Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 68 of 335
Found at i:23383201 original size:25 final size:25
Alignment explanation
Indices: 23383166--23383245 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
23383156 TGAATAAATT
23383166 AAAAATATTTAATTTATATAATATAA
1 AAAAAT-TTTAATTTATATAATATAA
*
23383192 AAAAATTTTAACTATTAAATAAT-TATA
1 AAAAATTTTAA-T-TTATATAATATA-A
* *
23383219 AAAAATTCTTAATTAATATGATA-AA
1 AAAAATT-TTAATTTATATAATATAA
23383244 AA
1 AA
23383246 TATTAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
25 8 0.18
26 16 0.36
27 17 0.38
28 4 0.09
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (25 bp):
AAAAATTTTAATTTATATAATATAA
Found at i:23383845 original size:17 final size:17
Alignment explanation
Indices: 23383808--23383840 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23383798 CAAATTAATC
23383808 AATA-TATCTTTTTTTA
1 AATATTATCTTTTTTTA
23383824 AATATTATCTATTTTTT
1 AATATTATCT-TTTTTT
23383841 TATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
AATATTATCTTTTTTTA
Found at i:23387063 original size:28 final size:27
Alignment explanation
Indices: 23387023--23387078 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
23387013 CTATTATTTG
*
23387023 ATTTTTATATAAATTTTTAATAAGTGT
1 ATTTTTACATAAATTTTTAATAAGTGT
* *
23387050 ATTTATTACATAAATTTTTTATCAGTGT
1 ATTT-TTACATAAATTTTTAATAAGTGT
23387078 A
1 A
23387079 ATATAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (27 bp):
ATTTTTACATAAATTTTTAATAAGTGT
Found at i:23396185 original size:53 final size:57
Alignment explanation
Indices: 23396119--23396235 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
23396109 TTTTTTTATC
*
23396119 TTTTTTTGTTAGGTTTTTC-TTTT-TTCTTCTTT-TTT-TTTTTTTTTTGGGTTAGG
1 TTTTTTTGGTAGGTTTTTCTTTTTCTTCTTCTTTCTTTGTTTTTTTTTTGGGTTAGG
* *
23396172 TTTTTTTGGTAGGTTTTTCTTTTTCTTTTTTTTTCTTTGTTTTTTTTTTGGGTTAGG
1 TTTTTTTGGTAGGTTTTTCTTTTTCTTCTTCTTTCTTTGTTTTTTTTTTGGGTTAGG
23396229 TTTTTTT
1 TTTTTTT
23396236 TTAGGGGGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
53 18 0.32
54 4 0.07
55 7 0.12
56 3 0.05
57 25 0.44
ACGTcount: A:0.03, C:0.05, G:0.15, T:0.76
Consensus pattern (57 bp):
TTTTTTTGGTAGGTTTTTCTTTTTCTTCTTCTTTCTTTGTTTTTTTTTTGGGTTAGG
Found at i:23396204 original size:16 final size:15
Alignment explanation
Indices: 23396185--23396220 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
23396175 TTTTGGTAGG
*
23396185 TTTTTCTTTTTCTTTT
1 TTTTTCTTTGT-TTTT
23396201 TTTTTCTTTGTTTTT
1 TTTTTCTTTGTTTTT
23396216 TTTTT
1 TTTTT
23396221 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTCTTTGTTTTT
Found at i:23396974 original size:88 final size:83
Alignment explanation
Indices: 23396867--23397444 Score: 288
Period size: 88 Copynumber: 7.0 Consensus size: 83
23396857 AACAGACATT
** * *
23396867 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
23396932 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
23396955 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
23397019 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
23397038 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
***
23397099 ATGAGTTGAATTTTTTTTGAAA---
60 ATGAGTTG-ATTTTTTGAAAAACTG
** * *
23397121 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
23397186 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * *
23397209 AAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
23397274 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
23397292 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
23397352 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
23397369 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
23397430 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
23397445 CAGAAATTGA
Statistics
Matches: 380, Mismatches: 75, Indels: 80
0.71 0.14 0.15
Matches are distributed among these distances:
76 9 0.02
77 47 0.12
78 2 0.01
79 58 0.15
80 8 0.02
81 11 0.03
82 37 0.10
83 14 0.04
84 41 0.11
85 9 0.02
86 10 0.03
87 13 0.03
88 115 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:23397071 original size:30 final size:30
Alignment explanation
Indices: 23397035--23397096 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
23397025 TTTTGAAAAA
23397035 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
23397065 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
23397095 CA
1 CA
23397097 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:23397215 original size:14 final size:14
Alignment explanation
Indices: 23397192--23397226 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23397182 TGAGTTGATT
23397192 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
23397205 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
23397219 TTTGAAAA
1 TTTGAAAA
23397227 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:23397527 original size:72 final size:73
Alignment explanation
Indices: 23397244--23397584 Score: 380
Period size: 72 Copynumber: 4.5 Consensus size: 73
23397234 ACATGTAACC
* * * *
23397244 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
23397309 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
23397322 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
23397387 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
23397400 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
23397465 ACGTGTCT
66 GCGTGTCT
* ** * * *
23397473 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
23397537 GCGTGTCC
66 GCGTGTCT
23397545 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
23397585 TTTTTTGAAA
Statistics
Matches: 224, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
72 65 0.29
73 33 0.15
75 21 0.09
76 10 0.04
77 41 0.18
78 5 0.02
79 49 0.22
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:23397616 original size:14 final size:14
Alignment explanation
Indices: 23397599--23397637 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
23397589 TTGAAATGCA
23397599 GAAATTGAAAAATG
1 GAAATTGAAAAATG
23397613 GAAATTGAAAAATG
1 GAAATTGAAAAATG
23397627 GAAATTGAAAA
1 GAAATTGAAAA
23397638 TACCTCGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
GAAATTGAAAAATG
Found at i:23397719 original size:76 final size:74
Alignment explanation
Indices: 23397627--23397788 Score: 211
Period size: 74 Copynumber: 2.1 Consensus size: 74
23397617 TTGAAAAATG
* *
23397627 GAAATTGAAAATACCTC-GACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACT
1 GAAATTGAAAATACCTCAG-CGTGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGACT
23397691 TTTTTGACAACA
63 TTTTTGACAACA
* * *
23397703 GAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTT
23397768 TTGA-AAGGCA
66 TTGACAA--CA
*
23397778 AAAATTGAAAA
1 GAAATTGAAAA
23397789 ACGGAAATTG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
73 2 0.03
74 41 0.54
75 11 0.14
76 21 0.28
77 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (74 bp):
GAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTT
TTGACAACA
Found at i:23397769 original size:184 final size:168
Alignment explanation
Indices: 23397441--23397931 Score: 609
Period size: 165 Copynumber: 2.9 Consensus size: 168
23397431 TGATTTTTTG
* * * ** * *
23397441 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
23397504 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
23397568 ATATGAGTTGATTTTTTTTTTTTGAAATGCAGAAATTGAAAAATGGAAATTGA
131 ATATGAGTTGA-TTTTTTTTTTTGAAA-G--G-----CAAAAAT-G-----GA
*
23397621 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
23397686 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
23397751 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATGGA
* * * * *
23397786 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTGGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
23397851 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
23397916 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
23397932 GAAAAAGTAG
Statistics
Matches: 281, Mismatches: 22, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
165 136 0.48
171 6 0.02
176 1 0.00
178 1 0.00
179 11 0.04
180 27 0.10
181 1 0.00
182 30 0.11
184 68 0.24
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATGGA
Found at i:23397925 original size:74 final size:75
Alignment explanation
Indices: 23397792--23397931 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
23397782 TTGAAAAACG
* * *
23397792 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTGGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
23397857 TTTTGACAACA
65 TTTTGACAACA
* * *
23397868 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
23397932 GAAAAAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 36 0.62
76 22 0.38
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:23398130 original size:72 final size:71
Alignment explanation
Indices: 23397996--23398161 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
23397986 TGAACAACGT
* * * *
23397996 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
23398061 GAGTTG
66 GAGTTG
*
23398067 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
23398132 TGAGTTG
65 TGAGTTG
**
23398139 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
23398162 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:23398304 original size:71 final size:71
Alignment explanation
Indices: 23398161--23398424 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
23398151 AAAAATTAAA
* * * * *
23398161 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
23398224 GCCCCG
66 GCCCCG
* *
23398230 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
23398295 GTCTTG
66 GCCCCG
* * *
23398301 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
23398364 TGCCCCG
65 TGCCCCG
*
23398371 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
23398425 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:23398382 original size:70 final size:69
Alignment explanation
Indices: 23398161--23398424 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
23398151 AAAAATTAAA
* ** * * *
23398161 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
23398226 CCCG
66 CCCG
* * *
23398230 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
23398295 GTCTTG
64 GCCCCG
* *
23398301 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
23398366 CCCCG
65 CCCCG
*
23398371 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
23398425 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:23398407 original size:263 final size:257
Alignment explanation
Indices: 23397999--23398591 Score: 1042
Period size: 257 Copynumber: 2.3 Consensus size: 257
23397989 ACAACGTAAA
* * * * * *
23397999 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
23398064 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
23398129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
23398194 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
23398259 TGATT
253 TGATT
23398264 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
23398329 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
23398394 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
23398459 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
23398521 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
23398586 TTGATT
66 TTGATT
23398592 TTTCTTGAAA
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 130 0.41
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:23405377 original size:2 final size:2
Alignment explanation
Indices: 23405364--23405394 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23405354 TAAAACATAC
*
23405364 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23405395 CATGACATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:23405907 original size:11 final size:11
Alignment explanation
Indices: 23405891--23405920 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23405881 TAACATTAAG
23405891 AATATATATAT
1 AATATATATAT
*
23405902 AATATAAATAT
1 AATATATATAT
23405913 AATATATA
1 AATATATA
23405921 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:23406783 original size:16 final size:16
Alignment explanation
Indices: 23406764--23406798 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23406754 TTTTGGTAGG
23406764 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTATT-TTTT
23406780 TTTTTCTTTATTTTTT
1 TTTTTCTTTATTTTTT
23406796 TTT
1 TTT
23406799 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTATTTTTT
Found at i:23409007 original size:24 final size:27
Alignment explanation
Indices: 23408960--23409008 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
23408950 TTATTTATAA
*
23408960 AATATTTAAATAAAACAATTAAAACTC
1 AATATTTAAATAAAACAATCAAAACTC
23408987 AATATTT-AA-AAAA-AATCAAAAC
1 AATATTTAAATAAAACAATCAAAAC
23409009 ATGGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 4 0.19
26 2 0.10
27 7 0.33
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (27 bp):
AATATTTAAATAAAACAATCAAAACTC
Found at i:23414248 original size:42 final size:42
Alignment explanation
Indices: 23414189--23414278 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
23414179 GGATTATATC
23414189 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
1 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
*
23414231 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTGAAGAG
1 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
23414273 AGAAAT
1 AGAAAT
23414279 TATAGTATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (42 bp):
AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTAAAGAG
Found at i:23416227 original size:60 final size:60
Alignment explanation
Indices: 23416134--23416253 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
23416124 GGCTATAATG
23416134 CCCTTTTAAGACGAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
1 CCCTTTTAAGACGAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
* *
23416194 CCCTTTTAAGAC-ATAAAACCTTTCTCCTATATAAAGAGAAGTCTTTGAGTTTTGAGAGAC
1 CCCTTTTAAGACGA-AAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
23416254 ATTGTTGAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
59 1 0.02
60 56 0.98
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (60 bp):
CCCTTTTAAGACGAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
Found at i:23419462 original size:18 final size:18
Alignment explanation
Indices: 23419441--23419497 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
23419431 TATTTATTTA
23419441 GTAATAATCAGTTATTCG
1 GTAATAATCAGTTATTCG
* * *
23419459 GTAACAATCAATTATTCA
1 GTAATAATCAGTTATTCG
*
23419477 ATAATAATCAGTTATTCG
1 GTAATAATCAGTTATTCG
23419495 GTA
1 GTA
23419498 TCAATGAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (18 bp):
GTAATAATCAGTTATTCG
Found at i:23419511 original size:26 final size:25
Alignment explanation
Indices: 23419474--23419540 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
23419464 AATCAATTAT
* *
23419474 TCAATAA-TAATCAGTTATTCGGTA
1 TCAATAATTAATCAGTTATCCAGTA
*
23419498 TCAATGAATTAATCGGTTATCCAGTA
1 TCAAT-AATTAATCAGTTATCCAGTA
* *
23419524 ACAATCAATTATTCAGT
1 TCAAT-AATTAATCAGT
23419541 AAAAATCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 5 0.15
25 2 0.06
26 27 0.79
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (25 bp):
TCAATAATTAATCAGTTATCCAGTA
Found at i:23419535 original size:18 final size:18
Alignment explanation
Indices: 23419514--23419581 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
23419504 AATTAATCGG
23419514 TTATCCAGTAACAATCAA
1 TTATCCAGTAACAATCAA
* *
23419532 TTATTCAGTAAAAATCAA
1 TTATCCAGTAACAATCAA
* * * *
23419550 ATATACAGTAATAATTAAA
1 TTATCCAGTAACAA-TCAA
*
23419569 TTTTCCAGTAACA
1 TTATCCAGTAACA
23419582 GTCGATCTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 27 0.69
19 12 0.31
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (18 bp):
TTATCCAGTAACAATCAA
Found at i:23419762 original size:53 final size:54
Alignment explanation
Indices: 23419697--23419814 Score: 186
Period size: 53 Copynumber: 2.2 Consensus size: 54
23419687 CCGAAGCTGG
23419697 AACAGTAACAGTACGGTACACGGAGTACCTCATCGGAACAAAT-TCG-AAACAGT
1 AACAGTAACAGTACGGTACACGGAGTACCTCATCGGAACAAATCT-GAAAACAGT
* *
23419750 AGCAGTAACAGTATGGTACACGGAGTACCTCATCGGAACAAATCTGAAAAACAGT
1 AACAGTAACAGTACGGTACACGGAGTACCTCATCGGAACAAATCTG-AAAACAGT
23419805 AACAGTAACA
1 AACAGTAACA
23419815 ACATCCGACA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
53 42 0.71
54 1 0.02
55 16 0.27
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (54 bp):
AACAGTAACAGTACGGTACACGGAGTACCTCATCGGAACAAATCTGAAAACAGT
Found at i:23419857 original size:12 final size:12
Alignment explanation
Indices: 23419840--23419864 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23419830 AGTGCCGAAT
23419840 CGGTAACAGTAA
1 CGGTAACAGTAA
23419852 CGGTAACAGTAA
1 CGGTAACAGTAA
23419864 C
1 C
23419865 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:23424757 original size:495 final size:496
Alignment explanation
Indices: 23423778--23424774 Score: 1394
Period size: 495 Copynumber: 2.0 Consensus size: 496
23423768 CAACCAACAA
* * *
23423778 ATATTTCAACTCCATCAATTGCATTTTACCCAGTGTTATTTTACATATCATGTATCAGATAATAT
1 ATATTTCAACTCCATCAATTGCATTTTACCAAATGTTATTTTACATATCACGTATCAGATAATAT
* * * ** * *
23423843 ATCATAAATCATGAAAAGAAACATAATGTGTTTTCATTAATCTAACATTCATTCCACCTTCCAAA
66 ATCAAAAATCATAAAAAGAAACATAAAGCATTTCCATT-ATCTAACATTCACTCCACCTTCCAAA
23423908 CTTGTCATTGGAGTTTCCTAAGCAATACTAAATTCAAATTTATGAATTTAAATTCCAAATCTATA
130 CTTGTCATTGGAGTTTCCTAAGCAATACTAAATTCAAATTTATGAATTTAAATTCCAAATCTATA
** *
23423973 ATACTTTGAGGATTTATTGCATTGAAATAGAGAGCCAAAGAAAAATGACATAGCATACATATGCT
195 ATACTTCAAGGACTTATTGCATTGAAATAGAGAGCCAAAGAAAAATGACATAGCATACATATGCT
* ** *** *
23424038 TCAAGTTGTGAAGAGGGCAATTTGTTTCTCTAAGACACAGGCAATGATTATAATGCCATTTTAAG
260 TCAAGTTGTGAAGAGAGCAATTCATTTCTCTAAGACACAAAAAATGATTATAATGCCATTTTAAC
* * * * *
23424103 ACATGAAACATTACTTCTATACAAAGAGAAGTTACTAAATTTTGGGAGACATTGCTGAAGATAGA
325 ACATAAAACATTACTCCTATACAAAGAGAAGTCACTAAATTTTGAGAGACATTGCTGAAGACAGA
* *
23424168 TTTGTGTAAGTTGCGGAGAAGTGTGGCCTTAGCATTCTCTTTCTAGCTAGTTTCTAAAGGTTCTT
390 TTTGTGTAAGTTGCGAAGAAGTATGGCCTTAGCATTCTCTTTCTAGCTAGTTTCTAAAGGTTCTT
*
23424233 TAATCTTTTCTCTTCATTTGTTTTTTTTTTCCACTACTACAT
455 TAATCTTTTCTCTTCATTTGTTTTTTTTTTCCACAACTACAT
* * * * **
23424275 ATATCTTCAACTCCATCAATTGTA-TTTATCAAATGTTATTTTACATATCACGTGTTAGATGCTA
1 ATAT-TTCAACTCCATCAATTGCATTTTACCAAATGTTATTTTACATATCACGTATCAGATAATA
** *
23424339 TATCAAAAATCATAAAAAGAAATGTAAAGCATTTCCA-T-TCTAACTTTCACTCCACCTTCCAAA
65 TATCAAAAATCATAAAAAGAAACATAAAGCATTTCCATTATCTAACATTCACTCCACCTTCCAAA
*
23424402 CTTGTCATTTGAGTTTCCTAAGCAATACTAAA-TCTAAATTTATGAATTTAAATTCCAAAATCTA
130 CTTGTCATTGGAGTTTCCTAAGCAATACTAAATTC-AAATTTATGAATTTAAATTCC-AAATCTA
** * * *
23424466 TAATACTTCAAGGACTTATTGCATTGAAATAGAGAGTTATAGAAAAATTACATGGCATACATATG
193 TAATACTTCAAGGACTTATTGCATTGAAATAGAGAGCCAAAGAAAAATGACATAGCATACATATG
* * * * *
23424531 CTTCATGTTGTGAATAGAGCAATTCATTTCTCTAAGACATAAAAAATTATTATAATGCCGTTTTA
258 CTTCAAGTTGTGAAGAGAGCAATTCATTTCTCTAAGACACAAAAAATGATTATAATGCCATTTTA
* * * *
23424596 ACACATAAAACTTTTCTCCTATACAAAGAGAAGTCACTAAGTTTTGAGAGACATTGTTGAAGACA
323 ACACATAAAACATTACTCCTATACAAAGAGAAGTCACTAAATTTTGAGAGACATTGCTGAAGACA
* *
23424661 GATTT-TGTAAGTTGCGAAGGAAGTAATGGCTTTAGCATTCTCTTTCTAGCTAGTTTCTATAGGT
388 GATTTGTGTAAGTTGCGAA-GAAGT-ATGGCCTTAGCATTCTCTTTCTAGCTAGTTTCTAAAGGT
*
23424725 TCTTTAAT-TTTTGCTCTTCATTTGTTTTTTTTTTCCACAACTTCAT
451 TCTTTAATCTTTT-CTCTTCATTTGTTTTTTTTTTCCACAACTACAT
23424771 ATAT
1 ATAT
23424775 AATCAAATAT
Statistics
Matches: 439, Mismatches: 55, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
493 2 0.00
494 87 0.20
495 187 0.43
496 80 0.18
497 65 0.15
498 18 0.04
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (496 bp):
ATATTTCAACTCCATCAATTGCATTTTACCAAATGTTATTTTACATATCACGTATCAGATAATAT
ATCAAAAATCATAAAAAGAAACATAAAGCATTTCCATTATCTAACATTCACTCCACCTTCCAAAC
TTGTCATTGGAGTTTCCTAAGCAATACTAAATTCAAATTTATGAATTTAAATTCCAAATCTATAA
TACTTCAAGGACTTATTGCATTGAAATAGAGAGCCAAAGAAAAATGACATAGCATACATATGCTT
CAAGTTGTGAAGAGAGCAATTCATTTCTCTAAGACACAAAAAATGATTATAATGCCATTTTAACA
CATAAAACATTACTCCTATACAAAGAGAAGTCACTAAATTTTGAGAGACATTGCTGAAGACAGAT
TTGTGTAAGTTGCGAAGAAGTATGGCCTTAGCATTCTCTTTCTAGCTAGTTTCTAAAGGTTCTTT
AATCTTTTCTCTTCATTTGTTTTTTTTTTCCACAACTACAT
Found at i:23431564 original size:61 final size:61
Alignment explanation
Indices: 23431458--23431575 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
23431448 AATGATTTTT
* * ** * *
23431458 AAATTTTTAGAGTTAGGACTAAATTGACAGGTTTTGTAAGTATTGAGGGCCAAATTTATTA
1 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCCAAATTTATTA
*
23431519 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCTAAATTT
1 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCCAAATTT
23431576 GTTGAATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (61 bp):
AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCCAAATTTATTA
Found at i:23431597 original size:61 final size:61
Alignment explanation
Indices: 23431458--23431589 Score: 158
Period size: 61 Copynumber: 2.2 Consensus size: 61
23431448 AATGATTTTT
* * * ** * *
23431458 AAATTTTTAGAGTTAGGACTAAATTGACAGGTTTTGTAAGTATTGAGGGCCAAATTTATTA
1 AAATTTTTAAAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCCAAATTTATTA
* * *
23431519 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCTAAATTTGTT-
1 AAATTTTTAAAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCCAAATTTATTA
*
23431579 GAATTTTTAAA
1 AAATTTTTAAA
23431590 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 9 0.15
61 52 0.85
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (61 bp):
AAATTTTTAAAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCCAAATTTATTA
Found at i:23432880 original size:42 final size:42
Alignment explanation
Indices: 23432821--23432906 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
23432811 GCCCGACCCG
23432821 TATCCAAGGAAGGATCCGCGCACTTCCCATCATTGGGATATT
1 TATCCAAGGAAGGATCCGCGCACTTCCCATCATTGGGATATT
*
23432863 TATCCAAGGAAGGATCCGCGCACTTCCCATTATTGGGATATT
1 TATCCAAGGAAGGATCCGCGCACTTCCCATCATTGGGATATT
23432905 TA
1 TA
23432907 CGCGCTGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (42 bp):
TATCCAAGGAAGGATCCGCGCACTTCCCATCATTGGGATATT
Found at i:23444476 original size:89 final size:88
Alignment explanation
Indices: 23444300--23444502 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 88
23444290 CTACGAATTT
* * * *
23444300 TGGCAAATCTTATCTTCCTGAAGTAGCAGTGAAGCGGATCAGAGCCACTAACCTGATCTCCTTGA
1 TGGCAAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATCAGAGCCACTAACCTGATCTCCTCGA
* *
23444365 AGTTGCAGTGGAATAGACTGAAG
66 AGATACAGTGGAATAGACTGAAG
* * * *
23444388 ATGGCGAATCTTGTCTTCCTAAAGTTGCAGTGAAGTAGATC-GAAGCCACTAACCTTATCTCCTC
1 -TGGCAAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATCAG-AGCCACTAACCTGATCTCCTC
* **
23444452 GAAGATAC-GATGGAGTAGGTTGAAG
64 GAAGATACAG-TGGAATAGACTGAAG
** *
23444477 TTACAAATCTTATCTCCCTAAAGTTG
1 TGGCAAATCTTATCTTCCTAAAGTTG
23444503 TAGCGGGGCA
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
88 23 0.24
89 71 0.76
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
TGGCAAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATCAGAGCCACTAACCTGATCTCCTCGA
AGATACAGTGGAATAGACTGAAG
Found at i:23444644 original size:41 final size:41
Alignment explanation
Indices: 23444582--23444733 Score: 250
Period size: 41 Copynumber: 3.7 Consensus size: 41
23444572 ATTACAAATA
* *
23444582 TTATCTCTCTGAAGTTTCAGTACAGCAGATCAAAACAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTC
23444623 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTC
* * *
23444664 TTATCTCTCTGAAGTTGCAGTAGAGCAAATCAAAATAAATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTC
*
23444705 TTATCTCCCTGAAGTTGCAGTAGAGCAGA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGA
23444734 CTGGAGATGG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (41 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTC
Found at i:23445586 original size:22 final size:22
Alignment explanation
Indices: 23445561--23445602 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23445551 TCATTCTCTT
* *
23445561 TTTTTCTCTTTTTTTTTCTTTA
1 TTTTTCTATTTTCTTTTCTTTA
*
23445583 TTTTTTTATTTTCTTTTCTT
1 TTTTTCTATTTTCTTTTCTT
23445603 CTAAAATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTATTTTCTTTTCTTTA
Found at i:23446521 original size:3 final size:3
Alignment explanation
Indices: 23446506--23446613 Score: 112
Period size: 3 Copynumber: 34.3 Consensus size: 3
23446496 ATCATTACTG
*
23446506 TTA TTA GTA TTA TTA TTA TT- TTA TTCA TTA GTCTA TTTA GTTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -T-TA -TTA -TTA T-TA
**
23446553 TTCA TT- TGC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23446598 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
23446614 ATTGTCTTAC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
2 3 0.03
3 70 0.77
4 15 0.16
5 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:23446943 original size:21 final size:22
Alignment explanation
Indices: 23446907--23446952 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
23446897 TTTAACCCCT
* *
23446907 TTTATATATCATTTTTGAATTA
1 TTTATATATCATTTTTAAACTA
*
23446929 TTTATAT-TTATTTTTAAACTA
1 TTTATATATCATTTTTAAACTA
23446950 TTT
1 TTT
23446953 TTCATAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTATATATCATTTTTAAACTA
Found at i:23450913 original size:2 final size:2
Alignment explanation
Indices: 23450908--23450938 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23450898 GAAAAAAAAA
*
23450908 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23450939 AAGATTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23453037 original size:21 final size:22
Alignment explanation
Indices: 23453008--23453050 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23452998 TTAATTGAAA
*
23453008 ATTTGTAAT-ATGTTTTTAACAT
1 ATTTGTAATCAT-TTTTAAACAT
23453030 ATTT-TAATCATTTTTAAACAT
1 ATTTGTAATCATTTTTAAACAT
23453051 TTAACTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTGTAATCATTTTTAAACAT
Found at i:23454313 original size:8 final size:8
Alignment explanation
Indices: 23454300--23454338 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
23454290 AAACAATACT
23454300 ATATATAA
1 ATATATAA
23454308 ATATATAA
1 ATATATAA
*
23454316 ATATATAT
1 ATATATAA
*
23454324 ATACATAA
1 ATATATAA
*
23454332 AAATATA
1 ATATATA
23454339 CACTAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:23454402 original size:130 final size:134
Alignment explanation
Indices: 23454122--23454365 Score: 302
Period size: 130 Copynumber: 1.8 Consensus size: 134
23454112 GGTTGGATAT
* * * *
23454122 AATGATAATAATAGTAATATTAAAGTAAAGTAAATAATAATACTATATATAAAAAACATATATAT
1 AATGATAAT-ATAATAATATTAAAGTAAAGTAAATAATAAAACAATATATAAAAAACATATATAA
* * * *
23454187 ATATGTATATAATAGAAATACACACTACTATATAATAATAATAATAATAAATATAGAAATACAAA
65 ATATATATATAATAAAAATACACACTAATATATAATAATAATAATAATAAACATAGAAATACAAA
23454252 AAGTA
130 AAGTA
* * *
23454257 AAT-ATAATA-AA-AATATTAAATTAAAGT-AATAA-AAAACAATACTATATATAA-ATATATAA
1 AATGATAATATAATAATATTAAAGTAAAGTAAATAATAAAACAATA-TATAAAAAACATATATAA
* *
23454316 ATATATATATACATAAAAATATACACTAATATATAATAATAATAGTAATA
65 ATATATATATA-ATAAAAATACACACTAATATATAATAATAATAATAATA
23454366 GCAAAAATAA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
129 24 0.25
130 46 0.48
131 15 0.16
132 1 0.01
133 1 0.01
134 5 0.05
135 3 0.03
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (134 bp):
AATGATAATATAATAATATTAAAGTAAAGTAAATAATAAAACAATATATAAAAAACATATATAAA
TATATATATAATAAAAATACACACTAATATATAATAATAATAATAATAAACATAGAAATACAAAA
AGTA
Found at i:23454551 original size:9 final size:9
Alignment explanation
Indices: 23454539--23454648 Score: 62
Period size: 9 Copynumber: 11.2 Consensus size: 9
23454529 TAATGATAGT
23454539 AATAATATA
1 AATAATATA
*
23454548 AATAAATATGG
1 AAT-AATAT-A
*
23454559 AGTAGATATA
1 AATA-ATATA
*
23454569 TATAATATAA
1 AATAATAT-A
23454579 TAATAATATA
1 -AATAATATA
23454589 AATAATAATA
1 AATAAT-ATA
* *
23454599 TATACATGAGA
1 AATA-AT-ATA
23454610 AATAATA-A
1 AATAATATA
23454618 TAATAATATA
1 -AATAATATA
23454628 AATAATAGTA
1 AATAATA-TA
23454638 AA-AATAATA
1 AATAAT-ATA
23454647 AA
1 AA
23454649 ATAAAAAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
8 1 0.01
9 35 0.44
10 24 0.30
11 20 0.25
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:23454583 original size:3 final size:3
Alignment explanation
Indices: 23454570--23454652 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
23454560 GTAGATATAT
23454570 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
23454614 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
23454653 AAAAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:23454594 original size:12 final size:12
Alignment explanation
Indices: 23454570--23454653 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
23454560 GTAGATATAT
23454570 ATAATAT-AATA
1 ATAATATAAATA
23454581 ATAATATAAATA
1 ATAATATAAATA
23454593 ATAATATATACATGA
1 ATAATATA-A-AT-A
23454608 GA-AATA-ATAATA
1 -ATAATATA-AATA
23454620 ATAATATAAATA
1 ATAATATAAATA
* *
23454632 ATAGTAAAAATA
1 ATAATATAAATA
*
23454644 ATAAAATAAA
1 ATAATATAAA
23454654 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:23454614 original size:21 final size:18
Alignment explanation
Indices: 23454575--23454634 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
23454565 TATATATAAT
*
23454575 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
23454593 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
23454614 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
23454632 ATA
1 ATA
23454635 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:23455195 original size:30 final size:30
Alignment explanation
Indices: 23455161--23455246 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
23455151 ATTTGATGGT
*
23455161 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
23455191 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
23455221 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
23455247 CTAGGGTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.24, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:23455244 original size:18 final size:18
Alignment explanation
Indices: 23455193--23455245 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
23455183 GTGGTGGAGT
23455193 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
23455211 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
23455223 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
23455241 AGGTG
1 AGGTG
23455246 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:23455895 original size:79 final size:79
Alignment explanation
Indices: 23455764--23456034 Score: 364
Period size: 79 Copynumber: 3.3 Consensus size: 79
23455754 TTCAGCTTGG
* * * *
23455764 TACCCTACTGCTTAGGGGTTTAAAGCTTGTC-ACATTCGATCTGTTTCCCTACTGTTTAGGGTCT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTC-TTTGATCTGTTTCCCTACTGTTTAGGGTCT
23455828 GTAAATTTAACCTGT
65 GTAAATTTAACCTGT
23455843 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTACTGTTTAGGGTCTG
1 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTACTGTTTAGGGTCTG
*
23455908 TAAATTTAACATGT
66 TAAATTTAACCTGT
* * *
23455922 TACCCCACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGACCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTACTGTTTA---GG--
* *
23455987 AAGATCTGTAAATTCAGCCTGT
61 --G-TCTGTAAATTTAACCTGT
23456009 TACCCTACTGCTTAGGGGTTTAAGGC
1 TACCCTACTGCTTAGGGGTTTAAGGC
23456035 CCATCAGCTT
Statistics
Matches: 171, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
79 127 0.74
80 1 0.01
82 2 0.01
86 1 0.01
87 40 0.23
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (79 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTACTGTTTAGGGTCTG
TAAATTTAACCTGT
Found at i:23456111 original size:42 final size:41
Alignment explanation
Indices: 23455956--23456503 Score: 245
Period size: 42 Copynumber: 12.8 Consensus size: 41
23455946 GCTTATCGTC
* * * *
23455956 TTTGACCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAA
1 TTTGATCTGTTACCCTACTGCTTA-GGGGTTAAAATCTGCAA
* * * * *
23455998 ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAGC--
1 TTTGA-TCTGTTACCCTACTGCTTAGGGG-TTAA----AATCTGCAA
* * *
23456043 TTCGATCTGCT-CCACTACTGCTTAGGGAGATAAAATCTGCAA
1 TTTGATCTGTTACC-CTACTGCTTAGGG-GTTAAAATCTGCAA
* ** * *
23456085 TTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTC-G
1 TTTGATCTGTTACCCTACTGCTTAGGGG-TTAA-AATCTGCAA
* * *
23456127 TCTTCGATCTGTTTCCCTACTG-TATAGGGGGTTAAGATCTGGAA
1 T-TT-GATCTGTTACCCTACTGCT-TA-GGGGTTAAAATCTGCAA
* ** * *
23456171 TTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTC-G
1 TTTGATCTGTTACCCTACTGCTTAGGGG-TTAA-AATCTGCAA
* * *
23456213 TCTTCGATCTGCT-CCACTACTGCTTAGGGAGATAAAATTTGCAA
1 T-TT-GATCTGTTACC-CTACTGCTTAGGG-GTTAAAATCTGCAA
* * ** * *
23456257 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTC-G
1 TTTGATCTGTTACCCTACTGCTTAGGGG-TTAA-AATCTGCAA
* * *
23456299 TCTTCGATCTGCT-CCACTACTGCTTAGGGAGATAAGATCTGCAA
1 T-TT-GATCTGTTACC-CTACTGCTTAGGG-GTTAAAATCTGCAA
* ** * *
23456343 TTTGATCTGTTACCCTACTACTTAGGGGTTAAGACCCTTC-G
1 TTTGATCTGTTACCCTACTGCTTAGGGGTTAA-AATCTGCAA
* * *
23456384 TCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAA
1 T-TT-GATCTGTTACCCTACTGCTTAGGGGTTAAAATCTGCAA
* * * * *
23456427 ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAA
1 TTTGA-TCTGTTACCCTACTGCTTAGGGG-TTAAAATCTG-CAA
*
23456471 TTT-AGCCTGTTACCCTACTGCTTAGGGGGTTAA
1 TTTGA-TCTGTTACCCTACTGCTTA-GGGGTTAA
23456504 GGCTTGTGGA
Statistics
Matches: 377, Mismatches: 86, Indels: 85
0.69 0.16 0.16
Matches are distributed among these distances:
40 5 0.01
41 12 0.03
42 126 0.33
43 125 0.33
44 96 0.25
45 9 0.02
47 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTGATCTGTTACCCTACTGCTTAGGGGTTAAAATCTGCAA
Found at i:23456132 original size:86 final size:86
Alignment explanation
Indices: 23455919--23456462 Score: 690
Period size: 86 Copynumber: 6.3 Consensus size: 86
23455909 AAATTTAACA
* * * * * *
23455919 TGTTACCCCACTGCTTAGGGGTTTAAG-GCTTATCGTCTTTGACCTGTTTCCCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTCTCCCTACTGCTTAGGG
* * * * *
23455983 GGTTAAGATCTGTAAATTCAGCC
65 AGATAAGATCTG-CAATTCGGTC
* *
23456006 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAG-CTTCGATCTG-CTCCACTACTGCTTAGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTC-GTCTTCGATCTGTCTCC-CTACTGCTTAGG
* *
23456069 GAGATAAAATCTGCAATTTGGTC
64 GAGATAAGATCTGCAATTCGGTC
*
23456092 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTCTCCCTACTGCT-TAGGG
* * * *
23456156 GGTTAAGATCTGGAATTTGGTC
65 AGATAAGATCTGCAATTCGGTC
23456178 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTCTCC-CTACTGCTTAGGG
* *
23456242 AGATAAAATTTGCAATTCGGTC
65 AGATAAGATCTGCAATTCGGTC
23456264 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTCTCC-CTACTGCTTAGGG
* *
23456328 AGATAAGATCTGCAATTTGATC
65 AGATAAGATCTGCAATTCGGTC
* *
23456350 TGTTACCCTACTACTTAGGGG-TTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG-
1 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTCTCCCTACTGCTTAGGGA
* * * *
23456413 GTTAAGATCTGGAAATTCAGCC
66 GATAAGATCT-GCAATTCGGTC
23456435 TGTTACCCTACTGCTTAGGGGTTTAAGA
1 TGTTACCCTACTGCTTAGGGGTTTAAGA
23456463 TCTGTAAATT
Statistics
Matches: 405, Mismatches: 41, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
84 9 0.02
85 68 0.17
86 264 0.65
87 62 0.15
88 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (86 bp):
TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTCTCCCTACTGCTTAGGGA
GATAAGATCTGCAATTCGGTC
Found at i:23457473 original size:52 final size:53
Alignment explanation
Indices: 23457371--23457484 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 53
23457361 GTATAGCTCG
* *
23457371 AAATGAATAAATTAATCAAAGATTGCAAATGCCATAAGAAAGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
* *
23457424 AAATGAATAAGTTAATCAAAGATAGC-AATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
23457476 AAATGAATA
1 AAATGAATA
23457485 TAGCAAATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 33 0.58
53 24 0.42
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.22
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
Found at i:23457794 original size:4 final size:4
Alignment explanation
Indices: 23457778--23457809 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
23457768 GCCTCTCCTT
23457778 TTTC TTCTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTT
23457810 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:23461956 original size:60 final size:60
Alignment explanation
Indices: 23461855--23461995 Score: 171
Period size: 60 Copynumber: 2.3 Consensus size: 60
23461845 CCAACTGTGT
* * *
23461855 TGATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGGCCAGATTAATAC
1 TGATATGGGCTAGGCCCAGTATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATAC
* *
23461915 TGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTAA-AGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAGTATATCTC-G--ACTTGTAATAGGGCTACGGCCCAGATTAATAC
*
23461975 TGATATGGGCTAAGGCTCAGT
1 TGATATGGGCT-AGGCCCAGT
23461996 TAACACTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
59 3 0.04
60 53 0.75
61 13 0.18
62 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (60 bp):
TGATATGGGCTAGGCCCAGTATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATAC
Found at i:23464124 original size:19 final size:19
Alignment explanation
Indices: 23464100--23464145 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
23464090 GGGAAAGTCT
*
23464100 AATGCAAATA-ATGCAATG
1 AATGCAAATACATGAAATG
23464118 CAATGCAAATACATGAAATG
1 -AATGCAAATACATGAAATG
23464138 AATGCAAA
1 AATGCAAA
23464146 AGAAAGGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (19 bp):
AATGCAAATACATGAAATG
Found at i:23466055 original size:2 final size:2
Alignment explanation
Indices: 23466048--23466081 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
23466038 ATAATAATAC
* *
23466048 TA TA TA TA AA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23466082 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:23466188 original size:2 final size:2
Alignment explanation
Indices: 23466183--23466210 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23466173 AAAACAATAC
23466183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23466211 CATAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23466258 original size:127 final size:132
Alignment explanation
Indices: 23466012--23466249 Score: 340
Period size: 130 Copynumber: 1.8 Consensus size: 132
23466002 GGATATAATG
* * *
23466012 ATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAATATATATATATATATATGT
1 ATAATAAAAATATTAAAGTAAAGTAAATAATAAAACTATATATAAATATATATATATATATATAT
* * *
23466077 ATATAATAGAAATACACACTACTATATAATAATAATAATAATAAATATAGAAATACAAAGAGCAA
66 ATATAATAAAAATACACACTAATATATAATAATAATAATAATAAACATAGAAATACAAAGAGCAA
23466142 AT
131 AT
* *
23466144 ATAATAAAAATATTAAATTAAAGT-AATAA-AAAAC-A-ATACTATATATATATATATATATATA
1 ATAATAAAAATATTAAAGTAAAGTAAATAATAAAACTATATA-TAAATATATATATATATATATA
* *
23466205 TATATACATAAAAATATACACTAATATATAATAATAATAGTAATA
65 TATATA-ATAAAAATACACACTAATATATAATAATAATAATAATA
23466250 GCAAAAATAA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
128 3 0.03
129 27 0.28
130 38 0.40
131 5 0.05
132 22 0.23
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (132 bp):
ATAATAAAAATATTAAAGTAAAGTAAATAATAAAACTATATATAAATATATATATATATATATAT
ATATAATAAAAATACACACTAATATATAATAATAATAATAATAAACATAGAAATACAAAGAGCAA
AT
Found at i:23466339 original size:12 final size:13
Alignment explanation
Indices: 23466324--23466376 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
23466314 AATAGGGGTG
23466324 ATAATAATA-ATA
1 ATAATAATACATA
23466336 ATAATAATACA-A
1 ATAATAATACATA
*
23466348 ACAATAATACAT-
1 ATAATAATACATA
*
23466360 AT-AT-ATATATA
1 ATAATAATACATA
23466371 ATAATA
1 ATAATA
23466377 GTAGTCAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.70
13 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:23466464 original size:3 final size:3
Alignment explanation
Indices: 23466451--23466532 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
23466441 GTGGGTATAT
23466451 ATA AT- ATA ATA ATA ATA CA-A ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -AT-A -ATA ATA
*
23466495 ATA ATA ATA AT- ATAA ATA ATA GTA A-A ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
23466533 AAAAAATAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
2 10 0.15
3 45 0.69
4 8 0.12
5 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:23466495 original size:21 final size:18
Alignment explanation
Indices: 23466456--23466515 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
23466446 TATATATAAT
*
23466456 ATAATAATAATACAAATA
1 ATAATAATAATAGAAATA
23466474 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
23466495 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
23466513 ATA
1 ATA
23466516 GTAAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:23466523 original size:8 final size:8
Alignment explanation
Indices: 23466456--23466543 Score: 54
Period size: 9 Copynumber: 9.8 Consensus size: 8
23466446 TATATATAAT
23466456 ATAATAATA
1 ATAA-AATA
23466465 ATACAAATA
1 ATA-AAATA
23466474 ATAATATATA
1 ATAA-A-ATA
23466484 CATGAGAAATA
1 -AT-A-AAATA
23466495 ATAATAATA
1 ATAA-AATA
23466504 ATATAAATAA
1 ATA-AAAT-A
23466514 TAGTAAAATA
1 -A-TAAAATA
23466524 ATAAAATA
1 ATAAAATA
23466532 A-AAAA-A
1 ATAAAATA
23466538 ATAAAA
1 ATAAAA
23466544 CAAAGCTCTC
Statistics
Matches: 67, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
6 2 0.03
7 8 0.12
8 10 0.15
9 23 0.34
10 9 0.13
11 10 0.15
12 4 0.06
13 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.26
Consensus pattern (8 bp):
ATAAAATA
Found at i:23467056 original size:30 final size:30
Alignment explanation
Indices: 23467022--23467107 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
23467012 TTTGATGGTA
*
23467022 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
1 TAGGTGCAAGTGGGAGGCAAGGTGGTAGAG
*
23467052 TAGGTGCAAGTGGGAGGCAAGGTGGTGGAG
1 TAGGTGCAAGTGGGAGGCAAGGTGGTAGAG
23467082 TAGGTGCAAGTGGGAGGCAAGGTGGT
1 TAGGTGCAAGTGGGAGGCAAGGTGGT
23467108 TAGTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (30 bp):
TAGGTGCAAGTGGGAGGCAAGGTGGTAGAG
Found at i:23467074 original size:18 final size:18
Alignment explanation
Indices: 23467053--23467105 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
23467043 GTGGTAGAGT
23467053 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
23467071 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
23467083 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
23467101 AGGTG
1 AGGTG
23467106 GTTAGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:23473107 original size:28 final size:27
Alignment explanation
Indices: 23473075--23473145 Score: 106
Period size: 28 Copynumber: 2.6 Consensus size: 27
23473065 GGTTTAGTCC
23473075 TATTTTTTAGATTTTACAATTTTACCCT
1 TATTTTTTAGATTTTACAATTTTA-CCT
* * *
23473103 TATTTTTTAGATTCTACAGTTTTACTT
1 TATTTTTTAGATTTTACAATTTTACCT
23473130 TATTTTTTAGATTTTA
1 TATTTTTTAGATTTTA
23473146 TAGTTTTGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.61
Consensus pattern (27 bp):
TATTTTTTAGATTTTACAATTTTACCT
Found at i:23473132 original size:27 final size:28
Alignment explanation
Indices: 23473075--23473152 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
23473065 GGTTTAGTCC
*
23473075 TATTTTTTAGATTTTACAATTTTACCCT
1 TATTTTTTAGATTTTACAGTTTTACCCT
* *
23473103 TATTTTTTAGATTCTACAGTTTTA-CTT
1 TATTTTTTAGATTTTACAGTTTTACCCT
*
23473130 TATTTTTTAGATTTTATAGTTTT
1 TATTTTTTAGATTTTACAGTTTT
23473153 GTCTCCCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (28 bp):
TATTTTTTAGATTTTACAGTTTTACCCT
Found at i:23475736 original size:48 final size:44
Alignment explanation
Indices: 23475648--23475789 Score: 160
Period size: 48 Copynumber: 3.1 Consensus size: 44
23475638 TTTTTTGGGG
* *
23475648 GGGGGGGGGGAGAGAGCATTGAAAAAAGATACTGGAGGATTAAAT
1 GGGGGGAGGGAGAGAGCATTG-AAAAAGATAATGGAGGATTAAAT
23475693 GAGGGTAGGAGGGAGAGAGCATTGAAAAACGATAATGTG-GGATTAAATT
1 G-GGG--GGAGGGAGAGAGCATTGAAAAA-GATAATG-GAGGATTAAA-T
* * *
23475742 GGGGGGGGGGGGAGAGCATTGGAAAAAGATATTGGAGGATTAAAT
1 GGGGGGAGGGAGAGAGCATT-GAAAAAGATAATGGAGGATTAAAT
23475787 GGG
1 GGG
23475790 AGATCATAAG
Statistics
Matches: 84, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
45 6 0.07
46 31 0.37
47 11 0.13
48 33 0.39
49 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.43, T:0.18
Consensus pattern (44 bp):
GGGGGGAGGGAGAGAGCATTGAAAAAGATAATGGAGGATTAAAT
Found at i:23475782 original size:46 final size:46
Alignment explanation
Indices: 23475647--23475786 Score: 160
Period size: 46 Copynumber: 3.0 Consensus size: 46
23475637 TTTTTTTGGG
* *
23475647 GGGGGGGGGGGAGAGAGCATTGAAAAAAGATACTGGAGGATTAAA-T
1 GGGGGGGGGGG-GAGAGCATTGGAAAAAGATAATGGAGGATTAAATT
* *
23475693 GAGGGTAGGAGGGAGAGAGCATT-GAAAAACGATAATGTG-GGATTAAATT
1 G-GGG--GGGGGGGGAGAGCATTGGAAAAA-GATAATG-GAGGATTAAATT
*
23475742 GGGGGGGGGGGGAGAGCATTGGAAAAAGATATTGGAGGATTAAAT
1 GGGGGGGGGGGGAGAGCATTGGAAAAAGATAATGGAGGATTAAAT
23475787 GGGAGATCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
45 1 0.01
46 30 0.38
47 14 0.18
48 26 0.33
49 8 0.10
ACGTcount: A:0.36, C:0.04, G:0.42, T:0.18
Consensus pattern (46 bp):
GGGGGGGGGGGGAGAGCATTGGAAAAAGATAATGGAGGATTAAATT
Found at i:23475894 original size:22 final size:22
Alignment explanation
Indices: 23475848--23475915 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
23475838 GTTAATATTT
* * * *
23475848 TAATATATTAAATCTTTAAACA
1 TAATATTTTAAATATTTTAATA
23475870 TAATATTTTAAATATTTTAATA
1 TAATATTTTAAATATTTTAATA
*
23475892 TAAAAATTTTAAAAATATTTTAAT
1 T-AATATTTT--AAATATTTTAAT
23475916 TATATTAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 19 0.50
23 7 0.18
25 12 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTTAAATATTTTAATA
Found at i:23475910 original size:34 final size:38
Alignment explanation
Indices: 23475841--23475932 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 38
23475831 TTGAATTGTT
*
23475841 AATATTTTAATATATTAAATCTTTAAACATAATATTTTA
1 AATATTTTAATATA-AAAATCTTTAAACATAATATTTTA
23475880 AATATTTTAATATAAAAAT-TTT-AA-A-AATATTTTA
1 AATATTTTAATATAAAAATCTTTAAACATAATATTTTA
* *
23475914 ATTATATTAATATAAAAAT
1 AATATTTTAATATAAAAAT
23475933 AATTACATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
34 26 0.52
35 1 0.02
36 2 0.04
37 3 0.06
38 4 0.08
39 14 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (38 bp):
AATATTTTAATATAAAAATCTTTAAACATAATATTTTA
Found at i:23475929 original size:25 final size:25
Alignment explanation
Indices: 23475879--23475933 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23475869 ATAATATTTT
*
23475879 AAATATTTTAATATAAAAATTTTAA
1 AAATATTTTAATATAAAAATTATAA
**
23475904 AAATATTTTAATTATATTAA-TATAA
1 AAATATTTTAA-TATAAAAATTATAA
23475929 AAATA
1 AAATA
23475934 ATTACATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATTTTAATATAAAAATTATAA
Found at i:23479154 original size:20 final size:20
Alignment explanation
Indices: 23479130--23479174 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23479120 AATATTTTTT
* *
23479130 TTTTTAAAATTATTTGAAATG
1 TTTTAAAAATT-TTTGAAATC
23479151 TTTTAAAAATTTTTGAAATC
1 TTTTAAAAATTTTTGAAATC
23479171 TTTT
1 TTTT
23479175 TACTAAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTAAAAATTTTTGAAATC
Found at i:23486220 original size:20 final size:20
Alignment explanation
Indices: 23486189--23486236 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
23486179 TAACATGTAC
*
23486189 ATATAC-TATATATTTTTATT
1 ATATACGTATATGTTTTTA-T
23486209 ATATTACGTATATGTTTTTAT
1 ATA-TACGTATATGTTTTTAT
23486230 ATATACG
1 ATATACG
23486237 CTATGCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 7 0.28
22 11 0.44
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (20 bp):
ATATACGTATATGTTTTTAT
Found at i:23493313 original size:54 final size:54
Alignment explanation
Indices: 23493240--23493345 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
23493230 AGTTTACGTA
** *
23493240 TAATGAAATGAAAAAGACTAATCCCATTAATCTTTTATTAATTTACGTATTTCT
1 TAATGAAATGAAAAAGACTAATCCCAACAATCATTTATTAATTTACGTATTTCT
* * * *
23493294 TAATGTAATGAGAGAGACTAATCCCAACATTCATTTATTAATTTACGTATTT
1 TAATGAAATGAAAAAGACTAATCCCAACAATCATTTATTAATTTACGTATTT
23493346 AAAATATATG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (54 bp):
TAATGAAATGAAAAAGACTAATCCCAACAATCATTTATTAATTTACGTATTTCT
Found at i:23493999 original size:40 final size:40
Alignment explanation
Indices: 23493955--23494046 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 40
23493945 ACGCTTTTAA
*
23493955 AAAAACGCCGCAATAGGTCGACCTTTAGCGGCATTTTTTG
1 AAAAACGCCGCAATAAGTCGACCTTTAGCGGCATTTTTTG
* * * * *
23493995 AAAAAGCGCCACCATAAGTCGGCCTTTAGCGGCGTTTTTTT
1 AAAAA-CGCCGCAATAAGTCGACCTTTAGCGGCATTTTTTG
*
23494036 AAAAGCGCCGC
1 AAAAACGCCGC
23494047 TAAAGGTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 10 0.23
41 33 0.77
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCAATAAGTCGACCTTTAGCGGCATTTTTTG
Found at i:23494684 original size:15 final size:14
Alignment explanation
Indices: 23494666--23494708 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
23494656 CTTAATATTT
23494666 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
23494681 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
23494696 TTATGATTTAGGG
1 TTATGGTTTAGGG
23494709 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:23497813 original size:134 final size:133
Alignment explanation
Indices: 23497590--23497842 Score: 479
Period size: 134 Copynumber: 1.9 Consensus size: 133
23497580 TGGTGATTCC
23497590 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
23497655 TGGACTTAGATTGATTTAAGAGTTTATTGTTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
23497720 TAT
131 TAT
*
23497723 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
23497788 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
23497843 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
133 30 0.26
134 87 0.74
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:23504240 original size:21 final size:21
Alignment explanation
Indices: 23504216--23504255 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23504206 GTTTTTATGT
*
23504216 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
23504237 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
23504256 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:23505941 original size:24 final size:24
Alignment explanation
Indices: 23505914--23505981 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
23505904 ATTATTATTG
*
23505914 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
23505938 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
23505962 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
23505982 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:23506202 original size:15 final size:15
Alignment explanation
Indices: 23506158--23506213 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
23506148 AACGACATGT
23506158 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
23506174 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
23506187 ATATTATTTAATTAA
1 ATATTATTTAATTAA
23506202 ATATTATTTAAT
1 ATATTATTTAAT
23506214 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:23506330 original size:9 final size:9
Alignment explanation
Indices: 23506318--23506525 Score: 116
Period size: 9 Copynumber: 22.6 Consensus size: 9
23506308 TATTTGATAT
*
23506318 CATAATTTA
1 CATAACTTA
*
23506327 CATAGCTTA
1 CATAACTTA
* *
23506336 TATAACATA
1 CATAACTTA
*
23506345 TATAACTTA
1 CATAACTTA
23506354 CATAACTTA
1 CATAACTTA
* *
23506363 TATAACATA
1 CATAACTTA
23506372 CATAACTTA
1 CATAACTTA
*
23506381 TATAACTTA
1 CATAACTTA
* *
23506390 GATAA-ATA
1 CATAACTTA
*
23506398 TATAACTTA
1 CATAACTTA
23506407 CATAACTTA
1 CATAACTTA
23506416 CATAATACTTA
1 CAT-A-ACTTA
* *
23506427 AATATATTTTATA
1 CATA-A--CT-TA
*
23506440 TCATAATTTA
1 -CATAACTTA
23506450 CATAACTTA
1 CATAACTTA
23506459 CATAACTTA
1 CATAACTTA
* *
23506468 GATAA-ATA
1 CATAACTTA
* *
23506476 TATAATTTA
1 CATAACTTA
*
23506485 CATAA-ATA
1 CATAACTTA
* * *
23506493 TATATCATA
1 CATAACTTA
*
23506502 TCATAAATTA
1 -CATAACTTA
23506512 CATAACTTA
1 CATAACTTA
23506521 CATAA
1 CATAA
23506526 TACTTAAATA
Statistics
Matches: 155, Mismatches: 34, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
8 17 0.11
9 111 0.72
10 11 0.07
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:23506349 original size:27 final size:27
Alignment explanation
Indices: 23506314--23506525 Score: 152
Period size: 27 Copynumber: 8.0 Consensus size: 27
23506304 AATATATTTG
* *
23506314 ATATCATAATTTACATAGCTTATATAAC
1 ATAT-ATAACTTACATAACTTATATAAC
23506342 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACTTATATAAC
* * *
23506369 ATACATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTATATAAC
*
23506395 ATATATAACTTACATAACTTACAT-A-
1 ATATATAACTTACATAACTTATATAAC
* * ** *
23506420 ATACT-TAA-ATATAT-TTTATATCATAAT
1 ATA-TATAACTTACATAACT-TAT-ATAAC
* * *
23506447 TTACATAACTTACATAACTTAGATAA-
1 ATATATAACTTACATAACTTATATAAC
* * *
23506473 ATATATAATTTACATAA-ATATATATC
1 ATATATAACTTACATAACTTATATAAC
* *
23506499 ATATCATAAATTACATAACTTACATAA
1 ATAT-ATAACTTACATAACTTATATAA
23506526 TACTTAAATA
Statistics
Matches: 143, Mismatches: 30, Indels: 22
0.73 0.15 0.11
Matches are distributed among these distances:
23 1 0.01
24 6 0.04
25 14 0.10
26 41 0.29
27 65 0.45
28 15 0.10
29 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATAACTTACATAACTTATATAAC
Found at i:23506494 original size:62 final size:62
Alignment explanation
Indices: 23506287--23506525 Score: 222
Period size: 62 Copynumber: 3.9 Consensus size: 62
23506277 TGAAATAAAA
* * * *
23506287 AACTTACATAA-TACATAAATATAT-TTGATATCATAATTTACATAGCTTATATAACATATAT
1 AACTTACATAATTACATAAATATATATT-ATATCATAATTTACATAACTTACATAACTTACAT
* * * * * * *
23506348 AACTTACATAACTTATATAACATACATAACT-TAT-ATAACTTAGATAA-ATATATAACTTACAT
1 AACTTACATAA-TTACATAA-ATATAT-ATTATATCATAATTTACATAACTTACATAACTTACAT
* * *
23506410 AACTTACATAA-TACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTAGAT
1 AACTTACATAATTACATAAATATATATTATATCATAATTTACATAACTTACATAACTTACAT
* * * *
23506471 AA-ATATATAATTTACATAAATATATATCATATCATAAATTACATAACTTACATAA
1 AACTTACATAA-TTACATAAATATATATTATATCATAATTTACATAACTTACATAA
23506526 TACTTAAATA
Statistics
Matches: 143, Mismatches: 25, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
58 1 0.01
59 8 0.06
60 22 0.15
61 25 0.17
62 62 0.43
63 16 0.11
64 8 0.06
66 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (62 bp):
AACTTACATAATTACATAAATATATATTATATCATAATTTACATAACTTACATAACTTACAT
Found at i:23506513 original size:105 final size:105
Alignment explanation
Indices: 23506346--23506549 Score: 286
Period size: 105 Copynumber: 1.9 Consensus size: 105
23506336 TATAACATAT
* * * *
23506346 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGATAAATATATAACTTACATA
1 ATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATAAATATATAAATTACATA
* *
23506411 ACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 ACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * *
23506451 ATAACTTACATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCATAAATTACA
1 ATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATA-AATAT-ATAAATTACA
23506514 TAACTTACATAATACTTAAATATATATCATATCATA
64 TAACTTACATAATACTTAAATATATATCATATCATA
23506550 CATAACTAGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 5 0.06
104 18 0.21
105 64 0.74
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (105 bp):
ATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATAAATATATAAATTACATA
ACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:23506586 original size:105 final size:102
Alignment explanation
Indices: 23506346--23506599 Score: 235
Period size: 105 Copynumber: 2.4 Consensus size: 102
23506336 TATAACATAT
* * * * * * *
23506346 ATAACTTACATAACTTATATAACATACATAACTTATATAACT-TAGATAAATATATAACTTACAT
1 ATAACTTACAAAACTTACATAA-ATACATAA--TACATAAATATATAT-CATATATAAATTACAT
* * *
23506410 AACTTACATAATACTTAAATATATTTTATATCATAATTTAC
62 AACTTACATAATACTTAAATATATATCATATCATAATTAAC
* * *
23506451 ATAACTTACATAACTTAGATAAATATATAATTTACATAAATATATATCATATCATAAATTACATA
1 ATAACTTACAAAACTTACATAAATACATAA--TACATAAATATATATCATAT-ATAAATTACATA
23506516 ACTTACATAATACTTAAATATATATCATATCATACA-TAAC
63 ACTTACATAATACTTAAATATATATCATATCATA-ATTAAC
** * * * *
23506556 -TAGTTTACAAAATTTACTTAACTTACATAATACATAAATCTATA
1 ATAACTTACAAAACTTACATAA-ATACATAATACATAAATATATA
23506600 GTCGAAAATC
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
103 13 0.10
104 34 0.27
105 77 0.62
106 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (102 bp):
ATAACTTACAAAACTTACATAAATACATAATACATAAATATATATCATATATAAATTACATAACT
TACATAATACTTAAATATATATCATATCATAATTAAC
Found at i:23512204 original size:21 final size:21
Alignment explanation
Indices: 23512171--23512221 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
23512161 ACAACTTAGA
*
23512171 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
23512192 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
23512213 GCAGAGGCA
1 GCAGAGGCA
23512222 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:23512519 original size:31 final size:31
Alignment explanation
Indices: 23512473--23512539 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
23512463 TGGTTGTATT
* *
23512473 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
23512504 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
23512535 TTTTA
1 TTTTA
23512540 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:23512665 original size:43 final size:43
Alignment explanation
Indices: 23512613--23512962 Score: 560
Period size: 43 Copynumber: 8.1 Consensus size: 43
23512603 TTAAAAAAAG
* * *
23512613 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACTACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
23512656 CGCCGCTAAAATCTCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGC-CTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
23512700 CGCCGCTAAAAGCCTTGACCTTTAGC-G-GCTTTCTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTT-TCCCACAAA
* *
23512742 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
23512785 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
23512828 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
23512871 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
23512914 CGCCGCTAAAAGCCTTGACCTATAGCGGCGTTTTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG--CTTTTCCCACAAA
23512959 CGCC
1 CGCC
23512963 ACAAATTTTG
Statistics
Matches: 289, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
41 5 0.02
42 35 0.12
43 191 0.66
44 43 0.15
45 15 0.05
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:23513046 original size:31 final size:31
Alignment explanation
Indices: 23513011--23513088 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
23513001 GGCGTTTTAG
23513011 AAAGCGCCGCTAAAGGTTTTAGTGGCGCATA
1 AAAGCGCCGCTAAAGGTTTTAGTGGCGCATA
23513042 AAAGCGCCGCTAAAGGTTTTAGTGGCGCATA
1 AAAGCGCCGCTAAAGGTTTTAGTGGCGCATA
23513073 AAAGCGCCGCTAAAGG
1 AAAGCGCCGCTAAAGG
23513089 CTTAAAAAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (31 bp):
AAAGCGCCGCTAAAGGTTTTAGTGGCGCATA
Found at i:23513771 original size:23 final size:23
Alignment explanation
Indices: 23513652--23513758 Score: 135
Period size: 23 Copynumber: 4.7 Consensus size: 23
23513642 TAACTCTTTG
23513652 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATGTGCCACA
23513675 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATGTGCCACA
* * * * *
23513698 AAGGCAACACAAAATGCGCAAAA
1 AAGGCATCACAGAATGTGCCACA
* *
23513721 AATGCATCACA-AAAGATGCCACA
1 AAGGCATCACAGAATG-TGCCACA
23513744 AAGGCATCACAGAAT
1 AAGGCATCACAGAAT
23513759 ACGCCACGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
22 3 0.04
23 64 0.93
24 2 0.03
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (23 bp):
AAGGCATCACAGAATGTGCCACA
Found at i:23514224 original size:29 final size:30
Alignment explanation
Indices: 23514177--23514244 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
23514167 TGGCCCAAGA
* * *
23514177 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAAT
*
23514207 GTAAATATGAAAAGTTGAAGGACTAATAAT
1 GTAAATATCAAAAGTTGAAGGACTAATAAT
23514237 GTAAATAT
1 GTAAATAT
23514245 TTTAAGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAAT
Found at i:23516651 original size:46 final size:46
Alignment explanation
Indices: 23516599--23516702 Score: 190
Period size: 46 Copynumber: 2.3 Consensus size: 46
23516589 AGTGTGCTCT
*
23516599 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
*
23516645 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
23516691 CTGATATGAAAT
1 CTGATATGAAAT
23516703 ACCATGGCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
Found at i:23516705 original size:23 final size:23
Alignment explanation
Indices: 23516678--23516725 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
23516668 TAGTTGAAAG
*
23516678 ATACCATGGCAGCCTGATATGAA
1 ATACCATGGCAACCTGATATGAA
23516701 ATACCATGGCAACCTGATATGAA
1 ATACCATGGCAACCTGATATGAA
23516724 AT
1 AT
23516726 GTGTAAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (23 bp):
ATACCATGGCAACCTGATATGAA
Found at i:23550967 original size:20 final size:20
Alignment explanation
Indices: 23550919--23550968 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
23550909 TAGTAGTTTA
* *
23550919 ATTAATAAATAATTAAAAGT
1 ATTAATAAAAAAGTAAAAGT
**
23550939 A-GCATAAAAAAGTAAAAGT
1 ATTAATAAAAAAGTAAAAGT
23550958 ATTAATAAAAA
1 ATTAATAAAAA
23550969 TATGGTTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (20 bp):
ATTAATAAAAAAGTAAAAGT
Found at i:23562655 original size:13 final size:15
Alignment explanation
Indices: 23562627--23562658 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
23562617 AATTATAAAA
23562627 AAATTATTTATTTTT
1 AAATTATTTATTTTT
23562642 AAATT-TTT-TTTTT
1 AAATTATTTATTTTT
23562655 AAAT
1 AAAT
23562659 ATTCTCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AAATTATTTATTTTT
Found at i:23567881 original size:2 final size:2
Alignment explanation
Indices: 23567876--23567911 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
23567866 AATATATACA
*
23567876 TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23567912 CGTTTAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:23572888 original size:30 final size:32
Alignment explanation
Indices: 23572851--23572922 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
23572841 CTTTTGATTT
* *
23572851 TTATAATTATTTATATATTTTTAATTAA-A-A
1 TTATAATTATTTATACATATTTAATTAATAGA
* * *
23572881 TTTTAATTCTTTATACATATTTGATTAATAGA
1 TTATAATTATTTATACATATTTAATTAATAGA
23572913 TTATAATTAT
1 TTATAATTAT
23572923 ATAGTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
30 23 0.70
31 1 0.03
32 9 0.27
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (32 bp):
TTATAATTATTTATACATATTTAATTAATAGA
Found at i:23574024 original size:19 final size:19
Alignment explanation
Indices: 23574002--23574038 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23573992 TAATAAATAA
23574002 TAAATTTTAATAAAAATTT
1 TAAATTTTAATAAAAATTT
*
23574021 TAAATTTTATTAAAAATT
1 TAAATTTTAATAAAAATT
23574039 AGAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTTTAATAAAAATTT
Found at i:23574047 original size:19 final size:19
Alignment explanation
Indices: 23573989--23574046 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
23573979 AGATTATAAA
* *
23573989 TAATAATAAATAATAAATTT
1 TAATAA-AAATTAGAAATTT
**
23574009 TAATAAAAATTTTAAATTT
1 TAATAAAAATTAGAAATTT
*
23574028 TATTAAAAATTAG-AATTT
1 TAATAAAAATTAGAAATTT
23574046 T
1 T
23574047 TTTTACAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 6 0.18
19 21 0.64
20 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATAAAAATTAGAAATTT
Found at i:23574301 original size:19 final size:18
Alignment explanation
Indices: 23574239--23574302 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 18
23574229 TACGATAATT
23574239 TTTATAATTTT-TTACAAAA
1 TTTATAATTTTCTTAC--AA
*
23574258 TTTAT-ATTTTCTTACATT
1 TTTATAATTTTCTTACA-A
*
23574276 TTGTATAATTTTCTTACGAC
1 TT-TATAATTTTCTTAC-AA
23574296 TTTATAA
1 TTTATAA
23574303 AATTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 7 0.18
19 17 0.45
20 12 0.32
21 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTATAATTTTCTTACAA
Found at i:23574885 original size:22 final size:22
Alignment explanation
Indices: 23574842--23574885 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23574832 TGATTATGAA
* *
23574842 GATTTATTTCATGTTTCTATTT
1 GATTTATTTCATGTATCAATTT
23574864 GATTTATTT-ATGTAATCAATTT
1 GATTTATTTCATGT-ATCAATTT
23574886 TCCATCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.59
Consensus pattern (22 bp):
GATTTATTTCATGTATCAATTT
Found at i:23576718 original size:19 final size:17
Alignment explanation
Indices: 23576686--23576720 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
23576676 TTAAGATTGA
23576686 ATTTAAATACTTTTAAT
1 ATTTAAATACTTTTAAT
23576703 ATTTAGAATCACTTTTAA
1 ATTTA-AAT-ACTTTTAA
23576721 ATTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTTAAATACTTTTAAT
Found at i:23579806 original size:42 final size:43
Alignment explanation
Indices: 23579729--23579812 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
23579719 TCTCAGACGT
* * **
23579729 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAGTATCGATACCGATGTCCCAGACAG
23579772 GGTCTTACACG-AATTCAGATAT-GATACCGATGTCCCAGACA
1 GGTCTTACACGTAATTCAG-TATCGATACCGATGTCCCAGACA
23579813 CGATTTTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 23 0.64
43 13 0.36
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAGTATCGATACCGATGTCCCAGACAG
Found at i:23586716 original size:79 final size:79
Alignment explanation
Indices: 23586562--23586784 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
23586552 TCGAATGATG
* * * * *
23586562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATT
*
23586626 TGTGCGAGTTACTAAA
64 GGTGCGAGTTACTAAA
*
23586642 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT-CCGGGCTAAGACCCGAAGGCATT
23586705 GGTGCGAGTTACTAAA
64 GGTGCGAGTTACTAAA
** * * * *
23586721 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATT
23586785 TGAACGAGTA
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.56
80 46 0.37
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGACCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:23586750 original size:40 final size:40
Alignment explanation
Indices: 23586562--23586786 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
23586552 TCGAATGATG
* * *
23586562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
23586602 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23586642 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23586681 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23586721 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23586762 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23586787 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23586785 original size:119 final size:120
Alignment explanation
Indices: 23586563--23586786 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
23586553 CGAATGATGT
* *
23586563 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
* *
23586628 TGCGAGTTACTAAATCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* * **
23586683 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
* *
23586745 TGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
23586787 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 70 0.78
120 18 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:23586808 original size:79 final size:78
Alignment explanation
Indices: 23586569--23586819 Score: 253
Period size: 79 Copynumber: 3.2 Consensus size: 78
23586559 ATGTCCGGGC
* * *
23586569 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
23586632 AGTTACTAAATCCGGAC
63 AGTTACTAAATCCGG-T
* * *
23586649 TAAGAT-TCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCG
23586711 AGTTACTAAATCCGGGT
63 AGTTACTAAATCC-GGT
* **
23586728 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAG-TACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
23586793 -TAGCTATATCCGGT
65 TTA-CTAAATCCGGT
* *
23586807 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
23586820 TACGTGATTC
Statistics
Matches: 145, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
78 1 0.01
79 82 0.57
80 53 0.37
81 9 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
TACTAAATCCGGT
Found at i:23589158 original size:34 final size:33
Alignment explanation
Indices: 23589107--23589174 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 33
23589097 ATAATTAATA
23589107 ATAAATATTATGTAATTTAG-TTA-TATTTAGT
1 ATAAATATTATGTAATTTAGTTTATTATTTAGT
23589138 ATAAATAATTTATAGTAATTTAGTTTATTATTTAGT
1 ATAAAT-A-TTAT-GTAATTTAGTTTATTATTTAGT
23589174 A
1 A
23589175 GTTCAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 6 0.19
32 1 0.03
33 4 0.12
34 9 0.28
35 3 0.09
36 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (33 bp):
ATAAATATTATGTAATTTAGTTTATTATTTAGT
Found at i:23599984 original size:2 final size:2
Alignment explanation
Indices: 23599973--23600011 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
23599963 ATTAAGTTAT
23599973 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23600012 AAGTAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23600099 original size:15 final size:15
Alignment explanation
Indices: 23600081--23600116 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23600071 AGAGAGGGGA
*
23600081 AAGAAAGAAGGAAGG
1 AAGAAAGAAAGAAGG
23600096 AAGAAAGAAAGAAGG
1 AAGAAAGAAAGAAGG
23600111 AA-AAAG
1 AAGAAAG
23600117 GGAAAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAGAAGG
Found at i:23604791 original size:55 final size:54
Alignment explanation
Indices: 23604694--23604798 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 54
23604684 TGGTTGCCAC
23604694 GGCCGTGTCTTAAAGTCAGTTTAGTACACGGGTAGGCCACACGGACGTGTGTCAT
1 GGCCGTGTCTTAAAGTCAGTTTAGTACACGGGTAGG-CACACGGACGTGTGTCAT
*
23604749 GGCCGTGT-TTAAAAGTCAGTGTT-GTACACGGGTTGAGG-ACACGGGCGTGT
1 GGCCGTGTCTT-AAAGTCAGT-TTAGTACACGGG-T-AGGCACACGGACGTGT
23604799 CCCAAGCCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
54 2 0.04
55 37 0.82
56 3 0.07
57 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (54 bp):
GGCCGTGTCTTAAAGTCAGTTTAGTACACGGGTAGGCACACGGACGTGTGTCAT
Found at i:23607906 original size:23 final size:22
Alignment explanation
Indices: 23607868--23607919 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
23607858 TATAAAACCT
23607868 AATAAAAATAAGCTTAAAGA-AA
1 AATAAAAATAAGCTTAAA-ATAA
23607890 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAG-CTTAAAATAA
23607913 AATAAAA
1 AATAAAA
23607920 GGAATAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:23619053 original size:53 final size:53
Alignment explanation
Indices: 23618972--23619122 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
23618962 CTTACATGGT
* *
23618972 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
23619027 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
23619080 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
23619123 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:23621088 original size:14 final size:14
Alignment explanation
Indices: 23621069--23621096 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23621059 AATCAACTCC
23621069 TTGAAAGAATATAT
1 TTGAAAGAATATAT
23621083 TTGAAAGAATATAT
1 TTGAAAGAATATAT
23621097 AAAGAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TTGAAAGAATATAT
Found at i:23624846 original size:158 final size:158
Alignment explanation
Indices: 23624605--23624944 Score: 520
Period size: 158 Copynumber: 2.2 Consensus size: 158
23624595 ACTAATTTCG
* * * *
23624605 GATCAAGATTGCTAACACTAGCTTGGTTTGATGTTGCTAACACTAGCTTTAGAGAATCTGCAACA
1 GATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTTAAAGAATCTACAACA
* *
23624670 TATGTTGGATCTCAAGCCATCAAGTTAATTCCTGATCACAACACCCATTTATTCATACAGACTGA
66 TATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTTATTCATACAGACTGA
* **
23624735 TATACTTGAGCCGCTAACTTTAGCTTCA
131 TATACTTGAGCCACTAACACTAGCTTCA
23624763 GATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTTAAAGAAT-TCACAAC
1 GATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTTAAAGAATCT-ACAAC
* * *
23624827 ATATGTTGGATCTGAAGCCATCAAATTAATTCCTAATTACAACACCCATTTATTCATATAGACTG
65 ATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTTATTCATACAGACTG
* *
23624892 ATATACTTGGGCTACTAACACTAGCTTCA
130 ATATACTTGAGCCACTAACACTAGCTTCA
* *
23624921 TATCAATGTTGCTAACACTAGCTT
1 GATCAAGGTTGCTAACACTAGCTT
23624945 TAAAGAATCT
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
157 1 0.01
158 164 0.99
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (158 bp):
GATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTTAAAGAATCTACAACA
TATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTTATTCATACAGACTGA
TATACTTGAGCCACTAACACTAGCTTCA
Found at i:23625220 original size:35 final size:33
Alignment explanation
Indices: 23625159--23625238 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 33
23625149 ATGCCTGTCC
23625159 ATATTATTT-TTTAAATATTTAAAAAATTATT-T
1 ATATTATTTATTTAAATATTTAAAAAATT-TTAT
*
23625191 ATATTATATTATTTTAATATTTAATAAAATTTTAT
1 ATATTAT-TTATTTAAATATTTAA-AAAATTTTAT
23625226 ATATT-TTTATTTA
1 ATATTATTTATTTA
23625239 TTGAAAGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 7 0.17
33 8 0.19
34 15 0.36
35 12 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTATTTATTTAAATATTTAAAAAATTTTAT
Found at i:23625886 original size:39 final size:39
Alignment explanation
Indices: 23625832--23625911 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
23625822 AAAACATTAT
23625832 ACTCAACAATCCAAACTAAAAGAAGAAAATAAAATACAA
1 ACTCAACAATCCAAACTAAAAGAAGAAAATAAAATACAA
23625871 ACTCAACAATCCAAACTAAAAGAAGAAAATAAAATACAA
1 ACTCAACAATCCAAACTAAAAGAAGAAAATAAAATACAA
23625910 AC
1 AC
23625912 ATATACATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (39 bp):
ACTCAACAATCCAAACTAAAAGAAGAAAATAAAATACAA
Found at i:23641260 original size:26 final size:26
Alignment explanation
Indices: 23641217--23641266 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23641207 TTTATATAAA
* * *
23641217 TTTTATATTTTAAGAAATAATAATTT
1 TTTTAAATTATAAAAAATAATAATTT
23641243 TTTTAAATTATAAAAAATAATAAT
1 TTTTAAATTATAAAAAATAATAAT
23641267 AATATCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTAAATTATAAAAAATAATAATTT
Found at i:23643349 original size:39 final size:40
Alignment explanation
Indices: 23643301--23643382 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
23643291 TAAATATGAT
*
23643301 AAATCTTAT-AAAAAATATTTAAAATGAAAAAAATTGTAC
1 AAATATTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
**
23643340 AAATATTATAAAAAAATATTTAAAATGAAAATCATTGTAC
1 AAATATTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
23643380 AAA
1 AAA
23643383 GGCTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 8 0.21
40 31 0.79
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (40 bp):
AAATATTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
Found at i:23647346 original size:13 final size:13
Alignment explanation
Indices: 23647328--23647354 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23647318 ATTACGAATT
23647328 AATGTTAAAATCA
1 AATGTTAAAATCA
23647341 AATGTTAAAATCA
1 AATGTTAAAATCA
23647354 A
1 A
23647355 GGGACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AATGTTAAAATCA
Found at i:23653031 original size:39 final size:39
Alignment explanation
Indices: 23652973--23653246 Score: 404
Period size: 39 Copynumber: 7.0 Consensus size: 39
23652963 AATTATATTA
* * *
23652973 CCAGCACAAAGCCTACGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
23653012 CTAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
23653051 CCAGCACGAAGCCTGTGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
23653090 CCAGCACGAAGCTTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
23653129 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATTCATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * ** *
23653168 TCAACGTGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
23653207 CCAGCACGAAGCCTGCGAGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
23653246 C
1 C
23653247 TAGTGTCTTG
Statistics
Matches: 210, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 210 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Done.