Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 242 of 290
Found at i:78594185 original size:32 final size:32
Alignment explanation
Indices: 78594149--78594215 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
78594139 TGAGTATGAG
*
78594149 ATTGGTACGAGATGGTGCAGGTATGTACGAAA
1 ATTGGTACGAGATGGTACAGGTATGTACGAAA
* *
78594181 ATTGGTACGATATGGTATAGGTATGTACGAAA
1 ATTGGTACGAGATGGTACAGGTATGTACGAAA
78594213 ATT
1 ATT
78594216 CAATTGAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (32 bp):
ATTGGTACGAGATGGTACAGGTATGTACGAAA
Found at i:78597639 original size:40 final size:40
Alignment explanation
Indices: 78597574--78597889 Score: 339
Period size: 40 Copynumber: 7.9 Consensus size: 40
78597564 CAAACAAACT
*
78597574 AGACAGAAGCTCATAA-AGCTAATCCAACTGAAAC-TAGCC
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACAT-GCC
* *
78597613 AAACATAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
* *
78597653 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACACGCT
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
* * *
78597693 AGACAAAATCTCACAAGAGCTAATCCAACCGAAACATGCC
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
* * * * ** * * *
78597733 AGATAGAAGATCATAAGATCTAATCAAACTAAAAAACGCT
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
* * * * * *
78597773 AGATAGAAGTTCACAGGAGTTAATCCAACCGAAACATGCT
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
* * * * * *
78597813 TGGCAGAAGCTCACAAGAGCTAATCCAATCAAAACACGCC
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
*
78597853 AGACAGAAGCTTATAAGAGCTAATCCAACCGAAACAT
1 AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACAT
78597890 ACCAAAAATA
Statistics
Matches: 224, Mismatches: 51, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
39 14 0.06
40 209 0.93
41 1 0.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.16
Consensus pattern (40 bp):
AGACAGAAGCTCATAAGAGCTAATCCAACCGAAACATGCC
Found at i:78611201 original size:27 final size:27
Alignment explanation
Indices: 78611163--78611216 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
78611153 TATTGTAGAC
78611163 CTCAAAATAATATTAAAATAAATATTT
1 CTCAAAATAATATTAAAATAAATATTT
78611190 CTCAAAATAATATTAAAATAAATATTT
1 CTCAAAATAATATTAAAATAAATATTT
78611217 TTACTTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (27 bp):
CTCAAAATAATATTAAAATAAATATTT
Found at i:78614659 original size:21 final size:21
Alignment explanation
Indices: 78614623--78614680 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
78614613 CAAAAAGAGT
* *
78614623 AAAAAAAG--TAACATCCAGA
1 AAAAAAAGAATAAAATCCAAA
78614642 AAAAAAAGAATAAAATCCAAA
1 AAAAAAAGAATAAAATCCAAA
*
78614663 AATAAAATAAAATAAAAT
1 AA-AAAA-AGAATAAAAT
78614681 AAATATCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 8 0.25
21 11 0.34
22 4 0.12
23 9 0.28
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAAAGAATAAAATCCAAA
Found at i:78621082 original size:40 final size:40
Alignment explanation
Indices: 78621027--78621209 Score: 303
Period size: 40 Copynumber: 4.6 Consensus size: 40
78621017 AAACCAAGTA
*
78621027 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGTAACTCGCACAAATG
*
78621067 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGTAACTCGCACAAATG
* *
78621107 CCTTCAGGAATTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGTAACTCGCACAAATG
*
78621147 CCTTCGGGAATTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGTTATAGTAACTCGCACAAATG
* *
78621187 CCTTTGGGACTTAGCCCGGTTAT
1 CCTTCGGGAATTAGCCCGGTTAT
78621210 CATCCGAATA
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:78623907 original size:41 final size:41
Alignment explanation
Indices: 78623813--78623996 Score: 224
Period size: 41 Copynumber: 4.4 Consensus size: 41
78623803 ACTCAGGAAA
* * * * *
78623813 CTCGAACACTTAGTGCCAAATAAATAGCCGAAGTTGTATCTCAAT
1 CTCGCACACTAAGTGCC--ATACATAGCCGAAG--CTATCTCGAT
*
78623858 CTCACACACTAAGTGCCATACATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAT
* * * *
78623899 CTCGCACACTAAATGTCATACATAGCTGAAGCTATCTGGAT
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAT
* *
78623940 CTCGCACATTAAGTGCCATACATAGTCGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAT
78623981 CTCGCACACTAAGTGC
1 CTCGCACACTAAGTGC
78623997 TACACATGGT
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
41 94 0.78
43 13 0.11
45 14 0.12
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
CTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAT
Found at i:78630269 original size:6 final size:6
Alignment explanation
Indices: 78630258--78630298 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
78630248 ATTAAATTGG
78630258 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAA
78630299 TTATATTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATTAAA
Found at i:78630477 original size:22 final size:22
Alignment explanation
Indices: 78630451--78630494 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
78630441 GAAAATGATC
*
78630451 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
78630473 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
78630495 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:78633427 original size:41 final size:41
Alignment explanation
Indices: 78633338--78633476 Score: 143
Period size: 41 Copynumber: 3.3 Consensus size: 41
78633328 GTGAAACTCG
* * * *
78633338 CACACTTAGTGCCAAATAAATAGCTGAAGCTATATCTCAATCTCA
1 CACACTAAGTGCC-AA-ACATAGCCGAAGC--TATCTCGATCTCA
* *
78633383 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGATCTCA
1 CACACTAAGTGCCAAACATAGCCGAAGCTATCTCGATCTCA
* * * * *
78633424 CACATTAAGTGTCAAACGTAGCCGAAGCTGTCTCGATCTCG
1 CACACTAAGTGCCAAACATAGCCGAAGCTATCTCGATCTCA
78633465 CACACTAAGTGC
1 CACACTAAGTGC
78633477 TACGCATAGC
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 55 0.70
43 11 0.14
44 1 0.01
45 12 0.15
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (41 bp):
CACACTAAGTGCCAAACATAGCCGAAGCTATCTCGATCTCA
Found at i:78639306 original size:68 final size:68
Alignment explanation
Indices: 78639122--78639314 Score: 233
Period size: 68 Copynumber: 2.8 Consensus size: 68
78639112 ACTGTAGCCC
* * * * * * * * * *
78639122 AGCTATGCTCTTACACAATATAAACCCATGCTTACCGTCCTGGTGAACTCCATATATTTTCATAG
1 AGCTATGATCTTACACAGTATAAACTCATGTTTACTGTCCTGATGGACTCCATATGTTGTCATAA
78639187 CCT
66 CCT
* * * * *
78639190 AGCTATGATCTTACATAGTATAAACTTATGTTTATTGTCCTGTTGGACTCTATATGTTGTCATAA
1 AGCTATGATCTTACACAGTATAAACTCATGTTTACTGTCCTGATGGACTCCATATGTTGTCATAA
78639255 CCT
66 CCT
* *
78639258 AGCTATGGTCTTACACAGTATAAACTCATGTTTACTGTCCTGACGGACTCCATATGT
1 AGCTATGATCTTACACAGTATAAACTCATGTTTACTGTCCTGATGGACTCCATATGT
78639315 AACAGCCCAA
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 104 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (68 bp):
AGCTATGATCTTACACAGTATAAACTCATGTTTACTGTCCTGATGGACTCCATATGTTGTCATAA
CCT
Found at i:78651924 original size:21 final size:20
Alignment explanation
Indices: 78651882--78651924 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
78651872 TAAAAGTTTG
**
78651882 ATTGAATTGAAATTGTGTAA
1 ATTGAATTGAAATTGTAAAA
78651902 ATTGAAATTGAAATTGTAAAA
1 ATTG-AATTGAAATTGTAAAA
78651923 AT
1 AT
78651925 AAACAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (20 bp):
ATTGAATTGAAATTGTAAAA
Found at i:78652642 original size:10 final size:10
Alignment explanation
Indices: 78652623--78652661 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
78652613 TTAAATTCTA
78652623 AAAGATAAAT
1 AAAGATAAAT
78652633 ACAA-ATAAAT
1 A-AAGATAAAT
78652643 AAAGATAAAT
1 AAAGATAAAT
78652653 AAAGATAAA
1 AAAGATAAA
78652662 AGCTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:78652970 original size:16 final size:16
Alignment explanation
Indices: 78652949--78652980 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
78652939 ATGTGTAATT
78652949 AATACATAAAAATATG
1 AATACATAAAAATATG
78652965 AATACATAAAAATATG
1 AATACATAAAAATATG
78652981 TTATTCTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
AATACATAAAAATATG
Found at i:78655555 original size:43 final size:43
Alignment explanation
Indices: 78655457--78655573 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 43
78655447 TCTAGGACGT
* * *
78655457 TGGCATCGACT-TATGATTTACGTGTAAGACCATGTCTGGGACAT
1 TGGCATCGA-TATTTGATTT-CGTGTAAGACCATATCTGGGACAA
* *
78655501 TAGCATC-ATATTTGATTTCGTGTAAGACCTTATCTGGGACAA
1 TGGCATCGATATTTGATTTCGTGTAAGACCATATCTGGGACAA
* *
78655543 TGGCATCGATATTTGATTACATGTAAGACCA
1 TGGCATCGATATTTGATTTCGTGTAAGACCA
78655574 CGTCTAGGAC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 28 0.45
43 28 0.45
44 6 0.10
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCGTGTAAGACCATATCTGGGACAA
Found at i:78655590 original size:43 final size:43
Alignment explanation
Indices: 78655435--78655591 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 43
78655425 TGTGTTTTCT
* * *
78655435 TGTAAGACAACGTCTAGGACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTAGGACATTGGCATCGA-TATTTGA-TTACG
* * * *
78655479 TGTAAGACCATGTCTGGGACATTAGCATC-ATATTTGATTTCG
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACG
*** * * *
78655521 TGTAAGACCTTATCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACG
*
78655564 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
78655592 TGTACGAGTT
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
42 30 0.33
43 38 0.41
44 24 0.26
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACG
Found at i:78663121 original size:44 final size:42
Alignment explanation
Indices: 78663073--78663229 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
78663063 TGTGTTTTCG
* *
78663073 TGTAAGGCCATGTCTGGGACATTAGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACA
* **
78663117 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTT-TG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACA
* *
78663159 TGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATTTACA
* * *
78663202 TGTAAGACCACGTATGGGACTTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
78663230 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:78663187 original size:86 final size:86
Alignment explanation
Indices: 78663067--78663234 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 86
78663057 CCGATATGTG
* * * *
78663067 TTTTCGTGTAAGGCCATGTCTGGGACATTAGCATCGACT-TATGATTTACATGTAAGACCATGTC
1 TTTTCGTGTAAGACCATGTCTGGGACAATAGCATCGA-TATATGA-TTACATGTAAGACCACGTA
78663131 TAGGACATTGGCATCGTATTTGA
64 TAGGACATTGGCATCGTATTTGA
* * * *
78663154 TTTT-GTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATTACATGTAAGACCACGTATG
1 TTTTCGTGTAAGACCATGTCTGGGACAATAGCATCGATATATGATTACATGTAAGACCACGTATA
* *
78663218 GGACTTTGGCATTGTAT
66 GGACATTGGCATCGTAT
78663235 GAGCTTTCCG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 34 0.49
86 32 0.46
87 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (86 bp):
TTTTCGTGTAAGACCATGTCTGGGACAATAGCATCGATATATGATTACATGTAAGACCACGTATA
GGACATTGGCATCGTATTTGA
Found at i:78663220 original size:43 final size:42
Alignment explanation
Indices: 78663073--78663221 Score: 140
Period size: 44 Copynumber: 3.5 Consensus size: 42
78663063 TGTGTTTTCG
* * * *
78663073 TGTAAGGCCATGTCTGGGACATTAGCATCG-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACAATGGCATCGTA-TT-TGA-TTACA
* * * ***
78663117 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTGGGACAATGGCATCGTATTTGATTACA
78663159 TGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAATGGCATCG-TATTTGATTACA
*
78663202 TGTAAGACCACGTATGGGAC
1 TGTAAGACCACGTCTGGGAC
78663222 TTTGGCATTG
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 28 0.32
43 29 0.33
44 30 0.34
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAATGGCATCGTATTTGATTACA
Found at i:78665339 original size:6 final size:6
Alignment explanation
Indices: 78665328--78665635 Score: 278
Period size: 6 Copynumber: 50.8 Consensus size: 6
78665318 AACCAAAATG
*
78665328 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
78665376 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AAAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
78665425 AGAATC AGTAA-C AGAATC AGAATC AGAACC AGAATC AGTATT AGTAA-C
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
78665473 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
78665522 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * *
78665570 AGAATC AGAATT AG-GTGAC AGAATC ACAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC AG-AATC
*
78665619 AGAACC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
78665636 GTGAATGCAA
Statistics
Matches: 248, Mismatches: 29, Indels: 50
0.76 0.09 0.15
Matches are distributed among these distances:
5 18 0.07
6 210 0.85
7 16 0.06
8 4 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:78665423 original size:91 final size:91
Alignment explanation
Indices: 78665321--78665635 Score: 502
Period size: 91 Copynumber: 3.5 Consensus size: 91
78665311 GAATTGGAAC
* *
78665321 CAAAATGAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAA
1 CAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAA
78665386 TCAGAATCAGAATCAGAATTAGGTGA
66 TCAGAATCAGAATCAGAATTAGGTGA
*
78665412 CAAAATCAGAATCAGAATCAGTAA-CAG-AATCAGAATCAGAACCAGAATCAGTATTAGTAACAG
1 CAAAATCAGAATCAGAATCAG-AATCAGTAA-CAGAATCAGAATCAGAATCAGTATTAGTAACAG
78665475 AATCAGAATCAGAATCAGAATTAGGTG-
64 AATCAGAATCAGAATCAGAATTAGGTGA
78665502 ----A-CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAA
1 CAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAA
78665562 TCAGAATCAGAATCAGAATTAGGTGA
66 TCAGAATCAGAATCAGAATTAGGTGA
* * *
78665588 CAGAATCACAATCAGAATCAGAATCAGTAACAGAACCAGAATCAGAAT
1 CAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAAT
78665636 GTGAATGCAA
Statistics
Matches: 208, Mismatches: 6, Indels: 20
0.89 0.03 0.09
Matches are distributed among these distances:
84 2 0.01
85 77 0.37
86 3 0.01
90 3 0.01
91 121 0.58
92 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (91 bp):
CAAAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAA
TCAGAATCAGAATCAGAATTAGGTGA
Found at i:78665790 original size:27 final size:26
Alignment explanation
Indices: 78665753--78665811 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
78665743 AGCATGGCTG
*
78665753 CCAGAACAGATATCATGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
** *
78665779 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
78665806 CCAGAA
1 CCAGAA
78665812 TCAAATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:78665823 original size:27 final size:27
Alignment explanation
Indices: 78665771--78665826 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
78665761 GATATCATGA
* * *
78665771 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAAATAATGTGG
78665798 CAGAGCCACCAGA-ATCAAATAATGTGG
1 CAGAGCCACCAGATA-CAAATAATGTGG
78665825 CA
1 CA
78665827 AACCCACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATACAAATAATGTGG
Found at i:78666039 original size:22 final size:22
Alignment explanation
Indices: 78665991--78666049 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
78665981 GTAAATACGT
78665991 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
78666013 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
78666035 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
78666050 TAATAACGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:78666181 original size:27 final size:26
Alignment explanation
Indices: 78666137--78666219 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
78666127 TCGATCGGTC
* *
78666137 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
78666163 ATATAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
78666190 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
78666217 AAC
1 AAC
78666220 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.14
27 43 0.86
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:78666448 original size:27 final size:27
Alignment explanation
Indices: 78666418--78666613 Score: 171
Period size: 27 Copynumber: 7.3 Consensus size: 27
78666408 GGGGCAAAAT
* *
78666418 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
78666445 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
78666472 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
78666499 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
78666526 GGTAATTTTATCCTATAAAGG-ATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
78666552 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
78666579 GGAAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
78666606 AGTAATTT
1 GGTAATTT
78666614 CACAATCAAG
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
26 23 0.17
27 107 0.80
28 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:78666475 original size:54 final size:54
Alignment explanation
Indices: 78666417--78666604 Score: 236
Period size: 54 Copynumber: 3.5 Consensus size: 54
78666407 AGGGGCAAAA
* * *
78666417 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*
78666471 TGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * * *
78666525 TGGTAATTTTATCCTATAAAGG-ATTTCAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * *
78666578 CGGAAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTT
78666605 TAGTAATTTC
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 47 0.41
54 63 0.55
55 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:78666637 original size:80 final size:79
Alignment explanation
Indices: 78666472--78666640 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 79
78666462 GGGGTATTTT
* * *
78666472 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGGTAATTTTAT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTTCA-
* ***
78666537 CCTATAAAGGATTTC
65 CCAATAAAGGAAAAC
* * *
78666552 AGTAATTCTACCCTATAGGGGTATTTCGGA-AATTCTACCCTACAGGGGTATTTTAGTAATTTCA
1 GGTAATTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTTAGTAATTTCA
*
78666616 -CAATCAAGGGTAAAAC
65 CCAAT-AAAGG-AAAAC
78666632 GGTAATTCT
1 GGTAATTCT
78666641 GTAAATCGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.04
79 4 0.05
80 65 0.88
81 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (79 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTTCAC
CAATAAAGGAAAAC
Found at i:78666647 original size:27 final size:27
Alignment explanation
Indices: 78666617--78667055 Score: 490
Period size: 27 Copynumber: 16.3 Consensus size: 27
78666607 GTAATTTCAC
* *
78666617 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
78666644 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
78666671 AA-CTGAGGGTAAACCAGTAATTTTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * * *
78666698 AATCAAGGGTAAAATGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
78666725 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
78666752 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
78666779 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
78666806 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
78666833 GA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * ** *
78666860 AATCGAGGCTAAAATGACAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
78666887 AATCGAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
78666914 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
78666941 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
78666968 AATCGAGGGTACAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
78666995 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
78667022 AA-CTAAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
78667049 AATCGAG
1 AATCGAG
78667056 AGTACTTTGG
Statistics
Matches: 350, Mismatches: 54, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.01
27 342 0.98
28 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:78669055 original size:6 final size:6
Alignment explanation
Indices: 78669038--78669333 Score: 263
Period size: 6 Copynumber: 48.8 Consensus size: 6
78669028 AACCAAAATG
* *
78669038 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
78669086 AGTAA-C AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
78669135 AGTAA-C AGAATC AAAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
78669183 AGAATC AGAATC AGAATT AG-GTGAC AAAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* * *
78669232 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
*
78669280 AGAATT AG-ATGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
78669329 AGAAT
1 AGAAT
78669334 GTGAATGCAA
Statistics
Matches: 237, Mismatches: 28, Indels: 50
0.75 0.09 0.16
Matches are distributed among these distances:
5 19 0.08
6 197 0.83
7 16 0.07
8 5 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:78669193 original size:91 final size:90
Alignment explanation
Indices: 78669038--78669333 Score: 418
Period size: 85 Copynumber: 3.4 Consensus size: 90
78669028 AACCAAAATG
* *
78669038 AGAATCAAAATCAG-AATCAGTAACAGAATCAGAATCAGAATCAATATTAGT-----AA-CAGAA
1 AGAATCAGAATCAGTAA-CAG-AACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAA
78669096 TCAGAATCAGAATTAGGTGACAGAATC
64 TCAGAATCAGAATTAGGTGACAGAATC
*
78669123 AGAATCAGAATCAGTAACAGAATCAAAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAA-CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
78669188 CAGAATCAGAATTAGGTGACAAAATC
65 CAGAATCAGAATTAGGTGACAGAATC
78669214 AGAATCAGAATCAGT-----AACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGTAACAGAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
* *
78669274 AAAATCAGAATTAGATGACAGAATC
66 AGAATCAGAATTAGGTGACAGAATC
78669299 AGAATCAGAATCAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAA-CAGAATCAGAAT
78669334 GTGAATGCAA
Statistics
Matches: 189, Mismatches: 8, Indels: 22
0.86 0.04 0.10
Matches are distributed among these distances:
84 2 0.01
85 121 0.64
86 4 0.02
90 4 0.02
91 58 0.31
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (90 bp):
AGAATCAGAATCAGTAACAGAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
AGAATCAGAATTAGGTGACAGAATC
Found at i:78669521 original size:27 final size:27
Alignment explanation
Indices: 78669456--78669524 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
78669446 GGCTGCCAGG
* *
78669456 ACAGAT-ATCGTGACAGAGTCACCAGAT
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
78669483 ACAGATATTGTGGCAGAGCCACCAGA-
1 ACAGATAATGTGGCAGAGCCACCAGAT
78669509 ATCAGATAATGTGGCA
1 A-CAGATAATGTGGCA
78669525 AACCCACCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:78669531 original size:27 final size:27
Alignment explanation
Indices: 78669475--78669532 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
78669465 GTGACAGAGT
* * *
78669475 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
78669502 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
78669529 CACC
1 CACC
78669533 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:78669737 original size:22 final size:22
Alignment explanation
Indices: 78669689--78669747 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
78669679 GTAAATACGT
*
78669689 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
78669711 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
78669733 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
78669748 TAATAACGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:78669874 original size:27 final size:26
Alignment explanation
Indices: 78669835--78669917 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
78669825 TCGATCGGTC
*
78669835 AACAGATATTGTGACAGAGTAACCAG
1 AACAGATATTGTGACAGAGCAACCAG
* *
78669861 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCAACCAG
* * *
78669888 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCAACCAG
78669915 AAC
1 AAC
78669918 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCAACCAG
Found at i:78670171 original size:27 final size:27
Alignment explanation
Indices: 78670116--78670299 Score: 226
Period size: 27 Copynumber: 6.9 Consensus size: 27
78670106 GGGGCAAAAT
* * *
78670116 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
78670142 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
78670169 GGTATTTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78670196 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
78670223 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78670250 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78670277 AGAAATTCTACCCTACAGGGGTA
1 GGTAATTCTACCCTACAGGGGTA
78670300 CTTCAATAAT
Statistics
Matches: 136, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 12 0.09
27 124 0.91
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:78670345 original size:27 final size:27
Alignment explanation
Indices: 78670315--78670861 Score: 595
Period size: 27 Copynumber: 20.3 Consensus size: 27
78670305 ATAATTTCAC
* *
78670315 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
78670342 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78670369 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
78670396 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78670423 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
***
78670450 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78670477 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
78670504 AATTGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
78670531 AA-CTGAGGGTAAAATTGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
78670558 AATCGAGGCTAAAACGGCAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
78670585 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
78670612 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78670639 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
78670666 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78670693 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
78670720 AATCGAGGGTAAAAAGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
78670747 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
78670774 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78670801 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
78670828 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78670855 AATCGAG
1 AATCGAG
78670862 AGTACTTTGG
Statistics
Matches: 439, Mismatches: 67, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.02
27 421 0.96
28 9 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:78670876 original size:54 final size:54
Alignment explanation
Indices: 78670320--78670849 Score: 656
Period size: 54 Copynumber: 9.8 Consensus size: 54
78670310 TTCACAATCA
*
78670320 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * * * * **
78670374 AGGGTAAACTAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAA-TCG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* * * *
78670428 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAACTG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * * * *
78670482 AGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAATAATTCTGTAAACTG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * * * ** *
78670536 AGGGTAAAATTGTAATTCTATAAATCGAGGCTAAAACGGCAATTTTACAAA-TCA
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
78670590 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAATAATTTTGTAAACTG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* *
78670644 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* **
78670698 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA-AGGTAATTTTACAAA-TCG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACA-GTAATTTTGTAAACT-G
* * *
78670752 AGGGTAAAATGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* *
78670806 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATT
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATT
78670850 CTATAAATCG
Statistics
Matches: 415, Mismatches: 52, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
53 4 0.01
54 406 0.98
55 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
Found at i:78673221 original size:42 final size:42
Alignment explanation
Indices: 78673121--78673258 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 42
78673111 TGTGTTTTTG
*
78673121 TGTAAGACCAC-GTCTGGGACATTAGCATCG-ACTTATGATTTACG
1 TGTAAGACC-CTGTCTGGGACATTAGCATCGTA-TT-TGATTT-CA
* * *
78673165 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCCTGTCTGGGACATTAGCATCGTATTTGATTTCA
* *
78673207 TGTAAGACCCTGTCTGGGACAATAGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTAGCATCG-TATTTGATTTCA
78673250 TGTAAGACC
1 TGTAAGACC
78673259 ACGTATGGGA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 28 0.34
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATTAGCATCGTATTTGATTTCA
Found at i:78673268 original size:43 final size:43
Alignment explanation
Indices: 78673121--78673269 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 43
78673111 TGTGTTTTTG
* *
78673121 TGTAAGACCACGTCTGGGACATTAGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACATTAGCATCGA-TATTTGA-TTACA
* * * *
78673165 TGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTAGCATCGATATTTGATTACA
*
78673207 TGTAAGACC-CTGTCTGGGACAATAGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTAGCATCGATATTTGATTACA
*
78673250 TGTAAGACCACGTATGGGAC
1 TGTAAGACCACGTCTGGGAC
78673270 TTTGGCACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.33
43 32 0.36
44 28 0.31
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTAGCATCGATATTTGATTACA
Found at i:78674289 original size:23 final size:23
Alignment explanation
Indices: 78674243--78674290 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
78674233 TCCTTTGGGG
**
78674243 TACCCTACAATTTTAATTCAGTA
1 TACCCTACAATTTTAACACAGTA
* *
78674266 TACCCTACAATTTTGACACGGTA
1 TACCCTACAATTTTAACACAGTA
78674289 TA
1 TA
78674291 GACATACGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.35
Consensus pattern (23 bp):
TACCCTACAATTTTAACACAGTA
Found at i:78676573 original size:12 final size:12
Alignment explanation
Indices: 78676556--78676581 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78676546 CGTAATATGG
78676556 TCACTATGAATT
1 TCACTATGAATT
78676568 TCACTATGAATT
1 TCACTATGAATT
78676580 TC
1 TC
78676582 TAGTGATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (12 bp):
TCACTATGAATT
Found at i:78687388 original size:47 final size:46
Alignment explanation
Indices: 78687324--78687488 Score: 162
Period size: 47 Copynumber: 3.5 Consensus size: 46
78687314 GCAAATGTCT
*
78687324 GAACTCGTTGAGTTGAGTCTTAGTTCGTGAGATATAACTAGGCATTC
1 GAACTCGTTGAGTTGAGTC-GAGTTCGTGAGATATAACTAGGCATTC
** *
78687371 GAACTCGTTGAGTTGAGTACGAGTTC---ACTTATGGA-T--GCAAATGTC
1 GAACTCGTTGAGTTGAGT-CGAGTTCGTGAGATAT-AACTAGGC--AT-TC
* *
78687416 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGT-CGAGTTCGTGAGATATAACTAGGCATTC
78687463 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGT-CGAGTTC
78687489 ACTCATGGAT
Statistics
Matches: 97, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
44 7 0.07
45 28 0.29
47 51 0.53
48 7 0.07
50 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCGAGTTCGTGAGATATAACTAGGCATTC
Found at i:78687466 original size:92 final size:92
Alignment explanation
Indices: 78687271--78687534 Score: 420
Period size: 92 Copynumber: 2.8 Consensus size: 92
78687261 GGGATATTTG
78687271 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC-GAACTCGTTGAG
*
78687336 TTGAGTCTTAGTTCGTGAGATATAACTA
65 TTGAGTCTGAGTTCGTGAGATATAACTA
* *
78687364 GGCATTCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGT
* *
78687429 TGAGTCCGAGTTCGTGAGATGTAACTA
66 TGAGTCTGAGTTCGTGAGATATAACTA
* * * * *
78687456 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-TCGAACTCGTTGAG
78687521 TTGAGTCTGAGTTC
65 TTGAGTCTGAGTTC
78687535 ACTTATGGGT
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 82 0.52
93 75 0.48
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATATAACTA
Found at i:78690484 original size:15 final size:15
Alignment explanation
Indices: 78690464--78690517 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
78690454 GTATCTTGGG
78690464 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
78690479 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
78690494 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
78690509 TTTCTTTAT
1 TTTCTTTAT
78690518 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:78690494 original size:30 final size:30
Alignment explanation
Indices: 78690460--78690528 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
78690450 TATCGTATCT
78690460 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
78690490 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
78690520 -GGTTTTCTT
1 TGGGTTTCTT
78690529 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Found at i:78693119 original size:91 final size:91
Alignment explanation
Indices: 78692909--78693164 Score: 416
Period size: 90 Copynumber: 2.9 Consensus size: 91
78692899 TGGGATATTT
78692909 GGCATCCGAAC-CGTTGAGTTGAGT-CGAGTTCA-TTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
*
78692971 TTGAGT-CGAGTTCGTGAATGTAATA
66 TTGAGTCCGAGTTCGAGAATGTAATA
78692996 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
78693061 TTGAGTCCGAGTTCGAG-ATGTAACTA
66 TTGAGTCCGAGTTCGAGAATGTAA-TA
* * * *
78693087 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
78693151 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
78693165 ACTTATGGGC
Statistics
Matches: 159, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
87 11 0.07
88 13 0.08
89 8 0.05
90 81 0.51
91 46 0.29
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (91 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAATGTAATA
Found at i:78693146 original size:45 final size:45
Alignment explanation
Indices: 78692914--78693172 Score: 250
Period size: 45 Copynumber: 5.8 Consensus size: 45
78692904 TATTTGGCAT
* * *
78692914 CCGAAC-CGTTGAGTTGAGT-CGAGTTCATTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAAAGGC
* * *
78692957 CCGAACTCGTTGAGTTGAGT-CGAGTT--C-GTGAATGTAATAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAA-AGGC
* *
78692999 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCAAAGGC
* *
78693047 CCGAACTCGTTGAGTTGAGTCCGAGTT--CGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAA--AGGC
* *
78693090 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAAAGGC
*
78693137 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGG
78693173 GCGGGTTACA
Statistics
Matches: 178, Mismatches: 20, Indels: 33
0.77 0.09 0.14
Matches are distributed among these distances:
41 13 0.07
42 2 0.01
43 9 0.05
44 40 0.22
45 62 0.35
46 32 0.18
47 6 0.03
48 2 0.01
49 12 0.07
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAAAGGC
Found at i:78704906 original size:40 final size:40
Alignment explanation
Indices: 78704851--78704953 Score: 179
Period size: 40 Copynumber: 2.6 Consensus size: 40
78704841 AAACCAAGTA
* * *
78704851 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAATAACTCGAACAAATG
78704891 CCTTCGGGACTTAGCCCGGTTATAATAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAATAACTCGAACAAATG
78704931 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
78704954 CATCCGAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAATAACTCGAACAAATG
Found at i:78711957 original size:40 final size:40
Alignment explanation
Indices: 78711902--78712084 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
78711892 AAACCAAGTA
*
78711902 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
78711942 CCTTCGGGACTTAGCCCTGTTATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
78711982 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
78712022 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
78712062 CCTTTGGGACTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGGTTAT
78712085 CATCCGAATA
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:78714428 original size:28 final size:28
Alignment explanation
Indices: 78714388--78714494 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
78714378 GCAATCAAAT
* *
78714388 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
78714416 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
78714444 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * * *
78714472 ATGACACTTCGTGTCCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
78714495 CGAATGATTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:78714669 original size:44 final size:43
Alignment explanation
Indices: 78714614--78714734 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
78714604 GGTGATATTT
* *
78714614 GGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAAT-ATTATC
1 GGGCTTTGAGCCTAGCAAGCTATAATGCCGGTG-A-AATGA-TATC
* *
78714658 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
1 GGGCTTTGAGCCTAGCAAGCTATAATGCCGGTGAAATGATATC
* * *
78714701 GGGCTTTAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 GGGCTTTGAGCCTAGCAAGCTATAATGCCGGTGAA
78714735 TGAGTTCAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 12 0.18
43 26 0.38
44 24 0.35
45 6 0.09
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
GGGCTTTGAGCCTAGCAAGCTATAATGCCGGTGAAATGATATC
Found at i:78714757 original size:41 final size:43
Alignment explanation
Indices: 78714666--78714761 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 43
78714656 TCGGGCTTCG
* * * *
78714666 AGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTA
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAA
78714709 AGCCTAGCAGGCGA-AATGCCGGTG-AATGAGT-TCAGACTTAA
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCAGACTTAA
*
78714750 AGTCTAGCAGGC
1 AGCCTAGCAGGC
78714762 TTCGTGCCGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 23 0.49
42 11 0.23
43 13 0.28
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (43 bp):
AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAA
Found at i:78714815 original size:40 final size:41
Alignment explanation
Indices: 78714666--78714814 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 41
78714656 TCGGGCTTCG
78714666 AGCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTT-A
1 AGCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGG-TTTAA
* * * **
78714709 AGCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAA
1 AGCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAA
* ***
78714750 AGTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAA
1 AGCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAA
* *
78714790 AACCTAGCAGGCTAAATGCTGGTGA
1 AGCCTAGCAGGCTAAATGCCGGTGA
78714815 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
40 32 0.39
41 27 0.33
42 11 0.13
43 13 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
AGCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAA
Found at i:78717122 original size:20 final size:20
Alignment explanation
Indices: 78717097--78717173 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
78717087 TTATGAATAC
*
78717097 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
78717117 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
**
78717137 GCCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78717157 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
78717174 TCAACAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78724772 original size:7 final size:7
Alignment explanation
Indices: 78724760--78724787 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
78724750 GCCAAAGCCT
78724760 TTTCATA
1 TTTCATA
78724767 TTTCATA
1 TTTCATA
78724774 TTTCATA
1 TTTCATA
78724781 TTTCATA
1 TTTCATA
78724788 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:78725099 original size:26 final size:26
Alignment explanation
Indices: 78725016--78725150 Score: 192
Period size: 26 Copynumber: 5.3 Consensus size: 26
78725006 CTGGAGGCCT
78725016 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
78725040 AGCCCTTTT-GATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
78725064 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
78725090 AGCCCTTTTCAATAAACTGGGACATA
1 AGCCCTTTTCAATAAACTGGGGCATA
78725116 AG-CCTCTTTCAATAAACTGGGGCATA
1 AGCCCT-TTTCAATAAACTGGGGCATA
78725142 AGCCCTTTT
1 AGCCCTTTT
78725151 GCACTTCCTC
Statistics
Matches: 102, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.07
24 24 0.24
25 16 0.16
26 52 0.51
27 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:78725225 original size:20 final size:20
Alignment explanation
Indices: 78725200--78725276 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
78725190 TTATGAATAC
*
78725200 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
78725220 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
**
78725240 GCCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78725260 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
78725277 TCAACAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78730862 original size:15 final size:17
Alignment explanation
Indices: 78730832--78730863 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
78730822 AGCAATATCT
78730832 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
78730849 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
78730864 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:78737668 original size:30 final size:30
Alignment explanation
Indices: 78737623--78737688 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
78737613 ACTGTAGGGG
* *
78737623 TCACATGGCCATGTGGCCAATCCGTGTGAC
1 TCACACGGCCATGTGGCCAAGCCGTGTGAC
*
78737653 TCACACGGCCGTGTGGCCAAGCCGTGTGAC
1 TCACACGGCCATGTGGCCAAGCCGTGTGAC
78737683 TCACAC
1 TCACAC
78737689 AGCTAAGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (30 bp):
TCACACGGCCATGTGGCCAAGCCGTGTGAC
Found at i:78740255 original size:17 final size:18
Alignment explanation
Indices: 78740222--78740257 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78740212 CGTGTGCCAT
*
78740222 GCCCTTGTGGTCCCACAC
1 GCCCATGTGGTCCCACAC
78740240 GCCCATGTGG-CCCACAC
1 GCCCATGTGGTCCCACAC
78740257 G
1 G
78740258 GCCTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.44, G:0.25, T:0.17
Consensus pattern (18 bp):
GCCCATGTGGTCCCACAC
Found at i:78744784 original size:16 final size:16
Alignment explanation
Indices: 78744763--78744794 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
78744753 CCTCAAACAA
78744763 GCCCTAGTAGCTCTCC
1 GCCCTAGTAGCTCTCC
78744779 GCCCTAGTAGCTCTCC
1 GCCCTAGTAGCTCTCC
78744795 AACACTAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.44, G:0.19, T:0.25
Consensus pattern (16 bp):
GCCCTAGTAGCTCTCC
Found at i:78746639 original size:38 final size:38
Alignment explanation
Indices: 78746589--78746687 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 38
78746579 CCATCTTCGT
* * *
78746589 CTAACCCAACACACCATGTGGGG-TAAAAATCGACCCAC
1 CTAACCCTACACACCATATGGGGAT-AAAATCAACCCAC
* * *
78746627 CTAGCCCTACACACCAGATATGGGGATATAATCAACCCAT
1 CTAACCCTACACACC--ATATGGGGATAAAATCAACCCAC
*
78746667 CTAACCCTACACACCAAATGG
1 CTAACCCTACACACCATATGG
78746688 TACCGTAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
38 18 0.36
40 31 0.62
41 1 0.02
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.16
Consensus pattern (38 bp):
CTAACCCTACACACCATATGGGGATAAAATCAACCCAC
Found at i:78748975 original size:26 final size:26
Alignment explanation
Indices: 78748935--78748997 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
78748925 CCTTTACATA
*
78748935 TATGCTCACATAAGTTATGAAATGAG
1 TATGCTCACACAAGTTATGAAATGAG
* * *
78748961 TATGCTCAGACAAGTTGTGAAATGGG
1 TATGCTCACACAAGTTATGAAATGAG
78748987 CT-TGCTCACAC
1 -TATGCTCACAC
78748998 GAGCTATCGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (26 bp):
TATGCTCACACAAGTTATGAAATGAG
Found at i:78752450 original size:41 final size:41
Alignment explanation
Indices: 78752393--78752575 Score: 242
Period size: 41 Copynumber: 4.4 Consensus size: 41
78752383 CAAAAATTTA
* ** *
78752393 GCTATGTATAGCACTTAGTGCACGAGATCGAGATAGCTTTG
1 GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
* *
78752434 GCTATGTATGGCACTTAGTGTGCGAGATCGAGATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
*
78752475 GCTATTTATGGCACTTAGTGTGCGAGATCAAGATAGCTTT-
1 GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
* * * *
78752515 TCTTATGTATGGCACTTAGTGTGCGAGATTAAAATAGCCTTG
1 GC-TATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
78752557 GCTATGTATTGGCACTTAG
1 GCTATGTA-TGGCACTTAG
78752576 AGTACGGGAT
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 114 0.90
42 11 0.09
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
Found at i:78758479 original size:30 final size:30
Alignment explanation
Indices: 78758443--78758503 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
78758433 CTAGTAGTTG
78758443 TGACTAAGATTATTATTTATGACTTTTGCC
1 TGACTAAGATTATTATTTATGACTTTTGCC
78758473 TGACTAAGATTATTATTTATGACTTTTGCC
1 TGACTAAGATTATTATTTATGACTTTTGCC
78758503 T
1 T
78758504 TTTTGAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (30 bp):
TGACTAAGATTATTATTTATGACTTTTGCC
Found at i:78767859 original size:23 final size:23
Alignment explanation
Indices: 78767829--78767879 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
78767819 AAAGGAAAAT
78767829 CGATAGTGCTCGCTTAAACTTCC
1 CGATAGTGCTCGCTTAAACTTCC
*
78767852 CGATAGTGCTCGCTTGAACTTCC
1 CGATAGTGCTCGCTTAAACTTCC
78767875 CGATA
1 CGATA
78767880 TATGGCTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (23 bp):
CGATAGTGCTCGCTTAAACTTCC
Found at i:78770051 original size:26 final size:26
Alignment explanation
Indices: 78770022--78770103 Score: 65
Period size: 28 Copynumber: 3.0 Consensus size: 26
78770012 GTCCTTTGAA
* * *
78770022 TCATTTGATATTTTGCACACTAAGTG
1 TCATTTAATATCTCGCACACTAAGTG
78770048 TCATTCTTAATATCTCGCACACTAAGTG
1 TCA-T-TTAATATCTCGCACACTAAGTG
* * * *
78770076 CCATTCTCAATATTTCGTACACTGAGTG
1 TCATT-T-AATATCTCGCACACTAAGTG
78770104 CCATATTTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.09
27 3 0.07
28 38 0.84
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (26 bp):
TCATTTAATATCTCGCACACTAAGTG
Found at i:78770067 original size:28 final size:28
Alignment explanation
Indices: 78770036--78770107 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
78770026 TTGATATTTT
* *
78770036 GCACACTAAGTGTCATTCTTAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
78770064 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
78770092 GTACACTGAGTGCCAT
1 GCACACTAAGTGCCAT
78770108 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:78778116 original size:20 final size:19
Alignment explanation
Indices: 78778091--78778134 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
78778081 TGTGAATTTT
*
78778091 ATTGATGAGTATTTTATATA
1 ATTGATGAATATTTT-TATA
*
78778111 ATTGATTAATATTTTTATA
1 ATTGATGAATATTTTTATA
*
78778130 TTTGA
1 ATTGA
78778135 AATTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
ATTGATGAATATTTTTATA
Found at i:78778694 original size:26 final size:26
Alignment explanation
Indices: 78778665--78778754 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
78778655 ATTGTTTTGT
78778665 TTAAAATATAGTTAAAAATACACATA
1 TTAAAATATAGTTAAAAATACACATA
* ** * *
78778691 TT-AATTGCATTTATCAAATTA-A-ATA
1 TTAAAATATAGTTA--AAAATACACATA
78778716 --AAAATATAGTTAAAAATACACATA
1 TTAAAATATAGTTAAAAATACACATA
78778740 TTAAAATATAGTTAA
1 TTAAAATATAGTTAA
78778755 GAATTAATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
22 5 0.11
23 1 0.02
24 10 0.21
25 10 0.21
26 16 0.34
27 5 0.11
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (26 bp):
TTAAAATATAGTTAAAAATACACATA
Found at i:78778760 original size:49 final size:48
Alignment explanation
Indices: 78778667--78778761 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 48
78778657 TGTTTTGTTT
* * *
78778667 AAAATATAGTTAAAAATACACATATTAATTGCATTTATCAAATTAAATA
1 AAAATATAGTTAAAAATACACATATTAAATACAGTTA-CAAATTAAATA
*
78778716 AAAATATAGTTAAAAATACACATATTAAAATATAGTTA-AGAATTAA
1 AAAATATAGTTAAAAATACACATATT-AAATACAGTTACA-AATTAA
78778762 TTACATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 1 0.03
49 32 0.80
50 7 0.17
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (48 bp):
AAAATATAGTTAAAAATACACATATTAAATACAGTTACAAATTAAATA
Found at i:78778973 original size:16 final size:16
Alignment explanation
Indices: 78778952--78778998 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
78778942 TTTTATACTA
78778952 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
78778968 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
*
78778984 TTTTAAAATTAAATA
1 TTTTAATATTAAATA
78778999 ACATTAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:78781963 original size:29 final size:29
Alignment explanation
Indices: 78781903--78781968 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
78781893 GTGAATGTCA
* * * *
78781903 CAACATTGGGATCAGAATGCTCAATGCCG
1 CAACATTGAGATCAAAATGCCCAAGGCCG
**
78781932 CAACATTGAGATCAAAATGCCCAAGGTTG
1 CAACATTGAGATCAAAATGCCCAAGGCCG
78781961 CAACATTG
1 CAACATTG
78781969 CTGACAGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (29 bp):
CAACATTGAGATCAAAATGCCCAAGGCCG
Found at i:78786636 original size:29 final size:29
Alignment explanation
Indices: 78786593--78786648 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
78786583 TTGACAAGTG
* *
78786593 AATGCCACAACATTGGGATCAGAATGCTC
1 AATGCCACAACATTGAGATCAAAATGCTC
* *
78786622 AATGCCGCAATATTGAGATCAAAATGC
1 AATGCCACAACATTGAGATCAAAATGC
78786649 CTAAGGTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (29 bp):
AATGCCACAACATTGAGATCAAAATGCTC
Found at i:78789664 original size:40 final size:40
Alignment explanation
Indices: 78789555--78789649 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
78789545 CCATCTCCGT
* *
78789555 CCAACCCAACACACC-A-TGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
*
78789593 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
*
78789633 CCAGCCCTACACACCAA
1 CCAACCCTACACACCAA
78789650 TTGGCACTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 14 0.27
39 1 0.02
40 36 0.71
ACGTcount: A:0.37, C:0.38, G:0.14, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
Found at i:78797238 original size:17 final size:18
Alignment explanation
Indices: 78797205--78797239 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
78797195 CGTGTACCCT
78797205 GCCCGTATGGACCCACAC
1 GCCCGTATGGACCCACAC
78797223 GCCCGTATGG-CCCACAC
1 GCCCGTATGGACCCACAC
78797240 AATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
GCCCGTATGGACCCACAC
Found at i:78800541 original size:21 final size:23
Alignment explanation
Indices: 78800512--78800561 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
78800502 TAATTTTAAG
* *
78800512 AAATATTTAT-AAA-AAGATTTT
1 AAATTTTTATCAAATAAGATTTA
*
78800533 AAATTTTTATCAAATAATATTTA
1 AAATTTTTATCAAATAAGATTTA
78800556 AAATTT
1 AAATTT
78800562 AAAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 12 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATTTTTATCAAATAAGATTTA
Found at i:78800559 original size:23 final size:22
Alignment explanation
Indices: 78800499--78800561 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
78800489 TTACTTATAA
*
78800499 AAATAAT-TTTAAGAAATATTTAT
1 AAATAATATTT-A-AAATTTTTAT
* *
78800522 AAA-AAGATTTTAAATTTTTAT
1 AAATAATATTTAAAATTTTTAT
78800543 CAAATAATATTTAAAATTT
1 -AAATAATATTTAAAATTT
78800562 AAAAAAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 9 0.28
22 5 0.16
23 18 0.56
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (22 bp):
AAATAATATTTAAAATTTTTAT
Found at i:78800729 original size:23 final size:23
Alignment explanation
Indices: 78800703--78800747 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
78800693 CTGATTGAAT
*
78800703 TTTAGTTCAGTTGATATTACTAC
1 TTTAGTTCAGTCGATATTACTAC
78800726 TTTAGTTCAGTCGATATTACTA
1 TTTAGTTCAGTCGATATTACTA
78800748 TTATTATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (23 bp):
TTTAGTTCAGTCGATATTACTAC
Found at i:78802600 original size:20 final size:20
Alignment explanation
Indices: 78802575--78802615 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
78802565 ATAAATTATT
78802575 TTTAAAAA-TCATTAAAATTA
1 TTTAAAAAGT-ATTAAAATTA
*
78802595 TTTAAAAAGTATTAACATTA
1 TTTAAAAAGTATTAAAATTA
78802615 T
1 T
78802616 AAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAAAAAGTATTAAAATTA
Found at i:78806472 original size:17 final size:19
Alignment explanation
Indices: 78806447--78806483 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
78806437 AGTGATGATG
*
78806447 ATAATAATA-TGAAA-AAT
1 ATAACAATAGTGAAATAAT
78806464 ATAACAATAGTGAAATAAT
1 ATAACAATAGTGAAATAAT
78806483 A
1 A
78806484 ATATAGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (19 bp):
ATAACAATAGTGAAATAAT
Found at i:78806593 original size:3 final size:3
Alignment explanation
Indices: 78806587--78806941 Score: 123
Period size: 3 Copynumber: 118.3 Consensus size: 3
78806577 AATATAGTAG
* * * *
78806587 TAA TAA TAA TAC T-A TAG TAA TAA TGA TAA TAA -AA -AA TTAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
** * * *
78806630 TAA TAA TAA -AA TAA TAA -AA T-A TAA TGG TGA CAG TAA TTAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* * * * * *
78806672 -AA TAT TAA TAG TGA TAA -AA TAA GGTGA TAA TAA TAA T-A TAT TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA
* * * ** * *
78806716 TAA TAA CTAA TAA -AA GGAA TAA AAA TAA TAG TAA CGA TAA GAA TAT
1 TAA TAA -TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
78806762 TAA TAA TAA CAA TAA T-A TAAA TAA TAA TATA TACA TGAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A T-AA TAA TAA TAA
* * * * *
78806810 TAA T-A TAAA GAA TAGG GAA TAA TAA T-A TAC TAA TAA GAA TAA TAA
1 TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * **
78806855 TAGGT TAA TAA TAA TAGGA GGA -AA TAA TAA TAA T-A TAT TAA TAA GGA
1 TA--A TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
78806902 TACA -AA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA T
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
78806942 GTTAAAATGG
Statistics
Matches: 254, Mismatches: 67, Indels: 62
0.66 0.17 0.16
Matches are distributed among these distances:
2 31 0.12
3 196 0.77
4 21 0.08
5 6 0.02
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:78806604 original size:20 final size:20
Alignment explanation
Indices: 78806577--78806638 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
78806567 TATAGATGAA
78806577 AATATAGTAGTAATAATAAT
1 AATATAGTAGTAATAATAAT
* * *
78806597 ACTATAGTAATAATGATAAT
1 AATATAGTAGTAATAATAAT
* * *
78806617 AAAAAATTAGTAATAATAAT
1 AATATAGTAGTAATAATAAT
78806637 AA
1 AA
78806639 AATAATAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (20 bp):
AATATAGTAGTAATAATAAT
Found at i:78806845 original size:28 final size:27
Alignment explanation
Indices: 78806798--78806850 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
78806788 ATATATACAT
78806798 GAATAATAATAATAATATAAAGAATAGG
1 GAATAATAATAATAATAT-AAGAATAGG
*
78806826 GAATAATAAT-ATACTAATAAGAATA
1 GAATAATAATAATAAT-ATAAGAATA
78806851 ATAATAGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.26
Consensus pattern (27 bp):
GAATAATAATAATAATATAAGAATAGG
Found at i:78808397 original size:44 final size:44
Alignment explanation
Indices: 78808349--78808838 Score: 253
Period size: 44 Copynumber: 11.2 Consensus size: 44
78808339 CTTCAAGCCG
* *
78808349 CTCCAATGCCATTTCAGGGAGAAGAAATTTGTAGCTTCGATCTA
1 CTCCACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
* * * * *
78808393 CTCCACTAG--AGCTTCAAGGAGATACGAACTATG--GCTTTGAGCCT-
1 CTCCACT-GCCA-TTTCAAGGAGA-A-GAAATTTGTAGCTTCGA-TCTA
* * *
78808437 CTCCAGTGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTA
1 CTCCACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
* ** * * * *
78808481 CTCCGCTGGAACTTCAAGGAGATATG-AA-TTGTGGCTTTGAGC--
1 CTCCACTGCCATTTCAAGGAGA-A-GAAATTTGTAGCTTCGATCTA
* * *
78808523 CTCTCAGTGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTA
1 CTC-CACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
** * *
78808568 CTCCACTGGAACTTT-AAGGAGATACG-AA-TTGTGGCTTCGAACCT-
1 CTCCACTGCCA-TTTCAAGGAGA-A-GAAATTTGTAGCTTCG-ATCTA
* * *
78808612 CTCCAGTGCCATTTCATGGAGAAGAGATTTGTAGCTTCGATCTA
1 CTCCACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
* ** * * *
78808656 CTCCGCTGGAACTTCAAGGAGATACG-AATTT-TGGCTTCGAGCCT-
1 CTCCACTGCCATTTCAAGGAGA-A-GAAATTTGTAGCTTCGA-TCTA
* * * *
78808700 CTTCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTA
1 CTCCACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
** ** * * *
78808744 CTCTGCTGGAACTTCAAGGAGATACG-AA-TTGTGGCTTCGAGCCT-
1 CTCCACTGCCATTTCAAGGAGA-A-GAAATTTGTAGCTTCGA-TCTA
* * * *
78808788 CTCCAGTGCCATTTCAAAGAGAAGAGATTTTTAGCTTCGATCTA
1 CTCCACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
78808832 CTCCACT
1 CTCCACT
78808839 AGAACTTCAA
Statistics
Matches: 318, Mismatches: 91, Indels: 74
0.66 0.19 0.15
Matches are distributed among these distances:
41 1 0.00
42 13 0.04
43 48 0.15
44 217 0.68
45 29 0.09
46 10 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (44 bp):
CTCCACTGCCATTTCAAGGAGAAGAAATTTGTAGCTTCGATCTA
Found at i:78808414 original size:88 final size:88
Alignment explanation
Indices: 78808305--78808875 Score: 802
Period size: 88 Copynumber: 6.5 Consensus size: 88
78808295 CTTCAGTCTG
** * * * * * * * *
78808305 CTCCACTACAACTTCAGGGAGATAAGACTAGTGACTTCAAGCCGCTCCAATGCCATTTCAGGGAG
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
*
78808370 AAGAAATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* * * * *
78808393 CTCCACTAGAGCTTCAAGGAGATACGAACTATGGCTTTGAGCCTCTCCAGTGCCATTTCAGGGAG
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
78808458 AAGAGATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* * *
78808481 CTCCGCTGGAACTTCAAGGAGATATGAATTGTGGCTTTGAGCCTCT-CAGTGCCATTTCAGGGAG
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
78808545 AAGAGATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* * *
78808568 CTCCACTGGAACTTTAAGGAGATACGAATTGTGGCTTCGAACCTCTCCAGTGCCATTTCATGGAG
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
78808633 AAGAGATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* * * *
78808656 CTCCGCTGGAACTTCAAGGAGATACGAATTTTGGCTTCGAGCCTCTTCAATGCCATTTCAGGGAG
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
78808721 AAGAGATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
** **
78808744 CTCTGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAAAGAG
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
*
78808809 AAGAGATTTTTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* * * * * *
78808832 CTCCACTAGAACTTCAAGAAAATACGAATTATGGTTTCCAGCCT
1 CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCT
78808876 GTTACCTTAC
Statistics
Matches: 434, Mismatches: 48, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 82 0.19
88 352 0.81
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (88 bp):
CTCCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
AAGAGATTTGTAGCTTCGATCTA
Found at i:78808775 original size:263 final size:264
Alignment explanation
Indices: 78808349--78808861 Score: 830
Period size: 263 Copynumber: 1.9 Consensus size: 264
78808339 CTTCAAGCCG
*
78808349 CTCCAATGCCATTTCAGGGAGAAGAAATTTGTAGCTTCGATCTACTCCACTAGAGCTTCAAGGAG
1 CTCCAATGCCATTTCAGGGAGAAGAAATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGGAG
* *
78808414 ATACGAACTATGGCTTTGAGCCTCTCCAGTGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATC
66 ATACGAACTATGGCTTCGAGCCTCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATC
* * **
78808479 TACTCCGCTGGAACTTCAAGGAGATATGAATTGTGGCTTTGAGCCTCT-CAGTGCCATTTCAGGG
131 TACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAAAG
* * * *
78808543 AGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTTAAGGAGATACGAATTGTGGCTTCGA
196 AGAAGAGATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGAAAATACGAATTGTGGCTTCGA
78808608 ACCT
261 ACCT
* * * * *
78808612 CTCCAGTGCCATTTCATGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAG
1 CTCCAATGCCATTTCAGGGAGAAGAAATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGGAG
* * *
78808677 ATACGAATTTTGGCTTCGAGCCTCTTCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATC
66 ATACGAACTATGGCTTCGAGCCTCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATC
*
78808742 TACTCTGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAAAG
131 TACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAAAG
*
78808807 AGAAGAGATTTTTAGCTTCGATCTACTCCACTAGAACTTCAAGAAAATACGAATT
196 AGAAGAGATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGAAAATACGAATT
78808862 ATGGTTTCCA
Statistics
Matches: 228, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
263 164 0.72
264 64 0.28
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (264 bp):
CTCCAATGCCATTTCAGGGAGAAGAAATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGGAG
ATACGAACTATGGCTTCGAGCCTCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATC
TACTCCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAAAG
AGAAGAGATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGAAAATACGAATTGTGGCTTCGA
ACCT
Found at i:78820863 original size:17 final size:19
Alignment explanation
Indices: 78820838--78820874 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
78820828 AGTGATGATG
*
78820838 ATAATAATA-TGAAA-AAT
1 ATAACAATATTGAAATAAT
78820855 ATAACAATATTGAAATAAT
1 ATAACAATATTGAAATAAT
78820874 A
1 A
78820875 ATATAGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACAATATTGAAATAAT
Found at i:78820931 original size:16 final size:17
Alignment explanation
Indices: 78820905--78820937 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
78820895 ATACAATAAT
78820905 ATAGAAAATATAAATAG
1 ATAGAAAATATAAATAG
78820922 ATAG-AAATATAAATAG
1 ATAGAAAATATAAATAG
78820938 GTAAGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
ATAGAAAATATAAATAG
Found at i:78820995 original size:20 final size:20
Alignment explanation
Indices: 78820968--78821029 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
78820958 TGTAGATGAA
78820968 AATATAGTAGTAATAATAAT
1 AATATAGTAGTAATAATAAT
* * *
78820988 ACTATAGTAATAATGATAAT
1 AATATAGTAGTAATAATAAT
* * *
78821008 AAAAAATTAGTAATAATAAT
1 AATATAGTAGTAATAATAAT
78821028 AA
1 AA
78821030 AATAAAAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (20 bp):
AATATAGTAGTAATAATAAT
Found at i:78821018 original size:23 final size:24
Alignment explanation
Indices: 78820992--78821038 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
78820982 AATAATACTA
*
78820992 TAGTAATAATGAT-AATAAAAAAT
1 TAGTAATAATAATAAATAAAAAAT
78821015 TAGTAATAATAATAAAATAAAAAA
1 TAGTAATAATAAT-AAATAAAAAA
78821039 ATATAATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (24 bp):
TAGTAATAATAATAAATAAAAAAT
Found at i:78821099 original size:3 final size:3
Alignment explanation
Indices: 78821091--78821322 Score: 104
Period size: 3 Copynumber: 76.3 Consensus size: 3
78821081 AATAAGGTGG
* * *
78821091 TAA TAA TAA T-A TAT TAA TAA TAA CTAA TAA -AA GGAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA TAA
* ** * * *
78821136 TAG TAA CGA TAA GAA TAT TAA TAA TAA CAA TAA T-A TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
78821181 TATA TACA TGAA TAA TAA TAA TAA TAA CAA T-A TAAA GAA TAGGA -AA
1 TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA--A TAA
* * ** *
78821227 TAA TAA T-A TAC TAA TAA GAA TAA TAA TAGGA GGA -AA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA
* ** * *
78821272 T-A TAT TAA TAA GGA TACA -AA TAA TAA TGA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
78821316 TAA TAA T
1 TAA TAA T
78821323 GGTAAAATGG
Statistics
Matches: 170, Mismatches: 39, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
2 15 0.09
3 135 0.79
4 17 0.10
5 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:78826399 original size:20 final size:20
Alignment explanation
Indices: 78826374--78826411 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78826364 TATTTTCCTC
78826374 TCTTTTCTTTCCTC-CTTTCT
1 TCTTTTC-TTCCTCTCTTTCT
78826394 TCTTTTCTTCCTCTCTTT
1 TCTTTTCTTCCTCTCTTT
78826412 TTCCTGGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTTTTCTTCCTCTCTTTCT
Found at i:78829904 original size:64 final size:64
Alignment explanation
Indices: 78829823--78830006 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
78829813 AGACATTATG
* *
78829823 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
78829887 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-GTTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
78829952 AA
63 AA
* * * * *
78829954 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
78830007 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 19 0.20
65 11 0.11
66 14 0.14
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:78834524 original size:14 final size:14
Alignment explanation
Indices: 78834505--78834534 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78834495 TCTATCTTTC
*
78834505 TTATATATTTTTTA
1 TTATATATTATTTA
78834519 TTATATATTATTTA
1 TTATATATTATTTA
78834533 TT
1 TT
78834535 TTGTTATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATATTATTTA
Found at i:78834605 original size:21 final size:22
Alignment explanation
Indices: 78834579--78834622 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
78834569 GCAAAATACT
78834579 TATTATA-TT-CTTATCATTTTA
1 TATTATATTTCCTTAT-ATTTTA
78834600 TATTATATTTCCTTATATTTTA
1 TATTATATTTCCTTATATTTTA
78834622 T
1 T
78834623 TCATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATATTTCCTTATATTTTA
Found at i:78844336 original size:206 final size:206
Alignment explanation
Indices: 78843677--78844847 Score: 2026
Period size: 206 Copynumber: 5.7 Consensus size: 206
78843667 GCAGATCTGG
* *
78843677 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
78843742 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTTTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
78843807 AGAACAAATTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTT
78843872 CAGATGTTTATA
195 CAGATGTTTATA
*
78843884 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
78843949 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
78844014 GAAC-AATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTC
78844078 AGATGTTTATA
196 AGATGTTTATA
* * *
78844089 CTGAATCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
78844154 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
78844219 GAACAAATTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTC
78844284 AGATGTTTATA
196 AGATGTTTATA
*
78844295 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
78844360 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
78844425 GAAC-AATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTC
78844489 AGATGTTTATA
196 AGATGTTTATA
* * *
78844500 CTGAATCAGATCCAAAATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCT
* * * *
78844564 GATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATTTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
78844629 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTT
78844694 CAGATGTTTATA
195 CAGATGTTTATA
78844706 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* ** * * *
78844771 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAACCTAAGATGA-TTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
78844835 GGACAAATCGAAG
131 GAACAAATCGAAG
78844848 AAGCAGATTT
Statistics
Matches: 915, Mismatches: 45, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
204 1 0.00
205 422 0.46
206 484 0.53
207 8 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTC
AGATGTTTATA
Found at i:78844447 original size:411 final size:411
Alignment explanation
Indices: 78843685--78844847 Score: 2114
Period size: 411 Copynumber: 2.8 Consensus size: 411
78843675 GGCTGAAGCA
78843685 AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
78843750 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTTTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAA
78843815 TTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTT
131 TTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTT
78843880 TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATA
196 TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATA
78843945 GCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
261 GCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
78844010 CAGAGAACAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
326 CAGAGAACAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
78844075 TTCAGATGTTTATACTGAATC
391 TTCAGATGTTTATACTGAATC
78844096 AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
78844161 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAA
78844226 TTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTT
131 TTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTT
78844291 TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATA
196 TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATA
78844356 GCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
261 GCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
78844421 CAGAGAACAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
326 CAGAGAACAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
78844486 TTCAGATGTTTATACTGAATC
391 TTCAGATGTTTATACTGAATC
* * ** *
78844507 AGATCCAAAATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTGATTTAG
1 AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGA-CATAGCTGATTTGG
* * * *
78844571 CTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATTTCTGTATTGTCAGAGAACAA
65 CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAA
* *
78844636 ATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTCAGATGT
130 ATTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGT
*
78844701 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACAT
195 TTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACAT
* ** * * *
78844766 AGCTGATTTGGTTTTTGCGTGCTTATGCTGAAGCAAACCTAAGATGA-TTGGCATCTCTGTATTG
260 AGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTG
*
78844830 TCAGAGGACAAATCGAAG
325 TCAGAGAAC-AATCGAAG
78844848 AAGCAGATTT
Statistics
Matches: 730, Mismatches: 20, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
410 26 0.04
411 704 0.96
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (411 bp):
AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAA
TTGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTT
TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGGACAAATCGAAGACATA
GCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
CAGAGAACAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCC
TTCAGATGTTTATACTGAATC
Found at i:78846504 original size:17 final size:17
Alignment explanation
Indices: 78846484--78846517 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
78846474 TATATTACTA
78846484 TTATTATCCAT-TATTTT
1 TTATTAT-CATATATTTT
78846501 TTATTATCATATATTTT
1 TTATTATCATATATTTT
78846518 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:78846543 original size:12 final size:12
Alignment explanation
Indices: 78846528--78846569 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
78846518 ATCTATAAAT
78846528 TATATTATATTA
1 TATATTATATTA
*
78846540 TATATTATTTTA
1 TATATTATATTA
78846552 TATATT-TATTTA
1 TATATTATA-TTA
78846564 TATATT
1 TATATT
78846570 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTATATTA
Found at i:78846557 original size:24 final size:22
Alignment explanation
Indices: 78846528--78846591 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
78846518 ATCTATAAAT
78846528 TATATTATATTATATATTATTTTA
1 TATATT-TATTATATATT-TTTTA
78846552 TATATTTATTTATATATTTTTTA
1 TATATTTA-TTATATATTTTTTA
*
78846575 -AAATTGTATTAT-TATTT
1 TATATT-TATTATATATTT
78846592 ACTAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 5 0.14
22 8 0.22
23 9 0.24
24 15 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTTATTATATATTTTTTA
Found at i:78846570 original size:12 final size:11
Alignment explanation
Indices: 78846528--78846574 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
78846518 ATCTATAAAT
78846528 TATATTATATTA
1 TATATTAT-TTA
78846540 TATATTATTTTA
1 TATATTA-TTTA
78846552 TATATTTATTTA
1 TATA-TTATTTA
*
78846564 TATATTTTTTA
1 TATATTATTTA
78846575 AAATTGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 6 0.19
12 22 0.69
13 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTATTTA
Found at i:78846586 original size:22 final size:22
Alignment explanation
Indices: 78846535--78846591 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
78846525 AATTATATTA
*
78846535 TATTATATATTATTTTATATATT
1 TATTATATATT-TTTTATAAATT
78846558 TATTTATATATTTTTTA-AAATT
1 TA-TTATATATTTTTTATAAATT
78846580 GTATTAT-TATTT
1 -TATTATATATTT
78846592 ACTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 5 0.16
22 8 0.26
23 9 0.29
24 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATATATTTTTTATAAATT
Found at i:78847012 original size:14 final size:14
Alignment explanation
Indices: 78846995--78847024 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78846985 ATCTATCTTC
*
78846995 TTATATATTTTTTA
1 TTATATATTATTTA
78847009 TTATATATTATTTA
1 TTATATATTATTTA
78847023 TT
1 TT
78847025 TTGTTATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATATTATTTA
Found at i:78847094 original size:21 final size:22
Alignment explanation
Indices: 78847068--78847111 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
78847058 GCAAAATACT
78847068 TATTATA-TT-CTTATCATTTTA
1 TATTATATTTCCTTAT-ATTTTA
78847089 TATTATATTTCCTTATATTTTA
1 TATTATATTTCCTTATATTTTA
78847111 T
1 T
78847112 TCATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATATTTCCTTATATTTTA
Found at i:78851224 original size:28 final size:29
Alignment explanation
Indices: 78851192--78851257 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
78851182 TTTTTAATGG
78851192 AAGGATAGCCTTTGTAGCGAACCTCT-AA
1 AAGGATAGCCTTTGTAGCGAACCTCTGAA
* * *
78851220 AAGGATAGCATTTGTGGGGAACCTCTGAA
1 AAGGATAGCCTTTGTAGCGAACCTCTGAA
78851249 AAGGA-AGCC
1 AAGGATAGCC
78851258 CTCTTGGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 26 0.79
29 7 0.21
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.21
Consensus pattern (29 bp):
AAGGATAGCCTTTGTAGCGAACCTCTGAA
Found at i:78851298 original size:23 final size:23
Alignment explanation
Indices: 78851272--78851327 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
78851262 TGGTAAAATT
* *
78851272 TGAAAGAAAGAAATGGCGAACTC
1 TGAAAGAAAGAAATGGCAAACAC
* *
78851295 TGAAAGAAGGAAATGGTAAACAC
1 TGAAAGAAAGAAATGGCAAACAC
78851318 TGAAA-AAAGA
1 TGAAAGAAAGA
78851328 GCACTCGTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.54, C:0.09, G:0.25, T:0.12
Consensus pattern (23 bp):
TGAAAGAAAGAAATGGCAAACAC
Found at i:78856716 original size:21 final size:22
Alignment explanation
Indices: 78856692--78856738 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
78856682 ATTTTTAAAT
78856692 TTTTACAATG-AATTACCTA-GG
1 TTTT-CAATGTAATTACCTAGGG
* *
78856713 TTTTTATTGTAATTACCTAGGG
1 TTTTCAATGTAATTACCTAGGG
78856735 TTTT
1 TTTT
78856739 TATAGGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (22 bp):
TTTTCAATGTAATTACCTAGGG
Found at i:78856736 original size:22 final size:23
Alignment explanation
Indices: 78856701--78856771 Score: 94
Period size: 22 Copynumber: 3.2 Consensus size: 23
78856691 TTTTTACAAT
*
78856701 GAATTACCTA-GGTTTTTAT-TG
1 GAATTACCTAGGGTTTTTATAGG
*
78856722 TAATTACCTAGGGTTTTTATAGG
1 GAATTACCTAGGGTTTTTATAGG
*
78856745 GAATTA-CTTGGGTTTTTATAGG
1 GAATTACCTAGGGTTTTTATAGG
78856767 GAATT
1 GAATT
78856772 GAGTTACTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 9 0.20
22 29 0.66
23 6 0.14
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (23 bp):
GAATTACCTAGGGTTTTTATAGG
Found at i:78857633 original size:23 final size:23
Alignment explanation
Indices: 78857606--78857663 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
78857596 ATAAGATAAA
*
78857606 TAAATATTTATA-TTTATATTAT
1 TAAATATTTATATTTTATACTAT
78857628 TAAA-ATGTTCATATTTTATACTAT
1 TAAATAT-TT-ATATTTTATACTAT
78857652 TAAATATTTATA
1 TAAATATTTATA
78857664 AATTGTACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.06
22 6 0.19
23 6 0.19
24 15 0.48
25 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (23 bp):
TAAATATTTATATTTTATACTAT
Found at i:78864377 original size:29 final size:28
Alignment explanation
Indices: 78864322--78864378 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
78864312 TTTTAAAGAT
*
78864322 AAATAATTTTAGAAGTATATATGAATAA
1 AAATAATTTTAGAAGTATAGATGAATAA
*
78864350 AAATAAATTTTAGAATTAATAGAT-AATAA
1 AAAT-AATTTTAGAAGT-ATAGATGAATAA
78864379 TTTTAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 16 0.64
30 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (28 bp):
AAATAATTTTAGAAGTATAGATGAATAA
Found at i:78871186 original size:39 final size:39
Alignment explanation
Indices: 78871128--78871340 Score: 105
Period size: 40 Copynumber: 5.4 Consensus size: 39
78871118 ACCCAATTAT
78871128 CTTCGGGAT-TTAGCCGGATATAACCACT--CACACAAGGC
1 CTTCGGG-TCTTAGCCGGATATAACCACTAGCACA-AAGGC
*** *
78871166 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATATAACCACTAGCACAAAGGC
* *** * *
78871206 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATATAACCACTAGCACAAAGGC
*** * *
78871246 CTTCAGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTC-GGGTCTTAG-CCGGATA-TAACCACTAGCACAAAGGC
* *** * *
78871286 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATA-TAACCACTAGCACAAAGGC
*
78871326 CTTCGGGACTTAGCC
1 CTTCGGGTCTTAGCC
78871341 CGGAATTAGT
Statistics
Matches: 158, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 18 0.11
40 121 0.77
41 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCGGATATAACCACTAGCACAAAGGC
Found at i:78871218 original size:40 final size:40
Alignment explanation
Indices: 78871164--78871417 Score: 352
Period size: 40 Copynumber: 6.3 Consensus size: 40
78871154 CTCACACAAG
* * * * *
78871164 GCCTTCGGGTCTTAGTCCGG-ATATGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAAT
78871204 GCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAAT
78871244 GCCTTCAGGG-CTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTC-GGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
*
78871284 GCCTTCGGGGCTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
78871324 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
* * * * *
78871364 GCATTCGGGACTTAGCCCAGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
*
78871404 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
78871418 ACCCCGTTAG
Statistics
Matches: 198, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 190 0.96
41 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
Found at i:78871264 original size:80 final size:80
Alignment explanation
Indices: 78871128--78871417 Score: 340
Period size: 80 Copynumber: 3.6 Consensus size: 80
78871118 ACCCAATTAT
* *** * * * * *
78871128 CTTCGGGATTTAG-CCGGATATAACCACTCACAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
* *
78871190 TCACTAGCACAAATGC
65 TAACTCGCACAAATGC
78871206 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGG-CTTAGCCCGGAATTAG
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGGACTTAGCCCGGAATTAG
78871270 TAACTCGCACAAATGC
65 TAACTCGCACAAATGC
*
78871286 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
78871350 TAACTCGCACAAATGC
65 TAACTCGCACAAATGC
* * * * * *
78871366 ATTCGGGACTTAGCCCAGA-ATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTA
78871418 ACCCCGTTAG
Statistics
Matches: 188, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
78 12 0.06
79 20 0.11
80 151 0.80
81 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTCGCACAAATGC
Found at i:78874770 original size:43 final size:43
Alignment explanation
Indices: 78874714--78874843 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
78874704 CTCACATGTT
* * *
78874714 ATCACATATCGATGCCACTATCCCAGACAAGGTCTTACACG-AA-
1 ATCA-ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTAAC
* *
78874757 ATCAATTAACGATGCCAATGTCCCAAACATGGTCTTACATGTAAC
1 ATCAA-T-ACGATGCCAATGTCCCAGACATGGTCTTACACGTAAC
* * *
78874802 CTCAATACAATGCCAATGTCCCAGACATGGTCTTACATGTAA
1 ATCAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAA
78874844 TCACAATTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.01
43 66 0.88
44 4 0.05
45 4 0.05
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
ATCAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAC
Found at i:78877205 original size:60 final size:60
Alignment explanation
Indices: 78877087--78877216 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 60
78877077 AACTGGGCCT
* * *
78877087 TAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAATATCAGAGTATACTGGGTC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAATATCAGAGTATACTGGGTA
* * * *
78877147 TAGCCCATATCAATATCAATCTGGGTCGTAGCCCTATTACAAGT-TGAGA-TATATTGGGTA
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAA-TATCAGAGTATACTGGGTA
*
78877207 TTGCCCATAT
1 TAGCCCATAT
78877217 TAACACAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 49 0.82
61 10 0.17
62 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAATATCAGAGTATACTGGGTA
Found at i:78885943 original size:30 final size:30
Alignment explanation
Indices: 78885907--78885978 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
78885897 GTCCTTTTTT
78885907 AAAATTAAATTTGA-CACTCAACCTTTTAAA
1 AAAATTAAATTTGATCA-TCAACCTTTTAAA
*
78885937 AAAATTAATTTTGATCATCAACCTTTTAAA
1 AAAATTAAATTTGATCATCAACCTTTTAAA
*
78885967 AAGAATTGAATT
1 AA-AATTAAATT
78885979 GATTTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAATTAAATTTGATCATCAACCTTTTAAA
Found at i:78886319 original size:3 final size:3
Alignment explanation
Indices: 78886307--78886344 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
78886297 AATAGTAATA
*
78886307 ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
78886345 AGTGGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:78887591 original size:23 final size:22
Alignment explanation
Indices: 78887538--78887581 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
78887528 TTTTGCCTCG
78887538 ATTTTTTAGGATTAGGGTTTTT
1 ATTTTTTAGGATTAGGGTTTTT
78887560 ATTATTTTAGGATTAGGGTTTT
1 ATT-TTTTAGGATTAGGGTTTT
78887582 AGTGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (22 bp):
ATTTTTTAGGATTAGGGTTTTT
Found at i:78891233 original size:20 final size:19
Alignment explanation
Indices: 78891152--78891235 Score: 60
Period size: 21 Copynumber: 4.1 Consensus size: 19
78891142 TATATAAATT
* *
78891152 ATTTTTAAAAAATCATTGAA
1 ATTTTAAAAAAATTATT-AA
* *
78891172 ATTATTTAAAAAACTATTAA
1 ATT-TTAAAAAAATTATTAA
* *
78891192 CATTATAAAAAAATATTTTTAA
1 -ATT-TTAAAAAA-ATTATTAA
78891214 ATTTTAAAAAAATTAATTAA
1 ATTTTAAAAAAATT-ATTAA
78891234 AT
1 AT
78891236 GCTTACATGC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.06
20 18 0.35
21 25 0.48
22 6 0.12
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (19 bp):
ATTTTAAAAAAATTATTAA
Done.