-TATTGAGATGAGTA-CT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAGGA-TAGCC
*
62046700 AGTGTAAGACATGTCTGGGACGTGCATCGGCCT-CGAGAGG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAGGAT-AGCC
* * * *
62046746 AGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGATAGCC
62046792 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
62046823 ACATGAGATA
Statistics
Matches: 135, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 66 0.49
47 38 0.28
48 25 0.19
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGATAGCC
Found at i:62046843 original size:93 final size:94
Alignment explanation
Indices: 62046651--62046871 Score: 218
Period size: 93 Copynumber: 2.4 Consensus size: 94
62046641 TTATGAGAGG
* * * * * * *
62046651 CAGTGTAAGACCGTGTCTGGGATATGGCATC-GGTATTGAGATGAGTACT-AGTGTAAGACATGT
1 CAGTGTAAGACCATGTCTAGGACATGTCATCAGCTA-CGAGATGA-TAGTCAGTGTAAGACATGT
* * * *
62046714 CTGGGACGTGCATCGGCCTCGAGAGGTAAGC
64 CTGGGACATGCATCGACATCGAGAGATAAGC
62046745 CAGTGTAAGA-CATGTCTAGGACATG-CATCAGCTACGAGATGATAGTCAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTCTAGGACATGTCATCAGCTACGAGATGATAGTCAGTGTAAGA-CATGTC
* *
62046808 TGGGACATGGCATCGACAT-GAGATATGAGC
65 TGGGACAT-GCATCGACATCGAGAGATAAGC
* * * *
62046838 TAGTGTAAGACCGTGTCTGGGATATGTCATCAGC
1 CAGTGTAAGACCATGTCTAGGACATGTCATCAGC
62046872 ACTTTACCCA
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
91 3 0.03
92 20 0.19
93 45 0.43
94 30 0.29
95 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (94 bp):
CAGTGTAAGACCATGTCTAGGACATGTCATCAGCTACGAGATGATAGTCAGTGTAAGACATGTCT
GGGACATGCATCGACATCGAGAGATAAGC
Found at i:62063853 original size:43 final size:43
Alignment explanation
Indices: 62063791--62063888 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
62063781 AATAGAGGTC
* *
62063791 ACACGCCCATGTGAACAGGCCGTGTGCCTCACACGACTAGTAG
1 ACACGCCCGTGTGAACAGGCCGTATGCCTCACACGACTAGTAG
* *
62063834 ACACACCCGTGTGAACAGGCCGTATGCCTCACACGGCTAGTAG
1 ACACGCCCGTGTGAACAGGCCGTATGCCTCACACGACTAGTAG
62063877 ACACGCCCGTGT
1 ACACGCCCGTGT
62063889 CTTAGGCCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (43 bp):
ACACGCCCGTGTGAACAGGCCGTATGCCTCACACGACTAGTAG
Found at i:62066354 original size:19 final size:19
Alignment explanation
Indices: 62066330--62066366 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62066320 GTGTCCCCTG
* *
62066330 TATTTTGTAAAATTTTCTA
1 TATTTTCTAAAAATTTCTA
62066349 TATTTTCTAAAAATTTCT
1 TATTTTCTAAAAATTTCT
62066367 TGAGTTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTTTCTAAAAATTTCTA
Found at i:62068858 original size:40 final size:40
Alignment explanation
Indices: 62068731--62068860 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
62068721 TATGCTGGAA
* * *
62068731 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
62068771 GCTA-ATCCGGGCTTAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
62068810 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
62068850 ATTATATCCGG
1 ATTATATCCGG
62068861 TTATATTCCG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 31 0.42
40 42 0.58
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:62073616 original size:30 final size:30
Alignment explanation
Indices: 62073582--62073681 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
62073572 CGATAATAAT
62073582 AACATGGCATGCAGTAAATAATAACAGTCA
1 AACATGGCATGCAGTAAATAATAACAGTCA
* * * * * *
62073612 AACAT-GCATTCAGGTCAACCTTATAAGATAATAA
1 AACATGGCATGCA-GT-AA-ATAAT-A-ACAGTCA
*
62073646 TAACATGGCATGCAGTAAATAGTAACAGTCA
1 -AACATGGCATGCAGTAAATAATAACAGTCA
62073677 AACAT
1 AACAT
62073682 ACATTCAGGT
Statistics
Matches: 50, Mismatches: 13, Indels: 14
0.65 0.17 0.18
Matches are distributed among these distances:
29 6 0.12
30 12 0.24
31 6 0.12
32 4 0.08
33 3 0.06
34 6 0.12
35 7 0.14
36 6 0.12
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (30 bp):
AACATGGCATGCAGTAAATAATAACAGTCA
Found at i:62073677 original size:65 final size:65
Alignment explanation
Indices: 62073573--62073699 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
62073563 CACATGCATC
*
62073573 GATAATAATAACATGGCATGCAGTAAATAATAACAGTCAAACATGCATTCAGGTCAACCTTATAA
1 GATAATAATAACATGGCATGCAGTAAATAATAACAGTCAAACATACATTCAGGTCAACCTTATAA
*
62073638 GATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTA
1 GATAATAATAACATGGCATGCAGTAAATAATAACAGTCAAACATACATTCAGGTCAACCTTA
62073700 ACCCTAGGGG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.24
Consensus pattern (65 bp):
GATAATAATAACATGGCATGCAGTAAATAATAACAGTCAAACATACATTCAGGTCAACCTTATAA
Found at i:62073758 original size:27 final size:26
Alignment explanation
Indices: 62073702--62073758 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
62073692 CAACCTTAAC
* * *
62073702 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
62073728 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
62073755 CCTA
1 CCTA
62073759 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:62078086 original size:65 final size:65
Alignment explanation
Indices: 62077982--62078107 Score: 243
Period size: 65 Copynumber: 1.9 Consensus size: 65
62077972 CATGCATCAA
*
62077982 ATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATAAG
1 ATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTATAAG
62078047 ATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTA
1 ATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTA
62078108 ACCCTAAGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (65 bp):
ATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTATAAG
Found at i:62078139 original size:26 final size:26
Alignment explanation
Indices: 62078110--62078187 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
62078100 CAACCTTAAC
* *
62078110 CCTAAGGGTATATCAGTAATTTTGCT
1 CCTAAGGGTATATCAGTAATTTTCCA
* * *
62078136 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTATATCAGT-AATTTTCCA
* *
62078163 CCTATAAAGGTATTTCAGTAATTTT
1 CC--TAAGGGTATATCAGTAATTTT
62078188 ATCAGTTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
26 14 0.36
27 9 0.23
28 6 0.15
29 10 0.26
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (26 bp):
CCTAAGGGTATATCAGTAATTTTCCA
Found at i:62078393 original size:22 final size:22
Alignment explanation
Indices: 62078333--62078395 Score: 96
Period size: 20 Copynumber: 3.0 Consensus size: 22
62078323 CCATTTAAGC
62078333 CCATTTAACCCAAGTTTTATGA
1 CCATTTAACCCAAGTTTTATGA
62078355 CCAGTTT-A-CC-AGTTTTATGA
1 CCA-TTTAACCCAAGTTTTATGA
62078375 CCATTTAACCCAAGTTTTATG
1 CCATTTAACCCAAGTTTTATG
62078396 CCTAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.08
20 14 0.38
21 4 0.11
22 13 0.35
23 3 0.08
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (22 bp):
CCATTTAACCCAAGTTTTATGA
Found at i:62082993 original size:15 final size:16
Alignment explanation
Indices: 62082975--62083004 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62082965 TTGTGCCTTG
62082975 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
62082990 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
62083005 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:62086544 original size:27 final size:27
Alignment explanation
Indices: 62086514--62086616 Score: 113
Period size: 27 Copynumber: 3.8 Consensus size: 27
62086504 ACCATAACAG
* *
62086514 ATAATGTGACAGAGTCACCAGATACAA
1 ATAATGTGGCAGAGCCACCAGATACAA
62086541 ATAATCGTGGCAGAGCCACCAGA-ACAGA
1 ATAAT-GTGGCAGAGCCACCAGATACA-A
*
62086569 A-ATATGTGGCAGAGCCACCAGAT-CAG
1 ATA-ATGTGGCAGAGCCACCAGATACAA
*
62086595 ATAATTGTGGCATAGCCACCAG
1 ATAA-TGTGGCAGAGCCACCAG
62086617 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
26 2 0.03
27 45 0.68
28 19 0.29
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
ATAATGTGGCAGAGCCACCAGATACAA
Found at i:62086605 original size:54 final size:54
Alignment explanation
Indices: 62086504--62086616 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
62086494 CAGCATGGCT
* * *
62086504 ACCATAACAGATAATGTGACAGAGTCACCAGATACAAATAATCGTGGCAGAGCC
1 ACCAGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCC
* * * *
62086558 ACCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCC
1 ACCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCC
62086612 ACCAG
1 ACCAG
62086617 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCC
Found at i:62088060 original size:24 final size:24
Alignment explanation
Indices: 62088033--62088103 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
62088023 CTAGATTTCC
* *
62088033 TCCCTTACCTACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
62088057 TCCCTTATCAACTCCTAGATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
62088081 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
62088104 CTCCTGACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.39, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:62088075 original size:48 final size:48
Alignment explanation
Indices: 62088010--62088103 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 48
62088000 ACCTCTTGTT
* *
62088010 CCTTGATCAGCTCCTAGATTTCC-TCCCTTACCTACTCCTAAATCCTATC
1 CCTTGATCAACTCCTAGA--TCCATCCCTTACCAACTCCTAAATCCTATC
*
62088059 CCTT-ATCAACTCCTAGATCCTATCCCTTATCAACTCCTAAATCCT
1 CCTTGATCAACTCCTAGATCC-ATCCCTTACCAACTCCTAAATCCT
62088104 CTCCTGACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 3 0.08
48 33 0.82
49 4 0.10
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (48 bp):
CCTTGATCAACTCCTAGATCCATCCCTTACCAACTCCTAAATCCTATC
Found at i:62090225 original size:40 final size:40
Alignment explanation
Indices: 62090141--62090307 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
62090131 AAATTGAATG
* * ** *
62090141 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * * *
62090180 GTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
62090220 ATATCCGGGCTAAGACCCAAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
62090260 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
62090300 ATATCCGG
1 ATATCCGG
62090308 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 16 0.16
40 84 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Done.