Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 67 of 170
Found at i:19989211 original size:18 final size:19
Alignment explanation
Indices: 19989171--19989216 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
19989161 TTGTCCAGAT
*
19989171 TTTAAAC-AAATTAATTAA
1 TTTAAACTAAATTAACTAA
*
19989189 CTTAAACTAAA-TAACTAA
1 TTTAAACTAAATTAACTAA
19989207 TTT-AACTAAA
1 TTTAAACTAAA
19989217 AACAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 14 0.58
19 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAACTAAATTAACTAA
Found at i:19995261 original size:15 final size:15
Alignment explanation
Indices: 19995243--19995276 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19995233 AAAAGAAATT
19995243 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
19995258 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
19995273 GAAA
1 GAAA
19995277 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:20004297 original size:14 final size:14
Alignment explanation
Indices: 20004278--20004304 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20004268 TGCATCTCCC
20004278 CATGCATGAATCTA
1 CATGCATGAATCTA
20004292 CATGCATGAATCT
1 CATGCATGAATCT
20004305 GCCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:20005025 original size:33 final size:34
Alignment explanation
Indices: 20004974--20005048 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
20004964 AGATTTAAAC
*
20004974 AAATTAATTACTAACACTTATTTAAGCTGCACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
20005008 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
20005041 AATTTAAT
1 AAATTAAT
20005049 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:20011705 original size:28 final size:31
Alignment explanation
Indices: 20011672--20011731 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
20011662 AAAGAAATTG
* *
20011672 AAGAAA-G-AAGAGAAA-ACGAGTTAGAAAA
1 AAGAAATGAAAGAAAAAGACGAGTGAGAAAA
20011700 AAGAAATGAAAGAAAAAGACGAGTGAGAAAA
1 AAGAAATGAAAGAAAAAGACGAGTGAGAAAA
20011731 A
1 A
20011732 GTGAGGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 1 0.04
30 7 0.26
31 13 0.48
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (31 bp):
AAGAAATGAAAGAAAAAGACGAGTGAGAAAA
Found at i:20014226 original size:47 final size:47
Alignment explanation
Indices: 20014104--20014552 Score: 728
Period size: 47 Copynumber: 9.6 Consensus size: 47
20014094 CCCTTCGGGA
* * * * * *
20014104 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20014151 CCTGTCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20014196 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20014243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20014290 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20014339 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20014385 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20014434 CTTATCACATATATACACTTTCACATTCAT--CATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20014479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20014526 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
20014553 ACCAACCCTT
Statistics
Matches: 378, Mismatches: 15, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
45 82 0.22
46 9 0.02
47 195 0.52
48 36 0.10
49 56 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20014302 original size:92 final size:93
Alignment explanation
Indices: 20014104--20014552 Score: 683
Period size: 92 Copynumber: 4.8 Consensus size: 93
20014094 CCCTTCGGGA
* * * * * * * *
20014104 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATAT--AC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
20014167 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
20014196 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
20014261 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
20014290 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
20014355 ACTTTCACATTCATCACATCGGCCATTA-GA
63 ACTTTCACATTCATCACATCGGCCATTAGGC
20014385 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--A-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
20014450 ACTTTCACATTCAT--CATCGGCCATTAGGC
63 ACTTTCACATTCATCACATCGGCCATTAGGC
*
20014479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
20014544 TTTCACATT
65 TTTCACATT
20014553 ACCAACCCTT
Statistics
Matches: 339, Mismatches: 13, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
92 117 0.35
93 12 0.04
94 47 0.14
95 80 0.24
96 83 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (93 bp):
CTTATCACAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:20014881 original size:40 final size:40
Alignment explanation
Indices: 20014776--20014918 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
20014766 GCTACTCGTT
*
20014776 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
20014816 CAAATGCATTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
20014856 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20014897 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
20014919 AGACATCATT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 72 0.82
41 13 0.15
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20018812 original size:40 final size:40
Alignment explanation
Indices: 20018767--20019371 Score: 814
Period size: 40 Copynumber: 15.1 Consensus size: 40
20018757 CGAATACACG
* * ** * *
20018767 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* * * * * *
20018807 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* *
20018847 TCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* *
20018887 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* * *
20018927 TCACTAGCACGAATGCTCTTCAGAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* *
20018967 TCACTAGCATGAATGCTCTTCGGGAATTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* * *
20019007 TCACTAGCACGAATGCTCTTCAGAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
**
20019047 TCACTAGCATGAATGCTCTTCGAAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* * * *
20019087 TCACTAGCATGAATGCTCTTCGAGACTTAGCCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* *
20019127 TCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* *
20019167 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* * *
20019207 TCACTAGCACGAATGCTCTTCAGAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
*
20019247 TCACTAGCATGAATGCTCTTCGGAATTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* *
20019287 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
* * * *
20019327 TCACTAGCACGAATACTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
20019367 TCACT
1 TCACT
20019372 CTCAATTCTC
Statistics
Matches: 503, Mismatches: 62, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 503 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATACA
Found at i:20020899 original size:47 final size:47
Alignment explanation
Indices: 20020821--20021320 Score: 867
Period size: 47 Copynumber: 10.6 Consensus size: 47
20020811 CCCTTCGGGA
* * * * * *
20020821 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20020868 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20020915 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20020962 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20021009 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20021058 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20021104 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20021153 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20021200 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20021247 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20021294 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
20021321 ACCAACCCTT
Statistics
Matches: 435, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 10 0.02
47 332 0.76
48 36 0.08
49 57 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20021622 original size:38 final size:40
Alignment explanation
Indices: 20021545--20021635 Score: 141
Period size: 39 Copynumber: 2.3 Consensus size: 40
20021535 GCTACTCGTT
* *
20021545 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCA
*
20021585 CAAATG-CTTCGGGACTTAACCCGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCA
20021623 CAAATGCCTTCGG
1 CAAATGCCTTCGG
20021636 ATCTTAGTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
38 18 0.38
39 23 0.49
40 6 0.13
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCA
Found at i:20032898 original size:22 final size:22
Alignment explanation
Indices: 20032848--20032900 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
20032838 TAGCTGTTGG
*
20032848 AATTAAGTAATTAAGTTAGTTT
1 AATTAATTAATTAAGTTAGTTT
20032870 AATTAATTAATTAAGTTAGTTT
1 AATTAATTAATTAAGTTAGTTT
20032892 AATTAATTA
1 AATTAATTA
20032901 GAGTTCAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.47
Consensus pattern (22 bp):
AATTAATTAATTAAGTTAGTTT
Found at i:20043718 original size:14 final size:13
Alignment explanation
Indices: 20043703--20043741 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
20043693 GCAAGCGAGA
20043703 AAAAGAAAAAGAG
1 AAAAGAAAAAGAG
20043716 AAAAGCAAAAAGAGTG
1 AAAAG-AAAAAGA--G
20043732 AAAAGAAAAA
1 AAAAGAAAAA
20043742 CAAAGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.22
14 7 0.30
15 5 0.22
16 6 0.26
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:20044978 original size:6 final size:6
Alignment explanation
Indices: 20044967--20044991 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20044957 TGATGCTTCA
20044967 GGCATT GGCATT GGCATT GGCATT G
1 GGCATT GGCATT GGCATT GGCATT G
20044992 TTTTAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GGCATT
Found at i:20050189 original size:52 final size:50
Alignment explanation
Indices: 20050085--20050247 Score: 154
Period size: 50 Copynumber: 3.2 Consensus size: 50
20050075 ATGATGCTTA
* * * * *
20050085 AATGCATGA-TTTAATTAAGATGCAAAC-TAAATGAACA-AATGAGTTACTT
1 AATGCATGACTTAAATTATGATGCAAACTTAACT-AACATGA-GAGTTACAT
*
20050134 AATGCATGACTTAAATTAATGATG-AAGACTTAAACTAACATGGGAGTTACAT
1 AATGCATGACTTAAATT-ATGATGCAA-ACTT-AACTAACATGAGAGTTACAT
* * * *
20050186 AATGCATGTCATAAATTATGATGCAAACTTAACTAACATTAAAGTTACAT
1 AATGCATGACTTAAATTATGATGCAAACTTAACTAACATGAGAGTTACAT
*
20050236 AAAGCATGACTT
1 AATGCATGACTT
20050248 TATTTAGTGC
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
49 9 0.10
50 34 0.37
51 17 0.18
52 30 0.32
53 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (50 bp):
AATGCATGACTTAAATTATGATGCAAACTTAACTAACATGAGAGTTACAT
Found at i:20052928 original size:20 final size:19
Alignment explanation
Indices: 20052877--20052953 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
20052867 ATCTAATAAC
*
20052877 GAGCTCAATAAGCTGAATT
1 GAGCTCAATGAGCTGAATT
* *
20052896 GAGCTCATGTGAGTTGAATT
1 GAGCTCA-ATGAGCTGAATT
20052916 GAGCTCGAATGAGCT-AACTT
1 GAGCTC-AATGAGCTGAA-TT
*
20052936 GAGCTCGAGTGAGCTGAA
1 GAGCTC-AATGAGCTGAA
20052954 CCGCATGGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.19
20 36 0.75
21 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:20052948 original size:40 final size:39
Alignment explanation
Indices: 20052877--20052953 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 39
20052867 ATCTAATAAC
*
20052877 GAGCTCAATAAGCTGAATTGAGCTCATGTGAGTTGAATT
1 GAGCTCAATAAGCTGAATTGAGCTCATGTGAGCTGAATT
*
20052916 GAGCTCGAATGAGCT-AACTTGAGCTCGA-GTGAGCTGAA
1 GAGCTC-AATAAGCTGAA-TTGAGCTC-ATGTGAGCTGAA
20052954 CCGCATGGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 8 0.24
40 24 0.73
41 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (39 bp):
GAGCTCAATAAGCTGAATTGAGCTCATGTGAGCTGAATT
Found at i:20054801 original size:6 final size:6
Alignment explanation
Indices: 20054790--20054880 Score: 78
Period size: 6 Copynumber: 15.2 Consensus size: 6
20054780 TTTTTCTTCG
* ** * *
20054790 TTTTCT TTTTCT CTCACT TTTT-T TATTTCT TTTTCT TTTGCAA TTTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTC-T TTTTCT
* * *
20054838 TTTTCT TTTTCG TTTTCT TTTTCT TTTTCA CTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
20054881 CATTTTTGTT
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
5 6 0.09
6 54 0.83
7 5 0.08
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:20054812 original size:30 final size:30
Alignment explanation
Indices: 20054778--20054886 Score: 78
Period size: 30 Copynumber: 3.5 Consensus size: 30
20054768 TGTTTTTCAA
*
20054778 TTTTTTTCTTCGTTTTCTTTTTCTCTCACT
1 TTTTTTTCTTCGTTTTCTTTTTCTATCACT
* * * **
20054808 TTTTTTAT-TTCTTTTTCTTTTGCAAT-TTT
1 TTTTTT-TCTTCGTTTTCTTTTTCTATCACT
* *
20054837 TTTTTCTTTTTCGTTTTCTTTTTCTTTTTCACT
1 TTTTT-TTCTTCGTTTTCTTTTTC--TATCACT
*
20054870 TTCTTTTTCTTCATTTT
1 TT-TTTTTCTTCGTTTT
20054887 TGTTTTTATT
Statistics
Matches: 58, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
29 7 0.12
30 34 0.59
31 1 0.02
32 1 0.02
33 12 0.21
34 3 0.05
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (30 bp):
TTTTTTTCTTCGTTTTCTTTTTCTATCACT
Found at i:20054864 original size:54 final size:55
Alignment explanation
Indices: 20054770--20054880 Score: 136
Period size: 54 Copynumber: 2.0 Consensus size: 55
20054760 TCTCAATTTG
* * *
20054770 TTTTTCAATTTTTTTCTTCGTTTTCTTTTTCTCTCACTTTTTTTA-TTTCTTTTTC
1 TTTTGCAATTTTTTTCTTCGTTTTCGTTTTCTCTCAC-TTTTTCACTTTCTTTTTC
* * **
20054825 TTTTGCAATTTTTTT-TTCTTTTTCGTTTTCTTTTTCTTTTTCACTTTCTTTTTC
1 TTTTGCAATTTTTTTCTTCGTTTTCGTTTTCTCTCACTTTTTCACTTTCTTTTTC
20054879 TT
1 TT
20054881 CATTTTTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 6 0.12
54 28 0.58
55 14 0.29
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (55 bp):
TTTTGCAATTTTTTTCTTCGTTTTCGTTTTCTCTCACTTTTTCACTTTCTTTTTC
Found at i:20059149 original size:18 final size:18
Alignment explanation
Indices: 20059123--20059214 Score: 63
Period size: 18 Copynumber: 5.4 Consensus size: 18
20059113 TCTCTTTCAA
* *
20059123 TTTCTTTTTCAATCTCTT
1 TTTCCTTTTCAATTTCTT
* *
20059141 TTTCCTTTTCACTTACTT
1 TTTCCTTTTCAATTTCTT
*
20059159 TTT-C-----AATTTCCT
1 TTTCCTTTTCAATTTCTT
20059171 TTT-CTTTTGCAATTTCTT
1 TTTCCTTTT-CAATTTCTT
* *
20059189 TTTCTTTTTCAATGTCTT
1 TTTCCTTTTCAATTTCTT
20059207 TTTCCTTT
1 TTTCCTTT
20059215 CATTTCTCCA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
12 9 0.16
17 1 0.02
18 42 0.75
19 4 0.07
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTCCTTTTCAATTTCTT
Found at i:20059160 original size:30 final size:29
Alignment explanation
Indices: 20059112--20059192 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
20059102 TTTCTTTTTC
*
20059112 TTCTCTTTCAATTTCTTTTTCAATCTCTTT
1 TTCT-TTTCAATTTCTTTTTCAATCTCCTT
* * *
20059142 TTCCTTTTCACTTACTTTTTCAATTTCCTT
1 TT-CTTTTCAATTTCTTTTTCAATCTCCTT
20059172 TTCTTTTGCAATTTCTTTTTC
1 TTCTTTT-CAATTTCTTTTTC
20059193 TTTTTCAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 5 0.12
30 36 0.84
31 2 0.05
ACGTcount: A:0.12, C:0.23, G:0.01, T:0.63
Consensus pattern (29 bp):
TTCTTTTCAATTTCTTTTTCAATCTCCTT
Found at i:20061841 original size:40 final size:39
Alignment explanation
Indices: 20061791--20061884 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 39
20061781 AGCTAATAAC
*
20061791 GAGCTCAATGAGCTAAATTGAGCGCGTGGGAGCTGACTT
1 GAGCTCAATGAGCTAAATTGAGCGCGAGGGAGCTGACTT
* * * * *
20061830 GAGCTCAAATGAGCTGACTTGAGCTCGAGTGAGCTGATTT
1 GAGCTC-AATGAGCTAAATTGAGCGCGAGGGAGCTGACTT
*
20061870 GAGCTCGAGTGAGCT
1 GAGCTC-AATGAGCT
20061885 GAACCAAATG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (39 bp):
GAGCTCAATGAGCTAAATTGAGCGCGAGGGAGCTGACTT
Found at i:20061843 original size:20 final size:20
Alignment explanation
Indices: 20061820--20061886 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
20061810 GAGCGCGTGG
* *
20061820 GAGCTGACTTGAGCTCAAAT
1 GAGCTGACTTGAGCTCGAGT
20061840 GAGCTGACTTGAGCTCGAGT
1 GAGCTGACTTGAGCTCGAGT
*
20061860 GAGCTGATTTGAGCTCGAGT
1 GAGCTGACTTGAGCTCGAGT
20061880 GAGCTGA
1 GAGCTGA
20061887 ACCAAATGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (20 bp):
GAGCTGACTTGAGCTCGAGT
Found at i:20063176 original size:20 final size:20
Alignment explanation
Indices: 20063136--20063202 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
20063126 ATCTAATAAC
* *
20063136 GAGCTC-AATGAACTTAATT
1 GAGCTCGAATGAACTGACTT
*
20063155 GAGCTC-ATATGAGCTGACTT
1 GAGCTCGA-ATGAACTGACTT
*
20063175 GAGCTCGAATGAACTGTCTT
1 GAGCTCGAATGAACTGACTT
20063195 GAGCTCGA
1 GAGCTCGA
20063203 GTGAGCTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 7 0.17
20 33 0.80
21 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (20 bp):
GAGCTCGAATGAACTGACTT
Found at i:20063619 original size:20 final size:20
Alignment explanation
Indices: 20063594--20063631 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20063584 AGCTGTTATG
20063594 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAAGGCCAAC
20063614 AAGTTGAATTAAAGGCCA
1 AAGTTGAATTAAAGGCCA
20063632 GCATCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGTTGAATTAAAGGCCAAC
Found at i:20066732 original size:18 final size:18
Alignment explanation
Indices: 20066711--20066785 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
20066701 TTTTCTCTCA
*
20066711 CTTTTTTGATTTCTTTTT
1 CTTTTCTGATTTCTTTTT
** *
20066729 CTTTTCCAATTTATTTTT
1 CTTTTCTGATTTCTTTTT
*
20066747 CTTTT-TAGTTTTCTTTTT
1 CTTTTCT-GATTTCTTTTT
*
20066765 CACTTTCT-ATTTCTTTTT
1 C-TTTTCTGATTTCTTTTT
20066783 CTT
1 CTT
20066786 CATTTACGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
17 1 0.02
18 38 0.88
19 3 0.07
20 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.03, T:0.72
Consensus pattern (18 bp):
CTTTTCTGATTTCTTTTT
Found at i:20066751 original size:5 final size:6
Alignment explanation
Indices: 20066669--20066785 Score: 56
Period size: 6 Copynumber: 19.0 Consensus size: 6
20066659 TCAATCTCAA
* * * ** *
20066669 TTTCTT TTTCAGT TTTCTTT TCTTCGT TTTCTT TTTCTC TCACTT TTT-TGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCT-T
* ** * ** **
20066720 TTTCTT TTTCTT TTCCAA TTTATT TTTCTT TTTAGT TTTCTT TTTCAC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
*
20066768 TTTCTA TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT
20066786 CATTTACGTT
Statistics
Matches: 77, Mismatches: 30, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
5 1 0.01
6 63 0.82
7 10 0.13
8 3 0.04
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:20066759 original size:30 final size:30
Alignment explanation
Indices: 20066725--20066782 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20066715 TTTGATTTCT
*
20066725 TTTTCTTTTCCAATTTATTTTTCTTTTTAG
1 TTTTCTTTTCCAATTTATATTTCTTTTTAG
* * *
20066755 TTTTCTTTTTCACTTTCTATTTCTTTTT
1 TTTTCTTTTCCAATTTATATTTCTTTTT
20066783 CTTCATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.72
Consensus pattern (30 bp):
TTTTCTTTTCCAATTTATATTTCTTTTTAG
Found at i:20070758 original size:40 final size:40
Alignment explanation
Indices: 20070674--20070898 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
20070664 TTGAATGATG
* * * * *
20070674 TCCGGGCTAAGTCCCGAAGGC-TTTTTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20070714 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20070754 TCCGGGCTAAG-CCCGAAGGCGTTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20070793 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20070833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
20070874 -CCGGGCGATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20070899 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20070905 original size:80 final size:79
Alignment explanation
Indices: 20070674--20070931 Score: 256
Period size: 79 Copynumber: 3.3 Consensus size: 79
20070664 TTGAATGATG
* * * * * * *
20070674 TCCGGGCTAAGTCCCGAAGGC-TTTTTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGCGAAG-TCCCGAAGGCAT
*
20070737 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
* * **
20070754 TCCGGGCTAAG-CCCGAAGGCGTTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCGAAGTCCCGAAGGCATTT
20070818 GTGCGAGTTACTAAA
66 GTGCGAG-TACTAAA
* *
20070833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCGATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AATCCGGGCGAAGTCCCGAAGGCATT
** *
20070897 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
* *
20070913 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20070932 TACGTGATTT
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 77 0.50
80 74 0.48
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCGAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:20072527 original size:20 final size:20
Alignment explanation
Indices: 20072502--20072570 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
20072492 GATCTAATAA
*
20072502 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGAG
*
20072522 TGAGCT-AACTTGAGCTCGAA
1 TGAGCTGAA-TTGAGCTCGAG
* * *
20072542 TGAGATGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCGAG
20072562 TGAGCTGAA
1 TGAGCTGAA
20072571 AATGAGCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:20075812 original size:22 final size:21
Alignment explanation
Indices: 20075769--20075812 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
20075759 TGGGCTGCTA
*
20075769 TAAAGGAGGCTTAAACATCAT
1 TAAAGGAGGCTTAAACAGCAT
* *
20075790 TAAAGGAGTTCTTAAAGAGCAT
1 TAAAGGAG-GCTTAAACAGCAT
20075812 T
1 T
20075813 TTTATGCCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (21 bp):
TAAAGGAGGCTTAAACAGCAT
Found at i:20083607 original size:46 final size:46
Alignment explanation
Indices: 20083556--20083649 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
20083546 ATAGTGTGGC
20083556 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
20083602 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
20083648 GT
1 GT
20083650 CTTTTAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:20084616 original size:16 final size:16
Alignment explanation
Indices: 20084577--20084618 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
20084567 AATGAGCCAT
* *
20084577 ATCCATGAATTCAGCC
1 ATCCATGTATCCAGCC
20084593 ATCCATGTATCCAGCC
1 ATCCATGTATCCAGCC
*
20084609 ATTCATGTAT
1 ATCCATGTAT
20084619 TGCTCCCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (16 bp):
ATCCATGTATCCAGCC
Found at i:20099678 original size:20 final size:21
Alignment explanation
Indices: 20099643--20099681 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20099633 CAGCTCGTTG
20099643 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
20099664 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
20099682 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:20100089 original size:13 final size:13
Alignment explanation
Indices: 20100071--20100096 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20100061 TGTGTCCTAA
20100071 TATGAATTAAATT
1 TATGAATTAAATT
20100084 TATGAATTAAATT
1 TATGAATTAAATT
20100097 GCTTTCAGGT
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:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:20101225 original size:11 final size:11
Alignment explanation
Indices: 20101209--20101260 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
20101199 GTAAGTGATT
20101209 AAAAAAATT-A
1 AAAAAAATTAA
**
20101219 AAAAAAATCGA
1 AAAAAAATTAA
*
20101230 AAAAAAATAAA
1 AAAAAAATTAA
*
20101241 AAAAAAAGTAA
1 AAAAAAATTAA
20101252 AAAAAAATT
1 AAAAAAATT
20101261 CGTGGATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 8 0.23
11 27 0.77
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:20101244 original size:12 final size:12
Alignment explanation
Indices: 20101229--20101258 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20101219 AAAAAAATCG
20101229 AAAAAAAATAAA
1 AAAAAAAATAAA
*
20101241 AAAAAAAGTAAA
1 AAAAAAAATAAA
20101253 AAAAAA
1 AAAAAA
20101259 TTCGTGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:20101253 original size:21 final size:21
Alignment explanation
Indices: 20101208--20101257 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
20101198 AGTAAGTGAT
* **
20101208 TAAAAAAATTAAAAAAAATCG
1 TAAAAAAAATAAAAAAAAAAG
20101229 -AAAAAAAATAAAAAAAAAAG
1 TAAAAAAAATAAAAAAAAAAG
20101249 TAAAAAAAA
1 TAAAAAAAA
20101258 ATTCGTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (21 bp):
TAAAAAAAATAAAAAAAAAAG
Found at i:20102236 original size:6 final size:6
Alignment explanation
Indices: 20102211--20102309 Score: 65
Period size: 6 Copynumber: 16.0 Consensus size: 6
20102201 TAATGAATTC
** * * *
20102211 GAAAAA GAAAGT GAAGAA GAAAAA GAAAACA -AAAAA GAAAAA GCAAAC
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA
** * * *
20102259 GAAAAA GTGAGA GAAAAA GAAAAT GAAGAAAA GAAAATT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA G-A-AAAA GAAAA-A GAAAAA GAAAAA
20102310 TATGAAAATG
Statistics
Matches: 68, Mismatches: 20, Indels: 10
0.69 0.20 0.10
Matches are distributed among these distances:
5 1 0.01
6 55 0.81
7 8 0.12
8 4 0.06
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:20102292 original size:14 final size:13
Alignment explanation
Indices: 20102271--20102308 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
20102261 AAAAGTGAGA
20102271 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
20102283 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
20102298 GAAAAAGAAAA
1 GAAAAAGAAAA
20102309 ATATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:20102352 original size:17 final size:17
Alignment explanation
Indices: 20102328--20102394 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
20102318 TGAGATTTCA
*
20102328 AAAACAAAA-GAGAGTG
1 AAAAGAAAACGAGAGTG
* *
20102344 AAAAGCAAAATGAGATTG
1 AAAAG-AAAACGAGAGTG
20102362 AAAA-AGAAA-GAGAGTTTG
1 AAAAGA-AAACGAGAG--TG
20102380 AAAAGAAAACGAGAG
1 AAAAGAAAACGAGAG
20102395 AAGAATAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.22
17 7 0.17
18 19 0.46
19 6 0.15
ACGTcount: A:0.60, C:0.04, G:0.25, T:0.10
Consensus pattern (17 bp):
AAAAGAAAACGAGAGTG
Found at i:20102354 original size:36 final size:34
Alignment explanation
Indices: 20102313--20102393 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 34
20102303 AGAAAAATAT
20102313 GAAAATGAGATTTCAAAAACAAAAGAGAG-TGAAAA
1 GAAAATGAGA-TTCAAAAA-AAAAGAGAGTTGAAAA
* *
20102348 GCAAAATGAGATTGAAAAAGAAAGAGAGTTTGAAAA
1 G-AAAATGAGATTCAAAAAAAAAGAGAG-TTGAAAA
*
20102384 GAAAACGAGA
1 GAAAATGAGA
20102394 GAAGAATAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 8 0.20
35 16 0.40
36 16 0.40
ACGTcount: A:0.58, C:0.05, G:0.23, T:0.14
Consensus pattern (34 bp):
GAAAATGAGATTCAAAAAAAAAGAGAGTTGAAAA
Found at i:20102358 original size:18 final size:17
Alignment explanation
Indices: 20102327--20102376 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
20102317 ATGAGATTTC
20102327 AAAAACAAAAGAGAGTG
1 AAAAACAAAAGAGAGTG
* *
20102344 AAAAGCAAAATGAGATTG
1 AAAAACAAAA-GAGAGTG
*
20102362 AAAAA-GAAAGAGAGT
1 AAAAACAAAAGAGAGT
20102377 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 10 0.37
ACGTcount: A:0.62, C:0.04, G:0.24, T:0.10
Consensus pattern (17 bp):
AAAAACAAAAGAGAGTG
Found at i:20103676 original size:20 final size:21
Alignment explanation
Indices: 20103641--20103679 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20103631 CAGCTCGTTG
20103641 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
20103662 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
20103680 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:20104087 original size:13 final size:13
Alignment explanation
Indices: 20104069--20104094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20104059 TGTGTCCTAA
20104069 TATGAATTAAATT
1 TATGAATTAAATT
20104082 TATGAATTAAATT
1 TATGAATTAAATT
20104095 GCTTTCAGGT
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:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:20106267 original size:50 final size:52
Alignment explanation
Indices: 20106158--20106272 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 52
20106148 TTAATACAAG
* * * *
20106158 ACTTAATTTAATGATGCAGACTTAAACTAACATGGGAGTTACATAATGCATG
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAACGCATA
* * * *
20106210 TCATTATTT-ATGATGCATACTT-AACTAGCATGGAAGTTACATAACGCATA
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAACGCATA
*
20106260 ACTTTATTAAATG
1 ACTTTATTTAATG
20106273 CAGAACACAC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
50 30 0.59
51 15 0.29
52 6 0.12
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (52 bp):
ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAACGCATA
Found at i:20108529 original size:20 final size:21
Alignment explanation
Indices: 20108496--20108535 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
20108486 CCAAGTGCAA
* *
20108496 AATGAAGCTTAATTTTAGCTC
1 AATGAAGCTCAATTCTAGCTC
20108517 AATG-AGCTCAATTCTAGCT
1 AATGAAGCTCAATTCTAGCT
20108536 TCTTCAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGAAGCTCAATTCTAGCTC
Found at i:20108660 original size:34 final size:35
Alignment explanation
Indices: 20108614--20108686 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
20108604 ATAAGTATTT
20108614 AGTTGCTAGAATAAATTACTCAT-TTAGTTAATTA
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTA
* *
20108648 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTG
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTA
20108683 AGTT
1 AGTT
20108687 CATCTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (35 bp):
AGTTGCTAGAATAAATTACTCATCTTAGTTAATTA
Found at i:20108691 original size:19 final size:19
Alignment explanation
Indices: 20108667--20108705 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
20108657 AATAAATTAC
*
20108667 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
20108686 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
20108705 T
1 T
20108706 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:20108695 original size:54 final size:53
Alignment explanation
Indices: 20108633--20108742 Score: 193
Period size: 54 Copynumber: 2.1 Consensus size: 53
20108623 AATAAATTAC
* *
20108633 TCATTTAGTTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGT
1 TCATTTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
20108686 TCATCTTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
1 TCAT-TTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
20108740 TCA
1 TCA
20108743 AATTAGTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (53 bp):
TCATTTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGT
Found at i:20108762 original size:54 final size:54
Alignment explanation
Indices: 20108637--20108770 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 54
20108627 AATTACTCAT
* * * **
20108637 TTAGTTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATC
1 TTAGTTAATTAACTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
*
20108691 TTAGTTAATTAAGTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
1 TTAGTTAATTAACTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
* *
20108745 TTAGTTCACTT-ACTTGCTGGATTAAA
1 TTAGTT-AATTAACTTGCTGGAATAAA
20108771 CTTTTAATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 69 0.96
55 3 0.04
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (54 bp):
TTAGTTAATTAACTTGCTGGAATAAAGTACTCATCTTAGTTAATTAAGTTCAAA
Found at i:20111171 original size:129 final size:130
Alignment explanation
Indices: 20110924--20111182 Score: 357
Period size: 129 Copynumber: 2.0 Consensus size: 130
20110914 GCAGGCTGCC
* * *
20110924 TGTTTCATAACTCTAGTGTTGGGGGAAATGAGGTGAGAACGAATTCCCAATACACTGAAGCCATT
1 TGTTGCATAACTCTAGTGTTGGGAGAAATGAGGTGAGAACGAATTCCCAATACACCGAAGCCATT
* *
20110989 CACTGAACAGGCACTTAGAATGTTGTTTTCCATTTTAATTTAGCTATTAATATTTGACTTGAATT
66 CACTGAACAGGCACTTAGAATATTGTTTTCCATTTTAATTTAGCTATTAATATTTGACTTAAATT
* *
20111054 TGTTGCATGACTCTAGTGTTGGGAG-AATGAGGTGAGAATGAATTCCCAA-ACCACCGAAGCCAT
1 TGTTGCATAACTCTAGTGTTGGGAGAAATGAGGTGAGAACGAATTCCCAATA-CACCGAAGCCAT
* * *
20111117 TCACTGAACAGGCACTTAAGATTATTGTTTT-TATTTTAATTTAACGGTA-T-ATATTTGACTTA
65 TCACTGAACAGGCACTT-AGAATATTGTTTTCCATTTTAATTT-A-GCTATTAATATTTGACTTA
20111179 AATT
127 AATT
20111183 GAGGACTCAT
Statistics
Matches: 115, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
128 1 0.01
129 76 0.66
130 35 0.30
131 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (130 bp):
TGTTGCATAACTCTAGTGTTGGGAGAAATGAGGTGAGAACGAATTCCCAATACACCGAAGCCATT
CACTGAACAGGCACTTAGAATATTGTTTTCCATTTTAATTTAGCTATTAATATTTGACTTAAATT
Found at i:20112705 original size:43 final size:45
Alignment explanation
Indices: 20112628--20112722 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 45
20112618 TTCTTCTCTT
* *
20112628 TTTTGTAAACATCTATGTATTTTCTTGTTCTTATTATCATCTCAG
1 TTTTGCAAACATCTATGTATTTCCTTGTTCTTATTATCATCTCAG
* *
20112673 TTTTGCAAACATCTGTGT-TTTCCTT-TTCTTATTATCTTCTCAG
1 TTTTGCAAACATCTATGTATTTCCTTGTTCTTATTATCATCTCAG
20112716 TTTTGCA
1 TTTTGCA
20112723 GATACCTTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 24 0.52
44 6 0.13
45 16 0.35
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (45 bp):
TTTTGCAAACATCTATGTATTTCCTTGTTCTTATTATCATCTCAG
Found at i:20119357 original size:14 final size:13
Alignment explanation
Indices: 20119323--20119348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20119313 CAAATGGGTA
20119323 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
20119336 GTTTTCTGCAAAT
1 GTTTTCTGCAAAT
20119349 CAGTTTCTGG
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:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTGCAAAT
Found at i:20121947 original size:15 final size:15
Alignment explanation
Indices: 20121927--20121957 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20121917 AAAATATTGA
20121927 CATCATCAATCACAT
1 CATCATCAATCACAT
*
20121942 CATCATCAATCTCAT
1 CATCATCAATCACAT
20121957 C
1 C
20121958 CTTGGCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
CATCATCAATCACAT
Found at i:20122227 original size:20 final size:20
Alignment explanation
Indices: 20122202--20122241 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20122192 AATATTTTCC
*
20122202 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
20122222 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
20122242 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:20123163 original size:6 final size:6
Alignment explanation
Indices: 20123154--20123179 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20123144 AAATGGCATA
20123154 ATAAGC ATAAGC ATAAGC ATAAGC AT
1 ATAAGC ATAAGC ATAAGC ATAAGC AT
20123180 GAAGAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATAAGC
Found at i:20134777 original size:29 final size:29
Alignment explanation
Indices: 20134735--20134797 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
20134725 GTATAAGGAA
* *
20134735 GCCTTTGTGGCTATCTCTATTAAATGGAT
1 GCCTTTATGGCTATCTCTATTAAATGAAT
20134764 GCCTTTATGGCTATCTCTATTAAATGAAT
1 GCCTTTATGGCTATCTCTATTAAATGAAT
20134793 GCCTT
1 GCCTT
20134798 GTGGTAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (29 bp):
GCCTTTATGGCTATCTCTATTAAATGAAT
Found at i:20147499 original size:41 final size:41
Alignment explanation
Indices: 20147433--20147668 Score: 348
Period size: 41 Copynumber: 5.8 Consensus size: 41
20147423 TGACCTTTCG
* *
20147433 GGGCCTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
* * * *
20147474 GGTCTTTAGCGACGTTTATGGAAAAGCGCCGCTAGTGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
*
20147515 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
* * * *
20147556 GGGCTTTAGCGGCATTTTTAGAAAAGCGCTGCTAATGTTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
*
20147597 GGGCTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
*
20147638 -GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
20147669 AAAAACATTT
Statistics
Matches: 174, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
40 29 0.17
41 145 0.83
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
Found at i:20148063 original size:14 final size:14
Alignment explanation
Indices: 20148024--20148189 Score: 72
Period size: 14 Copynumber: 11.9 Consensus size: 14
20148014 ATGGATTATG
*
20148024 GGTTTAGGG-GTAA
1 GGTTTAGGGTTTAA
** *
20148037 TGGTTTACAGTTTAT
1 -GGTTTAGGGTTTAA
* *
20148052 GGTTTAAGGTTTGA
1 GGTTTAGGGTTTAA
* *
20148066 GGTTTAGGGATTAC
1 GGTTTAGGGTTTAA
* * *
20148080 TGTTTATGGTTTGA
1 GGTTTAGGGTTTAA
*
20148094 GGTTTAGGGATTAAA
1 GGTTTAGGG-TTTAA
*
20148109 GG-TTGGGGTTTAA
1 GGTTTAGGGTTTAA
* *
20148122 GGTTTAGGGGTTAG
1 GGTTTAGGGTTTAA
* * *
20148136 GGTTAAGGGTTGAG
1 GGTTTAGGGTTTAA
* *
20148150 GGTTAAGAG-TT-A
1 GGTTTAGGGTTTAA
*
20148162 GGATTTAGGATTT-A
1 GG-TTTAGGGTTTAA
20148176 GGATTTAGGGTTTA
1 GG-TTTAGGGTTTA
20148190 GATTAATTAG
Statistics
Matches: 110, Mismatches: 36, Indels: 11
0.70 0.23 0.07
Matches are distributed among these distances:
12 2 0.02
13 11 0.10
14 90 0.82
15 7 0.06
ACGTcount: A:0.22, C:0.01, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:20148100 original size:28 final size:28
Alignment explanation
Indices: 20148053--20148106 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
20148043 ACAGTTTATG
20148053 GTTTAAGGTTTGAGGTTTAGGGATTACT
1 GTTTAAGGTTTGAGGTTTAGGGATTACT
*
20148081 GTTTATGGTTTGAGGTTTAGGGATTA
1 GTTTAAGGTTTGAGGTTTAGGGATTA
20148107 AAGGTTGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (28 bp):
GTTTAAGGTTTGAGGTTTAGGGATTACT
Found at i:20148145 original size:28 final size:28
Alignment explanation
Indices: 20148055--20148150 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
20148045 AGTTTATGGT
**
20148055 TTAA-GGTTTGAGGTTTAGGGATTACTG
1 TTAAGGGTTTGAGGTTTAGGGATTAAGG
* *
20148082 TTTATGGTTTGAGGTTTAGGGATTAAAGG
1 TTAAGGGTTTGAGGTTTAGGGATT-AAGG
* * * *
20148111 TT-GGGGTTTAAGGTTTAGGGGTTAGGG
1 TTAAGGGTTTGAGGTTTAGGGATTAAGG
20148138 TTAAGGG-TTGAGG
1 TTAAGGGTTTGAGG
20148151 GTTAAGAGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 13 0.23
28 39 0.70
29 4 0.07
ACGTcount: A:0.21, C:0.01, G:0.40, T:0.39
Consensus pattern (28 bp):
TTAAGGGTTTGAGGTTTAGGGATTAAGG
Found at i:20148146 original size:21 final size:21
Alignment explanation
Indices: 20148109--20148190 Score: 53
Period size: 21 Copynumber: 4.0 Consensus size: 21
20148099 AGGGATTAAA
*
20148109 GGTTGGGGTTTAA-GGTTTAGG
1 GGTTAGGG-TTAAGGGTTTAGG
*
20148130 GGTTAGGGTTAAGGGTTGA-G
1 GGTTAGGGTTAAGGGTTTAGG
* *
20148150 GGTTAAGAGTT-AGGATTTAGG
1 GGTT-AGGGTTAAGGGTTTAGG
** * *
20148171 ATTTAGGATTTAGGGTTTAG
1 GGTTAGGGTTAAGGGTTTAG
20148191 ATTAATTAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
20 19 0.40
21 28 0.60
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (21 bp):
GGTTAGGGTTAAGGGTTTAGG
Found at i:20148169 original size:7 final size:7
Alignment explanation
Indices: 20148159--20148190 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
20148149 GGGTTAAGAG
20148159 TTAGGAT
1 TTAGGAT
20148166 TTAGGAT
1 TTAGGAT
20148173 TTAGGAT
1 TTAGGAT
*
20148180 TTAGGGT
1 TTAGGAT
20148187 TTAG
1 TTAG
20148191 ATTAATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (7 bp):
TTAGGAT
Found at i:20148316 original size:16 final size:17
Alignment explanation
Indices: 20148297--20148338 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
20148287 AAATTATTTA
20148297 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
20148313 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
20148330 TAAAATAAT
1 T-AAATAAT
20148339 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:20151650 original size:168 final size:168
Alignment explanation
Indices: 20151334--20151655 Score: 441
Period size: 168 Copynumber: 1.9 Consensus size: 168
20151324 TCTCAGTTAA
*
20151334 TTTAAAACTCTTATTTACTTAATGGTGTAATTTTGAATTTCATTGGAAACTTTAATTTGTTAGAA
1 TTTAAAACTCTTATTTACTTAATGGTGTAAGTTTGAATTTCATTGGAAACTTTAATTTGTTAGAA
** * * * *
20151399 TTTGATCCTTTTAATTTGCAAAAATTGGAAATTTGATCCTGTTTTTGGTGCATACATGCACTTGA
66 TTCCATCCTCTTAATTTACAAAAATTGGAAATTTGATCCTGTTTTTGGTGAATACATGAACTTGA
** *
20151464 ACAATTGGTTTTTGCTAATTTGTTTTGATCTTCGATAG
131 ACAATTAATTTGTGCTAATTTGTTTTGATCTTCGATAG
*
20151502 TTTAAAACTCTTATTTACTTAATGGTGTAAGTTTGAATTTCATTGGAAACTTTAATTTGTTAGAC
1 TTTAAAACTCTTATTTACTTAATGGTGTAAGTTTGAATTTCATTGGAAACTTTAATTTGTTAGAA
* * * * *
20151567 TTCCATCCTCTTATTTTATAAAAATT-GAAATTTTAGT-CTGGTTTTTTGTGAATATATGAACTT
66 TTCCATCCTCTTAATTTACAAAAATTGGAAATTTGA-TCCT-GTTTTTGGTGAATACATGAACTT
***
20151630 GAATTGTTAATTTGTGCTAATTTGTT
129 GAACAATTAATTTGTGCTAATTTGTT
20151656 GCATTTAAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
167 10 0.08
168 123 0.92
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (168 bp):
TTTAAAACTCTTATTTACTTAATGGTGTAAGTTTGAATTTCATTGGAAACTTTAATTTGTTAGAA
TTCCATCCTCTTAATTTACAAAAATTGGAAATTTGATCCTGTTTTTGGTGAATACATGAACTTGA
ACAATTAATTTGTGCTAATTTGTTTTGATCTTCGATAG
Found at i:20153033 original size:43 final size:43
Alignment explanation
Indices: 20152986--20153254 Score: 199
Period size: 43 Copynumber: 6.3 Consensus size: 43
20152976 GAACCGTACT
* *
20152986 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATCATGATC
* * * * *
20153029 TTTAGCGGCGCTTGTTGA-TAAATC-CCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTG-TGAGAAAAGCGCCGCTAAAGATCATGATC
* *
20153071 TTTAGCGGCATTTGT-AGGAAGAGCGCCGCTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGA-TCATGATC
* * * * *
20153114 TATAGTGGCGTTTGTGGGAAAAGTGTCGCTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGA-TCATGATC
* * * * * * *
20153157 TATAGCGGCATTTGTGGGAGAAGCGCTGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATCATGATC
* * * * * * * *
20153200 TTTAGCGGCATTTTTG-TAAAAGCACCGCTAAAGGTCCTAATT
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATCATGATC
20153242 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
20153255 ATTTCTAAAA
Statistics
Matches: 182, Mismatches: 37, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 62 0.34
43 115 0.63
44 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATCATGATC
Found at i:20153110 original size:85 final size:86
Alignment explanation
Indices: 20152988--20153208 Score: 227
Period size: 86 Copynumber: 2.6 Consensus size: 86
20152978 ACCGTACTTT
* * * *
20152988 TAGCGGCGTTTGT-GATAAAAGCGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTGT-TGATAA
1 TAGCGGCATTTGTGGA-AGAAGCGCCGCTAAAAG-TCATGATCTTTAGCGGCGCTTGTGGGA-AA
* * *
20153050 A-TCCCGCTAAAGGTCATGTTCTT
63 AGTCCCGCTAAAAGTCATGATCTA
* * *
20153073 TAGCGGCATTTGTAGGAAG-AGCGCCGCTAAAAGTCATGATCTATAGTGGCGTTTGTGGGAAAAG
1 TAGCGGCATTTGT-GGAAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGCTTGTGGGAAAAG
**
20153137 TGTCGCTAAAAGTCATGATCTA
65 TCCCGCTAAAAGTCATGATCTA
* * * *
20153159 TAGCGGCATTTGTGGGAGAAGCGCTGCTAAAGGTCATGACCTTTAGCGGC
1 TAGCGGCATTTGTGGAAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGC
20153209 ATTTTTGTAA
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
85 47 0.42
86 63 0.56
87 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (86 bp):
TAGCGGCATTTGTGGAAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGCTTGTGGGAAAAGT
CCCGCTAAAAGTCATGATCTA
Found at i:20164830 original size:39 final size:38
Alignment explanation
Indices: 20164772--20164950 Score: 198
Period size: 39 Copynumber: 4.6 Consensus size: 38
20164762 TATAATTATA
20164772 CCCTATTGTACTTTGGTACCCCTGAATGCACATACTTGC
1 CCCTATTGTACTTT-GTACCCCTGAATGCACATACTTGC
* * * *
20164811 CCCTATTGTACTTCTGTACCCTTGAATGTACATGCGTGC
1 CCCTATTGTACTT-TGTACCCCTGAATGCACATACTTGC
* * * * *
20164850 CCCTATTGTACTTCGATACCCCTAAAAGTACATACGTGC
1 CCCTATTGTACTTTG-TACCCCTGAATGCACATACTTGC
*
20164889 CCCTATTGTACTTTGATACCCCTGAATGCACATA-TGTGA
1 CCCTATTGTACTTTG-TACCCCTGAATGCACATACT-TGC
*
20164928 CCCTATTTTACTTTGGTACCCCT
1 CCCTATTGTACTTT-GTACCCCT
20164951 TAATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 117 0.98
40 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.34
Consensus pattern (38 bp):
CCCTATTGTACTTTGTACCCCTGAATGCACATACTTGC
Found at i:20164871 original size:19 final size:18
Alignment explanation
Indices: 20164810--20164911 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 18
20164800 CACATACTTG
20164810 CCCCTATTGTACTTCTGTA
1 CCCCTATTGTACTTC-GTA
* * * *
20164829 CCCTTGAATGTACATGCGTG
1 CCCCT-ATTGTAC-TTCGTA
20164849 CCCCTATTGTACTTCGATA
1 CCCCTATTGTACTTCG-TA
** * *
20164868 CCCCTAAAAGTACATACGTG
1 CCCCT-ATTGTAC-TTCGTA
*
20164888 CCCCTATTGTACTTTGATA
1 CCCCTATTGTACTTCG-TA
20164907 CCCCT
1 CCCCT
20164912 GAATGCACAT
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
18 5 0.08
19 27 0.45
20 23 0.38
21 5 0.08
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (18 bp):
CCCCTATTGTACTTCGTA
Found at i:20164901 original size:78 final size:78
Alignment explanation
Indices: 20164771--20164994 Score: 252
Period size: 78 Copynumber: 2.8 Consensus size: 78
20164761 ATATAATTAT
* * * *
20164771 ACCCTATTGTACTTTGGTACCCCTGAATGCACATACTTGCCCCTATTGTACTTCTGTACCCTTGA
1 ACCCTATTGTACTTTGGTACCCCTAAAAGTACATACGTGCCCCTATTGTACTTCTGTACCCTTGA
* *
20164836 ATGTACATGCGTG
66 ATGCACATACGTG
* * * *
20164849 CCCCTATTGTACTTCGATACCCCTAAAAGTACATACGTGCCCCTATTGTACTT-TGATACCCCTG
1 ACCCTATTGTACTTTGGTACCCCTAAAAGTACATACGTGCCCCTATTGTACTTCTG-TACCCTTG
*
20164913 AATGCACATATGTG
65 AATGCACATACGTG
* * * * * *
20164927 ACCCTATTTTACTTTGGTACCCCTTAATCATTCACATATGTGCCCCTGTTGTACTTCGGTACCCT
1 ACCCTATTGTACTTTGGTACCCC-TAA-AAGT-ACATACGTGCCCCTATTGTACTTCTGTACCCT
20164992 TGA
63 TGA
20164995 TTCACACTTA
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 2 0.02
78 83 0.69
79 3 0.03
80 2 0.02
81 29 0.24
82 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (78 bp):
ACCCTATTGTACTTTGGTACCCCTAAAAGTACATACGTGCCCCTATTGTACTTCTGTACCCTTGA
ATGCACATACGTG
Found at i:20168495 original size:20 final size:20
Alignment explanation
Indices: 20168457--20168496 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20168447 GTCTTTAACC
* *
20168457 TTCAAATTAATTAATTAGCA
1 TTCAAATTAATCAACTAGCA
20168477 TTCAAATTAATCAACTAGCA
1 TTCAAATTAATCAACTAGCA
20168497 CATGAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
TTCAAATTAATCAACTAGCA
Found at i:20170345 original size:11 final size:11
Alignment explanation
Indices: 20170331--20170380 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
20170321 TGGTACAAGA
20170331 GTGGTGGTATG
1 GTGGTGGTATG
*
20170342 GTGGTGCTATG
1 GTGGTGGTATG
* *
20170353 GTGGTTGTATA
1 GTGGTGGTATG
*
20170364 GTGGTGATATG
1 GTGGTGGTATG
20170375 GTGGTG
1 GTGGTG
20170381 TTTCGGTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.12, C:0.02, G:0.48, T:0.38
Consensus pattern (11 bp):
GTGGTGGTATG
Found at i:20170356 original size:22 final size:22
Alignment explanation
Indices: 20170331--20170380 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
20170321 TGGTACAAGA
* *
20170331 GTGGTGGTATGGTGGTGCTATG
1 GTGGTGGTATAGTGGTGATATG
*
20170353 GTGGTTGTATAGTGGTGATATG
1 GTGGTGGTATAGTGGTGATATG
20170375 GTGGTG
1 GTGGTG
20170381 TTTCGGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.02, G:0.48, T:0.38
Consensus pattern (22 bp):
GTGGTGGTATAGTGGTGATATG
Found at i:20175146 original size:21 final size:20
Alignment explanation
Indices: 20175122--20175161 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20175112 ATGATCTTGT
20175122 TTTATAGCCATTTTATATTTA
1 TTTATAG-CATTTTATATTTA
* *
20175143 TTTATTGCATTTTCTATTT
1 TTTATAGCATTTTATATTT
20175162 TAGTAGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTATAGCATTTTATATTTA
Found at i:20178135 original size:39 final size:39
Alignment explanation
Indices: 20178092--20178190 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
20178082 AACTTGTTTT
* * * *
20178092 TGAGTATTGTGATATATGCTTGAACATTATGCGATTATG
1 TGAGTATTGTGATATATGCTTGAACATCATGCAATCATA
** * *
20178131 TGAGTATTGCAATATGTGCTTGAACATCATGTAATCATA
1 TGAGTATTGTGATATATGCTTGAACATCATGCAATCATA
* *
20178170 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
20178191 AGAAGTGAAC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAACATCATGCAATCATA
Found at i:20180822 original size:39 final size:39
Alignment explanation
Indices: 20180768--20180858 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
20180758 TATACCGTAC
20180768 TGTACTTCAGTACCCCTAAATGCACATACA-TGCCCCTGT
1 TGTACTTCAGTACCCCTAAATGCACATA-AGTGCCCCTGT
* * *
20180807 TGTACTTCGGTACCCCTGAATGCACATAAGTGCCCTTGT
1 TGTACTTCAGTACCCCTAAATGCACATAAGTGCCCCTGT
20180846 TGTACTTCAGTAC
1 TGTACTTCAGTAC
20180859 TTATGATTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
38 1 0.02
39 46 0.98
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (39 bp):
TGTACTTCAGTACCCCTAAATGCACATAAGTGCCCCTGT
Found at i:20190546 original size:25 final size:25
Alignment explanation
Indices: 20190518--20190570 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
20190508 ACACCATTGC
20190518 TAACAATTATTTCTCTGTGGTGGTG
1 TAACAATTATTTCTCTGTGGTGGTG
*
20190543 TAACAATTCTTTCTCTGTGGTGGTG
1 TAACAATTATTTCTCTGTGGTGGTG
20190568 TAA
1 TAA
20190571 TTGAGTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (25 bp):
TAACAATTATTTCTCTGTGGTGGTG
Found at i:20200848 original size:15 final size:15
Alignment explanation
Indices: 20200828--20200856 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20200818 CTTAATTTTG
20200828 TTAGTTTTATTTAAC
1 TTAGTTTTATTTAAC
20200843 TTAGTTTTATTTAA
1 TTAGTTTTATTTAA
20200857 TTTCTACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAGTTTTATTTAAC
Found at i:20214002 original size:13 final size:13
Alignment explanation
Indices: 20213986--20214028 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
20213976 ACATATTTTT
*
20213986 AAAACATAGCTTG
1 AAAACATAACTTG
20213999 AAAACATAACTTG
1 AAAACATAACTTG
* *
20214012 GAAACATATCTTG
1 AAAACATAACTTG
20214025 AAAA
1 AAAA
20214029 ACTAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:20221927 original size:15 final size:14
Alignment explanation
Indices: 20221902--20221931 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
20221892 TTAAAAATAG
20221902 TGCAATGACTAAAT
1 TGCAATGACTAAAT
20221916 TGCAAGTGACTAAAT
1 TGCAA-TGACTAAAT
20221931 T
1 T
20221932 TGTGGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (14 bp):
TGCAATGACTAAAT
Found at i:20232945 original size:18 final size:19
Alignment explanation
Indices: 20232909--20232946 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
20232899 ATCCTCAAGC
* *
20232909 AAATGAAAAAGAAATAAAA
1 AAATGAAAAAAAAACAAAA
20232928 AAAT-AAAAAAAAACAAAA
1 AAATGAAAAAAAAACAAAA
20232946 A
1 A
20232947 TGAAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (19 bp):
AAATGAAAAAAAAACAAAA
Found at i:20232947 original size:16 final size:17
Alignment explanation
Indices: 20232909--20232962 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
20232899 ATCCTCAAGC
*
20232909 AAATGAAAAAGAAATAAAA
1 AAATGAAAAA-AAA-ACAA
20232928 AAAT-AAAAAAAAACAA
1 AAATGAAAAAAAAACAA
* *
20232944 AAATGAAACAAAAATAA
1 AAATGAAAAAAAAACAA
20232961 AA
1 AA
20232963 CACACGACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 7 0.23
17 15 0.48
18 5 0.16
19 4 0.13
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (17 bp):
AAATGAAAAAAAAACAA
Found at i:20232952 original size:11 final size:11
Alignment explanation
Indices: 20232927--20232964 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20232917 AAGAAATAAA
*
20232927 AAAATAAAAA-
1 AAAACAAAAAT
20232937 AAAACAAAAAT
1 AAAACAAAAAT
*
20232948 GAAACAAAAAT
1 AAAACAAAAAT
20232959 AAAACA
1 AAAACA
20232965 CACGACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (11 bp):
AAAACAAAAAT
Found at i:20236470 original size:7 final size:7
Alignment explanation
Indices: 20236457--20236497 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
20236447 GCATCCCTCA
20236457 ATCATTC
1 ATCATTC
*
20236464 CTCATTC
1 ATCATTC
*
20236471 AT-TTTC
1 ATCATTC
20236477 ATCATTC
1 ATCATTC
20236484 ATCATTC
1 ATCATTC
20236491 ATCATTC
1 ATCATTC
20236498 TCTCTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.46
Consensus pattern (7 bp):
ATCATTC
Found at i:20240799 original size:44 final size:45
Alignment explanation
Indices: 20240701--20240799 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
20240691 TACTATGTGA
* *
20240701 ACCGGGTACCATTGACTATAAAAGTGGTTGCTATGTGCTGATTCC
1 ACCGAGTATCATTGACTATAAAAGTGGTTGCTATGTGCTGATTCC
* * * *
20240746 ACTGAGTATCATTGATTAT-AAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAGTATCATTGACTATAAAAGTGGTTGCTATGTGCTGATTCC
*
20240790 ACCGTGTATC
1 ACCGAGTATC
20240800 TGTTATTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 31 0.67
45 15 0.33
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (45 bp):
ACCGAGTATCATTGACTATAAAAGTGGTTGCTATGTGCTGATTCC
Found at i:20241046 original size:13 final size:13
Alignment explanation
Indices: 20241028--20241053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20241018 AATACTCAGT
20241028 TTGGATTGAACGC
1 TTGGATTGAACGC
20241041 TTGGATTGAACGC
1 TTGGATTGAACGC
20241054 GGGATTGAGT
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:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
TTGGATTGAACGC
Found at i:20249329 original size:15 final size:15
Alignment explanation
Indices: 20249306--20249340 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
20249296 GTTCTACCCA
*
20249306 TTTTTCCAATTTCTC
1 TTTTCCCAATTTCTC
20249321 TTTTCCCAATTTCTC
1 TTTTCCCAATTTCTC
20249336 TTTTC
1 TTTTC
20249341 TCTTTTGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTCCCAATTTCTC
Found at i:20251833 original size:49 final size:50
Alignment explanation
Indices: 20251720--20251834 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 50
20251710 GAGGATGAGA
* * * *
20251720 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAAAGC
** * *
20251770 TCCCCCGTAAGACCATGTTTGGGA-ATGGCATGGGCACCAATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGA-AAGC
*
20251819 TCCCATGAAAGACCAT
1 TCCCATGTAAGACCAT
20251835 ATATGGGATA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
49 30 0.57
50 23 0.43
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAAAGC
Found at i:20252122 original size:12 final size:12
Alignment explanation
Indices: 20252105--20252143 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20252095 ATTAGTTATT
20252105 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
20252117 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
20252129 TAAGAAAGTAAG
1 TAAGTAAGCAAG
20252141 TAA
1 TAA
20252144 AGAAGAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:20259423 original size:50 final size:50
Alignment explanation
Indices: 20259357--20259542 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
20259347 GAGGATGAGA
* * **
20259357 TCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGACAAC
* * * * * *
20259407 TCCCCCGTAAGACCATGTCTGTGACATGGTATAGGCACTGATATGACAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGACAAC
* * * * *
20259457 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGACAAC
* * *
20259505 ATCCCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
20259543 TTTTATTATC
Statistics
Matches: 111, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
48 4 0.04
49 37 0.33
50 70 0.63
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGACAAC
Found at i:20259761 original size:12 final size:12
Alignment explanation
Indices: 20259744--20259782 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20259734 ATGAGTTATT
20259744 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
20259756 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
20259768 TAAGAAAGTAAG
1 TAAGTAAGCAAG
20259780 TAA
1 TAA
20259783 AGAAGAAACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:20265419 original size:13 final size:13
Alignment explanation
Indices: 20265396--20265431 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
20265386 CCGTGTGAGT
*
20265396 CACACGACCTAGC
1 CACACGGCCTAGC
*
20265409 CACATGGCCTAGC
1 CACACGGCCTAGC
20265422 CACACGGCCT
1 CACACGGCCT
20265432 TGTGACCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.25, C:0.44, G:0.19, T:0.11
Consensus pattern (13 bp):
CACACGGCCTAGC
Found at i:20271271 original size:11 final size:10
Alignment explanation
Indices: 20271251--20271283 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
20271241 TAGCATAGAA
20271251 TTTTTCAAAT
1 TTTTTCAAAT
*
20271261 TTTTTCAAAA
1 TTTTTCAAAT
20271271 TTTTT-AAAT
1 TTTTTCAAAT
20271280 TTTT
1 TTTT
20271284 GTTGTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTCAAAT
Found at i:20278593 original size:40 final size:40
Alignment explanation
Indices: 20278534--20278744 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
20278524 CATTTGAATG
*
20278534 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
20278574 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
20278614 TTATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
20278653 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
20278693 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
20278733 ATATCC-GGCTAA
1 ATATCCGGGCTAA
20278745 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 38 0.25
40 113 0.75
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:20278672 original size:79 final size:80
Alignment explanation
Indices: 20278534--20278744 Score: 250
Period size: 79 Copynumber: 2.7 Consensus size: 80
20278524 CATTTGAATG
* * * *
20278534 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* *
20278599 TTTATGCTAG-TGATT
66 TTTATGCGAGTTG-CT
*
20278614 TTATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
*
20278677 ATTTGTGCGAGTTGCT
65 ATTTATGCGAGTTGCT
* * * ** *
20278693 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
20278745 ATTCCGAAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 71 0.63
80 41 0.37
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTTGCT
Found at i:20288571 original size:27 final size:27
Alignment explanation
Indices: 20288540--20288717 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
20288530 TAAAATGTGC
*
20288540 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20288567 TGCAC-AAGTGTGCGAAAATGAATATG-
1 AGCACTAAGTGTGCG-AATTGACTATGT
* *
20288593 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
20288621 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20288648 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20288675 AGCACTAAGTGTGCGGATTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20288702 AAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCG
20288718 GACTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
26 9 0.07
27 93 0.74
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:20288680 original size:81 final size:81
Alignment explanation
Indices: 20288541--20288695 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
20288531 AAAATGTGCA
* * *
20288541 GCACTAAGTGTGCGATTTGACTATGTTGCACAAGTGTGCGAAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACAAGTGTGCGAAAATGAATACGATGCACTAAGTGT
20288606 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
20288622 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCAC-AAGTGTGCGAAAATGAATACGAT-GCACTAAGT
*
20288685 GTGCGGATTGA
64 GTGCGAATTGA
20288696 TTATATAAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.02
81 55 0.85
82 9 0.14
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACAAGTGTGCGAAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20288728 original size:28 final size:28
Alignment explanation
Indices: 20288675--20288728 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
20288665 TTGATTACGT
* * *
20288675 AGCACTAAGTGTGCGGATTGATTATATA
1 AGCACTAAGTGTGCGGACTCAATATATA
*
20288703 AGCACTGAGTGTGCGGACTCAATATA
1 AGCACTAAGTGTGCGGACTCAATATA
20288729 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGACTCAATATATA
Found at i:20290190 original size:39 final size:40
Alignment explanation
Indices: 20290145--20290368 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
20290135 GCTCCTCGTT
* * * *
20290145 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20290185 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20290224 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
20290264 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
20290303 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20290344 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20290369 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 65 0.42
40 77 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20290238 original size:40 final size:38
Alignment explanation
Indices: 20290112--20290368 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
20290102 AAATCACGTA
* * *
20290112 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
20290151 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
20290190 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
20290230 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
*
20290270 CCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
20290309 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
20290349 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
20290369 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
38 4 0.02
39 78 0.43
40 89 0.49
41 9 0.05
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:20290301 original size:79 final size:78
Alignment explanation
Indices: 20290145--20290368 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 78
20290135 GCTCCTCGTT
* * *
20290145 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
20290210 TTTAATGACTCGCA
66 TTTAAT-ACTCGCA
* * * *
20290224 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
20290288 AACTTGT-AT-CTCGCA
65 -A-TT-TAATACTCGCA
* ** * * * * * *
20290303 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACTTAACCCG
20290367 GA
64 GA
20290369 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 88 0.73
80 24 0.20
81 4 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
TTTAATACTCGCA
Found at i:20290377 original size:41 final size:41
Alignment explanation
Indices: 20290300--20290377 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20290290 CTTGTATCTC
* * *
20290300 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20290341 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20290378 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20297691 original size:39 final size:40
Alignment explanation
Indices: 20297646--20297869 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
20297636 GCTCCTCGTT
* * * *
20297646 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20297686 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20297725 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
20297765 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
20297804 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20297845 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20297870 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 65 0.42
40 77 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20297739 original size:40 final size:38
Alignment explanation
Indices: 20297613--20297869 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
20297603 AAATCACGTA
* * *
20297613 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
20297652 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
20297691 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
20297731 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
*
20297771 CCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
20297810 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
20297850 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
20297870 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
38 4 0.02
39 78 0.43
40 89 0.49
41 9 0.05
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:20297802 original size:79 final size:78
Alignment explanation
Indices: 20297646--20297869 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 78
20297636 GCTCCTCGTT
* * *
20297646 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
20297711 TTTAATGACTCGCA
66 TTTAAT-ACTCGCA
* * * *
20297725 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
20297789 AACTTGT-AT-CTCGCA
65 -A-TT-TAATACTCGCA
* ** * * * * * *
20297804 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACTTAACCCG
20297868 GA
64 GA
20297870 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 88 0.73
80 24 0.20
81 4 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
TTTAATACTCGCA
Found at i:20297878 original size:41 final size:41
Alignment explanation
Indices: 20297801--20297878 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20297791 CTTGTATCTC
* * *
20297801 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20297842 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20297879 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20300571 original size:28 final size:27
Alignment explanation
Indices: 20300539--20300604 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 27
20300529 AATAAAAAAG
**
20300539 AATAATTAAAATTATAAAATTTATTAGA
1 AATAATTAAAACCATAAAATTTATTA-A
*
20300567 AATAAATTAAAAACCATATAATTTATTAA
1 AAT-AATT-AAAACCATAAAATTTATTAA
*
20300596 AAAAATTAA
1 AATAATTAA
20300605 TTTATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.06
28 7 0.22
29 7 0.22
30 16 0.50
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAATTAAAACCATAAAATTTATTAA
Found at i:20300596 original size:19 final size:19
Alignment explanation
Indices: 20300572--20300620 Score: 75
Period size: 17 Copynumber: 2.7 Consensus size: 19
20300562 TTAGAAATAA
20300572 ATTAAAAACCATATAATTT
1 ATTAAAAACCATATAATTT
*
20300591 ATTAAAAA-AAT-TAATTT
1 ATTAAAAACCATATAATTT
20300608 ATTAAAAACCATA
1 ATTAAAAACCATA
20300621 AAAATAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 14 0.54
18 4 0.15
19 8 0.31
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAACCATATAATTT
Found at i:20300683 original size:10 final size:10
Alignment explanation
Indices: 20300668--20300727 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
20300658 AATTAAAACC
20300668 ATAAAATTTT
1 ATAAAATTTT
*
20300678 ATAAAAATAATT
1 AT-AAAAT-TTT
*
20300690 A-AATATTTT
1 ATAAAATTTT
20300699 ATAAAATTTT
1 ATAAAATTTT
20300709 ATAAAATTTT
1 ATAAAATTTT
20300719 ATAAAATTT
1 ATAAAATTT
20300728 ATTTTTCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 3 0.07
10 32 0.74
11 5 0.12
12 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:20302287 original size:15 final size:15
Alignment explanation
Indices: 20302267--20302296 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20302257 CTTTTTGACA
20302267 AAATTGCAATATGTT
1 AAATTGCAATATGTT
20302282 AAATTGCAATATGTT
1 AAATTGCAATATGTT
20302297 TTGCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
AAATTGCAATATGTT
Found at i:20315168 original size:46 final size:47
Alignment explanation
Indices: 20315074--20315169 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
20315064 GTATAAAGGT
20315074 ACTTTTATCAGTTATGATACATACACAAAAAAATATATTCATAATAA
1 ACTTTTATCAGTTATGATACATACACAAAAAAATATATTCATAATAA
20315121 ACTTTTATCAGTTATGATACATACACAAAAAAA-ATATTCATAATAA
1 ACTTTTATCAGTTATGATACATACACAAAAAAATATATTCATAATAA
20315167 ACT
1 ACT
20315170 CAAATTATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 16 0.33
47 33 0.67
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (47 bp):
ACTTTTATCAGTTATGATACATACACAAAAAAATATATTCATAATAA
Found at i:20316247 original size:19 final size:19
Alignment explanation
Indices: 20316223--20316362 Score: 90
Period size: 19 Copynumber: 7.5 Consensus size: 19
20316213 CTGTACAGGT
20316223 ATATGCACTTTGTGTGCCA
1 ATATGCACTTTGTGTGCCA
* *
20316242 ATATGCAC-TTATGTGCTA
1 ATATGCACTTTGTGTGCCA
* *
20316260 GTATGCACTTCGTGTGCCA
1 ATATGCACTTTGTGTGCCA
* * * *
20316279 GGA-ATGCGC-TTATGCGCTA
1 --ATATGCACTTTGTGTGCCA
* * *
20316298 GTATGCACTTCGTGTGCTA
1 ATATGCACTTTGTGTGCCA
* * *
20316317 GTATGCGC-TTGTGGGCCA
1 ATATGCACTTTGTGTGCCA
* *
20316335 AGATGCACTTTGTGCGCCA
1 ATATGCACTTTGTGTGCCA
20316354 ATATGCACT
1 ATATGCACT
20316363 ATATGTGCTA
Statistics
Matches: 89, Mismatches: 26, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
18 32 0.36
19 52 0.58
20 5 0.06
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (19 bp):
ATATGCACTTTGTGTGCCA
Found at i:20316275 original size:37 final size:37
Alignment explanation
Indices: 20316224--20316374 Score: 153
Period size: 37 Copynumber: 4.0 Consensus size: 37
20316214 TGTACAGGTA
*
20316224 TATGCACTTTGTGTGCCAATATGCACTTATGTGCTAG
1 TATGCACTTCGTGTGCCAATATGCACTTATGTGCTAG
* *
20316261 TATGCACTTCGTGTGCCAGGA-ATGCGCTTATGCGCTAG
1 TATGCACTTCGTGTGCCA--ATATGCACTTATGTGCTAG
* * * * * *
20316299 TATGCACTTCGTGTGCTAGTATGCGCTTGTGGGCCAAG
1 TATGCACTTCGTGTGCCAATATGCACTTATGTG-CTAG
* *
20316337 -ATGCACTTTGTGCGCCAATATGCACTATATGTGCTAG
1 TATGCACTTCGTGTGCCAATATGCACT-TATGTGCTAG
20316374 T
1 T
20316375 TTCTATTACT
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
37 52 0.57
38 39 0.42
39 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (37 bp):
TATGCACTTCGTGTGCCAATATGCACTTATGTGCTAG
Found at i:20316494 original size:43 final size:43
Alignment explanation
Indices: 20316356--20316493 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
20316346 GTGCGCCAAT
* * * * *
20316356 ATGCACTATATGTGCTAGTTTCTATTACTTCGGTTTAACCGATT
1 ATGCACTATATGTGCTAGTATAT-TTTCTTCGGTTTATCCGATA
* * * * *
20316400 ATGCACT-TATGTACCAGTATAGTTTATTCGGTTTATCCAATA
1 ATGCACTATATGTGCTAGTATATTTTCTTCGGTTTATCCGATA
** * * *
20316442 ACACACTATGTGTGCTAGTATATTTTCTTCGGTTTATTCGATG
1 ATGCACTATATGTGCTAGTATATTTTCTTCGGTTTATCCGATA
20316485 ATGCACTAT
1 ATGCACTAT
20316494 GATGCTAAAT
Statistics
Matches: 71, Mismatches: 22, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
42 20 0.28
43 44 0.62
44 7 0.10
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (43 bp):
ATGCACTATATGTGCTAGTATATTTTCTTCGGTTTATCCGATA
Found at i:20319585 original size:4 final size:4
Alignment explanation
Indices: 20319571--20319633 Score: 108
Period size: 4 Copynumber: 15.8 Consensus size: 4
20319561 ACACACACAC
* *
20319571 ACAT ACGT ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
20319619 ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACA
20319634 ACAACTTCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:20323990 original size:14 final size:15
Alignment explanation
Indices: 20323971--20323999 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20323961 ACTAAAAATG
20323971 CTATGGCAAA-GATA
1 CTATGGCAAATGATA
20323985 CTATGGCAAATGATA
1 CTATGGCAAATGATA
20324000 GAAGGTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (15 bp):
CTATGGCAAATGATA
Found at i:20325383 original size:13 final size:13
Alignment explanation
Indices: 20325367--20325399 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20325357 GATTAGAAAT
*
20325367 TAAATAACTAATA
1 TAAATAAATAATA
20325380 TAAATAAATAATA
1 TAAATAAATAATA
20325393 -AAATAAA
1 TAAATAAA
20325400 CAAATGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAATAATA
Done.