Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 178 of 356
Found at i:57920135 original size:164 final size:161
Alignment explanation
Indices: 57919936--57921286 Score: 1244
Period size: 164 Copynumber: 8.5 Consensus size: 161
57919926 TTTTTTTACA
* *
57919936 ACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-
*
57920001 TTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAAC
64 TTTTTTGAAAAATATAAA-TTAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
* *
57920066 TTACCTCTCGCAGTATGAGTTGA-TTTTTTGAAAG
127 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
* * * * **
57920100 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
57920164 TTTT------T-T---TTACAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCA
66 TTTTGAAAAATATAAATTAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCA
57920218 CCTCTCGCAATATGAGTTGAATTTTTTTTGAAAATATAAATTG
130 CCTCTCGCAATATGAGTTG-A-TTTTTTTG-------AAA--G
* *
57920261 AAAAGCAGAAATTGAAATTACCTCAACGTG-CTTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 ---A-CAGAAATTGAAATTACCTCAGCGTGTC-CTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * * *
57920325 TGATTTTTTG----------A--AAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAA
61 TGATTTTTTGAAAAATATAAATTAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAA
** *
57920378 CTCATTTCTCGCAATATGAGTTGATTTTTTTGACA-
126 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
57920413 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-
*
57920478 TTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTTAACGTGCCTTGAGGCTCAAC
64 TTTTTTGAAAAATATAAATT-AAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
*
57920543 TCACCTCTCGCAATATGAGTTGA--TTATTGACAA-
127 TCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAG
* ** *
57920576 ACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA-T
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * ** **
57920640 TTTTG-AAAA-ATAGATTGAAACAAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTC
66 TTTTGAAAAATATAAATTAAAAC-AGAAATTGA-AATTACCTCAACGTGCCTTGAGGCTCAACTC
*
57920702 ACCTCTCGCAATATGAGTTGA--TTTTTGAAAA
129 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
* *
57920733 ACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * *
57920797 TTTTGAAAAACATAAATT-GAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCAT
66 TTTTGAAAAATATAAATTAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC
*
57920861 TTCTCGCAATATGAGTTGATTTTTTTTTTGAAAG
131 CTCTCGCAATATGAGTTGA---TTTTTTTGAAAG
* * * * **
57920895 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* * * * * ** * * ** * *
57920960 TTTTTGAAAGACAAAAATTGAAA-A-TACCTCAGCATGTA--TTGA-G-G-C-TCA-ACTC-A-T
65 TTTTTGAAAAATATAAATTAAAACAGAAATTGA-AAT-TACCTCAACGTGCCTTGAGGCTCAACT
* *
57921014 ---TTCTCGCAATATGAGTTGATTTTTTTTTTGACA-
128 CACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAG
* *
57921047 ACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAAT
1 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-GA-
57921112 TTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
64 TTTTTTGAAAAATATAAA-TTAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
* *
57921177 TTACCTCTCGCAGTATGAGTTGATTTTTTTTGAAA-
127 TCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAG
* ** *
57921212 AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 A-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
57921277 TTTTTTGAAA
64 TTTTTTGAAA
57921287 CAGAAATAAA
Statistics
Matches: 994, Mismatches: 119, Indels: 147
0.79 0.09 0.12
Matches are distributed among these distances:
148 57 0.06
149 57 0.06
150 15 0.02
152 61 0.06
153 49 0.05
154 6 0.01
155 5 0.01
156 9 0.01
157 182 0.18
158 19 0.02
159 16 0.02
160 9 0.01
161 9 0.01
162 85 0.09
163 71 0.07
164 185 0.19
165 82 0.08
166 60 0.06
167 17 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (161 bp):
ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTGAAAAATATAAATTAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTGAAAG
Found at i:57920151 original size:74 final size:73
Alignment explanation
Indices: 57920030--57920263 Score: 279
Period size: 75 Copynumber: 3.1 Consensus size: 73
57920020 TTAAAAGCAG
* * * * *
57920030 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
57920095 GAAAGACAA
66 GAAA-ACAA
* * **
57920104 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * *
57920169 TTTACAACAG
64 TTGAAAACAA
*
57920179 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTT
* *
57920244 TTTGAAAATAT
63 TTTGAAAACAA
57920255 AAATTGAAA
1 AAATTGAAA
57920264 AGCAGAAATT
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
74 50 0.37
75 56 0.41
76 30 0.22
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (73 bp):
AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAA
Found at i:57920191 original size:239 final size:238
Alignment explanation
Indices: 57919923--57921280 Score: 1339
Period size: 239 Copynumber: 5.7 Consensus size: 238
57919913 GATTTTTTTT
* *
57919923 ATTTTTTTTTACAACAGAAATTGAAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCA
1 ATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
57919988 ATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACGTGC
66 ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGC
* *
57920053 CTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACC
131 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGACAAAAATTGAAAATACC
57920118 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
195 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
57920162 ATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
1 ATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
57920227 ATATGAGTTGAATTTTTTTTG-AAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG
66 ATATGAGTTGAA-TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG
*
57920291 CTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATAC
130 CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGACAAAAATTGAAAATAC
*
57920356 CTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTG
194 CTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
57920401 A-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
1 ATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
57920465 ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTTAACGTGC
66 ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGC
* * *
57920530 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTGACAA-ACAGAAATTGAAATTACC
131 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAGACAAAAATTGAAAATACC
** * *
57920594 TCAGTGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTG
195 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * * *
57920638 ATTTTTGAAAAATAGATTGA-AACAAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACT
1 ATTTTT------T---TTTACAAC-AGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACT
*
57920701 CACCTCTCGCAATATGAGTTG-A--TTTTTG----------A---AAAA-CAGAAATTGAAAATA
55 CACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTA
**
57920749 CCTCAGTGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
120 CCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--------AAA
* * * *
57920813 TTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
176 --G-ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
57920878 G
238 G
* * * * * **
57920879 ATTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
1 A-TTTTTTTTT-ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* * * *
57920944 GCAATATGAGTTG-ATTTTTTTG--------AAA--G---A-CAAAAATTGAAAATACCTCAGCA
63 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACG
** ** * *
57920994 TGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACA-ACAGAAATTGA
128 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAGACAAAAATTGA
* * * * ** *
57921058 AATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
188 AAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT-G
* *
57921110 ATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTC
1 A---TTTT------T-T---TTTACAA-CAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTC
* *
57921174 AACTTACCTCTCGCAGTATGAGTTG-A---TTTT------T-T---TTGAAAAGCAGAAATTGAA
51 AACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAA
* * *
57921225 AATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
116 ATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
57921281 TTGAAACAGA
Statistics
Matches: 980, Mismatches: 72, Indels: 135
0.83 0.06 0.11
Matches are distributed among these distances:
230 115 0.12
231 7 0.01
233 7 0.01
234 6 0.01
235 52 0.05
236 3 0.00
237 133 0.14
238 164 0.17
239 230 0.23
240 9 0.01
241 60 0.06
242 66 0.07
243 58 0.06
244 7 0.01
246 4 0.00
247 57 0.06
248 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (238 bp):
ATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGC
CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAAAAATTGAAAATACCT
CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
Found at i:57920351 original size:74 final size:74
Alignment explanation
Indices: 57920258--57921122 Score: 568
Period size: 74 Copynumber: 11.1 Consensus size: 74
57920248 AAAATATAAA
* *
57920258 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CTTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAA-CAAAAATTGAAATTACCTCAGCGTGTC-TTGAGGCTCAACTCACCTCTCGCAATATG
57920322 AGTTGA-TTTT
64 AGTTGATTTTT
* * * **
57920332 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
57920397 GTTGATTTTT
65 GTTGATTTTT
* * *
57920407 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
57920472 TTGAATTTTT
66 TTG-ATTTTT
* ** *** * * * *
57920482 TTGAAAA-ATATAAATTGAAA--AGCAGAAATTGAAATTACCTTAACGTGCCTTGAGGCTCAACT
1 TTGAAAACA-A-AAATTGAAATTACCTCAGCGTG----T--CTTGA-G-G-C-TCA-ACTCACCT
* * * *
57920544 CAC-C--TCTCGCAATATGAGTTGATTA
53 CTCGCAATAT-G-AGT-TGA-TT--TTT
* * * ** *
57920569 TTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGA-AAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
57920634 GTTGA--TTT
65 GTTGATTTTT
* * * ** **
57920642 TTGAAAA-ATAGATTGAAACAAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCT
1 TTGAAAACAAAAATTG-------AAATT-AC-CT-CAGC-GTGT--CTTGAGGCTCAACTCACCT
57920706 CTCGCAATATGAGTTGA--TTT
53 CTCGCAATATGAGTTGATTTTT
* * * *
57920726 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
57920791 GTTGATTTTT
65 GTTGATTTTT
* * * * * **
57920801 GAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
1 -------TTGAA---AACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
57920866 GCAATATGAGTTGATTTTTTTT
56 GCAATATGAGTTGA---TTTTT
* * **
57920888 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
57920953 GTTGATTTTT
65 GTTGATTTTT
* * * **
57920963 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
57921028 GTTGATTTTTTTT
65 GTTGA---TTTTT
* * * *
57921041 TTGACAACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
57921106 TTAAATTTTT
66 TT-GATTTTT
57921116 TTGAAAA
1 TTGAAAA
57921123 ATATAAATTT
Statistics
Matches: 632, Mismatches: 94, Indels: 129
0.74 0.11 0.15
Matches are distributed among these distances:
71 6 0.01
72 3 0.00
73 41 0.06
74 120 0.19
75 115 0.18
76 10 0.02
77 55 0.09
78 88 0.14
79 10 0.02
80 9 0.01
81 7 0.01
82 9 0.01
83 5 0.01
84 102 0.16
85 17 0.03
86 6 0.01
87 20 0.03
88 3 0.00
89 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:57920614 original size:73 final size:73
Alignment explanation
Indices: 57920495--57921107 Score: 326
Period size: 73 Copynumber: 7.9 Consensus size: 73
57920485 AAAAATATAA
*
57920495 ATTGAAAAGCAGAAATTGAAATTACCTTAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
1 ATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
57920560 AGTTGATT
66 AGTTGATT
** ** *
57920568 ATTGACAAA-CAGAAATTGAAATTACCTCAGTGTGTCC-TGAGGCTCAACTCATTTCTCGTAATA
1 ATTGA-AAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATA
57920631 TGAGTTGATT
64 TGAGTTGATT
* * * ** ** ** * * * * *
57920641 TTTGAAAA--ATAGATTGAAACAAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCAC
1 ATTGAAAAGCAGAAATTG-AA-ATTACCTCAAC-GTGCCT---TGAGGCTC-A-----A-CTCAC
57920704 CTCTCGCAATATGAGTTGATT
53 CTCTCGCAATATGAGTTGATT
* * * **
57920725 TTTGAAAAACAGAAATTGAAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCTCTCGCAATAT
1 ATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATAT
57920789 GAGTTGATT
65 GAGTTGATT
* * * **
57920798 TTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 ATTG------A-AAA--G--CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCT
57920863 CTCGCAATATGAGTTGATTTTTTT
55 CTCGCAATATGAGTTGA-----TT
* * * * * * **
57920887 TTTG-AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 ATTGAAAAG-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATAT
57920951 GAGTTGATTTT
65 GAGTTGA--TT
* * * * * ** **
57920962 TTTG-AAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATAT
1 ATTGAAAAG-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATAT
57921026 GAGTTGATTTTTTT
65 GAGTTGA-----TT
* * * *
57921040 TTTGACAA-CAGAAATTGAAATTATCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATAT
1 ATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATAT
57921103 GAGTT
65 GAGTT
57921108 AAATTTTTTT
Statistics
Matches: 439, Mismatches: 60, Indels: 78
0.76 0.10 0.14
Matches are distributed among these distances:
71 6 0.01
72 5 0.01
73 99 0.23
74 7 0.02
75 74 0.17
77 56 0.13
78 68 0.15
79 5 0.01
80 8 0.02
81 3 0.01
83 3 0.01
84 91 0.21
85 2 0.00
86 6 0.01
89 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (73 bp):
ATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATT
Found at i:57920721 original size:84 final size:84
Alignment explanation
Indices: 57920580--57920733 Score: 247
Period size: 84 Copynumber: 1.8 Consensus size: 84
57920570 TGACAAACAG
* * ** *
57920580 AAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
57920645 AAAAATAGATTGAAACAAA
66 AAAAATAGATTGAAACAAA
57920664 AAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGA-AATTACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
57920728 GAAAAA
65 GAAAAA
57920734 CAGAAATTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
84 62 0.97
85 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
AAATTGAAATTACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATAGATTGAAACAAA
Found at i:57920721 original size:157 final size:160
Alignment explanation
Indices: 57920332--57921280 Score: 953
Period size: 157 Copynumber: 5.9 Consensus size: 160
57920322 AGTTGATTTT
* * * * * * **
57920332 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
57920397 GTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GTTGA-TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
57920461 CGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
129 CGCAATATGAGTTG-A--TTTTTGAAAAATATAAA
*
57920496 TTGAAAAGCAGAAATTGAAATTACCTTAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * **
57920561 GTTGA-TTATTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTC
65 GTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
57920625 GTAATATGAGTTGATTTTTG-AAAA-ATAGA
130 GCAATATGAGTTGATTTTTGAAAAATATAAA
* ** **
57920654 TTG-AAACAAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAC-AGAAATTGA-AATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
57920717 AGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCT
64 AGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
57920781 CGCAATATGAGTTGATTTTTGAAAAACATAAA
129 CGCAATATGAGTTGATTTTTGAAAAATATAAA
* * **
57920813 TTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * **
57920876 TTGATTTTTTTTTTGA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATT
66 TTGA----TTTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
* * *
57920940 TCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAA
126 TCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAA
* ** * * ** * * *
57920977 TTG-AAA-A-TACCTCAGCATGTA--TTGA-G-G-C-TCA-ACTC-A-T---TTCTCGCAATATG
1 TTGAAAACAGAAATTGA-AAT-TACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
57921027 AGTTGATTTTTTTTTTGAC-AACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCAC
64 AGTTGA----TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
*
57921091 CTCTCGCAATATGAGTTAAATTTTTTTGAAAAATATAAA
125 CTCTCGCAATATGAGTT-GA--TTTTTGAAAAATATAAA
* * *
57921130 TTTAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
** *
57921195 GTTGATTTTTTTTGA-AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCT
65 GTTGA--TTTTTTGACAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
57921259 CTCGCAATATGAGTTGATTTTT
127 CTCGCAATATGAGTTGATTTTT
57921281 TTGAAACAGA
Statistics
Matches: 664, Mismatches: 83, Indels: 77
0.81 0.10 0.09
Matches are distributed among these distances:
152 54 0.08
153 51 0.08
154 3 0.00
155 2 0.00
156 7 0.01
157 184 0.28
158 20 0.03
159 14 0.02
160 8 0.01
161 5 0.01
162 76 0.11
163 71 0.11
164 80 0.12
165 17 0.03
166 55 0.08
167 17 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (160 bp):
TTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAATATAAA
Found at i:57920795 original size:230 final size:230
Alignment explanation
Indices: 57920496--57921280 Score: 845
Period size: 230 Copynumber: 3.3 Consensus size: 230
57920486 AAAATATAAA
* * *
57920496 TTGAAAAGCAGAAATTGAAATTACCTTAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
* *
57920560 AGTTGATTATTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTC
65 AGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
* * * *
57920625 GTAATATGAGTTGATTTTTGAAAAATAGATTG-AAACAAAAAATTGACAATACCTCAGTGTGCCC
130 GCAATATGAGTTGATTTTTGAAAAATAAATTGAAAAC-AAAAATTGA-AATACCTCAGCGTGCCT
*
57920689 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
193 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
**
57920726 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
57920791 GTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAA
66 GTTGATTTTTG----AC----A---AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
**
57920856 CTCATTTCTCGCAATATGAGTTGATTTTT------T-TTTTGAAAGACAAAAATTGAAAATACCT
120 CTCATTTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAA-ACAAAAATTG-AAATACCT
* * **
57920914 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
183 CAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * * ** **
57920963 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* **
57921028 GTTGATTTTTTTTTTGAC-AACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACC
66 GTTGA-----TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATT
* * *
57921092 TCTCGCAATATGAGTTAAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTC
126 TCTCGCAATATGAGTT-GA--TTTTTG-AAAA-ATAAATTGAAAA-CAAAAATTGAAA-TACCTC
* * *
57921157 AACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
184 AGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * *
57921206 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57921271 GTTGATTTTT
66 GTTGATTTTT
57921281 TTGAAACAGA
Statistics
Matches: 463, Mismatches: 55, Indels: 66
0.79 0.09 0.11
Matches are distributed among these distances:
230 123 0.27
231 3 0.01
233 5 0.01
234 5 0.01
235 55 0.12
236 3 0.01
237 65 0.14
238 8 0.02
241 69 0.15
242 61 0.13
243 66 0.14
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (230 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
CAATATGAGTTGATTTTTGAAAAATAAATTGAAAACAAAAATTGAAATACCTCAGCGTGCCTTGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:57920939 original size:78 final size:78
Alignment explanation
Indices: 57920654--57921117 Score: 491
Period size: 75 Copynumber: 6.0 Consensus size: 78
57920644 GAAAAATAGA
* * * * *
57920654 TTGAAACA-AAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57920718 GTTGA-----TTT
66 GTTGATTTTTTTT
* * *
57920726 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
***
57920791 GTTGATTTTTGAAAAAC
66 GTTGATTTTT----TTT
* * * * * **
57920808 AT-AAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTGAAA--G-ACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
57920872 TGAGTTGATTTTTTTT
63 TGAGTTGATTTTTTTT
* * **
57920888 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57920953 GTTGA---TTTTT
66 GTTGATTTTTTTT
* ** **
57920963 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57921028 GTTGATTTTTTTT
66 GTTGATTTTTTTT
* * * *
57921041 TTGACA-ACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
57921105 GTTAAATTTTTTT
66 GTTGATTTTTTTT
57921118 GAAAAATATA
Statistics
Matches: 339, Mismatches: 36, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
72 7 0.02
73 57 0.17
75 74 0.22
77 61 0.18
78 69 0.20
79 1 0.00
80 1 0.00
81 6 0.02
82 1 0.00
84 62 0.18
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (78 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTT
Found at i:57921205 original size:90 final size:90
Alignment explanation
Indices: 57921048--57921212 Score: 260
Period size: 90 Copynumber: 1.8 Consensus size: 90
57921038 TTTTTGACAA
* *
57921048 CAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATT
57921113 TTTTTGAAAAATATAAATTTAAAAG
66 TTTTTGAAAAATATAAATTTAAAAG
* * * *
57921138 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTAAAT
57921202 TTTTTTGAAAA
65 TTTTTTGAAAA
57921213 GCAGAAATTG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
89 2 0.03
90 66 0.97
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (90 bp):
CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATT
TTTTTGAAAAATATAAATTTAAAAG
Found at i:57921223 original size:76 final size:75
Alignment explanation
Indices: 57921133--57921293 Score: 254
Period size: 76 Copynumber: 2.2 Consensus size: 75
57921123 ATATAAATTT
* * *
57921133 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
57921198 GATTTTTTTTG
66 GA-TTTTTTTG
* *
57921209 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
57921274 GATTTTTTTG
66 GATTTTTTTG
57921284 -AAA-CAGAAAT
1 AAAAGCAGAAAT
57921294 AAAAACATCA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
73 7 0.09
74 3 0.04
75 8 0.10
76 62 0.77
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:57924742 original size:35 final size:35
Alignment explanation
Indices: 57924703--57924772 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
57924693 CTTCAGGTTC
*
57924703 GCTACATGCTTTTCTTCCCCTCGGAACTTAGCAAT
1 GCTACATGCTCTTCTTCCCCTCGGAACTTAGCAAT
* *
57924738 GCTACATGCTCTTCTTCCCTTCGGAATTTAGCAAT
1 GCTACATGCTCTTCTTCCCCTCGGAACTTAGCAAT
57924773 CATATCATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (35 bp):
GCTACATGCTCTTCTTCCCCTCGGAACTTAGCAAT
Found at i:57932074 original size:15 final size:15
Alignment explanation
Indices: 57932053--57932106 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
57932043 TATAAAGAAA
*
57932053 GAAAGAAAAAATTTC
1 GAAAGAAGAAATTTC
*
57932068 AAAAGAAGAAATTTC
1 GAAAGAAGAAATTTC
57932083 GAAAGAAGAAATTTC
1 GAAAGAAGAAATTTC
57932098 GAAAGAAGA
1 GAAAGAAGA
57932107 GGAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.59, C:0.06, G:0.19, T:0.17
Consensus pattern (15 bp):
GAAAGAAGAAATTTC
Found at i:57932479 original size:17 final size:18
Alignment explanation
Indices: 57932457--57932497 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
57932447 AAATGGATCA
57932457 TGGGTTAAG-GGTTTTAG-
1 TGGGTTAAGAGG-TTTAGT
*
57932474 TGGGTTTAGAGGTTTAGT
1 TGGGTTAAGAGGTTTAGT
57932492 TGGGTT
1 TGGGTT
57932498 TTGATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (18 bp):
TGGGTTAAGAGGTTTAGT
Found at i:57932850 original size:6 final size:6
Alignment explanation
Indices: 57932839--57932868 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
57932829 TTTCAAAATC
57932839 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
57932869 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:57938846 original size:88 final size:90
Alignment explanation
Indices: 57938717--57938892 Score: 248
Period size: 88 Copynumber: 2.0 Consensus size: 90
57938707 TTTTTGTATT
* * *
57938717 ATTTCTTTAAAATGTTTGTATTTTTTTTGTATCTATAAATTTAATTTAGTCGGTATTATTTGTAG
1 ATTTCTTTAAAATGTTTGTA-TTTTTTTGTATATAAAAATTTAATTTAGTCGGTATTATTTGTAA
*
57938782 TTTCAATTTTATATTTTCGTGTAATA
65 TTTCAATTTTAAATTTTCGTGTAATA
* **
57938808 ATTTC-TTAGAATGTTTGTA-TTTTTTGTATATAAAAATTTAATTTAGTTTGTATTATTTGTAAT
1 ATTTCTTTAAAATGTTTGTATTTTTTTGTATATAAAAATTTAATTTAGTCGGTATTATTTGTAAT
* *
57938871 TTGAATTTTAAATTTTTGTGTA
66 TTCAATTTTAAATTTTCGTGTA
57938893 TTGTGTATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
88 58 0.76
90 13 0.17
91 5 0.07
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.57
Consensus pattern (90 bp):
ATTTCTTTAAAATGTTTGTATTTTTTTGTATATAAAAATTTAATTTAGTCGGTATTATTTGTAAT
TTCAATTTTAAATTTTCGTGTAATA
Found at i:57941253 original size:47 final size:48
Alignment explanation
Indices: 57941184--57941506 Score: 226
Period size: 47 Copynumber: 6.8 Consensus size: 48
57941174 AGGGTATAAT
* *
57941184 GTCGATGTCATGTCCCACACATGGTCTTACACTAGCTCATC-CATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA
* *
57941231 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC-ACATC-AA
* * * *
57941280 GCCGACGCCATGTCTCAGACATGGTCTTACACTAGCTC-TCACAT-ATCT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCA--A
* * *
57941328 GTGCCGATGCCATATCCCAGACATGGTCTTACACTA-C-AACTCA-AT-AC
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-TCACATCAA
* **
57941375 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACA-CATTTCATA
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCA-A
* * * *
57941423 GCCGATG-CATGTCCCAGACAT-GTCTTGCACTAGCTC-TCGCCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA
* * * * *
57941468 TGCCGATGCCATGTCCCAAACATAGTCTTCCACTGGCTC
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
57941507 TCATGATGTG
Statistics
Matches: 225, Mismatches: 28, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.04
45 18 0.08
46 23 0.10
47 82 0.36
48 21 0.09
49 39 0.17
50 33 0.15
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA
Found at i:57941535 original size:139 final size:145
Alignment explanation
Indices: 57941233--57941542 Score: 327
Period size: 139 Copynumber: 2.2 Consensus size: 145
57941223 TCCATCAAGT
* * *
57941233 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCCGACGCCATGTCTCAG
1 CGATGACATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAAGCCGACGCCATGTCCCAG
** * *
57941298 ACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATATCCCAGACATGGTCTTACACT
66 ACATGGTCTTACACTAGCTCTCACA-ATCAATGCCGATGCCATATCCCAAACATAGTCTTACACT
57941363 ACAACTCAATACGTGC
130 ACAACTCAATACGTGC
* ** *
57941379 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATTTC-ATAGCCGATG-CATGTCCCA
1 CGATGACATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGA-AGCCGACGCCATGTCCCA
* * * * *
57941439 GACAT-GTCTTGCACTAGCTCTCGC-CTCAATGCCGATGCCATGTCCCAAACATAGTCTTCCACT
65 GACATGGTCTTACACTAGCTCTCACAATCAATGCCGATGCCATATCCCAAACATAGTCTTACACT
* * *
57941502 GGC-TCTC-ATGATGTGGC
130 -ACAACTCAAT-ACGT-GC
57941519 CGAT-ACATGTCCCAGACAT-GTCTT
1 CGATGACATGTCCCAGACATGGTCTT
57941543 GCCGATGCAT
Statistics
Matches: 142, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
138 7 0.05
139 52 0.37
140 7 0.05
141 17 0.12
142 14 0.10
143 9 0.06
144 1 0.01
145 1 0.01
146 34 0.24
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (145 bp):
CGATGACATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAAGCCGACGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCACAATCAATGCCGATGCCATATCCCAAACATAGTCTTACACTA
CAACTCAATACGTGC
Found at i:57941546 original size:26 final size:26
Alignment explanation
Indices: 57941517--57941568 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
57941507 TCATGATGTG
57941517 GCCGATACATGTCCCAGACATGTCTT
1 GCCGATACATGTCCCAGACATGTCTT
*
57941543 GCCGATGCATGTCCCAGACATGTCTT
1 GCCGATACATGTCCCAGACATGTCTT
57941569 ACACTAGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (26 bp):
GCCGATACATGTCCCAGACATGTCTT
Found at i:57947823 original size:20 final size:21
Alignment explanation
Indices: 57947782--57947831 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
57947772 CAGGGTACAT
57947782 GCCCGTGTGGAAGGGCAACAC
1 GCCCGTGTGGAAGGGCAACAC
57947803 GCCCGTGTGGAAGGG-AACAC
1 GCCCGTGTGGAAGGGCAACAC
57947823 GCCCGTGTG
1 GCCCGTGTG
57947832 AATTAAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
GCCCGTGTGGAAGGGCAACAC
Found at i:57948943 original size:47 final size:47
Alignment explanation
Indices: 57948869--57949324 Score: 264
Period size: 46 Copynumber: 9.7 Consensus size: 47
57948859 AGGGTATAAT
*
57948869 GCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCATCTATCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCGA
* * * * *
57948916 GTCGATGCCATGTCCTAGACATAGTCTTACACTGACT-ATCGAAATCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--TATCGA
** * * * *
57948964 GGCCGACACCATGTCTCAGACATGGTCTTACATTAGCTC-TCACATATCCGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C-TAT-CGA
* * * * * * * *
57949015 GTCGATGCAATGTCCCAGACATGGTCTTACATTGACACCTCAATACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTAT-CGA
** * * ** *
57949063 GTTGAAGCCATGT-CCAGACATAGTCTTACACTACCACATCT-T-GTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCG-A
57949108 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--TCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTATCGA
* ** *
57949153 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAAATCTCGA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCGA
* * * * * *
57949199 GGCCGATG-CATGTCCCAGATAT-GTCTTATACTAGTTC-TCGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TATCGA
* * *
57949245 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGTGTCTCAT-AAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTG-G-CTCATCTATCG-A
57949294 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
57949325 AGCAGACAAA
Statistics
Matches: 324, Mismatches: 62, Indels: 47
0.75 0.14 0.11
Matches are distributed among these distances:
44 18 0.06
45 15 0.05
46 101 0.31
47 82 0.25
48 36 0.11
49 32 0.10
50 35 0.11
51 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCGA
Found at i:57949309 original size:94 final size:91
Alignment explanation
Indices: 57949108--57949327 Score: 275
Period size: 94 Copynumber: 2.4 Consensus size: 91
57949098 ACATCTTGTA
* *
57949108 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGAC
*
57949173 ATGTCTTACACTGGCTTAAATCTCGAG
66 ATGTCTTACACTGGCTCAAA-CTCGAG
* * * * *
57949200 GCCGATGCATGTCCCAGATATGTCTTATACTAG-TTCTCGTCTCAATGCCGATGTCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-ACATCTCAAGGCCGATG-CATGTCCCAG
*
57949264 ACATGGTCTTACACTGTGTCTCATAA-T-GTG
64 ACAT-GTCTTACACTG-G-CTCA-AACTCGAG
57949294 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
57949328 AGACAAATAA
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 43 0.39
93 14 0.13
94 44 0.40
95 2 0.02
96 3 0.03
97 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTCAAACTCGAG
Found at i:57951776 original size:12 final size:12
Alignment explanation
Indices: 57951757--57951814 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
57951747 GATTAGCATC
57951757 TATGAAATGAAA
1 TATGAAATGAAA
57951769 GT-TGAAATG-AA
1 -TATGAAATGAAA
57951780 TATGAAATGAAA
1 TATGAAATGAAA
* *
57951792 -ATAAAATATAAA
1 TATGAAAT-GAAA
57951804 T-TGAAATGAAA
1 TATGAAATGAAA
57951815 AAAATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
10 1 0.03
11 18 0.49
12 17 0.46
13 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.26
Consensus pattern (12 bp):
TATGAAATGAAA
Found at i:57951850 original size:26 final size:23
Alignment explanation
Indices: 57951773--57951833 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
57951763 ATGAAAGTTG
*
57951773 AAATGAATATGAAATGAAAATAAA-
1 AAATAAAT-TGAAATGAAAA-AAAT
*
57951797 ATATAAATTGAAATGAAAAAAAT
1 AAATAAATTGAAATGAAAAAAAT
57951820 AAATAAATTGAAAT
1 AAATAAATTGAAAT
57951834 AAGACAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.09
23 24 0.73
24 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.25
Consensus pattern (23 bp):
AAATAAATTGAAATGAAAAAAAT
Found at i:57951895 original size:10 final size:10
Alignment explanation
Indices: 57951877--57951933 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
57951867 TTATGGAAAA
*
57951877 AAATTAAATG
1 AAATAAAATG
57951887 AAATAAAATGTG
1 AAATAAAA--TG
*
57951899 AAACAAAAATG
1 AAA-TAAAATG
*
57951910 AAATGAAATG
1 AAATAAAATG
57951920 AAATGAAAATG
1 AAAT-AAAATG
57951931 AAA
1 AAA
57951934 ATGAAGATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 16 0.42
11 13 0.34
12 5 0.13
13 4 0.11
ACGTcount: A:0.65, C:0.02, G:0.14, T:0.19
Consensus pattern (10 bp):
AAATAAAATG
Found at i:57951913 original size:5 final size:5
Alignment explanation
Indices: 57951905--57951962 Score: 71
Period size: 5 Copynumber: 10.8 Consensus size: 5
57951895 TGTGAAACAA
*
57951905 AAATG AAATG AAATG AAATG AAAATG AAAATG AAGATG AAGTG AAATG
1 AAATG AAATG AAATG AAATG -AAATG -AAATG AA-ATG AAATG AAATG
57951953 AAAATG AAAT
1 -AAATG AAAT
57951963 TTGAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
5 27 0.56
6 21 0.44
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:57951931 original size:6 final size:6
Alignment explanation
Indices: 57951904--57951961 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
57951894 ATGTGAAACA
* *
57951904 AAAATG -AAATG -AAATG -AAATG AAAATG AAAATG AAGATG -AAGTG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
57951948 -AAATG AAAATG AAA
1 AAAATG AAAATG AAA
57951962 TTTGAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 22 0.48
6 24 0.52
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:57951934 original size:28 final size:28
Alignment explanation
Indices: 57951875--57951961 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
57951865 TTTTATGGAA
* * * *
57951875 AAAAATTAAATGAAATAAAATGTGAAA-C
1 AAAAATGAAATGAAATGAAATG-AAAATG
57951903 AAAAATGAAATGAAATGAAATGAAAATG
1 AAAAATGAAATGAAATGAAATGAAAATG
*
57951931 -AAAATGAAGATGAAGTGAAATGAAAATG
1 AAAAATGAA-ATGAAATGAAATGAAAATG
57951959 AAA
1 AAA
57951962 TTTGAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 11 0.22
28 38 0.75
29 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.17, T:0.18
Consensus pattern (28 bp):
AAAAATGAAATGAAATGAAATGAAAATG
Found at i:57951973 original size:22 final size:21
Alignment explanation
Indices: 57951905--57951962 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
57951895 TGTGAAACAA
57951905 AAATG-AAATGAAATGAAATG
1 AAATGAAAATGAAATGAAATG
*
57951925 AAAATGAAAATGAAGATGAAGTG
1 -AAATGAAAATGAA-ATGAAATG
57951948 AAATGAAAATGAAAT
1 AAATGAAAATGAAAT
57951963 TTGAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.21
22 20 0.59
23 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (21 bp):
AAATGAAAATGAAATGAAATG
Found at i:57952542 original size:21 final size:20
Alignment explanation
Indices: 57952515--57952574 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 20
57952505 GTCTTGTCAA
57952515 TTTTTTTATTTCATTTAAAT
1 TTTTTTTATTTCATTTAAAT
*
57952535 TTATTTTT-TTATCATTTTAAT
1 TT-TTTTTATT-TCATTTAAAT
57952556 TTTTTGTCTCATTTCATTT
1 TTTTT-T-T-ATTTCATTT
57952575 TTTTTCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 1 0.03
23 6 0.18
24 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTTATTTCATTTAAAT
Found at i:57952574 original size:5 final size:5
Alignment explanation
Indices: 57952564--57952670 Score: 79
Period size: 5 Copynumber: 19.6 Consensus size: 5
57952554 ATTTTTTGTC
** *
57952564 TCATT TCATT TTTTT TCATT TCATAT TTATT TCAACTT TCATT TCATT
1 TCATT TCATT TCATT TCATT TCAT-T TCATT TC-A-TT TCATT TCATT
* * *
57952612 TTAGAT TCATT TCAAATT ACATT TCATT TCATAT TCATT TCAAATT TCATT
1 TCA-TT TCATT TC--ATT TCATT TCATT TCAT-T TCATT TC--ATT TCATT
57952663 TCATT TCA
1 TCATT TCA
57952671 ATTTATTCTT
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
5 54 0.67
6 14 0.17
7 13 0.16
ACGTcount: A:0.26, C:0.17, G:0.01, T:0.56
Consensus pattern (5 bp):
TCATT
Found at i:57952591 original size:17 final size:17
Alignment explanation
Indices: 57952537--57952591 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
57952527 ATTTAAATTT
*
57952537 ATTTTTTTATCATTTTA
1 ATTTTTTTATCATTTCA
*
57952554 ATTTTTTGTCTCATTTC-
1 ATTTTTT-TATCATTTCA
57952571 ATTTTTTT-TCATTTCA
1 ATTTTTTTATCATTTCA
57952587 TATTT
1 -ATTT
57952592 ATTTCAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 18 0.55
18 7 0.21
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTTTATCATTTCA
Found at i:57952609 original size:12 final size:12
Alignment explanation
Indices: 57952577--57952666 Score: 61
Period size: 11 Copynumber: 7.9 Consensus size: 12
57952567 TTTCATTTTT
57952577 TTTCATTTCATA
1 TTTCATTTCATA
57952589 TTT-ATTTCA-A
1 TTTCATTTCATA
57952599 CTTTCATTTCAT-
1 -TTTCATTTCATA
*
57952611 TTT-AGATTC--A
1 TTTCA-TTTCATA
* *
57952621 TTTCAAATT-ACA
1 TTTC-ATTTCATA
57952633 TTTCATTTCATA
1 TTTCATTTCATA
*
57952645 -TTCATTTCAAA
1 TTTCATTTCATA
57952656 TTTCATTTCAT
1 TTTCATTTCAT
57952667 TTCAATTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 22
0.70 0.06 0.25
Matches are distributed among these distances:
10 5 0.08
11 31 0.50
12 26 0.42
ACGTcount: A:0.28, C:0.17, G:0.01, T:0.54
Consensus pattern (12 bp):
TTTCATTTCATA
Found at i:57952610 original size:28 final size:28
Alignment explanation
Indices: 57952577--57952670 Score: 143
Period size: 28 Copynumber: 3.4 Consensus size: 28
57952567 TTTCATTTTT
* *
57952577 TTTCATTTCATATTTATTTCAACTTTCA
1 TTTCATTTCATATTCATTTCAAATTTCA
* * *
57952605 TTTCATTTTAGATTCATTTCAAATTACA
1 TTTCATTTCATATTCATTTCAAATTTCA
57952633 TTTCATTTCATATTCATTTCAAATTTCA
1 TTTCATTTCATATTCATTTCAAATTTCA
57952661 TTTCATTTCA
1 TTTCATTTCA
57952671 ATTTATTCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.17, G:0.01, T:0.54
Consensus pattern (28 bp):
TTTCATTTCATATTCATTTCAAATTTCA
Found at i:57952620 original size:23 final size:23
Alignment explanation
Indices: 57952577--57952620 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
57952567 TTTCATTTTT
*
57952577 TTTCATTTCATATTTATTTCAAC
1 TTTCATTTCATATTTAATTCAAC
57952600 TTTCATTTCAT-TTTAGATTCA
1 TTTCATTTCATATTTA-ATTCA
57952621 TTTCAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTCATTTCATATTTAATTCAAC
Found at i:57952639 original size:17 final size:16
Alignment explanation
Indices: 57952617--57952671 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
57952607 TCATTTTAGA
57952617 TTCATTTCAAATTACAT
1 TTCATTTCAAATT-CAT
57952634 TTCATTTC--A-T-A-
1 TTCATTTCAAATTCAT
57952645 TTCATTTCAAATTTCAT
1 TTCATTTCAAA-TTCAT
57952662 TTCATTTCAA
1 TTCATTTCAA
57952672 TTTATTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
11 8 0.25
12 1 0.03
13 1 0.03
14 1 0.03
15 2 0.06
16 1 0.03
17 18 0.56
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (16 bp):
TTCATTTCAAATTCAT
Found at i:57952716 original size:21 final size:20
Alignment explanation
Indices: 57952661--57952748 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 20
57952651 TCAAATTTCA
57952661 TTTCATTTCAATTTATTCTTT
1 TTTCATTTCAATTTATT-TTT
*
57952682 TTCCATATTC-A--T-TTTTT
1 TTTCAT-TTCAATTTATTTTT
*
57952699 TCTCATTTCAATTTA-TTTT
1 TTTCATTTCAATTTATTTTT
57952718 TTTCATTTCAATTTATATTTT
1 TTTCATTTCAATTTAT-TTTT
57952739 AATTTCATTT
1 --TTTCATTT
57952749 TATTTCAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
16 3 0.06
17 8 0.15
18 2 0.04
19 20 0.37
21 10 0.19
22 3 0.06
23 8 0.15
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCATTTCAATTTATTTTT
Found at i:57952743 original size:18 final size:18
Alignment explanation
Indices: 57952703--57952751 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
57952693 TTTTTTTCTC
* *
57952703 ATTTCAATTTATTTTTTTC
1 ATTTCAATTTA-TATTTTA
57952722 ATTTCAATTTATATTTTA
1 ATTTCAATTTATATTTTA
*
57952740 ATTTCATTTTAT
1 ATTTCAATTTAT
57952752 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTCAATTTATATTTTA
Found at i:57952771 original size:25 final size:24
Alignment explanation
Indices: 57952734--57952787 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
57952724 TTCAATTTAT
* *
57952734 ATTTTAATTTCATTTTATTTCAAA
1 ATTTTAATTTCATTTAAATTCAAA
57952758 ATTTTAAATTTCATTTAAATTCAAA
1 ATTTT-AATTTCATTTAAATTCAAA
*
57952783 TTTTT
1 ATTTT
57952788 TTCAAATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTAATTTCATTTAAATTCAAA
Found at i:57952791 original size:138 final size:137
Alignment explanation
Indices: 57952522--57952794 Score: 297
Period size: 138 Copynumber: 2.0 Consensus size: 137
57952512 CAATTTTTTT
* *
57952522 ATTTCATTTAAATTTATTTTTTTATCATTTTAATTTTTTGTCTCATTTCATTTTTTTTCATTTCA
1 ATTTCATTTAAATTTATTTTTTTACCATATTAATTTTTTGTCTCATTTCATTTTTTTTCATTTCA
* * * * *
57952587 TATTTATTTCAACTTTCATTTCATTTTAGATTCATTTCAAATTACATTTCATTTCATATTCATTT
66 TATTTATTTCAACTTTCATTTCATTTCAGA-TAATTTCAAATTACATTTAAATTCAAATTCATTT
57952652 CAAATTTC
130 CAAATTTC
* *
57952660 ATTTCATTTCAATTTATTCTTTTT-CCATATTCATTTTTT-TCTCATTTCAATTTATTTTTTTCA
1 ATTTCATTTAAATTTATT-TTTTTACCATATTAATTTTTTGTCTCATTTC-A--T-TTTTTTTCA
* * * *
57952723 TTTCA-ATTTATATTTTAA-TTTCATTTTATTTCA-A-AATTTTAAATTTCATTTAAATTCAAAT
61 TTTCATA-TT-TATTTCAACTTTCATTTCATTTCAGATAATTTCAAATTACATTTAAATTCAAAT
**
57952784 TTTTTTCAAAT
124 TCATTTCAAAT
57952795 CAAAGTTTTA
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
137 9 0.08
138 60 0.53
139 5 0.04
140 3 0.03
141 29 0.26
142 7 0.06
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.60
Consensus pattern (137 bp):
ATTTCATTTAAATTTATTTTTTTACCATATTAATTTTTTGTCTCATTTCATTTTTTTTCATTTCA
TATTTATTTCAACTTTCATTTCATTTCAGATAATTTCAAATTACATTTAAATTCAAATTCATTTC
AAATTTC
Found at i:57952974 original size:18 final size:17
Alignment explanation
Indices: 57952943--57953060 Score: 66
Period size: 18 Copynumber: 6.8 Consensus size: 17
57952933 ATATGTCTTG
57952943 TCAATTTT-TTTTCATT
1 TCAATTTTATTTTCATT
57952959 TCAATTTATATTTTCAGTT
1 TCAATTT-TATTTTCA-TT
*
57952978 T--ATTTCATTTTCATT
1 TCAATTTTATTTTCATT
* *
57952993 TCACATTTCACATTTCACATT
1 TCA-ATTT--TATTT-TCATT
* *
57953014 TCACGTTTCA-TTTCATT
1 TCA-ATTTTATTTTCATT
* *
57953031 TAAATTTTTTTTCTCATT
1 TCAATTTTATTT-TCATT
57953049 TCAA-TTTATTTT
1 TCAATTTTATTTT
57953061 TTTATTTAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.04
16 18 0.22
17 19 0.23
18 20 0.25
19 5 0.06
20 5 0.06
21 11 0.14
ACGTcount: A:0.23, C:0.16, G:0.02, T:0.59
Consensus pattern (17 bp):
TCAATTTTATTTTCATT
Found at i:57953001 original size:7 final size:7
Alignment explanation
Indices: 57952989--57953023 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
57952979 ATTTCATTTT
57952989 CATTTCA
1 CATTTCA
57952996 CATTTCA
1 CATTTCA
57953003 CATTTCA
1 CATTTCA
57953010 CATTTCA
1 CATTTCA
*
57953017 CGTTTCA
1 CATTTCA
57953024 TTTCATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.43
Consensus pattern (7 bp):
CATTTCA
Found at i:57953047 original size:23 final size:22
Alignment explanation
Indices: 57953021--57953093 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 22
57953011 ATTTCACGTT
57953021 TCATTTC-ATTTAAATTTTTTTTC
1 TCATTTCAATTT--ATTTTTTTTC
57953044 TCATTTCAATTTA--TTTTTT-
1 TCATTTCAATTTATTTTTTTTC
*
57953063 T-ATTTAAATTTA-TTTT-TTC
1 TCATTTCAATTTATTTTTTTTC
57953082 TCATTTC-ATTTA
1 TCATTTCAATTTA
57953094 ATTTGCGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
18 12 0.27
19 10 0.23
20 10 0.23
22 1 0.02
23 7 0.16
24 4 0.09
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (22 bp):
TCATTTCAATTTATTTTTTTTC
Found at i:57953049 original size:42 final size:38
Alignment explanation
Indices: 57953024--57953093 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
57953014 TCACGTTTCA
57953024 TTTCATTTAAA-TT-TTTTTTCTCATTTCAATTTATTT
1 TTTCATTTAAATTTATTTTTTCTCATTTCAATTTATTT
*
57953060 TTTTATTTAAATTTATTTTTTCTCATTTC-ATTTA
1 TTTCATTTAAATTTATTTTTTCTCATTTCAATTTA
57953094 ATTTGCGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 10 0.32
37 7 0.23
38 14 0.45
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTCATTTAAATTTATTTTTTCTCATTTCAATTTATTT
Found at i:57953067 original size:18 final size:18
Alignment explanation
Indices: 57953028--57953080 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
57953018 GTTTCATTTC
*
57953028 ATTTAAATTT-TTTTTCTC
1 ATTTAAATTTATTTTT-TT
*
57953046 ATTTCAATTTATTTTTTT
1 ATTTAAATTTATTTTTTT
57953064 ATTTAAATTTATTTTTT
1 ATTTAAATTTATTTTTT
57953081 CTCATTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTAAATTTATTTTTTT
Found at i:57957236 original size:24 final size:24
Alignment explanation
Indices: 57957091--57957235 Score: 211
Period size: 24 Copynumber: 6.0 Consensus size: 24
57957081 TGCTTTATCA
*
57957091 AATAACTGGAGGCCT-AGCCTCTTTT
1 AATAACTGG-GGCATAAGCC-CTTTT
*
57957116 AATAACTGGGGCAAAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
57957140 AATAACTGGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
* *
57957164 AATAACGGGGGCATAAGCCATTTT
1 AATAACTGGGGCATAAGCCCTTTT
*
57957188 AGTAACTGGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
*
57957212 GATAACTGGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
57957236 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
24 96 0.88
25 13 0.12
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AATAACTGGGGCATAAGCCCTTTT
Found at i:57957307 original size:9 final size:9
Alignment explanation
Indices: 57957293--57957345 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
57957283 ACATCATGTG
57957293 CATATCATA
1 CATATCATA
57957302 CATATCATGTA
1 CATATCA--TA
57957313 CATATCATA
1 CATATCATA
* *
57957322 CATGTCATGTG
1 CATATCA--TA
57957333 CATATCATA
1 CATATCATA
57957342 CATA
1 CATA
57957346 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:57957310 original size:20 final size:20
Alignment explanation
Indices: 57957285--57957351 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
57957275 TTATGAATAC
57957285 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57957305 ATCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
*
57957325 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57957345 ACCATGT
1 ATCATGT
57957352 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:57957314 original size:11 final size:11
Alignment explanation
Indices: 57957285--57957340 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57957275 TTATGAATAC
*
57957285 ATCATGTGCAT
1 ATCATGTACAT
57957296 ATCA--TACAT
1 ATCATGTACAT
57957305 ATCATGTACAT
1 ATCATGTACAT
57957316 ATCA--TACAT
1 ATCATGTACAT
* *
57957325 GTCATGTGCAT
1 ATCATGTACAT
57957336 ATCAT
1 ATCAT
57957341 ACATACCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:57962216 original size:29 final size:29
Alignment explanation
Indices: 57962174--57962248 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
57962164 ATTAATACTT
57962174 AGTGACTAAAATGTAACATTTCAAACATG
1 AGTGACTAAAATGTAACATTTCAAACATG
57962203 AGTGACTAAAATGTAACATTTCAAACATG
1 AGTGACTAAAATGTAACATTTCAAACATG
*
57962232 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
57962249 TTGAAACAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATTTCAAACATG
Found at i:57971017 original size:11 final size:12
Alignment explanation
Indices: 57971003--57971040 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
57970993 AATAAATATA
57971003 TTTAT-TAAAAT
1 TTTATATAAAAT
57971014 TTTATATAAAA-
1 TTTATATAAAAT
*
57971025 ATTATATAAAAT
1 TTTATATAAAAT
57971037 TTTA
1 TTTA
57971041 ATTGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTATATAAAAT
Found at i:57971129 original size:13 final size:13
Alignment explanation
Indices: 57971111--57971135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57971101 AATTTTAATT
57971111 AAATTTATATAAA
1 AAATTTATATAAA
57971124 AAATTTATATAA
1 AAATTTATATAA
57971136 CTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTTATATAAA
Found at i:57972149 original size:31 final size:32
Alignment explanation
Indices: 57972095--57972167 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
57972085 AGTTCTTATT
57972095 TGAGCACTTTCCAAAAAGGTTTGGCTC-TCATA
1 TGAGCACTTTCCAAAAAGGTTTGG-TCATCATA
* * *
57972127 TGAGCACTTT-CAAAAAGTTTTGGTCATTATT
1 TGAGCACTTTCCAAAAAGGTTTGGTCATCATA
57972158 TGAGCACTTT
1 TGAGCACTTT
57972168 GAAAGATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 25 0.68
32 10 0.27
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (32 bp):
TGAGCACTTTCCAAAAAGGTTTGGTCATCATA
Found at i:57973650 original size:26 final size:27
Alignment explanation
Indices: 57973612--57973663 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
57973602 TAATTAAAAA
57973612 TATATTTTATTGTT-TATATTAATATTTT
1 TATATTTTATTGTTATA-ATTAA-ATTTT
57973640 TATA-TTT-TTGTTATAATTAAATTT
1 TATATTTTATTGTTATAATTAAATTT
57973664 AAAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 4 0.17
26 10 0.43
27 5 0.22
28 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TATATTTTATTGTTATAATTAAATTTT
Found at i:57974725 original size:24 final size:24
Alignment explanation
Indices: 57974697--57974744 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
57974687 AAAATCAAAT
*
57974697 GAGCAACAGACACAAAATTTAGCA
1 GAGCAACAAACACAAAATTTAGCA
57974721 GAGCAACAAACACAAAATTTAGCA
1 GAGCAACAAACACAAAATTTAGCA
57974745 AAACGGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.21, G:0.15, T:0.12
Consensus pattern (24 bp):
GAGCAACAAACACAAAATTTAGCA
Found at i:57977221 original size:79 final size:75
Alignment explanation
Indices: 57977071--57977214 Score: 207
Period size: 79 Copynumber: 1.9 Consensus size: 75
57977061 AAAGTTTATT
* * * *
57977071 TATTTAAATTGTAAAAAAAACCATAAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATA
1 TATTTAAATTGTAAAAAAAACAATAAATTAATAAATAAAATGCCAAAAAAATCATTACATAAATA
57977136 CAAAGTTGAC
66 CAAAGTTGAC
*
57977146 TATTTAAGTTGTTAAAAAAAGACAAATAAAATTAATAAATAAAATGCCAAAAAAATCATTACATA
1 TATTTAAATTG-TAAAAAAA-AC-AAT-AAATTAATAAATAAAATGCCAAAAAAATCATTACATA
57977211 AATA
62 AATA
57977215 TGAAGTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 10 0.17
76 8 0.13
77 2 0.03
78 2 0.03
79 38 0.63
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (75 bp):
TATTTAAATTGTAAAAAAAACAATAAATTAATAAATAAAATGCCAAAAAAATCATTACATAAATA
CAAAGTTGAC
Found at i:57979898 original size:60 final size:60
Alignment explanation
Indices: 57979831--57979949 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
57979821 ATACTAAACT
* *
57979831 AAACACAACAAA-TTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAA-AAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
57979891 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
57979950 TAAAAAAACA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
59 3 0.05
60 53 0.95
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:57983092 original size:25 final size:25
Alignment explanation
Indices: 57983064--57983139 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
57983054 ACAAATCATA
*
57983064 AAGCTCATAAGAGTCAATTATCGGG
1 AAGCTCATAAGAGACAATTATCGGG
* * *
57983089 AAGCTCGTAAGAAACATATAAT-GGG
1 AAGCTCATAAGAGACA-ATTATCGGG
* *
57983114 AAGCTCATAAGAGCCAAATATCGGG
1 AAGCTCATAAGAGACAATTATCGGG
57983139 A
1 A
57983140 TACTCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 3 0.08
25 33 0.82
26 4 0.10
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCATAAGAGACAATTATCGGG
Found at i:57983162 original size:24 final size:24
Alignment explanation
Indices: 57983130--57983178 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57983120 ATAAGAGCCA
*
57983130 AATATCGGGATACTCATTAGAGCT
1 AATAACGGGATACTCATTAGAGCT
* * *
57983154 AATAACGGGATGCTCTTTTGAGCT
1 AATAACGGGATACTCATTAGAGCT
57983178 A
1 A
57983179 TGGTGTGTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (24 bp):
AATAACGGGATACTCATTAGAGCT
Found at i:57983950 original size:42 final size:42
Alignment explanation
Indices: 57983891--57983980 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
57983881 ACCACATGCC
* *
57983891 CATGTGCCAGGCCGTGTGTCATACACGGTCAAGACACACGCT
1 CATGTGCCAAGCCGTGTGTCACACACGGTCAAGACACACGCT
57983933 CATGTGCCAAGCCGTGTGTCACACACGGTCAAGACACACGCT
1 CATGTGCCAAGCCGTGTGTCACACACGGTCAAGACACACGCT
*
57983975 CGTGTG
1 CATGTG
57983981 TCTACCCGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (42 bp):
CATGTGCCAAGCCGTGTGTCACACACGGTCAAGACACACGCT
Found at i:57983990 original size:42 final size:42
Alignment explanation
Indices: 57983891--57983992 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
57983881 ACCACATGCC
** *
57983891 CATGTGCCAGGCCGTGTGTCATACACGGTCAAGACACACGCT
1 CATGTGCCAACCCGTGTGTCACACACGGTCAAGACACACGCT
*
57983933 CATGTGCCAAGCCGTGTGTCACACACGGTCAAGACACACGCT
1 CATGTGCCAACCCGTGTGTCACACACGGTCAAGACACACGCT
* * *
57983975 CGTGTGTCTACCCGTGTG
1 CATGTGCCAACCCGTGTG
57983993 GACAAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (42 bp):
CATGTGCCAACCCGTGTGTCACACACGGTCAAGACACACGCT
Found at i:57984855 original size:23 final size:24
Alignment explanation
Indices: 57984800--57984953 Score: 93
Period size: 24 Copynumber: 6.5 Consensus size: 24
57984790 AGCCTTGTAA
* *
57984800 CGGGAAGCTCACATAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
*
57984824 TGGGAAGCTCACAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
* ** *
57984847 CGGGAAGCTTATC-TGGA-CTATAT
1 CGGGAAGCTCA-CAAAGAGCCATAT
* ** *
57984870 AATGGGAAGCTCA-TGAGAGCCATAAC
1 --CGGGAAGCTCACAAAGAGCCAT-AT
* * * *
57984896 CGGGAAGTTTACATAGAACCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
*
57984920 CGGGAAGCTCACGAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
57984943 CGGGAAGCTCA
1 CGGGAAGCTCA
57984954 ATAAGAACCA
Statistics
Matches: 96, Mismatches: 26, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
22 1 0.01
23 30 0.31
24 45 0.47
25 19 0.20
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:57984880 original size:48 final size:47
Alignment explanation
Indices: 57984800--57984964 Score: 140
Period size: 47 Copynumber: 3.5 Consensus size: 47
57984790 AGCCTTGTAA
* * *
57984800 CGGGAAGCTCACATAGAGCCATTTTGGGAAGCTCACAAAGAGCCTAT
1 CGGGAAGCTTACATAGAACCATATTGGGAAGCTCACAAAGAGCCTAT
* * ** *
57984847 CGGGAAGCTTATC-T-GGACTATATAATGGGAAGCTCA-TGAGAGCCATAAC
1 CGGGAAGCTTA-CATAGAACCATAT--TGGGAAGCTCACAAAGAGCC-T-AT
* * *
57984896 CGGGAAGTTTACATAGAACCATATCGGGAAGCTCACGAAGAGCCTAT
1 CGGGAAGCTTACATAGAACCATATTGGGAAGCTCACAAAGAGCCTAT
*
57984943 CGGGAAGCTCA-ATAAGAACCAT
1 CGGGAAGCTTACAT-AGAACCAT
57984965 GTAACAGGAA
Statistics
Matches: 92, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
46 7 0.08
47 35 0.38
48 25 0.27
49 18 0.20
50 7 0.08
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (47 bp):
CGGGAAGCTTACATAGAACCATATTGGGAAGCTCACAAAGAGCCTAT
Found at i:57986621 original size:12 final size:13
Alignment explanation
Indices: 57986587--57986624 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
57986577 AAGGTTATTT
57986587 AATTACTATTTAAA
1 AATTA-TATTTAAA
57986601 AATTATATTTAAA
1 AATTATATTTAAA
57986614 ATATTAT-TTTA
1 A-ATTATATTTA
57986625 CTAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTATATTTAAA
Found at i:57986765 original size:38 final size:38
Alignment explanation
Indices: 57986722--57986799 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
57986712 TATAGTAAGT
*
57986722 ATGTAACAGTTCGATTTTCAATGGTGTCGAAAATAATG
1 ATGTAACAGTTCGATTTTCAATGGTGTAGAAAATAATG
* *
57986760 ATGTAACAGTTCGTTTTTCAGTGGTGTAGAAAATAATG
1 ATGTAACAGTTCGATTTTCAATGGTGTAGAAAATAATG
57986798 AT
1 AT
57986800 TTTGGAATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (38 bp):
ATGTAACAGTTCGATTTTCAATGGTGTAGAAAATAATG
Found at i:58008455 original size:46 final size:46
Alignment explanation
Indices: 58008383--58008510 Score: 220
Period size: 46 Copynumber: 2.8 Consensus size: 46
58008373 TGTAACCCGC
* *
58008383 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
58008429 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
58008475 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
58008511 ATGCCCAAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:58017505 original size:13 final size:13
Alignment explanation
Indices: 58017487--58017513 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58017477 CTTTTATGTT
58017487 TTATTATATTATA
1 TTATTATATTATA
58017500 TTATTATATTATA
1 TTATTATATTATA
58017513 T
1 T
58017514 ACTTAAGTAT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:58027385 original size:49 final size:49
Alignment explanation
Indices: 58027323--58027460 Score: 174
Period size: 49 Copynumber: 2.8 Consensus size: 49
58027313 CACTGGCTCT
* * *
58027323 TACATCTAAGTCGATGCCATGTCCCAGACAGGTCTTATACT-GACTTCCA
1 TACATCGAGGTCGATGCCATGTCCCAGACAGGTCTTATACTAG-CTCCCA
* *
58027372 TACATCGAGGTCGATGCCATGTCCCAGACAGGGCTTACACTAGCTCCCA
1 TACATCGAGGTCGATGCCATGTCCCAGACAGGTCTTATACTAGCTCCCA
*
58027421 T-CTATCG-GTGCCGATGCCATGTCCCAGACAGGTCTTATAC
1 TAC-ATCGAG-GTCGATGCCATGTCCCAGACAGGTCTTATAC
58027461 GAGCACACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
48 2 0.03
49 75 0.96
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (49 bp):
TACATCGAGGTCGATGCCATGTCCCAGACAGGTCTTATACTAGCTCCCA
Found at i:58030148 original size:39 final size:39
Alignment explanation
Indices: 58030052--58030150 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
58030042 ATTCACTTTT
* * * * *
58030052 AAACATATATTACATTACACATATATTCACATAACATTT
1 AAACATATATAACAATACTCATATAATCACATAACATTC
* * *
58030091 AAGCATATATAACAATACTCATATAATCGCTTAACATTC
1 AAACATATATAACAATACTCATATAATCACATAACATTC
*
58030130 AAACATATATCACAATACTCA
1 AAACATATATAACAATACTCA
58030151 AAAACATGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (39 bp):
AAACATATATAACAATACTCATATAATCACATAACATTC
Found at i:58032577 original size:3 final size:3
Alignment explanation
Indices: 58032569--58032610 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
58032559 AGTATAAGGT
58032569 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58032611 AGGGAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58039762 original size:40 final size:40
Alignment explanation
Indices: 58039725--58039949 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
58039715 GCTACTCGTT
* *
58039725 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
58039765 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58039805 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
58039845 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCCCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
58039884 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58039925 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58039950 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 118 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58039909 original size:119 final size:120
Alignment explanation
Indices: 58039727--58039949 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
58039717 TACTCGTTCA
* *
58039727 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
58039792 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
58039847 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCCCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACCCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
58039909 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
58039950 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:58045356 original size:5 final size:5
Alignment explanation
Indices: 58045346--58045379 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
58045336 TTAAGTAATA
58045346 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
58045380 ATAATAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:58045475 original size:4 final size:4
Alignment explanation
Indices: 58045454--58045491 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
58045444 ACGAAAACAG
*
58045454 AGAA A-AA AGAA GGAA AGAA AGAAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AG
58045492 GGAAATTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:58045480 original size:17 final size:17
Alignment explanation
Indices: 58045399--58045491 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
58045389 TAAATAAACA
58045399 AAAGAAA-AAAAGAAATG
1 AAAGAAAGAAAAGAAA-G
58045416 AAAGAATAGAAAAG-AA-
1 AAAGAA-AGAAAAGAAAG
* * *
58045432 ACAGAATGTGAAACGAAA-
1 AAAGAA--AGAAAAGAAAG
* *
58045450 ACAGAGAA-AAAAGAAGG
1 AAAGA-AAGAAAAGAAAG
58045467 AAAGAAAGAAAAGAAAG
1 AAAGAAAGAAAAGAAAG
58045484 AAAGAAAG
1 AAAGAAAG
58045492 GGAAATTAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
16 13 0.22
17 31 0.52
18 10 0.17
19 6 0.10
ACGTcount: A:0.70, C:0.03, G:0.23, T:0.04
Consensus pattern (17 bp):
AAAGAAAGAAAAGAAAG
Found at i:58045481 original size:9 final size:9
Alignment explanation
Indices: 58045398--58045491 Score: 50
Period size: 9 Copynumber: 10.0 Consensus size: 9
58045388 GTAAATAAAC
58045398 AAAAGAAA-
1 AAAAGAAAG
58045406 AAAAGAAATG
1 AAAAGAAA-G
58045416 -AAAGAATAG
1 AAAAGAA-AG
58045425 AAAAGAAACAG
1 AAAAG-AA-AG
**
58045436 AATGTGAAACG
1 AA-AAGAAA-G
* *
58045447 AAAACAGAG
1 AAAAGAAAG
*
58045456 AAAAAAGAAG
1 AAAAGA-AAG
*
58045466 GAAAGAAAG
1 AAAAGAAAG
58045475 AAAAGAAAG
1 AAAAGAAAG
58045484 -AAAGAAAG
1 AAAAGAAAG
58045492 GGAAATTAGG
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
8 16 0.24
9 24 0.36
10 14 0.21
11 11 0.17
12 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.04
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:58056856 original size:47 final size:47
Alignment explanation
Indices: 58056802--58057175 Score: 541
Period size: 47 Copynumber: 8.0 Consensus size: 47
58056792 TTAGGATTTT
** *
58056802 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * *
58056849 ATGTGATGAATGTGTGCATGCAGATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58056896 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58056943 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58056990 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58057037 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58057084 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
58057131 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
58057176 TAGTGTGAAA
Statistics
Matches: 290, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 290 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58056904 original size:25 final size:25
Alignment explanation
Indices: 58056829--58056904 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
58056819 GTGTATATAT
*
58056829 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCTGAATGGCCAATGTG
* * *
58056854 ATGA-ATGTG-TGCAT-G-CAGATGT-
1 GTGATAAG-GCTGAATGGCCA-ATGTG
58056876 GTGATAAGGCTGAATGGCCAATGTG
1 GTGATAAGGCTGAATGGCCAATGTG
58056901 GTGA
1 GTGA
58056905 ATATGAACAT
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 6 0.16
23 11 0.30
24 10 0.27
25 10 0.27
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.25
Consensus pattern (25 bp):
GTGATAAGGCTGAATGGCCAATGTG
Found at i:58057139 original size:25 final size:25
Alignment explanation
Indices: 58057065--58057139 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
58057055 TGCATATATA
*
58057065 TGATAAGGCCGAATGGCCAATGTGA
1 TGATAAGGCCGAATGGCCAATGTGG
* * *
58057090 TGA-ATGTG-AGCAT-G-CATATGT-G
1 TGATAAG-GCCGAATGGCCA-ATGTGG
58057112 TGATAAGGCCGAATGGCCAATGTGG
1 TGATAAGGCCGAATGGCCAATGTGG
58057137 TGA
1 TGA
58057140 ATATGAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
TGATAAGGCCGAATGGCCAATGTGG
Found at i:58057388 original size:37 final size:37
Alignment explanation
Indices: 58057338--58057489 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
58057328 GGAAATATAT
* * * *
58057338 TCCGGGTGAGACCCGATGACTACATGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58057375 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
58057412 CCCGGGTAAGACCCGCTGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
58057449 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58057486 TCCG
1 TCCG
58057490 AGCTAAAGGT
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:58059298 original size:40 final size:40
Alignment explanation
Indices: 58058744--58059286 Score: 834
Period size: 40 Copynumber: 13.6 Consensus size: 40
58058734 GAGTGAAATG
*
58058744 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
58058784 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
58058824 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
58058864 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
58058904 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
58058944 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGATGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
58058984 TCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
58059024 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
58059064 TCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
58059104 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
58059144 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
58059184 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
58059224 TCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
58059264 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
58059287 ATCATGCTGG
Statistics
Matches: 455, Mismatches: 48, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 455 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:58063449 original size:47 final size:47
Alignment explanation
Indices: 58063395--58063768 Score: 541
Period size: 47 Copynumber: 8.0 Consensus size: 47
58063385 TTAGGATTTT
** *
58063395 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58063442 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58063489 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58063536 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGTATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58063583 ATGTGATGGATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58063630 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58063677 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
58063724 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
58063769 TAGTGTGAAA
Statistics
Matches: 290, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 290 1.00
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58063732 original size:25 final size:25
Alignment explanation
Indices: 58063658--58063732 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
58063648 TGCATATATA
*
58063658 TGATAAGGCCGAATGGCCAATGTGA
1 TGATAAGGCCGAATGGCCAATGTGG
* * *
58063683 TGA-ATGTG-AGCAT-G-CATATGT-G
1 TGATAAG-GCCGAATGGCCA-ATGTGG
58063705 TGATAAGGCCGAATGGCCAATGTGG
1 TGATAAGGCCGAATGGCCAATGTGG
58063730 TGA
1 TGA
58063733 ATATGAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
TGATAAGGCCGAATGGCCAATGTGG
Found at i:58063981 original size:37 final size:37
Alignment explanation
Indices: 58063931--58064076 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
58063921 GGAAATATAT
* * *
58063931 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58063968 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
58064005 CCCGGGTAAGACCCGCTGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
58064042 TCCGGGTAAGACCCGATAAATTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
58064077 CGTTCGAGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:58069799 original size:18 final size:19
Alignment explanation
Indices: 58069778--58069816 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
58069768 ATAATATTTG
*
58069778 AAATATACATA-AAGTAGT
1 AAATATACATATAACTAGT
*
58069796 AAATATATATATAACTAGT
1 AAATATACATATAACTAGT
58069815 AA
1 AA
58069817 TGTTAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (19 bp):
AAATATACATATAACTAGT
Found at i:58070120 original size:21 final size:20
Alignment explanation
Indices: 58070094--58070134 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
58070084 ATATACCTAT
* *
58070094 ATATATATTAAAGATATATAC
1 ATATATAATAAA-ACATATAC
58070115 ATATATAATAAAACATATAC
1 ATATATAATAAAACATATAC
58070135 TAAGATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATAATAAAACATATAC
Found at i:58071959 original size:26 final size:26
Alignment explanation
Indices: 58071930--58071989 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
58071920 TCCCTTTGAA
* * *
58071930 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
58071956 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
58071984 CCATTC
1 TCATTC
58071990 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:58071975 original size:28 final size:28
Alignment explanation
Indices: 58071944--58072006 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
58071934 TCGATATTTT
*
58071944 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
58071972 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
58072000 GTACACT
1 GCACACT
58072007 GAGTACCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:58085928 original size:16 final size:15
Alignment explanation
Indices: 58085900--58085937 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
58085890 TAATAACAAC
58085900 AATAATATATAAAAT
1 AATAATATATAAAAT
*
58085915 AATAATATGGTAAAAT
1 AATAATAT-ATAAAAT
58085931 AATAATA
1 AATAATA
58085938 ATGCATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:58085946 original size:34 final size:35
Alignment explanation
Indices: 58085872--58085949 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 35
58085862 AATAAATGTA
* * *
58085872 ATAATAATAATAGTATGTTAATAACAACAATAATAT
1 ATAA-AATAATAATATGGTAATAACAACAATAATAC
* * *
58085908 ATAAAATAATAATATGGTAA-AATAATAATAATGC
1 ATAAAATAATAATATGGTAATAACAACAATAATAC
58085942 ATAAAATA
1 ATAAAATA
58085950 TAGAATAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 18 0.50
35 14 0.39
36 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (35 bp):
ATAAAATAATAATATGGTAATAACAACAATAATAC
Found at i:58088029 original size:170 final size:164
Alignment explanation
Indices: 58087811--58088130 Score: 414
Period size: 170 Copynumber: 1.9 Consensus size: 164
58087801 AACACACATT
* * * * *
58087811 AAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAAGCTTAACTCACCTCTCGCAGTATGAGT
1 AAAACAGAAACTGAAAATACCTCAGCACGTGAGCCAAAGCTCAACTCACCTCTCGCAATATGAGT
* *
58087876 TGGTTTTTGAAACTT-AAAAGCA-AATTTTAAAATACCTC-GACATGTGACCC-GAGGCTCAACT
66 TGATTTTT-----TTGAAAAGCAGAA-TTGAAAATACCTCAG-CA--TG-CCCTGAGGCTCAACT
58087937 CACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAAATTGAA
121 CACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAAATTGAA
* *
58087981 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCCAATGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAACTGAAAATACCTCAGCACGTGAGCCAAAGCTCAACTCACCTCTCGCAATATGAGT
* *
58088046 TGATTTTTTTGAAAAGCAGGAATTGAAAATTCCTCAGCATGCCCTGAGGCTCAACTCACTTCTTG
66 TGATTTTTTTGAAAAGCA-GAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTTG
58088111 CAATATGAGTTGATTTTTGA
130 CAATATGAGTTGATTTTTGA
58088131 CAAACAGAAT
Statistics
Matches: 134, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
164 3 0.02
165 43 0.32
166 7 0.05
167 13 0.10
168 3 0.02
170 65 0.49
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (164 bp):
AAAACAGAAACTGAAAATACCTCAGCACGTGAGCCAAAGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAAGCAGAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTTGC
AATATGAGTTGATTTTTGAAAAATATAAATTGAA
Found at i:58088243 original size:76 final size:74
Alignment explanation
Indices: 58087981--58088289 Score: 340
Period size: 73 Copynumber: 4.1 Consensus size: 74
58087971 ATAAATTGAA
* * * *
58087981 AAAACAGAAACTGAAAATACCTCAGCATGTGAGCC-AATGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
58088045 TTGATTTTTTTG
63 TTGATTTTTTTG
* * * * * *
58088057 AAAAGCAGGAATTGAAAATTCCTCAGCATGCCCTGAGGCTCAACTCACTTCTTGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
58088122 GA--TTTTTG
65 GATTTTTTTG
* *
58088130 ACAAACAGAATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
58088195 GATTTTTTTTG
65 GA-TTTTTTTG
* * * ** * *
58088206 AAAGACAGAAATTGAAAGTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAATT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
58088271 GA--ATTTTG
65 GATTTTTTTG
58088279 AAAACAGAAAT
1 AAAACAGAAAT
58088290 AAAAACATCA
Statistics
Matches: 200, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
72 8 0.04
73 69 0.34
74 5 0.03
75 33 0.17
76 66 0.33
77 19 0.09
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:58088264 original size:149 final size:147
Alignment explanation
Indices: 58088019--58088287 Score: 396
Period size: 149 Copynumber: 1.8 Consensus size: 147
58088009 GTGAGCCAAT
* * *
58088019 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGGAATTGAAAATTCCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAAC
** * *
58088084 ATGCCCTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGACAAACAGAATTTGAAATT
66 ATGCCCTGAGGCTCAACTCACTTCTCACAATATGAATTGAATTTTGA-AAACAGAATTTGAAATT
58088149 ACCTCAGCGTGTCCTGAG
130 ACCTCAGCGTGTCCTGAG
*
58088167 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-AAAGACAGAAATTGAAAGTACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAG-CAGAAATTGAAAATACCTCA
* * * *
58088231 ACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAATTGAATTTTGAAAACAGAA
64 ACATGCCCTGAGGCTCAACTCACTTCTCACAATATGAATTGAATTTTGAAAACAGAA
58088288 ATAAAAACAT
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
148 42 0.39
149 65 0.61
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (147 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAAC
ATGCCCTGAGGCTCAACTCACTTCTCACAATATGAATTGAATTTTGAAAACAGAATTTGAAATTA
CCTCAGCGTGTCCTGAG
Found at i:58100424 original size:19 final size:20
Alignment explanation
Indices: 58100386--58100424 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58100376 ATAATATTTG
*
58100386 AAATATACATAAAGTAGTAA
1 AAATATACATAAACTAGTAA
*
58100406 AAATATATAT-AACTAGTAA
1 AAATATACATAAACTAGTAA
58100425 TGTTAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATATACATAAACTAGTAA
Found at i:58100502 original size:26 final size:26
Alignment explanation
Indices: 58100456--58100529 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
58100446 ATATAAAAAA
* * *
58100456 ATAT-TGAAAAGTGTATGTACATAAC
1 ATATATGAAAAATATATATACATAAC
* *
58100481 ATATATGAAAAATATATATACATGAT
1 ATATATGAAAAATATATATACATAAC
58100507 ATAATATGTAAAAATATAATATA
1 AT-ATATG-AAAAATAT-ATATA
58100530 GCATTCGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.10
26 18 0.45
27 5 0.12
28 8 0.20
29 5 0.12
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (26 bp):
ATATATGAAAAATATATATACATAAC
Found at i:58100623 original size:24 final size:25
Alignment explanation
Indices: 58100571--58100643 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 25
58100561 TACAATATTA
58100571 AAAAGTATATACACGTAATATATA-A--
1 AAAA-TATATACA--TAATATATACATT
* *
58100596 AAAATGTATATATAATATA-ACATT
1 AAAATATATACATAATATATACATT
*
58100620 AAAATATTTACATAATATATACAT
1 AAAATATATACATAATATATACAT
58100644 ATTGGAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.03
22 8 0.21
24 22 0.56
25 8 0.21
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAATATATACATAATATATACATT
Found at i:58100711 original size:21 final size:20
Alignment explanation
Indices: 58100687--58100740 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
58100677 CAATATTACA
*
58100687 TAAATATATACCTATATATAT
1 TAAATATATACATATATA-AT
58100708 TAAAGATATATACATATATAAT
1 T-AA-ATATATACATATATAAT
* *
58100730 AAAACATATAC
1 TAAATATATAC
58100741 TAAGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 4 0.14
23 14 0.50
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAATATATACATATATAAT
Found at i:58100812 original size:22 final size:23
Alignment explanation
Indices: 58100764--58100822 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
58100754 AATAATAAGG
58100764 ATAATATAAAAATATATACATGAA
1 ATAATATAAAAATATATACAT-AA
*
58100788 ATAGTATAAAAATATATA-ACT-A
1 ATAATATAAAAATATATACA-TAA
58100810 ATAATATTAAAAA
1 ATAATA-TAAAAA
58100823 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.19
23 7 0.23
24 18 0.58
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAATATAAAAATATATACATAA
Found at i:58100984 original size:12 final size:13
Alignment explanation
Indices: 58100969--58101000 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58100959 ATACTAGTAC
58100969 TAATAATAT-TAA
1 TAATAATATGTAA
58100981 TAATAA-ATGTAA
1 TAATAATATGTAA
58100993 TAATAATA
1 TAATAATA
58101001 ATAGTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TAATAATATGTAA
Found at i:58101048 original size:16 final size:15
Alignment explanation
Indices: 58101020--58101057 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
58101010 TAATAACAGC
58101020 AATAATATATAAAAT
1 AATAATATATAAAAT
*
58101035 AATAATATGGTAAAAT
1 AATAATAT-ATAAAAT
58101051 AATAATA
1 AATAATA
58101058 ATGCATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:58101076 original size:19 final size:18
Alignment explanation
Indices: 58101028--58101080 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
58101018 GCAATAATAT
*
58101028 ATAAAATAATAAT-ATG-
1 ATAAAATAAGAATAATGC
* *
58101044 GTAAAATAATAATAATGC
1 ATAAAATAAGAATAATGC
58101062 ATAAAATATAGAATAATGC
1 ATAAAATA-AGAATAATGC
58101081 GTACAAGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.39
17 3 0.10
18 7 0.23
19 9 0.29
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (18 bp):
ATAAAATAAGAATAATGC
Found at i:58102364 original size:17 final size:17
Alignment explanation
Indices: 58102294--58102380 Score: 72
Period size: 17 Copynumber: 5.0 Consensus size: 17
58102284 ACAAAATAAT
58102294 AAAAGAAATGAAAGAATAG
1 AAAAGAAA-GAAAGAA-AG
*
58102313 AAAAGAAACAGAAAG--TG
1 AAAAG-AA-AGAAAGAAAG
* *
58102330 AAACGAAA-ATAGAGAAG
1 AAAAGAAAGAAAGA-AAG
*
58102347 AAAAGAAGGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
58102364 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
58102381 GGAAATTAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 2 0.04
17 31 0.57
18 4 0.07
19 5 0.09
20 7 0.13
21 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.05
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:58102376 original size:13 final size:13
Alignment explanation
Indices: 58102355--58102379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58102345 AGAAAAGAAG
58102355 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
58102368 GAAAGAAAGAAA
1 GAAAGAAAGAAA
58102380 GGGAAATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:58103159 original size:24 final size:22
Alignment explanation
Indices: 58103132--58103191 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
58103122 TTTACAATTG
58103132 AAATGGATTGATTTGATATGTGAT
1 AAATGGATTGATTT-ATATG-GAT
**
58103156 AAATTTATTGAATTTATATGGAT
1 AAATGGATTG-ATTTATATGGAT
*
58103179 ATATGTGATTGAT
1 AAATG-GATTGAT
58103192 GTAGAAATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 8 0.28
24 17 0.59
25 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (22 bp):
AAATGGATTGATTTATATGGAT
Found at i:58115256 original size:20 final size:20
Alignment explanation
Indices: 58115233--58115281 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
58115223 TTAAATTTCA
*
58115233 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
58115253 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
58115273 AAAGATAAA
1 AAAGATAAA
58115282 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:58115326 original size:12 final size:12
Alignment explanation
Indices: 58115294--58115327 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
58115284 CTAAAATTAA
*
58115294 ATCTAAATAATT
1 ATCTTAATAATT
58115306 ATCCTTAATAATT
1 AT-CTTAATAATT
58115319 ATCTTAATA
1 ATCTTAATA
58115328 TAATTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
ATCTTAATAATT
Found at i:58116950 original size:20 final size:20
Alignment explanation
Indices: 58116925--58116964 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58116915 TCCAAAGCAA
58116925 ATACAATAGCTAAGAGTTCT
1 ATACAATAGCTAAGAGTTCT
58116945 ATACAATAGCTAAGAGTTCT
1 ATACAATAGCTAAGAGTTCT
58116965 TTTTCTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
ATACAATAGCTAAGAGTTCT
Found at i:58121630 original size:20 final size:20
Alignment explanation
Indices: 58121607--58121655 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
58121597 TTAAATTCTA
*
58121607 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
58121627 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
58121647 AAAGATAAA
1 AAAGATAAA
58121656 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:58121876 original size:20 final size:20
Alignment explanation
Indices: 58121831--58121876 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
58121821 CAATTTAACT
**
58121831 TTAAATTCACGTTTTTTCCC
1 TTAAATTCACACTTTTTCCC
58121851 TT-AATTCACACTTTTTCCC
1 TTAAATTCACACTTTTTCCC
58121870 TTAAATT
1 TTAAATT
58121877 TCCTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAAATTCACACTTTTTCCC
Found at i:58123044 original size:40 final size:38
Alignment explanation
Indices: 58122954--58123050 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 38
58122944 ACCAACTCCG
* *
58122954 TCTAACCTAACACACCATGTGGGGATAAAATCAACCCA
1 TCTAACCTTACACACCATATGGGGATAAAATCAACCCA
* *
58122992 -C-ACATCCCTACACACCTAATATGGGGATAAAATCGACCCA
1 TCTA-A-CCTTACACACC--ATATGGGGATAAAATCAACCCA
*
58123032 TCTAACCTTACACTCCATA
1 TCTAACCTTACACACCATA
58123051 AAGTACAGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
36 1 0.02
37 2 0.04
38 12 0.26
40 29 0.62
41 2 0.04
42 1 0.02
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.21
Consensus pattern (38 bp):
TCTAACCTTACACACCATATGGGGATAAAATCAACCCA
Found at i:58125968 original size:24 final size:24
Alignment explanation
Indices: 58125936--58125998 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
58125926 AAAATCCAAT
* * *
58125936 GCACTATGTGTGC-AGTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
58125960 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
58125984 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
58125999 ATACGGTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 29 0.83
25 6 0.17
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:58135516 original size:40 final size:40
Alignment explanation
Indices: 58135461--58135563 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
58135451 ATTTGAATAC
*
58135461 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
* *
58135501 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
* *
58135541 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
58135564 ATTGAGCTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
Found at i:58143786 original size:40 final size:40
Alignment explanation
Indices: 58143731--58143833 Score: 152
Period size: 40 Copynumber: 2.6 Consensus size: 40
58143721 ATTTGAATAC
* *
58143731 ATCCGGGCTAAGACCCGAAGTCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
* *
58143771 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
* *
58143811 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
58143834 ATTGAGCTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
Found at i:58152042 original size:30 final size:30
Alignment explanation
Indices: 58152008--58152070 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
58151998 CACACACACA
*
58152008 TGTGGTTCACTTGTGTGGCCCACACGCCTG
1 TGTGGTTCACTTGTGTGGCCCACACGCCCG
*
58152038 TGTGGTTCACTTGTGTGGTCCACACGCCCG
1 TGTGGTTCACTTGTGTGGCCCACACGCCCG
58152068 TGT
1 TGT
58152071 AGCCCATACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.10, C:0.29, G:0.30, T:0.32
Consensus pattern (30 bp):
TGTGGTTCACTTGTGTGGCCCACACGCCCG
Found at i:58152690 original size:655 final size:655
Alignment explanation
Indices: 58151441--58152749 Score: 2030
Period size: 655 Copynumber: 2.0 Consensus size: 655
58151431 CATAATAGAT
* * *
58151441 AGAATAACAAAACATGTCCACCAACCTTGCACACCAACTTCGTCCAACCCAACACACCATGTGGG
1 AGAATAACAAAACATGCCCACCAACCCTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
* * * *
58151506 GATAAATTCGACCCACCCATCCCTACACACCTAATATGGGGATAAAATTGACCCATCCAACCTTA
66 GATAAAATCGACCCACCCATCCCTACACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
* * * *
58151571 CACACCATAAAGAACTGCAGTGCAGCACATGTAATAAATATGCAGCTTAGCTGCCTAATAATAGG
131 CACACCATAAAGAACTACAATGCAACACATGTAATAAATATGCAGCTCAGCTGCCTAATAATAGG
* * * *
58151636 CTTATGAGGCCTTTCAGATACTTCATTCACTTCATCAAACCCACCCCGATGCAATGCATCATACA
196 CTTATGAAGCCTTTCAGAAACTTCATTCACTTCATCAAACCCACCCCAATGCAATACATCATACA
58151701 ATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGAGATACA
261 ATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGAGATACA
*
58151766 TGCTAGATATAATATATATTAACACGTGCAACAAAATATCATATCACAGAAACAAAGGTCTAAGC
326 TGCTAGATATAATATATATTAACACGTGCAACAAAATATCAAATCACAGAAACAAAGGTCTAAGC
* *
58151831 AAGGCCTACTGAACCTACGACAAGTCACAGTCGACTTGGGCCACCTGCGCAACCTTAGAGAACAT
391 AAGGCCTACCGAACCTACGACAAGTCACAGTCGACTTGGGCCACCCGCGCAACCTTAGAGAACAT
*
58151896 TGCAAAAAAATAGGCTCACACGCCCATATGGCCTGTCCATTTGGGCCCACACGGCTAAAATTAGC
456 TGCAAAAAAATAGGCTCACACGCCCATATGGCCTGTCCATTTGGGCCCACACGGCCAAAATTAGC
* *
58151961 CTTGGTCGTGTGGAACACATGGCCTGGCTCGAATTTCCACACACACATGTGGTTCACTTGTGTGG
521 CTTGGTCGTGTGGAACACATGGCCTAGCTCGAATATCCACACACACATGTGGTTCACTTGTGTGG
* * *
58152026 CCCACACGCCTGTGTGGTTCACTTGTGTGGTCCACACGCCCGTGTAGCCCATACGGCCTCACCAG
586 CCCACACGCCTGTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCACCAG
58152091 TCCTG
651 TCCTG
* * * *
58152096 AGAATAATAGAACATGCCCACCAACCCTGCACACCAACTCCGTCTAACCCAATACACCATGTGGG
1 AGAATAACAAAACATGCCCACCAACCCTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
* **
58152161 GATAAAATCGACCCACCTATCCCTGTACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
66 GATAAAATCGACCCACCCATCCCTACACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
* * * * *
58152226 CACACCATAAAGTACTATAATGCAACACATGTTATAAATATGCATCTCAGTTG-CTAGATAATAG
131 CACACCATAAAGAACTACAATGCAACACATGTAATAAATATGCAGCTCAGCTGCCTA-ATAATAG
* *
58152290 GCTTATGAAGCCTTTTAGAAACTTCTTTCACTTCATCAAACCCACCCCAATGCAATACATCATAC
195 GCTTATGAAGCCTTTCAGAAACTTCATTCACTTCATCAAACCCACCCCAATGCAATACATCATAC
* **
58152355 AATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACATTACTTAGATAC
260 AATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGAGATAC
*** *
58152420 ATGCTAGATATAATATATATTAACACGTGCAATGTAATATCAAATCACAGAAACAAGGGTCTAAG
325 ATGCTAGATATAATATATATTAACACGTGCAACAAAATATCAAATCACAGAAACAAAGGTCTAAG
* * * * * * *
58152485 TAAGGCTTACCGACCCTACGACAGGTCACAGTC-ACCTTGGGCGACCCGTGCAACCTTATAGAAC
390 CAAGGCCTACCGAACCTACGACAAGTCACAGTCGA-CTTGGGCCACCCGCGCAACCTTAGAGAAC
* * * * * *
58152549 ATTGCAGAAAAATGGGCTCACACGCCTATGTGGCCTGTCCATTTGGGCCCACACGGCCCAAATTG
454 ATTGCAAAAAAATAGGCTCACACGCCCATATGGCCTGTCCATTTGGGCCCACACGGCCAAAATTA
*
58152614 GCCTTGG-CTGTGTGGAACACATGGCCTAGCTCGAATATCCACACACCCATGTGGTTCACTTGTG
519 GCCTTGGTC-GTGTGGAACACATGGCCTAGCTCGAATATCCACACACACATGTGGTTCACTTGTG
*
58152678 TGGCCCACACGCCTGTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGTCCACACGGCCTCAC
583 TGGCCCACACGCCTGTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCAC
58152743 CAGTCCT
648 CAGTCCT
58152750 CACACAGTCG
Statistics
Matches: 591, Mismatches: 60, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
654 5 0.01
655 586 0.99
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (655 bp):
AGAATAACAAAACATGCCCACCAACCCTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
GATAAAATCGACCCACCCATCCCTACACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
CACACCATAAAGAACTACAATGCAACACATGTAATAAATATGCAGCTCAGCTGCCTAATAATAGG
CTTATGAAGCCTTTCAGAAACTTCATTCACTTCATCAAACCCACCCCAATGCAATACATCATACA
ATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGAGATACA
TGCTAGATATAATATATATTAACACGTGCAACAAAATATCAAATCACAGAAACAAAGGTCTAAGC
AAGGCCTACCGAACCTACGACAAGTCACAGTCGACTTGGGCCACCCGCGCAACCTTAGAGAACAT
TGCAAAAAAATAGGCTCACACGCCCATATGGCCTGTCCATTTGGGCCCACACGGCCAAAATTAGC
CTTGGTCGTGTGGAACACATGGCCTAGCTCGAATATCCACACACACATGTGGTTCACTTGTGTGG
CCCACACGCCTGTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCACCAG
TCCTG
Found at i:58156516 original size:25 final size:25
Alignment explanation
Indices: 58156488--58156535 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
58156478 TTGTAGCTAG
58156488 TTATTTGAAAAGCC-TATGTGGCATA
1 TTATTTGAAAAGCCATA-GTGGCATA
*
58156513 TTATTTGGAAAGCCATAGTGGCA
1 TTATTTGAAAAGCCATAGTGGCA
58156536 AAGTAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (25 bp):
TTATTTGAAAAGCCATAGTGGCATA
Found at i:58161066 original size:49 final size:50
Alignment explanation
Indices: 58160960--58161089 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 50
58160950 TGGGTTAAGA
* * * * *
58160960 TGTCGACGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATATAGCGAG
1 TGTCGATGCCATGTCCCA-AAAAGGTCTTACACTGGCTCTCATATAGCGAG
* * * *
58161011 -GCCGATGCCATGTCCCAAAAAGGTCTTACACTGTCTCTCATCTATCG-G
1 TGTCGATGCCATGTCCCAAAAAGGTCTTACACTGGCTCTCATATAGCGAG
* *
58161059 TGTCGATGCCATGTCCCATACAGGTCTTACA
1 TGTCGATGCCATGTCCCAAAAAGGTCTTACA
58161090 TTGACACACC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.02
49 50 0.76
50 15 0.23
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGTCGATGCCATGTCCCAAAAAGGTCTTACACTGGCTCTCATATAGCGAG
Found at i:58168632 original size:54 final size:54
Alignment explanation
Indices: 58168560--58168700 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
58168550 GTGACGAAGT
*
58168560 CACCAGATACAGAT-ATTGTAGTAGAGCCACCAGAACAGATATATGTAGCAGAGC
1 CACCAGAT-CAGATAATTGTAGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
* * * *
58168614 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTAGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
* * * * *
58168668 CACTAGATTAGATAATTATGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTAGCAGAGCCACCAG
58168701 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTAGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
Found at i:58168680 original size:27 final size:27
Alignment explanation
Indices: 58168560--58168700 Score: 137
Period size: 27 Copynumber: 5.2 Consensus size: 27
58168550 GTGACGAAGT
* *
58168560 CACCAGATACAGATAT-TGTAGTAGAGC
1 CACCAGAT-CAGATATATGTGGCAGAGC
* *
58168587 CACCAGAACAGATATATGTAGCAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
*
58168614 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
58168641 CACCAGGA-CAGATATATGTGGCAGAGC
1 CACCA-GATCAGATATATGTGGCAGAGC
* * * *
58168668 CACTAGATTAGATA-ATTATGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
58168695 CACCAG
1 CACCAG
58168701 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.11
27 83 0.86
28 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:58168701 original size:54 final size:54
Alignment explanation
Indices: 58168584--58168703 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
58168574 ATTGTAGTAG
* *
58168584 AGCCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGGACAGATATATGTAGCAGAGCCACCAGATCAGATAATTATGGCAT
* * *
58168638 AGCCACCAGGACAGATATATGTGGCAGAGCCACTAGATTAGATAATTATGGCAT
1 AGCCACCAGGACAGATATATGTAGCAGAGCCACCAGATCAGATAATTATGGCAT
58168692 AGCCACCAGGAC
1 AGCCACCAGGAC
58168704 GCTTCCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
AGCCACCAGGACAGATATATGTAGCAGAGCCACCAGATCAGATAATTATGGCAT
Done.