Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 323 of 362
Found at i:108055345 original size:12 final size:12
Alignment explanation
Indices: 108055328--108055357 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
108055318 CGACTACTTG
*
108055328 ATATATATACAT
1 ATATATATAAAT
108055340 ATATATATAAAT
1 ATATATATAAAT
108055352 ATATAT
1 ATATAT
108055358 TTGATGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATATAAAT
Found at i:108077201 original size:39 final size:39
Alignment explanation
Indices: 108077052--108077236 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 39
108077042 TTGAATGATG
* *
108077052 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
108077091 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAA
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAT
*
108077132 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAT
108077172 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGA-TACTAAT
* *
108077210 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
108077237 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
38 5 0.04
39 29 0.23
40 80 0.62
41 13 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:108079212 original size:12 final size:12
Alignment explanation
Indices: 108079195--108079228 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
108079185 GTTGATTTTG
108079195 AATTAAAACAGA
1 AATTAAAACAGA
*
108079207 AATTAAAATAGA
1 AATTAAAACAGA
*
108079219 AATGAAAACA
1 AATTAAAACA
108079229 CCTCAGCGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (12 bp):
AATTAAAACAGA
Found at i:108079574 original size:69 final size:69
Alignment explanation
Indices: 108079345--108079591 Score: 318
Period size: 69 Copynumber: 3.5 Consensus size: 69
108079335 CGGTGGCCGA
*
108079345 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAGAAAAAATTGAAAATACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAA-AAAAAATTGAAAATACCTCAGCGT-
* *
108079410 GTCCGAGG
63 CT-TGAGG
* * *
108079418 CTCAACTCACCTCTCGCAATATGAGTTTGATTTTTTGAAAATAGAATTGAAAATACCTCACGTGT
1 CTCAACTCACCTCTCGCAATATGAG-TTGA-TTTTTGAAAAAAAAATTGAAAATACCTCA-GCGT
*
108079483 CCTGAGG
63 CTTGAGG
* *
108079490 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAAAATTGAAATTACCTCAGCGTCT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAAAAAATTGAAAATACCTCAGCGTCT
108079554 TGAGG
65 TGAGG
*
108079559 CTCAACTCACTTCTCGCAATATGAG-TGATTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
108079592 TTGAACATAA
Statistics
Matches: 156, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
68 3 0.02
69 43 0.28
70 19 0.12
71 4 0.03
72 29 0.19
73 43 0.28
74 10 0.06
75 5 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (69 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAATTGAAAATACCTCAGCGTCTT
GAGG
Found at i:108079604 original size:69 final size:70
Alignment explanation
Indices: 108079345--108079609 Score: 311
Period size: 73 Copynumber: 3.7 Consensus size: 70
108079335 CGGTGGCCGA
* *
108079345 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAGAAAAAATTGAAAATACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTATAAA-AATAAATTGAAAATACCTCAGCGT-
* *
108079410 GTCCGAGG
64 CT-TGAGG
* *
108079418 CTCAACTCACCTCTCGCAATATGAGTTTGATTTTT-TGAAAATAGAATTGAAAATACCTCACGTG
1 CTCAACTCACCTCTCGCAATATGAG-TTGATTTTTATAAAAATA-AATTGAAAATACCTCA-GCG
*
108079482 TCCTGAGG
63 TCTTGAGG
* * * *
108079490 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACA-AAATTGAAATTACCTCAGCGTCT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTATAAAAATAAATTGAAAATACCTCAGCGTCT
108079554 TGAGG
66 TGAGG
* * * * *
108079559 CTCAACTCACTTCTCGCAATATGAG-TGATTTTTTTGAACATAAATTAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTATAAAAATAAATTGAAAA
108079610 AACGAAAATT
Statistics
Matches: 166, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
68 11 0.07
69 41 0.25
70 15 0.09
71 9 0.05
72 35 0.21
73 43 0.26
74 12 0.07
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (70 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTATAAAAATAAATTGAAAATACCTCAGCGTCT
TGAGG
Found at i:108079760 original size:152 final size:151
Alignment explanation
Indices: 108079462--108079747 Score: 429
Period size: 152 Copynumber: 1.9 Consensus size: 151
108079452 TTGAAAATAG
*
108079462 AATTGAAAATACCTCACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACA
1 AATTGAAAATACCTCACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTGACA
** *
108079527 AACAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTGATTTTT
66 AACAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTGA---TT
*
108079592 TTGAACATAAATTAAAAAAACGAA
128 TTGAAAATAAATTAAAAAAACGAA
108079616 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATT-A-
1 AATTGAAAATACCTCA-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTGAC
*
108079678 AAACAAAATTGAAA-TACCTCAGCGTGCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-T
65 AAACAAAATTGAAATTACCTCAGCGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATT
108079741 TTGAAAA
128 TTGAAAA
108079748 GTAGAAATTA
Statistics
Matches: 123, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
149 7 0.06
151 11 0.09
152 42 0.34
153 4 0.03
154 18 0.15
155 41 0.33
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (151 bp):
AATTGAAAATACCTCACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTGACA
AACAAAATTGAAATTACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTG
AAAATAAATTAAAAAAACGAA
Found at i:108079906 original size:125 final size:119
Alignment explanation
Indices: 108079641--108079982 Score: 408
Period size: 125 Copynumber: 2.8 Consensus size: 119
108079631 AGCGTGTCCT
* *
108079641 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTAAAACA-AAATTGAAATACCTCAGCGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAGAAATTGAAATACCTCAGTGT
* * *
108079703 GCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTGAAAAGTAGAAATTAAAA
66 G-CCGAGGCTCAACTCACCTCTCGCAATATGA---GATTTGAAAAATACAAATTAAAA
*
108079761 GAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATACCTCAGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-A-AAACAGAAATTGAAATACCTCAGT
* **
108079826 GT-CCTGAGGCTCAACTCACCTCTCGCAATATGA-A-TTGAAAAATACCACAGTGTTAATCT
64 GTGCC-GAGGCTCAACTCACCTCTCGCAATATGAGATTTGAAAAATA-CA-A--ATTAA-AA
108079885 GAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACAGAAATTGAAAATACCTCAG
1 G-AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAACAGAAATTG-AAATACCTCAG
108079950 CATGTGCCGAGGCTCAACTCACCTCTCGCAATA
63 --TGTGCCGAGGCTCAACTCACCTCTCGCAATA
108079983 GTTGATTTTT
Statistics
Matches: 195, Mismatches: 10, Indels: 27
0.84 0.04 0.12
Matches are distributed among these distances:
119 9 0.05
120 34 0.17
121 1 0.01
122 2 0.01
123 7 0.04
124 45 0.23
125 62 0.32
126 5 0.03
127 28 0.14
128 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (119 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAGAAATTGAAATACCTCAGTGT
GCCGAGGCTCAACTCACCTCTCGCAATATGAGATTTGAAAAATACAAATTAAAA
Found at i:108080019 original size:125 final size:118
Alignment explanation
Indices: 108079644--108080150 Score: 389
Period size: 125 Copynumber: 4.0 Consensus size: 118
108079634 GTGTCCTGAG
* *
108079644 GCTCAACTCACCTCTCGCAATATGAGTTGA-ATT-AAAACA-AAATTGAAATACCTCAGCGTGCC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGC-TGTC
* ** * * * *
108079706 CGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTGAAAAGTAGAAATTAAAAGA
65 CGAGGCTCAACTCACCTCTCGCAATATGATTTTATTT-ACAA-CAGAAATTGAAA-A
*
108079763 GGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATACCTCAG-TG
1 -GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGA-AAACAGAAATTGAAATACCTCAGCTG
** ** * * *
108079827 TCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAAAATACCACAGTGTTAATCTG-AAG
63 TCC-GAGGCTCAACTCACCTCTCGCAATATG-ATT-TTATTTACAACA--G-AAAT-TGAAAA
*
108079889 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACAGAAATTGAAAATACCTCAGCATG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTG-AAATACCTCAGC-TG
*
108079954 TGCCGAGGCTCAACTCACCTCTCGCAATAGTTGATTTTTTTTGA-AACAGAAATTGAAATA
63 T-CCGAGGCTCAACTCACCTCTCGCAATA--TGATTTTATTT-ACAACAGAAATTGAAA-A
*
108080014 CCTCAACGTGTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAG-AATTGAAA
1 GCTC-A-------A--CTC-AC-C--TCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAA
* *
108080078 TTACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACAACAGAA
52 -TACCTCAGC-TGTCCGAGGCTCAACTCACCTCTCGCAATATGA--T--TTTATTTACAACAGAA
108080143 ATTGAAAA
111 ATTGAAAA
108080151 ACAGAAATTT
Statistics
Matches: 316, Mismatches: 30, Indels: 65
0.77 0.07 0.16
Matches are distributed among these distances:
120 29 0.09
122 2 0.01
123 7 0.02
124 49 0.16
125 70 0.22
126 4 0.01
127 37 0.12
128 7 0.02
129 2 0.01
133 1 0.00
134 3 0.01
135 3 0.01
136 32 0.10
137 20 0.06
138 32 0.10
139 18 0.06
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (118 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATACCTCAGCTGTCC
GAGGCTCAACTCACCTCTCGCAATATGATTTTATTTACAACAGAAATTGAAAA
Found at i:108080056 original size:70 final size:73
Alignment explanation
Indices: 108079882--108080500 Score: 536
Period size: 71 Copynumber: 8.5 Consensus size: 73
108079872 ACAGTGTTAA
*
108079882 TCTGAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-AAAACAGAAATTGAAAATAC
1 TCTG-AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTAC
* *
108079945 CTCAGCATG
65 CTCAACGTG
*
108079954 TGCCGAGGCTCAACTCACCTCTCGC-A-AT-AGTTGATTTTTTTTG-AAACAGAAATTGAAA-TA
1 T-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAATTA
108080014 CCTCAACGTG
64 CCTCAACGTG
*
108080024 T-TGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA---TTTTGAAAACAG-AATTGAAATTACC
1 TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACC
*
108080083 TCAGCGTG
66 TCAACGTG
* * *
108080091 TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-ACAACAGAAATTGAAA-AACA
1 TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACC
** **
108080154 GAAATTTG
66 TCAACGTG
*** * * * *** * *
108080162 -AAAAGACCTCAGCTTGAGCC-GAGGCAACTCACCTCTCGCAATATGAGTTAATTTTGACAAACA
1 TCTGAG-GCTCAAC-TCA-CCTCTCGCAA-T-A----T-G-AGT-TGA-TT-TTTTTGA-AAACA
*
108080225 GAAATTGAAATTACCTCAGCGTG
51 GAAATTGAAATTACCTCAACGTG
* *
108080248 TCCGAGGCTCAACTCACCTCTCGCAATAT-AGTTGATTTTTTTTGAAAACAGAAATTGAAAATAC
1 TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAATTAC
*
108080312 CTCAAGGT-
65 CTCAACGTG
*
108080320 TCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAATTAC
1 TC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTAC
*
108080381 CTCAGCGTG
65 CTCAACGTG
** *
108080390 TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTT-AACACAGAAATTGAAATTAC
1 T-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTAC
*
108080452 CTCAGCGTG
65 CTCAACGTG
*
108080461 TCCTGAGGCTCAACTCA-CTCTAGCAATATGAGTTGATTTT
1 T-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
108080501 GAAAAACAAA
Statistics
Matches: 448, Mismatches: 57, Indels: 84
0.76 0.10 0.14
Matches are distributed among these distances:
66 13 0.03
67 24 0.05
68 28 0.06
69 56 0.12
70 53 0.12
71 103 0.23
72 58 0.13
73 48 0.11
74 7 0.02
75 5 0.01
76 2 0.00
78 1 0.00
79 2 0.00
80 2 0.00
81 3 0.01
82 2 0.00
83 5 0.01
84 4 0.01
85 20 0.04
86 10 0.02
87 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACC
TCAACGTG
Found at i:108080155 original size:14 final size:15
Alignment explanation
Indices: 108080136--108080165 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
108080126 ATTTTTTTAC
108080136 AACAGAAA-TTGAAA
1 AACAGAAATTTGAAA
108080150 AACAGAAATTTGAAA
1 AACAGAAATTTGAAA
108080165 A
1 A
108080166 GACCTCAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (15 bp):
AACAGAAATTTGAAA
Found at i:108080442 original size:298 final size:294
Alignment explanation
Indices: 108079892--108080447 Score: 931
Period size: 298 Copynumber: 1.9 Consensus size: 294
108079882 TCTGAAGGCT
* *
108079892 CAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACAGAAATTGAAAATACCTCAGCATGTGC
1 CAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCATGTGC
108079957 CGAGGCTCAACTCACCTCTCGCAATAGTTGATTTTTTTTGAAACAGAAATTGAAATACCTCAACG
66 CGAGGCTCAACTCACCTCTCGCAATAGTTGATTTTTTTTGAAACAGAAATTGAAATACCTCAACG
*
108080022 TGTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAGAATTGAAATTACCTCAG
131 TCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAGAATTGAAATTACCTCAG
*
108080087 CGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACAACAGAAATTGAAAAA
196 CGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTGAAAAA
108080152 CAGAAATTTGAAAAGACCTCAGCTTGAGCCGAGG
261 CAGAAATTTGAAAAGACCTCAGCTTGAGCCGAGG
* *
108080186 CAACTCACCTCTCGCAATATGAGTT-AATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT-
1 CAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAGCATGTG
108080249 CCGAGGCTCAACTCACCTCTCGCAATATAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCT
65 CCGAGGCTCAACTCACCTCTCGC-A-ATAGTTGATTTTTTTTG-AAACAGAAATTG-AAATACCT
*
108080314 CAAGGTTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATT
126 CAACG-TCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAG-AATTGAAATT
**
108080379 ACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTAAC-ACAGAAA
189 ACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAACAACAGAAA
108080442 TTGAAA
253 TTGAAA
108080448 TTACCTCAGC
Statistics
Matches: 245, Mismatches: 9, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
293 29 0.12
294 53 0.22
295 17 0.07
296 12 0.05
297 12 0.05
298 60 0.24
299 29 0.12
300 33 0.13
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (294 bp):
CAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCATGTGC
CGAGGCTCAACTCACCTCTCGCAATAGTTGATTTTTTTTGAAACAGAAATTGAAATACCTCAACG
TCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAGAATTGAAATTACCTCAG
CGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTGAAAAA
CAGAAATTTGAAAAGACCTCAGCTTGAGCCGAGG
Found at i:108080499 original size:141 final size:140
Alignment explanation
Indices: 108080186--108080514 Score: 475
Period size: 143 Copynumber: 2.3 Consensus size: 140
108080176 TGAGCCGAGG
*
108080186 CAACTCACCTCTCGCAATATGAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCC
1 CAACTCA-CTCTCGCAATATGAGTTGATTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCC
108080251 GAGGCTCAACTCACCTCTCGCAATATAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCA
64 GAGGCTCAACTCACCTCTCGCAATATAGTTGA--TTTTTTGAAAACAGAAATTGAAAATACCTCA
*
108080316 AGGTTCTTGAGGCT
127 AGGTTCCTGAGGCT
*
108080330 CAACTCATTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
1 CAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCC-G
** * *
108080395 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTT-AACACAGAAATTGAAATTACCTC-AG
65 AGGCTCAACTCACCTCTCGCAATAT-AGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAAG
108080457 CGTGTCCTGAGGCT
129 -GT-TCCTGAGGCT
* *
108080471 CAACTCACTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
1 CAACTCACTCTCGCAATATGAGTTGATTTTG-AAAACAGAAATT
108080515 AAAAGGCTTA
Statistics
Matches: 170, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
139 2 0.01
140 23 0.14
141 43 0.25
142 42 0.25
143 47 0.28
144 13 0.08
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (140 bp):
CAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCGA
GGCTCAACTCACCTCTCGCAATATAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAAGGT
TCCTGAGGCT
Found at i:108080668 original size:69 final size:68
Alignment explanation
Indices: 108080553--108080684 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 68
108080543 GAGTCAATTT
**
108080553 AAAATAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
1 AAAATAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
108080618 AAA
66 AAA
* **
108080621 AAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AAAA-TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
108080685 CCTTGGAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
68 5 0.09
69 52 0.91
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (68 bp):
AAAATAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
AAA
Found at i:108088932 original size:12 final size:12
Alignment explanation
Indices: 108088912--108088947 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
108088902 TGGGATATGC
*
108088912 AATGTATGAATG
1 AATGCATGAATG
108088924 AATGCATGAATG
1 AATGCATGAATG
108088936 AATGCATGAATG
1 AATGCATGAATG
108088948 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:108090515 original size:7 final size:8
Alignment explanation
Indices: 108090503--108090536 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
108090493 ATAATAAAAT
108090503 ATAT-AAA
1 ATATCAAA
108090510 ATAT-AAA
1 ATATCAAA
108090517 ATATCAAA
1 ATATCAAA
108090525 ATATCAAA
1 ATATCAAA
108090533 ATAT
1 ATAT
108090537 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:108090519 original size:24 final size:24
Alignment explanation
Indices: 108090492--108090547 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
108090482 TAATGATGTG
*
108090492 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
*
108090516 AAT-ATCAAAATATCAAAATATTAG
1 AATAAT-AAAATATCAAAATATTAA
108090540 AATAATAA
1 AATAATAA
108090548 TAATTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:108090543 original size:16 final size:15
Alignment explanation
Indices: 108090496--108090543 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
108090486 GATGTGAATA
108090496 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
*
108090512 ATAAAATATCAAAAT
1 ATAAAATATTAAAAT
*
108090527 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
108090543 A
1 A
108090544 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:108090709 original size:20 final size:20
Alignment explanation
Indices: 108090657--108090713 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
108090647 ATACTACATC
*
108090657 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
108090678 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
108090697 AATATGTACATAATATA
1 AATATGTACATAATATA
108090714 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:108090789 original size:15 final size:14
Alignment explanation
Indices: 108090768--108090834 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
108090758 ATAACATGTA
108090768 AAAAATATATATAT
1 AAAAATATATATAT
108090782 AAATAATATA-ATATT
1 AAA-AATATATATA-T
* *
108090797 AAAGATATATACAT
1 AAAAATATATATAT
*
108090811 -AAAATA-GTATA-
1 AAAAATATATATAT
*
108090822 AAATATATATATA
1 AAAAATATATATA
108090835 CGTAATATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
12 8 0.20
13 9 0.22
14 12 0.29
15 12 0.29
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAATATATATAT
Found at i:108090807 original size:31 final size:31
Alignment explanation
Indices: 108090745--108090822 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
108090735 TATAGTTAAG
* *
108090745 ATATATACATAAGATAACATGTAAAAAATAT
1 ATATATAAATAATATAACATGTAAAAAATAT
* *
108090776 ATATATAAATAATATAATAT-T-AAAGATAT
1 ATATATAAATAATATAACATGTAAAAAATAT
* *
108090805 ATACATAAAATAGTATAA
1 ATATAT-AAATAATATAA
108090823 AATATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.30
30 11 0.28
31 17 0.43
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (31 bp):
ATATATAAATAATATAACATGTAAAAAATAT
Found at i:108090812 original size:25 final size:25
Alignment explanation
Indices: 108090686--108090908 Score: 108
Period size: 25 Copynumber: 9.0 Consensus size: 25
108090676 AAAATACGTG
* *
108090686 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
108090711 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
108090736 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
108090758 ATAACATGTAAAAAATATATATATAAATAAT
1 ATAATAT-T----AA-AGATATATACATAAT
*
108090789 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * * *
108090814 ATAGTATAAAATATATATATACGTAAT
1 ATAATAT-TAA-AGATATATACATAAT
* *
108090841 ATAA-ATTTAA-A-ATATACCTAAT
1 ATAATATTAAAGATATATACATAAT
* *
108090863 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
108090885 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
108090908 A
1 A
108090909 ACAAAAAAAG
Statistics
Matches: 152, Mismatches: 30, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
21 4 0.03
22 39 0.26
23 17 0.11
24 8 0.05
25 43 0.28
26 6 0.04
27 15 0.10
30 2 0.01
31 18 0.12
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:108090812 original size:56 final size:52
Alignment explanation
Indices: 108090742--108090856 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 52
108090732 TAATATAGTT
108090742 AAGATATATACATAAGATAACATGTAAAAAATATATATATAAATAATAT-AATATTA
1 AAGATATATACAT-A-A-AACA-GTAAAAAATATATATATAAATAATATAAAT-TTA
* * **
108090798 AAGATATATACATAAAATAGTATAAAATATATATATACGTAATATAAATTTA
1 AAGATATATACATAAAACAGTAAAAAATATATATATAAATAATATAAATTTA
108090850 AA-ATATA
1 AAGATATA
108090857 CCTAATATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
51 5 0.09
52 28 0.52
53 6 0.11
54 1 0.02
55 1 0.02
56 13 0.24
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (52 bp):
AAGATATATACATAAAACAGTAAAAAATATATATATAAATAATATAAATTTA
Found at i:108090901 original size:22 final size:22
Alignment explanation
Indices: 108090837--108090908 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
108090827 TATATATACG
*
108090837 TAATATAA-ATTTA-AAATATA
1 TAATATAATATTAAGAAATATA
* *
108090857 CCTAATATATTA-AAAGAATATATA
1 --TAATATAATATTAAGAA-ATATA
108090881 TAATATAATATTAAGAAATATAA
1 TAATATAATATTAAGAAATAT-A
108090904 TAATA
1 TAATA
108090909 ACAAAAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
22 21 0.52
23 14 0.35
24 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (22 bp):
TAATATAATATTAAGAAATATA
Found at i:108091422 original size:30 final size:30
Alignment explanation
Indices: 108091386--108091529 Score: 105
Period size: 30 Copynumber: 4.8 Consensus size: 30
108091376 CAAGTGGTGG
*
108091386 TGGAGCAAGTGTGGTTAGTGGAGTAGGTAA
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* * * **
108091416 TGGAGCAAGTATGGCTAGTGGATTTGGTGG
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* **
108091446 TGGAG-AAGGTGTGGCTAGTGGAGTTGGTGG
1 TGGAGCAA-GTGTGGCTAGTGGAGTAGGTAA
* * * **
108091476 TGGA-AAAGGAGTGGCTAGTGGAGTTGGTGG
1 TGGAGCAA-GTGTGGCTAGTGGAGTAGGTAA
*
108091506 TGGA-AAAGGTGTGGCTAGTGGAGT
1 TGGAGCAA-GTGTGGCTAGTGGAGT
108091530 TGGTGGTGGA
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 2 0.02
30 100 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
Found at i:108091491 original size:60 final size:60
Alignment explanation
Indices: 108091380--108091554 Score: 228
Period size: 60 Copynumber: 2.9 Consensus size: 60
108091370 TAGGTACAAG
* * ** * * *
108091380 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTA-TGGCTAGTGGATT
1 TGGTGGTGGAG-AAGGTGTGGCTAGTGGAGTTGGTGGTGGA-AAAGGAGTGGCTAGTGGAGT
108091440 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* * *
108091500 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTAGCTAGT
1 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
108091555 TGAGAAAAGT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
59 6 0.06
60 97 0.94
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (60 bp):
TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:108091530 original size:30 final size:30
Alignment explanation
Indices: 108091427--108091554 Score: 220
Period size: 30 Copynumber: 4.3 Consensus size: 30
108091417 GGAGCAAGTA
* *
108091427 TGGCTAGTGGATTTGGTGGTGGAGAAGGTG
1 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
*
108091457 TGGCTAGTGGAGTTGGTGGTGGAAAAGGAG
1 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
108091487 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
1 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
108091517 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
1 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
*
108091547 TAGCTAGT
1 TGGCTAGT
108091555 TGAGAAAAGT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.20, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
Found at i:108096952 original size:19 final size:20
Alignment explanation
Indices: 108096927--108096980 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
108096917 GCCCATTAAG
108096927 CCCCCCCAAAAAAAACCTAA
1 CCCCCCCAAAAAAAACCTAA
*
108096947 CCCCCCCCAAAAAAA-CTAA
1 CCCCCCCAAAAAAAACCTAA
108096966 --CCCCCAAAAAAAACC
1 CCCCCCCAAAAAAAACC
108096981 ACGAAACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.39
18 1 0.03
19 4 0.13
20 14 0.45
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (20 bp):
CCCCCCCAAAAAAAACCTAA
Found at i:108097955 original size:23 final size:22
Alignment explanation
Indices: 108097929--108097981 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
108097919 AACTATTATT
*
108097929 ATATTAGTGTATAT-TTTATGTAC
1 ATATTA-TATATATATTT-TGTAC
108097952 ATATGTATATATATATTTTGTAC
1 ATAT-TATATATATATTTTGTAC
108097975 ATATTAT
1 ATATTAT
108097982 TATTTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.11
23 19 0.70
24 5 0.19
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (22 bp):
ATATTATATATATATTTTGTAC
Found at i:108098018 original size:28 final size:28
Alignment explanation
Indices: 108097953--108098024 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
108097943 TTTATGTACA
*
108097953 TATGTATATATATATTTTGTACATATTAT
1 TATGTATATAT-TATTTTGTAAATATTAT
* *
108097982 TAT-TTTATATTATTGTTGTAAAT-TTTT
1 TATGTATATATTATT-TTGTAAATATTAT
108098009 TATGTATATATT-TTTT
1 TATGTATATATTATTTT
108098025 ATGTACGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 20 0.54
29 3 0.08
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.62
Consensus pattern (28 bp):
TATGTATATATTATTTTGTAAATATTAT
Found at i:108102466 original size:18 final size:18
Alignment explanation
Indices: 108102436--108102470 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
108102426 GCTTGTTCTG
108102436 GTGTAGTTCTGGTTTATC
1 GTGTAGTTCTGGTTTATC
108102454 GTGT-GTTCTTGGTTTAT
1 GTGTAGTTC-TGGTTTAT
108102471 GCTTCCCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.09, G:0.29, T:0.54
Consensus pattern (18 bp):
GTGTAGTTCTGGTTTATC
Found at i:108110365 original size:98 final size:98
Alignment explanation
Indices: 108110196--108110389 Score: 352
Period size: 98 Copynumber: 2.0 Consensus size: 98
108110186 CCGTGTGAGA
108110196 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
1 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
108110261 TTTTCAAATGTTACCGATTTCGTCCTAAACCCT
66 TTTTCAAATGTTACCGATTTCGTCCTAAACCCT
* * *
108110294 CACACGGCCTGTTCACATAGGCGTGTGATCCTTGTATGCATGAAAATTTTCTAAGTTTCCCAAAG
1 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
*
108110359 TTTTCAAATGTTATCGATTTCGTCCTAAACC
66 TTTTCAAATGTTACCGATTTCGTCCTAAACC
108110390 TCTTCTAAGC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (98 bp):
CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
TTTTCAAATGTTACCGATTTCGTCCTAAACCCT
Found at i:108110716 original size:17 final size:17
Alignment explanation
Indices: 108110691--108110727 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
108110681 TAACAAACCC
*
108110691 CCAAAATTAGTCTAAAA
1 CCAAAATTAATCTAAAA
*
108110708 CCAATATTAATCTAAAA
1 CCAAAATTAATCTAAAA
108110725 CCA
1 CCA
108110728 TGAAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (17 bp):
CCAAAATTAATCTAAAA
Found at i:108112769 original size:6 final size:6
Alignment explanation
Indices: 108112758--108112800 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
108112748 TAGATACAGT
* *
108112758 TTCAGA TTCAGA TTTAGA TCCAGA TTCAGA TTCAGA TTACAGA
1 TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TT-CAGA
108112801 AGTAGATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (6 bp):
TTCAGA
Found at i:108112776 original size:12 final size:12
Alignment explanation
Indices: 108112748--108112795 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
108112738 CAGTCAAAAA
*
108112748 TAGATACAG-TT
1 TAGATTCAGATT
108112759 TCAGATTCAGATT
1 T-AGATTCAGATT
*
108112772 TAGATCCAGATT
1 TAGATTCAGATT
*
108112784 CAGATTCAGATT
1 TAGATTCAGATT
108112796 ACAGAAGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 1 0.03
12 27 0.87
13 3 0.10
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (12 bp):
TAGATTCAGATT
Found at i:108112785 original size:24 final size:24
Alignment explanation
Indices: 108112748--108112795 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
108112738 CAGTCAAAAA
*
108112748 TAGATACAGTTTCAGATTCAGATT
1 TAGATACAGATTCAGATTCAGATT
*
108112772 TAGATCCAGATTCAGATTCAGATT
1 TAGATACAGATTCAGATTCAGATT
108112796 ACAGAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (24 bp):
TAGATACAGATTCAGATTCAGATT
Found at i:108115657 original size:17 final size:17
Alignment explanation
Indices: 108115634--108115672 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
108115624 TGACAAATAT
108115634 TATATATAATAATAATAAA
1 TATATATAAT--TAATAAA
*
108115653 TATATATAATTATTAAA
1 TATATATAATTAATAAA
108115670 TAT
1 TAT
108115673 TAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATATATAATTAATAAA
Found at i:108119815 original size:3 final size:3
Alignment explanation
Indices: 108119807--108119859 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
108119797 ACGGTTTAAA
* * * * **
108119807 AAT AAT AAT ATT AAT GAT AAT GAT AAT AAT ATT AAT AAT AAT ACG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
108119855 AAT AA
1 AAT AA
108119860 ATAACCCAGA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:108119834 original size:21 final size:21
Alignment explanation
Indices: 108119808--108119848 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
108119798 CGGTTTAAAA
*
108119808 ATAATAATATTAATGATAATG
1 ATAATAATATTAATAATAATG
108119829 ATAATAATATTAATAATAAT
1 ATAATAATATTAATAATAAT
108119849 ACGAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAATAATATTAATAATAATG
Found at i:108119855 original size:21 final size:21
Alignment explanation
Indices: 108119810--108119858 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
108119800 GTTTAAAAAT
* *
108119810 AATAATATTAATGATAATGAT
1 AATAATATTAATAATAATGAG
108119831 AATAATATTAATAATAAT-ACG
1 AATAATATTAATAATAATGA-G
108119852 AATAATA
1 AATAATA
108119859 AATAACCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAATATTAATAATAATGAG
Found at i:108119986 original size:15 final size:15
Alignment explanation
Indices: 108119968--108120028 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
108119958 TTTAAAAATG
*
108119968 ATAATAAATAAAACA
1 ATAATAAATAAAAAA
108119983 ATAAT-AATAAAAGAA
1 ATAATAAATAAAA-AA
*
108119998 ATGATAAA-AAAATAA
1 ATAATAAATAAAA-AA
108120013 A-AATAAATAAATAAA
1 ATAATAAATAAA-AAA
108120028 A
1 A
108120029 GAGTGTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 12 0.32
15 23 0.61
16 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (15 bp):
ATAATAAATAAAAAA
Found at i:108121352 original size:88 final size:87
Alignment explanation
Indices: 108121239--108122078 Score: 355
Period size: 88 Copynumber: 9.3 Consensus size: 87
108121229 GATCTGTTCC
* * *
108121239 ACTGCAAATTCAGAGAAATAAGATTTGCTATTTTCACTCTGCTCCACTGCAACTTCAAGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATTTT-ACTCTGCTCCACTGCAACTTCAAGGAGATA
108121304 AGATTTATAGTTCAATCTACTCT
65 AGATTTATAGTTCAATCTACTCT
* * * * ** ** *
108121327 AATGCAACTTCAGGGATATAAGATTTGCCATGATAGACTTAATCCAAC-CCACTAAAACCTCAAG
1 ACTGCAACTTCAGGGAGATAAGATTTG-C-T-AT---TTTACT-CTGCTCCACTGCAACTTCAAG
* * * *
108121391 G-GTATAGGACTTGT-TACTTCAATCTATTCC
59 GAG-ATAAGA-TT-TATAGTTCAATCTACTCT
* ** ** * * * *
108121421 ACTACAACTTCAGGGAGATAAGGCTTG-TCGCTTTAATCTGCTCCACTGTAATTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCT-ATTTTACTCTGCTCCACTGCAACTTCAAGGAGATA
108121485 AGATTTATAGCTTCAATCTACTCT
65 AGATTTATAG-TTCAATCTACTCT
* * *
108121509 ACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCGATCTACTTTAATCTGCTCCACTGCAACCT
1 ACTGCAACTTCAGGGAGATAAGATTTG----C-T--A--T--TTTACTCTGCTCCACTGCAACTT
* * * ** *
108121574 CAAGGAGAAAAGATTTGCAATTTGCAGCTTTAATATGTTCC
55 CAAGGAGATAAGATTT---A--T--AG-TTCAATCTACTCT
* * * *
108121615 ACTG---CTTCAGGGAAATAACATTCGCTATTTTTAGTCTGCTCCACTGCAACTTCAAGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTA-TTTTACTCTGCTCCACTGCAACTTCAAGGAGATA
* * *
108121677 AGACTTGTA-ACTTCAATATGCT-T
65 AGA-TT-TATAGTTCAATCTACTCT
* * * * * * *
108121700 CACTACAACTTCAGGGAGATAAGATTT-ATAGCTTTAATCTGCTCTACTACAACTT-TAGAGAGA
1 -ACTGCAACTTCAGGGAGATAAGATTTGCTA-TTTTACTCTGCTCCACTGCAACTTCAAG-GAGA
* * * *
108121763 TAAGATTTGCTATCTTCAGTCTACTCC
63 TAAGATTT-ATA-GTTCAATCTACTCT
* * * ** * * ** * * *
108121790 ATTGCAACTTCAGGGAGATAGGACTTG-TGGCTTTAATCTGTTCTTCTGCAAATTCAGGGAAATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCT-ATTTTACTCTGCTCCACTGCAACTTCAAGGAGATA
* * *
108121854 AGATTCATAGCTTTAATCTGCTCT
65 AGATTTATAG-TTCAATCTACTCT
* * * *
108121878 ACTGCAACTTCAGAGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTAT-TTTACTCTGCTCCACTGCAACTTCAAGGAGATA
* * * * *
108121942 AG-GTT-TGGCTTTAATCTGCTCC
65 AGATTTATAG-TTCAATCTACTCT
* * * * * *
108121964 ACTACAACTTCAGGGAGATAAGATTTGTTTATTTTTAACT-TGCTCCACTACAATTTTAGGGAGA
1 ACTGCAACTTCAGGGAGATAAGATTTG-CTA-TTTT-ACTCTGCTCCACTGCAACTTCAAGGAGA
* * *
108122028 TAAGTTTTATGGCTTTAATCTACT-T
63 TAAGATTTATAG-TTCAATCTACTCT
108122053 CACTGCAACTTCAGGGAGATAAGATT
1 -ACTGCAACTTCAGGGAGATAAGATT
108122079 CACCATGATA
Statistics
Matches: 569, Mismatches: 127, Indels: 110
0.71 0.16 0.14
Matches are distributed among these distances:
86 50 0.09
87 18 0.03
88 200 0.35
89 85 0.15
90 40 0.07
91 3 0.01
92 2 0.00
93 54 0.09
94 44 0.08
95 3 0.01
96 1 0.00
98 1 0.00
99 35 0.06
102 1 0.00
103 16 0.03
104 1 0.00
106 15 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (87 bp):
ACTGCAACTTCAGGGAGATAAGATTTGCTATTTTACTCTGCTCCACTGCAACTTCAAGGAGATAA
GATTTATAGTTCAATCTACTCT
Found at i:108121532 original size:44 final size:44
Alignment explanation
Indices: 108121236--108122078 Score: 258
Period size: 44 Copynumber: 18.6 Consensus size: 44
108121226 TTTGATCTGT
* * * ** * *
108121236 TCCACTGCAAATTCAGAGAAATAAGATTTGCTATTTTCACTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTCAATCTAC
108121281 TCCACTGCAACTTCA-AGGAGATAAGATTTATAG-TTCAATCTAC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTATAGCTTCAATCTAC
* * * * *
108121324 TCTAATGCAACTTCAGGGATATAAGATTTGCCATGATAGACTT-AATCCAAC
1 TCCACTGCAACTTCAGAGAGATAAGA-TT----T-ATAG-CTTCAAT-CTAC
** * * * *
108121375 -CCACTAAAACCTCA-AGGGTATAGGACTTGT-TA-CTTCAATCTAT
1 TCCACTGCAACTTCAGAGAG-ATAAGA-TT-TATAGCTTCAATCTAC
* * ** * * * *
108121418 TCCACTACAACTTCAGGGAGATAAGGCTTGTCGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* * *
108121462 TCCACTGTAATTTCAGGGAGATAAGATTTATAGCTTCAATCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* * * *
108121506 TCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCGATCTACTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGA--T-TTA---T--A---GCTTCAATCTAC
* * * * **
108121561 TCCACTGCAACCTCA-AGGAGAAAAGATTTGCAATTTGCAGCTTTAATATGT
1 TCCACTGCAACTTCAGA-GAGATAAGATTT---A--T--AGCTTCAATCTAC
* * * ** ** * * *
108121612 TCCACTG---CTTCAGGGAAATAACATTCGCTATTTTTAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATT-TATAGCTTCAATCTAC
* * * * *
108121654 TCCACTGCAACTTCA-AGGAGATAAGACTTGTAACTTCAATATGC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTATAGCTTCAATCTAC
* * * * *
108121698 TTCACTACAACTTCAGGGAGATAAGATTTATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* * * * * *
108121742 TCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTCAATCTAC
* * * * * * * **
108121787 TCCATTGCAACTTCAGGGAGATAGGACTTGTGGCTTTAATCTGT
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
** * * * * * *
108121831 TCTTCTGCAAATTCAGGGAAATAAGATTCATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* ** * * *
108121875 TCTACTGCAACTTCAGAGAGATAAGATTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* * * * *
108121919 TCCACTGCAACTTCAGGGAGATAAG-GTT-TGGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* * * ** * *
108121961 TCCACTACAACTTCAGGGAGATAAGATTTGTTTATTTTTAA-CTTGC
1 TCCACTGCAACTTCAGAGAGATAAGA-TT-TATAGCTTCAATC-TAC
* * * * * * *
108122007 TCCACTACAATTTTAGGGAGATAAGTTTTATGGCTTTAATCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
* *
108122051 TTCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGAGAGATAAGATT
108122079 CACCATGATA
Statistics
Matches: 592, Mismatches: 160, Indels: 93
0.70 0.19 0.11
Matches are distributed among these distances:
42 50 0.08
43 37 0.06
44 291 0.49
45 79 0.13
46 33 0.06
47 4 0.01
48 13 0.02
49 5 0.01
50 20 0.03
51 21 0.04
52 3 0.01
53 1 0.00
54 4 0.01
55 31 0.05
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTCAATCTAC
Found at i:108121876 original size:133 final size:132
Alignment explanation
Indices: 108121619--108121988 Score: 478
Period size: 133 Copynumber: 2.8 Consensus size: 132
108121609 TGTTCCACTG
* * * * * * * *
108121619 CTTCAGGGAAATAACATTCGCTATTTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTG
1 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGACTTG
** * * *
108121684 TAACTTCAATATGCTTCACTACAACTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTA
66 TGGCTTTAATCTG-TTCACTACAACTTCAGGGAGATAAGATTCATAGCTTTAATCTGCTCTACTA
108121749 CAA
130 CAA
* * *
108121752 CTTTAGAGAGATAAGATTTGCTATCTTCAGTCTACTCCATTGCAACTTCAGGGAGATAGGACTTG
1 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGACTTG
* * * * *
108121817 TGGCTTTAATCTGTTCTTCTGCAAATTCAGGGAAATAAGATTCATAGCTTTAATCTGCTCTACTG
66 TGGCTTTAATCTGTTC-ACTACAACTTCAGGGAGATAAGATTCATAGCTTTAATCTGCTCTACTA
108121882 CAA
130 CAA
108121885 CTTCAGAGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGG--TT
1 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT-AGGACTT
*
108121947 -TGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
65 GTGGCTTTAATCTG-TTCACTACAACTTCAGGGAGATAAGATT
108121989 TGTTTATTTT
Statistics
Matches: 205, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
130 34 0.17
131 4 0.02
132 41 0.20
133 126 0.61
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (132 bp):
CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGACTTG
TGGCTTTAATCTGTTCACTACAACTTCAGGGAGATAAGATTCATAGCTTTAATCTGCTCTACTAC
AA
Found at i:108123749 original size:18 final size:18
Alignment explanation
Indices: 108123726--108123761 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
108123716 GTCGTGTGTG
108123726 CAGTTAAGTGCCAAGATA
1 CAGTTAAGTGCCAAGATA
108123744 CAGTTAAGTGCCAAGATA
1 CAGTTAAGTGCCAAGATA
108123762 TGTGTGATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
CAGTTAAGTGCCAAGATA
Found at i:108124150 original size:19 final size:19
Alignment explanation
Indices: 108124126--108124163 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
108124116 TAGGCCTCAT
108124126 TGGGCCAAGATGGGC-CGTG
1 TGGGCCAA-ATGGGCTCGTG
*
108124145 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
108124164 GGCCTCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:108124891 original size:33 final size:34
Alignment explanation
Indices: 108124843--108124914 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
108124833 TTAGGCCCAC
* * *
108124843 ACTGTCACTATATAGGGCTAAGACCCAGACTG-T
1 ACTGTCACTAAATAGGACTAAGACCCAGACCGTT
* * *
108124876 ACTGTTACTAAATAGGACTCAGGCCCAGACCGTT
1 ACTGTCACTAAATAGGACTAAGACCCAGACCGTT
108124910 ACTGT
1 ACTGT
108124915 ATGCACTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (34 bp):
ACTGTCACTAAATAGGACTAAGACCCAGACCGTT
Found at i:108130161 original size:22 final size:23
Alignment explanation
Indices: 108130136--108130200 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
108130126 CAACCAAATC
108130136 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
108130158 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
** *
108130181 ACGTCATCACATATCTATAA
1 AATTCAT-ACATATTTATAA
108130201 CCAGGTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 6 0.17
23 18 0.51
24 11 0.31
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:108137927 original size:23 final size:23
Alignment explanation
Indices: 108137884--108137927 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
108137874 TCAATTCAAT
*
108137884 ATATTTTCAAGATAAATTCATGC
1 ATATTTTCAAGATAAAGTCATGC
*
108137907 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
108137928 CACATATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGC
Found at i:108150414 original size:40 final size:40
Alignment explanation
Indices: 108150330--108150513 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
108150320 TTGAATGCTG
* * * *
108150330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
108150369 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
108150410 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
108150450 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
108150490 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
108150514 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:108150467 original size:80 final size:81
Alignment explanation
Indices: 108150330--108150510 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
108150320 TTGAATGCTG
* * *
108150330 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
108150394 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
108150410 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
108150471 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
108150490 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
108150511 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:108150534 original size:39 final size:38
Alignment explanation
Indices: 108150411--108150560 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
108150401 GTTATTAATT
* ** * *
108150411 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
108150451 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
108150490 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
108150530 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
108150561 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:108158250 original size:40 final size:40
Alignment explanation
Indices: 108158166--108158349 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
108158156 TTGAATGCTG
* * * *
108158166 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
108158205 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
108158246 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
108158286 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
108158326 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
108158350 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:108158303 original size:80 final size:81
Alignment explanation
Indices: 108158166--108158346 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
108158156 TTGAATGCTG
* * *
108158166 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
108158230 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
108158246 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
108158307 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
108158326 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
108158347 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:108158370 original size:39 final size:38
Alignment explanation
Indices: 108158247--108158396 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
108158237 GTTATTAATT
* ** * *
108158247 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
108158287 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
108158326 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
108158366 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
108158397 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:108161769 original size:16 final size:16
Alignment explanation
Indices: 108161748--108161804 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
108161738 CAAAATTTTT
108161748 AGCTGTAATGGAATAG
1 AGCTGTAATGGAATAG
*
108161764 AGCTGTAACGGAATAG
1 AGCTGTAATGGAATAG
*
108161780 AGTTGTAATGGAATAG
1 AGCTGTAATGGAATAG
*
108161796 AACTGTAAT
1 AGCTGTAAT
108161805 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (16 bp):
AGCTGTAATGGAATAG
Found at i:108161879 original size:44 final size:46
Alignment explanation
Indices: 108161786--108161879 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
108161776 ATAGAGTTGT
* *
108161786 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATCAGTAATTCAATTGTTTGGTTGAATAG
* *
108161832 AATGGAATAAAACTGTAAT-GGT-ATTC-TTGTGTTTGGTTGAATAG
1 AATGGAATAAAACTGTAATCAGTAATTCAAT-TGTTTGGTTGAATAG
108161876 AATG
1 AATG
108161880 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 2 0.05
46 18 0.42
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (46 bp):
AATGGAATAAAACTGTAATCAGTAATTCAATTGTTTGGTTGAATAG
Found at i:108167638 original size:3 final size:3
Alignment explanation
Indices: 108167630--108167655 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
108167620 CAAGGGGCTT
108167630 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
108167656 GAATGCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:108171897 original size:18 final size:17
Alignment explanation
Indices: 108171839--108171898 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
108171829 GGGCACCTAA
* *
108171839 TTTCATTTTTACTCATT
1 TTTCATTTTAACTAATT
*
108171856 TTTCATTTTAGC-AATAT
1 TTTCATTTTAACTAAT-T
108171873 TTGTCATTTTAACTAATCT
1 TT-TCATTTTAACTAAT-T
108171892 TTTCATT
1 TTTCATT
108171899 AAAGTTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.06
17 13 0.37
18 14 0.40
19 6 0.17
ACGTcount: A:0.23, C:0.15, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTCATTTTAACTAATT
Found at i:108175802 original size:23 final size:22
Alignment explanation
Indices: 108175752--108175838 Score: 97
Period size: 23 Copynumber: 3.9 Consensus size: 22
108175742 ACCTATCAAT
*
108175752 ATACGACACATAAGTGCCT-AA
1 ATACGACACAAAAGTGCCTGAA
* *
108175773 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACA-AAAGTGCCTGAA
*
108175795 ATACGACACATAAAGTGCCTGAT
1 ATACGACACA-AAAGTGCCTGAA
108175818 ATACGACACATAAAGTGCCTG
1 ATACGACACA-AAAGTGCCTG
108175839 GCATGCCAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
20 8 0.14
21 8 0.14
22 3 0.05
23 38 0.67
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (22 bp):
ATACGACACAAAAGTGCCTGAA
Found at i:108175836 original size:46 final size:43
Alignment explanation
Indices: 108175752--108175838 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 43
108175742 ACCTATCAAT
* *
108175752 ATACGACACATAAGTGCCTAAAACGACACACGAGGTGCCTGAA
1 ATACGACACATAAGTGCCTAAAACGACACACAAAGTGCCTGAA
* *
108175795 ATACGACACATAAAGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCT-A-AAACGACACACAAAGTGCCTG
108175839 GCATGCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 11 0.30
44 8 0.22
45 1 0.03
46 17 0.46
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTAAAACGACACACAAAGTGCCTGAA
Found at i:108176819 original size:26 final size:26
Alignment explanation
Indices: 108176790--108176897 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108176780 TGGTACAAAT
108176790 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
108176816 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108176842 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
108176868 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108176894 TGAT
1 TGAT
108176898 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:108185311 original size:19 final size:19
Alignment explanation
Indices: 108185270--108185327 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
108185260 TAAATAATAA
*
108185270 ATATATAT-TTACTAAT-T
1 ATATATATATTACAAATGT
*
108185287 AAATATAAGTATTACAAATGT
1 ATATAT-A-TATTACAAATGT
*
108185308 ATATATATATTACAATTGT
1 ATATATATATTACAAATGT
108185327 A
1 A
108185328 CAATATCATC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 13 0.39
20 8 0.24
21 6 0.18
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
ATATATATATTACAAATGT
Found at i:108194665 original size:15 final size:15
Alignment explanation
Indices: 108194645--108194698 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
108194635 ATACTACAAA
108194645 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
108194660 ATATTTATAAATGTAAT
1 ATATTTAT-TAT-TAAT
*
108194677 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
108194694 ATATT
1 ATATT
108194699 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.41
16 2 0.06
17 7 0.22
18 2 0.06
19 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:108194740 original size:16 final size:17
Alignment explanation
Indices: 108194721--108194753 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
108194711 TTTTCAAAAA
*
108194721 TATTATTTAA-AAAATT
1 TATTATTAAATAAAATT
108194737 TATTATTAAATAAAATT
1 TATTATTAAATAAAATT
108194754 GAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTATTAAATAAAATT
Found at i:108194779 original size:20 final size:20
Alignment explanation
Indices: 108194756--108194796 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
108194746 ATAAAATTGA
108194756 AATATAAATAATAAATTATT
1 AATATAAATAATAAATTATT
* *
108194776 AATATCAATAATAATTTATT
1 AATATAAATAATAAATTATT
108194796 A
1 A
108194797 TATGATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATAAATAATAAATTATT
Found at i:108205531 original size:23 final size:23
Alignment explanation
Indices: 108205505--108205549 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
108205495 TGGGTATGTG
*
108205505 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
108205528 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
108205550 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:108206366 original size:24 final size:24
Alignment explanation
Indices: 108206332--108206378 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
108206322 ATAAAAACTA
*
108206332 AACCCTGAAAACCTAAAAACAAAG
1 AACCCTCAAAACCTAAAAACAAAG
* *
108206356 AACCCTCAAAACGTAAACACAAA
1 AACCCTCAAAACCTAAAAACAAA
108206379 ATTTTCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.28, G:0.06, T:0.09
Consensus pattern (24 bp):
AACCCTCAAAACCTAAAAACAAAG
Found at i:108207966 original size:21 final size:20
Alignment explanation
Indices: 108207928--108207966 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
108207918 GGATAGAAAT
* *
108207928 TTTTGGGGAAGAAGTGATGG
1 TTTTGGGGAAAAAATGATGG
108207948 TTTTGGGTGAAAAAATGAT
1 TTTTGGG-GAAAAAATGAT
108207967 ATCTCTCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (20 bp):
TTTTGGGGAAAAAATGATGG
Found at i:108213488 original size:12 final size:12
Alignment explanation
Indices: 108213471--108213497 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
108213461 TCTTTTATTT
108213471 ATTTTATTTATC
1 ATTTTATTTATC
108213483 ATTTTATTTATC
1 ATTTTATTTATC
108213495 ATT
1 ATT
108213498 ATTGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTATC
Found at i:108213505 original size:18 final size:18
Alignment explanation
Indices: 108213484--108213518 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
108213474 TTATTTATCA
108213484 TTTTATTTATCATTATTG
1 TTTTATTTATCATTATTG
*
108213502 TTTTATTTATTATTATT
1 TTTTATTTATCATTATT
108213519 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTATTTATCATTATTG
Found at i:108213639 original size:3 final size:3
Alignment explanation
Indices: 108213618--108213675 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
108213608 AAAACTTTGG
** * * *
108213618 ATT ATTT ATT ATT CGT ATT ATT ATT AAT ATT ATT ATC ATT ATC ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
108213664 AAT ATT ATT ATT
1 ATT ATT ATT ATT
108213676 TTTAAACCAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:108213650 original size:21 final size:21
Alignment explanation
Indices: 108213634--108213674 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
108213624 TATTATTCGT
*
108213634 ATTATTATTAATATTATTATC
1 ATTATCATTAATATTATTATC
108213655 ATTATCATTAATATTATTAT
1 ATTATCATTAATATTATTAT
108213675 TTTTAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATCATTAATATTATTATC
Found at i:108233504 original size:40 final size:38
Alignment explanation
Indices: 108233460--108233641 Score: 176
Period size: 40 Copynumber: 4.7 Consensus size: 38
108233450 GCTCCTCGTT
* *
108233460 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGT-ATTCGCA
*
108233500 CAAATGCCTTCGGG-CTTAGCCCGGATTAGT-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTATTCGCA
* *
108233536 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-TTAGTAT-TCGCA
* * *
108233576 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGT-A-TTCGCA
108233617 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
108233642 CATCATTCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
35 1 0.01
36 16 0.13
37 10 0.08
38 9 0.07
39 11 0.09
40 63 0.51
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTATTCGCA
Found at i:108244713 original size:41 final size:41
Alignment explanation
Indices: 108244667--108244764 Score: 196
Period size: 41 Copynumber: 2.4 Consensus size: 41
108244657 AACGAGCCTA
108244667 CTCACACAAGCTATTAGTCAAGGTGTAGCTATACGGTGTTG
1 CTCACACAAGCTATTAGTCAAGGTGTAGCTATACGGTGTTG
108244708 CTCACACAAGCTATTAGTCAAGGTGTAGCTATACGGTGTTG
1 CTCACACAAGCTATTAGTCAAGGTGTAGCTATACGGTGTTG
108244749 CTCACACAAGCTATTA
1 CTCACACAAGCTATTA
108244765 AGTAACGGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
CTCACACAAGCTATTAGTCAAGGTGTAGCTATACGGTGTTG
Found at i:108245371 original size:21 final size:20
Alignment explanation
Indices: 108245343--108245382 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
108245333 CAAAACTTGT
*
108245343 ATAACTATCATCAAACATTC
1 ATAACTATCACCAAACATTC
*
108245363 ATAATCTATCACCAATCATT
1 ATAA-CTATCACCAAACATT
108245383 AAAATACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCACCAAACATTC
Found at i:108246089 original size:44 final size:44
Alignment explanation
Indices: 108246039--108246125 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
108246029 AGTGGCAGAT
108246039 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGAA
1 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGAA
108246083 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGA
1 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGA
108246126 GCTCAAAGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (44 bp):
GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGAA
Found at i:108247384 original size:22 final size:22
Alignment explanation
Indices: 108247322--108247404 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
108247312 ACAGCTCGTA
* * *
108247322 AGAGCTTACTGTTTCAGCACATT
1 AGAGCTTACT-ATTCAGCTCAAT
* *
108247345 GGAGCTTACCAATTCAGCTCGAA-
1 AGAGCTTA-CTATTCAGCTC-AAT
108247368 AGAGCTTACTATTCAGCTCAAT
1 AGAGCTTACTATTCAGCTCAAT
*
108247390 AGAGCTTACTGTTCA
1 AGAGCTTACTATTCA
108247405 TCAGCTCAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 2 0.04
22 24 0.49
23 21 0.43
24 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (22 bp):
AGAGCTTACTATTCAGCTCAAT
Found at i:108247624 original size:50 final size:50
Alignment explanation
Indices: 108247549--108247648 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
108247539 ATTTTGTATA
* * *
108247549 GATGGTAAGTTTAATTTTGAATTATACAGGCTTACTAAGCTGTAAAGCTT
1 GATGGTAAGTTTAATTCTAAATTATACAGGCTTACTAAGCTATAAAGCTT
*
108247599 GATGGTAAGTTTAATTCTAAATTATACGGGCTTACTAAGCTATAAAGCTT
1 GATGGTAAGTTTAATTCTAAATTATACAGGCTTACTAAGCTATAAAGCTT
108247649 ACTCTGTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (50 bp):
GATGGTAAGTTTAATTCTAAATTATACAGGCTTACTAAGCTATAAAGCTT
Found at i:108250039 original size:12 final size:12
Alignment explanation
Indices: 108250022--108250046 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108250012 ACAACCAGTA
108250022 AAAACAAGTAAC
1 AAAACAAGTAAC
108250034 AAAACAAGTAAC
1 AAAACAAGTAAC
108250046 A
1 A
108250047 CGGCTACTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAACAAGTAAC
Found at i:108253105 original size:22 final size:23
Alignment explanation
Indices: 108253042--108253148 Score: 89
Period size: 24 Copynumber: 4.7 Consensus size: 23
108253032 ACAGCTCGTA
* *
108253042 AGAGCTTACT-ATTTCAGTTCATT
1 AGAGCTTACTGA-TTCAGCTCAAT
* * *
108253065 GGAGCTTACCGATTCAGCTTGAA-
1 AGAGCTTACTGATTCAGC-TCAAT
108253088 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGATTCAGCTCAAT
*
108253110 AGAGCTTACT-ATTTTCAACTCAAT
1 AGAGCTTACTGA--TTCAGCTCAAT
108253134 AGAGCTTACTG-TTCA
1 AGAGCTTACTGATTCA
108253149 TCAGCTCAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
21 3 0.04
22 20 0.29
23 22 0.32
24 23 0.34
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:108258893 original size:40 final size:40
Alignment explanation
Indices: 108258849--108259036 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
108258839 GCTACTTGCT
108258849 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
108258889 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
108258929 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
108258969 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
108259008 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
108259037 CATCCAAATA
Statistics
Matches: 139, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 104 0.75
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:108261178 original size:46 final size:47
Alignment explanation
Indices: 108261128--108261289 Score: 174
Period size: 46 Copynumber: 3.5 Consensus size: 47
108261118 GCCCATAAAC
* * *
108261128 GAACTCGGAATCAACTCAACAAGCTCGAG-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACATCCATAAGT
* * * *
108261174 GAACTCGGACTTAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTC-GA-GAC--GTTCACATCCATAAGT
*
108261221 GAACTCGGACTCAACTCAACGAGTTC-AGACGTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACATCCATAAGT
108261267 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
108261290 TTCGGATGCC
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 3 0.03
46 46 0.48
47 26 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGACGTTCACATCCATAAGT
Found at i:108261239 original size:93 final size:93
Alignment explanation
Indices: 108261126--108261299 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
108261116 CCGCCCATAA
* *
108261126 ACGAACTCGGAATCAACTCAACAAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTTAACT
1 ACGAACTCGGAATCAACTCAACAAGCTCAGA-CGTTCACATCCATAAGTGAACTCGGACTCAACT
108261190 CAACGAGCTCGGATGCCTAGTTACATCTC
65 CAACGAGCTCGGATGCCTAGTTACATCTC
* * *
108261219 ACGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCGGAATCAACTCAACAAGCTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTC
*
108261284 AACGAGTTCGGATGCC
66 AACGAGCTCGGATGCC
108261300 CAAATATCCG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
ACGAACTCGGAATCAACTCAACAAGCTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTC
AACGAGCTCGGATGCCTAGTTACATCTC
Found at i:108267130 original size:46 final size:46
Alignment explanation
Indices: 108267062--108267183 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
108267052 TGTAACCCGC
* * *
108267062 CCATAAGCGAACTCGGGCTCAACTCAACGAACTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGACGTTCGCAT
* **
108267108 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGACGTTCGCAT
108267154 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
108267184 TTTCAGATGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGACGTTCGCAT
Found at i:108270008 original size:35 final size:35
Alignment explanation
Indices: 108269961--108270049 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
108269951 TCTAATGTTT
* *
108269961 TGATTCGCATGTTAAGTATGTCATATTTCTGATTA
1 TGATTCACATGTTAAGCATGTCATATTTCTGATTA
* * * *
108269996 TGATTCATATGTTAAGCATGTCATATTTTTTATTC
1 TGATTCACATGTTAAGCATGTCATATTTCTGATTA
108270031 TGATTCACATGTTAAGCAT
1 TGATTCACATGTTAAGCAT
108270050 ACCTACTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (35 bp):
TGATTCACATGTTAAGCATGTCATATTTCTGATTA
Found at i:108280680 original size:20 final size:20
Alignment explanation
Indices: 108280655--108280704 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108280645 TGGCTTAAAA
108280655 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108280675 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108280692 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108280705 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108285319 original size:20 final size:20
Alignment explanation
Indices: 108285294--108285343 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108285284 TGGCTTAAAA
108285294 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108285314 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108285331 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108285344 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108289470 original size:30 final size:30
Alignment explanation
Indices: 108289434--108289491 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
108289424 CACGGGCTGG
*
108289434 CACATGGGCATGTGGCCTACCCGTGTGGAT
1 CACATGGACATGTGGCCTACCCGTGTGGAT
*
108289464 CACATGGACGTGTGGCCTACCCGTGTGG
1 CACATGGACATGTGGCCTACCCGTGTGG
108289492 GTCCTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (30 bp):
CACATGGACATGTGGCCTACCCGTGTGGAT
Found at i:108291279 original size:18 final size:18
Alignment explanation
Indices: 108291256--108291290 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
108291246 AAAGATAAAT
108291256 AATAATAAT-AATAAACTC
1 AATAAT-ATCAATAAACTC
108291274 AATAATATCAATAAACT
1 AATAATATCAATAAACT
108291291 TAAAAGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATATCAATAAACTC
Found at i:108291349 original size:28 final size:28
Alignment explanation
Indices: 108291317--108291385 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
108291307 TAATAATAGT
108291317 AAAAATAAAAAAATACGAAAGA-AAAAAG
1 AAAAATAAAAAAATACGAAA-ATAAAAAG
* * *
108291345 AAAAA-AATAGAAATAGGAAAATAAAAAT
1 AAAAATAA-AAAAATACGAAAATAAAAAG
*
108291373 AAAAATAATAAAA
1 AAAAATAAAAAAA
108291386 GTATATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.09
28 28 0.85
29 2 0.06
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (28 bp):
AAAAATAAAAAAATACGAAAATAAAAAG
Found at i:108291365 original size:22 final size:22
Alignment explanation
Indices: 108291317--108291371 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
108291307 TAATAATAGT
108291317 AAAAATAAAAAAATACGAAAGA
1 AAAAATAAAAAAATACGAAAGA
* *
108291339 AAAAAGAAAAAAATA-GAAATA
1 AAAAATAAAAAAATACGAAAGA
*
108291360 GGAAAATAAAAA
1 -AAAAATAAAAA
108291372 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAAATAAAAAAATACGAAAGA
Found at i:108291385 original size:20 final size:20
Alignment explanation
Indices: 108291347--108291490 Score: 53
Period size: 20 Copynumber: 7.0 Consensus size: 20
108291337 GAAAAAAGAA
* **
108291347 AAAAATAGAAATAGGAAAAT
1 AAAAATAAAAATAATAAAAT
108291367 AAAAATAAAAATAATAAAAGT
1 AAAAATAAAAATAATAAAA-T
* * *
108291388 ATATA-AAAAATTA-AAAAT
1 AAAAATAAAAATAATAAAAT
* * * *
108291406 ATAAGTACAAGAATACTAAATT
1 AAAAATA-AA-AATAATAAAAT
* * * *
108291428 AATTAAT-TAATTATTAAAAT
1 AA-AAATAAAAATAATAAAAT
108291448 AAAAATAAATAAT-ATAACAATT
1 AAAAATAAA-AATAATAA-AA-T
*
108291470 AAAAATAAAATAAAATAAAAT
1 AAAAATAAAA-ATAATAAAAT
108291491 TAAGGTGATT
Statistics
Matches: 89, Mismatches: 23, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
18 4 0.04
19 8 0.09
20 39 0.44
21 14 0.16
22 18 0.20
23 6 0.07
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAATAAAAATAATAAAAT
Found at i:108291402 original size:18 final size:19
Alignment explanation
Indices: 108291371--108291408 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
108291361 GAAAATAAAA
*
108291371 ATAAAAATAATAAAAGTAT
1 ATAAAAATAATAAAAATAT
*
108291390 ATAAAAA-ATTAAAAATAT
1 ATAAAAATAATAAAAATAT
108291408 A
1 A
108291409 AGTACAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
ATAAAAATAATAAAAATAT
Found at i:108291460 original size:22 final size:22
Alignment explanation
Indices: 108291447--108291493 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
108291437 ATTATTAAAA
108291447 TAAAAATAAATAATATAACAAT
1 TAAAAATAAATAATATAACAAT
*
108291469 TAAAAATAAAATAAAATAA-AAT
1 TAAAAAT-AAATAATATAACAAT
108291491 TAA
1 TAA
108291494 GGTGATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAAATAAATAATATAACAAT
Found at i:108298770 original size:26 final size:26
Alignment explanation
Indices: 108298741--108298848 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108298731 TGGTACAAAT
108298741 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
108298767 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108298793 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
108298819 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108298845 TGAT
1 TGAT
108298849 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:108300366 original size:26 final size:26
Alignment explanation
Indices: 108300337--108300389 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
108300327 TTTACAGTTT
108300337 TACCCATAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* * *
108300363 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
108300389 T
1 T
108300390 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:108307059 original size:93 final size:93
Alignment explanation
Indices: 108306947--108307118 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
108306937 CGCCCATAAG
* * *
108306947 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
108307012 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
108307040 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
* *
108307105 ATGAGTTCGGATGC
66 ACGAGCTCGGATGC
108307119 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:108307115 original size:46 final size:46
Alignment explanation
Indices: 108306948--108307115 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
108306938 GCCCATAAGC
* * *
108306948 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
* * ** *
108306994 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCA-TAAAT
*
108307041 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
* *
108307087 GAACTCGGACTCAACTCAATGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
108307116 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 61 0.60
47 31 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
Found at i:108315503 original size:57 final size:57
Alignment explanation
Indices: 108315434--108315546 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
108315424 TTTACGTCCT
* * *
108315434 GTATCACGTGGCCCGGCTCAAGGAGTTTCGGAGAAAACGAGC-GGGATTTGGGCCGGC
1 GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGG-TTAGGGCCGGC
*
108315491 GTATCATGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGGTTAGGGCCGG
1 GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGGTTAGGGCCGG
108315547 TGTCCCCAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 48 0.94
58 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (57 bp):
GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCAGGGTTAGGGCCGGC
Found at i:108317796 original size:21 final size:21
Alignment explanation
Indices: 108317764--108317804 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
108317754 AGGCTCGAGG
108317764 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
108317785 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
108317805 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:108328354 original size:21 final size:21
Alignment explanation
Indices: 108328314--108328364 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
108328304 ATTTATAACA
* *
108328314 TATTCAATTCTCATCTCTTGC
1 TATTCAAATCTCATCACTTGC
108328335 TATTTCAAATCTCAT-ACTTGC
1 TA-TTCAAATCTCATCACTTGC
108328356 TATTCAAAT
1 TATTCAAAT
108328365 AACTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (21 bp):
TATTCAAATCTCATCACTTGC
Found at i:108328572 original size:37 final size:41
Alignment explanation
Indices: 108328520--108328619 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
108328510 AAGTAAAAAT
*
108328520 TTGACACCCAGTGTCTCATTG-GTTAAACTGAAGT-A-A-A
1 TTGACACCCAGTGTCTCATTGAATTAAACTGAAGTAATATA
* * *
108328557 TTGGCACCCAGTGTCTCATCGAATTAATCTGAAGTAATATA
1 TTGACACCCAGTGTCTCATTGAATTAAACTGAAGTAATATA
108328598 TTGACACCCAGTGTCTCATTGA
1 TTGACACCCAGTGTCTCATTGA
108328620 CTCGAAGTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 19 0.36
38 11 0.21
39 1 0.02
40 1 0.02
41 21 0.40
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (41 bp):
TTGACACCCAGTGTCTCATTGAATTAAACTGAAGTAATATA
Found at i:108328612 original size:41 final size:37
Alignment explanation
Indices: 108328520--108328616 Score: 122
Period size: 37 Copynumber: 2.5 Consensus size: 37
108328510 AAGTAAAAAT
* *
108328520 TTGACACCCAGTGTCTCATTGGTTAAACTGAAGTAAA
1 TTGACACCCAGTGTCTCATCGATTAAACTGAAGTAAA
* *
108328557 TTGGCACCCAGTGTCTCATCGAATTAATCTGAAGTAATATA
1 TTGACACCCAGTGTCTCATCG-ATTAAACTGAAGT-A-A-A
108328598 TTGACACCCAGTGTCTCAT
1 TTGACACCCAGTGTCTCAT
108328617 TGACTCGAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
37 19 0.37
38 11 0.22
39 1 0.02
40 1 0.02
41 19 0.37
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (37 bp):
TTGACACCCAGTGTCTCATCGATTAAACTGAAGTAAA
Found at i:108329502 original size:4 final size:4
Alignment explanation
Indices: 108329493--108329526 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
108329483 CTAGTTTCTC
108329493 CTTT CTTT CTTT CTTTT CTTT CTTT CCTTT CTTT
1 CTTT CTTT CTTT C-TTT CTTT CTTT -CTTT CTTT
108329527 TCTTCCTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:108329512 original size:9 final size:9
Alignment explanation
Indices: 108329493--108329530 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
108329483 CTAGTTTCTC
108329493 CTTTC-TTT
1 CTTTCTTTT
108329501 CTTTCTTTT
1 CTTTCTTTT
*
108329510 CTTTCTTTC
1 CTTTCTTTT
108329519 CTTTCTTTT
1 CTTTCTTTT
108329528 CTT
1 CTT
108329531 CCTGTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 5 0.19
9 22 0.81
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:108329512 original size:13 final size:13
Alignment explanation
Indices: 108329491--108329526 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
108329481 CTCTAGTTTC
108329491 TCCTTTCTTTCTT
1 TCCTTTCTTTCTT
*
108329504 TCTTTTCTTTCTT
1 TCCTTTCTTTCTT
108329517 TCCTTTCTTT
1 TCCTTTCTTT
108329527 TCTTCCTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TCCTTTCTTTCTT
Found at i:108330308 original size:15 final size:15
Alignment explanation
Indices: 108330261--108330309 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
108330251 TTTGATAAAC
*
108330261 TGAAAAATTAAGTGC
1 TGAAAAATTAAGTGT
*
108330276 TGAAAAAATAAGTGT
1 TGAAAAATTAAGTGT
*
108330291 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTGT
108330306 TGAA
1 TGAA
108330310 TTTAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.29
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:108340482 original size:33 final size:32
Alignment explanation
Indices: 108340415--108340500 Score: 77
Period size: 33 Copynumber: 2.6 Consensus size: 32
108340405 AGAAAATATT
* **
108340415 TTTTATAAAATTCTAAAATATATAATTATAAA
1 TTTTATAAAATTCAAAAATATATAAAAATAAA
*
108340447 TTTTA-AAAATTCAAAATAATATATAAAAATTAATT
1 TTTTATAAAATTC-AAA-AATATATAAAAA-TAA-A
108340482 TTTTATGAAAATT-AAAAAT
1 TTTTAT-AAAATTCAAAAAT
108340501 GTATTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
31 7 0.16
32 7 0.16
33 10 0.23
34 6 0.14
35 8 0.18
37 6 0.14
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (32 bp):
TTTTATAAAATTCAAAAATATATAAAAATAAA
Found at i:108340727 original size:18 final size:17
Alignment explanation
Indices: 108340688--108340740 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
108340678 AATTTTATTT
*
108340688 TTATA-ATTTTTTATAA
1 TTATATATTTTTTCTAA
108340704 TT-TATATTTTTTCTAGA
1 TTATATATTTTTTCTA-A
*
108340721 TTATATATATTTTCCTAA
1 TTATATAT-TTTTTCTAA
108340739 TT
1 TT
108340741 GTTATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 3 0.10
18 8 0.26
19 7 0.23
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATATATTTTTTCTAA
Found at i:108341772 original size:3 final size:3
Alignment explanation
Indices: 108341764--108341796 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
108341754 TAATTAGTAT
108341764 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
108341797 AAAAGCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:108341938 original size:3 final size:3
Alignment explanation
Indices: 108341930--108341973 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
108341920 CGTTTCATCA
108341930 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
108341974 CATTTTTAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:108343504 original size:45 final size:45
Alignment explanation
Indices: 108343453--108343538 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
108343443 TTCATCATCT
*
108343453 GAAATTGTGAACACGTCAATGGGATTCGGATTTGGGGTACCTTCA
1 GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACCTTCA
* *
108343498 GAAATTGTGACCGCGTCAATGGGATTCGGATTTAGGGTACC
1 GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACC
108343539 CAAAGCTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (45 bp):
GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACCTTCA
Found at i:108345480 original size:52 final size:52
Alignment explanation
Indices: 108345419--108345545 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 52
108345409 ATGTTGGCCG
* *
108345419 AATGTGTAAATTTTGCAAGTTAAAATTTGATAAATCAATACCAACA-TGACAA
1 AATGTGTAAATTTTGAAAGTTAAAATTTGATAAATCAAGACCAA-ATTGACAA
* * * * *
108345471 AATGTGTAAATGTTGTAGGTT-AAATTTGTTAAATTAAGACCAAATTGACAA
1 AATGTGTAAATTTTGAAAGTTAAAATTTGATAAATCAAGACCAAATTGACAA
108345522 AATGTGTAAACTTTT-AAAGTTAAA
1 AATGTGTAAA-TTTTGAAAGTTAAA
108345546 TTGGTTATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
50 1 0.02
51 39 0.62
52 23 0.37
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (52 bp):
AATGTGTAAATTTTGAAAGTTAAAATTTGATAAATCAAGACCAAATTGACAA
Found at i:108359463 original size:20 final size:20
Alignment explanation
Indices: 108359438--108359475 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
108359428 CTAATCTTAA
108359438 AATATGAAAGACAA-AACTCT
1 AATATGAAA-ACAATAACTCT
108359458 AATATGAAAACAATAACT
1 AATATGAAAACAATAACT
108359476 AGTTACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AATATGAAAACAATAACTCT
Found at i:108367943 original size:16 final size:14
Alignment explanation
Indices: 108367922--108367969 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 14
108367912 CAAAAATTTA
108367922 AAATAAATCATAAAAT
1 AAATAAAT-A-AAAAT
108367938 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
108367952 -AATACATAAAATAT
1 AAATAAATAAAA-AT
108367966 AAAT
1 AAAT
108367970 TTTAACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 10 0.34
14 7 0.24
15 4 0.14
16 8 0.28
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:108367949 original size:13 final size:13
Alignment explanation
Indices: 108367920--108367964 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
108367910 TGCAAAAATT
108367920 TAAAATAAAT-CA
1 TAAAATAAATACA
*
108367932 TAAAATAAATAAA
1 TAAAATAAATACA
108367945 TAAAA-ATAATACA
1 TAAAATA-AATACA
108367958 TAAAATA
1 TAAAATA
108367965 TAAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.39
13 16 0.57
14 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAATACA
Found at i:108368061 original size:5 final size:5
Alignment explanation
Indices: 108368051--108368097 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
108368041 TTACAATTAA
* * *
108368051 AATAT AATAT AATAT AAAAT AATA- ATGTAT AATAA AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT AATAT AA
108368098 AATAGTAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:108368090 original size:30 final size:30
Alignment explanation
Indices: 108368051--108368110 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
108368041 TTACAATTAA
*
108368051 AATATAATATAATATAAAATAATAATGTAT
1 AATAAAATATAATATAAAATAATAATGTAT
*
108368081 AATAAAATATAATATAAAATAGTAATGTAT
1 AATAAAATATAATATAAAATAATAATGTAT
108368111 GCCCATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
AATAAAATATAATATAAAATAATAATGTAT
Found at i:108368471 original size:44 final size:41
Alignment explanation
Indices: 108368409--108368495 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
108368399 GAAACAAATA
* *
108368409 ATATACATAAATAGATTTAAAAGAAAATATACATATATATAT
1 ATATACATAAATAAATTTAAAAGAAAATATACACATATA-AT
*
108368451 ATATACATGTAAATAAATTTAAAAGAAAATATCCACATATAAT
1 ATATACA--TAAATAAATTTAAAAGAAAATATACACATATAAT
108368494 AT
1 AT
108368496 GAAATCAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 7 0.17
43 4 0.10
44 29 0.73
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (41 bp):
ATATACATAAATAAATTTAAAAGAAAATATACACATATAAT
Found at i:108369945 original size:22 final size:19
Alignment explanation
Indices: 108369920--108369962 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
108369910 TTTTATTTAA
108369920 TTTGGATTTATGATTTATTATT
1 TTTGGATTT-T-A-TTATTATT
*
108369942 TTTGGGTTTTATTATTATT
1 TTTGGATTTTATTATTATT
108369961 TT
1 TT
108369963 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
20 1 0.05
21 1 0.05
22 8 0.40
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (19 bp):
TTTGGATTTTATTATTATT
Done.