Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 78 of 240
Found at i:24874912 original size:23 final size:21
Alignment explanation
Indices: 24874852--24874919 Score: 59
Period size: 24 Copynumber: 3.1 Consensus size: 21
24874842 ACAATAAAAC
*
24874852 AACTAAAAATAAACATAAACATA
1 AACTAAAAA-AAA-ATAAAAATA
24874875 AACATAAAATAAAAATAAAAATAA
1 AAC-TAAAA-AAAAATAAAAAT-A
*
24874899 AACT-AAAAAGAA-AAAAATA
1 AACTAAAAAAAAATAAAAATA
24874918 AA
1 AA
24874920 ATCAATGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 4 0.10
22 3 0.08
23 11 0.28
24 12 0.30
25 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.15
Consensus pattern (21 bp):
AACTAAAAAAAAATAAAAATA
Found at i:24874920 original size:6 final size:6
Alignment explanation
Indices: 24874855--24874913 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
24874845 ATAAAACAAC
* * * *
24874855 TAAAAA TAAACA TAAACA TAAACA T-AAAA TAAAAA TAAAAA TAAAAC
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
24874902 TAAAAA GAAAAA
1 TAAAAA TAAAAA
24874914 AATAAAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 4 0.09
6 43 0.91
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:24876364 original size:15 final size:15
Alignment explanation
Indices: 24876346--24876392 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24876336 GAAAATCATA
*
24876346 AATAATAATAATACT
1 AATAATAATAATACG
*
24876361 AATAATAAAAATACG
1 AATAATAATAATACG
*
24876376 AACTAAAAATAATACG
1 AA-TAATAATAATACG
24876392 A
1 A
24876393 GTAAACAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (15 bp):
AATAATAATAATACG
Found at i:24880448 original size:21 final size:22
Alignment explanation
Indices: 24880424--24880466 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24880414 AAAGGAACCT
*
24880424 ATTAGAA-GTAAATAAAAAAAA
1 ATTAGAATGTAAACAAAAAAAA
*
24880445 ATTAGAATGTAAACAAATAAAA
1 ATTAGAATGTAAACAAAAAAAA
24880467 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (22 bp):
ATTAGAATGTAAACAAAAAAAA
Found at i:24892202 original size:21 final size:23
Alignment explanation
Indices: 24892164--24892208 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
24892154 ATTAGGTGTA
*
24892164 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
24892186 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
24892208 T
1 T
24892209 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:24898085 original size:279 final size:280
Alignment explanation
Indices: 24897747--24898304 Score: 1046
Period size: 279 Copynumber: 2.0 Consensus size: 280
24897737 GTACCCACAG
24897747 GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
1 GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
24897812 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
66 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
24897877 CAATGCACGATTTT-AAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
131 CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
*
24897941 CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCATGGCAACTCGGTAAT
196 CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTAAT
*
24898006 TTGCTAACTTAGGAACATAA
261 TTGCAAACTTAGGAACATAA
* *
24898026 GGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAGAAAAATATTTTGAT
1 GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
*
24898091 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAGAAGTAC
66 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
24898156 CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
131 CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
* *
24898221 CTTAACTTAGAACTATTAAACTCATGTTTATGTTGTTATGAATAAATTCACGGCAACTCGGTAAT
196 CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTAAT
24898286 TTGCAAACTTAGGAACATA
261 TTGCAAACTTAGGAACATA
24898305 CTCACTACCA
Statistics
Matches: 271, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
279 141 0.52
280 130 0.48
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (280 bp):
GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTAAT
TTGCAAACTTAGGAACATAA
Found at i:24899992 original size:16 final size:15
Alignment explanation
Indices: 24899965--24899998 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24899955 ATAACTAGTA
*
24899965 TATAATTATATTTAT
1 TATAATTATATTAAT
24899980 TATAATATATATTAAT
1 TATAAT-TATATTAAT
24899996 TAT
1 TAT
24899999 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:24904943 original size:3 final size:3
Alignment explanation
Indices: 24904935--24904987 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
24904925 CGAGGATCCT
* * *
24904935 GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA AAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
24904983 GAA GA
1 GAA GA
24904988 TCCCATAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:24907172 original size:21 final size:23
Alignment explanation
Indices: 24907134--24907178 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
24907124 ATTATGTGTA
*
24907134 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
24907156 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
24907178 T
1 T
24907179 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:24911388 original size:28 final size:29
Alignment explanation
Indices: 24911339--24911393 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
24911329 TTAAAATTTT
24911339 AATAAAAGGAAAAAATTAATAAAATAAAA
1 AATAAAAGGAAAAAATTAATAAAATAAAA
* * *
24911368 AATAAAATG-AAATATTGATAAAATAA
1 AATAAAAGGAAAAAATTAATAAAATAA
24911394 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (29 bp):
AATAAAAGGAAAAAATTAATAAAATAAAA
Found at i:24921132 original size:29 final size:29
Alignment explanation
Indices: 24921070--24921136 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
24921060 TTGATGAATG
* *
24921070 AAAAGGGATAGCTTCAGCTATCGAATACG
1 AAAAGGGATAGCTCCAGCTATCGAATACA
* * * *
24921099 GAAAGGGATAGCTCCGGCTATCGATTATA
1 AAAAGGGATAGCTCCAGCTATCGAATACA
24921128 AAAAGGGAT
1 AAAAGGGAT
24921137 GGTGACAACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (29 bp):
AAAAGGGATAGCTCCAGCTATCGAATACA
Found at i:24921187 original size:30 final size:30
Alignment explanation
Indices: 24921153--24921228 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
24921143 AACCATCGAA
*
24921153 CTATGAAGAAGGATGGCTTCCGCTATC-AAT
1 CTATGAA-AAGGATGGCTTCAGCTATCAAAT
*
24921183 CTATGAAAAGGGATAGCTTCAGCTATCAAAT
1 CTATGAAAA-GGATGGCTTCAGCTATCAAAT
24921214 -TATGAAAAAGGATGG
1 CTATG-AAAAGGATGG
24921229 TGACGACCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 31 0.77
31 7 0.17
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (30 bp):
CTATGAAAAGGATGGCTTCAGCTATCAAAT
Found at i:24921218 original size:60 final size:57
Alignment explanation
Indices: 24921067--24921228 Score: 148
Period size: 60 Copynumber: 2.7 Consensus size: 57
24921057 TCATTGATGA
* * * *
24921067 ATGAAAAGGGATAGCTTCAGCTATCGAATACGGAAAGGGATAGCTCCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATA-TGAAAAGGATGGCTCCGGCTATCAATT
* * * * *
24921125 ATAAAAAGGGAT-GGTGACAACCATCGAACTATGAAGAAGGATGGCTTCC-GCTATCAATCT
1 ATGAAAAGGGATAGCT-TCAGCTATCGAA-TATGAA-AAGGATGGC-TCCGGCTATCAAT-T
*
24921185 ATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAAGGATGG
1 ATGAAAAGGGATAGCTTCAGCTATCGAA-TATG-AAAAGGATGG
24921229 TGACGACCAT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
57 2 0.02
58 23 0.28
59 17 0.21
60 35 0.43
61 4 0.05
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGATGGCTCCGGCTATCAATT
Found at i:24921238 original size:90 final size:90
Alignment explanation
Indices: 24921100--24921316 Score: 237
Period size: 90 Copynumber: 2.4 Consensus size: 90
24921090 TCGAATACGG
* * *
24921100 AAAGGGATAGCTCCGGCTATC-GATTAT-AAAAAGGGATGGTGACAACCATCGAACTATGAAGAA
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAA-GGATGGTGACAACCATCGAACAATGAA-AA
** *
24921163 -GGATGGCTTCCG-CTATC-AATCTATGA
64 GGGATGG-TAACGACCATCAAAT-TATGA
* * *
24921189 AAAGGGATAGCTTCAGCTATCAAATTATGAAAAAGGATGGTGACGACCATCGAGCAATGAAAAGG
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACAACCATCGAACAATGAAAAGG
*
24921254 GATGGTAATGACCATCAAATTATGA
66 GATGGTAACGACCATCAAATTATGA
* * * *
24921279 AAAGGGATAGCTTTGGCTGTCAAACTATGAAAATGGAT
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGAT
24921317 AACTTCGGTT
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
89 23 0.21
90 77 0.71
91 8 0.07
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (90 bp):
AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACAACCATCGAACAATGAAAAGG
GATGGTAACGACCATCAAATTATGA
Found at i:24921279 original size:30 final size:30
Alignment explanation
Indices: 24921207--24921286 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
24921197 AGCTTCAGCT
* *
24921207 ATCAAATTATGAAAAAGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTAACGACC
* *** *
24921237 ATCGAGCAATGAAAAGGGATGGTAATGACC
1 ATCAAATTATGAAAAGGGATGGTAACGACC
24921267 ATCAAATTATGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
24921287 AGCTTTGGCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTAACGACC
Found at i:24923518 original size:25 final size:24
Alignment explanation
Indices: 24923489--24923633 Score: 143
Period size: 25 Copynumber: 5.8 Consensus size: 24
24923479 TGTATACTCA
*
24923489 TACGAGCT-ATGAATCGGTATGCTC
1 TACGAGCTGA-GAATCGGTAAGCTC
*
24923513 TCACGAGTTGTA-AATCGGTAAGCTC
1 T-ACGAGCTG-AGAATCGGTAAGCTC
24923538 ATACGAGCTGAGAATCGGTAAGCTC
1 -TACGAGCTGAGAATCGGTAAGCTC
* *
24923563 ATATGAGCTGAGAACCGGTAAGCTC
1 -TACGAGCTGAGAATCGGTAAGCTC
* *
24923588 TCATGAGCTGCA-AATCGATAAGCTC
1 T-ACGAGCTG-AGAATCGGTAAGCTC
24923613 TTACGAGCTGAGAATCGGTAA
1 -TACGAGCTGAGAATCGGTAA
24923634 CCCTAATGAC
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
24 4 0.04
25 95 0.92
26 3 0.03
27 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (24 bp):
TACGAGCTGAGAATCGGTAAGCTC
Found at i:24923582 original size:75 final size:75
Alignment explanation
Indices: 24923485--24923633 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 75
24923475 TACATGTATA
* * * * *
24923485 CTCATACGAGCTATGAATCGGTATGCTCTCACGAGTTGTAAATCGGTAAGCTCATACGAGCTGAG
1 CTCATACGAGCTATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGAG
24923550 AATCGGTAAG
66 AATCGGTAAG
* * *
24923560 CTCATATGAGCTGA-GAACCGGTAAGCTCTCATGAGCTGCAAATCGATAAGCTCTTACGAGCTGA
1 CTCATACGAGCT-ATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGA
24923624 GAATCGGTAA
65 GAATCGGTAA
24923634 CCCTAATGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (75 bp):
CTCATACGAGCTATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGAG
AATCGGTAAG
Found at i:24929907 original size:41 final size:41
Alignment explanation
Indices: 24929850--24929935 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
24929840 CCCCTCTAAC
*
24929850 ATTTCCTGAGATATTAATTTGATGCAATTTTTTGAGAAGGA
1 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
*
24929891 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAATGA
1 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
24929932 ATTT
1 ATTT
24929936 TCTAAGTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (41 bp):
ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
Found at i:24937989 original size:14 final size:14
Alignment explanation
Indices: 24937970--24937997 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24937960 CGATTGTGCC
24937970 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
24937984 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
24937998 GTGAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAGAAGCTACAA
Found at i:24939062 original size:25 final size:25
Alignment explanation
Indices: 24939034--24939149 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
24939024 AAAAATTCTC
24939034 TGGAAAGCCTTTGTGGCATATCACT
1 TGGAAAGCCTTTGTGGCATATCACT
* *
24939059 TGGAAAGCCTTTATGGCGA-ATTC-TT
1 TGGAAAGCCTTTGTGGC-ATA-TCACT
* *
24939084 TGGAAAGCCTTTGTAGTGAAT-TCTC-
1 TGGAAAGCCTTTGT-G-GCATATCACT
** * * *
24939109 AAGAAAGCCTTTATGGCGTATCATT
1 TGGAAAGCCTTTGTGGCATATCACT
*
24939134 TGGAAAGCCCTTGTGG
1 TGGAAAGCCTTTGTGG
24939150 AGAATTCTCT
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
23 2 0.03
24 3 0.04
25 56 0.84
26 5 0.07
27 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
TGGAAAGCCTTTGTGGCATATCACT
Found at i:24939115 original size:50 final size:50
Alignment explanation
Indices: 24939061--24939158 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
24939051 ATATCACTTG
* *
24939061 GAAAGCCTTTATGGCGAATTC-TTTGGAAAGCCTTTGTAGTGAATTCTCAA
1 GAAAGCCTTTATGGCGAA-TCATTTGGAAAGCCCTTGTAGAGAATTCTCAA
* *
24939111 GAAAGCCTTTATGGCGTATCATTTGGAAAGCCCTTGTGGAGAATTCTC
1 GAAAGCCTTTATGGCGAATCATTTGGAAAGCCCTTGTAGAGAATTCTC
24939159 TCGAAATCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (50 bp):
GAAAGCCTTTATGGCGAATCATTTGGAAAGCCCTTGTAGAGAATTCTCAA
Found at i:24941309 original size:39 final size:38
Alignment explanation
Indices: 24941242--24941315 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
24941232 GAAGTAGGTA
* **
24941242 GCTAGGGTAGGAACAAGAAAAAGGGAAGAAGAAAGGCG
1 GCTAGGGTAGGAAAAAGAAAAAAAGAAGAAGAAAGGCG
*
24941280 GCTAGGGTAGGGAAAAAGAAAAAAAGAAGAATAAAG
1 GCTAGGGTA-GGAAAAAGAAAAAAAGAAGAAGAAAG
24941316 AAGAATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 9 0.29
39 22 0.71
ACGTcount: A:0.53, C:0.05, G:0.35, T:0.07
Consensus pattern (38 bp):
GCTAGGGTAGGAAAAAGAAAAAAAGAAGAAGAAAGGCG
Found at i:24965105 original size:23 final size:23
Alignment explanation
Indices: 24965054--24965105 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
24965044 AGTAATCAAA
* * *
24965054 ATTTAACTGGGAAAAGATAGCAG
1 ATTTAACTGGAAAAAGAAACCAG
*
24965077 AGTTTAACTGGAAAAAGAAACCCG
1 A-TTTAACTGGAAAAAGAAACCAG
24965101 ATTTA
1 ATTTA
24965106 TGTGGGGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (23 bp):
ATTTAACTGGAAAAAGAAACCAG
Found at i:24978772 original size:10 final size:10
Alignment explanation
Indices: 24978757--24978781 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24978747 TAGTACTGTT
24978757 TAAGTTACTG
1 TAAGTTACTG
24978767 TAAGTTACTG
1 TAAGTTACTG
24978777 TAAGT
1 TAAGT
24978782 CACGTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (10 bp):
TAAGTTACTG
Found at i:24980102 original size:14 final size:13
Alignment explanation
Indices: 24980065--24980103 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24980055 GTTGTGTGAA
*
24980065 AAATTTATGAAAC
1 AAATTTATAAAAC
*
24980078 AAATTTATAAAAG
1 AAATTTATAAAAC
24980091 AAATTATATAAAA
1 AAATT-TATAAAA
24980104 ATTAAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATTTATAAAAC
Found at i:24980369 original size:26 final size:27
Alignment explanation
Indices: 24980339--24980396 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
24980329 AGGAAAACTA
* **
24980339 AATAATA-GTATATATATGTTAAGTGT
1 AATAATATGTATAGATATAATAAGTGT
*
24980365 AATAA-ATGTTTAGATATAATAAGTGT
1 AATAATATGTATAGATATAATAAGTGT
24980391 AATAAT
1 AATAAT
24980397 TAATGGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (27 bp):
AATAATATGTATAGATATAATAAGTGT
Found at i:24982384 original size:14 final size:14
Alignment explanation
Indices: 24982365--24982404 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
24982355 TGACCTGTCC
24982365 ATATTAATTTTTTT
1 ATATTAATTTTTTT
24982379 ATATT-ATTATTTTT
1 ATATTAATT-TTTTT
24982393 ATA-TAATTTTTT
1 ATATTAATTTTTT
24982405 AAAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:24982469 original size:25 final size:26
Alignment explanation
Indices: 24982441--24982503 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 26
24982431 TAAAAACATT
*
24982441 AAAATAAAT-GCTTCCCAACAAATTG
1 AAAATAAATAACTTCCCAACAAATTG
24982466 AAAATAAATTAAAACTTCCCAACAAATTG
1 AAAATAAA-T--AACTTCCCAACAAATTG
24982495 AAAATAAAT
1 AAAATAAAT
24982504 TAAAAAGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 8 0.24
26 1 0.03
28 1 0.03
29 23 0.70
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.24
Consensus pattern (26 bp):
AAAATAAATAACTTCCCAACAAATTG
Found at i:24982484 original size:29 final size:29
Alignment explanation
Indices: 24982451--24982508 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24982441 AAAATAAATG
24982451 CTTCCCAACAAATTGAAAATAAATTAAAA
1 CTTCCCAACAAATTGAAAATAAATTAAAA
24982480 CTTCCCAACAAATTGAAAATAAATTAAAA
1 CTTCCCAACAAATTGAAAATAAATTAAAA
24982509 AGATTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.24
Consensus pattern (29 bp):
CTTCCCAACAAATTGAAAATAAATTAAAA
Found at i:24982660 original size:21 final size:22
Alignment explanation
Indices: 24982634--24982675 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24982624 AAATAGTGGC
*
24982634 AAAACAACACCAAAAA-CAGTG
1 AAAACAACAACAAAAAGCAGTG
*
24982655 AAAACAGCAACAAAAAGCAGT
1 AAAACAACAACAAAAAGCAGT
24982676 ATTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAACAACAACAAAAAGCAGTG
Found at i:24988417 original size:5 final size:5
Alignment explanation
Indices: 24988407--24988450 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
24988397 GCCTAAGATG
* * *
24988407 TGAAT TGAAT TGAAT TGAAT TGAACA TGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAA-T TGAAT TGAAT TGAAT TGA
24988451 GTTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:24999216 original size:41 final size:43
Alignment explanation
Indices: 24999117--24999279 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
24999107 CAATGTCAAC
* * * *
24999117 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
* * * *
24999160 ATCCCAAACAGGGTCTTACACG-AATCAAATAT-GATGCTAAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
* * * *
24999201 GTCCCAGACATGGTCTTACACGTAAACACAA-ACCAATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCA-AATATCGATGCCAAT
* * * * *
24999244 GTCCAAGACGTGGTCTTACACGAAAACACATATCGA
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGA
24999280 AAATCCTATG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 26 0.28
42 15 0.16
43 53 0.56
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
Found at i:25005091 original size:11 final size:11
Alignment explanation
Indices: 25005076--25005105 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
25005066 AAAAAAAATA
25005076 AAAAAGTATTTT
1 AAAAA-TATTTT
25005088 AAAAATATTTT
1 AAAAATATTTT
25005099 AAAAATA
1 AAAAATA
25005106 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25005116 original size:13 final size:13
Alignment explanation
Indices: 25005098--25005125 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25005088 AAAAATATTT
25005098 TAAAAATAAAAAA
1 TAAAAATAAAAAA
25005111 TAAAAATAAAAAA
1 TAAAAATAAAAAA
25005124 TA
1 TA
25005126 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:25006346 original size:16 final size:16
Alignment explanation
Indices: 25006310--25006351 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
25006300 AACGTGTTAT
*
25006310 AAAATAAA-AATACAG
1 AAAATAAAGAATAAAG
25006325 AAAATAAAGAATAAAG
1 AAAATAAAGAATAAAG
*
25006341 AGAATAGAAGA
1 AAAATA-AAGA
25006352 GCAAAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 11 0.48
17 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (16 bp):
AAAATAAAGAATAAAG
Found at i:25006752 original size:24 final size:25
Alignment explanation
Indices: 25006705--25006753 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
25006695 AGTAGAGGAA
25006705 AATGAAATTCGATTCAAGTTAAATTG
1 AATGAAATTC-ATTCAAGTTAAATTG
*
25006731 AATGAAATT-ATTTAAGTTAAATT
1 AATGAAATTCATTCAAGTTAAATT
25006754 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
26 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (25 bp):
AATGAAATTCATTCAAGTTAAATTG
Found at i:25010449 original size:11 final size:11
Alignment explanation
Indices: 25010425--25010483 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
25010415 CCATATCAGC
*
25010425 AAAAATTAA-A
1 AAAAATTAATT
25010435 AAAAATTAATT
1 AAAAATTAATT
25010446 AAAAATT--TCT
1 AAAAATTAAT-T
*
25010456 -AAAATATATTT
1 AAAAAT-TAATT
25010467 AAAAATTAATT
1 AAAAATTAATT
25010478 AAAAAT
1 AAAAAT
25010484 ACACATCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.15
10 11 0.27
11 18 0.44
12 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTAATT
Found at i:25016371 original size:18 final size:18
Alignment explanation
Indices: 25016348--25016383 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25016338 AGAAAGACAA
25016348 GCTTTGAATTTAAGTGAC
1 GCTTTGAATTTAAGTGAC
25016366 GCTTTGAATTTAAGTGAC
1 GCTTTGAATTTAAGTGAC
25016384 ACTTGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
GCTTTGAATTTAAGTGAC
Found at i:25020120 original size:14 final size:14
Alignment explanation
Indices: 25020101--25020127 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25020091 TGGAGGATCA
25020101 GATATTTGGGTCCT
1 GATATTTGGGTCCT
25020115 GATATTTGGGTCC
1 GATATTTGGGTCC
25020128 AAGCTATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (14 bp):
GATATTTGGGTCCT
Found at i:25026915 original size:5 final size:5
Alignment explanation
Indices: 25026897--25026929 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
25026887 TTAGATCTTC
25026897 AAAA- AAAAG AAAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAA
25026930 GCCACCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:25030644 original size:19 final size:20
Alignment explanation
Indices: 25030609--25030649 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
25030599 ACACGTCAAC
*
25030609 ATTTAATTAATTTTTTAAAA
1 ATTTAAATAATTTTTTAAAA
25030629 ATTTAAATAA-TTTTTAAAA
1 ATTTAAATAATTTTTTAAAA
25030648 AT
1 AT
25030650 AGTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAAATAATTTTTTAAAA
Found at i:25039699 original size:110 final size:109
Alignment explanation
Indices: 25039510--25039914 Score: 611
Period size: 110 Copynumber: 3.7 Consensus size: 109
25039500 ATGTTTAGCT
* * * * * *
25039510 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAATTT-CTAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
25039571 GCAAAACATTGCCATATTTTGAAATTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTT-AAATTTTTAAAAGGATATTAAGCC
* *
25039616 ATTTGGTTGAACGAGAAAAATCGACACCCATCACCTTAGGGCATGTTTTCTCAAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
25039681 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTGAGCC
66 GCAAAACATTGCCTTATTTT-AAATTTTTAAAAGGATATTAAGCC
* *
25039726 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAT
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
25039791 GCAAAACATTGCCTTATTTTAAATTTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTTAAA-TTTTTAAAAGGATATTAAGCC
* *
25039836 ATTTGATTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* *
25039901 GCTAAATATTGCCT
66 GCAAAACATTGCCT
25039915 CATACAGAAA
Statistics
Matches: 272, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
106 14 0.05
108 24 0.09
109 13 0.05
110 221 0.81
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAATTTTTAAAAGGATATTAAGCC
Found at i:25040036 original size:15 final size:15
Alignment explanation
Indices: 25040012--25040044 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25040002 GTAAAGAATG
25040012 AAATAAAT-AAAATA
1 AAATAAATAAAAATA
25040026 AAATAAAATAAAAATA
1 AAAT-AAATAAAAATA
25040042 AAA
1 AAA
25040045 AATCAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 4 0.24
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAAATAAAAATA
Found at i:25040045 original size:6 final size:5
Alignment explanation
Indices: 25040012--25040044 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
25040002 GTAAAGAATG
25040012 AAAT- AAATA AAATA AAATA AAATAA AAATA AAA
1 AAATA AAATA AAATA AAATA AAAT-A AAATA AAA
25040045 AATCAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:25040540 original size:3 final size:3
Alignment explanation
Indices: 25040492--25040519 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
25040482 AAATGCAATG
25040492 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25040520 ACTAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25041288 original size:15 final size:16
Alignment explanation
Indices: 25041268--25041300 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
25041258 TTATTTCTTC
25041268 TTGAATCCTTT-TTTT
1 TTGAATCCTTTCTTTT
25041283 TTGAATCCTTTCTTTT
1 TTGAATCCTTTCTTTT
25041299 TT
1 TT
25041301 TTTCAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.67
Consensus pattern (16 bp):
TTGAATCCTTTCTTTT
Found at i:25042266 original size:219 final size:218
Alignment explanation
Indices: 25042041--25042513 Score: 793
Period size: 219 Copynumber: 2.2 Consensus size: 218
25042031 GTATTTTTCG
* * * * *
25042041 TCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAACCTT
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
* *
25042106 AGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
25042171 ATCCACTCTACGGTAATTTCAGGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTCA
131 ATCCACTCCACGGTAACTTAAGGAAGATAGGA-TACTATCTTCAATCTGCTCCGCTGTAATCTCA
25042236 GGGAGATAAGATCTCTGGCTTCAA
195 GGGAGATAAGATCTCTGGCTTCAA
25042260 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
25042325 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * *
25042390 ATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAG
131 ATCCACTCCACGGTAACTTAAGGAAGATAGGATACTATCTTCAATCTGCTCCGCTGTAATCTCAG
25042455 GGAGATAAGATCTCTGGCTTCAA
196 GGAGATAAGATCTCTGGCTTCAA
25042478 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
25042514 TGCGATCTAC
Statistics
Matches: 238, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
218 88 0.37
219 150 0.63
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCACTCCACGGTAACTTAAGGAAGATAGGATACTATCTTCAATCTGCTCCGCTGTAATCTCAG
GGAGATAAGATCTCTGGCTTCAA
Found at i:25042398 original size:131 final size:131
Alignment explanation
Indices: 25042214--25042510 Score: 280
Period size: 131 Copynumber: 2.3 Consensus size: 131
25042204 TACTATCTTT
* * * * *** * * *
25042214 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCT
1 AATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACGGTAACCT
* * *
25042278 CAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT
65 AAGGAAGATAAGA--T--AATGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCT
25042340 -GATGC
126 GGATGC
* * * *
25042345 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACGGTAACTTA
1 AATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACGGTAACCTA
* * * * * * *
25042410 AGGAAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTT
66 AGGAAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGATG
25042475 C
131 C
* *
25042476 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 AATCTACTCCACTGTAACCTCAGAGAGATAAGATC
25042511 TGATGCGATC
Statistics
Matches: 132, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
127 2 0.02
128 34 0.26
129 2 0.02
130 2 0.02
131 90 0.68
132 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (131 bp):
AATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACGGTAACCTA
AGGAAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGGATG
C
Found at i:25042508 original size:172 final size:172
Alignment explanation
Indices: 25042254--25042594 Score: 513
Period size: 172 Copynumber: 2.0 Consensus size: 172
25042244 AGATCTCTGG
* **
25042254 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT--AATGCTTCAATCTACTCCACTGT
* *
25042319 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
64 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTT
25042384 ATTTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT
129 ATTTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT
* * * * *
25042428 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAT-GCTTCAATCTACTCCACTGTA
* *
25042492 ACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCGTTTA
65 ACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTTA
* * *
25042557 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT
130 TTTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGAT
25042595 TTGTAACTCG
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
171 1 0.01
172 113 0.75
174 37 0.25
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (172 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAATGCTTCAATCTACTCCACTGTAA
CCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTTAT
TTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT
Found at i:25042570 original size:85 final size:84
Alignment explanation
Indices: 25042175--25042590 Score: 314
Period size: 87 Copynumber: 4.8 Consensus size: 84
25042165 ATTTTAATCC
* * * * * * * *
25042175 ACTCTACGGTAATTTCAGGGAGATAGGAT-TACTATCTTTAATCTGCTCCGCTGTAATCTCAGGG
1 ACTCTACTGTAACTTCAGAGAGATAAGATCT-TTAT-TTTAATCCGCTCCACTGTAACCTCAGGG
* * *
25042239 AGATAAGATCTCTGGCTTCAATCT
64 AGATAAGA--TCT-GATGCGATCT
* * * * ** ** **
25042263 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 ACTCTACTGTAACTTCAGAGAGATAAGATCT-TTATT-TT-AATCCGCTCCACTGTAACCTCAGG
*
25042328 GAGATAAGACCTGATGCGATCT
63 GAGATAAGATCTGATGCGATCT
* * * *
25042350 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACGGTAACTTAAGGAA
1 ACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTATTTTAATCCGCTCCACTGTAACCTCAGGGA
* * * *
25042415 GATAGGATAGTGTCTTCGATCT
65 GATAAGAT-CTG-ATGCGATCT
* ** * *** * *
25042437 GCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
1 ACTCTACTGTAACT-TCAGAGAGATAAGATCT-TTATTTTAATCCGCTCCACTGTAACCTCAGGG
25042501 AGATAAGATCTGATGCGATCT
64 AGATAAGATCTGATGCGATCT
* * *
25042522 ACTCTACTGTAACTTCAGAAAGATAAAATCGTTTATTTTAATCCGCTCCACTGTAACTTCAGGGA
1 ACTCTACTGTAACTTCAGAGAGATAAGATC-TTTATTTTAATCCGCTCCACTGTAACCTCAGGGA
25042587 GATA
65 GATA
25042591 GGATTTGTAA
Statistics
Matches: 252, Mismatches: 66, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
85 84 0.33
86 11 0.04
87 96 0.38
88 28 0.11
89 5 0.02
90 28 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (84 bp):
ACTCTACTGTAACTTCAGAGAGATAAGATCTTTATTTTAATCCGCTCCACTGTAACCTCAGGGAG
ATAAGATCTGATGCGATCT
Found at i:25042590 original size:44 final size:43
Alignment explanation
Indices: 25042041--25042590 Score: 262
Period size: 44 Copynumber: 12.7 Consensus size: 43
25042031 GTATTTTTCG
* * **
25042041 TCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * * *
25042087 TTTACTCCACTGTAACCTT-AGGGAGATAAGA-CCTGA-TGCGA
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGATCTTTACTTCAA
* ** * * *
25042128 TCTACTCTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-TCTTTACTTCAA
** * * * * * *
25042172 TCCACTCTACGGTAATTTCAGGGAGATAGGAT-TACTATCTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-TTA-CTTCAA
* **
25042216 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAA
* **
25042260 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * * *
25042306 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGA-TGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* * * * *
25042347 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* * * * * * * *
25042391 TCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT-CTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* **
25042434 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAA
* * * *
25042478 TCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TGA-TGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* * ** * * *
25042519 TCTACTCTACTGTAACTTCAGAAAGATAAAATCGTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATC-TTTACTTCAA
*
25042563 TCCGCTCCACTGTAACTTCAGGGAGATA
1 TCTGCTCCACTGTAACTTCAGGGAGATA
25042591 GGATTTGTAA
Statistics
Matches: 380, Mismatches: 99, Indels: 52
0.72 0.19 0.10
Matches are distributed among these distances:
40 3 0.01
41 89 0.23
42 5 0.01
43 39 0.10
44 180 0.47
45 3 0.01
46 57 0.15
47 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
Found at i:25043407 original size:125 final size:125
Alignment explanation
Indices: 25042634--25043394 Score: 1396
Period size: 125 Copynumber: 6.1 Consensus size: 125
25042624 TTCGTTATTA
* * **
25042634 TGGCTTTAATCTTTTTAACTGTAATGTCGGAGAAACAAGATTCACCAATTTGGTTTTAATCTGCT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
25042699 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATA
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
*
25042759 TGGCTTTAATCTTTTTAACTGCAATGTCGGAAAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
25042824 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACTGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
25042884 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
25042949 CCACTGCATCGCTTGGGGCATAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
*
25043009 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTAGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
25043074 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
25043134 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
25043199 CCACTGCATCACTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
25043259 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
25043324 CCACTGTATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGAGG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
25043384 TGGCTTTAATC
1 TGGCTTTAATC
25043395 GTTTGAATTG
Statistics
Matches: 615, Mismatches: 21, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 615 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (125 bp):
TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
Found at i:25063716 original size:40 final size:37
Alignment explanation
Indices: 25063624--25063721 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
25063614 GACTTCGAGT
**
25063624 CGATGAGGCACTGGGTGCCAATTTACTTTGGTTTAAC
1 CGATGAGGCACTGGGTGCCAATTTACTTTGAATTAAC
* * * *
25063661 CGATGAGACATTGGGTGTCAATTTACTACTTCGAATTATC
1 CGATGAGGCACTGGGTGCCAATTTACT--TT-GAATTAAC
*
25063701 CGATAAGGCACTGGGTGCCAA
1 CGATGAGGCACTGGGTGCCAA
25063722 ACTGGTGTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 24 0.50
39 2 0.04
40 22 0.46
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (37 bp):
CGATGAGGCACTGGGTGCCAATTTACTTTGAATTAAC
Found at i:25064013 original size:17 final size:17
Alignment explanation
Indices: 25063993--25064061 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
25063983 GTGGATTTTA
25063993 AATATTAAATTGTGCTT
1 AATATTAAATTGTGCTT
*
25064010 AATATTTAATTGTGTCTAT
1 AATATTAAATTGTG-CT-T
* **
25064029 TATATTATCTTGT-CTTT
1 AATATTAAATTGTGC-TT
25064046 AAATATTAAATTGTGC
1 -AATATTAAATTGTGC
25064062 AATTAAGTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
17 15 0.38
18 13 0.33
19 11 0.28
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (17 bp):
AATATTAAATTGTGCTT
Found at i:25065091 original size:110 final size:110
Alignment explanation
Indices: 25064893--25065297 Score: 604
Period size: 110 Copynumber: 3.7 Consensus size: 110
25064883 TTTCTGAATG
* *
25064893 AGGCAATATTTAGCGTTTGGGAAATCCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATATTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
25064958 TCATTCAATCAAATGGCTTAATATCCTTTTAAAAAATTTAAAATA
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTAAAATA
* * *
25065003 AGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTC
1 AGGCAATATTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
25065068 TCGTTCAACCAAATGGCTCAATATCCTTTTAAAAATTTTAAAATA
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTAAAATA
* *
25065113 AGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATATTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
25065178 TCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTCAAAATA
66 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTT-AAAATA
* * * * * *
25065223 TGGCAATATTTTGCGTTT-AGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA--TTTC
1 AGGCAATATTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
25065284 TCGTTTAACCAAAT
66 TCGTTCAACCAAAT
25065298 AGCTAAACAT
Statistics
Matches: 271, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
106 17 0.06
108 24 0.09
109 16 0.06
110 214 0.79
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (110 bp):
AGGCAATATTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTAAAATA
Found at i:25091914 original size:38 final size:38
Alignment explanation
Indices: 25091872--25091989 Score: 113
Period size: 38 Copynumber: 3.2 Consensus size: 38
25091862 TTTAATTTAC
*
25091872 ATTACTATAAACTCACAAAACACAAAAATTTATAATAA
1 ATTACTAAAAACTCACAAAACACAAAAATTTATAATAA
* *** *
25091910 ATTACTAACAAAAT-ATTTAACA-AAATAA-TT-T--TAC
1 ATTACTAA-AAACTCACAAAACACAAA-AATTTATAATAA
*
25091944 ATTACTAAAAACTCACAAAACACAACAATTTATAATAA
1 ATTACTAAAAACTCACAAAACACAAAAATTTATAATAA
25091982 ATTACTAA
1 ATTACTAA
25091990 CAAAATAATT
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
33 4 0.07
34 17 0.28
35 4 0.07
36 2 0.03
37 5 0.08
38 24 0.40
39 4 0.07
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (38 bp):
ATTACTAAAAACTCACAAAACACAAAAATTTATAATAA
Found at i:25091974 original size:34 final size:34
Alignment explanation
Indices: 25091867--25091974 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 34
25091857 TTTTTTTTAA
*
25091867 TTTACATTACTATAAACTCACAAAACACAAAAATT
1 TTTACATTACTAAAAACTCACAAAACACAAAAA-T
* * ***
25091902 TATAATAAATTACTAACAAAAT-ATTTAACA-AAATAAT
1 T-T--TACATTACTAA-AAACTCACAAAACACAAA-AAT
*
25091939 TTTACATTACTAAAAACTCACAAAACACAACAAT
1 TTTACATTACTAAAAACTCACAAAACACAAAAAT
25091973 TT
1 TT
25091975 ATAATAAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 15
0.67 0.15 0.19
Matches are distributed among these distances:
33 4 0.07
34 20 0.37
35 3 0.06
36 2 0.04
37 5 0.09
38 16 0.30
39 4 0.07
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.30
Consensus pattern (34 bp):
TTTACATTACTAAAAACTCACAAAACACAAAAAT
Found at i:25092037 original size:72 final size:70
Alignment explanation
Indices: 25091880--25092050 Score: 200
Period size: 72 Copynumber: 2.4 Consensus size: 70
25091870 ACATTACTAT
* * *
25091880 AAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATATTTAACAAAATAATTTTACA
1 AAACTAACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACAAAATAA--TAACA
* *
25091945 TTACTAA
64 TCACCAA
* * *
25091952 AAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATAATTTTACATTAATAA-AACA
1 AAACTAACAAAACACAACAATTTATAATAAATTACTAACAAAAT-ATTTAACA-AAATAATAACA
25092016 TCACCAA
64 TCACCAA
* *
25092023 ATACTAAACTAAACACAACAATTTATAA
1 AAACT-AACAAAACACAACAATTTATAA
25092051 CATAATCCTA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
71 12 0.14
72 63 0.72
73 7 0.08
74 5 0.06
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (70 bp):
AAACTAACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACAAAATAATAACATC
ACCAA
Found at i:25092266 original size:3 final size:3
Alignment explanation
Indices: 25092260--25092294 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
25092250 TTTTCTTTCT
25092260 TTC TTC TTC TTC TTC TTC TTC TTC TT- TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
25092295 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:25092909 original size:37 final size:37
Alignment explanation
Indices: 25092859--25092936 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
25092849 ATACATGAGA
25092859 CATATAATTCATCTATATCATGCACATAAATTAAAAC
1 CATATAATTCATCTATATCATGCACATAAATTAAAAC
*
25092896 CATATGATTCATCTATATCATGCACATAAATTAAAAC
1 CATATAATTCATCTATATCATGCACATAAATTAAAAC
25092933 CATA
1 CATA
25092937 GTAACTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (37 bp):
CATATAATTCATCTATATCATGCACATAAATTAAAAC
Found at i:25093571 original size:25 final size:25
Alignment explanation
Indices: 25093537--25093586 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25093527 AACTTAATCA
25093537 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
25093562 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
25093587 CGATTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (25 bp):
ATATACAAACCTACTAAAACAAAAC
Found at i:25097104 original size:18 final size:17
Alignment explanation
Indices: 25097071--25097109 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25097061 TTTTATAAAT
25097071 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
25097089 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
25097106 TGTG
1 TGTG
25097110 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:25097378 original size:23 final size:23
Alignment explanation
Indices: 25097343--25097441 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
25097333 AGTGTTATTC
*
25097343 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
25097366 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25097389 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25097412 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25097435 ATCAGTG
1 ATCAGTG
25097442 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25102754 original size:133 final size:131
Alignment explanation
Indices: 25102556--25102968 Score: 639
Period size: 132 Copynumber: 3.1 Consensus size: 131
25102546 CGTTATTGTT
** * * ** *
25102556 GATCTGCTCCACTACTAATTAGAGG-GACAGAATCTACAGTCTTTGACCTACTCCACTACTACTT
1 GATCTGCTCCACTACTGCTTAG-GGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTT
*
25102620 AGAGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
65 AGGGTGATAGGACTAATGGCTTAAAT-TGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
25102685 TTC
129 TTC
*
25102688 GATCTGCTCCACTACTGCTTAGGGTTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTT
1 GATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTT
*
25102753 AGGGTGATAGGACTAATGGCTTAAATTCGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATT
65 AGGGTGATAGGACTAATGGCTTAAATT-GCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
25102818 TTC
129 TTC
* * * *
25102821 GATCTGCTCTAATACTGCTTAGGGTGACAAAATTTGCAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
*
25102886 GGGTGATAGGATTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAAT-TGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
25102951 TC
130 TC
25102953 GATCTGCTCCACTACT
1 GATCTGCTCCACTACT
25102969 AAATACAGGA
Statistics
Matches: 258, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
131 2 0.01
132 136 0.53
133 120 0.47
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTT
C
Found at i:25102987 original size:46 final size:46
Alignment explanation
Indices: 25102947--25103962 Score: 1473
Period size: 46 Copynumber: 22.1 Consensus size: 46
25102937 AAGATTCACC
* * * * *
25102947 ATCTTCGATCTGCTCCACTACTAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
25102993 ATCTTCGATCTACTCCGCTACCAAATACAGGAAGATAAGGTCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
25103039 ATCTTCGATCTTCTCCGCTGCCAAATACAGGAAGATAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
25103085 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
25103131 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
25103177 ATCTTCGATCTCTTCCGCTGCCAAATAGAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
25103223 ATCTTCGATCTCCTCTGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
25103269 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* **
25103315 ATCTTCGATCTCCTCCGCTG-CAAATATAGGAAGGTAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
25103360 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
25103406 ATCTTCGATCT-CTCCGCTGCCAAATAAAGGAAGACAAGATTTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
25103451 ATATTCGATCTCATCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
25103497 ATCTTCGATTTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
25103543 ATCTTCGATTTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * **
25103589 ATCTTCAATCTCTTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
25103635 ATCTTCGATCTCCTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
25103681 ATCTTCGATCTCCTCCGCTGCCAAATACA-AAATGATAAAATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAA-GACAAGATCTGCT
* *
25103727 ATTTTCGATCTCCTCCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
25103773 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
25103819 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGAT-TAGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCT-GCT
* *
25103865 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
25103911 ATCTTTGATCTCCTCCGCTGCCAAATATAGGAATACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
25103957 GTCTTC
1 ATCTTC
25103963 ATTGATCTGT
Statistics
Matches: 887, Mismatches: 77, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
45 84 0.09
46 800 0.90
47 3 0.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:25105077 original size:21 final size:21
Alignment explanation
Indices: 25105051--25105097 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25105041 AGTATAGCAA
25105051 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
25105072 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
25105093 GATCA
1 GATCA
25105098 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:25106085 original size:8 final size:7
Alignment explanation
Indices: 25106068--25106100 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
25106058 TGACCTCTCC
25106068 TTTTTCT
1 TTTTTCT
25106075 TTTTTCT
1 TTTTTCT
25106082 TTTTTCTT
1 TTTTTC-T
25106090 TTTTTCT
1 TTTTTCT
25106097 TTTT
1 TTTT
25106101 CTCCTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:25106087 original size:14 final size:15
Alignment explanation
Indices: 25106068--25106100 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
25106058 TGACCTCTCC
25106068 TTTTTC-TTTTTTCT
1 TTTTTCTTTTTTTCT
25106082 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
25106097 TTTT
1 TTTT
25106101 CTCCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:25106138 original size:7 final size:8
Alignment explanation
Indices: 25106116--25106177 Score: 62
Period size: 8 Copynumber: 8.2 Consensus size: 8
25106106 ATTTTTGACC
25106116 TTGATTTT
1 TTGATTTT
*
25106124 TT--TATT
1 TTGATTTT
25106130 TTG-TTTT
1 TTGATTTT
25106137 TTG-TTTT
1 TTGATTTT
*
25106144 TTTATTTT
1 TTGATTTT
25106152 TT-ATTTTT
1 TTGA-TTTT
25106160 TTGATTTT
1 TTGATTTT
25106168 TTGATTTT
1 TTGATTTT
25106176 TT
1 TT
25106178 TTGGAGTCTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.11
7 13 0.28
8 28 0.60
9 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (8 bp):
TTGATTTT
Found at i:25106138 original size:15 final size:15
Alignment explanation
Indices: 25106128--25106178 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
25106118 GATTTTTTTA
*
25106128 TTTTGTTTTTTGTTT
1 TTTTGTTTTTTATTT
*
25106143 TTTTATTTTTTATTT
1 TTTTGTTTTTTATTT
25106158 TTTTGATTTTTTGATTT
1 TTTTG-TTTTTT-ATTT
25106175 TTTT
1 TTTT
25106179 TGGAGTCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 17 0.55
16 6 0.19
17 8 0.26
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTTTATTT
Found at i:25109932 original size:18 final size:18
Alignment explanation
Indices: 25109911--25109956 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
25109901 ATATATACAC
25109911 GTATATATATGACAAAAA
1 GTATATATATGACAAAAA
* * *
25109929 GTATGTATATTATAAAAA
1 GTATATATATGACAAAAA
25109947 -TATATATATG
1 GTATATATATG
25109957 TGTATATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (18 bp):
GTATATATATGACAAAAA
Found at i:25112210 original size:37 final size:37
Alignment explanation
Indices: 25112160--25112238 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
25112150 TTATTACGAA
* * *
25112160 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
25112197 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25112234 GTCTT
1 GTCTT
25112239 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25112435 original size:47 final size:47
Alignment explanation
Indices: 25112357--25112856 Score: 775
Period size: 47 Copynumber: 10.5 Consensus size: 47
25112347 CCCTTCGGGA
* * * * * *
25112357 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25112404 CCTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25112451 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25112498 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25112545 CTTATCACATATATACACTTTCGCATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25112592 CTTACCACATATATACACCTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25112639 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25112686 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25112735 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25112784 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25112831 CTTATCGCATATATATACACTTTCAC
1 CTTAT--CACATATATACACTTTCAC
25112857 GTATACACAC
Statistics
Matches: 422, Mismatches: 27, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 310 0.73
49 112 0.27
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25116480 original size:40 final size:40
Alignment explanation
Indices: 25116448--25116719 Score: 382
Period size: 40 Copynumber: 6.8 Consensus size: 40
25116438 CCAGCATGAT
* * * *
25116448 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
25116488 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25116528 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25116568 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
25116608 TACTTTTTGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25116648 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25116688 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
25116720 CTCAATTCTC
Statistics
Matches: 200, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 200 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25117983 original size:37 final size:37
Alignment explanation
Indices: 25117933--25118011 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
25117923 TTATTACGAA
* * *
25117933 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
25117970 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25118007 GTCTT
1 GTCTT
25118012 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25118492 original size:49 final size:47
Alignment explanation
Indices: 25118130--25118678 Score: 855
Period size: 47 Copynumber: 11.5 Consensus size: 47
25118120 CCCTTCGGGA
* * * * * *
25118130 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25118177 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25118224 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25118271 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25118318 CTTATCACACATATACACTTTCGCATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25118365 CTTACCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25118412 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25118459 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCCTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25118508 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25118557 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25118606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25118653 CTTATCGCATATATATACACTTTCAC
1 CTTAT--CACATATATACACTTTCAC
25118679 GTATACACAC
Statistics
Matches: 472, Mismatches: 26, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 313 0.66
49 159 0.34
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25122532 original size:3 final size:3
Alignment explanation
Indices: 25122524--25122549 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25122514 CATCTTTTAA
25122524 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
25122550 GACACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:25122541 original size:64 final size:61
Alignment explanation
Indices: 25122415--25122538 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
25122405 ATAAAAGTGT
*
25122415 TTTTTTTTTTCAACTCAATTATGAAATTATAAAAATATCGTCTTTTAAATTATTATTATTA
1 TTTTTTTTTTCAACTCAATTATGAAATTATAAAAATATCATCTTTTAAATTATTATTATTA
25122476 TTTTTTTTTTCAACTCAATTATGAAATTATAAAAATATCATCTTTTAAATTATTATTATTA
1 TTTTTTTTTTCAACTCAATTATGAAATTATAAAAATATCATCTTTTAAATTATTATTATTA
25122537 TT
1 TT
25122539 ATTATTATTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.53
Consensus pattern (61 bp):
TTTTTTTTTTCAACTCAATTATGAAATTATAAAAATATCATCTTTTAAATTATTATTATTA
Found at i:25122784 original size:16 final size:16
Alignment explanation
Indices: 25122760--25122791 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25122750 TAATAATTGG
*
25122760 ATATTTTTTAAAATAT
1 ATATATTTTAAAATAT
25122776 ATATATTTTAAAATAT
1 ATATATTTTAAAATAT
25122792 TTTCTTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAAAATAT
Found at i:25122959 original size:3 final size:3
Alignment explanation
Indices: 25122951--25123000 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
25122941 GTATTAATAG
25122951 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
25122999 AT
1 AT
25123001 GGCCCCTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25124225 original size:78 final size:78
Alignment explanation
Indices: 25124096--25124248 Score: 288
Period size: 78 Copynumber: 2.0 Consensus size: 78
25124086 AACCAATTTT
*
25124096 GTGCAAGCCAAAGAAAATAAGGACTCGACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
1 GTGCAAGCCAAAGAAAATAAGGACTCAACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
25124161 ACCTCAACAAGCG
66 ACCTCAACAAGCG
*
25124174 GTGCAAGCCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
1 GTGCAAGCCAAAGAAAATAAGGACTCAACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
25124239 ACCTCAACAA
66 ACCTCAACAA
25124249 TCAGAAGACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.39, C:0.26, G:0.24, T:0.11
Consensus pattern (78 bp):
GTGCAAGCCAAAGAAAATAAGGACTCAACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
ACCTCAACAAGCG
Found at i:25130168 original size:21 final size:21
Alignment explanation
Indices: 25130129--25130168 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25130119 CCATTGTAGA
**
25130129 GGCCACACATGCCCATGTGGG
1 GGCCACACACACCCATGTGGG
*
25130150 GGCCACACACACCCGTGTG
1 GGCCACACACACCCATGTG
25130169 AGTAGCCCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.38, G:0.30, T:0.12
Consensus pattern (21 bp):
GGCCACACACACCCATGTGGG
Found at i:25132244 original size:5 final size:5
Alignment explanation
Indices: 25132236--25132330 Score: 60
Period size: 5 Copynumber: 19.0 Consensus size: 5
25132226 ATTTAAAATA
* *
25132236 TATAT TATAT TATAT T-TACT TA-AT TA-AT AAGTAT GT-TTT TATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT TATAT
25132280 TATAT TATTAT TA-A- TATAT TATAT TATAT TATTAT TA-AT ATATAT
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TA-TAT TATAT -TATAT
25132325 ATATAT
1 -TATAT
25132331 AAAACAAAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 23
0.73 0.04 0.23
Matches are distributed among these distances:
3 2 0.03
4 13 0.18
5 39 0.53
6 20 0.27
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:25132301 original size:24 final size:24
Alignment explanation
Indices: 25132274--25132328 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 24
25132264 AAGTATGTTT
25132274 TTATATTATATTATTATTAATATA
1 TTATATTATATTATTATTAATATA
25132298 TTATATTATATTATTATTAATATA
1 TTATATTATATTATTATTAATATA
25132322 TATATAT
1 T-TATAT
25132329 ATAAAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATATTATATTATTATTAATATA
Found at i:25132322 original size:19 final size:18
Alignment explanation
Indices: 25132275--25132310 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
25132265 AGTATGTTTT
25132275 TATATTATATTATTATTAA
1 TATATTATATTA-TATTAA
25132294 TATATTATATTATATTA
1 TATATTATATTATATTA
25132311 TTATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTATATTATATTAA
Found at i:25132372 original size:15 final size:16
Alignment explanation
Indices: 25132339--25132373 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
25132329 ATAAAACAAA
*
25132339 AGAAAGAATAGAAATG
1 AGAAAGAATAGAAACG
25132355 AGAAAGAA-AGAAACG
1 AGAAAGAATAGAAACG
25132370 AGAA
1 AGAA
25132374 GCAAAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.03, G:0.26, T:0.06
Consensus pattern (16 bp):
AGAAAGAATAGAAACG
Found at i:25133878 original size:13 final size:13
Alignment explanation
Indices: 25133860--25133886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25133850 AATGATCAAG
25133860 TTGATTTAAAGTA
1 TTGATTTAAAGTA
25133873 TTGATTTAAAGTA
1 TTGATTTAAAGTA
25133886 T
1 T
25133887 GAGATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGATTTAAAGTA
Found at i:25134643 original size:18 final size:17
Alignment explanation
Indices: 25134615--25134649 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25134605 ATTATTAAGA
*
25134615 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25134632 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25134650 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25134860 original size:44 final size:45
Alignment explanation
Indices: 25134811--25134905 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
25134801 TTACACCTCT
* * *
25134811 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
25134855 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
25134900 ATTACA
1 ATTACA
25134906 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:25134905 original size:16 final size:16
Alignment explanation
Indices: 25134886--25134937 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
25134876 GATTTGCTAT
* * *
25134886 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
25134902 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25134918 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25134934 TACA
1 TACA
25134938 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25154797 original size:27 final size:27
Alignment explanation
Indices: 25154729--25154797 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
25154719 CTATCAAGAT
* * *
25154729 AGTAAATACGGGGTAGTCCATTATGAC
1 AGTAAATATGGGGTAGTCCACTAGGAC
* *
25154756 AGTAAACT-TGAGGTAGTCCGCTAGGAC
1 AGTAAA-TATGGGGTAGTCCACTAGGAC
*
25154783 ATTAAATATGGGGTA
1 AGTAAATATGGGGTA
25154798 AAAGGGTGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (27 bp):
AGTAAATATGGGGTAGTCCACTAGGAC
Found at i:25157497 original size:41 final size:41
Alignment explanation
Indices: 25157441--25157787 Score: 451
Period size: 41 Copynumber: 8.4 Consensus size: 41
25157431 TTTTGGATTA
* * * * *
25157441 GAAAAACGCCACTAATGATCTGGTCTTTGGCGGCGTTTTTA
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
*
25157482 GAAAAACGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * *
25157523 GAAAAGCGACGCTAATGCTCTGGTATTTAGTGGCGTTTTCG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
25157564 AAAAAGCGCCGCAAATGCTCTGGTCTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
25157605 GCAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGTGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * *
25157646 GATAAGCGCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTA
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* * * *
25157687 AAAAAGCGCCGCTAATGATCTGGCCTTTAGCGGTGTTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCG-TTTTTG
* *
25157729 GAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGGGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
* *
25157770 CAAAAGCCCCGCTAATGC
1 GAAAAGCGCCGCTAATGC
25157788 AAAATACTAT
Statistics
Matches: 267, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 232 0.87
42 35 0.13
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
GAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG
Found at i:25158052 original size:14 final size:15
Alignment explanation
Indices: 25158013--25158059 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
25158003 TATTTTAAGG
* *
25158013 TTTAGGGAGTATGAA
1 TTTAGGGATTATGGA
*
25158028 TTTAAGGATTATGGA
1 TTTAGGGATTATGGA
25158043 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
25158056 TTTA
1 TTTA
25158060 AAGGTTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:25158344 original size:14 final size:15
Alignment explanation
Indices: 25158309--25158345 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25158299 TATTTTAAGG
25158309 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
25158324 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
25158339 -TTAGGGA
1 TTTAGGGA
25158346 ATATAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:25158386 original size:15 final size:15
Alignment explanation
Indices: 25158351--25158392 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
25158341 AGGGAATATA
25158351 GTTTAAGGGTT-GGG
1 GTTTAAGGGTTAGGG
* *
25158365 ATTTAAGGTTTAGGG
1 GTTTAAGGGTTAGGG
25158380 GTTTAAGGGTTAG
1 GTTTAAGGGTTAG
25158393 ATGTTTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:25158831 original size:19 final size:19
Alignment explanation
Indices: 25158807--25158854 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
25158797 AAATTATAAG
* *
25158807 AAATAAAATTAAAATACAA
1 AAATAAAAATAAAATAAAA
*
25158826 AAATAAAAATGAAATAAAA
1 AAATAAAAATAAAATAAAA
25158845 AAATAAAAAT
1 AAATAAAAAT
25158855 TATAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAA
Found at i:25160463 original size:19 final size:18
Alignment explanation
Indices: 25160439--25160492 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
25160429 TAATGTTTAC
*
25160439 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
25160458 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
25160475 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
25160493 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:25162800 original size:27 final size:26
Alignment explanation
Indices: 25162770--25162826 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
25162760 AATTTTGAGG
*
25162770 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
25162796 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
25162823 TTTA
1 TTTA
25162827 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:25163159 original size:43 final size:42
Alignment explanation
Indices: 25163112--25163206 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
25163102 AGCTTTAGTG
** *
25163112 GCGTTTGTGATAAAAGCGTTGTTAAAGGTCATGGTCTTTAGCA
1 GCGTTTGTGAT-AAAGCGCCGCTAAAGGTCATGGTCTTTAGCA
* * *
25163155 GCGTTTGTTGGTAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCG
1 GCGTTTG-TGATAAAGCGCCGCTAAAGGTCATGGTCTTTAGCA
*
25163198 GCGCTTGTG
1 GCGTTTGTG
25163207 GGTAAAAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.05
43 39 0.89
44 3 0.07
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (42 bp):
GCGTTTGTGATAAAGCGCCGCTAAAGGTCATGGTCTTTAGCA
Found at i:25173373 original size:43 final size:43
Alignment explanation
Indices: 25173325--25173419 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
25173315 GTGAAAAAAT
*
25173325 GCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAAC
1 GCCGCTAAAGAACATGATCTTTACCGGCGCTTTTA-CCACAAAC
*
25173368 GCCGCTAAAGAACATGATCTTTACCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGATCTTTACCGGCGCTTTTACCACAAAC
*
25173411 GTCGCTAAA
1 GCCGCTAAA
25173420 AGTACGTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
43 44 0.92
44 4 0.08
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGAACATGATCTTTACCGGCGCTTTTACCACAAAC
Found at i:25177560 original size:6 final size:6
Alignment explanation
Indices: 25177549--25177576 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25177539 TTTATGTAAG
25177549 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
25177577 AATTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:25178057 original size:7 final size:7
Alignment explanation
Indices: 25178047--25178087 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
25178037 AAAATATAAA
25178047 CCCTAAC
1 CCCTAAC
25178054 CCCTAAC
1 CCCTAAC
*
25178061 CCTTAAC
1 CCCTAAC
25178068 CCCTAAC
1 CCCTAAC
**
25178075 ATCTAAC
1 CCCTAAC
25178082 CCCTAA
1 CCCTAA
25178088 ACCTTAAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:25178069 original size:14 final size:14
Alignment explanation
Indices: 25178045--25178108 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
25178035 ATAAAATATA
25178045 AACCC-TAACCCCT
1 AACCCTTAACCCCT
25178058 AACCCTTAACCCCT
1 AACCCTTAACCCCT
*
25178072 AA-CATCTAACCCCT
1 AACCCT-TAACCCCT
*
25178086 AAACCTTAAACCCC-
1 AACCCTT-AACCCCT
25178100 AACCCTTAA
1 AACCCTTAA
25178109 ACCACAAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
13 9 0.20
14 27 0.61
15 8 0.18
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:25178072 original size:21 final size:21
Alignment explanation
Indices: 25178043--25178111 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
25178033 TTATAAAATA
25178043 TAAACCCTAACCCCTAACCCT
1 TAAACCCTAACCCCTAACCCT
* ** *
25178064 TAACCCCTAACATCTAACCCC
1 TAAACCCTAACCCCTAACCCT
*
25178085 TAAACCTTAAACCCC-AACCCT
1 TAAACCCT-AACCCCTAACCCT
25178106 TAAACC
1 TAAACC
25178112 ACAAACCATA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCCTAACCCCTAACCCT
Found at i:25178117 original size:21 final size:21
Alignment explanation
Indices: 25178079--25178118 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25178069 CCTAACATCT
**
25178079 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCACAAACCCC
*
25178100 AACCCTTAAACCACAAACC
1 AACCCCTAAACCACAAACC
25178119 ATAATCCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCCCTAAACCACAAACCCC
Found at i:25179272 original size:41 final size:41
Alignment explanation
Indices: 25179072--25179488 Score: 437
Period size: 41 Copynumber: 10.1 Consensus size: 41
25179062 ACAAATATTT
* * * *
25179072 TAAATCCCTGAGCATTAGCGGCGCTT-TTTAGAACACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCA-AAAACGCCGC
** ** * *
25179113 TAAA--AATAGAGCATTAGCGATGCTACTTCAAAAACGCCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* *
25179153 TAAAGCCCTG-TCATTAGCGGCGCTTCCTTAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * * *
25179193 TAAAGCCTTGATCATTAGGTTAGCGGCGCTTCCACAAAAACGTCGC
1 TAAAGCCCTGAGC---A--TTAGCGGCGCTTCCTCAAAAACGCCGC
* *
25179239 TAAAGCCCTAAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * *
25179280 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCGAAAACCCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* *
25179321 TAAAGCCCTGATCATTAGCGGCGCTTCCTCAAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * *
25179362 TAAAGCCCTGATCATTAACGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * * **
25179403 TGAAGCCCTAAGCATCAGCGGCGCTTCCTCAAAAACGATGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
* * *
25179444 TAAAGCCTTGAGCATTAGCGGCGTTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
25179485 TAAA
1 TAAA
25179489 ACCCCGAAAG
Statistics
Matches: 314, Mismatches: 52, Indels: 20
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.00
40 60 0.19
41 216 0.69
42 1 0.00
43 1 0.00
44 1 0.00
46 34 0.11
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
Found at i:25180199 original size:49 final size:49
Alignment explanation
Indices: 25180087--25180216 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 49
25180077 AAAAAGTAAG
* * * * * *
25180087 ATAGGCCGCTGGTAAGGCATATTAGTTGCTAAAAAGATTGGCAGATAAG
1 ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAACAAGATTGGAAGATAAA
** *
25180136 ACGGGCCGCTAGTAGGGCATGTTAGTTGCTAACTAGATTGGAAGATAAA
1 ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAACAAGATTGGAAGATAAA
* * *
25180185 ATAGGCCACTAGTAGGG-ATGTTAATTGTTAAC
1 ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAAC
25180217 CATAATGACA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 13 0.19
49 54 0.81
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (49 bp):
ATAGGCCGCTAGTAGGGCATGTTAGTTGCTAACAAGATTGGAAGATAAA
Found at i:25188035 original size:18 final size:16
Alignment explanation
Indices: 25188014--25188047 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
25188004 ACAACATAAC
25188014 AACAGTAAACAACAACAT
1 AACAGT-AACAA-AACAT
25188032 AACAGTAACAAAACAT
1 AACAGTAACAAAACAT
25188048 GTAAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.62, C:0.21, G:0.06, T:0.12
Consensus pattern (16 bp):
AACAGTAACAAAACAT
Found at i:25188489 original size:19 final size:20
Alignment explanation
Indices: 25188467--25188504 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25188457 TGTAAACAAT
25188467 TAATAT-TAATTTAAATATA
1 TAATATATAATTTAAATATA
* *
25188486 TAATCTATATTTTAAATAT
1 TAATATATAATTTAAATAT
25188505 TATTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATATATAATTTAAATATA
Found at i:25204878 original size:19 final size:19
Alignment explanation
Indices: 25204845--25204881 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25204835 AAATATATAT
25204845 TTAAAAAATCTTTAAAAAA
1 TTAAAAAATCTTTAAAAAA
25204864 TTAAATAAATC-TTAAAAA
1 TTAAA-AAATCTTTAAAAA
25204882 TTTTTATCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAAAAAATCTTTAAAAAA
Found at i:25206622 original size:12 final size:12
Alignment explanation
Indices: 25206607--25206636 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25206597 TTGTTTTTGA
25206607 AAAATATTATAG
1 AAAATATTATAG
*
25206619 AAAATCTTATAG
1 AAAATATTATAG
25206631 AAAATA
1 AAAATA
25206637 ATTTTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (12 bp):
AAAATATTATAG
Found at i:25206838 original size:22 final size:23
Alignment explanation
Indices: 25206800--25206843 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
25206790 TATTGTAAAA
*
25206800 TTTAATTAATATATAACTTATAT
1 TTTAATTAATATATAACGTATAT
25206823 TTTAA-TAAT-TATTAACGTATA
1 TTTAATTAATATA-TAACGTATA
25206844 ACCATTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 12 0.63
23 5 0.26
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAATTAATATATAACGTATAT
Found at i:25207572 original size:22 final size:22
Alignment explanation
Indices: 25207529--25207584 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
25207519 TAGTCATATA
* * *
25207529 ATAAATTATTACTATAACAAAT
1 ATAATTTATTATTTTAACAAAT
*
25207551 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAACAAAT
*
25207573 -T-ATTTAATATTT
1 ATAATTTATTATTT
25207585 CAATTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTATTTTAACAAAT
Found at i:25208200 original size:14 final size:13
Alignment explanation
Indices: 25208181--25208219 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
25208171 CCAAAAAAGC
25208181 AAATCATTTTCCAG
1 AAATCATTTTCC-G
25208195 AAATCATTTTCCG
1 AAATCATTTTCCG
25208208 AAAGTCATTTTC
1 AAA-TCATTTTC
25208220 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:25210778 original size:2 final size:2
Alignment explanation
Indices: 25210771--25210823 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
25210761 AACTTATCAA
25210771 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
25210813 AC AC AC AC AC A
1 AC AC AC AC AC A
25210824 TATAATCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25211655 original size:41 final size:41
Alignment explanation
Indices: 25211486--25211655 Score: 279
Period size: 41 Copynumber: 4.1 Consensus size: 41
25211476 TTTAAACAGA
*
25211486 TTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
* *
25211527 TTCAGCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
* *
25211568 TTCACTGGCACTTAGCCTGCTAGACTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
25211609 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
25211650 TTCACC
1 TTCACC
25211656 TATAGCCTGA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 118 0.99
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.31
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:25211661 original size:21 final size:21
Alignment explanation
Indices: 25211635--25211676 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25211625 CTGCTAGGCT
25211635 TATAGCCTGATTCAGTTCACC
1 TATAGCCTGATTCAGTTCACC
25211656 TATAGCCTGATTCAGTTCACC
1 TATAGCCTGATTCAGTTCACC
25211677 GGCACTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (21 bp):
TATAGCCTGATTCAGTTCACC
Found at i:25211716 original size:62 final size:62
Alignment explanation
Indices: 25211594--25211717 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
25211584 CTGCTAGACT
* * * ** *
25211594 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACC
1 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACGTAAAGCCAAAATCAGTTCACC
*
25211656 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACGTAAAGTCCAAAAT-ATTTCACC
1 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACGTAAAG-CCAAAATCAGTTCACC
25211718 GGCAATTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 50 0.93
63 4 0.07
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (62 bp):
TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACGTAAAGCCAAAATCAGTTCACC
Found at i:25213432 original size:28 final size:31
Alignment explanation
Indices: 25213400--25213458 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
25213390 TGTTTTGTTT
25213400 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
25213428 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
25213459 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:25215137 original size:42 final size:43
Alignment explanation
Indices: 25215027--25215137 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
25215017 AGCTCGTACA
* *** *
25215027 ATGCCAATGTCCCAGACGTGGTCTTACATGTATTCGAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCGAATAACG
* *
25215070 ATGCCACTGTCCCAGACAAGGTCTTACACAAAATC--ATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCGAATA-ACG
*
25215112 ATGCCAATGTCCCAGACATGATCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
25215138 TATGTAATTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 3 0.05
42 26 0.46
43 28 0.49
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCGAATAACG
Done.