Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 285 of 410
Found at i:87726322 original size:46 final size:45
Alignment explanation
Indices: 87726255--87726509 Score: 292
Period size: 46 Copynumber: 5.7 Consensus size: 45
87726245 TGGCAACCTG
* *
87726255 TGTGTAAGACCATGGTTGAAAGATACCATGACAACTTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGACATGAAA
87726301 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC---C-TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACTGACATGAAA
* * * *
87726339 TGTGTAAAACCATGGTTGAAAGATACCACGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CTGACATGAAA
87726385 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGACATGAAA
* **
87726431 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGACATG-AAA
* * * *
87726477 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
87726510 TCACGTCAAA
Statistics
Matches: 181, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
38 32 0.18
39 1 0.01
41 2 0.01
43 2 0.01
45 2 0.01
46 142 0.78
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (45 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACTGACATGAAA
Found at i:87726331 original size:84 final size:84
Alignment explanation
Indices: 87726123--87726509 Score: 562
Period size: 84 Copynumber: 4.5 Consensus size: 84
87726113 AGCATGTTCT
87726123 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
87726188 TG-AAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
87726206 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
87726271 TGAAAGATACCATGACAAC
66 TGAAAGATACCATGGCAAC
* *
87726290 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAAACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
87726355 TGAAAGATACCACGGCAAC
66 TGAAAGATACCATGGCAAC
* * *
87726374 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---TG--TAAG
87726439 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
87726466 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
87726510 TCACGTCAAA
Statistics
Matches: 276, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
83 67 0.24
84 141 0.51
87 2 0.01
90 1 0.00
91 1 0.00
92 64 0.23
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:87726404 original size:130 final size:130
Alignment explanation
Indices: 87726123--87726469 Score: 406
Period size: 130 Copynumber: 2.7 Consensus size: 130
87726113 AGCATGTTCT
* *
87726123 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC---CTG---TGTGTAAGAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTGAATGAAATGTGTAAGAC
* *
87726182 CATGGTTG-AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCAT
66 CATGGTTGAAAGATACCATGGCAACC----ATG--ATGTGTAAAACCATGGTTGAAAGATACCAC
87726246 GGCAAC
125 GGCAAC
*
87726252 C-----T--G-TGTGTAAGACCATGGTTGAAAGATACCATGACAACTTGATATGAAATGTGTAAG
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGA-ATGAAATGTGTAAG
87726309 ACCATGGTTGAAAGATACCATGGCAACC-TG-TGTGTAAAACCATGGTTGAAAGATACCACGGCA
64 ACCATGGTTGAAAGATACCATGGCAACCATGATGTGTAAAACCATGGTTGAAAGATACCACGGCA
87726372 AC
129 AC
* **
87726374 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGA-ATGAAATGTGTAAG
87726439 ACCATGGTTGAAAGATACCATGGCAA-CATGA
64 ACCATGGTTGAAAGATACCATGGCAACCATGA
87726470 CAGAAAATGA
Statistics
Matches: 188, Mismatches: 11, Indels: 36
0.80 0.05 0.15
Matches are distributed among these distances:
121 34 0.18
122 34 0.18
124 1 0.01
125 2 0.01
126 2 0.01
127 1 0.01
129 21 0.11
130 93 0.49
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (130 bp):
CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTGAATGAAATGTGTAAGAC
CATGGTTGAAAGATACCATGGCAACCATGATGTGTAAAACCATGGTTGAAAGATACCACGGCAAC
Found at i:87726815 original size:23 final size:25
Alignment explanation
Indices: 87726770--87726816 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
87726760 AATAAATATA
*
87726770 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
87726795 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
87726817 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:87731496 original size:23 final size:23
Alignment explanation
Indices: 87731466--87731512 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
87731456 CAAACAAACA
87731466 CTGGAAAAGGCTGAAAAGCTTTT
1 CTGGAAAAGGCTGAAAAGCTTTT
*
87731489 CTGGAAAAGGCTGAAAAGTTTTT
1 CTGGAAAAGGCTGAAAAGCTTTT
87731512 C
1 C
87731513 CGAAAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (23 bp):
CTGGAAAAGGCTGAAAAGCTTTT
Found at i:87731517 original size:22 final size:23
Alignment explanation
Indices: 87731469--87731518 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
87731459 ACAAACACTG
*
87731469 GAAAAGGCTGAAAAGCTTTTCTG
1 GAAAAGGCTGAAAAGCTTTTCTC
*
87731492 GAAAAGGCTGAAAAGTTTTTC-C
1 GAAAAGGCTGAAAAGCTTTTCTC
87731514 GAAAA
1 GAAAA
87731519 AAGTTTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (23 bp):
GAAAAGGCTGAAAAGCTTTTCTC
Found at i:87732310 original size:23 final size:23
Alignment explanation
Indices: 87732280--87732325 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
87732270 GTGTTTCGGC
87732280 AATGAAAATTAGAAAGATGAAGA
1 AATGAAAATTAGAAAGATGAAGA
87732303 AATGAAAATTAGAAAGATGAAGA
1 AATGAAAATTAGAAAGATGAAGA
87732326 GAGAATGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (23 bp):
AATGAAAATTAGAAAGATGAAGA
Found at i:87736783 original size:150 final size:150
Alignment explanation
Indices: 87736613--87736917 Score: 513
Period size: 150 Copynumber: 2.0 Consensus size: 150
87736603 CAATGAGGAG
* *
87736613 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTCGGTAAGGGAGAG
1 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTAGGAAAGGGAGAG
*
87736678 GAAGATT-CTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAG
66 GAAGATTGC-GGATAAAAAATCTGTAAAGCAGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAG
*
87736742 GATTTTGAGGAGGAAGAAGAA
130 GATTATGAGGAGGAAGAAGAA
* *
87736763 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTATGAAAGGGAGAG
1 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTAGGAAAGGGAGAG
* *
87736828 GAAGATTGCGGATAAAAAATCTGTCAAGCAGGAAAGCTTGTCTGTTGAAGAAGATGAAGACAAGG
66 GAAGATTGCGGATAAAAAATCTGTAAAGCAGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
*
87736893 ATTATGAGGAGGAGGAAGAA
131 ATTATGAGGAGGAAGAAGAA
87736913 GAAGA
1 GAAGA
87736918 AAAGGAAGAT
Statistics
Matches: 145, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
150 144 0.99
151 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.35, T:0.19
Consensus pattern (150 bp):
GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTAGGAAAGGGAGAG
GAAGATTGCGGATAAAAAATCTGTAAAGCAGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
ATTATGAGGAGGAAGAAGAA
Found at i:87736938 original size:30 final size:30
Alignment explanation
Indices: 87736877--87736938 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
87736867 GTCTGTTGAA
* * **
87736877 GAAGATGAAGACAAGGATTATGAGGAGGAG
1 GAAGAAGAAGAAAAGGAAGATGAGGAGGAG
* *
87736907 GAAGAAGAAGAAAAGGAAGATGATGATGAG
1 GAAGAAGAAGAAAAGGAAGATGAGGAGGAG
87736937 GA
1 GA
87736939 GTTCACTCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.39, T:0.11
Consensus pattern (30 bp):
GAAGAAGAAGAAAAGGAAGATGAGGAGGAG
Found at i:87736971 original size:36 final size:36
Alignment explanation
Indices: 87736931--87737047 Score: 171
Period size: 36 Copynumber: 3.2 Consensus size: 36
87736921 GGAAGATGAT
* * *
87736931 GATGAGGAGTTCACTCCAGATGTAGAAGATTGTTTG
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
*
87736967 GATGAGGAATTTACTCCAGATGAAGAGGATTGTTTG
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
* * *
87737003 GATGAAGAATTCACTCCGGATGAAGAGGATTGTTTA
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
87737039 GATGAGGAA
1 GATGAGGAA
87737048 GAGGAATTGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (36 bp):
GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
Found at i:87744734 original size:18 final size:17
Alignment explanation
Indices: 87744707--87744742 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
87744697 TCAGAAATGC
*
87744707 TTTTGGGATAAAAAGTAT
1 TTTTGAGATAAAAA-TAT
87744725 TTTTGAGATAAAAATAT
1 TTTTGAGATAAAAATAT
87744742 T
1 T
87744743 GTTAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TTTTGAGATAAAAATAT
Found at i:87746974 original size:43 final size:43
Alignment explanation
Indices: 87746895--87747043 Score: 165
Period size: 43 Copynumber: 3.4 Consensus size: 43
87746885 CAATGACATA
* * * ** * *
87746895 TCCCAGATATGGTCCTACATGTTATCACATATCGATGCCATTG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
* *
87746938 TCCCAGACAGGGTCTTACACGAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
* * *
87746981 TCCCAGACATGGTATTTACACGTAATCACA-ATACAATGCCAATG
1 TCCCAGACATGGT-CTTACACGAAATCACATA-ACGATGCCAATG
87747025 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
87747044 TATAATCACA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 52 0.58
44 37 0.42
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
Found at i:87747020 original size:44 final size:43
Alignment explanation
Indices: 87746929--87747043 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 43
87746919 TCACATATCG
* * * *
87746929 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACA
* *
87746972 ATGCCAATGTCCCAGACATGGTATTTACACGTAATCACAAT-ACA
1 ATGCCAATGTCCCAGACATGGT-CTTACACGAAATCA-AATAACA
87747016 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
87747044 TATAATCACA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 25 0.40
44 36 0.57
45 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACA
Found at i:87749972 original size:2 final size:2
Alignment explanation
Indices: 87749965--87749989 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87749955 TACTCTTATT
87749965 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
87749990 TCCTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87750352 original size:18 final size:18
Alignment explanation
Indices: 87750308--87750346 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
87750298 TTAATAATAC
* *
87750308 AAAAATTATAAAAATTGT
1 AAAAAATATAAAAAATGT
87750326 AAAAAATATAAAAAATGT
1 AAAAAATATAAAAAATGT
87750344 AAA
1 AAA
87750347 TTATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAATATAAAAAATGT
Found at i:87750586 original size:31 final size:32
Alignment explanation
Indices: 87750541--87750606 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 32
87750531 TAAAAAAATA
*
87750541 ATTTTTTTTAATTTTT-AT-ATATTATATATG
1 ATTTTTTTTAATTTTTAATAATATAATATATG
87750571 ATTTTTTTTACATTTTTAATCAATATAATATATG
1 ATTTTTTTTA-ATTTTTAAT-AATATAATATATG
87750605 AT
1 AT
87750607 ATCAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.32
31 6 0.19
32 2 0.06
34 13 0.42
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (32 bp):
ATTTTTTTTAATTTTTAATAATATAATATATG
Found at i:87751589 original size:10 final size:10
Alignment explanation
Indices: 87751557--87751595 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
87751547 AAACCTATAT
87751557 TAAATATTTA
1 TAAATATTTA
*
87751567 TAAAACATATTA
1 T-AAATAT-TTA
87751579 TAAATATTTA
1 TAAATATTTA
87751589 TAAATAT
1 TAAATAT
87751596 CTTCTTACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 11 0.44
11 10 0.40
12 4 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAATATTTA
Found at i:87752950 original size:9 final size:9
Alignment explanation
Indices: 87752933--87752969 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
87752923 TATAGTTTGA
87752933 TATTCGAAT
1 TATTCGAAT
*
87752942 TATTTGAAT
1 TATTCGAAT
*
87752951 TATTCGAGT
1 TATTCGAAT
87752960 TATTCGAAT
1 TATTCGAAT
87752969 T
1 T
87752970 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:87753046 original size:18 final size:18
Alignment explanation
Indices: 87753020--87753054 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87753010 ATTCGAGTTG
*
87753020 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
87753038 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
87753055 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:87757268 original size:22 final size:22
Alignment explanation
Indices: 87757240--87757285 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
87757230 CTTGAGATTG
87757240 CTTATATACATGACATTCTTAA
1 CTTATATACATGACATTCTTAA
87757262 CTTATATACATGACATTCTTAA
1 CTTATATACATGACATTCTTAA
87757284 CT
1 CT
87757286 ACTCTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (22 bp):
CTTATATACATGACATTCTTAA
Found at i:87758485 original size:49 final size:49
Alignment explanation
Indices: 87758404--87758522 Score: 166
Period size: 49 Copynumber: 2.4 Consensus size: 49
87758394 TGCCTTAGGT
* * ***
87758404 TGAAAACCATCATTGTCGGGCTATTTGGGATGGTAGGATAAGTAAATTG
1 TGAAAACCATCATTTTCGGGCCAGCCGGGATGGTAGGATAAGTAAATTG
*
87758453 TGAAAACCATCATTTTCGGGCCAGCCGTGATGGTAGGATAAGTAAATTG
1 TGAAAACCATCATTTTCGGGCCAGCCGGGATGGTAGGATAAGTAAATTG
* *
87758502 TGAAAACCATCGTTTTGGGGC
1 TGAAAACCATCATTTTCGGGC
87758523 TATCAATGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (49 bp):
TGAAAACCATCATTTTCGGGCCAGCCGGGATGGTAGGATAAGTAAATTG
Found at i:87758533 original size:49 final size:49
Alignment explanation
Indices: 87758432--87758536 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
87758422 GGCTATTTGG
**
87758432 GATGGTAGGATAAGTAAATTGTGAAAACCATCATTTTCGGGCCAGCCGT
1 GATGGTAGGATAAGTAAATTGTGAAAACCATCATTTTCGGGCCAGCAAT
* * * *
87758481 GATGGTAGGATAAGTAAATTGTGAAAACCATCGTTTTGGGGCTATCAAT
1 GATGGTAGGATAAGTAAATTGTGAAAACCATCATTTTCGGGCCAGCAAT
87758530 GATGGTA
1 GATGGTA
87758537 AAATGTAAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (49 bp):
GATGGTAGGATAAGTAAATTGTGAAAACCATCATTTTCGGGCCAGCAAT
Found at i:87760093 original size:20 final size:20
Alignment explanation
Indices: 87760055--87760102 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
87760045 TAAATTCTAA
* **
87760055 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
87760075 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
87760095 AAA-ATAAA
1 AAAGATAAA
87760103 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:87760745 original size:1 final size:1
Alignment explanation
Indices: 87760731--87760773 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
87760721 TTAGTACTTA
* * * *
87760731 TTTTTTCTTCTTTTTTTTTCTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
87760774 AAATTTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:87760754 original size:9 final size:9
Alignment explanation
Indices: 87760731--87760773 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
87760721 TTAGTACTTA
87760731 TTTTTTCTTC
1 TTTTTT-TTC
87760741 TTTTTTTTTC
1 -TTTTTTTTC
87760751 TTTTTTTTC
1 TTTTTTTTC
87760760 TTTTTTTT-
1 TTTTTTTTC
87760768 TTTTTT
1 TTTTTT
87760774 AAATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 6 0.19
9 17 0.53
10 3 0.09
11 6 0.19
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:87760760 original size:19 final size:19
Alignment explanation
Indices: 87760731--87760773 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
87760721 TTAGTACTTA
87760731 TTTTTTCTTCTTTTTTTTT
1 TTTTTTCTTCTTTTTTTTT
87760750 CTTTTTT-TTCTTTTTTTTT
1 -TTTTTTCTTCTTTTTTTTT
87760769 TTTTT
1 TTTTT
87760774 AAATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (19 bp):
TTTTTTCTTCTTTTTTTTT
Found at i:87761986 original size:42 final size:42
Alignment explanation
Indices: 87761912--87762016 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
87761902 GGGATTCTAA
* *
87761912 GGCTAGAATAGAACTGTTTGGCTGCAGAGATATAGCATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
* * *
87761954 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
*
87761996 GGTTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
87762017 TACTATGGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.30
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
Found at i:87762131 original size:5 final size:5
Alignment explanation
Indices: 87762121--87762186 Score: 80
Period size: 5 Copynumber: 12.6 Consensus size: 5
87762111 ATTAATATTT
*
87762121 AAATA AAATA AAATAA AAATA AAATA AAATA AAA-A ATAATA AAATA AAAAA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA A-AATA AAATA AAATA
87762172 TAAATAA AAATA AAA
1 -AAAT-A AAATA AAA
87762187 AGAAAGATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
4 2 0.04
5 37 0.69
6 14 0.26
7 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:87762140 original size:16 final size:15
Alignment explanation
Indices: 87762125--87762187 Score: 90
Period size: 16 Copynumber: 4.0 Consensus size: 15
87762115 ATATTTAAAT
87762125 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
87762140 TAAAATAAAATAAAAA
1 -AAAATAAAATAAAAA
*
87762156 ATAATAAAATAAAAA
1 AAAATAAAATAAAAA
87762171 ATAAATAAAAATAAAAA
1 A-AAAT-AAAATAAAAA
87762188 GAAAGATTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
15 15 0.35
16 18 0.42
17 10 0.23
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAA
Found at i:87765292 original size:21 final size:21
Alignment explanation
Indices: 87765246--87765286 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
87765236 TTATGGGAAA
87765246 GTTCCAGCCTCCGGTTGTCTC
1 GTTCCAGCCTCCGGTTGTCTC
87765267 GTTCCAGCCTCCGGTTGTCT
1 GTTCCAGCCTCCGGTTGTCT
87765287 GATTCCGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.37, G:0.24, T:0.34
Consensus pattern (21 bp):
GTTCCAGCCTCCGGTTGTCTC
Found at i:87765949 original size:20 final size:20
Alignment explanation
Indices: 87765911--87765958 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
87765901 TAAATTCTAA
* **
87765911 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
87765931 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
87765951 AAA-ATAAA
1 AAAGATAAA
87765959 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:87766719 original size:17 final size:17
Alignment explanation
Indices: 87766697--87766729 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87766687 GAACCCCCTG
87766697 ACGTCATGACATCAACA
1 ACGTCATGACATCAACA
87766714 ACGTCATGACATCAAC
1 ACGTCATGACATCAAC
87766730 TTGAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.18
Consensus pattern (17 bp):
ACGTCATGACATCAACA
Found at i:87775624 original size:24 final size:24
Alignment explanation
Indices: 87775596--87775645 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
87775586 TGGAATGGTA
*
87775596 TGTTTGATAGGATTATTAAATAGT
1 TGTTTGATAAGATTATTAAATAGT
*
87775620 TGTTTGATAAGATTATTAAGTAGT
1 TGTTTGATAAGATTATTAAATAGT
87775644 TG
1 TG
87775646 AACTTGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (24 bp):
TGTTTGATAAGATTATTAAATAGT
Found at i:87793601 original size:40 final size:40
Alignment explanation
Indices: 87793521--87793728 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
87793511 TCTTCAGAAT
* ** *
87793521 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
87793560 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
87793600 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
87793640 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
87793680 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
87793720 TTAGCCCGG
1 TTAGCCCGG
87793729 GTATCATTCA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 148 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:87797041 original size:323 final size:323
Alignment explanation
Indices: 87796446--87797050 Score: 1032
Period size: 323 Copynumber: 1.9 Consensus size: 323
87796436 CATTGAAAGC
*
87796446 ACAATCCAAGCTTTATGATGCAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
1 ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
*
87796511 TTTACTTAAGTACAAACAATTAACCAAGTTTAAAAGCCAGAAATATAACTCTTTTCAAGAGTTAT
66 TTTACTTAAGTACAAACAATTAACCAAGTTTAAAAGCCAGAAATATAAATCTTTTCAAGAGTTAT
* * * *
87796576 CACGGATCACTATGGCGAAATCATTCAATGGGTATATTGACAAAAACTCCTTTAGATAATGCCTC
131 CACGAAACACTATGGAGAAATCATTAAATGGGTATATTGACAAAAACTCCTTTAGATAATGCCTC
*
87796641 ACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCGTTGTAAAATTA
196 ACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAAAATTA
87796706 ACAATACAGACCTTCCAGAAAATACTAACATAATTTGAGATTGTTGAATGAAAGTATCATTCA
261 ACAATACAGACCTTCCAGAAAATACTAACATAATTTGAGATTGTTGAATGAAAGTATCATTCA
* *
87796769 ACAATCTAAGCTTTATGATACAATGTTATAAAAATACTAATATAATTTCCTAAAATGCAACTAAA
1 ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
*
87796834 TTTACTTAAGTACAAACAATTAACCAAGTTTAGAAGCCTA-AAATATAAATCTTTTCAAGAGTTA
66 TTTACTTAAGTACAAACAATTAACCAAGTTTAAAAGCC-AGAAATATAAATCTTTTCAAGAGTTA
* * * *
87796898 TCACGAAACACTATGGAGAAATCATTAAATGGGTATATTGCCATAAGCTCTTTTAGATAATGCCT
130 TCACGAAACACTATGGAGAAATCATTAAATGGGTATATTGACAAAAACTCCTTTAGATAATGCCT
* * *
87796963 CATAACATGCCTAGGTCTTGCCATAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAGAATT
195 CACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAAAATT
*
87797028 CACAATACAGACCTTCCAGAAAA
260 AACAATACAGACCTTCCAGAAAA
87797051 CTTGCCACAA
Statistics
Matches: 263, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
323 262 1.00
324 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (323 bp):
ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
TTTACTTAAGTACAAACAATTAACCAAGTTTAAAAGCCAGAAATATAAATCTTTTCAAGAGTTAT
CACGAAACACTATGGAGAAATCATTAAATGGGTATATTGACAAAAACTCCTTTAGATAATGCCTC
ACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAAAATTA
ACAATACAGACCTTCCAGAAAATACTAACATAATTTGAGATTGTTGAATGAAAGTATCATTCA
Found at i:87800258 original size:6 final size:6
Alignment explanation
Indices: 87800247--87800287 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
87800237 TTTCAAGTCA
* *
87800247 TTTTTC TTTTTC TTTTCC ATTTTC TTTTTC TTTTTC ATTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTT
87800288 GGAGAAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:87800269 original size:18 final size:18
Alignment explanation
Indices: 87800248--87800287 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
87800238 TTCAAGTCAT
87800248 TTTTCTTTTTCTTTTCCA
1 TTTTCTTTTTCTTTTCCA
*
87800266 TTTTCTTTTTCTTTTTCA
1 TTTTCTTTTTCTTTTCCA
87800284 TTTT
1 TTTT
87800288 GGAGAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCCA
Found at i:87806625 original size:37 final size:37
Alignment explanation
Indices: 87806584--87806693 Score: 96
Period size: 37 Copynumber: 3.0 Consensus size: 37
87806574 GATAATCACA
* * *
87806584 TATTTACATATCACTTTTTAATATATTAAGTAAATAC
1 TATTTACATATCACGTTTCAATATATCAAGTAAATAC
* * * * *
87806621 TATTTCCATGTCACGTTTCAATATGTCATGTAAATAT
1 TATTTACATATCACGTTTCAATATATCAAGTAAATAC
* * * *
87806658 TATTTCCA-AGACATGTTTCAATATATCAATTAAATA
1 TATTTACATA-TCACGTTTCAATATATCAAGTAAATA
87806694 TCATTTCCAA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (37 bp):
TATTTACATATCACGTTTCAATATATCAAGTAAATAC
Found at i:87806694 original size:37 final size:37
Alignment explanation
Indices: 87806603--87806704 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
87806593 ATCACTTTTT
* * * * *
87806603 AATATATTAAGTAAATACTATTTCCATGTCACGTTTC
1 AATATATCAATTAAATATTATTTCCAAGACACGTTTC
* *
87806640 AATATGTC-ATGTAAATATTATTTCCAAGACATGTTTC
1 AATATATCAAT-TAAATATTATTTCCAAGACACGTTTC
*
87806677 AATATATCAATTAAATATCATTTCCAAG
1 AATATATCAATTAAATATTATTTCCAAG
87806705 TATTTCAAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.02
37 51 0.94
38 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (37 bp):
AATATATCAATTAAATATTATTTCCAAGACACGTTTC
Found at i:87807095 original size:40 final size:38
Alignment explanation
Indices: 87807050--87807191 Score: 108
Period size: 40 Copynumber: 3.6 Consensus size: 38
87807040 AAAACATACC
*
87807050 AGTTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAA
1 AGTTTGACACCCAGTGCCTCATCGGAT-ATTCAAAGTAA
* * * *
87807089 TAGTTTGACACCCAGTGTCTCATCGGCTATGCCGAAGT-A
1 -AGTTTGACACCCAGTGCCTCATCGGATAT-TCAAAGTAA
** * * *
87807128 A-TTTGGTACCCAGTACCTCATCGAATTTATTTAAAGTAA
1 AGTTTGACACCCAGTGCCTCATCGGA--TATTCAAAGTAA
* *
87807167 CAATTTGACACCCAGTGTCTCATCG
1 -AGTTTGACACCCAGTGCCTCATCG
87807192 ACTCTAAGTT
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
37 18 0.23
38 5 0.06
39 7 0.09
40 30 0.38
41 18 0.23
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (38 bp):
AGTTTGACACCCAGTGCCTCATCGGATATTCAAAGTAA
Found at i:87807632 original size:33 final size:35
Alignment explanation
Indices: 87807568--87807641 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 35
87807558 GTTTTCTTTG
* * *
87807568 TGCCATAACCCAGTTATGGTCTTTTCATTAAA-A-
1 TGCCATAACCCAGCTATGGTCGTTACATTAAACAT
*
87807601 TGCCATAGCCCAGCTATGGT-GTTACATTTAAACAT
1 TGCCATAACCCAGCTATGGTCGTTACA-TTAAACAT
87807636 TGCCAT
1 TGCCAT
87807642 GGTCCAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 4 0.12
33 23 0.68
34 1 0.03
35 6 0.18
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (35 bp):
TGCCATAACCCAGCTATGGTCGTTACATTAAACAT
Found at i:87808476 original size:18 final size:18
Alignment explanation
Indices: 87808448--87808482 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
87808438 ACGTGGCTTC
87808448 CTTTCTTCTTTCTCTTTTT
1 CTTTCTTCTTTCT-TTTTT
87808467 CTTT-TTCTTTCTTTTT
1 CTTTCTTCTTTCTTTTT
87808483 CGTCTGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
CTTTCTTCTTTCTTTTTT
Found at i:87808536 original size:5 final size:5
Alignment explanation
Indices: 87808522--87808557 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
87808512 CATTAGTTTT
*
87808522 TATAA TATAA GATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
87808558 TAAACATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:87808586 original size:12 final size:12
Alignment explanation
Indices: 87808533--87808594 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
87808523 ATAATATAAG
87808533 ATAATATA-AT-
1 ATAATATATATA
87808543 ATAATATAATATA
1 ATAATAT-ATATA
*
87808556 ATTAA-ACAT-TA
1 A-TAATATATATA
*
87808567 AGAATATATATA
1 ATAATATATATA
87808579 ATAATATATATA
1 ATAATATATATA
87808591 ATAA
1 ATAA
87808595 ACTTATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 9 0.21
11 7 0.17
12 21 0.50
13 2 0.05
14 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATATATATA
Found at i:87810156 original size:19 final size:19
Alignment explanation
Indices: 87810132--87810173 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
87810122 AGACAACAAA
87810132 ACTTATGTTTTGAGACATG
1 ACTTATGTTTTGAGACATG
87810151 ACTTATGTTTTGAGACATG
1 ACTTATGTTTTGAGACATG
87810170 ACTT
1 ACTT
87810174 GTTGTCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (19 bp):
ACTTATGTTTTGAGACATG
Found at i:87815161 original size:93 final size:93
Alignment explanation
Indices: 87815054--87815224 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
87815044 GCCCCTAAGT
* *
87815054 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87815119 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
87815147 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87815212 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87815225 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:87815221 original size:46 final size:46
Alignment explanation
Indices: 87815049--87815221 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
87815039 AACCCGCCCC
* * * *
87815049 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
87815095 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
87815143 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
87815188 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87815222 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:87815680 original size:30 final size:30
Alignment explanation
Indices: 87815646--87815705 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
87815636 ATTTAATACG
87815646 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
87815676 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
87815706 GGCTGGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:87822001 original size:93 final size:93
Alignment explanation
Indices: 87821894--87822064 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87821884 GCCCTTAAGT
***
87821894 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87821959 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
87821987 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87822052 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87822065 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:87822061 original size:46 final size:46
Alignment explanation
Indices: 87821889--87822061 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
87821879 AACCCGCCCT
* *** *
87821889 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
87821935 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
87821983 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
87822028 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87822062 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:87822521 original size:30 final size:30
Alignment explanation
Indices: 87822487--87822546 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
87822477 ATTTAATACG
87822487 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
87822517 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
87822547 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:87826809 original size:56 final size:57
Alignment explanation
Indices: 87826706--87826850 Score: 211
Period size: 56 Copynumber: 2.6 Consensus size: 57
87826696 AACTTTCATG
* *
87826706 TCATTTTCATTTAGGAGAAAACCATATTCATTTGCAAATGATTCCATTTCTCAATTT
1 TCATTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCAATTT
* * * *
87826763 TCATTTTCATTTTGTAGAAAA-CATAATCATTTCCAAATGTTTCCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCAATTT
* *
87826819 TCATTATCATTTCGGAGAAAACCATAATCATT
1 TCATTTTCATTTAGGAGAAAACCATAATCATT
87826851 AACCATAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 49 0.63
57 29 0.37
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (57 bp):
TCATTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCAATTT
Found at i:87826856 original size:13 final size:13
Alignment explanation
Indices: 87826838--87826863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87826828 TTTCGGAGAA
87826838 AACCATAATCATT
1 AACCATAATCATT
87826851 AACCATAATCATT
1 AACCATAATCATT
87826864 TCCAAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AACCATAATCATT
Found at i:87831833 original size:22 final size:22
Alignment explanation
Indices: 87831787--87831833 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
87831777 AATCCCTACA
*
87831787 TAGAGTGTAGGGCTGGATGGAG
1 TAGAGTGTAGGGATGGATGGAG
*
87831809 TAGAGTGTAGAGGATGGCTGG-G
1 TAGAGTGTAG-GGATGGATGGAG
87831831 TAG
1 TAG
87831834 GATCTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.23
Consensus pattern (22 bp):
TAGAGTGTAGGGATGGATGGAG
Found at i:87833911 original size:16 final size:16
Alignment explanation
Indices: 87833870--87833921 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
87833860 AACATGTTTT
*
87833870 TGAGTGTTGTGATATA
1 TGAGTATTGTGATATA
*
87833886 TACGAATATTGTGATATA
1 T--GAGTATTGTGATATA
87833904 TGAGTATTGTGATATA
1 TGAGTATTGTGATATA
87833920 TG
1 TG
87833922 CTTAAATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (16 bp):
TGAGTATTGTGATATA
Found at i:87833948 original size:39 final size:39
Alignment explanation
Indices: 87833895--87834005 Score: 188
Period size: 39 Copynumber: 2.9 Consensus size: 39
87833885 ATACGAATAT
87833895 TGTGA-TATATGAGTATTGTGATATATGCTTAAATGTTA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
87833933 TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
* **
87833972 TGTGATTATATGTGTAAAGTGATATATGCTTAAA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAA
87834006 AGTGAATATG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 5 0.07
39 64 0.93
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (39 bp):
TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
Found at i:87838000 original size:63 final size:64
Alignment explanation
Indices: 87837920--87838102 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 64
87837910 AGACATTATG
*
87837920 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
87837983 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
87838048 AA
63 AA
* * * *
87838050 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
87838103 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 39 0.40
64 5 0.05
65 6 0.06
66 40 0.41
67 5 0.05
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:87855236 original size:26 final size:26
Alignment explanation
Indices: 87855200--87855335 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
87855190 CATGAAATTC
87855200 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
87855226 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
87855252 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
87855278 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
* *
87855304 TTATCATGAAACATTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87855330 TTATCA
1 TTATCA
87855336 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87860167 original size:12 final size:12
Alignment explanation
Indices: 87860150--87860180 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
87860140 AGTACTACCT
87860150 CGGCCTCGACCA
1 CGGCCTCGACCA
87860162 CGGCCTCGACCA
1 CGGCCTCGACCA
87860174 CGGCCTC
1 CGGCCTC
87860181 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:87863419 original size:26 final size:26
Alignment explanation
Indices: 87863383--87863518 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
87863373 CATGAAATTC
87863383 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
87863409 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
87863435 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
87863461 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
87863487 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87863513 TTATCA
1 TTATCA
87863519 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87868356 original size:12 final size:12
Alignment explanation
Indices: 87868339--87868369 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
87868329 AGTACTACCT
87868339 CGGCCTCGACCA
1 CGGCCTCGACCA
87868351 CGGCCTCGACCA
1 CGGCCTCGACCA
87868363 CGGCCTC
1 CGGCCTC
87868370 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:87871619 original size:26 final size:26
Alignment explanation
Indices: 87871583--87871718 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
87871573 CATGAAATTC
87871583 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
87871609 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
87871635 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
87871661 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
87871687 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87871713 TTATCA
1 TTATCA
87871719 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87876583 original size:22 final size:22
Alignment explanation
Indices: 87876555--87876596 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
87876545 CTTAAGGCTT
*
87876555 GAGGTTAAGTCTTGAGACATAG
1 GAGGTTAAGTCTCGAGACATAG
87876577 GAGGTTAAGTCTCGAGACAT
1 GAGGTTAAGTCTCGAGACAT
87876597 GGTCCTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (22 bp):
GAGGTTAAGTCTCGAGACATAG
Found at i:87882029 original size:48 final size:48
Alignment explanation
Indices: 87881911--87882019 Score: 182
Period size: 48 Copynumber: 2.3 Consensus size: 48
87881901 CCGTAATGGT
* * * *
87881911 AACAGTCTCAGTCACGGTACACAAAGTACTTCATCGAAACGAATCCGG
1 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCGA
87881959 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCGA
1 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCGA
87882007 AACAGTCACAGTC
1 AACAGTCACAGTC
87882020 TAGCGACACT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCGA
Found at i:87882303 original size:3 final size:3
Alignment explanation
Indices: 87882295--87882328 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
87882285 TATTCAACTC
87882295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
87882329 CTTACCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87882546 original size:16 final size:15
Alignment explanation
Indices: 87882524--87882562 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
87882514 CTTTTTCTCC
87882524 TTCTTTCTCCCCTGT
1 TTCTTTCTCCCCTGT
* *
87882539 TTCGTTTCTTCTCTGT
1 TTC-TTTCTCCCCTGT
87882555 TTCTTTCT
1 TTCTTTCT
87882563 ATTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (15 bp):
TTCTTTCTCCCCTGT
Found at i:87882695 original size:3 final size:3
Alignment explanation
Indices: 87882602--87882681 Score: 135
Period size: 3 Copynumber: 27.0 Consensus size: 3
87882592 TGTTTTATAT
87882602 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
87882650 ATA ATA ATA ATA ATA ATA ACA A-A TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87882682 TACTTATATA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
2 1 0.01
3 72 0.99
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87886647 original size:14 final size:14
Alignment explanation
Indices: 87886628--87886691 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 14
87886618 ATGAATTGGT
*
87886628 TATATGGAAGTAGA
1 TATATGGAAATAGA
*
87886642 TATAT-GAAATAGT
1 TATATGGAAATAGA
* * *
87886655 TAAAT-GAATTAGT
1 TATATGGAAATAGA
*
87886668 TATATGGAACTAGA
1 TATATGGAAATAGA
87886682 TATAT-GAAAT
1 TATATGGAAAT
87886692 GAAACATTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 25 0.61
14 16 0.39
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (14 bp):
TATATGGAAATAGA
Found at i:87886656 original size:27 final size:27
Alignment explanation
Indices: 87886615--87886687 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
87886605 ATGAAATGAT
* *
87886615 TATATGAATTGGTTATATGGAAGTAGA
1 TATATGAAATAGTTATATGGAAGTAGA
* * *
87886642 TATATGAAATAGTTAAAT-GAATTAGT
1 TATATGAAATAGTTATATGGAAGTAGA
* *
87886668 TATATGGAACTAGATATATG
1 TATAT-GAAATAGTTATATG
87886688 AAATGAAACA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 11 0.31
27 25 0.69
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (27 bp):
TATATGAAATAGTTATATGGAAGTAGA
Found at i:87886662 original size:40 final size:40
Alignment explanation
Indices: 87886605--87886693 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
87886595 AAATGAATAA
* * *
87886605 ATGAAATGATTATATGAATTGGTTATATGGAAGTAGATAT
1 ATGAAATGATTAAATGAATTAGTTATATGGAACTAGATAT
87886645 ATGAAAT-AGTTAAATGAATTAGTTATATGGAACTAGATAT
1 ATGAAATGA-TTAAATGAATTAGTTATATGGAACTAGATAT
87886685 ATGAAATGA
1 ATGAAATGA
87886694 AACATTGGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.20, T:0.35
Consensus pattern (40 bp):
ATGAAATGATTAAATGAATTAGTTATATGGAACTAGATAT
Found at i:87889402 original size:2 final size:2
Alignment explanation
Indices: 87889395--87889421 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
87889385 TATAGCATTG
87889395 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
87889422 AGTTCGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87894522 original size:19 final size:19
Alignment explanation
Indices: 87894479--87894522 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
87894469 ATCTTAAAAA
87894479 TAAAAAAAATATTTTAAGT
1 TAAAAAAAATATTTTAAGT
* **
87894498 TTAAAAATTTATTTTAA-T
1 TAAAAAAAATATTTTAAGT
87894516 TAAAAAA
1 TAAAAAA
87894523 CAATTAACCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAAAAAATATTTTAAGT
Found at i:87899823 original size:30 final size:29
Alignment explanation
Indices: 87899784--87899849 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
87899774 ATAAAACTTG
* * *
87899784 AAAAGTTAAAATAA-TATATAAGTTTTTTA
1 AAAAATTAAAAAAATTATATAA-ATTTTTA
*
87899813 TAAAAATTAAAAAAATTATTTAAATTTTTA
1 -AAAAATTAAAAAAATTATATAAATTTTTA
87899843 AAAAATT
1 AAAAATT
87899850 GCTAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 7 0.23
30 18 0.58
31 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAAATTAAAAAAATTATATAAATTTTTA
Found at i:87900102 original size:17 final size:17
Alignment explanation
Indices: 87899987--87900109 Score: 53
Period size: 17 Copynumber: 7.2 Consensus size: 17
87899977 TTTTCTAGAA
*
87899987 TATATATTTTCTAAATT
1 TATATATTTTTTAAATT
**
87900004 TA-AGGTTTTTTAATATT
1 TATATATTTTTTAA-ATT
**
87900021 T-T-TAAATTTTAAATAAT
1 TATATATTTTTTAAAT--T
*
87900038 T-TATATTTTTTAATTTTT
1 TATATATTTTTTAA--ATT
*
87900056 TATATATTATTTTGACATT
1 TATATATT-TTTT-AAATT
*
87900075 T-TA-A-ATTTTAAATT
1 TATATATTTTTTAAATT
*
87900089 TATATATTTTTTAATTT
1 TATATATTTTTTAAATT
87900106 TATA
1 TATA
87900110 ACTTCTTTAA
Statistics
Matches: 77, Mismatches: 16, Indels: 26
0.65 0.13 0.22
Matches are distributed among these distances:
14 5 0.06
15 8 0.10
16 15 0.19
17 22 0.29
18 12 0.16
19 9 0.12
20 5 0.06
21 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATATTTTTTAAATT
Found at i:87900130 original size:50 final size:51
Alignment explanation
Indices: 87900023--87900132 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 51
87900013 TTAATATTTT
** *
87900023 TAAATTTTAAATAATTTATATTTTTTAATTTTTTATATATTATTTTGACATTT
1 TAAATTTTAAAT-ATTTATATTTTTTAA-TTTTTATATATTATTTAAACATTA
* *
87900076 TAAATTTTAAAT-TTATATATTTTTTAA-TTTTATA-ACTTCTTTAAACCTTA
1 TAAATTTTAAATATT-TATATTTTTTAATTTTTATATA-TTATTTAAACATTA
87900126 TAAATTT
1 TAAATTT
87900133 GTTTTTGGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
49 1 0.02
50 23 0.46
51 2 0.04
52 12 0.24
53 12 0.24
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (51 bp):
TAAATTTTAAATATTTATATTTTTTAATTTTTATATATTATTTAAACATTA
Found at i:87900664 original size:54 final size:54
Alignment explanation
Indices: 87900605--87900714 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
87900595 ATTGTTTTCT
*
87900605 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAAGTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
87900659 TTTCTAAAGTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAAGTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
87900713 TT
1 TT
87900715 AAGAACATTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (54 bp):
TTTCTAAAGTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
Found at i:87902625 original size:49 final size:49
Alignment explanation
Indices: 87902551--87902735 Score: 210
Period size: 49 Copynumber: 3.7 Consensus size: 49
87902541 TAGCCGAAGC
*
87902551 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *** *
87902600 AATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACATGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * ** *
87902651 TTTCGGGTATGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
87902700 TAT-TCGGTACACGTAGTAGCCTGCACTTAGTACTAC
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTAC
87902736 CACGTGACCT
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 69 0.64
50 2 0.02
51 36 0.34
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:87902673 original size:100 final size:100
Alignment explanation
Indices: 87902556--87902735 Score: 308
Period size: 100 Copynumber: 1.8 Consensus size: 100
87902546 GAAGCTATCT
87902556 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAA-TCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTC-GGTACACGTAGTAGC
*
87902620 TTGCACTTAGTACTACACACATGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACATGATCACAGTTTTCG
* * *
87902656 GGTATGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAGTAGCC
87902721 TGCACTTAGTACTAC
66 TGCACTTAGTACTAC
87902736 CACGTGACCT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 73 0.97
101 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:87914169 original size:29 final size:28
Alignment explanation
Indices: 87914136--87914230 Score: 100
Period size: 29 Copynumber: 3.3 Consensus size: 28
87914126 ATTGGAACTG
* *
87914136 AGTGTGTGAGCTTGTAATGTATGGCACTA
1 AGTGTGCGAGCTTG-AATATATGGCACTA
* *
87914165 AGTGTGCGAGTTTGGACTATATGGCACTA
1 AGTGTGCGAGCTT-GAATATATGGCACTA
* * *
87914194 TGTGTGCGGGCTTGAATCACATGGCACTA
1 AGTGTGCGAGCTTGAAT-ATATGGCACTA
87914223 AGTGTGCG
1 AGTGTGCG
87914231 TGATTGAGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 3 0.06
29 50 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.31
Consensus pattern (28 bp):
AGTGTGCGAGCTTGAATATATGGCACTA
Found at i:87924522 original size:34 final size:34
Alignment explanation
Indices: 87924484--87924567 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
87924474 AAATTCACAT
87924484 TTCAAA-TCA-TTTTCAATGTCAATT-TCACTTTCAA
1 TTCAAATTCACTTTTCAAT-TCAATTCTCA--TTCAA
**
87924518 TTCAAATTCACAATTCAATTCAATTCTCATTCAA
1 TTCAAATTCACTTTTCAATTCAATTCTCATTCAA
87924552 TTCAAATTCACTTTTC
1 TTCAAATTCACTTTTC
87924568 CACTTTCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
34 25 0.58
35 9 0.21
36 9 0.21
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.43
Consensus pattern (34 bp):
TTCAAATTCACTTTTCAATTCAATTCTCATTCAA
Found at i:87924527 original size:11 final size:11
Alignment explanation
Indices: 87924513--87924561 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
87924503 CAATTTCACT
87924513 TTCAATTCAAA
1 TTCAATTCAAA
87924524 TTCACAATTC-AA
1 TT--CAATTCAAA
**
87924536 TTCAATTCTCA
1 TTCAATTCAAA
87924547 TTCAATTCAAA
1 TTCAATTCAAA
87924558 TTCA
1 TTCA
87924562 CTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.19
11 16 0.50
12 4 0.12
13 6 0.19
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:87925697 original size:17 final size:18
Alignment explanation
Indices: 87925677--87925714 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
87925667 TTCGAAATAG
87925677 CTTTTG-TTCTTTTTCTT
1 CTTTTGTTTCTTTTTCTT
*
87925694 C-TTTGTTTCTTTTTTTT
1 CTTTTGTTTCTTTTTCTT
87925711 CTTT
1 CTTT
87925715 ATTTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 4 0.22
17 12 0.67
18 2 0.11
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (18 bp):
CTTTTGTTTCTTTTTCTT
Found at i:87925719 original size:17 final size:17
Alignment explanation
Indices: 87925683--87925719 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
87925673 ATAGCTTTTG
*
87925683 TTCTTTTTCTTCTTTGT
1 TTCTTTTTCTTCTTTAT
*
87925700 TTCTTTTTTTTCTTTAT
1 TTCTTTTTCTTCTTTAT
87925717 TTC
1 TTC
87925720 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (17 bp):
TTCTTTTTCTTCTTTAT
Found at i:87925725 original size:2 final size:2
Alignment explanation
Indices: 87925720--87925762 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
87925710 TCTTTATTTC
87925720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87925762 A
1 A
87925763 GTTAATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87925773 original size:3 final size:3
Alignment explanation
Indices: 87925765--87925821 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
87925755 TATATATAGT
*
87925765 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
87925811 T-A TAA TAA TAA
1 TAA TAA TAA TAA
87925822 ATATCTATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:87925973 original size:15 final size:15
Alignment explanation
Indices: 87925946--87925987 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
87925936 AATATGATAT
*
87925946 TTATAATAAAT-TAA
1 TTATAATAAATATTA
*
87925960 TT-TAATAATTATTA
1 TTATAATAAATATTA
87925974 TTATAATAAATATT
1 TTATAATAAATATT
87925988 TTAGCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
15 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAATAAATATTA
Found at i:87931069 original size:21 final size:20
Alignment explanation
Indices: 87931039--87931077 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
87931029 TAAAACTTGT
87931039 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
87931059 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
87931078 CTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:87938559 original size:21 final size:20
Alignment explanation
Indices: 87938521--87938559 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87938511 CAAAACTTGT
*
87938521 ATAACTATCATCATACATTC
1 ATAACTATCATCAAACATTC
*
87938541 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
87938560 CAAAATACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:87952211 original size:17 final size:17
Alignment explanation
Indices: 87952189--87952231 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
87952179 ATGGCCTGCT
87952189 CGTGGGGCTCCCATGGC
1 CGTGGGGCTCCCATGGC
87952206 CGTGGGGCTCCCATGGC
1 CGTGGGGCTCCCATGGC
87952223 CGTGGGGCT
1 CGTGGGGCT
87952232 AGCCCGTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.33, G:0.44, T:0.19
Consensus pattern (17 bp):
CGTGGGGCTCCCATGGC
Found at i:87954029 original size:31 final size:31
Alignment explanation
Indices: 87953978--87954057 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
87953968 TCAAACATGT
* *
87953978 ACTGGGCCATAGCCCTTTTCATATTTCATAAC
1 ACTGGGCCAAAG-CCTTTTCAAATTTCATAAC
**
87954010 ACTGGGCCAAAGCCTTTTCAAATTTCATATT
1 ACTGGGCCAAAGCCTTTTCAAATTTCATAAC
*
87954041 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
87954058 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 32 0.74
32 11 0.26
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCAAATTTCATAAC
Found at i:87954297 original size:24 final size:24
Alignment explanation
Indices: 87954264--87954439 Score: 266
Period size: 24 Copynumber: 7.4 Consensus size: 24
87954254 TTGGAGGCCT
*
87954264 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
87954289 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
87954313 AGTCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
87954336 AGCCCTTTTGATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
87954360 AGCCTTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
87954384 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
87954408 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
87954431 AGCCCTTTT
1 AGCCCTTTT
87954440 GCACTTCCTC
Statistics
Matches: 140, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 44 0.31
24 92 0.66
25 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:87954340 original size:47 final size:46
Alignment explanation
Indices: 87954271--87954440 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 46
87954261 CCTAGCCTCT
* *
87954271 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGTCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CC
*
87954318 TTTAATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
*
87954364 TTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 --TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CC
87954413 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
87954441 CACTTCCTCC
Statistics
Matches: 114, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
46 2 0.02
47 68 0.60
48 42 0.37
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
Found at i:87954380 original size:95 final size:96
Alignment explanation
Indices: 87954264--87954440 Score: 311
Period size: 95 Copynumber: 1.9 Consensus size: 96
87954254 TTGGAGGCCT
*
87954264 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGTCCTTTAATAACTG
1 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
87954329 GGGCATAAGCCCTTTTGATAATTGGGGCATA
66 GGGCATAAGCCCTTTTGATAATTGGGGCATA
* * *
87954360 AGCCT-TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
87954424 GGGCATAAGCCCTTTTG
66 GGGCATAAGCCCTTTTG
87954441 CACTTCCTCC
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 72 0.94
96 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (96 bp):
AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
GGGCATAAGCCCTTTTGATAATTGGGGCATA
Found at i:87954511 original size:9 final size:9
Alignment explanation
Indices: 87954497--87954553 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
87954487 ATCTCATGTG
87954497 CATATCATA
1 CATATCATA
*
87954506 CATATCATGTG
1 CATATCA--TA
87954517 CATATCATA
1 CATATCATA
* *
87954526 CATGTCATGTG
1 CATATCA--TA
87954537 CATATCATA
1 CATATCATA
87954546 CATATCAT
1 CATATCAT
87954554 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:87954513 original size:20 final size:20
Alignment explanation
Indices: 87954485--87954555 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
87954475 GCATTTATGA
*
87954485 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
87954505 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
87954525 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
87954545 ACATATCATGT
1 ACATATCATGT
87954556 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:87954520 original size:11 final size:11
Alignment explanation
Indices: 87954490--87954544 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
87954480 TATGAACATC
87954490 TCATGTGCATA
1 TCATGTGCATA
*
87954501 TCA--TACATA
1 TCATGTGCATA
87954510 TCATGTGCATA
1 TCATGTGCATA
* *
87954521 TCA--TACATG
1 TCATGTGCATA
87954530 TCATGTGCATA
1 TCATGTGCATA
87954541 TCAT
1 TCAT
87954545 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:87954634 original size:25 final size:24
Alignment explanation
Indices: 87954592--87954639 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
87954582 ATATATAAAC
* * *
87954592 CCTAGGGGTACAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
87954617 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
87954640 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:87955832 original size:27 final size:27
Alignment explanation
Indices: 87955797--87955861 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
87955787 GGGCATATTC
*
87955797 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
87955824 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
87955851 GTCACTTTACC
1 GTCACTTTACC
87955862 TAATAGGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:87955945 original size:27 final size:27
Alignment explanation
Indices: 87955912--87956130 Score: 161
Period size: 27 Copynumber: 8.0 Consensus size: 27
87955902 TTGGTAAATC
*
87955912 TACAAACCAAAGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
87955939 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
87955967 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * * **
87955995 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
***
87956022 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
87956049 CACAAACCAAGAGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
87956076 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
87956103 TACAAACCAAGGGTATTTTAATAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
87956130 T
1 T
87956131 GTAAATCGAG
Statistics
Matches: 151, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
27 123 0.81
28 14 0.09
29 14 0.09
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:87956065 original size:54 final size:54
Alignment explanation
Indices: 87956007--87956144 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
87955997 TAAATCAGGG
87956007 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGA
1 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGA
* ** * *
87956061 GTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTGGTAATTTTACAAATTGA-GGGTATTTCAGTAATTTCACAAACCAAGA
** ** *
87956115 GTATTTTAATAATTTTGTAAATCGAGGGTA
1 GTATTTTGGTAATTTTACAAATTGAGGGTA
87956145 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGA
Found at i:87956154 original size:27 final size:27
Alignment explanation
Indices: 87956124--87956333 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
87956114 GGTATTTTAA
* *
87956124 TAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
87956151 TAATTCTGTAAATCAAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
87956178 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* ** *
87956205 TAATTCTATAAATTAAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
87956232 TAATTCTGTAAGTCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
87956259 TAATTATGTAAATC-AGGGGTAAAACGG
1 TAATTCTGTAAATCGA-GGGTAAAACGG
* *
87956286 TAATTATGTAAATC-AGGGGTAAAATGG
1 TAATTCTGTAAATCGA-GGGTAAAACGG
*
87956313 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
87956334 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:87956154 original size:54 final size:54
Alignment explanation
Indices: 87956096--87956256 Score: 160
Period size: 54 Copynumber: 3.0 Consensus size: 54
87956086 GGGTATTTTG
* **** * *
87956096 GTAATTTTACAAACCAAGGGTATTTTAATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTACAAACCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACA
** * * *
87956150 GTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTACAAACCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACA
* ** * * *
87956204 GTAATTCTATAAATTAAGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAAC
1 GTAATTCTACAAACCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAC
87956257 GATAATTATG
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACA
Found at i:87956360 original size:27 final size:27
Alignment explanation
Indices: 87956339--87956428 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
87956329 GGGTACTTTG
*
87956339 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
87956366 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
87956393 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
87956420 GTAATTTTA
1 GTAATTTTA
87956429 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:87956380 original size:54 final size:54
Alignment explanation
Indices: 87956322--87956428 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
87956312 GTAATTCTGT
* * *
87956322 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
87956376 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
87956429 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:87956442 original size:27 final size:27
Alignment explanation
Indices: 87956339--87956443 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
87956329 GGGTACTTTG
* *
87956339 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
87956366 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
87956393 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
87956420 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
87956444 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:87958239 original size:4 final size:4
Alignment explanation
Indices: 87958219--87958288 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
87958209 ATTTCTCCTT
*
87958219 TTTC TTT- TTTC -TTC TTTC TTTC TTTC TATTC TGTT- TCTTC TTTA TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC T-TTC T-TTC TTTC TTTC
*
87958267 TTT- TTCC TGTT- TTTC TTTC TTT
1 TTTC TTTC T-TTC TTTC TTTC TTT
87958289 TATTTATTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
3 10 0.19
4 35 0.66
5 8 0.15
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:87958256 original size:23 final size:23
Alignment explanation
Indices: 87958230--87958292 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
87958220 TTCTTTTTTC
87958230 TTCTTTCTTTCTTTCTATT-CTG
1 TTCTTTCTTTCTTTCTATTCCTG
* *
87958252 TT-TCTTCTTTATTTCTTTTTCCTG
1 TTCT-TTCTTTCTTTC-TATTCCTG
87958276 TT-TTTCTTTCTTT-TATT
1 TTCTTTCTTTCTTTCTATT
87958293 TATTCTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 4 0.12
22 12 0.35
23 12 0.35
24 6 0.18
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (23 bp):
TTCTTTCTTTCTTTCTATTCCTG
Found at i:87958260 original size:26 final size:24
Alignment explanation
Indices: 87958216--87958288 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 24
87958206 CTAATTTCTC
* *
87958216 CTTTTTCTTTTTTCTTCTTTCTTT
1 CTTTTTCCTGTTTCTTCTTTCTTT
* *
87958240 CTTTCTATTCTGTTTCTTCTTTATTT
1 CTTT-T-TCCTGTTTCTTCTTTCTTT
87958266 CTTTTTCCTGTTT-TTCTTTCTTT
1 CTTTTTCCTGTTTCTTCTTTCTTT
87958289 TATTTATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
23 9 0.22
24 11 0.27
25 2 0.05
26 19 0.46
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (24 bp):
CTTTTTCCTGTTTCTTCTTTCTTT
Found at i:87958465 original size:3 final size:3
Alignment explanation
Indices: 87958457--87958494 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
87958447 TTGATAAAAT
87958457 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
87958495 GATGATGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:87963243 original size:21 final size:21
Alignment explanation
Indices: 87963202--87963244 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
87963192 ACGTTTGCTG
*
87963202 AAAACATTTATTTTCTTGGAAA
1 AAAACATTTATTTGC-TGGAAA
87963224 AAAACATTTACTTTGC-GGAAA
1 AAAACATTTA-TTTGCTGGAAA
87963245 CTTTGCGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAACATTTATTTGCTGGAAA
Found at i:87975545 original size:6 final size:6
Alignment explanation
Indices: 87975515--87975544 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
87975505 AGGAGCCCTA
*
87975515 TAGGAG TAGGAG TAGGAG TAGGAG CAGGAG
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG
87975545 CTCTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.50, T:0.13
Consensus pattern (6 bp):
TAGGAG
Found at i:87980008 original size:24 final size:23
Alignment explanation
Indices: 87979976--87980022 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
87979966 AGCATTGTTT
87979976 TTTTTTTTTTGGGTACAAAAAACA
1 TTTTTTTTTT-GGTACAAAAAACA
87980000 TTTTTTTTTTGGTACAAAAAACA
1 TTTTTTTTTTGGTACAAAAAACA
87980023 ATCATGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.47
Consensus pattern (23 bp):
TTTTTTTTTTGGTACAAAAAACA
Found at i:87984690 original size:12 final size:12
Alignment explanation
Indices: 87984669--87984702 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
87984659 CCATTTCTGC
*
87984669 ACAGCTAACAGA
1 ACAGCCAACAGA
87984681 ACAGCCAACAGA
1 ACAGCCAACAGA
87984693 ACAGCCAACA
1 ACAGCCAACA
87984703 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.32, G:0.15, T:0.03
Consensus pattern (12 bp):
ACAGCCAACAGA
Found at i:87986255 original size:47 final size:47
Alignment explanation
Indices: 87986204--87986336 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 47
87986194 GAATTATGAG
* *
87986204 GCATCTGAACTCGTTGAGTTGCGTTCCGAGTTCACTTATGGATG-CAA
1 GCATCCGAACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGTCAA
*
87986251 GCATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAA
1 GCATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTCAA
* * *
87986298 -CACCCGAGCTCGTTGAGTTGTGTTCTGAGTTCATTATGG
1 GCATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
87986337 GTGAAAATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 45 0.57
47 34 0.43
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTCAA
Found at i:87991797 original size:26 final size:22
Alignment explanation
Indices: 87991743--87991786 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
87991733 TCAAATCTCA
87991743 GTGTTCAGCTAACAATGGATGG
1 GTGTTCAGCTAACAATGGATGG
87991765 GTGTTCAGCTAACAATGGATGG
1 GTGTTCAGCTAACAATGGATGG
87991787 ATGCTGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (22 bp):
GTGTTCAGCTAACAATGGATGG
Found at i:87995299 original size:57 final size:59
Alignment explanation
Indices: 87995198--87995308 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 59
87995188 ATGATTTTTA
* * *
87995198 ATTTATATAATAATTATATTAAGAATGTTATTAAATTGTATATTATTTTATTAAATTAT
1 ATTTATATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTAT
* * *
87995257 ATTTA-ATAATAATTATGTTAA-AATATGATTAAATTATTTATTATTTTTTTAA
1 ATTTATATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAA
87995309 TAAAAATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 26 0.57
58 15 0.33
59 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (59 bp):
ATTTATATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTAT
Found at i:87995492 original size:44 final size:46
Alignment explanation
Indices: 87995438--87995527 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
87995428 AATATCTATC
* *
87995438 CCATTCAACCAAATAAAAGAA-TACT-ATTACAGCTTTATTCCATT
1 CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
**
87995482 CCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATT
1 CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
87995528 ACAGCTCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 18 0.45
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
Found at i:87995530 original size:16 final size:16
Alignment explanation
Indices: 87995509--87995563 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
87995499 TGAATTACTG
87995509 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
87995525 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
87995541 ATTATAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
87995557 ATTACAG
1 ATTACAG
87995564 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:88001520 original size:26 final size:26
Alignment explanation
Indices: 88001491--88001543 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
88001481 AATTTGAAAG
88001491 TTTGAAGGCTTTAGGTCGTGTGTCTC
1 TTTGAAGGCTTTAGGTCGTGTGTCTC
88001517 TTTGAAGGCTTTAGGTCGTGTGTCTC
1 TTTGAAGGCTTTAGGTCGTGTGTCTC
88001543 T
1 T
88001544 CCTTTCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.43
Consensus pattern (26 bp):
TTTGAAGGCTTTAGGTCGTGTGTCTC
Found at i:88001571 original size:16 final size:17
Alignment explanation
Indices: 88001545--88001584 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
88001535 TGTGTCTCTC
*
88001545 CTTTCTTCTTTCTTTCT
1 CTTTCTTCTTTATTTCT
*
88001562 CTTT-TTCTTTATTTTT
1 CTTTCTTCTTTATTTCT
88001578 CTTTCTT
1 CTTTCTT
88001585 AATTTTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
CTTTCTTCTTTATTTCT
Done.