Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 429 of 433
Found at i:131472203 original size:73 final size:73
Alignment explanation
Indices: 131472089--131472405 Score: 302
Period size: 73 Copynumber: 4.2 Consensus size: 73
131472079 TTTTGAAATT
* * * * *
131472089 AAAACACAAAAATCGACAATT-CCTCAGCGTGCCCCGAGGCTCAACTTACCTCTTGCAATATGAG
1 AAAA-ACAAAAATTGA-AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
131472153 TTGATTTTTG
64 TTGATTTTTG
*
131472163 AAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCT-TCGCAATATGAGTT
1 AAAAACAAAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
131472227 GA-TTTTG
66 GATTTTTG
* * ** * * * *
131472234 ACAAACAGAAACAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTTAACTCACTTTTTGCAA
1 ----A-A-AAACAAAAATTGAAATTACCTCAGCA--TGTCCCGAGGCTCAACTCACCTCTCGCAA
*
131472299 TATGAATTGATTTTTTTG
58 TATGAGTTGA--TTTTTG
* * * *
131472317 -ACAATAGAAATT-ACAATTACCTCAACATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAAAAATTGA-AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
131472380 TGATTTTTG
65 TGATTTTTG
*
131472389 AAAAACATAAATTGAAA
1 AAAAACAAAAATTGAAA
131472406 CACAAAAATT
Statistics
Matches: 198, Mismatches: 29, Indels: 33
0.76 0.11 0.13
Matches are distributed among these distances:
71 5 0.03
72 25 0.13
73 47 0.24
74 37 0.19
75 2 0.01
76 21 0.11
77 25 0.13
79 17 0.09
80 14 0.07
83 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (73 bp):
AAAAACAAAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:131472301 original size:328 final size:312
Alignment explanation
Indices: 131472005--131472970 Score: 1047
Period size: 313 Copynumber: 3.1 Consensus size: 312
131471995 GAAATTGGAA
* *
131472005 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCACAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
131472070 AATTTATTTTTTTGAAATTAAAACACAAAAATCGACAATTCCTCAGCGTGCCCCGAGGCTCAACT
66 AATTT-TTTTTTTGAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACT
* * *
131472135 TACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAG
130 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAG
131472200 GCTCAACTCACCT-TCGCAATATGAGTTGA-TTTTGACAAACAGAAACAGAAATTGAAAATACCT
195 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAACAGAAATTGAAAATACCT
* * * *
131472263 CAGCACGTGAGCCGAGGCTTAACTCACTTTTTGCAATATGAA-TTGATTTTTTTG
260 CAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT-AAGTTGA-TTTTTTG
* * * * * *
131472317 -ACAATAGAAATT-ACAATTACCTCAACATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGA-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* **** *
131472380 TGATTTTTGAAAAACAT-AAATTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTC
65 TAATTTTT----TTTTTGAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTC
* * * * *
131472444 AACTCACCTCTCGCAATATTAGTTGATTTTTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTC
126 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAAATTGAAATTACCTCAGCGTGTC
*
131472509 CTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAA-ATTGAAAAA
190 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTT--G-ACA-AACA--G--AAA
* * * * *
131472573 CAGAAATTGAAAAGACCTTAGCATGTGAGCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
242 CAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
131472638 TTTTTG
307 TTTTTG
*
131472644 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * **
131472709 TAATTTTTTTTTACGAACAGAAATTGAAGA-ATAGAAATTGA-AAAACCTCAGCATGTGAGCCGA
65 TAATTTTTTTTT------TGAAATT-AAAACACAAAAATTGACAATACCTCAGC--GTGCCCCGA
* * *
131472772 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGTG
121 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCG
131472837 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----AC--AAACAGAAATTG
186 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAACAGAAATTG
* * * *
131472896 AAATTACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTT-
251 AAAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTG
131472953 AAAAACAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
131472971 CCAGAAATTG
Statistics
Matches: 547, Mismatches: 70, Indels: 78
0.79 0.10 0.11
Matches are distributed among these distances:
308 6 0.01
309 11 0.02
310 7 0.01
311 60 0.11
312 34 0.06
313 79 0.14
314 60 0.11
315 16 0.03
319 1 0.00
321 4 0.01
323 1 0.00
324 4 0.01
325 3 0.01
326 1 0.00
327 13 0.02
328 64 0.12
329 54 0.10
330 1 0.00
331 10 0.02
332 68 0.12
333 50 0.09
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (312 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
AATTTTTTTTTTGAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAACAGAAATTGAAAATACCTC
AGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTG
Found at i:131472373 original size:74 final size:74
Alignment explanation
Indices: 131472121--131472387 Score: 254
Period size: 74 Copynumber: 3.6 Consensus size: 74
131472111 CTCAGCGTGC
* * * *
131472121 CCCGAGGCTCAACTTACCTCTTGCAATATGAGTTGA--TTTTTGAAAAACAAAAATTGAAATTAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTAC
*
131472184 CTCAGCATGT
65 CTCAACATGT
* **** *
131472194 CCTGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTTGAC---AACAGAAATTGAAAT
* *
131472258 TACCTCAGCACGTGA
62 TACCTCA--ACATGT
* * * * * * *
131472273 GCCGAGGCTTAACTCACTTTTTGCAATATGAATTGATTTTTTTGACAATAGAAATT-ACAATTAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGA-AATTAC
131472337 CTCAACATGT
65 CTCAACATGT
131472347 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
131472388 GAAAAACATA
Statistics
Matches: 151, Mismatches: 33, Indels: 19
0.74 0.16 0.09
Matches are distributed among these distances:
72 15 0.10
73 17 0.11
74 42 0.28
75 1 0.01
76 18 0.12
77 20 0.13
79 20 0.13
80 18 0.12
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (74 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACC
TCAACATGT
Found at i:131472488 original size:87 final size:87
Alignment explanation
Indices: 131472324--131472488 Score: 260
Period size: 87 Copynumber: 1.9 Consensus size: 87
131472314 TTGACAATAG
*
131472324 AAATTACAATTACCTCAACATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTACAATTACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
131472389 AAAAACATAAATTGAAACACAA
66 AAAAACAGAAATTGAAACACAA
* * *
131472411 AAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTTT
1 AAATT-ACAATTACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
131472475 GAAAAATAGAAATT
65 GAAAAACAGAAATT
131472489 TAAAAATACC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
87 67 0.94
88 4 0.06
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (87 bp):
AAATTACAATTACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTGAAACACAA
Found at i:131472501 original size:161 final size:159
Alignment explanation
Indices: 131472005--131472898 Score: 981
Period size: 161 Copynumber: 5.6 Consensus size: 159
131471995 GAAATTGGAA
* *
131472005 AAAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCACAATATGAGT
1 AAAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* ***** * * * * * **
131472069 TAATTTATT---TTTTTGAAATTAAAACACAAAAATCGACAATTCCTCAGCGTGCCCCGAGGCTC
65 TGATTT-TTGACAAACAGAAATTGAAA-ACAGAAATTGAAAATACCTCAGCGTGAGCCGAGGCTC
* *
131472131 AACTTACCTCTTGCAATATGAGTTGATTTTTG
128 AACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
131472163 AAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCT-TCGCAATATGAGTT
1 AAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
131472227 GA-TTTTGACAAAC----A--G-AAACAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTTA
66 GATTTTTGACAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAG--CGTGAGCCGAGGCTCA
* * * *
131472284 ACTCACTTTTTGCAATATGAATTGATTTTTTTG
129 ACTCACCTCTCGCAATATGAGTTGA--TTTTTG
* * * * * *
131472317 -ACAATAGAAATTACAATTACCTCAACATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * **
131472381 GATTTTTGAAAAACATAAATTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAA
66 GATTTTTGACAAACAGAAATTGAAA-ACAGAAATTGAAAATACCTCAGCGTGAGCCGAGGCTCAA
*
131472446 CTCACCTCTCGCAATATTAGTTGATTTTTG
130 CTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
131472476 AAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAA-TTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
131472541 TGATTTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTTAGCATGTGAGCCGA
65 TGA----TTTTTGACAAACAGAAATTG-AAAACAGAAATTGAAAATACCTCAGC--GTGAGCCGA
*
131472606 GGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTG
123 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
*
131472644 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAA-TTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
131472709 TAATTTTTTTTTACGAACAGAAATTGAAGAATAGAAATTGAAAA-ACCTCAGCATGTGAGCCGAG
65 TGA---TTTTTGACAAACAGAAATTGAA-AACAGAAATTGAAAATACCTCAGC--GTGAGCCGAG
131472773 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
124 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
131472809 ACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
131472874 GATTTTTGACAAACAGAAATTGAAA
66 GATTTTTGACAAACAGAAATTGAAA
131472899 TTACCTCAGC
Statistics
Matches: 635, Mismatches: 72, Indels: 56
0.83 0.09 0.07
Matches are distributed among these distances:
150 18 0.03
151 2 0.00
152 34 0.05
153 42 0.07
154 23 0.04
155 12 0.02
156 2 0.00
157 17 0.03
158 42 0.07
159 7 0.01
160 10 0.02
161 104 0.16
162 2 0.00
163 20 0.03
164 52 0.08
165 51 0.08
166 53 0.08
167 73 0.11
168 71 0.11
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (159 bp):
AAAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGACAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGAGCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:131472576 original size:14 final size:14
Alignment explanation
Indices: 131472557--131472585 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
131472547 TTTTTTTACG
131472557 AACAGAAATTGAAA
1 AACAGAAATTGAAA
131472571 AACAGAAATTGAAA
1 AACAGAAATTGAAA
131472585 A
1 A
131472586 GACCTTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:131472889 original size:73 final size:73
Alignment explanation
Indices: 131472770--131472969 Score: 359
Period size: 73 Copynumber: 2.8 Consensus size: 73
131472760 CATGTGAGCC
131472770 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
*
131472835 TGTGTCCT
66 CGTGTCCT
131472843 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
131472908 CGTGTCCT
66 CGTGTCCT
* *
131472916 GAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTT-AAAAACAGAAATTGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
131472970 ACCAGAAATT
Statistics
Matches: 124, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
71 16 0.13
72 4 0.03
73 104 0.84
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
CGTGTCCT
Found at i:131472975 original size:14 final size:14
Alignment explanation
Indices: 131472953--131472984 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
131472943 AGTTGATTTT
131472953 AAAAACAGAAATTG
1 AAAAACAGAAATTG
*
131472967 AAAACCAGAAATTG
1 AAAAACAGAAATTG
131472981 AAAA
1 AAAA
131472985 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.09, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:131473039 original size:87 final size:85
Alignment explanation
Indices: 131472879--131473039 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 85
131472869 GAGTTGATTT
* * *
131472879 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCACAATATGA
* *
131472944 GTTGATTTTAAAAACAGAAA
66 GCTAATTTTAAAAACAGAAA
**
131472964 TTGA-AAACCAGAAATTGAAAATACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTTGCAAT
1 TTGACAAA-CAGAAATTGAAAATACCTCAGC--GTG-GCCTAAGGCTCAACTCACCTCTCACAAT
131473027 ATGAGCTAATTTT
62 ATGAGCTAATTTT
131473040 TGATGAACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
84 3 0.05
85 25 0.38
87 35 0.54
88 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (85 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCACAATATGA
GCTAATTTTAAAAACAGAAA
Found at i:131473041 original size:160 final size:158
Alignment explanation
Indices: 131472806--131473112 Score: 438
Period size: 160 Copynumber: 1.9 Consensus size: 158
131472796 GAGTTGATTT
* * *
131472806 TTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGTGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGA
* * * **
131472871 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA
66 GCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA
131472936 CAATATGAGTTGATTTTAAAAACAGAAA
131 CAATATGAGTTGATTTTAAAAACAGAAA
*
131472964 TTGA-AAACCAGAAATTGAAAATACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTTGCAAT
1 TTGACAAA-CAGAAATTGAAAATACCTCAG--TGTG-GCCTAAGGCTCAACTCACCTCTCGCAAT
** *
131473027 ATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCT
62 ATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCT
* *
131473092 TTCGCAATATGAGTTGATTTT
127 CTCACAATATGAGTTGATTTT
131473113 TTTGAAAATC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
157 3 0.02
158 24 0.18
160 102 0.78
161 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (158 bp):
TTGACAAACAGAAATTGAAAATACCTCAGTGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGA
GCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA
CAATATGAGTTGATTTTAAAAACAGAAA
Found at i:131473041 original size:233 final size:234
Alignment explanation
Indices: 131472604--131473128 Score: 750
Period size: 233 Copynumber: 2.2 Consensus size: 234
131472594 CATGTGAGCC
*
131472604 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATACCTC
* **
131472669 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTACGAACAGAAATT
65 AGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTAA----TTTTTAAAAACAGAAATT
* *
131472734 GAAGAATAGAAATTGAAAAACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
126 GAAGAACAGAAATTGAAAAACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * ** *
131472799 TTGATTTTTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCT
191 CTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCT
* * *
131472843 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCA
*
131472907 GCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTAAAAACAGAAATTGAA-A
66 GCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTAAAAACAGAAATTGAAGA
*
131472970 ACCAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTA
131 A-CAGAAATTGAAAA-ACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTA
** *
131473035 ATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCT
194 ATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCT
* *
131473076 GAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAATCAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAAT
131473129 AAAAACATCA
Statistics
Matches: 258, Mismatches: 23, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
231 2 0.01
232 30 0.12
233 111 0.43
235 15 0.06
237 52 0.20
238 16 0.06
239 32 0.12
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (234 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCA
GCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTAAAAACAGAAATTGAAGA
ACAGAAATTGAAAAACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
TTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCT
Found at i:131479878 original size:26 final size:26
Alignment explanation
Indices: 131479849--131479984 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
131479839 TGGTACAAAT
131479849 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131479875 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131479901 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131479927 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131479953 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
131479979 TGATAA
1 TGATAA
131479985 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:131485652 original size:20 final size:21
Alignment explanation
Indices: 131485629--131485703 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 21
131485619 TTTATGGTAC
131485629 AAAT-TGATAATAGGTTAGGT
1 AAATATGATAATAGGTTAGGT
131485649 AAATGTTCATGATAATAGGTTAGGT
1 AAA---T-ATGATAATAGGTTAGGT
131485674 AAATGTTCCATGATAATAGGTTAGGT
1 AAA---T--ATGATAATAGGTTAGGT
131485700 AAAT
1 AAAT
131485704 GTTCCATGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.06
23 2 0.04
25 23 0.47
26 21 0.43
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (21 bp):
AAATATGATAATAGGTTAGGT
Found at i:131485692 original size:26 final size:26
Alignment explanation
Indices: 131485633--131485767 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
131485623 TGGTACAAAT
131485633 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
131485658 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131485684 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131485710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131485736 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131485762 TGATAA
1 TGATAA
131485768 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:131490350 original size:12 final size:12
Alignment explanation
Indices: 131490318--131490352 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
131490308 TGGGATATGC
131490318 AATGTATGAATG
1 AATGTATGAATG
**
131490330 AATACATGAATG
1 AATGTATGAATG
131490342 AATGTATGAAT
1 AATGTATGAAT
131490353 TTCAAAATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (12 bp):
AATGTATGAATG
Found at i:131491903 original size:16 final size:15
Alignment explanation
Indices: 131491882--131491929 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
131491872 GATGTGAATA
131491882 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
131491898 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
131491913 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
131491929 A
1 A
131491930 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:131491905 original size:24 final size:24
Alignment explanation
Indices: 131491878--131491933 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
131491868 TAATGATGTG
*
131491878 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
131491902 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
131491926 AATAATAA
1 AATAATAA
131491934 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:131491912 original size:8 final size:8
Alignment explanation
Indices: 131491878--131491929 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
131491868 TAATGATGTG
*
131491878 AATAATAA
1 AATATTAA
131491886 AATATATAA
1 AATAT-TAA
131491895 AATA-TAA
1 AATATTAA
131491902 AATATTAA
1 AATATTAA
*
131491910 AATATCAA
1 AATATTAA
*
131491918 AATATTAG
1 AATATTAA
131491926 AATA
1 AATA
131491930 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:131492113 original size:25 final size:25
Alignment explanation
Indices: 131492085--131492133 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
131492075 CGTGATAATA
**
131492085 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATACATACATAATATAGTG
131492110 TTAAAAATACATACATAATATAGT
1 TTAAAAATACATACATAATATAGT
131492134 TAAGATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGTG
Found at i:131492168 original size:2 final size:2
Alignment explanation
Indices: 131492161--131492189 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
131492151 ATAGTATAAA
131492161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131492190 CGTAATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131492844 original size:30 final size:30
Alignment explanation
Indices: 131492751--131492925 Score: 210
Period size: 30 Copynumber: 5.8 Consensus size: 30
131492741 TAGGTACAAG
* *
131492751 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
131492781 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
131492811 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
131492841 TGGTGGTGGAAAAGGAGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
131492871 TGGTGGTGGAAAAGGTATGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
131492901 TGATGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
131492926 TGAGAAAAGT
Statistics
Matches: 126, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
29 2 0.02
30 124 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:131493197 original size:47 final size:46
Alignment explanation
Indices: 131493112--131493256 Score: 211
Period size: 46 Copynumber: 3.1 Consensus size: 46
131493102 GGCCTACAAC
*
131493112 AGATACCATGGCAACCTGACATG-AAATGAGTAAGACCATGGTTGAA
1 AGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATGGTTGAA
* *
131493158 AGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAA
1 AGATACCATGGCAACATGAC-AGAAAATGAGTAAGACCATGGTTGAA
* * *
131493205 AGATACCATGGCAACATGACAGAAAACGAGTAAAACCATAGTTGAA
1 AGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAA
131493251 AGATAC
1 AGATAC
131493257 TATGACATCA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 47 0.53
47 42 0.47
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (46 bp):
AGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAA
Found at i:131494587 original size:26 final size:26
Alignment explanation
Indices: 131494551--131494604 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
131494541 GTCTTCGAAG
131494551 TATGAAATTCCGCTGTTGAATCGCAA
1 TATGAAATTCCGCTGTTGAATCGCAA
131494577 TATGAAATTCCGCTGTTGAATCGCAA
1 TATGAAATTCCGCTGTTGAATCGCAA
131494603 TA
1 TA
131494605 CCAGATTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (26 bp):
TATGAAATTCCGCTGTTGAATCGCAA
Found at i:131497544 original size:5 final size:5
Alignment explanation
Indices: 131497534--131497560 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
131497524 ATCTGTATGG
131497534 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
131497561 TTCACAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:131498753 original size:18 final size:19
Alignment explanation
Indices: 131498717--131498754 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
131498707 TCGTTTCATT
*
131498717 GGACTATTTTGGAATTTTG
1 GGACTATTTTGGAAATTTG
*
131498736 GGACTATTTT-TAAATTTG
1 GGACTATTTTGGAAATTTG
131498754 G
1 G
131498755 ACTTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (19 bp):
GGACTATTTTGGAAATTTG
Found at i:131500579 original size:10 final size:11
Alignment explanation
Indices: 131500540--131500579 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
131500530 GATATTTAAA
131500540 ATATATA-TAT
1 ATATATAGTAT
131500550 ATATATA-TAT
1 ATATATAGTAT
131500560 ATATAT-GTAT
1 ATATATAGTAT
131500570 ATA-ATAGTAT
1 ATATATAGTAT
131500580 TTAAGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.07
10 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (11 bp):
ATATATAGTAT
Found at i:131500591 original size:2 final size:2
Alignment explanation
Indices: 131500540--131500572 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
131500530 GATATTTAAA
*
131500540 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131500573 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131508796 original size:35 final size:34
Alignment explanation
Indices: 131508755--131508849 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 34
131508745 TGAATTGATG
*
131508755 GATAAGATCATAGTTGGATCATGGCAATATTTAAAT
1 GATAAGATCATAATTGGATCATGGCAAT-TTT-AAT
* *
131508791 G-TAAGACCATAATTGG-GCTATGGC-ATTTTAAT
1 GATAAGATCATAATTGGATC-ATGGCAATTTTAAT
* *
131508823 GAAAAGATCATAATTGGATTATGGCAA
1 GATAAGATCATAATTGGATCATGGCAA
131508850 AAAGAAAACG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
32 4 0.08
33 21 0.44
34 4 0.08
35 18 0.38
36 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (34 bp):
GATAAGATCATAATTGGATCATGGCAATTTTAAT
Found at i:131511090 original size:21 final size:21
Alignment explanation
Indices: 131511064--131511117 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
131511054 ACGGTTTGAG
131511064 ACACGGGCGTGTCCTATGG-CC
1 ACACGGGCGTGTCC-ATGGTCC
* *
131511085 ACACGGGTGTGTCCCTGGTCC
1 ACACGGGCGTGTCCATGGTCC
*
131511106 ACATGGGCGTGT
1 ACACGGGCGTGT
131511118 GTGCCTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.13, C:0.30, G:0.35, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTCCATGGTCC
Found at i:131512089 original size:6 final size:6
Alignment explanation
Indices: 131512078--131512106 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
131512068 CTTAAATAAT
131512078 TAAATA TAAATA TAAATA TAAATA TAAAT
1 TAAATA TAAATA TAAATA TAAATA TAAAT
131512107 TGTTTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAATA
Found at i:131516138 original size:21 final size:19
Alignment explanation
Indices: 131516114--131516156 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
131516104 CATCAAAACC
*
131516114 AAAACATCATAAATCAGATTA
1 AAAACAACATAAAT-A-ATTA
*
131516135 AAAATAACATAAATAATTA
1 AAAACAACATAAATAATTA
131516154 AAA
1 AAA
131516157 GATGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 12 0.60
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAACAACATAAATAATTA
Found at i:131517879 original size:17 final size:15
Alignment explanation
Indices: 131517857--131517899 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
131517847 GAGTATTAAA
*
131517857 ATTTTAGAATTCGGATC
1 ATTTTA-AATT-GAATC
131517874 ATTTTAATATTGAATC
1 ATTTTAA-ATTGAATC
131517890 ATTTTAAATT
1 ATTTTAAATT
131517900 TTATCATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (15 bp):
ATTTTAAATTGAATC
Found at i:131523488 original size:17 final size:18
Alignment explanation
Indices: 131523459--131523498 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
131523449 AGTGGTGCTA
*
131523459 ACATAATTTAAATTCAAC
1 ACATAATTTAAATTAAAC
131523477 ACATAA-TTAAATTAAAC
1 ACATAATTTAAATTAAAC
131523494 A-ATAA
1 ACATAA
131523499 AGCATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 11 0.52
18 6 0.29
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (18 bp):
ACATAATTTAAATTAAAC
Found at i:131525775 original size:23 final size:23
Alignment explanation
Indices: 131525708--131525778 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
131525698 TTATTAACTC
*
131525708 ATTTATTTATCATTC-TTTA-TT
1 ATTTATTTATTATTCTTTTACTT
* *
131525729 ATGAATATTTATTTTATCTATTTACTT
1 AT--TTATTTATTAT-TCT-TTTACTT
131525756 ATTTATTTATTATTCTTTTACTT
1 ATTTATTTATTATTCTTTTACTT
131525779 TTCAAATGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.05
23 15 0.38
24 5 0.13
25 9 0.23
26 4 0.10
27 4 0.10
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.65
Consensus pattern (23 bp):
ATTTATTTATTATTCTTTTACTT
Found at i:131532099 original size:137 final size:137
Alignment explanation
Indices: 131531853--131532139 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
131531843 TATTGGGCCT
** *
131531853 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131531918 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
131531983 CATATGC
131 CATATGC
*
131531990 AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGTCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
131532055 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
131532120 CATATGC
131 CATATGC
131532127 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131532140 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:131533953 original size:26 final size:26
Alignment explanation
Indices: 131533917--131534052 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
131533907 CATGAAATTC
131533917 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
131533943 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131533969 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131533995 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131534021 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131534047 TTATCA
1 TTATCA
131534053 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:131537917 original size:136 final size:136
Alignment explanation
Indices: 131537747--131538031 Score: 518
Period size: 136 Copynumber: 2.1 Consensus size: 136
131537737 TATTGGGCCT
** *
131537747 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131537812 AGCCCCTTATTCAGATAACAGTATGGCCCATA-GCCCATTTCAAAATACATGCAACATCAGTAAA
66 AG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
131537876 CATATGC
130 CATATGC
*
131537883 AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGTCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131537948 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
131538013 ATATGC
131 ATATGC
131538019 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131538032 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 29 0.20
136 115 0.80
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGACAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:131541722 original size:42 final size:41
Alignment explanation
Indices: 131541588--131541727 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 41
131541578 GGCCTTAAAC
* *
131541588 CCCTAAGCATTAGGTAACAGAACGAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGTAACAGAACAAATTGCAGATCTTATCT
* * * * * * *
131541629 CCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGAAGGGTCTTAAAC-
1 CCCTAAGCAGTAG-GTAACAGAAC-AA-ATTGCA-GATCTT-ATCT
131541673 CCCTAAGCAGTAGGATAACAGAACAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGG-TAACAGAACAAATTGCAGATCTTATCT
131541715 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
131541728 TGGAGCAGAT
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
41 14 0.19
42 26 0.35
43 8 0.11
44 25 0.33
45 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (41 bp):
CCCTAAGCAGTAGGTAACAGAACAAATTGCAGATCTTATCT
Found at i:131541726 original size:86 final size:86
Alignment explanation
Indices: 131541529--131541994 Score: 550
Period size: 86 Copynumber: 5.4 Consensus size: 86
131541519 ATCAGTGAAT
* * * ** * *
131541529 TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
* *
131541594 GCATTA-GGTAACAGAACGAA
66 GCAGTAGGGTAACAGAACAAA
131541614 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
*
131541678 AGCAGTAGGATAACAGAACAAA
65 AGCAGTAGGGTAACAGAACAAA
* *
131541700 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
* *
131541764 AGCAGTAGGGTAACAG-GCTGAAT
65 AGCAGTAGGGTAACAGAAC--AAA
* * * * * *
131541787 TTCCAGATCTTAACCCCCTATGCAGTAGGGAAACAGATTGAAGACGAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
* * *
131541852 GAAGTAGGGTAACTGACCAAA
66 GCAGTAGGGTAACAGAACAAA
*
131541873 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACAAAGGGTCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
* * *
131541937 AGCAATAGGGTAACAG-GCTGAAT
65 AGCAGTAGGGTAACAGAAC--AAA
* * *
131541960 TTACAGATCTTAAC-CCCTAAGCAGTAGGGTAGCAG
1 TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAGCAG
131541995 GCTAAATTTA
Statistics
Matches: 330, Mismatches: 41, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
85 64 0.19
86 180 0.55
87 85 0.26
88 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (86 bp):
TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
GCAGTAGGGTAACAGAACAAA
Found at i:131541812 original size:43 final size:43
Alignment explanation
Indices: 131541752--131542640 Score: 421
Period size: 43 Copynumber: 20.7 Consensus size: 43
131541742 GACGAAGGGC
* *
131541752 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * ** * *
131541795 CTTAACCCCCTATGCAGTAGGGAAACAGATTGAA--GACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTAC--A-GAT
* * * * * * *
131541839 CTTAAACCCCTAAGAAGTAGGGTAACTGAC-CAAATTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * *** * *
131541881 CTTATCTCCCTAAGCAGTAGTGG-AGCA-GATCGAAGACAAAGGGT
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGCT-GAATTTACA-GAT
* *
131541925 CTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* *
131541968 CTTAA-CCCCTAAGCAGTAGGGTAGCAGGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * * ** **
131542010 CTTAACCCCCTAAGCAATAGGGAAATA-GATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGAT
* * *
131542054 CTTAAACCCCTAAGCAATAGGGTAACAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * * **
131542097 CTTAACCCCCTAAGCAGTAGGGAAATA-GATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGAT
* * *
131542140 CTTTAAACCCTTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * **** *
131542184 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGGTGGTGGAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGAT
* *
131542228 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * *** **
131542271 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGGCA-ATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA--GAT
* *
131542315 CTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * **
131542358 CTTAACCCCCTAAGTAGTAGGGAAACA-GATCAA-AGAC-GAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * *
131542398 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAG--
1 ----CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* ** * * * * *
131542443 ----A--CCCTAAACAGTAGGAAAATA-GATCGAAGGTGACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGA-T
* *
131542481 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGAT
* * * * *
131542526 CTTAAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGGTGACA-AGC
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGA-T
* * *
131542571 CTTAA-CCCCTAAACAGTAGGGTAACAGGCTAAATTTACAGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* *
131542613 CTTAACACCCTAAGCAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
131542641 ATCGAAGACG
Statistics
Matches: 614, Mismatches: 175, Indels: 114
0.68 0.19 0.13
Matches are distributed among these distances:
34 2 0.00
35 18 0.03
36 4 0.01
37 1 0.00
40 3 0.00
41 3 0.00
42 82 0.13
43 222 0.36
44 217 0.35
45 34 0.06
46 27 0.04
47 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
Found at i:131541875 original size:173 final size:172
Alignment explanation
Indices: 131541529--131541988 Score: 642
Period size: 173 Copynumber: 2.7 Consensus size: 172
131541519 ATCAGTGAAT
* * * ** *
131541529 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAACAAATCGAGGTTGATGGGCCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGCCTTAAACCCCTA
* * * * * *
131541593 AGCATTA-GGTAACAGAAC-GAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
65 AGCAATAGGGTAACAG-GCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAACAGATCGA
*
131541655 AGACGAAGGGTCTTAAACCCCTAAGCAGTAGGATAACAGAACAAA
128 AGACGAAGGGTCTTAAACCCCTAAGAAGTAGGATAACAGAACAAA
*
131541700 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAGGGCCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
* * * *
131541765 GCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTATGCAGTAGGGAAACAGATTGAAG
66 GCAATAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG-AACAGATCGAAG
* * *
131541830 ACGAAGGGTCTTAAACCCCTAAGAAGTAGGGTAACTGACCAAA
130 ACGAAGGGTCTTAAACCCCTAAGAAGTAGGATAACAGAACAAA
* *
131541873 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
131541938 GCAATAGGGTAACAGGCTGAATTTACAGATCTTAA-CCCCTAAGCAGTAGGG
66 GCAATAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
131541989 TAGCAGGCTA
Statistics
Matches: 259, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
171 61 0.24
172 30 0.12
173 168 0.65
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (172 bp):
TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAA
GCAATAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAACAGATCGAAGA
CGAAGGGTCTTAAACCCCTAAGAAGTAGGATAACAGAACAAA
Found at i:131541982 original size:259 final size:258
Alignment explanation
Indices: 131541524--131541994 Score: 678
Period size: 259 Copynumber: 1.8 Consensus size: 258
131541514 CTAGAATCAG
* * * * ** *
131541524 TGAATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACC
1 TGAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTAAACC
* * *
131541589 CCTAAGCATTAGGTAACAGAACGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 CCTAAGAAGTAGGTAACAGAACAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* * * *
131541654 AAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGATAACAGAACAAATTGCAGATCTTATCTCCCT
131 AAGACAAAGGGTCTTAAACCCCTAAGCAATAGGATAACAGAACAAATTACAGATCTTAACTCCCT
131541719 AAGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
196 AAGCAGTAG-GGTAGCAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
131541782 TGAATTTCCAGATCTTAACCCCCTATGCAGTAGGGAAACAGATTGAAGACGAAGGGTCTTAAACC
1 TGAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTAAACC
* *
131541847 CCTAAGAAGTAGGGTAACTGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
66 CCTAAGAAGTA-GGTAACAGAACAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
131541912 GAAGACAAAGGGTCTTAAACCCCTAAGCAATAGGGTAACAG-GCTGAATTTACAGATCTTAAC-C
130 GAAGACAAAGGGTCTTAAACCCCTAAGCAATAGGATAACAGAAC--AAATTACAGATCTTAACTC
131541975 CCTAAGCAGTAGGGTAGCAG
193 CCTAAGCAGTAGGGTAGCAG
131541995 GCTAAATTTA
Statistics
Matches: 186, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
258 66 0.35
259 106 0.57
260 14 0.08
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (258 bp):
TGAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTAAACC
CCTAAGAAGTAGGTAACAGAACAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACAAAGGGTCTTAAACCCCTAAGCAATAGGATAACAGAACAAATTACAGATCTTAACTCCCT
AAGCAGTAGGGTAGCAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:131542018 original size:215 final size:216
Alignment explanation
Indices: 131541756--131542211 Score: 605
Period size: 215 Copynumber: 2.1 Consensus size: 216
131541746 AAGGGCCTTA
* * * *
131541756 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTATGCAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAAC
* * * *
131541821 AGATTGAAGACGAAGGGTCTTAAACCCCTAAG-AAGTAGGGTAAC-TGACCAAATTGCAGATCTT
66 AGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAA-TAGGGTAACAGGACCAAATTACAGATCTT
* * *
131541884 ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACAAAGGG-TCTTAAACCCCTAAGCAATAGGG
130 AACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACAAAGGGCT-TTAAACCCCTAAGCAATAGGG
131541947 TAACAGGCTGAATTTACAGATCTT
193 TAACAGGCTGAATTTACAGATCTT
* *
131541971 AACCCCTAAGCAGTAGGGTAGCAGGCTAAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAAT
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAAC
* * *** *
131542036 AGATCGAAGATGATGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGTTGAATTTACAGATCTTA
66 AGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGACCAAATTACAGATCTTA
* ** * * *
131542101 ACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCTTTAAACCCTTAAGCAGTAGGGTAA
131 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGCTTTAAACCCCTAAGCAATAGGGTAA
*
131542166 CAGGTTGAATTTACAGATCTT
196 CAGGCTGAATTTACAGATCTT
*
131542187 AACCCCCTAAGCAGTAGGGAAACAG
1 AA-CCCCTAAGCAGTAGGGTAACAG
131542212 ATCGAAGGTG
Statistics
Matches: 208, Mismatches: 28, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
215 98 0.47
216 89 0.43
217 21 0.10
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (216 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAAC
AGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGACCAAATTACAGATCTTA
ACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGCTTTAAACCCCTAAGCAATAGGGTAA
CAGGCTGAATTTACAGATCTT
Found at i:131542073 original size:44 final size:44
Alignment explanation
Indices: 131541544--131542676 Score: 310
Period size: 44 Copynumber: 26.3 Consensus size: 44
131541534 GATCTTATCT
* * * * *
131541544 CCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * * * * *
131541588 CCCTAAGCATTA-GGTAACAGAACGAA-TTGCA--GATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGACCTTAACC
* * * ** *
131541629 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGATGATGGACCTTAACC
* * * *
131541673 CCCTAAGCAGTA-GGATAACAGAAC-AA-AT--TGCAGATCTTATCT
1 CCCTAAGCAGTAGGGA-AACAGATCGAAGATGATG--GACCTTAACC
* * * * * *
131541715 CCCTAAGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGATGATGGACCTTAACC
* * ** * *
131541759 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTCCA--GATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGAT-GATGGACCTTAACC
* * * * ** *
131541802 CCCTATGCAGTAGGGAAACAGATTGAAGACGAAGGGTCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * * * * *
131541846 CCCTAAGAAGTAGGGTAACTGA-CCAA-AT--TGCAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATG--GACCTTAACC
* ** * ** *
131541888 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACAAAGGGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGATGATGGACCTTAACC
* * * * * ** *
131541932 CCCTAAGCAATAGGGTAACAG-GCTGAA-TTTACAGATCTTAA-C
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGATGATGGACCTTAACC
* * * * * ** *
131541974 CCCTAAGCAGTAGGGTAGCAG-GCTAA-ATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGACCTTAACC
* * * *
131542017 CCCTAAGCAATAGGGAAATAGATCGAAGATGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * * * * ** *
131542061 CCCTAAGCAATAGGGTAACAGGTTGAA-TTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * *
131542104 CCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCTTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * * * * ** *
131542148 CCTTAAGCAGTAGGGTAACAGGTTGAA-TTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* *
131542191 CCCTAAGCAGTAGGGAAACAGATCGAAGGTGGTGGACCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * * *** *
131542235 CCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACAAATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGACCTTAACC
*** * *
131542278 CCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
* * * * * ** *
131542322 CCCTAAGTAGTAGGGTAACAG-GCTGAA-TTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGATGATGGACCTTAACC
* * * * *
131542365 CCCTAAGTAGTAGGGAAACAGATCAAAGACGAT-AAGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGA-CCTTAACC
* * * *
131542409 CCCTAAGCAGTAGGGTAACAGGT-TAA-AT--T-TA-C--AGA--
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTA-ACC
* * * * ** *
131542444 CCCTAAACAGTAGGAAAATAGATCGAAGGTGA-CAAGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGA-CCTTAACC
* * * * *
131542488 CCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTATAGATCTTAAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGACCTT-AACC
* **
131542534 CCCTAAGCAGTAGGGAAACAGATCGAAGGTGA-CAAGCCTTAA-C
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGA-CCTTAACC
* * * * * * * *
131542577 CCCTAAACAGTAGGGTAACAG-GCTAA-ATTTACAGG-TCTTAACA
1 CCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TGGACCTTAACC
* ** *
131542620 CCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGTCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
131542664 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
131542677 AGTACCAAGC
Statistics
Matches: 776, Mismatches: 244, Indels: 138
0.67 0.21 0.12
Matches are distributed among these distances:
35 18 0.02
36 3 0.00
37 2 0.00
38 1 0.00
39 1 0.00
40 4 0.01
41 19 0.02
42 111 0.14
43 257 0.33
44 316 0.41
45 13 0.02
46 30 0.04
47 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGACCTTAACC
Found at i:131542090 original size:87 final size:87
Alignment explanation
Indices: 131541971--131542676 Score: 926
Period size: 87 Copynumber: 8.2 Consensus size: 87
131541961 TACAGATCTT
* * *
131541971 AACCCCTAAGCAGTAGGGTAGCAGGCTAAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAAT
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
131542036 AGATCGAAGATGATGGGCCTTA
66 AGATCGAAGATGATGGGCCTTA
* * * *
131542058 AACCCCTAAGCAATAGGGTAACAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAT
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
*
131542123 AGATCGAAGATGATGGGCTTTA
66 AGATCGAAGATGATGGGCCTTA
* * *
131542145 AACCCTTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
* * *
131542210 AGATCGAAGGTGGTGGACCTTA
66 AGATCGAAGATGATGGGCCTTA
* *
131542232 ACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
***
131542297 AGATCGAAGGCAATGGGCCTTA
66 AGATCGAAGATGATGGGCCTTA
* * *
131542319 AACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
* * **
131542384 AGATCAAAGACGATAAGCCTTA
66 AGATCGAAGATGATGGGCCTTA
* * * *
131542406 AACCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAG------A--CCCTAAACAGTAGGAAAAT
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
* ***
131542463 AGATCGAAGGTGACAAGCCTTA
66 AGATCGAAGATGATGGGCCTTA
*
131542485 AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTATAGATCTTAAACCCCCTAAGCAGTAGGGA
1 AACCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGA
* ***
131542550 AACAGATCGAAGGTGACAAGCCTT-
63 AACAGATCGAAGATGATGGGCCTTA
* * *
131542574 AACCCCTAAACAGTAGGGTAACAGGCTAAATTTACAGGTCTTAACACCCTAAGCAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
* *
131542639 AGATCGAAGACGATGGGTCTTA
66 AGATCGAAGATGATGGGCCTTA
131542661 AACCCCTAAGCAGTAG
1 AACCCCTAAGCAGTAG
131542677 AGTACCAAGC
Statistics
Matches: 548, Mismatches: 59, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
79 59 0.11
80 2 0.00
81 8 0.01
86 37 0.07
87 376 0.69
88 3 0.01
89 26 0.05
90 37 0.07
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
AGATCGAAGATGATGGGCCTTA
Found at i:131542090 original size:302 final size:302
Alignment explanation
Indices: 131541665--131542299 Score: 785
Period size: 302 Copynumber: 2.1 Consensus size: 302
131541655 AGACGAAGGG
* * * * *
131541665 TCTTAAACCCCTAAGCAGTAGGATAACAGAACAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTT-AACCCCTAAGCAGTAGGGTAACAGAACAAATTACAGATCTTAACCCCCTAAGCAATAGTG
* * *
131541730 GAGCAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGAT
65 GAACAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGAT
* *
131541795 CTTAACCCCCTATGCAGTAGGGAAACAGATTGAAGACGAAGGG-TCTTAAACCCCTAAGAAGTAG
130 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCT-TTAAACCCCTAAGAAGTAG
* * * * *
131541859 GGTAAC-TGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACAAAG
194 GGTAACAGGACCAAATTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACAAAG
** * *
131541922 GGTCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGA
258 GACCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTACAAA
* *
131541967 TCTTAACCCCTAAGCAGTAGGGTAGCAG-GCTAAATTTACAGATCTTAACCCCCTAAGCAATAG-
1 TCTTAACCCCTAAGCAGTAGGGTAACAGAAC-AAA-TTACAGATCTTAACCCCCTAAGCAATAGT
* * * * *
131542030 GGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGTTGAATTTACAG
64 GG-AACAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAG
* * * * *
131542095 ATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCTTTAAACCCTTAAGCAGTA
128 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCTTTAAACCCCTAAGAAGTA
*** * *****
131542160 GGGTAACAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGGTG
193 GGGTAACAGGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAG
* *
131542225 GACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAA
258 GACCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTACAAA
*
131542270 TCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 TCTTAA-CCCCTAAGCAGTAGGGTAACAGA
131542300 TCGAAGGCAA
Statistics
Matches: 281, Mismatches: 44, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
300 1 0.00
301 27 0.10
302 147 0.52
303 86 0.31
304 20 0.07
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (302 bp):
TCTTAACCCCTAAGCAGTAGGGTAACAGAACAAATTACAGATCTTAACCCCCTAAGCAATAGTGG
AACAGATCAAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATC
TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCTTTAAACCCCTAAGAAGTAGGG
TAACAGGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGAC
CTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTACAAA
Found at i:131542496 original size:79 final size:80
Alignment explanation
Indices: 131542364--131542610 Score: 264
Period size: 79 Copynumber: 3.0 Consensus size: 80
131542354 AGATCTTAAC
** * * ** *
131542364 CCCCTAAGTAGTAGGGAAACAGATCAAAGACGATAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAACAGTAGGAAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
131542429 GGTTAAATTTACAGA
66 GGTTAAATTTACAGA
*
131542444 -CCCTAAACAGTAGGAAAATAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAACAGTAGGAAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
* *
131542508 GGCTGAAGATTTATAGATCTTAAA
66 GG-TTAA-A-TT-T--A-C--AGA
* * *
131542532 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAAC
1 -CCCCTAAACAGTAGGAAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC
*
131542596 AGGCTAAATTTACAG
65 AGGTTAAATTTACAG
131542611 GTCTTAACAC
Statistics
Matches: 139, Mismatches: 17, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
79 58 0.42
80 4 0.03
81 1 0.01
82 3 0.02
83 2 0.01
85 2 0.01
86 3 0.02
87 1 0.01
88 4 0.03
89 24 0.17
90 37 0.27
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (80 bp):
CCCCTAAACAGTAGGAAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
GGTTAAATTTACAGA
Found at i:131543791 original size:3 final size:3
Alignment explanation
Indices: 131543756--131543846 Score: 52
Period size: 3 Copynumber: 30.3 Consensus size: 3
131543746 GAGCTTTGTT
* *
131543756 TTA TTT TTA TT- TTA TT- TTA TTA TT- TTCA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA
131543799 TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA
1 TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
131543843 TTA T
1 TTA T
131543847 ATATACCCTC
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
2 11 0.16
3 49 0.70
4 8 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:131543800 original size:12 final size:12
Alignment explanation
Indices: 131543766--131543846 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
131543756 TTATTTTTAT
*
131543766 TTTATTTTATTA
1 TTTATATTATTA
*
131543778 TTT-TCACTATTA
1 TTTAT-ATTATTA
131543790 TTTATATTATTA
1 TTTATATTATTA
* *
131543802 -TTAT-TTCTCA
1 TTTATATTATTA
131543812 TGTATATATTATTA
1 T-T-TATATTATTA
131543826 TTTATATTATTA
1 TTTATATTATTA
131543838 -TTATATTAT
1 TTTATATTAT
131543847 ATATACCCTC
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
10 4 0.07
11 14 0.25
12 28 0.50
13 5 0.09
14 5 0.09
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:131544092 original size:2 final size:2
Alignment explanation
Indices: 131544085--131544110 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
131544075 TATTTTTATG
131544085 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
131544111 GTATTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:131544255 original size:23 final size:24
Alignment explanation
Indices: 131544213--131544278 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 24
131544203 GTATTTCTAT
*
131544213 TATATACATATATATATATTT-TTTTA
1 TATATA-ATAT-TAT-TATTTACTTTA
131544239 TATATAATATTATTATTTACTTTA
1 TATATAATATTATTATTTACTTTA
*
131544263 CAT-TAATATTATTATT
1 TATATAATATTATTATT
131544279 ATTATCATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 18 0.49
24 9 0.24
25 4 0.11
26 6 0.16
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATAATATTATTATTTACTTTA
Found at i:131546199 original size:7 final size:7
Alignment explanation
Indices: 131546172--131546201 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
131546162 ATTTTATTTT
*
131546172 TATATAT
1 TATATAA
131546179 TATATAA
1 TATATAA
131546186 TATATAA
1 TATATAA
131546193 TATATAA
1 TATATAA
131546200 TA
1 TA
131546202 ATTAAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TATATAA
Found at i:131547055 original size:2 final size:2
Alignment explanation
Indices: 131547043--131547079 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
131547033 ACATTGGAAA
131547043 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131547080 TAGAAAGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:131548545 original size:3 final size:3
Alignment explanation
Indices: 131548531--131548638 Score: 130
Period size: 3 Copynumber: 36.3 Consensus size: 3
131548521 TTAATTAATT
* * *
131548531 TTA TTT TTA TTA TTA ATA TTA TT- TTA TTA CTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
131548576 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TT- GTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
131548623 TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA T
131548639 ATTTTCTTCT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
2 3 0.03
3 83 0.94
4 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:131549040 original size:19 final size:20
Alignment explanation
Indices: 131549010--131549060 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
131549000 ACCCTTTTTT
131549010 ATTTATTTATTTTTA-TTATC
1 ATTTA-TTATTTTTACTTATC
*
131549030 ATTTATTA-TTTTACTTATT
1 ATTTATTATTTTTACTTATC
131549049 ATTTATCTATTT
1 ATTTAT-TATTT
131549061 ATCTATTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 7 0.26
21 2 0.07
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTATTATTTTTACTTATC
Found at i:131549061 original size:19 final size:17
Alignment explanation
Indices: 131549012--131549067 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 17
131549002 CCTTTTTTAT
131549012 TTATTTATT-TTTATTA
1 TTATTTATTATTTATTA
*
131549028 TCATTTATTATTTTACTTA
1 TTATTTATTA-TTTA-TTA
131549047 TTATTTATCTATTTATCTA
1 TTATTTAT-TATTTAT-TA
131549066 TT
1 TT
131549068 GATCCTTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 8 0.24
18 5 0.15
19 18 0.55
20 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTATTATTTATTA
Found at i:131550555 original size:53 final size:54
Alignment explanation
Indices: 131550491--131550597 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 54
131550481 ATCTTATAGG
* *
131550491 CTTTACTCCACAACCAATAGTTGCCATTAGT-ACATGAAAGATAAAATATAAGA
1 CTTTACACCACAACCAATAATTGCCATTAGTAACATGAAAGATAAAATATAAGA
* * * * * *
131550544 CTTTACACCACAATCACTAATTGTCATTATTAAATATGAAAGATAAAATTTAAG
1 CTTTACACCACAACCAATAATTGCCATTAGT-AACATGAAAGATAAAATATAAG
131550598 GGGAGGGCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 25 0.57
55 19 0.43
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (54 bp):
CTTTACACCACAACCAATAATTGCCATTAGTAACATGAAAGATAAAATATAAGA
Found at i:131551054 original size:26 final size:26
Alignment explanation
Indices: 131551017--131551204 Score: 304
Period size: 26 Copynumber: 7.2 Consensus size: 26
131551007 TGATACAAAT
*
131551017 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131551043 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131551069 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
131551095 TAATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131551121 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131551147 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131551173 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
131551199 TGATAA
1 TGATAA
131551205 GAATATCATG
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 150 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:131551074 original size:52 final size:52
Alignment explanation
Indices: 131551017--131551204 Score: 340
Period size: 52 Copynumber: 3.6 Consensus size: 52
131551007 TGATACAAAT
131551017 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
131551069 TGATAATAGGTTAGGTAAATGTTCCATAATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
131551121 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
131551173 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
131551205 GAATATCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 130 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:131557265 original size:24 final size:26
Alignment explanation
Indices: 131557229--131557277 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
131557219 TCAAACATGC
131557229 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
131557254 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
131557278 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:131558761 original size:26 final size:26
Alignment explanation
Indices: 131558732--131558812 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
131558722 TTAATACAAC
131558732 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
131558758 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131558784 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
131558809 ATCA
1 ATCA
131558813 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
25 9 0.17
26 44 0.83
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:131563026 original size:24 final size:26
Alignment explanation
Indices: 131562990--131563040 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
131562980 TCAAACATGC
131562990 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
131563015 ATTTCGGT-AATTTATCTCCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
131563040 A
1 A
131563041 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:131564531 original size:26 final size:26
Alignment explanation
Indices: 131564502--131564583 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
131564492 TTAATACAAC
131564502 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
131564528 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131564554 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131564580 ATCA
1 ATCA
131564584 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:131570122 original size:2 final size:2
Alignment explanation
Indices: 131570115--131570145 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
131570105 TCAATAATAC
131570115 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131570146 ATAGTAGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131570249 original size:18 final size:18
Alignment explanation
Indices: 131570219--131570287 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
131570209 TGGAGAGGGT
131570219 ATATATAAT-ATAATATTA
1 ATATA-AATAATAATATTA
131570237 ATATAAATAATAATATATA
1 ATATAAATAATAATAT-TA
* *
131570256 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATATTA
131570276 ATATAAATAATA
1 ATATAAATAATA
131570288 GTAAAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 3 0.07
18 21 0.48
19 4 0.09
20 4 0.09
21 12 0.27
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
ATATAAATAATAATATTA
Found at i:131570250 original size:3 final size:3
Alignment explanation
Indices: 131570223--131570305 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
131570213 GAGGGTATAT
*
131570223 ATA AT- ATA ATA TTA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
131570267 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
131570306 AAAAAATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 9 0.14
3 43 0.68
4 9 0.14
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:131570296 original size:27 final size:27
Alignment explanation
Indices: 131570242--131570313 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
131570232 TATTAATATA
131570242 AATAATAATAT--ATACATGAGAAATAAT
1 AATAATAATATAAATA-AT-AGAAATAAT
131570269 AATAATAATATAAATAATAGTAAA-AAT
1 AATAATAATATAAATAATAG-AAATAAT
* *
131570296 AATAA-AATAAAAAAAATA
1 AATAATAATATAAATAATA
131570314 AAACAAAGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.28
27 21 0.52
28 5 0.12
29 3 0.08
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (27 bp):
AATAATAATATAAATAATAGAAATAAT
Found at i:131570819 original size:30 final size:30
Alignment explanation
Indices: 131570785--131570870 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
131570775 ATTTGATGGT
* *
131570785 GTAGGTGCAAGTGGGAGACATGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
* *
131570815 GTAGGTACAAGTGGGAGGCAAAGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
131570845 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
131570871 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:131571245 original size:18 final size:18
Alignment explanation
Indices: 131571219--131571253 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
131571209 GAGTTAAACG
*
131571219 AATCGAGTTATTCGAGTT
1 AATCAAGTTATTCGAGTT
*
131571237 AATCAAGTTATTTGAGT
1 AATCAAGTTATTCGAGT
131571254 CAACTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:131572912 original size:3 final size:3
Alignment explanation
Indices: 131572904--131573128 Score: 79
Period size: 3 Copynumber: 72.3 Consensus size: 3
131572894 TATTTATTTG
* *
131572904 TTA TTA TTA -TA TTTA TTA TTA TTA TTG TGGTA TT- TTA CTA TTA CGTTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA --TTA
* * * * **
131572952 TTG TTA GTA TTA GTA TTAA TTA TAA TTA TTA TTA CCA TTA -TA TTTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * * * *
131572998 TTA CTA TTA TTA GTA TTA TTA TT- TTCT TTA GTA CTA TCA CTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* *
131573043 TTA -TA TTA TT- TGTA TTA TTAA TGTA CTGA -TA TTG TT- TCCTA CTTAA
1 TTA TTA TTA TTA T-TA TTA TT-A T-TA -TTA TTA TTA TTA T--TA -TT-A
*
131573089 CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
131573129 GAACCTTTTA
Statistics
Matches: 163, Mismatches: 35, Indels: 48
0.66 0.14 0.20
Matches are distributed among these distances:
2 13 0.08
3 124 0.76
4 17 0.10
5 8 0.05
6 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:131572916 original size:15 final size:15
Alignment explanation
Indices: 131572893--131572928 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
131572883 CCTTTGCTAC
*
131572893 TTATT-TATTTGTTA
1 TTATTATATTTATTA
131572907 TTATTATATTTATTA
1 TTATTATATTTATTA
131572922 TTATTAT
1 TTATTAT
131572929 TGTGGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATTATATTTATTA
Found at i:131573505 original size:96 final size:97
Alignment explanation
Indices: 131573327--131573510 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 97
131573317 TGATTCTTTT
* *
131573327 ATAAAGGCAATGTTCCGTATTTGGAAATTCGAGAAAAATCGTGCCCTAACTTACTGGGTTTCGAT
1 ATAAAGGCAATATTCAGTATTTGGAAATTCGAG-AAAATCGTGCCCTAACTTACTGGGTTTCGAT
* *
131573392 TTTTCTCATTTAACCTAAATAATATTTTTGTAA
65 CTTCCTCATTTAACCTAAATAATATTTTTGTAA
* *
131573425 ATAAAGGCAATATTCAGTATTTGGAAGTTCGAG-AGATCGTGCCCTAACTTACTGGGTTTCGATC
1 ATAAAGGCAATATTCAGTATTTGGAAATTCGAGAAAATCGTGCCCTAACTTACTGGGTTTCGATC
* *
131573489 TTCCTCGTTTACCCTAAATAAT
66 TTCCTCATTTAACCTAAATAAT
131573511 CGAATATCCC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 48 0.62
98 30 0.38
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (97 bp):
ATAAAGGCAATATTCAGTATTTGGAAATTCGAGAAAATCGTGCCCTAACTTACTGGGTTTCGATC
TTCCTCATTTAACCTAAATAATATTTTTGTAA
Found at i:131576011 original size:27 final size:27
Alignment explanation
Indices: 131575981--131576159 Score: 250
Period size: 27 Copynumber: 6.6 Consensus size: 27
131575971 TTAGTTTACC
131575981 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
131576008 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
131576035 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
131576062 AAATTACCAAAATACCCCTGGTTTGCA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
131576089 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
131576116 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
131576143 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
131576160 TCGACCTGTA
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:131576046 original size:54 final size:53
Alignment explanation
Indices: 131575981--131576213 Score: 245
Period size: 54 Copynumber: 4.3 Consensus size: 53
131575971 TTAGTTTACC
* * *
131575981 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-TTGTTTGTA
* *
131576035 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGCA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTTGTTTGTA
* *
131576089 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCC-TGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTTG-TTTGTA
* * ** *** * *
131576143 AAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTTG-TTTGTA
*
131576197 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
131576214 TTAATTTACA
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
53 9 0.06
54 137 0.91
55 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGTTTGTA
Found at i:131576173 original size:27 final size:27
Alignment explanation
Indices: 131575981--131576214 Score: 174
Period size: 27 Copynumber: 8.7 Consensus size: 27
131575971 TTAGTTTACC
**
131575981 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * * *
131576008 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGACTTGTA
* *
131576035 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
** *
131576062 AAATTACCAAAATACCC-CTGGTTTGCA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * *
131576089 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* *
131576116 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGACTTGTA
* *
131576143 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
***
131576170 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
*
131576197 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
131576215 TAATTTACAG
Statistics
Matches: 170, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.02
27 161 0.95
28 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:131576173 original size:81 final size:81
Alignment explanation
Indices: 131575981--131576213 Score: 240
Period size: 81 Copynumber: 2.9 Consensus size: 81
131575971 TTAGTTTACC
*** * * *
131575981 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCCTTTGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTGACCTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACCAA
131576045 AATACCCCTAGTTTGTA
65 AATACCCCTAGTTTGTA
*** *
131576062 AAATTACCAAAATACCCCTGGTTTGCAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGACCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
131576127 ATATCCCT-GATTTGTG
66 ATACCCCTAG-TTTGTA
* ** * *
131576143 AAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCA
1 AAATTACCAAAATACCCCT-GACCTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACCA
*
131576206 AAGTACCC
64 AAATACCC
131576214 TTAATTTACA
Statistics
Matches: 131, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 10 0.08
81 120 0.92
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGACCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:131576266 original size:27 final size:27
Alignment explanation
Indices: 131576169--131576268 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
131576159 CTCGACCTGT
* * * **
131576169 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCGAAATACCCTCAATTTAC
* *
131576196 AAAATTA-CCAAAGTACCCTTAATTTAC
1 AAAATTATCGAAA-TACCCTCAATTTAC
* * ***
131576223 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTATCGAAATACCCTCAATTTAC
131576250 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
131576269 TGTAGGGTAG
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCAATTTAC
Found at i:131576289 original size:27 final size:27
Alignment explanation
Indices: 131576259--131576741 Score: 600
Period size: 27 Copynumber: 18.0 Consensus size: 27
131576249 CAAAATTATC
* *
131576259 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
131576286 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
131576313 GGAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
131576340 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
131576367 GGAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
131576394 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
131576421 GAAATACCCCTGTAGGCTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
131576448 AAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
131576475 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
131576502 GGAATACCCCTGTAGGGTAGAATTACA
1 GAAATACCCCTGTAGGGTAGAATTACT
*
131576529 GAAATACCCTTGTAGGGTAGAATTAC-
1 GAAATACCCCTGTAGGGTAGAATTACT
*
131576555 CAGAATACCCCTGTAGGGTAGAATTA-T
1 GA-AATACCCCTGTAGGGTAGAATTACT
*
131576582 CGAAATACCCCTATAGGGTAGAATTA-T
1 -GAAATACCCCTGTAGGGTAGAATTACT
* * *
131576609 CGCAACACCCATGTAGGGTAGAATTATCT
1 -GAAATACCCCTGTAGGGTAGAATTA-CT
* * *
131576638 -CAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
131576664 GAAATA-CCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
131576690 AAAATACCCCTGTAGGGTGGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
131576717 GAGATA-CCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
131576742 CATTTTGCCC
Statistics
Matches: 405, Mismatches: 44, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
26 40 0.10
27 363 0.90
28 1 0.00
29 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:131577474 original size:27 final size:26
Alignment explanation
Indices: 131577392--131577493 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
131577382 ATTCTGTTAA
* * *
131577392 GTGGCTTTGCCACATTATCTGTTTCTC
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
131577419 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
* *
131577446 GTGGCTCTACCACAATATCTGTATATG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
131577473 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
131577494 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.14
27 48 0.75
28 7 0.11
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:131577669 original size:6 final size:6
Alignment explanation
Indices: 131577630--131577743 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
131577620 TTGCATTCAC
* * ** *
131577630 ATTCTG ATTTTTG ATTCTG TTTCCTG ATAATG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
131577680 -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
131577730 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
131577744 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
5 4 0.05
6 59 0.74
7 15 0.19
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:131577676 original size:31 final size:31
Alignment explanation
Indices: 131577630--131577752 Score: 109
Period size: 31 Copynumber: 4.2 Consensus size: 31
131577620 TTGCATTCAC
*
131577630 ATTCTGATTTTTGATTCTGTTTCCTGATAATG
1 ATTCTGA-TTTTGATTCTGTTACCTGATAATG
131577662 ATTCTGATTTTGATTCTGTTACCTG---AT-
1 ATTCTGATTTTGATTCTGTTACCTGATAATG
* * **
131577689 A--CTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATAATG
*
131577718 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTTTGATTCT-GTTACCTGATAATG
*
131577748 TTTCT
1 ATTCT
131577753 TATTCTGTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
25 20 0.27
27 1 0.01
28 3 0.04
29 1 0.01
30 10 0.14
31 30 0.41
32 9 0.12
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATAATG
Found at i:131577688 original size:25 final size:25
Alignment explanation
Indices: 131577660--131577729 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
131577650 TTCCTGATAA
*
131577660 TGATTCTGATTTTGATTCTGTTACC
1 TGATTCTGATTTTGATTCTGTCACC
*
131577685 TGATACTGATTTTGATTCTGTCACC
1 TGATTCTGATTTTGATTCTGTCACC
* *
131577710 TAATTCTGATTCTGATTCTG
1 TGATTCTGATTTTGATTCTG
131577730 ATTCTAGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (25 bp):
TGATTCTGATTTTGATTCTGTCACC
Found at i:131580044 original size:23 final size:24
Alignment explanation
Indices: 131579991--131580044 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
131579981 ATACTCCTTA
131579991 TTTTGAACTTATATATACATATGT
1 TTTTGAACTTATATATACATATGT
* * *
131580015 TACTTTGGAC-TATATTTATATATGT
1 T--TTTGAACTTATATATACATATGT
131580040 TTTTG
1 TTTTG
131580045 TTTAAACTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.16
24 1 0.04
25 14 0.56
26 6 0.24
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (24 bp):
TTTTGAACTTATATATACATATGT
Found at i:131581681 original size:19 final size:19
Alignment explanation
Indices: 131581659--131581726 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
131581649 TAATATATTC
131581659 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
131581678 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
131581695 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
131581714 AAGATTGCATATC
1 AAGATTGCATATC
131581727 CTTAAAGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.36
19 30 0.64
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:131581736 original size:36 final size:34
Alignment explanation
Indices: 131581659--131581726 Score: 111
Period size: 36 Copynumber: 2.0 Consensus size: 34
131581649 TAATATATTC
131581659 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTG--TCATATCT
131581695 AAGATTGCATATCATATCTAAGATTG-CATATC
1 AAGATTGCATATCATATCTAAGATTGTCATATC
131581727 CTTAAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 6 0.19
36 26 0.81
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (34 bp):
AAGATTGCATATCATATCTAAGATTGTCATATCT
Found at i:131582002 original size:25 final size:27
Alignment explanation
Indices: 131581974--131582030 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
131581964 GCTTATTCTG
131581974 AACC-CTTTCATATATTA-TTATTTTA
1 AACCTCTTTCATATATTATTTATTTTA
* *
131581999 AACCTTTTTTTTATATATTATTTATTTTA
1 AACC--TCTTTCATATATTATTTATTTTA
131582028 AAC
1 AAC
131582031 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
28 11 0.42
29 11 0.42
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (27 bp):
AACCTCTTTCATATATTATTTATTTTA
Found at i:131582014 original size:28 final size:30
Alignment explanation
Indices: 131581983--131582043 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
131581973 GAACCCTTTC
131581983 ATATATTA-TTATTTTAAACCTTTT-TTTT
1 ATATATTATTTATTTTAAACCTTTTATTTT
*
131582011 ATATATTATTTATTTTAAACTTTTTATTTT
1 ATATATTATTTATTTTAAACCTTTTATTTT
131582041 ATA
1 ATA
131582044 CTTTAATTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 8 0.27
29 15 0.50
30 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATATTATTTATTTTAAACCTTTTATTTT
Found at i:131582034 original size:25 final size:25
Alignment explanation
Indices: 131581940--131582037 Score: 72
Period size: 25 Copynumber: 3.8 Consensus size: 25
131581930 TGATTTATAG
* * *
131581940 TTTATTTTAAAATTTATATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * * *
131581965 CTTATTCTGAACCCTTTCATATATTA
1 TTTATT-TTAAACTTTTTATATATTA
131581991 -TTATTTTAAACCTTTTTTTTATATATTA
1 TTTATTTTAAA-C---TTTTTATATATTA
131582019 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
131582038 TTTATACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
24 3 0.05
25 18 0.33
26 12 0.22
28 12 0.22
29 10 0.18
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:131582038 original size:14 final size:14
Alignment explanation
Indices: 131581991--131582047 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
131581981 TCATATATTA
131581991 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
*
131582006 TT-TTTATATA-TTAT
1 TTATTT-TAAACTT-T
131582020 TTATTTTAAACTTT
1 TTATTTTAAACTTT
*
131582034 TTATTTTATACTTT
1 TTATTTTAAACTTT
131582048 AATTGGTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 23 0.66
15 10 0.29
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:131584331 original size:19 final size:19
Alignment explanation
Indices: 131584307--131584352 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
131584297 CCCTCTTTCT
131584307 TTTGCATT-CATTCCATAT-A
1 TTTGCATTGCATT--ATATCA
131584326 TTTGCATTGCATTATATCA
1 TTTGCATTGCATTATATCA
131584345 TTTGCATT
1 TTTGCATT
131584353 AGATTTTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.24, C:0.17, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTATATCA
Found at i:131586361 original size:11 final size:12
Alignment explanation
Indices: 131586344--131586372 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
131586334 CATCAAATTC
131586344 CAAAAAACAAAA
1 CAAAAAACAAAA
131586356 -AAAAAACAAAA
1 CAAAAAACAAAA
131586367 CAAAAA
1 CAAAAA
131586373 GGGGTGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAACAAAA
Found at i:131589630 original size:136 final size:137
Alignment explanation
Indices: 131589386--131589671 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
131589376 CATTGGGCCT
** * * *
131589386 AAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131589451 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
131589515 CATATGC
131 CATATGC
131589522 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
131589587 AGCCGCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
131589652 CATATGC
131 CATATGC
131589659 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131589672 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 120 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:131591485 original size:26 final size:26
Alignment explanation
Indices: 131591456--131591565 Score: 150
Period size: 26 Copynumber: 4.2 Consensus size: 26
131591446 CATGATATTC
131591456 TTATCATAAAACATTTACCTAA-CTCA
1 TTATCATAAAACATTTACCTAACCT-A
***
131591482 TTATCACGGAACATTTACCTAACCTA
1 TTATCATAAAACATTTACCTAACCTA
* *
131591508 TTATCATGAAACATTTACCTAACCCA
1 TTATCATAAAACATTTACCTAACCTA
*
131591534 TTATCATAGAACATTTACCTAACCTA
1 TTATCATAAAACATTTACCTAACCTA
131591560 TTATCA
1 TTATCA
131591566 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 72 0.97
27 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATAAAACATTTACCTAACCTA
Found at i:131591536 original size:52 final size:52
Alignment explanation
Indices: 131591456--131591565 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
131591446 CATGATATTC
* *
131591456 TTATCATAAAACATTTACCTAACTCATTATCACGGAACATTTACCTAACCTA
1 TTATCATAAAACATTTACCTAACCCATTATCACAGAACATTTACCTAACCTA
* *
131591508 TTATCATGAAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCTA
1 TTATCATAAAACATTTACCTAACCCATTATCACAGAACATTTACCTAACCTA
131591560 TTATCA
1 TTATCA
131591566 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (52 bp):
TTATCATAAAACATTTACCTAACCCATTATCACAGAACATTTACCTAACCTA
Found at i:131593440 original size:23 final size:22
Alignment explanation
Indices: 131593414--131593456 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
131593404 CGCTCCGGGC
*
131593414 CTCCCCTCTCCCTCCTCTCTTCT
1 CTCCCATCTCCCT-CTCTCTTCT
*
131593437 CTCCCATTTCCCTCTCTCTT
1 CTCCCATCTCCCTCTCTCTT
131593457 TTTTTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCCCATCTCCCTCTCTCTTCT
Found at i:131593894 original size:3 final size:3
Alignment explanation
Indices: 131593880--131593977 Score: 76
Period size: 3 Copynumber: 31.3 Consensus size: 3
131593870 CTATTTCCTG
* *
131593880 TTA TTA TCTA TTA TTA TTA TTTA TTA TTA TTA -TA TAA TTG TTA TTCA
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
131593927 -TA TATA TTAA TTA -TA TGTA TTC TCTA TTA TTA TTA TTA TTA GTA TTA
1 TTA T-TA TT-A TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
131593974 TTA T
1 TTA T
131593978 ATTTATGCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
2 5 0.06
3 54 0.70
4 18 0.23
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:131593898 original size:13 final size:12
Alignment explanation
Indices: 131593880--131593977 Score: 76
Period size: 13 Copynumber: 7.8 Consensus size: 12
131593870 CTATTTCCTG
131593880 TTATTATCTATTA
1 TTATTAT-TATTA
131593893 TTATTATTTATTA
1 TTATTA-TTATTA
*
131593906 TTATTA-TATAA
1 TTATTATTATTA
*
131593917 TTGTTATTCA-TA
1 TTATTATT-ATTA
131593929 TATATTAATTA-TA
1 T-TATT-ATTATTA
*
131593942 TGTATTCTCTATTA
1 T-TATTAT-TATTA
131593956 TTATTATTATTA
1 TTATTATTATTA
*
131593968 GTATTATTAT
1 TTATTATTAT
131593978 ATTTATGCAC
Statistics
Matches: 70, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
11 9 0.13
12 18 0.26
13 36 0.51
14 7 0.10
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:131594246 original size:4 final size:4
Alignment explanation
Indices: 131594237--131594277 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
131594227 AATATTTGTA
131594237 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
131594278 TTTTTTTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:131595929 original size:3 final size:3
Alignment explanation
Indices: 131595921--131595986 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
131595911 AAAATTTAGA
131595921 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
131595969 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
131595987 TTAAGACCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:131596462 original size:17 final size:16
Alignment explanation
Indices: 131596421--131596462 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
131596411 AAAATTCATG
*
131596421 TTTTATATATTATTTA
1 TTTTATATCTTATTTA
131596437 TTTT-TATCTTATTTA
1 TTTTATATCTTATTTA
131596452 TTTTATGATCT
1 TTTTAT-ATCT
131596463 ATTGCGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 14 0.61
16 5 0.22
17 4 0.17
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTATATCTTATTTA
Found at i:131597414 original size:11 final size:11
Alignment explanation
Indices: 131597398--131597453 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
131597388 AAAGGGATCG
131597398 TATTTTAAATT
1 TATTTTAAATT
*
131597409 TATTTTAAAATC
1 TATTTT-AAATT
131597421 T-TTTTAAATT
1 TATTTTAAATT
*
131597431 TATTTTAAAATC
1 TATTTT-AAATT
131597443 T-TTTTAAATT
1 TATTTTAAATT
131597453 T
1 T
131597454 CGACATTAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 10 0.26
11 18 0.47
12 10 0.26
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:131597427 original size:22 final size:22
Alignment explanation
Indices: 131597400--131597453 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
131597390 AGGGATCGTA
131597400 TTTTAAATTTATTTTAAAATCT
1 TTTTAAATTTATTTTAAAATCT
131597422 TTTTAAATTTATTTTAAAATCT
1 TTTTAAATTTATTTTAAAATCT
131597444 TTTTAAATTT
1 TTTTAAATTT
131597454 CGACATTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAAATTTATTTTAAAATCT
Found at i:131598952 original size:262 final size:260
Alignment explanation
Indices: 131598487--131598990 Score: 670
Period size: 262 Copynumber: 1.9 Consensus size: 260
131598477 ACAACTTTGC
*
131598487 TTCATTGCCCGAGGATTAAAACCGACAAAGGTTATTCGAAAGCCATCACGTCTTGACTTTCTTAA
1 TTCATTGCCCGAGGATTAAAACCGACAAAGATTATTCGAAAGCCATCACGTCTTGACTTTCTTAA
* * * *
131598552 AGAAGCTAACGAGTATTGCGGGGATAAGTGAGCAATGAGTCATAGCCTGGATCAAGTAAAAAGGA
66 AGAAGCTAACGACTATCGCGGAGATAAGTGAGCAATGA--CATAGCCTAGATCAAGTAAAAAGGA
** * * ** *
131598617 GTTAATGGGGACATCTTTTGGAAAATTCGTAAGACTCGACCATAACATCCGGATATTAAGAGGAG
129 GTTAATAAGGACATCTTTTGGAAAATTCGTAAGACTCAACCATAACATCCGGATATGAAGAACAA
* * *
131598682 GATAGGTGTCTTCGCCTGGAATATGAGGGCAAGGCTACATATGTAATGGAGTAATACAAAAATTT
194 GATAGGTGTCTTCGCCTGGAATATGAGAGAAAGGCCACATATGTAATGGAGTAATACAAAAATTT
131598747 AT
259 AT
* * * **
131598749 TTCATTGCCCGAGGATTCAAGCCGACAAAGATTATTCGAGAGCTGTCACGTCTTGACTTTCTTAA
1 TTCATTGCCCGAGGATTAAAACCGACAAAGATTATTCGAAAGCCATCACGTCTTGACTTTCTTAA
* * *
131598814 AGGAA-CTGACGACTATCGCGGAGATAAGTGATCAATGA-ATAGCGGGTTAGATCAAGTAAAAAG
66 A-GAAGCTAACGACTATCGCGGAGATAAGTGAGCAATGACATAGC---CTAGATCAAGTAAAAAG
* * * * *
131598877 GAGTTAATAATGACATCTTTTGGAGAATTTGTGAGACTCAACCATAACATCTGGATATGAAGAAC
127 GAGTTAATAAGGACATCTTTTGGAAAATTCGTAAGACTCAACCATAACATCCGGATATGAAGAAC
* *
131598942 AAGATAGGTGTCTTCGCTTGGAATATGAGAGAAAGGCCGCATATGTAAT
192 AAGATAGGTGTCTTCGCCTGGAATATGAGAGAAAGGCCACATATGTAAT
131598991 CCGTTTTATG
Statistics
Matches: 208, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
259 5 0.02
262 200 0.96
263 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (260 bp):
TTCATTGCCCGAGGATTAAAACCGACAAAGATTATTCGAAAGCCATCACGTCTTGACTTTCTTAA
AGAAGCTAACGACTATCGCGGAGATAAGTGAGCAATGACATAGCCTAGATCAAGTAAAAAGGAGT
TAATAAGGACATCTTTTGGAAAATTCGTAAGACTCAACCATAACATCCGGATATGAAGAACAAGA
TAGGTGTCTTCGCCTGGAATATGAGAGAAAGGCCACATATGTAATGGAGTAATACAAAAATTTAT
Found at i:131599093 original size:19 final size:19
Alignment explanation
Indices: 131599069--131599133 Score: 105
Period size: 19 Copynumber: 3.4 Consensus size: 19
131599059 CTTTCTTTCT
*
131599069 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTGCAT-CA
131599088 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTGCATCA
131599107 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTGCATCA
131599126 TTTGCATT
1 TTTGCATT
131599134 AGACTTTCCC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 37 0.84
20 7 0.16
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:131599099 original size:5 final size:5
Alignment explanation
Indices: 131599070--131599123 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
131599060 TTTCTTTCTT
*
131599070 TTGCA TT-CA TTCCA -TGCA TTTGCA TTGCA TTGCA -T-CA TTTGCA TTGCA
1 TTGCA TTGCA TTGCA TTGCA -TTGCA TTGCA TTGCA TTGCA -TTGCA TTGCA
131599118 TTGCA T
1 TTGCA T
131599124 CATTTGCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
3 2 0.05
4 8 0.19
5 26 0.62
6 6 0.14
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (5 bp):
TTGCA
Found at i:131603044 original size:24 final size:24
Alignment explanation
Indices: 131603012--131603058 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
131603002 CCATCCTATC
*
131603012 TCCCTAAAGTTGTAGTAGAGTAGG
1 TCCCTAAAGTTGCAGTAGAGTAGG
*
131603036 TCCCTAAAGTTGCAGTGGAGTAG
1 TCCCTAAAGTTGCAGTAGAGTAG
131603059 ATCAAAGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (24 bp):
TCCCTAAAGTTGCAGTAGAGTAGG
Found at i:131603276 original size:133 final size:133
Alignment explanation
Indices: 131603036--131603371 Score: 433
Period size: 133 Copynumber: 2.5 Consensus size: 133
131603026 GTAGAGTAGG
* * * *
131603036 TCCCTAAAGTTGCAGTGGAGTAGATCAAAGACAGCGAATCTTGTCTTCTTAAAGTTGCAGTGAAG
1 TCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGTGAATCTTGTCTTCCTAAAGTTGCAGTGAAG
** * * * *
131603101 CAGATTTAAGCCATTATCTTATCTCCTTAAAGTTGTATTGGAGTAGACTGAAGATTGTAGATCTT
66 CAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGACTGAAGATTGTAGATCCT
*
131603166 GTC
131 ATC
* * * *
131603169 TCCCTGAAGTTGCAGTGAAGCAGATCGAAGATGGTGAATCTTGTCTTCCTAAAGTTGCAGTGAAG
1 TCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGTGAATCTTGTCTTCCTAAAGTTGCAGTGAAG
*
131603234 CAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCCT
66 CAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGACTGAAGATTGTAGATCCT
131603299 ATC
131 ATC
* * * * * * *
131603302 TCCCTAAAGTTGTAGTGGAGTAG-GCTGAAGATTGT-AGATCTTGTCTCCCTGAAGTTGTAGTGG
1 TCCCTAAAGTTGCAGTGGAGTAGATC-GAAGATAGTGA-ATCTTGTCTTCCTAAAGTTGCAGTGA
131603365 AGCAGAT
64 AGCAGAT
131603372 CGAAGACGGT
Statistics
Matches: 175, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
132 2 0.01
133 173 0.99
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (133 bp):
TCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGTGAATCTTGTCTTCCTAAAGTTGCAGTGAAG
CAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGACTGAAGATTGTAGATCCT
ATC
Found at i:131603337 original size:178 final size:178
Alignment explanation
Indices: 131603120--131603499 Score: 634
Period size: 178 Copynumber: 2.1 Consensus size: 178
131603110 GCCATTATCT
* *
131603120 TATCTCCTTAAAGTTGTATTGGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGTAGTGGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGT
* *
131603185 GAAGCAGATCGAAGATGGTGAATCTTGTCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCA
66 GAAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCACCA
131603250 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
131 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
* *
131603298 TATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGTAGT
1 TATCTCCCTAAAGTTGTAGTGGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGT
* * * *
131603363 GGAGCAGATCGAAGACGGTGAATGTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAAGCCATCA
66 GAAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCACCA
*
131603428 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCT
131 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
* * *
131603476 TGTCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTAAAGTTGTAGTGGAG
131603500 CAGATCGAAG
Statistics
Matches: 188, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 188 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (178 bp):
TATCTCCCTAAAGTTGTAGTGGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGT
GAAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCACCA
TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
Found at i:131603533 original size:178 final size:178
Alignment explanation
Indices: 131603120--131603549 Score: 574
Period size: 178 Copynumber: 2.4 Consensus size: 178
131603110 GCCATTATCT
* * * * * ** * *
131603120 TATCTCCTTAAAGTTGTATTGGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGACGGCAAATCTTGTCTCCCTGAAGTTGCAGT
* * *
131603185 GAAGCAGATCGAAGATGGTGAATCTTGTCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCACCA
131603250 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
131 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
* * ** * * *
131603298 TATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGTAGT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGACGGCAAATCTTGTCTCCCTGAAGTTGCAGT
* * *
131603363 GGAGCAGATCGAAGACGGTGAATGTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAAGCCATCA
66 GGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCACCA
*
131603428 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCT
131 TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
* * * * * *
131603476 TGTCTCCCTGAAGTTGCAGTGGAGCA-GATCGAAGACGGCAAATCTTATCTTCCTGAAGTTACAG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGCT-GAAGACGGCAAATCTTGTCTCCCTGAAGTTGCAG
*
131603540 TGGAGTAGAT
65 TGGAGCAGAT
131603550 TTAAGCCACC
Statistics
Matches: 226, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
177 2 0.01
178 224 0.99
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (178 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGACGGCAAATCTTGTCTCCCTGAAGTTGCAGT
GGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTAAAGTTACAGTGAAGCAGATTTAAGCCACCA
TCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCC
Found at i:131603652 original size:132 final size:132
Alignment explanation
Indices: 131603294--131603941 Score: 774
Period size: 132 Copynumber: 4.9 Consensus size: 132
131603284 AAGATTGTAG
** *
131603294 ATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTG
1 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTG
* * ** * * * *
131603359 TAGTGGAGCAGATCGAAGACGGTGAATGTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAAGCC
65 CAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTTAAGCC
*
131603424 ATC
130 ACC
** *
131603427 ATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTG
1 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTG
* * * * *
131603492 CAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTTAAGCC
65 CAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTTAAGCC
131603557 ACC
130 ACC
* * *
131603560 -GCTCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGCAGATCTTGTCTCCCTAAAGTTG
1 ATC-CTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTG
*
131603624 CAGTGG-GACAGATCGAAGATGACGAATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTTAAGC
65 CAGTGGAG-CAGATCGAAGATGACGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTTAAGC
131603688 CACC
129 CACC
* * *
131603692 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGG-TAGAAGATTGCAAATTTTGTCTCCCTGAAGTGG
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGATTGCAGATCTTGTCTCCCTGAAGTTG
* * * * *
131603756 CAGTGGAACAAATCGAAGACT-ACAAATCTTGTC-TCTCTGAAGTTGCAGTGGAGTAGATTTAAG
65 CAGTGGAGCAGATCGAAGA-TGACGAATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTTAAG
131603819 CCACC
128 CCACC
* ** * * * *
131603824 ATCCTATCTCCCTAAGCAGTAGTGAAACAAGTTGAA-ATTACA-ATTCTTATCTCCCTGAAGTTG
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGA-TCTTGTCTCCCTGAAGTTG
* *
131603887 CGGTGGAGCAGA-CTGAAGAT-AGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
65 CAGTGGAGCAGATC-GAAGATGA-CGAATCTTATCTTCCTGAAGTTGCAGTGGAGCA
131603942 AGTTGAAGTT
Statistics
Matches: 456, Mismatches: 47, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
130 4 0.01
131 65 0.14
132 249 0.55
133 138 0.30
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGC
AGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTTAAGCCA
CC
Found at i:131603921 original size:45 final size:45
Alignment explanation
Indices: 131603116--131604037 Score: 352
Period size: 45 Copynumber: 20.8 Consensus size: 45
131603106 TTAAGCCATT
* * * * * * * *
131603116 ATCTTATCTCCTTAAAGTTGTATTGGAGTAGACTGAAGATTG-TA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * *
131603160 GATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGATGGTGA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * * ** *
131603206 ATCTTGTCTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCA-C-C
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * ** * *
131603249 ATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG-TA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * ** * *
131603293 GATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG-TA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * ** *
131603338 GATCTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * * * ** *
131603384 ATGTTGTCTTCCTGAAGTTACAGTGAAGCAGATTTAAGCCATC--
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * ** * *
131603427 ATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG-TA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * ** *
131603471 GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * ** *
131603517 ATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTTAAGCCACCG-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* ** * * ** * *
131603561 CTC-TATCTCCCT-AAGCAGTAGTGGAGTAGGCTAAAGATTGC-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * *
131603603 GATCTTGTCTCCCTAAAGTTGCAGTGG-GACAGATCGAAGAT-GACGA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGATAG-CGA
** * ** *
131603649 ATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTTAAGCCA-C-C
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* ** * * * * * *
131603692 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGTAGAAGATTGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* * * * * * *
131603736 ATTTTGTCTCCCTGAAGTGGCAGTGGAACAAATCGAAGACTA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCGA
* * * * ** *
131603781 ATCTTGTCTCTCTGAAGTTGCAGTGGAGTAGATTTAAGCCA-C-C
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* ** * * *
131603824 ATCCTATCTCCCT-AAGCAGTAGTGAAACA-AGTTGAA-ATTA-C-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGA-TAGCGA
* *
131603866 ATTCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
* **
131603912 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGTTA-TAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATAGCGA
* *
131603956 ATCGTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
** * * * *
131604000 ATCAAATCTCCCTGACGTTACAGTGGAGTAGATCGAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
131604038 TACTAATACC
Statistics
Matches: 646, Mismatches: 198, Indels: 67
0.71 0.22 0.07
Matches are distributed among these distances:
41 1 0.00
42 52 0.08
43 97 0.15
44 110 0.17
45 378 0.59
46 8 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
Found at i:131603971 original size:89 final size:88
Alignment explanation
Indices: 131603851--131604027 Score: 246
Period size: 89 Copynumber: 2.0 Consensus size: 88
131603841 AGTAGTGAAA
* * * *
131603851 CAAGTTGAAATTACAATTCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAAGATAGCGAATCT
1 CAAGTTGAAATTACAAATCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-GCGAATCA
* *
131603916 TATCTCCCTGAAGTTGCAGTGGAG
65 AATCTCCCTGAAGTTACAGTGGAG
* * * *
131603940 CAAGTTGAAGTTATAAATCGTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAATCAA
1 CAAGTTGAAATTACAAATCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGCGAATCAA
*
131604005 ATCTCCCTGACGTTACAGTGGAG
66 ATCTCCCTGAAGTTACAGTGGAG
131604028 TAGATCGAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 28 0.36
89 49 0.64
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
CAAGTTGAAATTACAAATCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGCGAATCAA
ATCTCCCTGAAGTTACAGTGGAG
Found at i:131604037 original size:264 final size:264
Alignment explanation
Indices: 131603337--131604042 Score: 633
Period size: 264 Copynumber: 2.7 Consensus size: 264
131603327 TGAAGATTGT
* * * * ** * * *
131603337 AGATCTTGTCTCCCTGAAGTTGTAGT-GGAGCAGATCGAAGACGGTGAATGTTGTCTTCCTGAAG
1 AGATCTTATCTCCCTAAAGTTGCAGTGGGA-CAGATCGAAGATGACGAATCTTATCTCCCTGAAG
* * * ** ** * * *
131603401 TTACAGTGAAGCAGATTTAAGCCATCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCT-GAAG
65 TTGCAGTGGAGCAGATTGAAGCCAAAATCCTATCTCCCT-AAGCAGCAGTGGAGCA-GATAGAAG
* * *** **
131603465 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCT
128 ATTGCAAATCAAATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTACAAATCTTATCTTCCT
* ** *
131603530 GAAGTTACAGTGGAGTAGATTTAAGCCACCGCTCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAA
193 GAAGTTACAGTGGAGTAGATTTAAGCCACCGCTCTATCTCCCTAAGCAGTAGTGAAACAAGCTAA
*
131603595 AGATTGC
258 AGATTAC
* **
131603602 AGATCTTGTCTCCCTAAAGTTGCAGTGGGACAGATCGAAGATGACGAATCTTATCTTTCTGAAGT
1 AGATCTTATCTCCCTAAAGTTGCAGTGGGACAGATCGAAGATGACGAATCTTATCTCCCTGAAGT
* ** * * *
131603667 TGCAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTAGAAGATT
66 TGCAGTGGAGCAGATTGAAGCCAAAATCCTATCTCCCTAAGCAGCAGTGGAGCAGATAGAAGATT
**** * * * *
131603732 GCAAATTTTGTCTCCCTGAAGTGGCAGTGGAACAAATCGAAGACTACAAATCTTGTC-TCTCTGA
131 GCAAATCAAATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTACAAATCTTATCTTC-CTGA
* * * *
131603796 AGTTGCAGTGGAGTAGATTTAAGCCACC-ATCCTATCTCCCTAAGCAGTAGTGAAACAAGTTGAA
195 AGTTACAGTGGAGTAGATTTAAGCCACCGCT-CTATCTCCCTAAGCAGTAGTGAAACAAGCTAAA
131603860 -ATTAC
259 GATTAC
* *
131603865 A-ATTCTTATCTCCCTGAAGTTGCGGT-GGAGCAGA-CTGAAGAT-AGCGAATCTTATCTCCCTG
1 AGA-TCTTATCTCCCTAAAGTTGCAGTGGGA-CAGATC-GAAGATGA-CGAATCTTATCTCCCTG
** * * ** *
131603926 AAGTTGCAGTGGAGCA-AGTTGAAGTTATAAATCGTATCTCTCTGAAGTTGCAGTGGAGCAGATT
62 AAGTTGCAGTGGAGCAGA-TTGAAGCCA-AAATCCTATCTCCCT-AAGCAGCAGTGGAGCAGATA
* * * *
131603990 GAAGA-TGCGAATCAAATCTCCCTGACGTTACAGTGGAGTAGATCGAAGTACTA
124 GAAGATTGCAAATCAAATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-ACTA
131604043 ATACCCCTGA
Statistics
Matches: 368, Mismatches: 61, Indels: 24
0.81 0.13 0.05
Matches are distributed among these distances:
262 7 0.02
263 77 0.21
264 170 0.46
265 111 0.30
266 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (264 bp):
AGATCTTATCTCCCTAAAGTTGCAGTGGGACAGATCGAAGATGACGAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGATTGAAGCCAAAATCCTATCTCCCTAAGCAGCAGTGGAGCAGATAGAAGATT
GCAAATCAAATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTACAAATCTTATCTTCCTGAA
GTTACAGTGGAGTAGATTTAAGCCACCGCTCTATCTCCCTAAGCAGTAGTGAAACAAGCTAAAGA
TTAC
Found at i:131606101 original size:3 final size:3
Alignment explanation
Indices: 131606016--131606082 Score: 100
Period size: 3 Copynumber: 22.3 Consensus size: 3
131606006 AATTTAGAAA
*
131606016 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
131606064 TAT TGT TA- TAGT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT T
131606083 TTAAGACCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:131607837 original size:22 final size:22
Alignment explanation
Indices: 131607809--131607861 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
131607799 AATTTCGTAG
*
131607809 ACCAAAATTGTTGTTTTAGTAA
1 ACCAAAATGGTTGTTTTAGTAA
131607831 ACCAAAATGGTTGTTTTAGTAA
1 ACCAAAATGGTTGTTTTAGTAA
131607853 ACCAAAATG
1 ACCAAAATG
131607862 TTTTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (22 bp):
ACCAAAATGGTTGTTTTAGTAA
Found at i:131607865 original size:18 final size:19
Alignment explanation
Indices: 131607820--131607866 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
131607810 CCAAAATTGT
131607820 TGTTTTAGTAAACCAAAATGG
1 TGTTTTAGTAAACCAAAA--G
131607841 TTGTTTTAGTAAACCAAAA-
1 -TGTTTTAGTAAACCAAAAG
131607860 TGTTTTA
1 TGTTTTA
131607867 TTGAAATGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
22 18 0.72
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (19 bp):
TGTTTTAGTAAACCAAAAG
Found at i:131608268 original size:132 final size:132
Alignment explanation
Indices: 131608060--131608309 Score: 385
Period size: 132 Copynumber: 1.9 Consensus size: 132
131608050 TCACAAGCCT
* * * *
131608060 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGCAGATTGTAGATCTTGTCTCCTTGAAGTTGCAATG
1 TATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAATA
* * * *
131608125 GAGTAGTTCGAATACGGCGAATCTTGTCTTCCTGAAGTTGCAGT-GAAGCAGATTTAAGCCGCCA
66 GAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGTTGAAGTAG-AGCAGATTTAAGCCGCCA
131608189 TCC
130 TCC
* * *
131608192 TATCTCTCTAAGTAATAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTA
1 TATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAATA
131608257 GAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGAT
66 GAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGAT
131608310 CGAAGACGGC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
132 105 0.99
133 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (132 bp):
TATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAATA
GAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGATTTAAGCCGCCAT
CC
Found at i:131608354 original size:45 final size:45
Alignment explanation
Indices: 131608232--131608341 Score: 202
Period size: 45 Copynumber: 2.4 Consensus size: 45
131608222 AAGATTGTAG
* *
131608232 ATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACGGCGA
1 ATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGATCGAAGACGGCGA
131608277 ATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGATCGAAGACGGCGA
1 ATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGATCGAAGACGGCGA
131608322 ATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTTCCTGAAGTTG
131608342 TAGCGAAGCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (45 bp):
ATCTTGTCTTCCTGAAGTTGAAGTAGAGCAGATCGAAGACGGCGA
Found at i:131608777 original size:26 final size:26
Alignment explanation
Indices: 131608740--131608875 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
131608730 TGATACAAAT
* *
131608740 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131608766 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
131608792 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131608818 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
131608844 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131608870 TGATAA
1 TGATAA
131608876 GAATATCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:131609924 original size:16 final size:16
Alignment explanation
Indices: 131609903--131609935 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
131609893 TGGTTGGCCG
131609903 AATATTGTAAGGGATT
1 AATATTGTAAGGGATT
131609919 AATATTGTAAGGGATT
1 AATATTGTAAGGGATT
131609935 A
1 A
131609936 CTATGACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (16 bp):
AATATTGTAAGGGATT
Done.