Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 188 of 378
Found at i:55218670 original size:46 final size:45
Alignment explanation
Indices: 55218430--55218670 Score: 181
Period size: 46 Copynumber: 5.2 Consensus size: 45
55218420 TGTAACCCGC
* * * * *
55218430 CCATC-AGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATCTAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCGCAA
*
55218476 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA
1 CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGC-A---A
* * * *
55218523 -CATCTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATCT-AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAA
* * *
55218569 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAA
* * *
55218615 CCAT-AAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCTCAA
1 CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAA
55218659 CCATCCTAGTGA
1 CCAT-CTAGTGA
55218671 CATGTCACTT
Statistics
Matches: 163, Mismatches: 18, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 3 0.02
46 111 0.68
47 30 0.18
48 1 0.01
49 4 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAA
Found at i:55223747 original size:27 final size:27
Alignment explanation
Indices: 55223671--55223760 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
55223661 TTTAGTTTAC
* *
55223671 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
55223698 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
55223725 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
55223752 TAAAATTAC
1 TAAAATTAC
55223761 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:55223770 original size:54 final size:54
Alignment explanation
Indices: 55223671--55223777 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
55223661 TTTAGTTTAC
* * *
55223671 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
55223725 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
55223778 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:55223785 original size:27 final size:27
Alignment explanation
Indices: 55223766--55224083 Score: 323
Period size: 27 Copynumber: 11.8 Consensus size: 27
55223756 ATTACCAAAG
*
55223766 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
55223793 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
55223820 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
55223847 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
55223874 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* **
55223901 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
55223928 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** *
55223955 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
55223982 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
55224009 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * ** **
55224036 TTCTCTTGATTTACAGAATTA-TATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
55224062 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
55224084 AGAAATACCC
Statistics
Matches: 250, Mismatches: 40, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 22 0.09
27 228 0.91
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:55223803 original size:81 final size:81
Alignment explanation
Indices: 55223712--55224002 Score: 206
Period size: 81 Copynumber: 3.6 Consensus size: 81
55223702 AATACTGAAA
* * * **
55223712 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
55223777 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* * * *** * **** *
55223793 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
55223858 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
*** * * ****** *
55223874 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
* * *
55223939 TATAAAATTACCGTTT
66 TACAGAATTACTGTTT
* * * * *** *
55223955 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
1 TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTA
55224003 TCGTTTTACC
Statistics
Matches: 178, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 177 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
TACAGAATTACTGTTT
Found at i:55223813 original size:54 final size:54
Alignment explanation
Indices: 55223766--55224083 Score: 440
Period size: 54 Copynumber: 5.9 Consensus size: 54
55223756 ATTACCAAAG
* * * * * *
55223766 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
55223820 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
55223874 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
55223928 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * *
55223982 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * * ** *
55224036 TTCTCTTGATTTACAGAATTA-TATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
55224084 AGAAATACCC
Statistics
Matches: 239, Mismatches: 25, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
53 22 0.09
54 217 0.91
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:55224003 original size:81 final size:81
Alignment explanation
Indices: 55223766--55224082 Score: 420
Period size: 81 Copynumber: 3.9 Consensus size: 81
55223756 ATTACCAAAG
* * * *
55223766 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
55223831 TACAAAATTACCGTTT
66 TACAAAATTATCGTTT
* * *
55223847 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
55223912 TACAGAATTATTGTTT
66 TACAAAATTATCGTTT
* * * *
55223928 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
55223993 TACAAAATTATCGTTT
66 TACAAAATTATCGTTT
* * ** * * * **
55224009 TACCGTCGATTTATAGAATTACTATTTTTCTCTTGATTTACAGAATTA-TATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
55224073 TACAAAATTA
66 TACAAAATTA
55224083 CAGAAATACC
Statistics
Matches: 211, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
80 25 0.12
81 186 0.88
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAAAATTATCGTTT
Found at i:55224100 original size:27 final size:27
Alignment explanation
Indices: 55224062--55224147 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
55224052 AATTATATTT
*
55224062 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCA-AAA
**
55224089 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
55224116 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
55224143 TACCC
1 TACCC
55224148 ATGGTTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:55224135 original size:54 final size:54
Alignment explanation
Indices: 55224076--55224200 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 54
55224066 CTCGATTTAC
* **
55224076 AAAATTACAGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCAT-AATTTGAAAAATTACCAAAATACCCCT-GTAGGGT
** *
55224130 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTA-CAGAAATACCCATAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
*
55224184 AAAATTACTGAAATACC
1 AAAATTACAGAAATACC
55224201 ATTGTGGGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
53 3 0.05
54 54 0.90
55 3 0.05
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (54 bp):
AAAATTACAGAAATACCCATAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
Found at i:55224154 original size:27 final size:27
Alignment explanation
Indices: 55224076--55224174 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
55224066 CTCGATTTAC
*
55224076 AAAATTA-CAGAAATACCC-TCAATTTGT
1 AAAATTACCA-AAATACCCAT-AGTTTGT
*
55224103 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCATAGTTTGT
* *
55224130 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCATAGTTTGT
*
55224157 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
55224175 CTGTAGGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATAGTTTGT
Found at i:55224187 original size:27 final size:27
Alignment explanation
Indices: 55224101--55224219 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
55224091 CCCTCAATTT
**
55224101 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* * **
55224128 GTAAAATTACCAAAATACCCATGGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* *
55224155 GAAAAATTACTAAAATACCCCT-GTAGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
** * *
55224182 GTAAAATTACTGAAATA-CCATTGTGG
1 GTAAAATTACCAAAATACCCCTAGTGG
*
55224208 GGAAAATTACCA
1 GTAAAATTACCA
55224220 TTTTGCCCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
26 16 0.21
27 61 0.79
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTAGTGG
Found at i:55224213 original size:54 final size:53
Alignment explanation
Indices: 55224103--55224219 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
55224093 CTCAATTTGT
** * *
55224103 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCATGG-TGGG
* ** *
55224157 AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGAAATA-CCATTGTGGGG
1 AAAATTACCAAAATACCCCTAGT-GGGTAAAATTACCAAAATACCCATGGT-GGG
55224210 AAAATTACCA
1 AAAATTACCA
55224220 TTTTGCCCCT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
52 1 0.02
53 17 0.33
54 34 0.65
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCATGGTGGG
Found at i:55224916 original size:27 final size:28
Alignment explanation
Indices: 55224839--55224907 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
55224829 GCGTAGATCA
*
55224839 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
55224867 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
55224895 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55224908 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:55227986 original size:28 final size:27
Alignment explanation
Indices: 55227954--55228034 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
55227944 TTAGAATACT
*
55227954 TTAGTTTACTAAAATTA-TCGAAATACCC
1 TTAGTTT-CTAAAAATACT-GAAATACCC
*
55227982 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTCTAAAAATACTGAAATACCC
* * *
55228009 -TCGATTTGTAAAATTACTGAAATACC
1 TTAG-TTTCTAAAAATACTGAAATACC
55228035 TTCGACTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 37 0.79
28 8 0.17
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACTGAAATACCC
Found at i:55227993 original size:27 final size:28
Alignment explanation
Indices: 55227963--55228052 Score: 107
Period size: 27 Copynumber: 3.3 Consensus size: 28
55227953 TTTAGTTTAC
55227963 TAAAATTA-TCGAAATACCCTTAG-TTTG
1 TAAAATTACT-GAAATACCCTTAGATTTG
* *
55227990 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
55228017 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
55228044 TAAAATTAC
1 TAAAATTAC
55228053 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.07
27 51 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTAGATTTG
Found at i:55228077 original size:27 final size:27
Alignment explanation
Indices: 55228058--55228374 Score: 305
Period size: 27 Copynumber: 11.8 Consensus size: 27
55228048 ATTACCAAAG
*
55228058 TACCCCCGATTTACAGAATTATC-TTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
55228084 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
55228111 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
55228138 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
55228165 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* **
55228192 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
55228219 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** **
55228246 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
55228273 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
55228300 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * ** **
55228327 TTCTCTTGATTTACA-AATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
55228353 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
55228375 AGAAATACCC
Statistics
Matches: 248, Mismatches: 41, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 44 0.18
27 204 0.82
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:55228159 original size:54 final size:54
Alignment explanation
Indices: 55228058--55228374 Score: 431
Period size: 54 Copynumber: 5.9 Consensus size: 54
55228048 ATTACCAAAG
* * * * * *
55228058 TACCCCCGATTTACAGAATTATC-TTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
55228111 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
55228165 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * *
55228219 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * *
55228273 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * ** *
55228327 TTCTCTTGATTTAC-AAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
55228375 AGAAATACCC
Statistics
Matches: 238, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 48 0.20
54 190 0.80
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:55228194 original size:81 final size:81
Alignment explanation
Indices: 55228058--55228374 Score: 404
Period size: 81 Copynumber: 3.9 Consensus size: 81
55228048 ATTACCAAAG
* * * * *
55228058 TACCCCCGATTTACAGAATTA-TCTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
55228122 TACAAAATTACCGTTT
66 TACAAAATTACCGTTT
* *
55228138 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* **
55228203 TACAGAATTATTGTTT
66 TACAAAATTACCGTTT
* * * * * *
55228219 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
55228284 TACAAAATTATCGTTT
66 TACAAAATTACCGTTT
* * * * * * *
55228300 TACCGTCGATTTATAGAATTACTATTTTTCTCTTGATTTAC-AAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
55228364 TACAAAATTAC
66 TACAAAATTAC
55228375 AGAAATACCC
Statistics
Matches: 210, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 52 0.25
81 158 0.75
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:55228383 original size:27 final size:27
Alignment explanation
Indices: 55228353--55228438 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
55228343 ATTACTATTT
*
55228353 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCA-AAA
**
55228380 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
55228407 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
55228434 TACCC
1 TACCC
55228439 ATGGTTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:55228425 original size:54 final size:53
Alignment explanation
Indices: 55228367--55228493 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 53
55228357 CTCGATTTAC
* **
55228367 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCT-AATTTGAAAAATTACCAAAATACCCCT-GTAGGGT
** *
55228421 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTA-CAGAAATACCC-TAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
*
55228475 AAAATTACTGAAATACCCT
1 AAAATTACAGAAATACCCT
55228494 TGTGGGGTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
53 4 0.06
54 55 0.89
55 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
Found at i:55228445 original size:27 final size:27
Alignment explanation
Indices: 55228367--55228465 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
55228357 CTCGATTTAC
*
55228367 AAAATTA-CAGAAATACCC-TCAATTTGT
1 AAAATTACCA-AAATACCCAT-AGTTTGT
*
55228394 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCATAGTTTGT
* *
55228421 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCATAGTTTGT
*
55228448 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
55228466 CTGTAGGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATAGTTTGT
Found at i:55228478 original size:27 final size:27
Alignment explanation
Indices: 55228392--55228511 Score: 109
Period size: 27 Copynumber: 4.4 Consensus size: 27
55228382 CCCTCAATTT
**
55228392 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* * **
55228419 GTAAAATTACCAAAATACCCATGGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* *
55228446 GAAAAATTACTAAAATACCCCT-GTAGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
** *
55228473 GTAAAATTACTGAAATA-CCCTTGTGGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
55228500 GTAAAATTACCA
1 GTAAAATTACCA
55228512 TTTTGCCCCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.08
27 73 0.92
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTAGTGG
Found at i:55229162 original size:28 final size:28
Alignment explanation
Indices: 55229130--55229198 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
55229120 GCGTAGATCA
*
55229130 CGAAATTACCCCTAAAGAGCAAAGTTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55229158 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55229186 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55229199 GGGTTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55233289 original size:127 final size:126
Alignment explanation
Indices: 55233063--55233314 Score: 362
Period size: 127 Copynumber: 2.0 Consensus size: 126
55233053 CTCAACATTG
* ** *
55233063 TAGACAAGATGGCTAAAGGCCATAAATATCGTAGCAACGCTGCCAGTTAACAGAACGGCTATAAG
1 TAGACAAGATGGCTAAAAGCCATAAATATCACAGCAACGCTGCCAGTTAACAGAACGACTATAAG
* * *
55233128 CCATTAGTATCGCAGAAAGGCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACACTTTCA
66 CCATAAGTATCACAGAAAGCCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACA-TTTCA
* * * * *
55233190 TAGACAGGATGGCTAAAAGCCGTAAATATCACAGCAATGCTGTCGGTTAACAGAACGACTATAAG
1 TAGACAAGATGGCTAAAAGCCATAAATATCACAGCAACGCTGCCAGTTAACAGAACGACTATAAG
*
55233255 CCATAAGTATCACAGAAAGCCT-AAGAGCCTTATACAGGATGGCTACAGGCCGTACATTTC
66 CCATAAGTATCACAGAAAGCCTGAA-AGCCTTATACAGGACGGCTACAGGCCGTACATTTC
55233315 CTCCGTCCAT
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
126 6 0.05
127 105 0.95
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (126 bp):
TAGACAAGATGGCTAAAAGCCATAAATATCACAGCAACGCTGCCAGTTAACAGAACGACTATAAG
CCATAAGTATCACAGAAAGCCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACATTTCA
Found at i:55242774 original size:40 final size:39
Alignment explanation
Indices: 55242709--55242912 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
55242699 CGGAATACAA
* *
55242709 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
55242749 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
55242789 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
55242829 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
55242869 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
55242909 CCGG
1 CCGG
55242913 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55243067 original size:64 final size:64
Alignment explanation
Indices: 55242999--55243187 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
55242989 GAACACAAAC
55242999 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
55243063 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
55243120 AC
63 AT
55243122 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
55243186 AT
1 AT
55243188 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:55243100 original size:123 final size:123
Alignment explanation
Indices: 55242881--55243219 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
55242871 GGATATAATT
* * * * * * *
55242881 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
55242946 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
55243004 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
55243069 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
55243127 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
55243192 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
55243220 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:55250145 original size:40 final size:40
Alignment explanation
Indices: 55250080--55250323 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
55250070 CGGAATACAA
* ** * * *
55250080 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
55250120 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
55250160 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
55250200 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
55250240 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
55250280 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
55250320 CCGG
1 CCGG
55250324 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:55250478 original size:64 final size:64
Alignment explanation
Indices: 55250410--55250598 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
55250400 GAACACAAAC
55250410 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
55250474 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
55250531 AC
63 AT
55250533 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
55250597 AT
1 AT
55250599 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:55250511 original size:123 final size:123
Alignment explanation
Indices: 55250292--55250630 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
55250282 GGATATAATT
* * * * * * *
55250292 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
55250357 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
55250415 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
55250480 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
55250538 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
55250603 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
55250631 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:55256309 original size:15 final size:16
Alignment explanation
Indices: 55256289--55256327 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
55256279 TTGAAAGCCT
55256289 ATAATATAAAC-AATA
1 ATAATATAAACGAATA
55256304 ATAATAGATAAACGAATA
1 ATAAT--ATAAACGAATA
55256322 ATAATA
1 ATAATA
55256328 ATAATAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 1 0.05
17 6 0.29
18 9 0.43
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (16 bp):
ATAATATAAACGAATA
Found at i:55256323 original size:18 final size:16
Alignment explanation
Indices: 55256289--55256331 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
55256279 TTGAAAGCCT
55256289 ATAAT-ATAAACAATA
1 ATAATAATAAACAATA
55256304 ATAATAGATAAACGAATA
1 ATAATA-ATAAAC-AATA
55256322 ATAATAATAA
1 ATAATAATAA
55256332 TAGGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.20
17 10 0.40
18 10 0.40
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (16 bp):
ATAATAATAAACAATA
Found at i:55261903 original size:80 final size:80
Alignment explanation
Indices: 55261819--55261966 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 80
55261809 TATGGTAACC
* * * *
55261819 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55261883 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55261899 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55261964 CCG
66 CCG
55261967 TTATAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55261951 original size:40 final size:39
Alignment explanation
Indices: 55261860--55261966 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 39
55261850 ATCACGATTT
*
55261860 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
55261900 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
55261940 GCACAATTGCCTTCGGGTCTTAACCCG
1 GCACAA-TGCCTTCGGGTCTTAGCCCG
55261967 TTATAATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 55 0.92
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:55270022 original size:39 final size:39
Alignment explanation
Indices: 55269956--55270069 Score: 184
Period size: 37 Copynumber: 3.1 Consensus size: 39
55269946 GGGCAGCCCA
55269956 CATAGCT-GCACAATTGCC-TC-GGCTTAGCCCGGATAT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
*
55269992 CATAGCTCGCACAATTTCCTTCGGGCTTAGCCCGG--AT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
55270029 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
55270068 CA
1 CA
55270070 CTCGAACATT
Statistics
Matches: 71, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
36 7 0.10
37 46 0.65
38 2 0.03
39 16 0.23
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (39 bp):
CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
Found at i:55272476 original size:51 final size:51
Alignment explanation
Indices: 55272393--55272530 Score: 149
Period size: 51 Copynumber: 2.7 Consensus size: 51
55272383 GATGCCCGAC
* *
55272393 GGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACA-A-AGT
1 GGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTACC-T-TTCACACATAGT
* *
55272444 GGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCACACATAGT
1 GGCCTTCACATAGTACCACACTTGTGATCAAAGCTACCTTTCACACATAGT
* * *
55272495 GGCCTGT-ACTTAGTACCACACATGTGATCGAAGCTA
1 GGCCT-TCACATAGTACCACACTTGTGATCAAAGCTA
55272531 TCGGGTACAC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
49 6 0.08
50 2 0.03
51 65 0.87
52 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (51 bp):
GGCCTTCACATAGTACCACACTTGTGATCAAAGCTACCTTTCACACATAGT
Found at i:55272531 original size:51 final size:50
Alignment explanation
Indices: 55272436--55272673 Score: 192
Period size: 51 Copynumber: 4.7 Consensus size: 50
55272426 CTACCTTCTT
* * * * * *
55272436 CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGT-A
* * * * *
55272487 CACATAGTGGCCTGTACTTAGTACCACACATGTGATCGAAGCTATCGGGTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATC-TGTA
* * *
55272538 CACATAGTAGCCTACACTTAGTACTACACATGTGACCTAA-CTATCTGGTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCT-GTA
* * * * * * *
55272588 CACTTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAAACCAT-TTTAAA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACC-AAAGCTATCTGT--A
* * *
55272640 CACATTGTAGCCTGCACATAGTACTACACATGTG
1 CACATAGTAGCCTGCACTTAGTACCACACATGTG
55272674 TTCTCACAAC
Statistics
Matches: 153, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
50 42 0.27
51 77 0.50
52 34 0.22
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGTA
Found at i:55272656 original size:52 final size:50
Alignment explanation
Indices: 55272537--55272669 Score: 142
Period size: 50 Copynumber: 2.6 Consensus size: 50
55272527 GCTATCGGGT
* * * * **
55272537 ACACATAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGGT
1 ACACATTGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAA
* * *
55272587 ACAC-TTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAAACCATTTTAA
1 ACACATT-GTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGAA
*
55272639 ACACATTGTAGCCTGCACATAGTACTACACA
1 ACACATTGTAGCCTGCACTTAGTACTACACA
55272670 TGTGTTCTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 33 0.49
52 32 0.47
53 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (50 bp):
ACACATTGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAA
Found at i:55278943 original size:27 final size:27
Alignment explanation
Indices: 55278921--55278996 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
55278911 TCATCCTATA
*
55278921 TTTACTATCCTGATGGACTATCCCGTG
1 TTTACTATCCTGATGGACTATCCCATG
* * * *
55278948 TTTACTGTCTTGATGAAATATCCCATG
1 TTTACTATCCTGATGGACTATCCCATG
*
55278975 TTTACTATCCCGATGGACTATC
1 TTTACTATCCTGATGGACTATC
55278997 TATGTTGTCG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (27 bp):
TTTACTATCCTGATGGACTATCCCATG
Found at i:55281590 original size:37 final size:37
Alignment explanation
Indices: 55281537--55281658 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
55281527 TTATTACGAA
*
55281537 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
55281574 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
55281611 GTCTTACCCGGTAATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
55281648 GTCTCACCCGG
1 GTCTTACCCGG
55281659 AACATATTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:55281814 original size:49 final size:49
Alignment explanation
Indices: 55281754--55281979 Score: 291
Period size: 49 Copynumber: 4.7 Consensus size: 49
55281744 CATATATTTT
*
55281754 ACATTAGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACC
1 ACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACC
* *
55281803 AC-TTCAGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
1 ACATT-GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACC
* * *
55281852 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATC
1 ACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACC
* * *
55281901 ACATTGGCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATC
1 ACATTGGCCATTA-GGCCTTATCACATATATATACACTTTCACATTCACC
* *
55281948 ACATTGGCCATTCA-ACCTTATCACACATATAT
1 ACATTGGCCATT-AGGCCTTATCACATATATAT
55281980 GTATATCATA
Statistics
Matches: 160, Mismatches: 10, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
47 39 0.24
48 5 0.03
49 115 0.72
50 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
ACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACC
Found at i:55284819 original size:22 final size:22
Alignment explanation
Indices: 55284785--55284849 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
55284775 ACAAATATGT
*
55284785 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
55284807 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
55284829 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
55284850 AATAATTAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:55285041 original size:41 final size:41
Alignment explanation
Indices: 55284989--55285105 Score: 171
Period size: 41 Copynumber: 2.9 Consensus size: 41
55284979 CTTAAAAGCC
* * *
55284989 ATCCACGGTCGTCAAGCAACCATGTGATCATTAATCGGTGG
1 ATCCACAGTCGTCAAGCAACCATGCGATCATCAATCGGTGG
* *
55285030 ATCCACAGTCGTCAAGCAACCATGGGATCCTCAATCGGTGG
1 ATCCACAGTCGTCAAGCAACCATGCGATCATCAATCGGTGG
* *
55285071 ATTCACAGTCGTCAAGCAACCATGCGATCCTCAAT
1 ATCCACAGTCGTCAAGCAACCATGCGATCATCAAT
55285106 TTCTTCCTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
ATCCACAGTCGTCAAGCAACCATGCGATCATCAATCGGTGG
Found at i:55285392 original size:27 final size:27
Alignment explanation
Indices: 55285348--55285620 Score: 237
Period size: 27 Copynumber: 10.1 Consensus size: 27
55285338 TGCAAAGGTG
* * *
55285348 TTTTGGTAAATCTACAAACTAAGGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
* * * *
55285375 TTTCGATAATTTTGCAAACCAATGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
* ** *
55285402 TTTTTGTAATTTTTTAAAGTTAAGGGTA
1 TTTTGGTAATTTTGCAAA-CTAAGGGTA
* * *
55285430 -TTTCGTAATTTTGTAAA-TCAGGGGTA
1 TTTTGGTAATTTTGCAAACT-AAGGGTA
* *
55285456 TTTTTGTAATTTTTCAAA-TCAAGGGTA
1 TTTTGGTAATTTTGCAAACT-AAGGGTA
* * * *
55285483 TTTCGGTAATTTTCCAAATTAGGGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
* *
55285510 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
* *
55285537 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
* * *
55285564 TTTTGGTAATTTTGCTAATTAGGGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
* *
55285591 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTGCAAACTAAGGGTA
55285618 TTT
1 TTT
55285621 CAATAATTCT
Statistics
Matches: 205, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
25 1 0.00
26 6 0.03
27 191 0.93
28 7 0.03
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
TTTTGGTAATTTTGCAAACTAAGGGTA
Found at i:55285484 original size:81 final size:79
Alignment explanation
Indices: 55285370--55285620 Score: 272
Period size: 81 Copynumber: 3.1 Consensus size: 79
55285360 TACAAACTAA
* * * * * * * *
55285370 GGGTATTTCGATAATTTTGCAAACCAATGGTATTTTTGTAATTTTTTAAAGTTAAGGGTA-TTTC
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTCTAAA-TTAGGGGTATTTTG
55285434 GTAATTTTGTAAATCAG
64 GTAATTTTGTAAA-CAG
* * * *
55285451 GGGTATTTTTGTAATTTTTCAAATCAAGGGTATTTCGGTAATTTTCCAAATTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTCTAAATTAGGGGTATTTTGG
**
55285516 TAATTTTACAAACTAG
65 TAATTTTGTAAAC-AG
*
55285532 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCT-AATTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTT-CTAAATTAGGGGTATTTTG
*
55285596 GTAATTTTGTAAACCAA
64 GTAATTTTGTAAA-CAG
55285613 GGGTATTT
1 GGGTATTT
55285621 CAATAATTCT
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
80 10 0.07
81 131 0.92
82 2 0.01
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (79 bp):
GGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGTAATTTTCTAAATTAGGGGTATTTTGGT
AATTTTGTAAACAG
Found at i:55285647 original size:27 final size:27
Alignment explanation
Indices: 55285617--55285693 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
55285607 AACCAAGGGT
*
55285617 ATTTCAATAATTCTACCCTACAGTGGC
1 ATTTCAATAATTCTACCCTACAGGGGC
55285644 ATTTCAATAATTCTACCCTACAGGGGC
1 ATTTCAATAATTCTACCCTACAGGGGC
* * * *
55285671 ATTTTAGTAAATCTAGCCTACAG
1 ATTTCAATAATTCTACCCTACAG
55285694 ATATGAGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (27 bp):
ATTTCAATAATTCTACCCTACAGGGGC
Found at i:55288391 original size:40 final size:40
Alignment explanation
Indices: 55288347--55288532 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
55288337 GCTACTCGTT
* * *
55288347 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
55288387 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
55288427 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
55288467 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
55288508 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55288533 CATCATTCAA
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.89
41 12 0.09
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:55292244 original size:47 final size:46
Alignment explanation
Indices: 55292127--55292296 Score: 181
Period size: 45 Copynumber: 3.7 Consensus size: 46
55292117 GGATGGTTGA
*
55292127 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
55292174 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * *
55292217 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
55292267 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
55292297 GCTTATGGGT
Statistics
Matches: 105, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.29
46 27 0.26
47 30 0.29
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:55292295 original size:46 final size:45
Alignment explanation
Indices: 55292131--55292304 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
55292121 GGTTGAGCAT
* * *
55292131 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACGC
* * * * *
55292176 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACAACGC
55292221 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACGC
* *
55292269 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55292305 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.01
45 31 0.29
46 42 0.39
47 30 0.28
48 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAACGC
Found at i:55297243 original size:40 final size:40
Alignment explanation
Indices: 55297197--55297344 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
55297187 TGATTGATAC
* * *
55297197 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
55297237 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
55297277 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
55297317 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
55297345 TTCTGGTTAT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:55297354 original size:80 final size:80
Alignment explanation
Indices: 55297197--55297364 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
55297187 TGATTGATAC
* * * * *
55297197 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTG
* *
55297262 TGCGAGTTGTTATAT
66 TGCGACTGGTTATAT
* *
55297277 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAATT
**
55297341 GTGCTTCTGGTTATAT
65 GTGCGACTGGTTATAT
55297357 CC-GGCTAA
1 CCGGGCTAA
55297365 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 6 0.08
80 68 0.89
81 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTG
TGCGACTGGTTATAT
Found at i:55303006 original size:46 final size:46
Alignment explanation
Indices: 55302956--55303131 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
55302946 TGGTTGAGCA
*
55302956 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55303002 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
55303049 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
55303095 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55303132 GTGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55303112 original size:93 final size:93
Alignment explanation
Indices: 55302953--55303124 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55302943 GGATGGTTGA
* *
55302953 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55303018 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
55303046 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55303111 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55303125 CTTATGGGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55304089 original size:24 final size:24
Alignment explanation
Indices: 55304062--55304113 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
55304052 TTATTGAGTC
55304062 TAGTTTTTGGAGAAAGAAACCTCA
1 TAGTTTTTGGAGAAAGAAACCTCA
55304086 TAGTTTTTGGAGAAAGAAACCTCA
1 TAGTTTTTGGAGAAAGAAACCTCA
55304110 TAGT
1 TAGT
55304114 CATATGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (24 bp):
TAGTTTTTGGAGAAAGAAACCTCA
Found at i:55305100 original size:25 final size:25
Alignment explanation
Indices: 55305066--55305127 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 25
55305056 ATCGAGTCCC
55305066 TATAATGATATTTAAACCAAAGTAA
1 TATAATGATATTTAAACCAAAGTAA
55305091 TATAATGATATTTAAACCAAAGTAA
1 TATAATGATATTTAAACCAAAGTAA
*
55305116 TATTATGTATAT
1 TATAATG-ATAT
55305128 CAAACCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (25 bp):
TATAATGATATTTAAACCAAAGTAA
Found at i:55308345 original size:13 final size:13
Alignment explanation
Indices: 55308327--55308352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55308317 GAACTGGAGA
55308327 AATATATATATAT
1 AATATATATATAT
55308340 AATATATATATAT
1 AATATATATATAT
55308353 TTTAATGTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATATATATAT
Found at i:55309155 original size:46 final size:43
Alignment explanation
Indices: 55309087--55309207 Score: 130
Period size: 46 Copynumber: 2.9 Consensus size: 43
55309077 TCTACAATGG
*
55309087 CGATTTTTAGAGAAAAAATATTGTAGTATTCCAATCTTATAGTGAA
1 CGATTTCTAGAGAAAAAATATTGTAGTATTCCAATCTTAT--T-AA
* *
55309133 TGATTTCTAGAGAAAAAATA-T-T-GTATT---ATCTCATTAA
1 CGATTTCTAGAGAAAAAATATTGTAGTATTCCAATCTTATTAA
55309170 CGATTTCTAGAGAAAAAAATATTGTAG-ATTCCAATCTT
1 CGATTTCTAGAG-AAAAAATATTGTAGTATTCCAATCTT
55309208 GAAAATTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
37 13 0.21
38 9 0.14
39 1 0.02
40 10 0.16
41 1 0.02
43 9 0.14
44 1 0.02
45 1 0.02
46 18 0.29
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (43 bp):
CGATTTCTAGAGAAAAAATATTGTAGTATTCCAATCTTATTAA
Found at i:55309531 original size:58 final size:58
Alignment explanation
Indices: 55309427--55309560 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 58
55309417 TTTAATTCAT
* *
55309427 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * * *
55309485 GTAATAATTATGTTAA-AATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
55309543 ATAATAATCT-TATTAAGA
1 ATAATAAT-TATATTAAGA
55309561 TTTAATAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 19 0.29
58 44 0.68
59 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (58 bp):
ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:55309749 original size:16 final size:16
Alignment explanation
Indices: 55309728--55309781 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
55309718 TAAATTACTG
*
55309728 ATTACAGCTCTATTTC
1 ATTACAACTCTATTTC
55309744 ATTACAACTCTA-TTC
1 ATTACAACTCTATTTC
* *
55309759 AAATACAACTCCATTTC
1 -ATTACAACTCTATTTC
55309776 ATTACA
1 ATTACA
55309782 TTGAACTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 26 0.81
17 3 0.09
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTTC
Found at i:55312251 original size:39 final size:39
Alignment explanation
Indices: 55312169--55312251 Score: 89
Period size: 39 Copynumber: 2.2 Consensus size: 39
55312159 GTAAATTAGT
* *
55312169 AATT-ATAAAAATTCAAAATATATTTTAAAAGTTTAAAA
1 AATTAATAAAAATTCAAAATATATTTTAAAAATTAAAAA
* * * *
55312207 TATTAATAACAATTCATAAT-TTTTTTAAAAAATTAAAAA
1 AATTAATAAAAATTCAAAATATATTTT-AAAAATTAAAAA
55312246 AATTAA
1 AATTAA
55312252 AATTCAAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
38 8 0.22
39 28 0.78
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.39
Consensus pattern (39 bp):
AATTAATAAAAATTCAAAATATATTTTAAAAATTAAAAA
Found at i:55312946 original size:21 final size:19
Alignment explanation
Indices: 55312922--55312962 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
55312912 TTGTTAATTG
55312922 AAGATTAATGAATAATTAAAT
1 AAGATTAA--AATAATTAAAT
*
55312943 AAGATTAAACTAATTAAAT
1 AAGATTAAAATAATTAAAT
55312962 A
1 A
55312963 TGTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
AAGATTAAAATAATTAAAT
Found at i:55314060 original size:19 final size:19
Alignment explanation
Indices: 55314024--55314134 Score: 80
Period size: 19 Copynumber: 5.9 Consensus size: 19
55314014 GTATGGGTTT
*
55314024 ATGCGCTT-ATGCGCCAGG
1 ATGCGCTTCGTGCGCCAGG
*
55314042 ATGCGCTTCGTGCGTCAGG
1 ATGCGCTTCGTGCGCCAGG
* * *
55314061 ATGCACTTCTTGTGCCAGG
1 ATGCGCTTCGTGCGCCAGG
* * * *
55314080 ATACGCTTTGTGCACTAGG
1 ATGCGCTTCGTGCGCCAGG
* * * *
55314099 ATGCACTTTGTGCGACAAG
1 ATGCGCTTCGTGCGCCAGG
* *
55314118 ATGCACTTCATGCGCCA
1 ATGCGCTTCGTGCGCCA
55314135 ATATTCACTA
Statistics
Matches: 70, Mismatches: 22, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
18 8 0.11
19 62 0.89
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (19 bp):
ATGCGCTTCGTGCGCCAGG
Found at i:55315662 original size:24 final size:24
Alignment explanation
Indices: 55315626--55315674 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
55315616 TCATCGGAAT
**
55315626 AGGGTTATGGAGCATTACCAAAAC
1 AGGGTTACAGAGCATTACCAAAAC
*
55315650 AGGGTTACAGAGCATTACCGAAAC
1 AGGGTTACAGAGCATTACCAAAAC
55315674 A
1 A
55315675 TTCAGAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (24 bp):
AGGGTTACAGAGCATTACCAAAAC
Found at i:55316101 original size:42 final size:42
Alignment explanation
Indices: 55316021--55316101 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
55316011 GTGCAGGTTT
* * * *
55316021 CACACGGCCAAGACACATGCCCATGTTGTAGGCTGTGTGGCA
1 CACACGGCCAAGACACAAGCCCATGTTCTAGCCCGTGTGGCA
*
55316063 CACACGGCTAAGACACAAGCCCATGTCTCT-GCCCGTGTG
1 CACACGGCCAAGACACAAGCCCATGT-TCTAGCCCGTGTG
55316102 CTCAATTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (42 bp):
CACACGGCCAAGACACAAGCCCATGTTCTAGCCCGTGTGGCA
Found at i:55321014 original size:46 final size:46
Alignment explanation
Indices: 55320944--55321346 Score: 531
Period size: 46 Copynumber: 8.7 Consensus size: 46
55320934 GCTTTCTGAA
* * * *
55320944 ATGAAATGAATAAAACCATAGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
55320990 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
55321036 GGGAAAATGAATAAGACTATGGTTAAAAGATACCATGGCAACGTGAT
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
55321083 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
55321129 ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
55321175 GGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
55321222 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
55321268 GA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 -ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
55321315 A-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATAC
55321347 TATGACATCA
Statistics
Matches: 317, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
46 193 0.61
47 124 0.39
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:55321073 original size:93 final size:93
Alignment explanation
Indices: 55320944--55321346 Score: 526
Period size: 93 Copynumber: 4.3 Consensus size: 93
55320934 GCTTTCTGAA
* * * * *
55320944 ATGAAATGAATAAAACCATAGTTGAAAGATACCATGGCAACCTGATATG-AAATGAGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGATATGAAAATGAATAAGACCA
55321008 TGGTTGAAAGATACCATGGCAACATGAC
66 TGGTTGAAAGATACCATGGCAACATGAC
** * * **
55321036 GGGAAAATGAATAAGACTATGGTTAAAAGATACCATGGCAACGTGATATG-AAATGTGTAAGACC
1 ATG-AAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGATATGAAAATGAATAAGACC
* *
55321100 ATGGTTGAAAGATACCATGGCAACGTGAT
65 ATGGTTGAAAGATACCATGGCAACATGAC
***
55321129 ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCA
1 ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGATATGAAAATGAATAAGACCA
*
55321194 TGGTTGAAAGATACCATGGCAACCTGAC
66 TGGTTGAAAGATACCATGGCAACATGAC
* * *
55321222 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAAATGAATAAGACC
1 ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGA-TATGAAAATGAATAAGACC
55321286 ATGGTTGAAAGATACCATGGCAACATGAC
65 ATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
55321315 A-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ATG-AAATGAATAAGACCATGGTTAAAAGATAC
55321347 TATGACATCA
Statistics
Matches: 278, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
92 43 0.15
93 235 0.85
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (93 bp):
ATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAACATGATATGAAAATGAATAAGACCA
TGGTTGAAAGATACCATGGCAACATGAC
Found at i:55321197 original size:139 final size:139
Alignment explanation
Indices: 55320939--55321346 Score: 613
Period size: 139 Copynumber: 2.9 Consensus size: 139
55320929 AGTGTGCTTT
* * * * * *
55320939 CTGAAATGAAATGAATAAAACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAG
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAG
* *
55321004 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACTATGGTTAAAAGATAC
66 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATAC
55321069 CATGGCAAC
131 CATGGCAAC
* * * *
55321078 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAG
*
55321143 ACCATGGTTAAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATAC
66 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATAC
55321208 CATGGCAAC
131 CATGGCAAC
*
55321217 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAAATGAATA
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATG-AAATGAATA
* * * * *
55321281 AGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAACGAGTAAAACCATAGTTGAAAGAT
64 AGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGAT
55321345 AC
129 AC
55321347 TATGACATCA
Statistics
Matches: 245, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
139 202 0.82
140 43 0.18
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (139 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATAC
CATGGCAAC
Found at i:55325554 original size:35 final size:35
Alignment explanation
Indices: 55325515--55325585 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
55325505 GAGTGAGCTT
55325515 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
1 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
55325550 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
1 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
55325585 T
1 T
55325586 CATCATGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (35 bp):
TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
Found at i:55327647 original size:24 final size:24
Alignment explanation
Indices: 55327620--55327731 Score: 116
Period size: 24 Copynumber: 4.6 Consensus size: 24
55327610 AGAAATTTCA
* *
55327620 GCACTATGTGTGCGAGGTTATGCG
1 GCACTATGTGTGCGAGGTTACGTG
* * *
55327644 GCACTATGTGTGCAAAAGCTACGTG
1 GCACTATGTGTGC-GAGGTTACGTG
* * * *
55327669 GAACTATGTGTGCGAGATTACATA
1 GCACTATGTGTGCGAGGTTACGTG
**
55327693 GCACTATGTGTGCGAGGAAACGTG
1 GCACTATGTGTGCGAGGTTACGTG
55327717 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
55327732 ATGAGTAAGA
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
24 51 0.74
25 18 0.26
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGGTTACGTG
Found at i:55327697 original size:49 final size:49
Alignment explanation
Indices: 55327644--55327754 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
55327634 AGGTTATGCG
** * *
55327644 GCACTATGTGTGCAAAAGCTACGTGGAACTATGTGTGCG-A-GATTACATA
1 GCACTATGTGTGC-AAAGAAACGTGGAACTATGTGTGCGAATGAGTA-AGA
* * *
55327693 GCACTATGTGTGCGAGGAAACGTGGCACTATGTGTGCGAATGAGTAAGA
1 GCACTATGTGTGCAAAGAAACGTGGAACTATGTGTGCGAATGAGTAAGA
55327742 GCACTATGTGTGC
1 GCACTATGTGTGC
55327755 GGACCTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 20 0.38
49 29 0.55
50 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (49 bp):
GCACTATGTGTGCAAAGAAACGTGGAACTATGTGTGCGAATGAGTAAGA
Found at i:55327748 original size:73 final size:73
Alignment explanation
Indices: 55327619--55327755 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 73
55327609 AAGAAATTTC
** * * *
55327619 AGCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAAAAGCTACGTGGAACTATGTGTGCGA
1 AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGCAAAAGCTAAGTAGAACTATGTGTGCGA
55327684 GATTACAT
66 GATTACAT
* * *
55327692 AGCACTATGTGTGCGAGGAAACGTGGCACTATGTGTGCGAATGAG-TAAG-AGCACTATGTGTGC
1 AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGC-AA-AAGCTAAGTAGAACTATGTGTGC
55327755 G
64 G
55327756 GACCTTTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 47 0.87
74 5 0.09
75 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (73 bp):
AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGCAAAAGCTAAGTAGAACTATGTGTGCGA
GATTACAT
Found at i:55335344 original size:49 final size:47
Alignment explanation
Indices: 55335267--55335401 Score: 146
Period size: 49 Copynumber: 2.8 Consensus size: 47
55335257 AGAAATTTCA
* * *
55335267 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAA-AAACTACGTG
1 GCACTATGTGTGCGAGATTA-ACAGCACTATGTGTGCAAGAAA--ACGTG
* *
55335316 GCACTATGTGTGCGAGATTACATAGCACTATGTGTGCAAGGAAACGTG
1 GCACTATGTGTGCGAGATTA-ACAGCACTATGTGTGCAAGAAAACGTG
* *
55335364 GCACTATGTGTGCGAATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCG-A-GATTAACAGCACTATGTGTGC
55335402 GGACCTTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 19 0.25
49 50 0.67
50 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTAACAGCACTATGTGTGCAAGAAAACGTG
Found at i:55335348 original size:24 final size:24
Alignment explanation
Indices: 55335266--55335402 Score: 98
Period size: 24 Copynumber: 5.6 Consensus size: 24
55335256 AAGAAATTTC
* * *
55335266 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTACGT
* * * *
55335290 GGCACTATGTGTGCAAAAACTACGT
1 AGCACTATGTGTGC-GAGATTACGT
* *
55335315 GGCACTATGTGTGCGAGATTACAT
1 AGCACTATGTGTGCGAGATTACGT
* *
55335339 AGCACTATGTGTGCAAGGA-AACGT
1 AGCACTATGTGTGCGA-GATTACGT
* * *
55335363 GGCACTATGTGTGCGAATGAGTAAG-
1 AGCACTATGTGTGCG-A-GATTACGT
55335388 AGCACTATGTGTGCG
1 AGCACTATGTGTGCG
55335403 GACCTTTAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
24 49 0.56
25 37 0.42
26 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTACGT
Found at i:55337498 original size:46 final size:46
Alignment explanation
Indices: 55337431--55337521 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
55337421 TGTGGCTTCT
*
55337431 ATATTTGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTGTCC
1 ATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTGTCC
55337477 ATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTGTC
1 ATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTGTC
55337522 TTTAGAGTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (46 bp):
ATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTGTCC
Found at i:55338550 original size:20 final size:20
Alignment explanation
Indices: 55338502--55338580 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
55338492 GACTTGCTTG
*
55338502 AAAATCATTTTGA-TGTG-TT
1 AAAATCATTTTCACT-TGATT
* *
55338521 AAAATGATTTTAACTTGATT
1 AAAATCATTTTCACTTGATT
* *
55338541 GAAATCATTTTCACTTGGTT
1 AAAATCATTTTCACTTGATT
*
55338561 AAAATCATTTGCACTTGATT
1 AAAATCATTTTCACTTGATT
55338581 CTAAAATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 13 0.27
20 36 0.73
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (20 bp):
AAAATCATTTTCACTTGATT
Found at i:55338562 original size:40 final size:40
Alignment explanation
Indices: 55338493--55338580 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
55338483 AGAAATTCTG
* * * *
55338493 ACTTGCTTGAAAATCATTTTGATGTGTTAAAATGATTTTA
1 ACTTGATTGAAAATCATTTTCATGTGTTAAAATCATTTGA
*
55338533 ACTTGATTG-AAATCATTTTCACT-TGGTTAAAATCATTTGC
1 ACTTGATTGAAAATCATTTTCA-TGT-GTTAAAATCATTTGA
55338573 ACTTGATT
1 ACTTGATT
55338581 CTAAAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 12 0.29
40 29 0.71
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (40 bp):
ACTTGATTGAAAATCATTTTCATGTGTTAAAATCATTTGA
Found at i:55340729 original size:29 final size:28
Alignment explanation
Indices: 55340641--55340742 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
55340631 TACTCAATCA
* *
55340641 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * * *
55340670 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCGTACA-TTCAAGCT
55340699 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
55340728 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
55340743 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 53 0.91
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:55344683 original size:27 final size:27
Alignment explanation
Indices: 55344664--55344876 Score: 264
Period size: 27 Copynumber: 7.9 Consensus size: 27
55344654 ATTACCAAAG
* *
55344664 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
55344691 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
55344718 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
55344745 TACCCTCAATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
**
55344772 TACCCTCGATTTACAAAATTACTTTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
55344799 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* ***
55344826 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCATTT
* *
55344853 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
55344877 AAATACCCCT
Statistics
Matches: 161, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:55344757 original size:81 final size:81
Alignment explanation
Indices: 55344640--55344847 Score: 299
Period size: 81 Copynumber: 2.6 Consensus size: 81
55344630 ACTAAAATGT
* * ***
55344640 CCTCCATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
55344705 AAAATTACCGTTTTAC
66 AAAATTACCGTTTTAC
* *
55344721 CCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
**
55344786 AAAATTACTTTTTTAC
66 AAAATTACCGTTTTAC
* * * *
55344802 CCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTAC
55344848 TAAAATACCC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (81 bp):
CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
AAAATTACCGTTTTAC
Found at i:55344879 original size:27 final size:27
Alignment explanation
Indices: 55344826--55345078 Score: 138
Period size: 27 Copynumber: 9.3 Consensus size: 27
55344816 ATTACCGTTT
* * *
55344826 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
55344853 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * ** *
55344880 TACCCCTAGTTTGTAAAATTACGAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
55344907 TACCAC-TGGTTTGTGAAATTACTGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** *
55344934 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
**
55344961 TACACC-TAATTTACAAAATTA-CAGAAA
1 TAC-CCTTGGTTTACAAAATTACCA-AAA
* * *
55344988 TACACTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
55345017 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
55345044 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
55345071 CACCCTTG
1 TACCCTTG
55345079 TAGGATGAAA
Statistics
Matches: 179, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.02
27 146 0.82
28 10 0.06
29 19 0.11
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:55344884 original size:54 final size:54
Alignment explanation
Indices: 55344651--55345049 Score: 207
Period size: 54 Copynumber: 7.4 Consensus size: 54
55344641 CTCCATTTGT
* ***** * *
55344651 AAAATTACC-AAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAA-TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
*** * * *** ***
55344705 AAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCGAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* * *** **** * *
55344759 AGAATTATCGTTTTACCCTCGATTTACAAAATTACTTTTTTACCCTCGATTTAC
1 AAAATTACCGAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* ***
55344813 AGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCGAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* * ** * **
55344867 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACGAAAATACCAC-TGGTTTGT
1 AAAATTACCGAAATACCCTCGA-TTTACAAAATTACTAAAATACC-CTTGGTTTAC
* * * * * **
55344921 GAAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACACC-TAATTTAC
1 AAAATTACCGAAATACCCTCGATTTACAAAATTACTAAAATAC-CCTTGGTTTAC
* * * *
55344975 AAAATTACAGAAATACACTTGACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACCGAAATACCCTCGA-TTTAC--AAAATTACTA-AAATACCCTTGGTTTAC
*
55345031 AAAATTACTGAAATACCCT
1 AAAATTACCGAAATACCCT
55345050 TGGTTTGTAG
Statistics
Matches: 282, Mismatches: 53, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.01
54 235 0.83
55 9 0.03
56 36 0.13
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
Found at i:55345173 original size:27 final size:27
Alignment explanation
Indices: 55345096--55345173 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
55345086 AAATGACTAA
* *
55345096 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
55345123 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
55345150 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
55345174 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:55346020 original size:25 final size:25
Alignment explanation
Indices: 55345982--55346051 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
55345972 AGGAAGTGCT
* *
55345982 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
55346007 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
55346032 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55346052 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:55346064 original size:24 final size:24
Alignment explanation
Indices: 55345981--55346076 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
55345971 GAGGAAGTGC
*
55345981 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
55346006 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
55346030 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
55346054 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
55346077 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:55348854 original size:40 final size:40
Alignment explanation
Indices: 55348771--55348861 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
55348761 TTGCTAAGTG
* * * * * *
55348771 ACTAAATCCGGACTAAGATCTGACGTCATACGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
* *
55348811 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCT
1 ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
55348851 ACTAAATCCGG
1 ACTAAATCCGG
55348862 GTTGAGTCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
Found at i:55349923 original size:18 final size:18
Alignment explanation
Indices: 55349900--55349936 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55349890 TGTAAATTAA
55349900 CCAGAGATAATTAGGAGT
1 CCAGAGATAATTAGGAGT
55349918 CCAGAGATAATTAGGAGT
1 CCAGAGATAATTAGGAGT
55349936 C
1 C
55349937 ATGCCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (18 bp):
CCAGAGATAATTAGGAGT
Found at i:55356698 original size:2 final size:2
Alignment explanation
Indices: 55356691--55356723 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
55356681 GTTGTAAGCT
*
55356691 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55356724 GCATGCATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:55370295 original size:79 final size:79
Alignment explanation
Indices: 55370148--55370333 Score: 193
Period size: 79 Copynumber: 2.3 Consensus size: 79
55370138 TTCGAATGAT
* *
55370148 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGCATAC
1 ATCCGGACTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGACGCATAC
55370213 GTGCGAGTTACTAA
66 GTGCGAGTTACTAA
** * *
55370227 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCGAAGGC
1 ATCCGGACTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGATCCG-ACGC
* *
55370288 ATTCGTGCGAGTTACTGTA
62 ATACGTGCGAGTTACT-AA
* *
55370307 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGACTAAGTCCCGAAGGC-TTTGA
55370334 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
78 5 0.06
79 75 0.83
80 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (79 bp):
ATCCGGACTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGACGCATAC
GTGCGAGTTACTAA
Found at i:55372098 original size:45 final size:45
Alignment explanation
Indices: 55372040--55372127 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
55372030 GTCTTAAACA
55372040 TTTGAATCCTGATGCCATAACATCTTTCAGCTATGGTCTTACTCG
1 TTTGAATCCTGATGCCATAACATCTTTCAGCTATGGTCTTACTCG
* * *
55372085 TTTGAATCGTGATGCCATAGCGTCTTTCAGCTATGGTCTTACT
1 TTTGAATCCTGATGCCATAACATCTTTCAGCTATGGTCTTACT
55372128 TATTTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (45 bp):
TTTGAATCCTGATGCCATAACATCTTTCAGCTATGGTCTTACTCG
Found at i:55378166 original size:47 final size:46
Alignment explanation
Indices: 55378018--55378193 Score: 178
Period size: 47 Copynumber: 3.8 Consensus size: 46
55378008 CATTTGTTTG
* * * * *
55378018 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACA
1 TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACTTCAAGATA
* * *
55378064 TAAGCCAGTGTAAGACATGTCTAAGACATGCATC-AGCTACAAGATGA
1 TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGA-CTTCAAGAT-A
* *
55378111 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTC-AGATA
1 TGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACTTCAAGATA
*
55378157 TGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCG
1 TGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCG
55378194 GCACCTTACC
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 49 0.45
47 50 0.46
48 8 0.07
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACTTCAAGATA
Found at i:55379911 original size:9 final size:9
Alignment explanation
Indices: 55379884--55379914 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55379874 AACCCAAACA
55379884 CTCCACCTC
1 CTCCACCTC
*
55379893 ATCCACCTC
1 CTCCACCTC
55379902 CTCCACCTC
1 CTCCACCTC
55379911 CTCC
1 CTCC
55379915 TATTCCTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.65, G:0.00, T:0.23
Consensus pattern (9 bp):
CTCCACCTC
Found at i:55381816 original size:28 final size:28
Alignment explanation
Indices: 55381747--55381847 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55381737 GACAAGATTG
* * * *
55381747 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
55381777 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55381805 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
55381834 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55381848 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55381841 original size:29 final size:28
Alignment explanation
Indices: 55381776--55381847 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
55381766 AAAATTGTAC
*
55381776 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
55381804 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
55381833 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55381848 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:55389670 original size:28 final size:29
Alignment explanation
Indices: 55389601--55389672 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
55389591 GACAAGATTG
* *
55389601 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-AAATTATACA
* *
55389631 GCACTAAGTGTGCGAGTTT-GATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACA
55389659 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55389673 GATTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 20 0.53
30 18 0.47
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTATACA
Found at i:55393342 original size:2 final size:2
Alignment explanation
Indices: 55393335--55393368 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
55393325 TGAATGAAAA
*
55393335 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55393369 CATGTGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:55399381 original size:56 final size:56
Alignment explanation
Indices: 55399118--55399375 Score: 340
Period size: 56 Copynumber: 4.6 Consensus size: 56
55399108 GTATATGTGA
* * *
55399118 CATCGATATGTAACTCTAATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
* * * * *
55399174 CATCGATATGTGATTCTGGTATATGTGTGTGAGTAAGTCCAC-TCTACATATGTCGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGG
* *
55399230 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACATTTAATACGTTGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
*
55399286 CATCGATATGTGATT-TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
1 CATCGATATGTGATTCT-GATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
* * ** *
55399342 CATCAATATGTAATTCCAATATATGTGTACGAGT
1 CATCGATATGTGATTCTGATATATGTGTGCGAGT
55399376 GAGACCCTAT
Statistics
Matches: 176, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
55 4 0.02
56 169 0.96
57 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (56 bp):
CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
Found at i:55399823 original size:2 final size:2
Alignment explanation
Indices: 55399818--55399845 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55399808 AAAGCATAGG
55399818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55399846 GAAATGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55401493 original size:23 final size:22
Alignment explanation
Indices: 55401459--55401501 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
55401449 GCTAATGTCG
55401459 TATATTTGAAATTGTTGATATAT
1 TATATTTGAAATTGTT-ATATAT
*
55401482 TATATTTTAAATTGTTATAT
1 TATATTTGAAATTGTTATAT
55401502 GTGAACGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (22 bp):
TATATTTGAAATTGTTATATAT
Found at i:55405923 original size:56 final size:55
Alignment explanation
Indices: 55405777--55406025 Score: 283
Period size: 56 Copynumber: 4.5 Consensus size: 55
55405767 GTATATGTGA
* *
55405777 CATCGATATGTGACTCTGATATATGTGTGTGAGTAAGTCCACGTTTTATACATTGG
1 CATCGATATGTGACTCTGATATATGTGTGTGAGTAAGTCCACG-TTAATACGTTGG
* *
55405833 CATCGATATGT---TCTGGTATATGTGTGTGAGTAAGTCCATGTTACATACGTTGG
1 CATCGATATGTGACTCTGATATATGTGTGTGAGTAAGTCCACGTTA-ATACGTTGG
*
55405886 CATCGATATGTGACTCTAATATATGTGT-TGGAGTAAGTCCACGTTTAATACGTTGG
1 CATCGATATGTGACTCTGATATATGTGTGT-GAGTAAGTCCACG-TTAATACGTTGG
* * ** * * *
55405942 CATCGATATGTCG-TTCTGATATATGTGGGCAAGGAAGACCACATTTAATACGTTGG
1 CATCGATATGT-GACTCTGATATATGTGTGTGAGTAAGTCCAC-GTTAATACGTTGG
* *
55405998 CATCGATATGTAATTCTGATATATGTGT
1 CATCGATATGTGACTCTGATATATGTGT
55406026 ACGAGTGAGA
Statistics
Matches: 166, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
52 2 0.01
53 46 0.28
55 1 0.01
56 113 0.68
57 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (55 bp):
CATCGATATGTGACTCTGATATATGTGTGTGAGTAAGTCCACGTTAATACGTTGG
Found at i:55408135 original size:23 final size:22
Alignment explanation
Indices: 55408100--55408143 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
55408090 TGCTAATGTC
55408100 TTATATATGAAATTGTTGATATA
1 TTATATATGAAATTGTT-ATATA
* *
55408123 TTATATTTTAAATTGTTATAT
1 TTATATATGAAATTGTTATAT
55408144 GTGAACGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATATATGAAATTGTTATATA
Found at i:55410557 original size:46 final size:47
Alignment explanation
Indices: 55410408--55410676 Score: 221
Period size: 46 Copynumber: 5.7 Consensus size: 47
55410398 ATTTGTTTGT
* * *
55410408 GAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGA-GATGA
* * * ** *
55410454 GAGCCAGTGTAAGACCATTTCTAGGACATGGCATCAGCATTAAGACGA
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCGGCCTCGAGATGA
* * *
55410502 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGAGATG-A
* *
55410549 -AGCCAGTGTAAGA-CATGTTTAGGACATGCATCGG-TTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCT-CGAGATGA
* * * * * * *
55410594 TAGTCAATGTAAGACCATGTCTGGGACATGGCAT-TGACTTGAGAT-A
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCGGCCTCGAGATGA
*
55410640 TGAGCCAGTGTAAGACCATGTCTAAGACATGCCATCG
1 -GAGCCAGTGTAAGACCATGTCTAGGACATG-CATCG
55410677 ATACCTTACC
Statistics
Matches: 178, Mismatches: 33, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 76 0.43
47 71 0.40
48 28 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGAGATGA
Found at i:55410669 original size:140 final size:141
Alignment explanation
Indices: 55410413--55410676 Score: 322
Period size: 140 Copynumber: 1.9 Consensus size: 141
55410403 TTTGTGAGCT
* * *
55410413 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATTTCTAG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTAG
* **
55410478 GACATGGCATCAGCATTAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATG-CATCGGCCTCG
66 GACATGGCATCAGCATTAAGACGAGAGCCAGTGTAAGACATGTCTAAGACATGCCATCGGCCTCG
55410542 AGACGTAAGCC
131 AGACGTAAGCC
* ** * * *
55410553 AGTGTAAGACATGTTTAGGACATGCATCGGTTACGA-GATGATAGTCAATGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAGAGCCAATGTAAGACCATGTCTA
* * *
55410617 GGACATGGCAT-TG-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTAAGACATGCCATCG
65 GGACATGGCATCAGCA-TTAAGACGA-GAGCCAGTGTAAGA-CATGTCTAAGACATGCCATCG
55410677 ATACCTTACC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.18
140 77 0.74
141 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTAG
GACATGGCATCAGCATTAAGACGAGAGCCAGTGTAAGACATGTCTAAGACATGCCATCGGCCTCG
AGACGTAAGCC
Found at i:55415704 original size:40 final size:40
Alignment explanation
Indices: 55415592--55415744 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
55415582 GGATATAGCG
* * * * ***
55415592 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
55415632 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
55415672 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
55415712 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
55415745 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:55423699 original size:39 final size:38
Alignment explanation
Indices: 55423652--55423798 Score: 165
Period size: 39 Copynumber: 3.8 Consensus size: 38
55423642 GTTATAATAG
*
55423652 CTCG-ACAAATGCCTTCGGGACTTAACCCGGATTTGGAA
1 CTCGCACAAATGCCTTC-GGACTTAGCCCGGATTTGGAA
*
55423690 CTCGCACAAATGCCTTCGGACTTAGTCCGGATTTGGTAA
1 CTCGCACAAATGCCTTCGGACTTAGCCCGGATTTGG-AA
* * **
55423729 CTCGCACAAATGCCTTCGGATCTTAGTCCGGA-TAGTCA
1 CTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTGGAA
*
55423767 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTC-GGACTTAGCCCGGA
55423799 CATCATTCGA
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
38 39 0.40
39 47 0.48
40 11 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CTCGCACAAATGCCTTCGGACTTAGCCCGGATTTGGAA
Found at i:55423720 original size:38 final size:39
Alignment explanation
Indices: 55423652--55423761 Score: 170
Period size: 39 Copynumber: 2.8 Consensus size: 39
55423642 GTTATAATAG
**
55423652 CTCG-ACAAATGCCTTCGGGACTTAACCCGGATTTGG-AA
1 CTCGCACAAATGCCTTC-GGACTTAGTCCGGATTTGGTAA
55423690 CTCGCACAAATGCCTTCGGACTTAGTCCGGATTTGGTAA
1 CTCGCACAAATGCCTTCGGACTTAGTCCGGATTTGGTAA
55423729 CTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 CTCGCACAAATGCCTTCGGA-CTTAGTCCGGAT
55423762 AGTCACTTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 21 0.31
39 34 0.51
40 12 0.18
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGACTTAGTCCGGATTTGGTAA
Found at i:55426718 original size:28 final size:28
Alignment explanation
Indices: 55426653--55426753 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55426643 ATAGTGAATC
*
55426653 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
55426682 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55426710 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
55426740 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55426754 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55429231 original size:24 final size:24
Alignment explanation
Indices: 55429199--55429246 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
55429189 TGGCAATGTG
*
55429199 CTAAGTGAAATAATTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
*
55429223 CTAAGTGAAATAAGTCCGTGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
55429247 TGTGCTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:55429337 original size:51 final size:51
Alignment explanation
Indices: 55429282--55429429 Score: 246
Period size: 51 Copynumber: 2.9 Consensus size: 51
55429272 TGAACCTTAG
55429282 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
55429333 GAATATAAA-AGCTTTGGACACAAGTGTGGTACTATGTAAAGGCCACTTTGT
1 GAATA-AAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
55429384 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
55429430 AGTGTATCCG
Statistics
Matches: 91, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
50 4 0.04
51 84 0.92
52 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:55434353 original size:43 final size:42
Alignment explanation
Indices: 55434260--55434386 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 42
55434250 ATTACCGAGA
* *
55434260 TGTGATTACATGTTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATT--ATGTTAAGACCATGTCCGGGACATTGGCATCGTAT
* *
55434304 TGTGATTATGTATAAGTCCATGTCCGGGAGATTGGCATCGTTAT
1 TGTGATTATGT-TAAGACCATGTCCGGGACATTGGCATCG-TAT
* ** *
55434348 T-TGATT-TCGTGTAAGACCCTGTTTGGGACAATGGCATCG
1 TGTGATTAT-GT-TAAGACCATGTCCGGGACATTGGCATCG
55434387 ATATGTGGTA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 5 0.07
43 53 0.77
44 11 0.16
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (42 bp):
TGTGATTATGTTAAGACCATGTCCGGGACATTGGCATCGTAT
Found at i:55438853 original size:51 final size:51
Alignment explanation
Indices: 55438774--55438916 Score: 245
Period size: 51 Copynumber: 2.8 Consensus size: 51
55438764 ACACGGTGGG
55438774 CTTCACATAGTACCACACTTGTAG-CCAAAGCTATTTTATTCACAAAGATG-C
1 CTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAG-TGAC
*
55438825 CTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGAC
1 CTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGAC
55438876 CTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 CTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
55438917 CTAAGGTTCA
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
50 3 0.03
51 85 0.97
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (51 bp):
CTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGAC
Found at i:55438978 original size:22 final size:22
Alignment explanation
Indices: 55438952--55439020 Score: 111
Period size: 22 Copynumber: 3.0 Consensus size: 22
55438942 ACTTAGCACA
55438952 ATGCCATGGACTTATTTCACTT
1 ATGCCATGGACTTATTTCACTT
55438974 ATGCCATGGACTTATTTCACTT
1 ATGCCATGGACTTATTTCACTT
*
55438996 AGATGCCATGGTCTTATTTCACTT
1 --ATGCCATGGACTTATTTCACTT
55439020 A
1 A
55439021 GCACAATGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
22 23 0.52
24 21 0.48
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (22 bp):
ATGCCATGGACTTATTTCACTT
Found at i:55439006 original size:24 final size:24
Alignment explanation
Indices: 55438952--55439021 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
55438942 ACTTAGCACA
55438952 ATGCCATGGACTTATTTCACTT--
1 ATGCCATGGACTTATTTCACTTAG
55438974 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
55438998 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
55439022 CACAATGTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 22 0.49
24 23 0.51
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:55442429 original size:40 final size:40
Alignment explanation
Indices: 55442370--55442521 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 40
55442360 CAATTGAATG
* * *
55442370 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* * * *
55442410 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* * * **
55442450 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
* *
55442490 AAATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
55442522 ACGTGGTTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATT
Found at i:55449648 original size:19 final size:20
Alignment explanation
Indices: 55449611--55449648 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55449601 ATAAGGTGGT
55449611 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55449631 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55449649 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:55453281 original size:40 final size:39
Alignment explanation
Indices: 55453202--55453285 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
55453192 ACGACTTATT
**
55453202 GGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAACTTC
1 GGCTAAAATGGCACTTAGTGTGCAATTCGAAATAACTTC
* * * *
55453241 GGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTTC
1 GGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAACTTC
55453281 GGCTA
1 GGCTA
55453286 TATATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (39 bp):
GGCTAAAATGGCACTTAGTGTGCAATTCGAAATAACTTC
Found at i:55463744 original size:20 final size:20
Alignment explanation
Indices: 55463719--55463850 Score: 237
Period size: 20 Copynumber: 6.6 Consensus size: 20
55463709 TGGGCTAAGG
*
55463719 ACACAGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
*
55463739 ACACAGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
55463759 ACACGGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
55463779 ACACGGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
55463799 ACACGGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
55463819 ACACGGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
*
55463839 ACATGGGCGTGT
1 ACACGGGCGTGT
55463851 GACCCTGTTT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 110 1.00
ACGTcount: A:0.17, C:0.38, G:0.34, T:0.11
Consensus pattern (20 bp):
ACACGGGCGTGTCCCGAGCC
Found at i:55472839 original size:28 final size:29
Alignment explanation
Indices: 55472772--55472872 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
55472762 ATAGTGAATC
*
55472772 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
55472801 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
55472829 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
55472859 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55472873 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:55474213 original size:18 final size:20
Alignment explanation
Indices: 55474178--55474216 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
55474168 TCCACACCCA
55474178 TTTTTTTTCATCATTTTCTTT
1 TTTTTTTTCA-CATTTTCTTT
55474199 TTTTTTTTC-CA-TTTCTTT
1 TTTTTTTTCACATTTTCTTT
55474217 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
21 9 0.50
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCACATTTTCTTT
Found at i:55479786 original size:39 final size:39
Alignment explanation
Indices: 55479732--55479912 Score: 290
Period size: 39 Copynumber: 4.6 Consensus size: 39
55479722 ATGTTCGAGG
*
55479732 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTAT
* *
55479771 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTAT
* *
55479810 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTAT
*
55479849 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTAT
*
55479888 GATATCCGGGTTAAGTCCCGAAGGC
1 GATATCCGGGCTAAG-CCCGAAGGC
55479913 CTTTGTGCGG
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 125 0.93
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTAT
Found at i:55479875 original size:117 final size:119
Alignment explanation
Indices: 55479732--55479952 Score: 356
Period size: 117 Copynumber: 1.9 Consensus size: 119
55479722 ATGTTCGAGG
55479732 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
** *
55479796 ATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTAT
66 ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAT
* *
55479849 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGCC
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
* * *
55479914 TTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
66 ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGC
55479953 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 53 0.56
118 32 0.34
119 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (119 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAT
Done.