Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 223 of 444
Found at i:62683299 original size:40 final size:41
Alignment explanation
Indices: 62683232--62683351 Score: 149
Period size: 40 Copynumber: 3.0 Consensus size: 41
62683222 CAACTGGAAA
*
62683232 TAACCACGT-GCACGAATGCCTTTGGGTCTTAGCCCGGATAG
1 TAACCAC-TAGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
* *
62683273 -AACGACTCGCACGAATGCCTTCGGGTCTTAGCCCGGAT-G
1 TAACCACTAGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
* *
62683312 TAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 TAACCACTAGCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
62683352 TAATTTCCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
39 4 0.06
40 65 0.94
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (41 bp):
TAACCACTAGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
Found at i:62692599 original size:28 final size:28
Alignment explanation
Indices: 62692538--62692635 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
62692528 TCACAAATTG
** * *
62692538 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
62692567 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
62692595 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
62692623 GCACTAAGTGTGC
1 GCACTAAGTGTGC
62692636 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:62698580 original size:28 final size:28
Alignment explanation
Indices: 62698519--62698616 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
62698509 TCACAAATTG
** * *
62698519 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
62698548 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
62698576 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
62698604 GCACTAAGTGTGC
1 GCACTAAGTGTGC
62698617 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:62700239 original size:40 final size:41
Alignment explanation
Indices: 62700186--62700305 Score: 158
Period size: 40 Copynumber: 3.0 Consensus size: 41
62700176 CAACCGGAAA
62700186 TAACCACGT-GCACGAATGCCTTCGGGTCTTAGCCCGGATAG
1 TAACCAC-TAGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
* *
62700227 -AACGACTCGCACGAATGCCTTCGGGTCTTAGCCCGGAT-G
1 TAACCACTAGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
* *
62700266 TAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 TAACCACTAGCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
62700306 TAATTTCCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
39 4 0.06
40 66 0.94
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (41 bp):
TAACCACTAGCACGAATGCCTTCGGGTCTTAGCCCGGATAG
Found at i:62702744 original size:37 final size:37
Alignment explanation
Indices: 62702691--62702830 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
62702681 CGAATAGTCC
* ** *
62702691 CCACACGTAGTTATCGGGTCTTACCTAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
62702728 CCACACGTAGTCATCGGGTCCTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62702765 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
62702802 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
62702831 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:62703032 original size:48 final size:48
Alignment explanation
Indices: 62702971--62703356 Score: 691
Period size: 48 Copynumber: 8.0 Consensus size: 48
62702961 ATATACACAC
*
62702971 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
62703019 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62703067 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62703115 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
62703163 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
62703211 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62703259 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
62703307 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
62703355 AT
1 AT
62703357 ATTTATCTTG
Statistics
Matches: 327, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 327 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:62706549 original size:27 final size:27
Alignment explanation
Indices: 62706519--62706718 Score: 226
Period size: 27 Copynumber: 7.4 Consensus size: 27
62706509 ATTACTGAAA
* *
62706519 TACCCTCGATTTGA-AGAATTACCATTT
1 TACCCTCGATTT-ACAAAATTACCGTTT
*
62706546 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
62706573 CACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
62706600 TACCCTCGATTT-CTAGAATTACCATTT
1 TACCCTCGATTTAC-AAAATTACCGTTT
* * * *
62706627 AACCTTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
62706654 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
62706681 TACCTTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
*
62706708 TGCCCTCGATT
1 TACCCTCGATT
62706719 GTGAAATTAC
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.01
27 144 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:62706785 original size:27 final size:27
Alignment explanation
Indices: 62706751--62706876 Score: 182
Period size: 27 Copynumber: 4.7 Consensus size: 27
62706741 TGTGGGATAG
62706751 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
62706778 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
62706805 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
62706832 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
62706859 AATTACTAAAATACCCCT
1 AATTACCAAAATACCCCT
62706877 GATTTACAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 80 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:62706897 original size:54 final size:53
Alignment explanation
Indices: 62706751--62706958 Score: 163
Period size: 54 Copynumber: 3.8 Consensus size: 53
62706741 TGTGGGATAG
* * *
62706751 AATTACCAAAATACCCCTAGTTTGTA-AAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACT-GGTT-TACAAATTA-CAGAAATACCCTC-AATTTGTAA
** *
62706805 AATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGGTTT-ACAAATTACAGAAATACCCTCAATTTGTAA
* * * * * *
62706859 AATTACTAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGGTTTACAAA-TTACAGAAATACCC-TCAATTTGT-AA
* * *
62706915 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCACTGGTTTAC-AAATTACAGAAATACCCT
62706959 TGGTTTGTAG
Statistics
Matches: 127, Mismatches: 18, Indels: 17
0.78 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.06
54 72 0.57
55 10 0.08
56 34 0.27
57 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (53 bp):
AATTACCAAAATACCACTGGTTTACAAATTACAGAAATACCCTCAATTTGTAA
Found at i:62706952 original size:27 final size:27
Alignment explanation
Indices: 62706857--62706964 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
62706847 CTCAATTTGT
* * *
62706857 AAAATTACTAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *
62706884 AAAGTTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
62706911 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
62706940 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
62706965 GTAGATTTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
27 40 0.62
28 7 0.11
29 18 0.28
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:62707061 original size:28 final size:27
Alignment explanation
Indices: 62707030--62707116 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
62707020 TAAAAAGACC
*
62707030 GTAAAGCCCCCCGTAAAGCCCCTGTACG
1 GTAAAG-CCACCGTAAAGCCCCTGTACG
** * *
62707058 GTAAAGTGACCGTAAAGGCCCTGTAGG
1 GTAAAGCCACCGTAAAGCCCCTGTACG
** *
62707085 GTAAAGTGACCGTAATA-CCCCTGTATG
1 GTAAAGCCACCGTAA-AGCCCCTGTACG
62707112 GTAAA
1 GTAAA
62707117 ATGACGAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 44 0.86
28 7 0.14
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (27 bp):
GTAAAGCCACCGTAAAGCCCCTGTACG
Found at i:62707072 original size:27 final size:27
Alignment explanation
Indices: 62707040--62707121 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
62707030 GTAAAGCCCC
62707040 CCGTAAAGCCCCTGTACGGTAAAGTGA
1 CCGTAAAGCCCCTGTACGGTAAAGTGA
* *
62707067 CCGTAAAGGCCCTGTAGGGTAAAGTGA
1 CCGTAAAGCCCCTGTACGGTAAAGTGA
* *
62707094 CCGTAATA-CCCCTGTATGGTAAAATGA
1 CCGTAA-AGCCCCTGTACGGTAAAGTGA
62707121 C
1 C
62707122 GAATATGCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (27 bp):
CCGTAAAGCCCCTGTACGGTAAAGTGA
Found at i:62707833 original size:9 final size:10
Alignment explanation
Indices: 62707821--62707877 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
62707811 TACGTGGGAT
62707821 ATGATAT-AC
1 ATGATATGAC
*
62707830 ATGAT-TGAT
1 ATGATATGAC
62707839 ATGATATGCAC
1 ATGATATG-AC
*
62707850 ATGATATG-T
1 ATGATATGAC
62707859 ATGATATGCAC
1 ATGATATG-AC
62707870 ATGATATG
1 ATGATATG
62707878 TATGAGATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:62707853 original size:20 final size:20
Alignment explanation
Indices: 62707820--62707894 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
62707810 ATACGTGGGA
62707820 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
62707837 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
62707858 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
62707878 TATGAGATGCAAATGAT
1 TATGATATGCACATGAT
62707895 GAATTCATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:62707855 original size:11 final size:11
Alignment explanation
Indices: 62707839--62707877 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
62707829 CATGATTGAT
62707839 ATGATATGCAC
1 ATGATATGCAC
*
62707850 ATGATATG--T
1 ATGATATGCAC
62707859 ATGATATGCAC
1 ATGATATGCAC
62707870 ATGATATG
1 ATGATATG
62707878 TATGAGATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62707973 original size:26 final size:26
Alignment explanation
Indices: 62707944--62708118 Score: 246
Period size: 26 Copynumber: 6.8 Consensus size: 26
62707934 GAGGAAGTGC
* **
62707944 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
62707970 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
62707996 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
62708022 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
62708048 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
62708074 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
62708099 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
62708119 ATTAAAGAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 31 0.23
26 103 0.77
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:62708022 original size:52 final size:52
Alignment explanation
Indices: 62707944--62708118 Score: 309
Period size: 52 Copynumber: 3.4 Consensus size: 52
62707934 GAGGAAGTGC
* *
62707944 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
62707996 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
62708048 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
*
62708099 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
62708119 ATTAAAGAGG
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 9 0.08
51 25 0.21
52 86 0.72
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
Found at i:62708322 original size:42 final size:42
Alignment explanation
Indices: 62708263--62708356 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
62708253 TAGTCTCCCC
*
62708263 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
* *
62708305 AAATGGGCTTGCATACATTCCTTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
62708347 AAATAGGGCT
1 AAAT-GGGCT
62708357 ATGGGCCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 43 0.90
43 5 0.10
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:62708413 original size:31 final size:31
Alignment explanation
Indices: 62708378--62708456 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
62708368 CGTTTATAAT
62708378 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
62708409 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
62708440 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
62708457 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:62709294 original size:22 final size:22
Alignment explanation
Indices: 62709256--62709301 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
62709246 GATTATGTAG
62709256 AAAGAATAAAGAAATGAAAAAA
1 AAAGAATAAAGAAATGAAAAAA
* *
62709278 AAAGAA-AGAGAATATGAAGAAA
1 AAAGAATAAAGAA-ATGAAAAAA
62709300 AA
1 AA
62709302 CAAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (22 bp):
AAAGAATAAAGAAATGAAAAAA
Found at i:62710513 original size:29 final size:29
Alignment explanation
Indices: 62710480--62710544 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
62710470 GTGACGAGAT
*
62710480 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
62710509 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
62710538 CGGCACT
1 TGGCACT
62710545 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:62717185 original size:28 final size:29
Alignment explanation
Indices: 62717139--62717200 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
62717129 TGGATTATGT
62717139 AGAAAGAATAAAGAAATGAA-AAAAAAAA
1 AGAAAGAATAAAGAAATGAAGAAAAAAAA
* *
62717167 AGAAAGAA-AGAGAATATGAAGAAAAACAA
1 AGAAAGAATAAAGAA-ATGAAGAAAAAAAA
62717196 AGAAA
1 AGAAA
62717201 AGGAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 5 0.17
28 13 0.43
29 12 0.40
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (29 bp):
AGAAAGAATAAAGAAATGAAGAAAAAAAA
Found at i:62718442 original size:28 final size:29
Alignment explanation
Indices: 62718373--62718434 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
62718363 GACGAGATTG
* *
62718373 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAAAATATC
62718402 GCACTAAGTGTGCATGCTGGAAAAATA-C
1 GCACTAAGTGTGCATGCTGGAAAAATATC
62718430 GCACT
1 GCACT
62718435 GGGTGTGCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAAAATATC
Found at i:62720066 original size:27 final size:27
Alignment explanation
Indices: 62719960--62720068 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 27
62719950 ATCTCATATC
* *
62719960 TGTAGGCTAGTATTACTGAAATACCC-
1 TGTAGGGTAGAATTACTGAAATACCCT
* * *
62719986 TATAGGGTAGAATTACTGAAATGCCAT
1 TGTAGGGTAGAATTACTGAAATACCCT
* * *
62720013 TATAGGATAGAATTACTGAAATGCCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
62720040 TGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
62720067 TG
1 TG
62720069 GTTTACAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 21 0.29
27 51 0.71
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:62720080 original size:27 final size:27
Alignment explanation
Indices: 62720058--62720420 Score: 248
Period size: 27 Copynumber: 13.4 Consensus size: 27
62720048 AGAATTACTG
**
62720058 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* * * *
62720085 AAACACCCTCGATTAGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
62720112 AAATA-CCTCTAGTTTGTAAAATTACCA
1 AAATACCCT-TGGTTTGTAAAATTACCA
* *
62720139 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* ** * ***
62720166 AAATACCCCTAATTTGTGAAATTATTG
1 AAATACCCTTGGTTTGTAAAATTACCA
** ***
62720193 AAATACCCTTGACTTGTAAAATTATTG
1 AAATACCCTTGGTTTGTAAAATTACCA
** *
62720220 AAATACCCTTGACTTGTAAAATTACTA
1 AAATACCCTTGGTTTGTAAAATTACCA
* *
62720247 AAATA-CCTTCGATTTATAAAATTACCA
1 AAATACCCTT-GGTTTGTAAAATTACCA
* * * * * *
62720274 AAATACCCCTGATTTGGAAAGTTATCG
1 AAATACCCTTGGTTTGTAAAATTACCA
** *
62720301 AAATACCCTTAATTTGAAAAATTA-CA
1 AAATACCCTTGGTTTGTAAAATTACCA
* * * **
62720327 GAAATACCGTTGACTATCAAAAATTA-CA
1 -AAATACCCTTG-GTTTGTAAAATTACCA
* *
62720355 GAAATACCATTGGTTTGCAAAATTACCA
1 -AAATACCCTTGGTTTGTAAAATTACCA
* *
62720383 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
62720410 AAACACCCTTG
1 AAATACCCTTG
62720421 TAGGGTGAAG
Statistics
Matches: 277, Mismatches: 52, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
26 8 0.03
27 239 0.86
28 30 0.11
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACCA
Found at i:62720375 original size:28 final size:28
Alignment explanation
Indices: 62720313--62720398 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
62720303 ATACCCTTAA
* *
62720313 TTTG-AAAAATTACAGAAATACCGTTGAC
1 TTTGCAAAAATTACAGAAATACCATTG-G
*
62720341 TAT-CAAAAATTACAGAAATACCATTGG
1 TTTGCAAAAATTACAGAAATACCATTGG
*
62720368 TTTGC-AAAATTACCA-AAATACCCTTGG
1 TTTGCAAAAATTA-CAGAAATACCATTGG
62720395 TTTG
1 TTTG
62720399 TAGATTTACC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 24 0.48
28 26 0.52
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (28 bp):
TTTGCAAAAATTACAGAAATACCATTGG
Found at i:62720696 original size:41 final size:41
Alignment explanation
Indices: 62720650--62720768 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
62720640 TGGAGGAAGA
* * *
62720650 AATTGAGGATCGTATGGTTGCTTGACAACCGTGTATCCACT
1 AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACC
* * *
62720691 GATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACC
* * *
62720732 AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATC
1 AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATC
62720769 TACTGGTGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACC
Found at i:62720975 original size:22 final size:22
Alignment explanation
Indices: 62720915--62720979 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
62720905 GCCAATTATT
*
62720915 CTGATTATGGCTTTATGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
62720937 CT-ACATATTGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
62720959 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
62720980 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:62730276 original size:29 final size:29
Alignment explanation
Indices: 62730234--62730388 Score: 238
Period size: 29 Copynumber: 5.3 Consensus size: 29
62730224 TATGTGTACC
62730234 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
62730263 ATGTGAAAAGGGATAGCTTCAGCTATTGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
62730292 ATGTGAAAAAGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
*
62730321 ATGTAAAAAGGGGATAGCTTCGGCTATCGA
1 ATGTGAAAA-GGGATAGCTTCGGCTATCGA
* *
62730351 ATGTGAAAAGGGATAGCTTTGGCTATCAA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
62730380 ATGTGAAAA
1 ATGTGAAAA
62730389 TGTTAGGTAT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 87 0.77
30 26 0.23
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:62730347 original size:59 final size:58
Alignment explanation
Indices: 62730234--62730388 Score: 247
Period size: 59 Copynumber: 2.7 Consensus size: 58
62730224 TATGTGTACC
* *
62730234 ATGTGAAAAGGGATAGCTTCGGCTATCGAATGTGAAAAGGGATAGCTTCAGCTATTGA
1 ATGTGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGGGATAGCTTCAGCTATCGA
* * *
62730292 ATGTGAAAAAGGATAGCTTTGGCTATCGAATGTAAAAAGGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAA-GGGATAGCTTCAGCTATCGA
*
62730351 ATGTGAAAAGGGATAGCTTTGGCTATCAAATGTGAAAA
1 ATGTGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAA
62730389 TGTTAGGTAT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 35 0.40
59 53 0.60
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (58 bp):
ATGTGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGGGATAGCTTCAGCTATCGA
Found at i:62730456 original size:32 final size:32
Alignment explanation
Indices: 62730383--62730487 Score: 156
Period size: 32 Copynumber: 3.2 Consensus size: 32
62730373 CTATCAAATG
* * * * *
62730383 TGAAAATGTTAGGTATACTTTGTGTATACCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
62730416 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
62730448 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
62730480 TGAAAAGG
1 TGAAAAGG
62730488 AAAGGTATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 43 0.64
33 24 0.36
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.35
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:62730502 original size:32 final size:33
Alignment explanation
Indices: 62730393--62730609 Score: 253
Period size: 33 Copynumber: 6.6 Consensus size: 33
62730383 TGAAAATGTT
* **
62730393 AGGTATACTTTGTGTATACCACATGAAAAGGTT
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
* * * **
62730426 ATGTACACTTTGTGTGTA-CACT-TGAAAAGGTT
1 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
* * *
62730458 ATGTACACTTTGTGTGTA-CACT-TGAAAAGGAA
1 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
*
62730490 AGGTATATTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
62730523 AGGTATACTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
*
62730556 AGATATACTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
* *
62730589 ATGTATACTTTGTGTGTACCA
1 AGGTATACTTTGTGTATACCA
62730610 CTCAGAAAGA
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
32 57 0.34
33 109 0.66
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCATATGAAAAGGAA
Found at i:62732952 original size:22 final size:23
Alignment explanation
Indices: 62732927--62732969 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
62732917 TATCCCCACA
* *
62732927 TGGAGTGTAG-GGTTGGATGGAG
1 TGGAATGTAGAGGATGGATGGAG
62732949 TGGAATGTAGAGGATGGATGG
1 TGGAATGTAGAGGATGGATGG
62732970 GTAGGATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (23 bp):
TGGAATGTAGAGGATGGATGGAG
Found at i:62733086 original size:34 final size:33
Alignment explanation
Indices: 62733006--62733079 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
62732996 CTTTACTAAA
62733006 ATGGGCTAAGGCCCACACTGATACTGTCACTGT
1 ATGGGCTAAGGCCCACACTGATACTGTCACTGT
* *
62733039 ATTGGGTTAAGGCCCACACTGATATTG-CGACTGAT
1 A-TGGGCTAAGGCCCACACTGATACTGTC-ACTG-T
62733074 ATGGGC
1 ATGGGC
62733080 ATAGGCCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 2 0.06
34 31 0.89
35 2 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (33 bp):
ATGGGCTAAGGCCCACACTGATACTGTCACTGT
Found at i:62736434 original size:45 final size:45
Alignment explanation
Indices: 62736363--62736454 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
62736353 AAGAGCTCGG
*
62736363 GAAAGGGAAAAGAAAAGATGAATTTGAAGCTAGAGATTCACATAA
1 GAAAGAGAAAAGAAAAGATGAATTTGAAGCTAGAGATTCACATAA
* *
62736408 GAAAGAGAAAAGAAAAGCTGACTTTGAAGCTAGAGATTCACATAA
1 GAAAGAGAAAAGAAAAGATGAATTTGAAGCTAGAGATTCACATAA
62736453 GA
1 GA
62736455 GATCATCGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (45 bp):
GAAAGAGAAAAGAAAAGATGAATTTGAAGCTAGAGATTCACATAA
Found at i:62741952 original size:40 final size:40
Alignment explanation
Indices: 62741897--62742084 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
62741887 TGAATGATAC
* * *
62741897 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
62741937 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
62741977 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
62742017 TCGGGCCAAGACCTGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
62742057 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
62742085 TTGCGGTTAT
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 129 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:62742094 original size:80 final size:80
Alignment explanation
Indices: 62741893--62742100 Score: 281
Period size: 80 Copynumber: 2.6 Consensus size: 80
62741883 CATTTGAATG
* * * * *
62741893 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCCAAGACCCGAAGGCA
*
62741958 TTTGTGCAAGTTGTT
66 TTTGTGCAAGTTGCT
* * * * *
62741973 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATTCGGGCCAAGACCTGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCCAAGACCCGAAGGCA
*
62742038 TTTGTGCGAGTTGCT
66 TTTGTGCAAGTTGCT
* * *
62742053 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGCGGTTATATCCGG
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGG
62742101 CTAAATTCCG
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 109 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCCAAGACCCGAAGGCA
TTTGTGCAAGTTGCT
Found at i:62750046 original size:40 final size:40
Alignment explanation
Indices: 62749991--62750197 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
62749981 TGAATGATAC
* * *
62749991 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
62750031 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
62750071 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
62750111 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
62750150 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
62750190 CC-GGCTAA
1 CCGGGCTAA
62750198 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.25
40 112 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:62752914 original size:40 final size:40
Alignment explanation
Indices: 62752848--62752998 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
62752838 AAATTGAATG
* * *
62752848 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62752887 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
62752927 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
62752967 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
62752999 AGGTTATATC
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62761008 original size:40 final size:40
Alignment explanation
Indices: 62760881--62761010 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
62760871 ATGCTGGAAA
* * *
62760881 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
62760921 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62760961 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62761001 TTATATCCGG
1 TTATATCCGG
62761011 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62767099 original size:46 final size:46
Alignment explanation
Indices: 62767046--62767217 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
62767036 TGGTTGAGCA
*
62767046 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * * *
62767092 TCTGAACT-GTTAAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
62767136 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * *
62767184 CCCCAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62767218 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 18 0.18
46 44 0.44
47 19 0.19
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:62772295 original size:27 final size:27
Alignment explanation
Indices: 62772113--62772294 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
62772103 CTCAATTTGG
** * *
62772113 AAAATTACCAAATCACCCTCGGTTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
* * *
62772140 AGAATTACCGTTTCACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
* *
62772167 AAAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCATTTTACCCTCGATTTAC
** *
62772194 GGAATTACCATTTTACCCTTGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
* *
62772221 AAAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTAC
*
62772248 AAAATTACCATTTTAACCTC-AGTTTAC
1 AAAATTACCATTTTACCCTCGA-TTTAC
62772275 AAAATTACCATTTTACCCTC
1 AAAATTACCATTTTACCCTC
62772295 AATTGTGAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 131 0.99
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
AAAATTACCATTTTACCCTCGATTTAC
Found at i:62772360 original size:27 final size:27
Alignment explanation
Indices: 62772330--62772480 Score: 180
Period size: 27 Copynumber: 5.6 Consensus size: 27
62772320 TGTAGGATAG
*
62772330 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
62772357 AATTACCAAAATACCCCTAATTTTTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
62772384 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
62772411 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
62772438 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
62772465 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
62772481 TTGACTTTCT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.05
27 97 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:62772417 original size:81 final size:81
Alignment explanation
Indices: 62772330--62772479 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
62772320 TGTAGGATAG
* ** *
62772330 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAATTTTTAAAATTACCGAA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
62772394 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
*
62772411 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
62772476 TACC
66 TACC
62772480 CTTGACTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:62772481 original size:54 final size:54
Alignment explanation
Indices: 62772330--62772546 Score: 188
Period size: 54 Copynumber: 4.0 Consensus size: 54
62772320 TGTAGGATAG
* ** *
62772330 AATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCC-CTAATTTTTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTA-CAGAAATACCCTC-AATTTGTAA
* * *** *
62772384 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTAA
* * * * *
62772438 AATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCC-TCAATTTGT-AA
* * * * *
62772494 AATTA-TAGAAATACCATTAGTTTACAAAATTACTGAAATACCCTTAGTTTGTA
1 AATTACCA-AAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTA
62772547 GATTTACTAA
Statistics
Matches: 133, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 80 0.60
55 14 0.11
56 38 0.29
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCACTAGTTTACAAAATTACAGAAATACCCTCAATTTGTAA
Found at i:62772531 original size:27 final size:27
Alignment explanation
Indices: 62772338--62772543 Score: 112
Period size: 27 Copynumber: 7.6 Consensus size: 27
62772328 AGAATTACCA
* ** **
62772338 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTAGTTTACAAAATTACTG
* * ** *
62772365 AAATACCCCTAATTTTTAAAATTACCG
1 AAATACCCTTAGTTTACAAAATTACTG
* *** *
62772392 AAATACCAC-TGGTTTGTGAAATTACCG
1 AAATACC-CTTAGTTTACAAAATTACTG
* * ** **
62772419 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTTAGTTTACAAAATTACTG
* * *
62772446 AAATACCCCTAATTTACAAAATTACAG
1 AAATACCCTTAGTTTACAAAATTACTG
*
62772473 AAATACCCTTGACTTT-CTAAAAATTA-TAG
1 AAATACCCTT-AGTTTAC--AAAATTACT-G
*
62772502 AAATACCATTAGTTTACAAAATTACTG
1 AAATACCCTTAGTTTACAAAATTACTG
62772529 AAATACCCTTAGTTT
1 AAATACCCTTAGTTT
62772544 GTAGATTTAC
Statistics
Matches: 147, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 118 0.80
28 10 0.07
29 18 0.12
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATACCCTTAGTTTACAAAATTACTG
Found at i:62772635 original size:27 final size:27
Alignment explanation
Indices: 62772584--62772661 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
62772574 AAATGACTAA
* *
62772584 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
62772611 AA-ACCCCTTGTAGGGTAAAGTGACCGT
1 AATACCCC-TGTAGGGTAAAATGACCGT
*
62772638 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
62772662 GAATATGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.16
27 31 0.72
28 5 0.12
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:62774196 original size:46 final size:46
Alignment explanation
Indices: 62774074--62774203 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 46
62774064 TGTAACCCGC
* *
62774074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
* *** *
62774120 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-AT
62774167 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62774204 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
46 36 0.51
47 35 0.49
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
Found at i:62774222 original size:46 final size:45
Alignment explanation
Indices: 62774079--62774222 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 45
62774069 CCCGCCCATA
* *
62774079 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
62774127 --TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
62774172 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
62774218 AGTGA
1 AGTGA
62774223 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
43 4 0.05
46 38 0.49
47 32 0.41
48 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:62776279 original size:24 final size:25
Alignment explanation
Indices: 62776203--62776272 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
62776193 AGGAAGTGCT
* *
62776203 AAAAA-GGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATC
**
62776227 GGAAAGGGCTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTATC
62776252 AAAAAGGGCTTTGCCCCAGTT
1 AAAAAGGGCTTTGCCCCAGTT
62776273 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 3 0.08
25 36 0.92
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATC
Found at i:62776465 original size:42 final size:42
Alignment explanation
Indices: 62776419--62776509 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
62776409 TAGTCTCCCC
*
62776419 AAATGGGCCTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCCTGCATACATTCATTGATATTTCATGTGATATTG
* * *
62776461 AAATGGGCTTGTATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCCTGCATACATTCATTGATATTTCATGTGATATTG
62776503 AAATGGG
1 AAATGGG
62776510 ACTATGGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCCTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:62776569 original size:31 final size:31
Alignment explanation
Indices: 62776534--62776636 Score: 179
Period size: 31 Copynumber: 3.3 Consensus size: 31
62776524 CGTTTATAAT
*
62776534 AAAGGCTTCGGTCTAGTGATATGATTTATGA
1 AAAGGCTTCGGTCCAGTGATATGATTTATGA
*
62776565 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGTCCAGTGATATGATTTATGA
*
62776596 AAAGGCTTCAGTCCAGTGATATGATTTATGA
1 AAAGGCTTCGGTCCAGTGATATGATTTATGA
62776627 AAAGGCTTCG
1 AAAGGCTTCG
62776637 ACCCAATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGTCCAGTGATATGATTTATGA
Found at i:62779008 original size:27 final size:27
Alignment explanation
Indices: 62778977--62779145 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
62778967 ATTACCAAAG
* * *
62778977 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
62779004 CACCCTCGATTTACAAAATCACCGTCT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
62779031 TACCCTCGATTTATAGAGTTACCACTT
1 TACCCTCGATTTACAAAATTACCATTT
*
62779058 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
62779085 TACCCTCGATTTACAAAATTTCCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
62779112 TACCCT-TAGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
62779139 TACCCTC
1 TACCCTC
62779146 AATTGTGAAA
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 119 0.99
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:62779134 original size:81 final size:81
Alignment explanation
Indices: 62778977--62779149 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 81
62778967 ATTACCAAAG
* * *
62778977 TACCCTCAATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATCACCGTCTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCATTTCACCCTCGATTTACAAAATCACCATCTTACCCTAGATT
* * *
62779042 TATAGAGTTACCACTT
66 TACAAAATTACCACTT
* * ** *
62779058 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTTCCATTTTACCCTTAG-T
1 TACCCTCAATTTACAGAATTACCATTTCACCCTCGATTTACAAAATCACCATCTTACCC-TAGAT
*
62779122 TTACAAAATTACCATTT
65 TTACAAAATTACCACTT
62779139 TACCCTCAATT
1 TACCCTCAATT
62779150 GTGAAAGTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 76 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.36
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCATTTCACCCTCGATTTACAAAATCACCATCTTACCCTAGATT
TACAAAATTACCACTT
Found at i:62779191 original size:27 final size:27
Alignment explanation
Indices: 62779161--62779240 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
62779151 TGAAAGTACT
*
62779161 AAAATACCCCT-GTAGGATAGAATTACC
1 AAAATACCCCTAGTAGG-TAAAATTACC
**
62779188 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCCTAGTAGGTAAAATTACC
**
62779215 AAAATACCCCTAGTTTGTAAAATTAC
1 AAAATACCCCTAGTAGGTAAAATTAC
62779241 TGAAATATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 46 0.94
28 3 0.06
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATACCCCTAGTAGGTAAAATTACC
Found at i:62779246 original size:27 final size:27
Alignment explanation
Indices: 62779181--62779331 Score: 155
Period size: 27 Copynumber: 5.6 Consensus size: 27
62779171 TGTAGGATAG
62779181 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
62779208 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * ** * *
62779235 AATTACTGAAATATCATTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
62779262 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
62779289 AATTAACAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
62779316 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
62779332 TTGACTTTCT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.04
27 94 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:62779383 original size:27 final size:28
Alignment explanation
Indices: 62779297--62779394 Score: 105
Period size: 27 Copynumber: 3.5 Consensus size: 28
62779287 AAAATTAACA
* *
62779297 AAATACCCCTGATTTACAAAATTAC-AG
1 AAATACCCTTGGTTTACAAAATTACTAG
*
62779324 AAATACCCTTGACTTT-CTAAAAATTA-TAG
1 AAATACCCTTG-GTTTAC--AAAATTACTAG
*
62779353 AAATACCATTGGTTTACAAAATTACTA-
1 AAATACCCTTGGTTTACAAAATTACTAG
62779380 AAATACCCTTGGTTT
1 AAATACCCTTGGTTT
62779395 GTGGATTTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
27 32 0.53
28 8 0.13
29 20 0.33
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (28 bp):
AAATACCCTTGGTTTACAAAATTACTAG
Found at i:62780349 original size:25 final size:24
Alignment explanation
Indices: 62780311--62780380 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
62780301 AGGAAGTGCT
*
62780311 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCT-TGCCCCAGTTTACCA
* *
62780336 AAAAGGGCATTGCCCTAGTTTATCA
1 AAAAGGGC-TTGCCCCAGTTTACCA
62780361 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TTGCCCCAGTT
62780381 ATTACAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTGCCCCAGTTTACCA
Found at i:62780574 original size:42 final size:42
Alignment explanation
Indices: 62780527--62780617 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
62780517 TAGTCTCCCC
*
62780527 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
62780569 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
62780611 AAATGGG
1 AAATGGG
62780618 ACTATGGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:62780677 original size:31 final size:31
Alignment explanation
Indices: 62780642--62780718 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
62780632 CGTTTACAGT
*
62780642 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
62780673 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
62780704 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
62780719 ATATATGTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:62794702 original size:49 final size:49
Alignment explanation
Indices: 62794630--62795026 Score: 679
Period size: 49 Copynumber: 8.1 Consensus size: 49
62794620 ACATAATAAT
*
62794630 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
*
62794679 ATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
*
62794728 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA-TGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
62794776 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
*
62794825 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAC
*
62794876 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
* * *
62794925 ATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
* *
62794974 ATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
62795023 ATAT
1 ATAT
62795027 ATATATGTGG
Statistics
Matches: 334, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
48 47 0.14
49 239 0.72
51 48 0.14
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
Found at i:62795154 original size:37 final size:37
Alignment explanation
Indices: 62795099--62795189 Score: 148
Period size: 37 Copynumber: 2.4 Consensus size: 37
62795089 AACTTAGAAA
62795099 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTGAGACCCGATGACTACGTGTGGAGAT
*
62795137 TATGTCCGGGT-ACGACCCGATGACTATGTGTGGAGAT
1 TATGTCCGGGTGA-GACCCGATGACTACGTGTGGAGAT
62795174 TATGTCCGGGTGAGAC
1 TATGTCCGGGTGAGAC
62795190 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 1 0.02
37 44 0.88
38 5 0.10
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
Found at i:62799789 original size:28 final size:28
Alignment explanation
Indices: 62799708--62799793 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
62799698 GTGAGCATGA
* *
62799708 ATATGAATATGACTGGGCCTAATGAGCC
1 ATATGAATATGAATGGGCCTAATGGGCC
* * *
62799736 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGA-ATGGGCCTAATGGGCC
*
62799765 ATATGAATATGAATGGGCTTAATGGGCC
1 ATATGAATATGAATGGGCCTAATGGGCC
62799793 A
1 A
62799794 GATACAGTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (28 bp):
ATATGAATATGAATGGGCCTAATGGGCC
Found at i:62801835 original size:41 final size:41
Alignment explanation
Indices: 62801790--62801907 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62801780 TGAAAGATAA
62801790 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62801831 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62801861 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62801902 ATGTAG
1 ATGTAG
62801908 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:62801846 original size:71 final size:71
Alignment explanation
Indices: 62801758--62801921 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62801748 GAGATGTATC
62801758 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62801823 AGGACA
66 AGGACA
62801829 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62801894 AGGACA
66 AGGACA
62801900 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62801922 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:62809422 original size:40 final size:40
Alignment explanation
Indices: 62809314--62809523 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62809304 CGGGATTTAA
* * * * *
62809314 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
62809354 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62809394 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62809434 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62809474 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62809514 CCGGATATAT
1 CCGGATATAT
62809524 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:62813446 original size:36 final size:37
Alignment explanation
Indices: 62813385--62813492 Score: 121
Period size: 39 Copynumber: 2.8 Consensus size: 37
62813375 ATCACGATTT
*
62813385 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-A-AACTC
1 GCAC-AATGCCTTC-GGTCTTAGCCCGGATATACAACTA
*
62813422 GCACGAATGCCTTCGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGTCTTAGCCCGGATATA-CAACTA
* *
62813461 GCACAATTGCCTTCGGTCTTAACCCGGTTATA
1 GCACAA-TGCCTTCGGTCTTAGCCCGGATATA
62813493 ATTTCCAGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
36 16 0.26
37 14 0.23
38 2 0.03
39 30 0.48
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (37 bp):
GCACAATGCCTTCGGTCTTAGCCCGGATATACAACTA
Found at i:62813487 original size:39 final size:37
Alignment explanation
Indices: 62813354--62813492 Score: 120
Period size: 39 Copynumber: 3.6 Consensus size: 37
62813344 CCCGCACCAA
* * * * *
62813354 GCCTACGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGTCTTAACCCGGATAT-ACAACTAGCAC-AAT
* *
62813393 GCCTTCGGGTCTTAGCCCGGATA-A-AACTCGCACGAAT
1 GCCTTC-GGTCTTAACCCGGATATACAACTAGCAC-AAT
* *
62813430 GCCTTCGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGTCTTAACCCGGATATA-CAACTAGCACAA-T
*
62813469 GCCTTCGGTCTTAACCCGGTTATA
1 GCCTTCGGTCTTAACCCGGATATA
62813493 ATTTCCAGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
36 16 0.19
37 16 0.19
38 3 0.04
39 35 0.42
40 14 0.17
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (37 bp):
GCCTTCGGTCTTAACCCGGATATACAACTAGCACAAT
Found at i:62821437 original size:37 final size:37
Alignment explanation
Indices: 62821388--62821491 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 37
62821378 ATCACGATTT
*
62821388 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TAAAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAGTAAAACTA
**
62821425 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGA-GTAAAACTA
*
62821464 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62821492 TTATAATTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 28 0.47
38 2 0.03
39 29 0.49
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGAGTAAAACTA
Found at i:62824400 original size:24 final size:22
Alignment explanation
Indices: 62824373--62824432 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 22
62824363 AAGCCTATGC
*
62824373 GGCACTATGTGTGTGAGATTACAT
1 GGCACTATGTGTGTGAGA--AAAT
62824397 GGCACTATGTGTGTGAGAAAAT
1 GGCACTATGTGTGTGAGAAAAT
62824419 GTGCACTATGTGTG
1 G-GCACTATGTGTG
62824433 CAAATAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 4 0.12
23 12 0.35
24 18 0.53
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.32
Consensus pattern (22 bp):
GGCACTATGTGTGTGAGAAAAT
Found at i:62827444 original size:19 final size:20
Alignment explanation
Indices: 62827399--62827445 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
62827389 CCCTGTTTGC
*
62827399 GCATCTGTGCCCCTATTTACT
1 GCATCTATGCCCCTATTTA-T
62827420 -CATCTATGCCCCTATTT-T
1 GCATCTATGCCCCTATTTAT
62827438 GCATCTAT
1 GCATCTAT
62827446 TATGCCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 7 0.29
20 16 0.67
ACGTcount: A:0.17, C:0.32, G:0.11, T:0.40
Consensus pattern (20 bp):
GCATCTATGCCCCTATTTAT
Found at i:62832639 original size:19 final size:19
Alignment explanation
Indices: 62832615--62832652 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
62832605 TGGGCCACGA
62832615 TGGGCCGAAATAGGC-CGTG
1 TGGGCC-AAATAGGCTCGTG
*
62832634 TGGGCCCAATAGGCTCGTG
1 TGGGCCAAATAGGCTCGTG
62832653 GGCTCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.18, C:0.24, G:0.39, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATAGGCTCGTG
Found at i:62834333 original size:40 final size:40
Alignment explanation
Indices: 62834283--62834458 Score: 167
Period size: 40 Copynumber: 4.4 Consensus size: 40
62834273 GATTGTCTTT
* * * *
62834283 GGGACATAGCCCGG-TTATAGTGATTCGCACAATTGCCTTC
1 GGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC
* * *
62834323 GGGAATTAGCCCGGATTTAATAACTCGCACGAATGCCTTC
1 GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
* * * * *
62834363 GAGACTTAACTCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
* * * *
62834403 GGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTC
1 GGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTC
62834444 GGGACTTAGCCCGGA
1 GGGACTTAGCCCGGA
62834459 CACCATTCGA
Statistics
Matches: 107, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
40 78 0.73
41 28 0.26
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
Found at i:62836514 original size:20 final size:20
Alignment explanation
Indices: 62836491--62836561 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
62836481 GATATTTATA
* *
62836491 GCTTTGTGCCACTATTGATG
1 GCTTTGTGCCACTACTAATG
*
62836511 GCTTTGTGCCGCTACTAATG
1 GCTTTGTGCCACTACTAATG
* * * * * *
62836531 TCTTCGAGCTACTAGTCATG
1 GCTTTGTGCCACTACTAATG
62836551 GCTTTGTGCCA
1 GCTTTGTGCCA
62836562 TATACCGATA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (20 bp):
GCTTTGTGCCACTACTAATG
Found at i:62836759 original size:34 final size:34
Alignment explanation
Indices: 62836721--62836785 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
62836711 TGTACTGTAT
62836721 TGTTACTACAT-TGGGCTAAGGCCCACACTGTTAC
1 TGTTACT-CATATGGGCTAAGGCCCACACTGTTAC
* * *
62836755 TGTTACTGATATGGGCTTAGGCCCAGACTGT
1 TGTTACTCATATGGGCTAAGGCCCACACTGT
62836786 ATTGTTCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 25 0.93
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (34 bp):
TGTTACTCATATGGGCTAAGGCCCACACTGTTAC
Found at i:62837632 original size:45 final size:45
Alignment explanation
Indices: 62837564--62837733 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
62837554 CCTAAAATGA
* * *
62837564 GTAAGACCATAGTTGAAATATGTTATGGCATCATGACA-AGGGTT-T
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCATGACATA--ATTAT
* *
62837609 GTAAGACCATAGCTGAAAGATGTTATGGCAGCATGATATAATTAT
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCATGACATAATTAT
* * * *
62837654 GTGAGACCATAGCTGAAAGATGCTATGGCATCATGACAGAAATGAT
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCATGACA-TAATTAT
* * * *
62837700 -TCAGACCATGGTTGAAAGATGCTATGGCATCATG
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCATG
62837734 GTAAACAAGA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.02
45 100 0.93
46 6 0.06
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
GTAAGACCATAGCTGAAAGATGTTATGGCATCATGACATAATTAT
Found at i:62837751 original size:45 final size:45
Alignment explanation
Indices: 62837610--62837775 Score: 133
Period size: 45 Copynumber: 3.7 Consensus size: 45
62837600 CAAGGGTTTG
* * * * *
62837610 TAAGACCATAGCTGAAAGATGTTATGGCAGCATGATATAATTATG--
1 TAAGACCATAGCTGAAAGATGCTATGGCATCATGACAGAA--AAGAC
* * *
62837655 TGAGACCATAGCTGAAAGATGCTATGGCATCATGACAGAAATGAT
1 TAAGACCATAGCTGAAAGATGCTATGGCATCATGACAGAAAAGAC
* * * **
62837700 TCAGACCATGGTTGAAAGATGCTATGGCATCATGGTA-AACAAGAC
1 TAAGACCATAGCTGAAAGATGCTATGGCATCATGACAGAA-AAGAC
**
62837745 TAAGACCATAGCT-AAGAGACACTATGGCATC
1 TAAGACCATAGCTGAA-AGATGCTATGGCATC
62837776 CTTTAATAGT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
43 3 0.03
44 4 0.04
45 93 0.93
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGATGCTATGGCATCATGACAGAAAAGAC
Found at i:62837888 original size:27 final size:27
Alignment explanation
Indices: 62837852--62837903 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
62837842 ATGGCATCAT
*
62837852 AGATAGCCCAACGGGACGTTAAACATA
1 AGATAGCCCAACGGGACGCTAAACATA
* * *
62837879 AGATATCCCAATGGGATGCTAAACA
1 AGATAGCCCAACGGGACGCTAAACA
62837904 CGAGCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (27 bp):
AGATAGCCCAACGGGACGCTAAACATA
Found at i:62844025 original size:43 final size:42
Alignment explanation
Indices: 62843934--62844053 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
62843924 TTTTGTTTTG
* *
62843934 CATGTAAGACCATGTTTGGGACATTGGCATCGTATCTGATTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
* * * * * * *
62843976 CGTGTAAAACCTTGTCTGAGACAGTGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTA
*
62844019 CATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTAT
62844054 ATGTTCTCTG
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
Found at i:62850342 original size:40 final size:40
Alignment explanation
Indices: 62850257--62850407 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
62850247 AATTGAATGA
* * * **
62850257 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
62850297 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
62850338 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
62850377 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62850408 AAACCGTGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:62850421 original size:40 final size:40
Alignment explanation
Indices: 62850254--62850439 Score: 137
Period size: 40 Copynumber: 4.7 Consensus size: 40
62850244 AGAAATTGAA
* * *
62850254 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCG
* * * * *
62850295 T-ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * * * *
62850334 CT-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
** *
62850374 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAACCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * *
62850414 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
62850440 CTTGGTGCGG
Statistics
Matches: 115, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 3 0.03
40 105 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
Found at i:62850422 original size:80 final size:79
Alignment explanation
Indices: 62850254--62850449 Score: 180
Period size: 80 Copynumber: 2.4 Consensus size: 79
62850244 AGAAATTGAA
* * * *
62850254 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GGAAATTATATCCGGGCTAAGACCCGAAGG
* ***
62850319 CAATTGTGCTAGTGGC
64 CAATTGTGCAAACCGC
* ** *
62850335 T-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
62850399 CATTTGTGCAAACCG-
64 CAATTGTGCAAACCGC
* * * *
62850414 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCGG
62850450 GTTACCATAA
Statistics
Matches: 93, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
79 6 0.06
80 86 0.92
81 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTGTGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAACCGC
Found at i:62858431 original size:40 final size:40
Alignment explanation
Indices: 62858346--62858496 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
62858336 AATTGAATGA
* * * **
62858346 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
62858386 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
62858427 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
62858466 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62858497 AAACGTGATA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:62862850 original size:42 final size:42
Alignment explanation
Indices: 62862790--62862907 Score: 103
Period size: 43 Copynumber: 2.8 Consensus size: 42
62862780 CTGTTTTGCG
* * * * *
62862790 TGTAAAACCATGTTTGGGACATTGGCATTGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATTGTATTTGATTACA
* * * * *
62862832 TGTAAGACC-CTTTCTGGGATAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTG-TATTTGATTACA
* *
62862875 TGTAAGACCACGTCTTGGACGTTGGCATTGTAT
1 TGTAAGACCACGTCTGGGACATTGGCATTGTAT
62862908 ATGTTCTCTG
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
42 24 0.43
43 31 0.55
44 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGTATTTGATTACA
Found at i:62868411 original size:2 final size:2
Alignment explanation
Indices: 62868404--62868430 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62868394 TGAAGCAAAT
62868404 TA 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 TA T
62868431 TGATGAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62870628 original size:68 final size:66
Alignment explanation
Indices: 62870556--62870709 Score: 186
Period size: 67 Copynumber: 2.3 Consensus size: 66
62870546 CATCATGTGT
* * *
62870556 ACAAGAGAGCTACGGGACATTATGATGTAGCTAGGTCGCATGGGTGATACT-ATG-TGTACACCA
1 ACAAGAGAGCTACGGG--A-TAT-ATGTAGCTAGGTCGCATGCGTGATACTAATGAAGGACACCA
*
62870619 TGTAG
62 TATAG
* *
62870624 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGATGAAGGACACCATAT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGATACTA-ATGAAGGACACCATAT
62870689 AG
65 AG
*
62870691 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGGGATA
62870710 AACTGGCTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 24 0.32
65 3 0.04
66 4 0.05
67 29 0.38
68 16 0.21
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGATACTAATGAAGGACACCATATA
G
Found at i:62873636 original size:40 final size:40
Alignment explanation
Indices: 62873577--62873757 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
62873567 CATTTGAATG
*
62873577 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
62873617 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
62873657 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
62873697 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
62873737 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
62873758 AAACTTGGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 116 0.90
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:62877820 original size:47 final size:47
Alignment explanation
Indices: 62877738--62877864 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
62877728 CTCAATCAAT
* * * *
62877738 AAGTACCTATACCATAG-CCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCATAACCAAATCAAGGTAACTCATCCCG
* * * * *
62877784 GAGTACCTATACCACGGCCCATAACCAAATCAAGGTAACTCCTCTCT
1 AAGTACCTATACCATGGCCCATAACCAAATCAAGGTAACTCATCCCG
* *
62877831 AAATACCTATACCATGGCCCATATCCAAATCAAG
1 AAGTACCTATACCATGGCCCATAACCAAATCAAG
62877865 ATATTACTCG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 14 0.21
47 53 0.79
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAACCAAATCAAGGTAACTCATCCCG
Found at i:62878853 original size:31 final size:31
Alignment explanation
Indices: 62878815--62878893 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
62878805 TTTAACGGTT
62878815 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
62878846 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
62878877 ACTCGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
62878894 ATTATAAACG
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:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:62878977 original size:42 final size:42
Alignment explanation
Indices: 62878917--62879008 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
62878907 TGGCCCATAG
*
62878917 GCCCATTTCAATAACACATGAAATATCAATGAATGTGTGCAA
1 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
*
62878959 GCCCATTTCAATATCACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
62879001 GCCCATTT
1 GCCCATTT
62879009 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
Found at i:62879224 original size:26 final size:26
Alignment explanation
Indices: 62879153--62879326 Score: 280
Period size: 26 Copynumber: 6.8 Consensus size: 26
62879143 CCTCTTTAAT
**
62879153 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62879178 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
62879203 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62879229 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
62879255 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62879281 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
62879307 AACTAGGGCATAAGCCCTTT
1 AACTGGGGCATAAGCCCTTT
62879327 CGCACTTCCT
Statistics
Matches: 139, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.24
26 106 0.76
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:62879264 original size:52 final size:52
Alignment explanation
Indices: 62879153--62879326 Score: 316
Period size: 52 Copynumber: 3.4 Consensus size: 52
62879143 CCTCTTTAAT
62879153 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
62879203 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
62879255 AACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
62879307 AACTAGGGCATAAGCCCTTT
1 AACTGGGGCATAAGCCCTTT
62879327 CGCACTTCCT
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
50 10 0.08
51 25 0.21
52 85 0.71
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:62879406 original size:20 final size:20
Alignment explanation
Indices: 62879377--62879451 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
62879367 TTATGAATTC
* *
62879377 ATCATTTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
62879397 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
62879417 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
62879437 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
62879452 TCCCACGTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:62879408 original size:11 final size:11
Alignment explanation
Indices: 62879394--62879432 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
62879384 GCATCTCATA
62879394 CATATCATGTG
1 CATATCATGTG
*
62879405 CATATCA--TA
1 CATATCATGTG
62879414 CATATCATGTG
1 CATATCATGTG
62879425 CATATCAT
1 CATATCAT
62879433 ATCAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:62879449 original size:9 final size:10
Alignment explanation
Indices: 62879394--62879450 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
62879384 GCATCTCATA
62879394 CATATCATGT
1 CATATCATGT
*
62879404 GCATATCAT-A
1 -CATATCATGT
62879414 CATATCATGT
1 CATATCATGT
*
62879424 GCATATCATAT
1 -CATATCATGT
62879435 CA-ATCATGT
1 CATATCATGT
62879444 -ATATCAT
1 CATATCAT
62879451 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:62880190 original size:27 final size:27
Alignment explanation
Indices: 62880153--62880231 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
62880143 TATTCCTCAT
*
62880153 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
62880180 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
*
62880207 TTCACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
62880232 TTTTTACCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:62880406 original size:27 final size:27
Alignment explanation
Indices: 62880273--62880506 Score: 159
Period size: 27 Copynumber: 8.6 Consensus size: 27
62880263 CATCCTACAA
* * * *
62880273 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** ** *
62880300 GGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
62880327 TGGTATTTCT-ATAATTTTTAAAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-CCAG
* ** *
62880356 GGGTATTTCT-GTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
* **
62880383 GGGTATTTTAGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
62880409 ATGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* *
62880437 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
62880464 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
62880491 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
62880507 CTATCCCACA
Statistics
Matches: 167, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 136 0.81
28 14 0.08
29 15 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:62880443 original size:54 final size:54
Alignment explanation
Indices: 62880380--62880506 Score: 175
Period size: 54 Copynumber: 2.4 Consensus size: 54
62880370 CTTTGTAAAT
* * *
62880380 CAGGGGTATTTTAGTAATTTTACAAA-TTGATGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAAC
* * *
62880434 CAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
*
62880488 TAGGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
62880507 CTATCCCACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 62 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
Found at i:62880549 original size:54 final size:53
Alignment explanation
Indices: 62880383--62880549 Score: 145
Period size: 54 Copynumber: 3.1 Consensus size: 53
62880373 TGTAAATCAG
* * *** *
62880383 GGGTATTTTAGTAATTTTACAAATTGATGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTCTACAAACAAAAGGTATTTCGGTAATTTCACAAACCA
* * ** * * *
62880436 GTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTCTACAAACAAAAGGTATTTCGGTAATTTCACAAACCA
** * * *
62880490 GGGGTATTTTGGTAATTCTATCCCACAAAAGGTATTTCAGTAATTTCACAATCGA
1 -GGGTATTTTGGTAATTCTA-CAAACAAAAGGTATTTCGGTAATTTCACAAACCA
62880545 GGGTA
1 GGGTA
62880550 AAACGGTAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 66 0.72
55 25 0.27
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (53 bp):
GGGTATTTTGGTAATTCTACAAACAAAAGGTATTTCGGTAATTTCACAAACCA
Found at i:62880624 original size:81 final size:81
Alignment explanation
Indices: 62880539--62880738 Score: 269
Period size: 81 Copynumber: 2.5 Consensus size: 81
62880529 GTAATTTCAC
* * *
62880539 AATCGAGGGTAAAACGGTAATT-TTGTAAA-CTGAAGGTAAAATGGTAATTTTGTAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTAG-AAATC-GAAGGTAAAACGGTAATTTTGTAAATCGAGGG
*
62880602 TAAAACAGTAATTCTGTA
64 TAAAACAGTAATTCTATA
* * *
62880620 AATCGAAGGTAAAATGGTAATTCTAGAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTAGAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTA
**
62880685 AAAGGGTAATTCTATA
66 AAACAGTAATTCTATA
* *
62880701 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTAGAAATCGAAGGTA
62880739 TTTCAGTAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 103 0.97
82 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTAGAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:62880723 original size:27 final size:27
Alignment explanation
Indices: 62880539--62880738 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
62880529 GTAATTTCAC
*
62880539 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
62880566 AA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
62880593 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62880620 AATCGAAGGTAAAATGGTAATTCTAG-A
1 AATCGAGGGTAAAACGGTAATTCT-GTA
*
62880647 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
62880674 AATCGAGGGTGAAAGGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
62880701 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62880728 AATCGAGGGTA
1 AATCGAGGGTA
62880739 TTTCAGTAAT
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 146 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:62880731 original size:54 final size:54
Alignment explanation
Indices: 62880539--62880738 Score: 267
Period size: 54 Copynumber: 3.7 Consensus size: 54
62880529 GTAATTTCAC
* * *
62880539 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAAGGTAAAATGGTAATTCTATA
* *
62880593 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAAGGTAAAATGGTAATTCTAGA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGGTAATTCTATA
* * * *
62880647 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAAGGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGGTAATTCTATA
* ** *
62880701 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTA
62880739 TTTCAGTAAT
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 128 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGGTAATTCTATA
Found at i:62884001 original size:29 final size:29
Alignment explanation
Indices: 62883969--62884032 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
62883959 CTTCGAGCTC
* *
62883969 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
62883998 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
62884027 GCACAC
1 GCACAC
62884033 TTAGTGACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:62884033 original size:29 final size:29
Alignment explanation
Indices: 62883977--62884038 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
62883967 TCGCACACCC
* *
62883977 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
62884006 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
62884035 AGTG
1 AGTG
62884039 ACAATCTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:62885246 original size:11 final size:10
Alignment explanation
Indices: 62885200--62885272 Score: 53
Period size: 11 Copynumber: 7.2 Consensus size: 10
62885190 AGAATGAACA
62885200 CTTTTT-TTT
1 CTTTTTCTTT
*
62885209 CCTTTTCTTT
1 CTTTTTCTTT
*
62885219 ATTTTTC-TT
1 CTTTTTCTTT
*
62885228 CATATTCTCTTT
1 C-T-TTTTCTTT
62885240 C-TTTTCTTT
1 CTTTTTCTTT
*
62885249 TTTTTTCATTT
1 CTTTTTC-TTT
62885260 CTTTATTCTTT
1 CTTT-TTCTTT
62885271 CT
1 CT
62885273 ACATAATCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
9 14 0.29
10 14 0.29
11 15 0.31
12 6 0.12
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:62885255 original size:15 final size:15
Alignment explanation
Indices: 62885200--62885263 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
62885190 AGAATGAACA
*
62885200 CTTTTTTTTCCTTTT
1 CTTTTTTTTTCTTTT
*
62885215 CTTTATTTTTC--TT
1 CTTTTTTTTTCTTTT
* *
62885228 CATATTCTCTTTCTTTT
1 C-T-TTTTTTTTCTTTT
*
62885245 CTTTTTTTTTCATTT
1 CTTTTTTTTTCTTTT
62885260 CTTT
1 CTTT
62885264 ATTCTTTCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
13 3 0.08
14 1 0.03
15 30 0.79
16 1 0.03
17 3 0.08
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
CTTTTTTTTTCTTTT
Found at i:62896218 original size:40 final size:40
Alignment explanation
Indices: 62896110--62896319 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62896100 CGGGATTTAA
* * * * *
62896110 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
62896150 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62896190 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62896230 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62896270 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62896310 CCGGATATAT
1 CCGGATATAT
62896320 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:62899507 original size:41 final size:41
Alignment explanation
Indices: 62899462--62899579 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
62899452 TGAAAGATAA
62899462 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
62899503 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62899533 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
62899574 ATGTAG
1 ATGTAG
62899580 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:62899518 original size:71 final size:71
Alignment explanation
Indices: 62899430--62899593 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62899420 GAGGTGTATC
62899430 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62899495 AGGACA
66 AGGACA
62899501 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
62899566 AGGACA
66 AGGACA
62899572 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
62899594 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:62904545 original size:40 final size:40
Alignment explanation
Indices: 62904418--62904547 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
62904408 ATGCTGGAAA
* *
62904418 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
62904458 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
62904498 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
62904538 TTATATCCGG
1 TTATATCCGG
62904548 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:62914447 original size:40 final size:40
Alignment explanation
Indices: 62914410--62914595 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
62914400 GCTACTCGTT
* **
62914410 CAAATGCCTTCGGGACATGGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
62914450 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
62914490 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
62914530 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
62914571 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62914596 CATCATTCGA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:62921521 original size:40 final size:40
Alignment explanation
Indices: 62921360--62921513 Score: 265
Period size: 40 Copynumber: 3.9 Consensus size: 40
62921350 ATTCGGATTG
62921360 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62921399 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62921439 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62921479 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
62921514 AAGCTATATC
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.12
40 94 0.88
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62924700 original size:23 final size:23
Alignment explanation
Indices: 62924650--62924701 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
62924640 TATGAATCGA
*
62924650 CAAAAGCCGAAATGCCGAATGTC
1 CAAAAGCCGAAATGCCGAAAGTC
*
62924673 TAAAAGCCGAAATGCCGAAAAG-C
1 CAAAAGCCGAAATGCCG-AAAGTC
62924696 CAAAAG
1 CAAAAG
62924702 TTTGGCTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (23 bp):
CAAAAGCCGAAATGCCGAAAGTC
Found at i:62924969 original size:29 final size:29
Alignment explanation
Indices: 62924911--62925054 Score: 161
Period size: 29 Copynumber: 5.0 Consensus size: 29
62924901 GTGAGCATGA
* * * *
62924911 ATATGAATGTGA-CTGGGCCTAACGGACC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
62924939 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
62924968 ATA-AACAGGTGATTTGGGCCTAATGGGCC
1 ATATAA-ATGTGATTTGGGCCTAATGGGCC
*
62924997 ATA-AACAGGTGATTTGGGCCTAATGGGCC
1 ATATAA-ATGTGATTTGGGCCTAATGGGCC
* * *
62925026 ATATAAATATGA-ATGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
62925054 A
1 A
62925055 GATACAGGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
28 28 0.27
29 74 0.71
30 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:62934278 original size:40 final size:40
Alignment explanation
Indices: 62934233--62934399 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
62934223 CGGAATACAA
62934233 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
62934273 CCGGATAGAAGGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
62934313 CCGGATGTAGCCGCTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
*** ** * *
62934352 CCGGATATAATTTCTAGCAATAACGTCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
62934392 CCGGATAT
1 CCGGATAT
62934400 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 33 0.31
40 72 0.69
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62934382 original size:79 final size:80
Alignment explanation
Indices: 62934249--62934397 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 80
62934239 ATAACCACGT
* * * *
62934249 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATAGAAGGACTAGCAAGAACGCCTTCGGGTCTTAGCC
62934314 CGGATGTAGCCGCTA
66 CGGATGTAGCCGCTA
* *** * *
62934329 GCAC-AATGCCTTCGGGTCTTAACCCGGATATAATTTCTAGCAATAACGTCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATAGAAGGACTAGCAAGAACGCCTTCGGGTCTTAGCC
62934393 CGGAT
66 CGGAT
62934398 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
79 55 0.93
80 4 0.07
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAACCCGGATAGAAGGACTAGCAAGAACGCCTTCGGGTCTTAGCC
CGGATGTAGCCGCTA
Found at i:62934576 original size:124 final size:124
Alignment explanation
Indices: 62934356--62934580 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
62934346 CTTAACCCGG
** * * * * *
62934356 ATATAATTTCTAGCAATAACGTCTTCGGGTCTTAGCCCGGATATCATTCAATTGCTCATGCACAC
1 ATATAATCACTAGCAATAACGCCTTCGGGACTTAGCCCGGATATCATTCAAATACTCATACACAC
* * *
62934421 ATACATCAATAATCATTAGACATTCATATTTCATTTTCGTTACTAAGGCTCAAACGCAA
66 ATAAATCAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACGCAA
*
62934480 ATATAATCACTAGC-ATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACA
1 ATATAATCACTAGCAATAA-CGCCTTCGGGACTTAGCCCGGATATCATTCAAATACTCATACACA
*
62934544 CATAAATCGATAATCATTACACATCCATATTTCATTT
65 CATAAATCAATAATCATTACACATCCATATTTCATTT
62934581 CACATAATTC
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 4 0.05
124 84 0.95
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (124 bp):
ATATAATCACTAGCAATAACGCCTTCGGGACTTAGCCCGGATATCATTCAAATACTCATACACAC
ATAAATCAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACGCAA
Found at i:62938415 original size:29 final size:29
Alignment explanation
Indices: 62938383--62938460 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
62938373 ATACCCTCCG
** *
62938383 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
62938412 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
62938441 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
62938461 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:62946261 original size:29 final size:29
Alignment explanation
Indices: 62946229--62946306 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
62946219 ATACCCTCCG
** *
62946229 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
62946258 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
62946287 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
62946307 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:62953221 original size:40 final size:40
Alignment explanation
Indices: 62953176--62953305 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62953166 CGGAATACAA
62953176 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
62953216 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
62953256 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62953296 CCGGATATAA
1 CCGGATATAA
62953306 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Done.