Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 211 of 444
Found at i:58938964 original size:27 final size:27
Alignment explanation
Indices: 58938934--58939223 Score: 379
Period size: 27 Copynumber: 10.8 Consensus size: 27
58938924 TTACCACAAG
*
58938934 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58938961 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
58938988 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
58939015 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58939042 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58939069 TA-CC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
58939094 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58939121 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58939148 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58939175 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
58939202 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
58939224 TAAAATACCC
Statistics
Matches: 231, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
25 20 0.09
26 5 0.02
27 205 0.89
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:58939114 original size:133 final size:135
Alignment explanation
Indices: 58938934--58939223 Score: 397
Period size: 133 Copynumber: 2.2 Consensus size: 135
58938924 TTACCACAAG
* * * *
58938934 TACCCTCGATTTATAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCCTAATTTACAGAATTACCGTTTCACCCCCGATT
* * * *
58938999 TACATAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTCACCCTCGATTTACAGAATTAC
66 TACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTCACCCTCGATTTACAAAATTAC
58939064 CATTT
131 CATTT
* * * *
58939069 TA-CC-CGATTTACATAATTATCGTTTTA-CCCTCGATTTACAGAATTACCGTTTCACCCTCGAT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCCT-AATTTACAGAATTACCGTTTCACCCCCGAT
* * *
58939131 TTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTA
65 TTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTCACCCTCGATTTACAAAATTA
**
58939196 CTGTTT
130 CCATTT
58939202 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
58939224 TAAAATACCC
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
132 4 0.03
133 110 0.82
134 4 0.03
135 16 0.12
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (135 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCCTAATTTACAGAATTACCGTTTCACCCCCGATT
TACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTCACCCTCGATTTACAAAATTAC
CATTT
Found at i:58939118 original size:160 final size:160
Alignment explanation
Indices: 58938934--58939223 Score: 440
Period size: 160 Copynumber: 1.8 Consensus size: 160
58938924 TTACCACAAG
* * * *
58938934 TACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCGTTTTACCCCCGAT
1 TACCCTCGATTTACAGAATTACCGTTTCACCCTC-AATTTACAGAATTACCATTTTACCCCCGAT
* * *
58938998 TTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACTGTTTCACCCTCGATTTACAGAATT
65 TTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACTGTTTCACCCTCGATTTACAAAATT
58939062 ACCATTTTACCCGATTTACATAATTATCGTTT
129 ACCATTTTACCCGATTTACATAATTATCGTTT
* *
58939094 TACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTACAGAATTACCATTTTACCCCCGATT
* * *
58939159 TATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTAC
66 TACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTCACCCTCGATTTACAAAATTAC
58939224 TAAAATACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
160 114 0.98
161 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (160 bp):
TACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTACAGAATTACCATTTTACCCCCGATT
TACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTCACCCTCGATTTACAAAATTAC
CATTTTACCCGATTTACATAATTATCGTTT
Found at i:58939247 original size:27 final size:27
Alignment explanation
Indices: 58939202--58939287 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
58939192 ATTACTGTTT
* ** *
58939202 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * * **
58939229 TACCCTTAGTTTGTGAAATTACCGCAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
58939256 TACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
58939283 TACCC
1 TACCC
58939288 CTGTATGGTA
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:58940491 original size:25 final size:25
Alignment explanation
Indices: 58940462--58940509 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58940452 TTATAATATG
* * *
58940462 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58940487 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58940510 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58940578 original size:20 final size:20
Alignment explanation
Indices: 58940553--58940607 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
58940543 TAAATATGGT
58940553 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
58940573 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
58940593 ATGT-TGATATGCACA
1 ATGTATGATATGCACA
58940608 GGTAATCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 11 0.32
20 23 0.68
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:58940685 original size:24 final size:24
Alignment explanation
Indices: 58940658--58940800 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
58940648 GAGGAAGTGA
58940658 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
58940682 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
58940706 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
58940729 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
58940753 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
58940777 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58940801 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:58940751 original size:47 final size:47
Alignment explanation
Indices: 58940658--58940800 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
58940648 GAGGAAGTGA
58940658 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
58940706 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
58940753 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
58940801 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:58940774 original size:71 final size:72
Alignment explanation
Indices: 58940658--58940801 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
58940648 GAGGAAGTGA
*
58940658 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
58940721 CCAGTTAT
65 CCAGTTAT
** * *
58940729 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
58940794 CAGTTAT
66 CAGTTAT
58940801 A
1 A
58940802 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:58941025 original size:30 final size:31
Alignment explanation
Indices: 58940991--58941053 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
58940981 CGTTTACAGT
58940991 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
58941021 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58941052 AA
1 AA
58941054 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58943969 original size:27 final size:26
Alignment explanation
Indices: 58943839--58944013 Score: 223
Period size: 26 Copynumber: 6.6 Consensus size: 26
58943829 TTTGGTTTAC
58943839 AAATTACCAAAATA-CCCT-GCTTTGTA
1 AAATTA-CAAAATACCCCTAG-TTTGTA
58943865 AAATTACTAAAATACCCCTAG-TTGTA
1 AAATTAC-AAAATACCCCTAGTTTGTA
*
58943891 AAATTACCAAATACCCCTAGTTTGTA
1 AAATTACAAAATACCCCTAGTTTGTA
58943917 AAATTATCAAAATA-CCCTAGTTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTA
58943943 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTA
* *
58943970 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTA-CAAAATACCCCTAGTTTGTA
*
58943997 AAATTACTGAAATACCC
1 AAATTAC-AAAATACCC
58944014 TCGACCTGTA
Statistics
Matches: 136, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.10
26 62 0.46
27 60 0.44
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (26 bp):
AAATTACAAAATACCCCTAGTTTGTA
Found at i:58944066 original size:27 final size:27
Alignment explanation
Indices: 58943839--58944086 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
58943829 TTTGGTTTAC
*
58943839 AAATTACCAAAATACCCT-GCTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
58943865 AAATTACTAAAATACCC-CTAGTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
58943891 AAATTACC-AAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
58943917 AAATTATCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58943943 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
58943970 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
58943997 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
58944024 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58944051 AAATTACCAAAGTACCCCTCGATTTATA
1 AAATTACCAAAATA-CCCTCGATTTGTA
*
58944079 GAATTACC
1 AAATTACC
58944087 GTTTTACCCC
Statistics
Matches: 184, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
25 11 0.06
26 63 0.34
27 90 0.49
28 20 0.11
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:58944316 original size:81 final size:81
Alignment explanation
Indices: 58944066--58944353 Score: 406
Period size: 81 Copynumber: 3.6 Consensus size: 81
58944056 ACCAAAGTAC
* * * * *
58944066 CCCTCGATTTATAGAATTACCGTTTTACCCCCTAATTTACATAAATTACCGTTTTACCC-CGATT
1 CCCTCGATTTACAGAATTACCGTTTCACCCTC-GATTTACA-AAATTACCATTTTACCCTCGATT
58944130 TACATAATTATCGTTTTA
64 TACATAATTATCGTTTTA
58944148 CCCTCGATTTACAGAATTA-CGTTTCACCCTCGATTTAC--AATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
58944210 CATAATTATCGTTTTA
66 CATAATTATCGTTTTA
*
58944226 CCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
* *
58944291 TAGAATTA-CTGTTTTA
66 CATAATTATC-GTTTTA
* * * *
58944307 CCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTAC
58944354 TAAAATACCC
Statistics
Matches: 189, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
77 15 0.08
78 42 0.22
79 19 0.10
80 7 0.04
81 88 0.47
82 18 0.10
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
CATAATTATCGTTTTA
Found at i:58944354 original size:27 final size:27
Alignment explanation
Indices: 58944066--58944353 Score: 368
Period size: 27 Copynumber: 10.7 Consensus size: 27
58944056 ACCAAAGTAC
*
58944066 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
58944093 CCCCCTAATTTACATAAATTACCGTTTTA
1 CCCTC-GATTTACA-GAATTACCGTTTTA
* *
58944122 CCC-CGATTTACATAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
58944148 CCCTCGATTTACAGAATTA-CGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
58944174 CCCTCGATTTAC--AATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
58944199 CCCTCGATTTACATAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
58944226 CCCTCGATTTACAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
58944253 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
58944280 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
58944307 CCCTTGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
58944334 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
58944354 TAAAATACCC
Statistics
Matches: 230, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
24 5 0.02
25 17 0.07
26 33 0.14
27 152 0.66
28 7 0.03
29 16 0.07
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:58944390 original size:81 final size:81
Alignment explanation
Indices: 58944033--58944397 Score: 229
Period size: 81 Copynumber: 4.5 Consensus size: 81
58944023 AAAATTATTG
* * * * * * * *
58944033 AAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCTCGATTTATAGAATTACCGTTTTACCCC
1 AAATACCCTCGATTTATAGAATTACCGCAA-TA-CCCTCGATTTACAAAATTACCGTTTCACCCT
* *
58944097 CTAATTTACATAAATTACCG
64 C-GATTTACA-AAATTACCA
*** * * * *** *
58944117 TTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTA-CGTTTCACCCTCG
1 AAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGTTTCACCCTCG
58944180 ATTTAC--AATTACCA
66 ATTTACAAAATTACCA
*** * * * *** *
58944194 TTTTACCCTCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCG
1 AAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGTTTCACCCTCG
*
58944259 ATTTACAGAATTACCA
66 ATTTACAAAATTACCA
*** * *** * * *
58944275 TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCG
1 AAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGTTTCACCCTCG
*
58944340 ATTTACAAAATTACTA
66 ATTTACAAAATTACCA
* * * *
58944356 AAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 AAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
58944398 GTAAAACTAC
Statistics
Matches: 237, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
77 15 0.06
78 42 0.18
79 19 0.08
80 7 0.03
81 117 0.49
82 18 0.08
83 14 0.06
84 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (81 bp):
AAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGTTTCACCCTCG
ATTTACAAAATTACCA
Found at i:58945701 original size:20 final size:20
Alignment explanation
Indices: 58945676--58945734 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
58945666 TAAATATGGT
58945676 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
58945696 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
58945716 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
58945735 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:58945716 original size:11 final size:11
Alignment explanation
Indices: 58945680--58945734 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
58945670 TATGGTATGT
58945680 ATGATATGCAC
1 ATGATATGCAC
* *
58945691 ATGAAATG--T
1 ATGATATGCAC
58945700 ATGATATGCAC
1 ATGATATGCAC
*
58945711 ATGATATG--T
1 ATGATATGCAC
58945720 ATGATATGCAC
1 ATGATATGCAC
58945731 ATGA
1 ATGA
58945735 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:58945844 original size:23 final size:24
Alignment explanation
Indices: 58945785--58945926 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
58945775 GAGGAAGTGA
58945785 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
58945809 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
58945833 AAAA-GGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
58945855 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
58945879 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
58945903 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58945927 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 4 0.04
23 36 0.33
24 58 0.53
25 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:58946153 original size:31 final size:31
Alignment explanation
Indices: 58946118--58946181 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
58946108 CGTTTACAGT
58946118 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
58946149 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58946180 AA
1 AA
58946182 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58953641 original size:20 final size:20
Alignment explanation
Indices: 58953616--58953664 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
58953606 GCCATAAAAT
*
58953616 TTCATTCATATTTCAAAACG
1 TTCATTCACATTTCAAAACG
58953636 TTCATTCACATTTCAAAACG
1 TTCATTCACATTTCAAAACG
58953656 TTCATTCAC
1 TTCATTCAC
58953665 TTACACATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (20 bp):
TTCATTCACATTTCAAAACG
Found at i:58963744 original size:93 final size:93
Alignment explanation
Indices: 58963632--58963802 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
58963622 GCCCATAAGT
* **
58963632 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58963697 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
58963725 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58963790 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58963803 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58963818 original size:46 final size:46
Alignment explanation
Indices: 58963624--58963804 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
58963614 TGTAACCCGC
* * *
58963624 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
58963670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * *
58963720 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
58963763 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
58963805 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:58969192 original size:24 final size:24
Alignment explanation
Indices: 58969160--58969212 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
58969150 GTAGATCGGC
* *
58969160 AAAAGCCAAAATGCCAAAATGCTG
1 AAAAGCCAAAATACCAAAATGCCG
*
58969184 AAAAGCCAAAATACCGAAATGCCG
1 AAAAGCCAAAATACCAAAATGCCG
58969208 AAAAG
1 AAAAG
58969213 TCGAAAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.21, G:0.17, T:0.09
Consensus pattern (24 bp):
AAAAGCCAAAATACCAAAATGCCG
Found at i:58969512 original size:28 final size:28
Alignment explanation
Indices: 58969434--58969515 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 28
58969424 TATGAATATG
* *
58969434 AATGTGACTTAGGCCTGATGGGCCATATA
1 AATGTGA-TTGGGCCTGATGGGCCATAAA
** * *
58969463 AATGAAAATTGAGCCTAATGGGCCATAAA
1 AATG-TGATTGGGCCTGATGGGCCATAAA
*
58969492 AATGTGATTGGGCCTGGTGGGCCA
1 AATGTGATTGGGCCTGATGGGCCA
58969516 CATACAGGTA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 15 0.37
29 25 0.61
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
AATGTGATTGGGCCTGATGGGCCATAAA
Found at i:58970926 original size:37 final size:37
Alignment explanation
Indices: 58970872--58970942 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
58970862 TAAAGATATT
*
58970872 ACACTTCTCGCCGTATAAATGATGTCGCCGAATTATG
1 ACACTTCTCGCCATATAAATGATGTCGCCGAATTATG
58970909 ACACTTCTCGCCATATAAATGATGTCGCCGAATT
1 ACACTTCTCGCCATATAAATGATGTCGCCGAATT
58970943 TTCAATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (37 bp):
ACACTTCTCGCCATATAAATGATGTCGCCGAATTATG
Found at i:58976821 original size:24 final size:23
Alignment explanation
Indices: 58976789--58976897 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
58976779 ACCAAACGTT
* **
58976789 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
58976813 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
58976837 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
58976861 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
58976885 GCACACATAGTGC
1 GCACACATAGTGC
58976898 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:58976863 original size:48 final size:48
Alignment explanation
Indices: 58976789--58976897 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
58976779 ACCAAACGTT
* **
58976789 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
58976837 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
58976885 GCACACATAGTGC
1 GCACACATAGTGC
58976898 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:58982459 original size:39 final size:39
Alignment explanation
Indices: 58982341--58982523 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
58982331 TCGTTCAAAC
* * ** * **
58982341 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
58982381 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
58982421 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
58982460 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
58982499 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
58982524 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:58987936 original size:24 final size:24
Alignment explanation
Indices: 58987906--58987992 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
58987896 CTTATTATGT
58987906 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
58987930 TCACACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58987954 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58987978 TCGCACACATAGTGC
1 TCGCACACATAGTGC
58987993 ATTTGAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:58992462 original size:48 final size:48
Alignment explanation
Indices: 58992373--58992595 Score: 254
Period size: 48 Copynumber: 4.6 Consensus size: 48
58992363 AGGTGCCAAC
** * **
58992373 ATCATGGCCTAAAGCCAAATCAATAG-AGCTCGTACCCGAAGTGAC-AAT
1 ATCATGGCCCGAAGCCAAATCAAT-GTAACTCACACCCGAAGTG-CTAAT
* * *
58992421 ATTATGGCCCCAAGCCAAATCAATGTAACTCACACCTGAAGTGCTAAT
1 ATCATGGCCCGAAGCCAAATCAATGTAACTCACACCCGAAGTGCTAAT
** * *
58992469 ATCATGGCCTTAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAAT
1 ATCATGGCCCGAAGCCAAATCAATGTAACTCACACCCGAAGTGCTAAT
* * *
58992517 ATCATGGCCCGAA-CCGAAATCAGTGTAACTTACACCCGAAGTACTAAT
1 ATCATGGCCCGAAGCC-AAATCAATGTAACTCACACCCGAAGTGCTAAT
*
58992565 ATCATAGCCCGAAGCCAAATCAATGTAACTC
1 ATCATGGCCCGAAGCCAAATCAATGTAACTC
58992596 GTAATGTCAC
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
47 4 0.03
48 142 0.96
49 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (48 bp):
ATCATGGCCCGAAGCCAAATCAATGTAACTCACACCCGAAGTGCTAAT
Found at i:58992537 original size:96 final size:96
Alignment explanation
Indices: 58992373--58992596 Score: 290
Period size: 96 Copynumber: 2.3 Consensus size: 96
58992363 AGGTGCCAAC
* * * *
58992373 ATCATGGCCTAAAGCCAAATCAATAGAGCTCGTACCCGAAGTGACAATATTATGGCCCCAAGCCA
1 ATCATGGCCTAAAGCCAAATCAATATAACTCGCACCCGAAGTGACAATATCATGGCCCCAAGCCA
* *
58992438 AATCAATGTAACTCACACCTGAAGTGCTAAT
66 AATCAATGTAACTCACACCCGAAGTACTAAT
* *
58992469 ATCATGGCCTTAAGCCAAATCAATATAACTCGCACCCGAAGTG-CTAATATCATGGCCCGAA-CC
1 ATCATGGCCTAAAGCCAAATCAATATAACTCGCACCCGAAGTGAC-AATATCATGGCCCCAAGCC
* *
58992532 GAAATCAGTGTAACTTACACCCGAAGTACTAAT
65 -AAATCAATGTAACTCACACCCGAAGTACTAAT
* ** *
58992565 ATCATAGCCCGAAGCCAAATCAATGTAACTCG
1 ATCATGGCCTAAAGCCAAATCAATATAACTCG
58992597 TAATGTCACG
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 3 0.03
96 109 0.97
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (96 bp):
ATCATGGCCTAAAGCCAAATCAATATAACTCGCACCCGAAGTGACAATATCATGGCCCCAAGCCA
AATCAATGTAACTCACACCCGAAGTACTAAT
Found at i:58993826 original size:27 final size:27
Alignment explanation
Indices: 58993791--58994050 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
58993781 TTAGCTTACC
* *
58993791 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
58993818 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
58993845 AAATTACCTAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58993872 AAATTAGCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
58993899 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58993926 AAATTAACAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
58993953 AAATTACCGAAATACCCCCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58993980 AAATTACTAAAATACCTTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
58994007 AAATTACTGAAATACCC-CAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58994033 AAAATACTAAAATACCCT
1 AAATTACCAAAATACCCT
58994051 TGTAGGGTAG
Statistics
Matches: 194, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 23 0.12
27 170 0.88
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:58993926 original size:81 final size:81
Alignment explanation
Indices: 58993791--58994049 Score: 312
Period size: 81 Copynumber: 3.2 Consensus size: 81
58993781 TTAGCTTACC
* *
58993791 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCAAAATACCATTGGTTTGTAAAATTACCTA
1 AAATTACCAAAATACCCCTCGATTTGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CTA
* *
58993855 AATACCCTTGGTTTGTA
65 AATACCCCTGATTTGTA
* * * *
58993872 AAATTAGCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTAACAA
1 AAATTACCAAAATACCCCTCGATTTGCAAAATTACCAAAATACCCTTGGTTTGTAAAATT-ACTA
*
58993936 AATACCCCTGATTTGTG
65 AATACCCCTGATTTGTA
* * *
58993953 AAATTACCGAAATACCCC-CGATTTGCAAAATTACTAAAATA-CCTTCGATTTGTAAAATTACTG
1 AAATTACCAAAATACCCCTCGATTTGCAAAATTACCAAAATACCCTT-GGTTTGTAAAATTACT-
*
58994016 AAATACCCC-AATTTGTA
64 AAATACCCCTGATTTGTA
* *
58994033 AAAATACTAAAATACCC
1 AAATTACCAAAATACCC
58994050 TTGTAGGGTA
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
80 27 0.18
81 119 0.78
82 6 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTCGATTTGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAA
ATACCCCTGATTTGTA
Found at i:58994399 original size:27 final size:27
Alignment explanation
Indices: 58994037--58994416 Score: 336
Period size: 27 Copynumber: 14.1 Consensus size: 27
58994027 TTTGTAAAAA
* *
58994037 TACTAAAATACCCTTGTAGGGTAGAAAT
1 TACTGAAATACCCCTGTAGGGTAG-AAT
* * **
58994065 AAC-GAAATAACCCTGTAATGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * * *
58994091 TACTGAAATA-CCCTATAAGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAT
** * *
58994117 TACCAAAATACCCCTATAGGGTAAAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
58994144 TACTGAAATACCCCTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
58994171 TA-TCGAAATACCCTTGTAGGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAT
* * * *
58994198 TACTGAAATACCCCTATAAGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAT
** *
58994225 TACTGAAATACCCCTGTAATGTACAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * * *
58994252 AACTAAAATACCCCTATAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
** *
58994279 TACCAAAATACTCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
*
58994306 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * *
58994333 TA-TCGAAATACCCTTGTAGGGTAAAAA
1 TACT-GAAATACCCCTGTAGGGTAGAAT
* *
58994360 TACTGAAAAACCCCTGTAGGATAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
* * * * *
58994387 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACTGAAATACCCCTGTAGGGTAGAAT
58994414 TAC
1 TAC
58994417 CATTTTGCCC
Statistics
Matches: 287, Mismatches: 59, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
26 27 0.09
27 256 0.89
28 4 0.01
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAT
Found at i:58994415 original size:81 final size:83
Alignment explanation
Indices: 58994030--58994399 Score: 375
Period size: 81 Copynumber: 4.6 Consensus size: 83
58994020 ACCCCAATTT
* * * *
58994030 GTAAAAATACT-AAAATACCCTTGTAGGGTAGAAATAAC-GAAATAACCCTGTAATGTAGAATTA
1 GTAAAAATACTCAAAATACCCCTGTAGGGTAG-AATTACTGAAATACCCCTGTAAGGTAGAATTA
58994093 -CTGAAATACCC-TATAAG
65 TCTGAAATACCCTTATAAG
* *
58994110 GTAAAAATAC-CAAAATACCCCTATAGGGTAAAATTACTGAAATACCCCTGTAAGGTAGAATTAT
1 GTAAAAATACTCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAT
* *
58994174 C-GAAATACCCTTGTAGG
66 CTGAAATACCCTTATAAG
* * * * * * * * * *
58994191 GTAGAATTACT-GAAATACCCCTATAAGGTAAAAATACTGAAATACCCCTGTAATGTACAA-TAA
1 GTAAAAATACTCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAT
* *
58994254 CTAAAATACCCCTATAAG
66 CTGAAATACCCTTATAAG
* * * * *
58994272 GTAGAATTAC-CAAAATACTCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTAT
1 GTAAAAATACTCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAT
* *
58994336 C-GAAATACCCTTGTAGG
66 CTGAAATACCCTTATAAG
* * * *
58994353 GTAAAAATACTGAAAA-ACCCCTGTAGGATAGAATTACCGAGATACCC
1 GTAAAAATACTCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCC
58994400 TTGTGGGGTA
Statistics
Matches: 238, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
79 5 0.02
80 62 0.26
81 164 0.69
82 7 0.03
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (83 bp):
GTAAAAATACTCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAT
CTGAAATACCCTTATAAG
Found at i:58994555 original size:11 final size:11
Alignment explanation
Indices: 58994539--58994581 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
58994529 ACATGAAAGG
58994539 ACATGATATGC
1 ACATGATATGC
58994550 ACATGATATG-
1 ACATGATATGC
** *
58994560 TTATGATAGGC
1 ACATGATATGC
58994571 ACATGATATGC
1 ACATGATATGC
58994582 TATGATATAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:58994565 original size:21 final size:21
Alignment explanation
Indices: 58994541--58994589 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
58994531 ATGAAAGGAC
*
58994541 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
*
58994562 ATGATAGGCACATGATATGCT
1 ATGATATGCACATGATATGCT
58994583 ATGATAT
1 ATGATAT
58994590 ACTCATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:58994720 original size:24 final size:25
Alignment explanation
Indices: 58994638--58994707 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
58994628 AGGAAGTGCT
* *
58994638 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
58994663 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
58994688 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
58994708 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:58994963 original size:31 final size:29
Alignment explanation
Indices: 58994928--58995010 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
58994918 CGTTTACAGT
* **
58994928 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATG-TTAAACA
*
58994959 AAAGGCTTCAGCCCAGTA-ATAGTTAAACA
1 AAAGGCTTCGGCCCAGTATAT-GTTAAACA
*
58994988 AAAGGTTTCGGCCCAGTATATGT
1 AAAGGCTTCGGCCCAGTATATGT
58995011 CCATACTGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 24 0.55
30 4 0.09
31 16 0.36
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTATATGTTAAACA
Found at i:58996793 original size:27 final size:26
Alignment explanation
Indices: 58996745--58996804 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58996735 GCGAGGCTGC
*
58996745 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
58996772 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
58996798 CAGATAT
1 CAGATAT
58996805 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58999000 original size:124 final size:124
Alignment explanation
Indices: 58998778--58999002 Score: 335
Period size: 124 Copynumber: 1.8 Consensus size: 124
58998768 GAATTATGTG
* * * * * * *
58998778 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
58998843 GCTAAGTCCCGAAGGCGATTATGCTGGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
58998902 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
58998967 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTGGAAATTATAT
58999003 CCGGGTTAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
123 3 0.03
124 86 0.97
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:58999094 original size:39 final size:38
Alignment explanation
Indices: 58999000--58999109 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 38
58998990 CTGGAAATTA
* *
58999000 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGGC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGCGGC
*
58999038 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-CGGC
58999079 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
58999110 ACGTGGTTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 33 0.51
40 27 0.42
41 4 0.06
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGCGGC
Found at i:59004743 original size:24 final size:24
Alignment explanation
Indices: 59004430--59004735 Score: 546
Period size: 24 Copynumber: 12.9 Consensus size: 24
59004420 GCAAAGACCA
59004430 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004454 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004478 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004502 TATGGCAC--TGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004524 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004548 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
59004572 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
59004596 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004620 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
59004644 TATGGCACTATGTGTGCGATT-AC
1 TATGGCACTATGTGTGCGATTCAC
*
59004667 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
**
59004691 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTCAC
*
59004715 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
59004736 TGCTATAGTC
Statistics
Matches: 275, Mismatches: 4, Indels: 6
0.96 0.01 0.02
Matches are distributed among these distances:
22 22 0.08
23 23 0.08
24 230 0.84
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:59010971 original size:29 final size:29
Alignment explanation
Indices: 59010938--59011011 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
59010928 GTGACGAGAT
59010938 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59010967 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59010996 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59011012 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59011027 original size:29 final size:29
Alignment explanation
Indices: 59010995--59011067 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 29
59010985 CTGGAAATAT
* *
59010995 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
59011024 ATGGC-GT--GTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
59011050 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
59011068 AATCGAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
26 19 0.58
27 1 0.03
28 1 0.03
29 12 0.36
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:59018831 original size:29 final size:29
Alignment explanation
Indices: 59018798--59018871 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
59018788 GTGACGAGAT
59018798 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59018827 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59018856 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59018872 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59018887 original size:29 final size:29
Alignment explanation
Indices: 59018855--59018930 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
59018845 CTGGAAATAT
* *
59018855 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
59018884 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
59018913 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
59018931 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:59030271 original size:40 final size:40
Alignment explanation
Indices: 59030202--59030327 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
59030192 AACCCAAGTA
* **
59030202 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59030241 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59030281 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59030321 CCTTCGG
1 CCTTCGG
59030328 ATCTTAGTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.16
40 68 0.84
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59034114 original size:40 final size:40
Alignment explanation
Indices: 59033922--59034107 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
59033912 TCGAATGATG
* * * *
59033922 TCCGGGCTAAGTCCCTAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
59033962 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59034002 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59034042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59034083 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59034108 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59034125 original size:80 final size:80
Alignment explanation
Indices: 59033956--59034125 Score: 204
Period size: 80 Copynumber: 2.1 Consensus size: 80
59033946 GTGCTAAGTG
59033956 ACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
**
59034021 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTT
* ** * * *
59034036 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCG
1 ACTATATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCG
59034098 AAGGCATTTGAACGAG-T
63 AAGGCATTTGAACGAGTT
59034115 AGCTATATCCG
1 A-CTATATCCG
59034126 ATTAAACTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
79 4 0.05
80 71 0.92
81 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
ACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
GCATTTGAACGAGTT
Found at i:59042231 original size:40 final size:40
Alignment explanation
Indices: 59042039--59042224 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
59042029 TCGAATGATG
* * *
59042039 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
59042079 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59042119 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59042159 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59042200 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59042225 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59042231 original size:80 final size:80
Alignment explanation
Indices: 59042039--59042247 Score: 241
Period size: 80 Copynumber: 2.6 Consensus size: 80
59042029 TCGAATGATG
* * **
59042039 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
59042103 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
59042119 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
59042182 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
59042200 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAA
59042248 ACTCCAAAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 13
0.82 0.09 0.10
Matches are distributed among these distances:
79 10 0.09
80 90 0.81
81 11 0.10
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:59049612 original size:40 final size:40
Alignment explanation
Indices: 59049543--59049668 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
59049533 AACCCAAGTA
* **
59049543 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59049582 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59049622 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59049662 CCTTCGG
1 CCTTCGG
59049669 ATCTTAGTCG
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.16
40 68 0.84
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59056125 original size:18 final size:19
Alignment explanation
Indices: 59056085--59056128 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
59056075 TTCATGGCAA
* * *
59056085 TATAAATTCGTTAGATATT
1 TATAAATTCATTAAATATG
59056104 TATAAATT-ATTAAATATG
1 TATAAATTCATTAAATATG
59056122 TATAAAT
1 TATAAAT
59056129 AAGTTGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TATAAATTCATTAAATATG
Found at i:59056414 original size:2 final size:2
Alignment explanation
Indices: 59056407--59056440 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
59056397 TTGTTTTTGG
59056407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59056441 TGTATTATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59059008 original size:11 final size:11
Alignment explanation
Indices: 59058992--59059017 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59058982 CAAAGCCCAC
59058992 ATCACAATAAT
1 ATCACAATAAT
59059003 ATCACAATAAT
1 ATCACAATAAT
59059014 ATCA
1 ATCA
59059018 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:59059655 original size:53 final size:54
Alignment explanation
Indices: 59059522--59059960 Score: 398
Period size: 53 Copynumber: 8.3 Consensus size: 54
59059512 TTACACTATA
* * * * * *
59059522 AGGGTATTTCGATAATTTTATAAAT-TAGGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTTAGTAATTTCACAAATCG
* *
59059576 AGGGTATTTCGGTAATTTTACAAATCGGGGGTGTTTTAGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
* * *
59059630 -GGGTATTTCGATAATTTTACAAATCGAGGATATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
* *
59059682 AGGGTATTTCGGTAATTTTACAAATCGAGGATATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
* * * **
59059735 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
* ** * * ** *
59059789 AGAGTATTTTAGAAATTTCAC-AATCGAGGGTATTTCGGTAATTTTACAAAT--
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
* * * ** * **
59059840 A---TATTTCAGTAATTTCAC-AATTGAGGGTATTTCGGTAATTTTACAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
** * * * * *
59059890 AGGGTATTTCAATAATTTCAC-AATCGAAGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
**
59059943 AGGGTATTTTAGTAATTT
1 AGGGTATTTCGGTAATTT
59059961 CTCTTTATTA
Statistics
Matches: 343, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
48 44 0.13
50 1 0.00
51 1 0.00
52 4 0.01
53 226 0.66
54 67 0.20
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCG
Found at i:59059885 original size:101 final size:102
Alignment explanation
Indices: 59059739--59059940 Score: 300
Period size: 101 Copynumber: 2.0 Consensus size: 102
59059729 CAATTGAGGG
* * * *
59059739 TATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATTAAGAGTATTTTAGA-A
1 TATTTCAGTAATTTCACAAATCAAGGGTATTTCGGTAATTTTACAAATTAAGAGTATTTCA-ATA
*
59059803 ATTTCACAATCGAGGGTATTTCGGTAATTTTACAAATA
65 ATTTCACAATCGAAGGTATTTCGGTAATTTTACAAATA
** *
59059841 TATTTCAGTAATTTCAC-AATTGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTCAATAA
1 TATTTCAGTAATTTCACAAATCAAGGGTATTTCGGTAATTTTACAAATTAAGAGTATTTCAATAA
*
59059905 TTTCACAATCGAAGGTATTTTGGTAATTTTACAAAT
66 TTTCACAATCGAAGGTATTTCGGTAATTTTACAAAT
59059941 TGAGGGTATT
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.01
101 74 0.82
102 15 0.17
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (102 bp):
TATTTCAGTAATTTCACAAATCAAGGGTATTTCGGTAATTTTACAAATTAAGAGTATTTCAATAA
TTTCACAATCGAAGGTATTTCGGTAATTTTACAAATA
Found at i:59059919 original size:27 final size:27
Alignment explanation
Indices: 59059522--59059960 Score: 393
Period size: 27 Copynumber: 16.7 Consensus size: 27
59059512 TTACACTATA
* *
59059522 AGGGTATTTC-GATAATTTTATAAAT-T
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
59059548 AGGGGTGTTTCAGTAATTTTACAAATCG
1 A-GGGTATTTCAGTAATTTTACAAATCG
*
59059576 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
59059603 GGGGTGTTTTAGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
59059630 -GGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * * *
59059656 AGGATATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59059682 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
59059709 AGGATATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
59059735 AGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
** **
59059762 AGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
59059789 AGAGTATTTTAGAAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59059815 AGGGTATTTCGGTAATTTTACAAAT--
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
59059840 A---TATTTCAGTAATTTCAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
59059863 AGGGTATTTCGGTAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
59059890 AGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
59059916 AAGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59059943 AGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
59059961 CTCTTTATTA
Statistics
Matches: 333, Mismatches: 64, Indels: 31
0.78 0.15 0.07
Matches are distributed among these distances:
21 3 0.01
22 15 0.05
23 1 0.00
25 2 0.01
26 117 0.35
27 192 0.58
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:59059958 original size:80 final size:80
Alignment explanation
Indices: 59059524--59059960 Score: 403
Period size: 80 Copynumber: 5.5 Consensus size: 80
59059514 ACACTATAAG
* * * *
59059524 GGTATTTCGATAATTTTATAAATT-AGGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTACAAATTGA-GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGG
**
59059588 TAATTTTACAAATCGGG
65 TAATTTTAC-AATCGAA
* ** * * * * **
59059605 GGTGTTTTAGTAATTTCACAAATCG-GGGTA-TTTCGATAATTTTACAAATCGAGGATATTTTAG
1 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAG-TAATTTTACAAATCGAGGGTATTTCGG
* * *
59059668 TAATTTCACAATTGAG
65 TAATTTTACAATCGAA
* * * *
59059684 GGTATTTCGGTAATTTTACAAATCGAGGATATTTTAGTAATTTCAC-AATTGAGGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
59059748 AATTTTACAAATC-AA
66 AATTTTAC-AATCGAA
* * * * *
59059763 GGGTATTTTGGTAATTTTACAAATTAAGAGTATTTTAGAAATTTCAC-AATCGAGGGTATTTCGG
1 -GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGG
59059827 TAATTTTACAA---ATA
65 TAATTTTACAATCGA-A
* * ** ** **
59059841 --TATTTCAGTAATTTCAC-AATTGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTCAAT
1 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
*
59059903 AATTTCACAATCGAA
66 AATTTTACAATCGAA
*
59059918 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTT
1 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTT
59059961 CTCTTTATTA
Statistics
Matches: 286, Mismatches: 56, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
74 20 0.07
75 37 0.13
77 2 0.01
78 2 0.01
79 67 0.23
80 137 0.48
81 21 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
AATTTTACAATCGAA
Found at i:59060314 original size:28 final size:28
Alignment explanation
Indices: 59060277--59060338 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
59060267 TGGCCCCTTT
** *
59060277 AGGCCCAATCTCATTCACATGGCCTATC
1 AGGCCCAATCAAATTCACATGGCCCATC
*
59060305 AGGCCCAATCAAATTCATATGGCCCATC
1 AGGCCCAATCAAATTCACATGGCCCATC
59060333 AGGCCC
1 AGGCCC
59060339 GACTACTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCAAATTCACATGGCCCATC
Found at i:59062111 original size:9 final size:9
Alignment explanation
Indices: 59062097--59062129 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
59062087 GTTAAACGAA
59062097 TCGAGTTAT
1 TCGAGTTAT
59062106 TCGAGTTAT
1 TCGAGTTAT
59062115 TCGAGTTAT
1 TCGAGTTAT
59062124 TCGAGT
1 TCGAGT
59062130 CAACTCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:59062197 original size:9 final size:9
Alignment explanation
Indices: 59062183--59062225 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
59062173 GTTTTCAAAT
59062183 TCGAATAAC
1 TCGAATAAC
59062192 TCGAATAAC
1 TCGAATAAC
*
59062201 TCGAATAAT
1 TCGAATAAC
*
59062210 TCGAATAAT
1 TCGAATAAC
59062219 TCGAATA
1 TCGAATA
59062226 TCAAACTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:59063493 original size:40 final size:38
Alignment explanation
Indices: 59063430--59063521 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 38
59063420 ATGGTACCAT
*
59063430 TTGGTGTGTAGGGTTGGAGGGGTTGATTTCATCCCCATAC
1 TTGGTGTGTAGGGTAGGAGGGGTTGATTTCAT-CCC-TAC
* *
59063470 TTGGTGTGTAGGGCTAGG-TGGGTTGATTTTATCCCTAC
1 TTGGTGTGTAGGG-TAGGAGGGGTTGATTTCATCCCTAC
* *
59063508 ATGGTGTGTTGGGT
1 TTGGTGTGTAGGGT
59063522 TGGACAGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.02
38 14 0.30
39 3 0.07
40 25 0.54
41 3 0.07
ACGTcount: A:0.13, C:0.12, G:0.37, T:0.38
Consensus pattern (38 bp):
TTGGTGTGTAGGGTAGGAGGGGTTGATTTCATCCCTAC
Found at i:59066109 original size:42 final size:41
Alignment explanation
Indices: 59066062--59066312 Score: 255
Period size: 42 Copynumber: 6.1 Consensus size: 41
59066052 AATGAAAACA
59066062 TTCATTGCATTTAGAGGTCCAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTTCATTTACTT
* *
59066104 TTCATTGCATTTAGAGGCCAAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCC-AGGTGTGGAGGTTCATTTACTT
*
59066146 TTCAATT-CATTTAGAGGCTCAGGTGTGGAGGTTCATTCAC-T
1 TTC-ATTGCATTTAGAGGC-CAGGTGTGGAGGTTCATTTACTT
* * * *
59066187 TTCATTACATTTAGAGACCCAGGTCTGGAGG-TCTATTCACTT
1 TTCATTGCATTTAGAG-GCCAGGTGTGGAGGTTC-ATTTACTT
* *
59066229 TTCATTGCATTTAGAGACCCAGGTGTGGAGG-TCTGTTTAC-T
1 TTCATTGCATTTAGAG-GCCAGGTGTGGAGGTTC-ATTTACTT
* * * *
59066270 TT-ACT-AATTTAGAGGCCGAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCC-AGGTGTGGAGGTTCATTTACTT
59066310 TTC
1 TTC
59066313 TAGTTTACTT
Statistics
Matches: 181, Mismatches: 17, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.01
39 23 0.13
40 11 0.06
41 35 0.19
42 106 0.59
43 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (41 bp):
TTCATTGCATTTAGAGGCCAGGTGTGGAGGTTCATTTACTT
Found at i:59066240 original size:83 final size:84
Alignment explanation
Indices: 59066062--59066312 Score: 273
Period size: 83 Copynumber: 3.0 Consensus size: 84
59066052 AATGAAAACA
* * *
59066062 TTCATTGCATTTAGAGG-TCCAGGTGTGGAGGTTCATTTACTTTTCATTGCATTTAGAGGCCAAG
1 TTCATTGCATTTAGAGGCT-CAGGTGTGGAGGTTCATTCACTTTTCATTACATTTAGAGACCAAG
* *
59066126 GTGTAGAGGTCCATTTACTT
65 GTCTAGAGGTCCATTCACTT
*
59066146 TTCAATT-CATTTAGAGGCTCAGGTGTGGAGGTTCATTCAC-TTTCATTACATTTAGAGACCCAG
1 TTC-ATTGCATTTAGAGGCTCAGGTGTGGAGGTTCATTCACTTTTCATTACATTTAGAGACCAAG
* *
59066209 GTCTGGAGGTCTATTCACTT
65 GTCTAGAGGTCCATTCACTT
* * * * * * *
59066229 TTCATTGCATTTAGAGACCCAGGTGTGGAGG-TCTGTTTAC-TTT-ACTA-ATTTAGAGGCCGAG
1 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTTC-ATTCACTTTTCATTACATTTAGAGACCAAG
* *
59066290 GTGTAGAGGTCCATTTACTT
65 GTCTAGAGGTCCATTCACTT
59066310 TTC
1 TTC
59066313 TAGTTTACTT
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
81 31 0.22
82 8 0.06
83 68 0.47
84 33 0.23
85 4 0.03
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (84 bp):
TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTTCATTCACTTTTCATTACATTTAGAGACCAAGG
TCTAGAGGTCCATTCACTT
Found at i:59066785 original size:18 final size:18
Alignment explanation
Indices: 59066762--59066796 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
59066752 ACTACAAGCA
59066762 TTCTAT-TTTTTTCTTTTC
1 TTCTATCTTTTTT-TTTTC
59066780 TTCTATCTTTTTTTTTT
1 TTCTATCTTTTTTTTTT
59066797 TTTTGCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTATCTTTTTTTTTTC
Found at i:59067376 original size:149 final size:146
Alignment explanation
Indices: 59067045--59067376 Score: 468
Period size: 149 Copynumber: 2.2 Consensus size: 146
59067035 TTTTAAAGGA
* *
59067045 AAGTTTTAATTTTTTTTCAACTATTTCAAAGTAAAAGTTTTAATCTTTAAGAAAAATAGTGTTTT
1 AAGTTTTAATTTTTTTTAAACTATTTCAAA-TAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTT
**** * * *
59067110 TTTTTTAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCCATTTTTTAGTTATTTTAAAGGAAA
65 TTAAAAAAGGAGAAAGTTTAGAGTTTGAAAAATAAAAATCCATTTTTAAGTCATTTTAAAGGAAA
59067175 GTTTAAAATTTTAAAAC
130 GTTTAAAATTTTAAAAC
**
59067192 AAGTTTTAATTTTTTTTTTAAACTACATCAAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTT
1 AAGTTTTAA--TTTTTTTTAAACTATTTC-AAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTT
*
59067257 CTTTTAAAAAAGGAGAAAGTTTAGAGTTTGAAAAATAAAAATCTGATTTTTAAGTCATTTTAAAG
63 -TTTTAAAAAAGGAGAAAGTTTAGAGTTTGAAAAATAAAAATC-CATTTTTAAGTCATTTTAAAG
59067322 GAAAGTTTAAAATTTTAAAAC
126 GAAAGTTTAAAATTTTAAAAC
*
59067343 AAGGTTTTGATTTTTTTT-AACTATTTCGAAATAA
1 AA-GTTTTAATTTTTTTTAAACTATTTC-AAATAA
59067377 TTTTTGATTT
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
147 9 0.06
149 59 0.36
150 48 0.29
151 41 0.25
152 6 0.04
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.42
Consensus pattern (146 bp):
AAGTTTTAATTTTTTTTAAACTATTTCAAATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTTT
TAAAAAAGGAGAAAGTTTAGAGTTTGAAAAATAAAAATCCATTTTTAAGTCATTTTAAAGGAAAG
TTTAAAATTTTAAAAC
Found at i:59067932 original size:25 final size:24
Alignment explanation
Indices: 59067904--59067950 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
59067894 TCACTTGCAT
59067904 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
59067929 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
59067951 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:59068000 original size:11 final size:10
Alignment explanation
Indices: 59067976--59068009 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
59067966 CTTGTATAAA
59067976 TTTTATTTAT
1 TTTTATTTAT
59067986 TTTTATTTAAT
1 TTTTATTT-AT
59067997 TTTTATTTAT
1 TTTTATTTAT
59068007 TTT
1 TTT
59068010 CATGTCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:59071453 original size:68 final size:65
Alignment explanation
Indices: 59071259--59071496 Score: 198
Period size: 68 Copynumber: 3.6 Consensus size: 65
59071249 TCTCCTGTAC
* * * * *
59071259 ACATGGTGTACACATAGTATCACTCATGTGACCTAGCCA-CTTTA-TCTCGTAGCTCTCTTGTTT
1 ACATGGTGTACACATAGTATCACACATGCGACCTAGCTACCTCTATTCTCGTAGCTCTCTTGTCT
* * * * * * * *
59071322 ACATGGTGTCCTTCACTTGGAACCACACATACAACCTAGCTACATCTA-TCTCGTAGCTCTCTTG
1 ACATGGTG---TACACATAGTATCACACATGCGACCTAGCTACCTCTATTCTCGTAGCTCTCTTG
59071386 TCT
63 TCT
*
59071389 ACATGGTGTACACATAGTATCACGCATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTG
1 ACATGGTGTACACATAGTATCACACATGCGACCTAGCTACCTC-T-AT-TCTCGTAGCTCTCTTG
59071454 TAC-
63 T-CT
* ** * *
59071457 ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 ACATGGTGTACA-CATAGTATCACACATGCGACCTAGCTAC
59071497 ATACCATCTG
Statistics
Matches: 137, Mismatches: 28, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
63 8 0.06
64 26 0.19
65 1 0.01
66 22 0.16
67 29 0.21
68 49 0.36
69 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (65 bp):
ACATGGTGTACACATAGTATCACACATGCGACCTAGCTACCTCTATTCTCGTAGCTCTCTTGTCT
Found at i:59108794 original size:39 final size:39
Alignment explanation
Indices: 59108735--59108975 Score: 317
Period size: 39 Copynumber: 6.2 Consensus size: 39
59108725 AAGACACTGA
* *
59108735 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTGG
1 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
59108774 AAATATATCCGAGCTAAAGTCCCGCAGGCTTCATGCTGG
1 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
59108813 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
59108852 AAATGTATCTGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
59108891 AAATGA-ATCCGGGCCAAAGTCCCGCAGGCTTGGTGCTGG
1 AAAT-ATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
59108930 AAATGTATCCGGAAC-AAAGTCCCGCAGGCTTTGTGCT-G
1 AAATATATCCGG-GCTAAAGTCCCGCAGGCTTCGTGCTGG
59108968 ATAATATA
1 A-AATATA
59108976 ATTTCAGGTT
Statistics
Matches: 178, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 175 0.98
40 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:59108941 original size:117 final size:117
Alignment explanation
Indices: 59108735--59108967 Score: 351
Period size: 117 Copynumber: 2.0 Consensus size: 117
59108725 AAGACACTGA
* * *
59108735 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATATATCCGAGCTAAAGTCCCGCA
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGAGCCAAAGTCCCGCA
**
59108800 GGCTTCATGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
66 GGCTTCATGCTGGAAATATATCCGGAACAAAGTCCCGCAGGCTTCGTGCTGG
* *
59108852 AAATGTATCTGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATGA-ATCCGGGCCAAAGTCCCGC
1 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAAT-ATATCCGAGCCAAAGTCCCGC
** * *
59108916 AGGCTTGGTGCTGGAAATGTATCCGGAACAAAGTCCCGCAGGCTTTGTGCTG
65 AGGCTTCATGCTGGAAATATATCCGGAACAAAGTCCCGCAGGCTTCGTGCTG
59108968 ATAATATAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 103 0.99
118 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (117 bp):
AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGAGCCAAAGTCCCGCA
GGCTTCATGCTGGAAATATATCCGGAACAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:59111959 original size:23 final size:22
Alignment explanation
Indices: 59111916--59111959 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
59111906 TATTATGATA
**
59111916 ATTTTACATTTTTACCCTTTAT
1 ATTTTACATTTTTACAATTTAT
*
59111938 ATTTTAACATTTTTATAATTTA
1 ATTTT-ACATTTTTACAATTTA
59111960 GTCTCTAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTACATTTTTACAATTTAT
Found at i:59114455 original size:40 final size:40
Alignment explanation
Indices: 59114369--59114508 Score: 113
Period size: 40 Copynumber: 3.5 Consensus size: 40
59114359 TTCGAATGGT
** * * *
59114369 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGGGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACTAA
*
59114409 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACTA-A
* * * * * * * *
59114450 A-CCGGGCTATGTCCCAAAGACAATCGAGCGAGTCGCTAT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACTAA
* *
59114489 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
59114509 TACGTGATTC
Statistics
Matches: 78, Mismatches: 20, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
39 12 0.15
40 64 0.82
41 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACTAA
Found at i:59124580 original size:40 final size:40
Alignment explanation
Indices: 59124521--59124707 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
59124511 CATTGGAATG
* * * *
59124521 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
59124561 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
59124601 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
59124641 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
59124681 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
59124708 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:59124623 original size:80 final size:80
Alignment explanation
Indices: 59124521--59124674 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
59124511 CATTGGAATG
* * ** *
59124521 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
59124586 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
59124601 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
59124666 ATCGTGCGA
66 ATCGTGCGA
59124675 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:59124689 original size:80 final size:80
Alignment explanation
Indices: 59124525--59124707 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
59124515 GGAATGATAT
* ** * *
59124525 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
59124590 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
59124605 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
59124670 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
59124685 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
59124708 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:59124727 original size:80 final size:80
Alignment explanation
Indices: 59124525--59124732 Score: 177
Period size: 80 Copynumber: 2.6 Consensus size: 80
59124515 GGAATGATAT
* * * * * * * *
59124525 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
59124589 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
59124605 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
59124670 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
59124685 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAA
59124733 ATCTTGAAGG
Statistics
Matches: 100, Mismatches: 27, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
79 6 0.06
80 94 0.94
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:59127257 original size:28 final size:28
Alignment explanation
Indices: 59127211--59127279 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
59127201 TTTAAAACCC
*
59127211 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
59127238 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
59127266 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
59127280 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:59128932 original size:20 final size:20
Alignment explanation
Indices: 59128909--59128946 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59128899 CACATCCAAA
*
59128909 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
59128929 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
59128947 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:59135229 original size:28 final size:28
Alignment explanation
Indices: 59135183--59135251 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
59135173 TTTAAAACCC
*
59135183 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
59135210 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
59135238 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
59135252 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:59137526 original size:17 final size:17
Alignment explanation
Indices: 59137492--59137524 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59137482 CTTATTTTAT
*
59137492 TAGATAGATATACCAAA
1 TAGATAGAGATACCAAA
59137509 TAGATAGAGA-ACCAAA
1 TAGATAGAGATACCAAA
59137525 ATTAGGGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TAGATAGAGATACCAAA
Found at i:59143098 original size:55 final size:55
Alignment explanation
Indices: 59143037--59143143 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
59143027 TGCGATATGG
* * *
59143037 CCGTGGTCGAGCCTACCAAAACAACATGGGTGTGCGACACGCCCGTTTGGAAGAA
1 CCGTGGTCGAGCCTACCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAA
* * *
59143092 CCGTGGTCGAGCCTGCCAAAACAGCACGGGCGTTCGACACGCCCGTGTGGAA
1 CCGTGGTCGAGCCTACCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAA
59143144 CACCTATGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.24, C:0.30, G:0.31, T:0.15
Consensus pattern (55 bp):
CCGTGGTCGAGCCTACCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAA
Found at i:59143154 original size:55 final size:55
Alignment explanation
Indices: 59143040--59143161 Score: 147
Period size: 55 Copynumber: 2.2 Consensus size: 55
59143030 GATATGGCCG
* * * *
59143040 TGGTCGAGCCTACCAAAACAACATGGGTGTGCGACACGCCCGTTTGGAAGAACCG
1 TGGTCGAGCCTACCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAACCA
* * * *
59143095 TGGTCGAGCCTGCCAAAACAGCACGGGCGTTCGACACGCCCGTGTGGAA-CACCTA
1 TGGTCGAGCCTACCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAACC-A
*
59143150 TGGTCGAACCTA
1 TGGTCGAGCCTA
59143162 TTAAATTAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 3 0.05
55 53 0.95
ACGTcount: A:0.25, C:0.30, G:0.29, T:0.16
Consensus pattern (55 bp):
TGGTCGAGCCTACCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAACCA
Found at i:59148231 original size:49 final size:48
Alignment explanation
Indices: 59148174--59148349 Score: 203
Period size: 49 Copynumber: 3.6 Consensus size: 48
59148164 TATACAAGCT
* * * *
59148174 AGTGTAAGACCTGTCTGTGACATGGCATCGACAC-CGATAGATGAGAGTC
1 AGTGTAAGACCTGTCTGGGACACGGCATCGAC-CTCGATA-ATAAAAGTC
* *
59148223 ACTGTAAGACCTGTCTGGGACACGGCATCGACCTCGAT-ATAAAAGTT
1 AGTGTAAGACCTGTCTGGGACACGGCATCGACCTCGATAATAAAAGTC
* * *
59148270 AGTGTAATACCTGTCTGGGATACGGCATCGACCTCAATATATAAAAGTC
1 AGTGTAAGACCTGTCTGGGACACGGCATCGACCTCGATA-ATAAAAGTC
* * *
59148319 AGTGTAAGACCTGTTTGGGACATGACATCGA
1 AGTGTAAGACCTGTCTGGGACACGGCATCGA
59148350 ATTTAATGTG
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
47 40 0.37
48 1 0.01
49 67 0.62
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACACGGCATCGACCTCGATAATAAAAGTC
Found at i:59148297 original size:96 final size:96
Alignment explanation
Indices: 59148162--59148349 Score: 234
Period size: 96 Copynumber: 2.0 Consensus size: 96
59148152 TCAGCCTCGA
* * * * * *
59148162 GATATACAAGCTAGTGTAAGACCTGTCTGTGACATGGCATCGACAC-CGATAGATGAGAGTCACT
1 GATATAAAAGCTAGTGTAAGACCTGTCTGGGACACGGCATCGAC-CTCAATAGATAAAAGTCACT
*
59148226 GTAAGACCTGTCTGGGACACGGCATCGACCTC
65 GTAAGACCTGTCTGGGACACGACATCGACCTC
* * * * *
59148258 GATATAAAAGTTAGTGTAATACCTGTCTGGGATACGGCATCGACCTCAATATATAAAAGTCAGTG
1 GATATAAAAGCTAGTGTAAGACCTGTCTGGGACACGGCATCGACCTCAATAGATAAAAGTCACTG
* *
59148323 TAAGACCTGTTTGGGACATGACATCGA
66 TAAGACCTGTCTGGGACACGACATCGA
59148350 ATTTAATGTG
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 1 0.01
96 76 0.99
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (96 bp):
GATATAAAAGCTAGTGTAAGACCTGTCTGGGACACGGCATCGACCTCAATAGATAAAAGTCACTG
TAAGACCTGTCTGGGACACGACATCGACCTC
Found at i:59153793 original size:31 final size:31
Alignment explanation
Indices: 59153755--59153813 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
59153745 AGCGAGAAAA
59153755 CATAATATACGATGAAAGTATCTATGAAATC
1 CATAATATACGATGAAAGTATCTATGAAATC
59153786 CATAATATACGATGAAAGTATCTATGAA
1 CATAATATACGATGAAAGTATCTATGAA
59153814 GTCCCTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (31 bp):
CATAATATACGATGAAAGTATCTATGAAATC
Found at i:59165201 original size:96 final size:96
Alignment explanation
Indices: 59165063--59165238 Score: 210
Period size: 96 Copynumber: 1.8 Consensus size: 96
59165053 CATATCGGTG
* * *
59165063 CCGATGCCATTTCCAAGACATGATCTTACACTAGAACACATAT-TATCGCCGATGCCATGTCCCA
1 CCGATGCCATGTCCAAGACATGATCTTACACTAGAACACATATCGAT-ACCGATGCCATGTCCCA
**
59165127 AACATGGTCTTACACTGGCACAAATATCAACA
65 AACACAGTCTTACACTGGCACAAATATCAACA
* * * * ** *
59165159 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATCGGATACCGATGCCATGTCCCA
1 CCGATGCCATGTCCAAGACATGATCTTACACTAGAACACATATC-GATACCGATGCCATGTCCCA
*
59165224 GACACAGTCTTACAC
65 AACACAGTCTTACAC
59165239 GGGATCTCAT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
96 35 0.54
97 28 0.43
98 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (96 bp):
CCGATGCCATGTCCAAGACATGATCTTACACTAGAACACATATCGATACCGATGCCATGTCCCAA
ACACAGTCTTACACTGGCACAAATATCAACA
Found at i:59165234 original size:49 final size:48
Alignment explanation
Indices: 59165063--59165238 Score: 181
Period size: 48 Copynumber: 3.6 Consensus size: 48
59165053 CATATCGGTG
* * * * * * * * *
59165063 CCGATGCCATTTCCAAGACATGATCTTACACTAGAACACATATTATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAAATATCAACA
*
59165111 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACAAATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAAATATCAACA
* * ** * *
59165159 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATCGGATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAAATATC-AACA
**
59165208 CCGATGCCATGTCCCAGACACAGTCTTACAC
1 CCGATGCCATGTCCCAGACATGGTCTTACAC
59165239 GGGATCTCAT
Statistics
Matches: 107, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
48 77 0.72
49 30 0.28
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAAATATCAACA
Found at i:59168617 original size:31 final size:31
Alignment explanation
Indices: 59168582--59168645 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59168572 CCTTTTCATG
59168582 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* ***
59168613 TTTCATATTTCATATTTCTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
59168644 TT
1 TT
59168646 ACTGTAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:59168912 original size:47 final size:46
Alignment explanation
Indices: 59168858--59169024 Score: 280
Period size: 47 Copynumber: 3.6 Consensus size: 46
59168848 CCTAGCCTCT
*
59168858 TTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTT-AATAACTGGGGCATAAGCCC
*
59168905 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
*
59168952 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
59168999 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
59169025 TGCACTTCCT
Statistics
Matches: 113, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
46 25 0.22
47 63 0.56
48 25 0.22
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:59168915 original size:23 final size:23
Alignment explanation
Indices: 59168858--59169024 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
59168848 CCTAGCCTCT
*
59168858 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
59168881 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
59168905 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
59168928 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
59168952 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
59168976 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
59168999 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
59169022 TTT
1 TTT
59169025 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:59168937 original size:71 final size:71
Alignment explanation
Indices: 59168837--59169024 Score: 299
Period size: 71 Copynumber: 2.6 Consensus size: 71
59168827 GCTTTATCAT
* *
59168837 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
59168901 GCCCTTTA
64 GCCCTTTA
* **
59168909 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGC
59168974 CCTTTA
66 CCTTTA
59168980 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
59169025 TGCACTTCCT
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
70 25 0.23
71 72 0.66
72 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGC
CCTTTA
Found at i:59169101 original size:20 final size:20
Alignment explanation
Indices: 59169076--59169135 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
59169066 TATGATTACC
59169076 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
59169096 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
59169116 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
59169136 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:59169210 original size:25 final size:25
Alignment explanation
Indices: 59169178--59169225 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59169168 ATACATAAAC
* * *
59169178 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59169203 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59169226 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:59173299 original size:20 final size:21
Alignment explanation
Indices: 59173276--59173335 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
59173266 AAGGATAGGA
59173276 AAAAGAAAAAGAAAAGGA-AG
1 AAAAGAAAAAGAAAAGGAGAG
* *
59173296 AAAAG-AAAAGAAAATGAGGG
1 AAAAGAAAAAGAAAAGGAGAG
* *
59173316 AAATGAAAAAGAAAAAGAGA
1 AAAAGAAAAAGAAAAGGAGA
59173336 TAGAAGAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 11 0.33
20 10 0.30
21 12 0.36
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAGGAGAG
Found at i:59174386 original size:2 final size:2
Alignment explanation
Indices: 59174381--59174410 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59174371 AAAATATGAG
59174381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59174411 TTCTTGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59185820 original size:23 final size:23
Alignment explanation
Indices: 59185794--59185837 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
59185784 CACAAAAATA
* *
59185794 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
59185817 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
59185838 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:59188228 original size:50 final size:50
Alignment explanation
Indices: 59188162--59188319 Score: 221
Period size: 50 Copynumber: 3.2 Consensus size: 50
59188152 GATGTACAAG
*
59188162 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAGAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
59188212 ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG--
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
** ** *
59188260 CCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
59188310 GTGTATATAT
1 ATATATATAT
59188320 ATTGTGGCCG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
48 42 0.45
50 51 0.55
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.32
Consensus pattern (50 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:59188289 original size:48 final size:49
Alignment explanation
Indices: 59188168--59188308 Score: 203
Period size: 48 Copynumber: 2.9 Consensus size: 49
59188158 CAAGATATAT
* * *
59188168 ATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAGATATATAT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ACATAC
* * *
59188218 ATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG-CCATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAACATAC
*
59188266 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
59188309 TGTGTATATA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
48 42 0.51
50 40 0.49
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (49 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAACATAC
Found at i:59190014 original size:39 final size:40
Alignment explanation
Indices: 59189931--59190015 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
59189921 AGTATGTTAT
* ***
59189931 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGAAAA
*
59189971 ATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT-TTGACAAA
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGA-AAA
59190010 ATCCGG
1 ATCCGG
59190016 ACTTGAGGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 3 0.08
39 17 0.44
40 19 0.49
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGAAAA
Found at i:59190795 original size:12 final size:12
Alignment explanation
Indices: 59190778--59190803 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59190768 TGAGAGAACG
59190778 ATATCTGAACTT
1 ATATCTGAACTT
59190790 ATATCTGAACTT
1 ATATCTGAACTT
59190802 AT
1 AT
59190804 TCATTAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATCTGAACTT
Found at i:59190945 original size:23 final size:23
Alignment explanation
Indices: 59190919--59190962 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
59190909 CACAAAAATA
* *
59190919 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
59190942 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
59190963 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:59193350 original size:48 final size:48
Alignment explanation
Indices: 59193286--59193433 Score: 233
Period size: 48 Copynumber: 3.1 Consensus size: 48
59193276 TTGATGTACA
*
59193286 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
59193334 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** * *
59193382 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATT
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
59193430 AGAT
1 AGAT
59193434 GTGTATATAT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:59196466 original size:39 final size:40
Alignment explanation
Indices: 59196405--59196617 Score: 271
Period size: 39 Copynumber: 5.5 Consensus size: 40
59196395 AAGCCAAGTA
* * *
59196405 CCTTCGGGATTTA-ACCGGATATAGCT-ACTC-CTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
59196443 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
59196483 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
59196522 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
59196561 -CTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
59196600 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59196618 TTATCATCCA
Statistics
Matches: 160, Mismatches: 8, Indels: 13
0.88 0.04 0.07
Matches are distributed among these distances:
38 46 0.29
39 69 0.43
40 45 0.28
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:59204675 original size:39 final size:40
Alignment explanation
Indices: 59204519--59204695 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
59204509 AAGCCAAGTA
* * * *
59204519 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59204558 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59204598 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59204638 CCTTC-GGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59204677 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59204696 TTATCATCCA
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 46 0.37
40 78 0.62
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59204681 original size:79 final size:80
Alignment explanation
Indices: 59204519--59204695 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 80
59204509 AAGCCAAGTA
* * * *
59204519 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
* *
59204583 TAACTCGCACGAATG
66 TAACTAGCACAAATG
*
59204598 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGA-ACT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-T
* *
59204660 AGTCACTAGCGCAAATG
64 AGTAACTAGCACAAATG
59204677 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59204696 TTATCATCCA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.69
80 26 0.30
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:59211096 original size:40 final size:40
Alignment explanation
Indices: 59211052--59211161 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
59211042 TTCACAATTT
* *
59211052 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
59211092 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
59211132 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
59211162 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:59213236 original size:24 final size:24
Alignment explanation
Indices: 59213189--59213238 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59213179 TCATATTTGA
59213189 AAGTTGGCTAATTATATTATATGG
1 AAGTTGGCTAATTATATTATATGG
59213213 AAGTTGGCTAATTATATTATATGG
1 AAGTTGGCTAATTATATTATATGG
59213237 AA
1 AA
59213239 TTACTGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (24 bp):
AAGTTGGCTAATTATATTATATGG
Found at i:59224647 original size:42 final size:43
Alignment explanation
Indices: 59224599--59224704 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 43
59224589 TATGTCTTAT
* * *
59224599 CGTGTAAGACCACGTCTGGGACATTGGCATCG-TATTAGATTT
1 CGTGTAAGACCACGTCTAGGACAGTGGCATCGATATTAGATTA
* *
59224641 TGTGTAAGACC-CTGTCTAGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGACAGTGGCATCGATATTAGATTA
* *
59224684 CATGTAAGACCAAGTCTAGGA
1 CGTGTAAGACCACGTCTAGGA
59224705 TGTTGGTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.51
43 25 0.47
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACAGTGGCATCGATATTAGATTA
Found at i:59229662 original size:277 final size:277
Alignment explanation
Indices: 59229164--59229662 Score: 749
Period size: 277 Copynumber: 1.8 Consensus size: 277
59229154 GCGGGAACTC
* * *
59229164 TTTGGGAGACTGCACTGGAGAAGATGGCCTAAGTCATGAGACTTAGACTGGATAAGGTTGGTAAC
1 TTTGGGAGACTGCACTGCAGAAGATCGCCTAAATCATGAGACTTAGACTGGATAAGGTTGGTAAC
* * * *
59229229 TTCGTGGCAAAGTACTTCGTTGAACTTCATCTATACTATGAAGTTCCACTTCGCGGGGTGACAAT
66 TTCATGGCAAAGTACTTCGTTCAACTTCATCTATACTATGAACTTCCACTTCGCAGGGTGACAAT
* * **
59229294 TTGTTGGTTGTAGAGAGTGACCGCCTATAAACATGTTTCTGTTTATAATTAAATCTCACACTAAA
131 TTCTTGGTTGTAGAGAGTGACCGCCTATAAACATGTTACCATTTATAATTAAATCTCACACTAAA
59229359 TATAAATTAAATTAAATCCATGGTGTCCTTAAATTCATTCCACTATAATATTGTCATACCCTCTT
196 TATAAATTAAATTAAATCCATGGTGTCCTTAAATTCATTCCACTATAATATTGTCATACCCTCTT
59229424 TTGGCGAGCTAGTACTA
261 TTGGCGAGCTAGTACTA
* *
59229441 TTTGGGAGACTGCACTGTCA-AAGATCGCCTAAATCGTGAGACTTAGA-TGGGATAAGGTTGTTA
1 TTTGGGAGACTGCACTG-CAGAAGATCGCCTAAATCATGAGACTTAGACT-GGATAAGGTTGGTA
* *
59229504 ACTTCATGGCAAAGTACTTCGTTCAACTTCGTTTATA-T-TGCAAACTTCCACTTCGCAGGGTGA
64 ACTTCATGGCAAAGTACTTCGTTCAACTTCATCTATACTATG--AACTTCCACTTCGCAGGGTGA
*
59229567 CAATTTCTTTGTTGT-GAAGAGTGACCGCCTATAAACATGTTACCATTTATAATTAAATCTCACA
127 CAATTTCTTGGTTGTAG-AGAGTGACCGCCTATAAACATGTTACCATTTATAATTAAATCTCACA
*
59229631 TTAAATATAAATTAAATTAAAT-CAGTGGTGTC
191 CTAAATATAAATTAAATTAAATCCA-TGGTGTC
59229663 TGTAATTGTC
Statistics
Matches: 199, Mismatches: 17, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
275 2 0.01
276 5 0.03
277 191 0.96
278 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (277 bp):
TTTGGGAGACTGCACTGCAGAAGATCGCCTAAATCATGAGACTTAGACTGGATAAGGTTGGTAAC
TTCATGGCAAAGTACTTCGTTCAACTTCATCTATACTATGAACTTCCACTTCGCAGGGTGACAAT
TTCTTGGTTGTAGAGAGTGACCGCCTATAAACATGTTACCATTTATAATTAAATCTCACACTAAA
TATAAATTAAATTAAATCCATGGTGTCCTTAAATTCATTCCACTATAATATTGTCATACCCTCTT
TTGGCGAGCTAGTACTA
Found at i:59235589 original size:40 final size:38
Alignment explanation
Indices: 59235499--59235605 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 38
59235489 ATCACGATTT
*
59235499 GCACAAATGCCTTCGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGTCTTAGCCCGGATAGAATGACTA
*
59235538 GCACGAATGCCTTCAGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTC-GGTCTTAGCCCGGATAGAATG--ACTA
*
59235578 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTC-GGTCTTAGCCCGG
59235606 TTATAATTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 1 0.02
39 17 0.29
40 41 0.69
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGTCTTAGCCCGGATAGAATGACTA
Found at i:59247520 original size:15 final size:15
Alignment explanation
Indices: 59247500--59247544 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
59247490 ATATCATTAT
59247500 AATTTA-ATTATCATA
1 AATTTATATTAT-ATA
59247515 AATTTATATTATATA
1 AATTTATATTATATA
59247530 AA-TTATATTTATATA
1 AATTTATA-TTATATA
59247545 TCATTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTATATTATATA
Found at i:59247529 original size:29 final size:27
Alignment explanation
Indices: 59247497--59247564 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
59247487 ATAATATCAT
59247497 TATAATTTAATTATCATAAAT-TTATATTA
1 TATAATTTAATT-T-ATAAATATTA-ATTA
* *
59247526 TATAAATTATATTTATATATCATTAATTA
1 TATAATTTA-ATTTATAAAT-ATTAATTA
59247555 TATAATTTAA
1 TATAATTTAA
59247565 AACAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 21 0.64
30 6 0.18
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
TATAATTTAATTTATAAATATTAATTA
Found at i:59247537 original size:14 final size:13
Alignment explanation
Indices: 59247497--59247564 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 13
59247487 ATAATATCAT
*
59247497 TATAATTTAATTA
1 TATAAATTAATTA
59247510 TCATAAATTTATATTA
1 T-ATAAA-TTA-ATTA
59247526 TATAAATTATATTTA
1 TATAAATTA-A-TTA
*
59247541 TATATCATTAATTA
1 TATA-AATTAATTA
*
59247555 TATAATTTAA
1 TATAAATTAA
59247565 AACAAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
13 5 0.11
14 16 0.35
15 16 0.35
16 9 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
TATAAATTAATTA
Found at i:59247541 original size:20 final size:20
Alignment explanation
Indices: 59247516--59247557 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59247506 ATTATCATAA
59247516 ATTTATATTAT-ATAAATTAT
1 ATTTATA-TATCATAAATTAT
*
59247536 ATTTATATATCATTAATTAT
1 ATTTATATATCATAAATTAT
59247556 AT
1 AT
59247558 AATTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATATATCATAAATTAT
Found at i:59253608 original size:46 final size:42
Alignment explanation
Indices: 59253541--59253662 Score: 140
Period size: 42 Copynumber: 2.8 Consensus size: 42
59253531 TATGTGTTAT
* * *
59253541 TGTGTAA-ATCCACGTCTGGGACGTTGGCATCGACTTATGCTTTAC
1 TGTGTAAGA-CCATGTCTGGGACATTGGCATCGA-TT-TGATTT-C
59253586 GTGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTC
1 -TGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTC
*
59253630 -GTGTAAGACCCTGTCTGGGACATTGGCATCGAT
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGAT
59253663 GTTTGATTAC
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
41 2 0.03
42 30 0.43
44 1 0.01
45 5 0.07
46 30 0.43
47 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTC
Found at i:59253647 original size:42 final size:43
Alignment explanation
Indices: 59253588--59253683 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 43
59253578 TGCTTTACGT
*
59253588 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTAC
* *
59253630 GTGTAAGACCCTGTCTGGGACATTGGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTAC
*
59253673 ATGTAAGACCA
1 GTGTAAGACCA
59253684 CATCTAGGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTAC
Found at i:59255558 original size:49 final size:49
Alignment explanation
Indices: 59255505--59255678 Score: 253
Period size: 49 Copynumber: 3.5 Consensus size: 49
59255495 CTGGTACGCA
59255505 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * *
59255554 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGGATACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGG-TACACG
59255605 TAGTAGCCTGCA-TTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
59255653 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59255679 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
48 19 0.17
49 48 0.44
50 22 0.20
51 20 0.18
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Done.