Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 11 of 345
Found at i:3783721 original size:117 final size:116
Alignment explanation
Indices: 3783406--3783850 Score: 802
Period size: 117 Copynumber: 3.8 Consensus size: 116
3783396 TTTATATTTT
3783406 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCC-TATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
3783470 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
3783521 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
3783586 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCT-A
* * * * *
3783638 ATTCCATGAAATAATTTAGAAATATTTAAAATGTTGCCTTATTTAAAATAATTTCCATTTTACTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
3783703 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
3783754 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
3783819 AAAAATATAAAAGTAAATTACAATTACTTTAT
65 AAAAATATAAAAGTAAATTACAATTACTTTAT
3783851 GTAACACCCC
Statistics
Matches: 313, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
115 38 0.12
116 135 0.43
117 140 0.45
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:3783803 original size:233 final size:233
Alignment explanation
Indices: 3783410--3783850 Score: 821
Period size: 233 Copynumber: 1.9 Consensus size: 233
3783400 TATTTTATTA
*
3783410 CATGAAATAATATAAAAATATTCAAAATGTTGCCTATTTAAAATAATTTCCATTTTATTAAAAAT
1 CATGAAATAATATAAAAATATTCAAAATGTTGCCTATTTAAAATAATTTCCATTTTACTAAAAAT
3783475 ATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAATATAA
66 ATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAATATAA
3783540 AAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-AAAAATATAAAAGTAAATT
131 AAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAAATATAAAAGTAAATT
3783604 ACAATTACTTTATTTAAAACAACCTTTTATATAAATTC
196 ACAATTACTTTATTTAAAACAACCTTTTATATAAATTC
* * *
3783642 CATGAAATAATTTAGAAATATTTAAAATGTTGCCTTATTTAAAATAATTTCCATTTTACTAAAAA
1 CATGAAATAATATAAAAATATTCAAAATGTTGCC-TATTTAAAATAATTTCCATTTTACTAAAAA
*
3783707 TATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAATATA
65 TATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAATATA
3783772 AAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAAATATAAAAGTAAAT
130 AAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAAATATAAAAGTAAAT
3783837 TACAATTACTTTAT
195 TACAATTACTTTAT
3783851 GTAACACCCC
Statistics
Matches: 202, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
232 31 0.15
233 139 0.69
234 32 0.16
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.40
Consensus pattern (233 bp):
CATGAAATAATATAAAAATATTCAAAATGTTGCCTATTTAAAATAATTTCCATTTTACTAAAAAT
ATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAATATAA
AAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAAATATAAAAGTAAATT
ACAATTACTTTATTTAAAACAACCTTTTATATAAATTC
Found at i:3784815 original size:46 final size:46
Alignment explanation
Indices: 3784664--3784932 Score: 376
Period size: 46 Copynumber: 5.8 Consensus size: 46
3784654 TGATGTCATA
* * * ** * *
3784664 GTATCTTTCAACTATGGTTTTACTCGTTTTTTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *** *
3784710 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
3784757 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
3784803 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
3784849 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
3784895 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGG
3784933 GAGCACACTC
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 163 0.80
47 42 0.20
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:3786087 original size:14 final size:14
Alignment explanation
Indices: 3786070--3786100 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3786060 ATAATATAGT
3786070 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
3786084 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
3786098 ATA
1 ATA
3786101 GAAAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:3786155 original size:42 final size:42
Alignment explanation
Indices: 3786109--3786189 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
3786099 TAGAAAAGTT
* *
3786109 ACAGAGAACAGACGTGAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAACAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
* *
3786151 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAACAAACGTGAGAAAGAAAGAAAGAAAGAAAGA
3786190 AAGAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.05
Consensus pattern (42 bp):
ACAGAGAACAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:3789126 original size:20 final size:20
Alignment explanation
Indices: 3789093--3789143 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3789083 TAACGAGAGT
3789093 TTTGAGAAGAATTTAAGAGAAA
1 TTTGAG-AG-ATTTAAGAGAAA
* *
3789115 TTTGAGAGATTTGAGAGGAA
1 TTTGAGAGATTTAAGAGAAA
3789135 TTTGAGAGA
1 TTTGAGAGA
3789144 ATATTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 2 0.07
22 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:3789150 original size:11 final size:10
Alignment explanation
Indices: 3789093--3789150 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
3789083 TAACGAGAGT
3789093 TTTGAGAAGAA
1 TTTGAG-AGAA
*
3789104 TTTAAGAGAAA
1 TTTGAGAG-AA
3789115 TTTGAGAG-A
1 TTTGAGAGAA
3789124 TTTGAGAGGAA
1 TTTGAGA-GAA
3789135 TTTGAGAGAA
1 TTTGAGAGAA
3789145 TATTGA
1 T-TTGA
3789151 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 7 0.17
11 26 0.63
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:3789156 original size:31 final size:31
Alignment explanation
Indices: 3789093--3789156 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
3789083 TAACGAGAGT
*
3789093 TTTGAGAAGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAAGAATTTAAGAGAAATTTGAAAGA
* *
3789124 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAAGAATTTAAGAGAAAT-TTGAAAGA
3789155 TT
1 TT
3789157 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAAGAATTTAAGAGAAATTTGAAAGA
Found at i:3792741 original size:2 final size:2
Alignment explanation
Indices: 3792734--3792774 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3792724 ACTATTCAAC
3792734 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA T
3792775 TTAAATTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3794388 original size:13 final size:13
Alignment explanation
Indices: 3794370--3794401 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3794360 ATAGTTTAAT
3794370 AATAAAATAAAGA
1 AATAAAATAAAGA
*
3794383 AATAAAATAAATA
1 AATAAAATAAAGA
3794396 AATAAA
1 AATAAA
3794402 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:3794396 original size:17 final size:17
Alignment explanation
Indices: 3794374--3794410 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3794364 TTTAATAATA
3794374 AAATAAAGAAATAAAAT
1 AAATAAAGAAATAAAAT
* *
3794391 AAATAAATAAATGAAAT
1 AAATAAAGAAATAAAAT
3794408 AAA
1 AAA
3794411 AGAAATGAAA
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:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAAGAAATAAAAT
Found at i:3795712 original size:15 final size:15
Alignment explanation
Indices: 3795689--3795736 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
3795679 TATCAAATTT
3795689 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
3795704 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
3795719 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
3795733 ATAT
1 ATAT
3795737 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:3796261 original size:23 final size:23
Alignment explanation
Indices: 3796224--3796289 Score: 114
Period size: 23 Copynumber: 2.8 Consensus size: 23
3796214 AGGATTTATA
*
3796224 ATATTCCGAGTGTGTTTGGGTTGG
1 ATATTCTG-GTGTGTTTGGGTTGG
3796248 ATATTCTGGTGTGTTTGGGTTGG
1 ATATTCTGGTGTGTTTGGGTTGG
3796271 ATATTCTGGTGTGTTTGGG
1 ATATTCTGGTGTGTTTGGG
3796290 AGGAATCCAC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 34 0.83
24 7 0.17
ACGTcount: A:0.11, C:0.06, G:0.38, T:0.45
Consensus pattern (23 bp):
ATATTCTGGTGTGTTTGGGTTGG
Found at i:3798262 original size:53 final size:53
Alignment explanation
Indices: 3798121--3798271 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
3798111 ACAAGTGTGC
* **
3798121 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
3798174 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
3798227 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
3798272 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:3798878 original size:53 final size:53
Alignment explanation
Indices: 3798797--3798947 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
3798787 CTTACACGGT
* *
3798797 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
3798852 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
3798905 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
3798948 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:3806370 original size:53 final size:53
Alignment explanation
Indices: 3806289--3806439 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
3806279 CTTACACGGT
* *
3806289 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
3806344 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
3806397 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
3806440 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:3814612 original size:53 final size:53
Alignment explanation
Indices: 3814471--3814621 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
3814461 ACAAGTGTGC
* **
3814471 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
3814524 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
3814577 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
3814622 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:3818122 original size:47 final size:49
Alignment explanation
Indices: 3818045--3818177 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 49
3818035 TGTAACCCGC
*
3818045 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
3818095 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
3818139 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
3818178 TTCAACCATC
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.04
44 5 0.07
45 1 0.01
46 2 0.03
47 58 0.81
48 2 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:3818631 original size:30 final size:30
Alignment explanation
Indices: 3818597--3818656 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3818587 CCTTAATACG
3818597 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
3818627 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
3818657 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:3826899 original size:24 final size:24
Alignment explanation
Indices: 3826872--3826919 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3826862 ATCACAAATA
3826872 AAGAAGTTTTTATAGCAGATAACT
1 AAGAAGTTTTTATAGCAGATAACT
3826896 AAGAAGTTTTTATAGCAGATAACT
1 AAGAAGTTTTTATAGCAGATAACT
3826920 CTTCTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (24 bp):
AAGAAGTTTTTATAGCAGATAACT
Found at i:3830633 original size:21 final size:20
Alignment explanation
Indices: 3830594--3830657 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
3830584 ATTATTAAAT
3830594 TTTTAAAAT-ATATAAAATTA
1 TTTTAAAATAAT-TAAAATTA
3830614 TTTTAAAATAATTAAGAATTA
1 TTTTAAAATAATTAA-AATTA
3830635 --TTAAAA-AATT-AAATTA
1 TTTTAAAATAATTAAAATTA
3830651 TTTTAAA
1 TTTTAAA
3830658 TTACAATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 9 0.22
19 6 0.15
20 12 0.30
21 7 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTTAAAATAATTAAAATTA
Found at i:3830656 original size:18 final size:19
Alignment explanation
Indices: 3830594--3830657 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
3830584 ATTATTAAAT
*
3830594 TTTTAAAATATATAAAATTA
1 TTTTAAAATA-ATTAAATTA
3830614 TTTTAAAATAATTAAGA--A
1 TTTTAAAATAATTAA-ATTA
3830632 TTATTAAAA-AATTAAATTA
1 TT-TTAAAATAATTAAATTA
3830651 TTTTAAA
1 TTTTAAA
3830658 TTACAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 1 0.03
18 14 0.36
19 13 0.33
20 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTTAAAATAATTAAATTA
Found at i:3845097 original size:29 final size:29
Alignment explanation
Indices: 3845057--3845123 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
3845047 TGACAGAAAA
*
3845057 AAAAAAAG-AGTTTAGATATTAAGAAGAG
1 AAAAAGAGTAGTTTAGATATTAAGAAGAG
*
3845085 AAAAAGAGTAGTTTAGATATTAAGATGAG
1 AAAAAGAGTAGTTTAGATATTAAGAAGAG
3845114 AAAAAGAGTA
1 AAAAAGAGTA
3845124 TACTTTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 7 0.19
29 29 0.81
ACGTcount: A:0.55, C:0.00, G:0.22, T:0.22
Consensus pattern (29 bp):
AAAAAGAGTAGTTTAGATATTAAGAAGAG
Found at i:3847127 original size:7 final size:7
Alignment explanation
Indices: 3847115--3847144 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
3847105 GAGTTCAGAA
3847115 AAAAAAG
1 AAAAAAG
3847122 AAAAAA-
1 AAAAAAG
3847128 AAAAAAG
1 AAAAAAG
3847135 AAAAAAG
1 AAAAAAG
3847142 AAA
1 AAA
3847145 GGCACCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:3847131 original size:13 final size:13
Alignment explanation
Indices: 3847113--3847140 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3847103 AGGAGTTCAG
3847113 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
3847126 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
3847139 AA
1 AA
3847141 GAAAGGCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:3848131 original size:18 final size:18
Alignment explanation
Indices: 3848095--3848132 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3848085 TCTAGTTCAA
*
3848095 TTATAATTTTTGCACTTG
1 TTATAATTTTTGCAATTG
3848113 TTATAATATTTT-CAATTG
1 TTATAAT-TTTTGCAATTG
3848131 TT
1 TT
3848133 TTAAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (18 bp):
TTATAATTTTTGCAATTG
Found at i:3850151 original size:18 final size:18
Alignment explanation
Indices: 3850114--3850151 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3850104 AATATAATAC
3850114 AATTAAAATGTAAATATTA
1 AATTAAAA-GTAAATATTA
3850133 AATTAAAA-TAAATTATTA
1 AATTAAAAGTAAA-TATTA
3850151 A
1 A
3850152 TTTAGTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTAAAAGTAAATATTA
Found at i:3851004 original size:6 final size:6
Alignment explanation
Indices: 3850993--3851018 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3850983 AATTTCTGCT
3850993 GCCAAA GCCAAA GCCAAA GCCAAA GC
1 GCCAAA GCCAAA GCCAAA GCCAAA GC
3851019 TTGTTAAAAC
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:0.46, C:0.35, G:0.19, T:0.00
Consensus pattern (6 bp):
GCCAAA
Found at i:3853583 original size:2 final size:2
Alignment explanation
Indices: 3853576--3853602 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3853566 TATGAATAAA
3853576 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3853603 ATCTTTTTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3857535 original size:2 final size:2
Alignment explanation
Indices: 3857479--3857520 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3857469 TGAATTGTAT
*
3857479 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3857521 GCATCTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3860532 original size:40 final size:40
Alignment explanation
Indices: 3860476--3860567 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
3860466 TTGTTACTTT
3860476 TTTTTCTTTTATTATCTCTTGTTCAATTAGAACTCTTGTGA
1 TTTTT-TTTTATTATCTCTTGTTCAATTAGAACTCTTGTGA
3860517 TTTTTTTTTATTATCTCTTGTTCAATTAGAACTCTTGTGA
1 TTTTTTTTTATTATCTCTTGTTCAATTAGAACTCTTGTGA
*
3860557 TTTTTCTTTAT
1 TTTTTTTTTAT
3860568 AAATAGAGAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.60
Consensus pattern (40 bp):
TTTTTTTTTATTATCTCTTGTTCAATTAGAACTCTTGTGA
Found at i:3863213 original size:30 final size:30
Alignment explanation
Indices: 3863177--3863236 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
3863167 TTCAAACGAG
3863177 TTAAACCTCAAATTGGTCAACCATGCTGAA
1 TTAAACCTCAAATTGGTCAACCATGCTGAA
3863207 TTAAACCTCAAATTGGTCAACCATGCTGAA
1 TTAAACCTCAAATTGGTCAACCATGCTGAA
3863237 GGGACTCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (30 bp):
TTAAACCTCAAATTGGTCAACCATGCTGAA
Found at i:3868544 original size:3 final size:3
Alignment explanation
Indices: 3868536--3868571 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3868526 GGGTTGACTT
3868536 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
3868572 AGGTATTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:3869588 original size:24 final size:24
Alignment explanation
Indices: 3869539--3869597 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
3869529 AAATTTAATT
* *
3869539 TTAAAATTT-AAAAAGTAAAAAAA
1 TTAAATTTTAAAAAAATAAAAAAA
* *
3869562 TTAAATTTTAAAAAAATATAAAGA
1 TTAAATTTTAAAAAAATAAAAAAA
3869586 TTAAATTTTAAA
1 TTAAATTTTAAA
3869598 TTTATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (24 bp):
TTAAATTTTAAAAAAATAAAAAAA
Found at i:3877745 original size:16 final size:16
Alignment explanation
Indices: 3877724--3877756 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3877714 CATTGTTTTC
*
3877724 TAGAGGTCTGATATTT
1 TAGAGGACTGATATTT
3877740 TAGAGGACTGATATTT
1 TAGAGGACTGATATTT
3877756 T
1 T
3877757 CCATCTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (16 bp):
TAGAGGACTGATATTT
Found at i:3886379 original size:20 final size:20
Alignment explanation
Indices: 3886332--3886379 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
3886322 TACATGAGAA
*
3886332 TAAAAAATAACTCTTAATTT
1 TAAAAAATAACACTTAATTT
*
3886352 AAAGAAAATAA-ACTTAATTAT
1 TAA-AAAATAACACTTAATT-T
3886373 TAAAAAA
1 TAAAAAA
3886380 ATTCAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAAATAACACTTAATTT
Found at i:3886380 original size:21 final size:20
Alignment explanation
Indices: 3886333--3886381 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
3886323 ACATGAGAAT
*
3886333 AAAAAATAACTCTTAATTTA
1 AAAAAATAACACTTAATTTA
3886353 AAGAAAATAA-ACTTAATTATTA
1 AA-AAAATAACACTTAA-T-TTA
3886375 AAAAAAT
1 AAAAAAT
3886382 TCAAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.28
21 13 0.52
22 5 0.20
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAATAACACTTAATTTA
Found at i:3886473 original size:18 final size:19
Alignment explanation
Indices: 3886446--3886484 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3886436 GTTTATTTTC
*
3886446 TTTAAATTAA-GAGTTATT
1 TTTAAATTAATGAATTATT
*
3886464 TTTAACTTAATGAATTATT
1 TTTAAATTAATGAATTATT
3886483 TT
1 TT
3886485 ATTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTAAATTAATGAATTATT
Found at i:3886489 original size:27 final size:25
Alignment explanation
Indices: 3886459--3886512 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
3886449 AAATTAAGAG
3886459 TTATTTTTAACTTAATGAATTATTTTA
1 TTATTTTTAACTT-AT-AATTATTTTA
* *
3886486 TTATTTTTCACTTGTAATTATTTTA
1 TTATTTTTAACTTATAATTATTTTA
3886511 TT
1 TT
3886513 GAGTTATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 12 0.48
26 1 0.04
27 12 0.48
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (25 bp):
TTATTTTTAACTTATAATTATTTTA
Found at i:3887218 original size:41 final size:40
Alignment explanation
Indices: 3887138--3887218 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
3887128 TATTATAATT
*
3887138 TATATAATATTATAAATAATTTTTATAAGTTATTTATTTTA
1 TATATAATATTATAAATAATTTTTATAAG-TATTCATTTTA
*
3887179 TATATATTATTATCAAACTAATTTTT-TAA-TATTCCATTTT
1 TATATAATATTAT-AAA-TAATTTTTATAAGTATT-CATTTT
3887219 TCATAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 4 0.11
41 17 0.49
42 6 0.17
43 8 0.23
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (40 bp):
TATATAATATTATAAATAATTTTTATAAGTATTCATTTTA
Found at i:3892316 original size:17 final size:17
Alignment explanation
Indices: 3892290--3892327 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
3892280 AATGTGCTAT
3892290 TTCTTGATTAACATGCA
1 TTCTTGATTAACATGCA
*
3892307 TTCTTTATTAACATGCA
1 TTCTTGATTAACATGCA
3892324 TTCT
1 TTCT
3892328 ACTGAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.47
Consensus pattern (17 bp):
TTCTTGATTAACATGCA
Found at i:3904441 original size:17 final size:16
Alignment explanation
Indices: 3904402--3904432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3904392 AATTATCGTA
*
3904402 TTTTTTAAAATTTTAG
1 TTTTATAAAATTTTAG
3904418 TTTTATAAAATTTTA
1 TTTTATAAAATTTTA
3904433 TAGTTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTATAAAATTTTAG
Found at i:3904641 original size:20 final size:20
Alignment explanation
Indices: 3904618--3904682 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
3904608 CAAAATGATT
3904618 TAAATATCAAAATAGAAAAA
1 TAAATATCAAAATAGAAAAA
* **
3904638 TAAATAT-AAAA-A-ATGATT
1 TAAATATCAAAATAGA-AAAA
*
3904656 TGAATATCAAAATAGAAAAA
1 TAAATATCAAAATAGAAAAA
3904676 TAAATAT
1 TAAATAT
3904683 ACTTTTAAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
19 8 0.24
20 15 0.45
21 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (20 bp):
TAAATATCAAAATAGAAAAA
Found at i:3904662 original size:38 final size:38
Alignment explanation
Indices: 3904609--3904683 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
3904599 AAATTAAGAC
3904609 AAAATGATTTAAATATCAAAATAGAAAAATAAATATAA
1 AAAATGATTTAAATATCAAAATAGAAAAATAAATATAA
*
3904647 AAAATGATTTGAATATCAAAATAGAAAAATAAATATA
1 AAAATGATTTAAATATCAAAATAGAAAAATAAATATA
3904684 CTTTTAAGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (38 bp):
AAAATGATTTAAATATCAAAATAGAAAAATAAATATAA
Found at i:3905766 original size:12 final size:11
Alignment explanation
Indices: 3905745--3905791 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
3905735 GTTAGTACTT
3905745 AAAAATATTAA
1 AAAAATATTAA
3905756 AAAATATATT-A
1 AAAA-ATATTAA
* *
3905767 AAAATTAGTAA
1 AAAAATATTAA
3905778 AAAAATATTTAA
1 AAAAATA-TTAA
3905790 AA
1 AA
3905792 TTTTTAGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 3 0.10
11 16 0.55
12 10 0.34
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AAAAATATTAA
Found at i:3905769 original size:21 final size:20
Alignment explanation
Indices: 3905743--3905792 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
3905733 ACGTTAGTAC
*
3905743 TTAAAAATATTAAAAAATATA
1 TTAAAAATAGTAAAAAA-ATA
3905764 TTAAAAATTAGTAAAAAAATA
1 TTAAAAA-TAGTAAAAAAATA
*
3905785 TTTAAAAT
1 TTAAAAAT
3905793 TTTTAGGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.62
22 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAAAAATAGTAAAAAAATA
Found at i:3905793 original size:21 final size:22
Alignment explanation
Indices: 3905743--3905793 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3905733 ACGTTAGTAC
* *
3905743 TTAAAAATATTAAAAAATATAT
1 TTAAAATTAGTAAAAAATATAT
*
3905765 TAAAAATTAGTAAAAAA-ATAT
1 TTAAAATTAGTAAAAAATATAT
3905786 TTAAAATT
1 TTAAAATT
3905794 TTTAGGTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAATTAGTAAAAAATATAT
Found at i:3911691 original size:12 final size:12
Alignment explanation
Indices: 3911676--3911722 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
3911666 TTTAAACCAA
3911676 ACTTTTCAAAGC
1 ACTTTTCAAAGC
*
3911688 ACTTCTCAAAGC
1 ACTTTTCAAAGC
*
3911700 ACTTTTTCACAGC
1 AC-TTTTCAAAGC
3911713 ACTTTTCAAA
1 ACTTTTCAAA
3911723 AGTATTGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (12 bp):
ACTTTTCAAAGC
Found at i:3917758 original size:28 final size:28
Alignment explanation
Indices: 3917705--3917788 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
3917695 CACTTTGTGC
3917705 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
3917734 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
3917762 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
3917789 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:3917800 original size:23 final size:24
Alignment explanation
Indices: 3917709--3917802 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
3917699 TTGTGCTATT
3917709 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
3917736 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
3917766 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
3917789 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
3917803 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:3921174 original size:16 final size:17
Alignment explanation
Indices: 3921149--3921182 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3921139 TAATGTCTAG
3921149 GAAAAGTA-TTAATTGA
1 GAAAAGTATTTAATTGA
*
3921165 GAAAATTATTTAATTGA
1 GAAAAGTATTTAATTGA
3921182 G
1 G
3921183 GGGTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
GAAAAGTATTTAATTGA
Found at i:3925636 original size:12 final size:13
Alignment explanation
Indices: 3925606--3925640 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
3925596 CTATCTCAAT
3925606 TAATAGATAAAATA
1 TAATA-ATAAAATA
3925620 TAATAATAAAA-A
1 TAATAATAAAATA
3925632 TAATAATAA
1 TAATAATAA
3925641 GTAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 6 0.29
14 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
TAATAATAAAATA
Found at i:3928598 original size:42 final size:44
Alignment explanation
Indices: 3928532--3928631 Score: 105
Period size: 47 Copynumber: 2.2 Consensus size: 44
3928522 TATAGTTCAA
** *
3928532 CTATGGTCTTACACATCTTTACATA-A-TGATGTCATAGCCCAG
1 CTATGGTCTTACACATAATCACATACACTGATGTCATAGCCCAG
* *
3928574 CTATGGTCTTACACGTAATCACATATCTCACTGATGTCATATCCCAG
1 CTATGGTCTTACACATAATCACATA---CACTGATGTCATAGCCCAG
*
3928621 ATATGGTCTTA
1 CTATGGTCTTA
3928632 TACAGTAGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 21 0.45
46 1 0.02
47 25 0.53
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (44 bp):
CTATGGTCTTACACATAATCACATACACTGATGTCATAGCCCAG
Found at i:3928620 original size:47 final size:47
Alignment explanation
Indices: 3928558--3928683 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
3928548 CTTTACATAA
* * * *
3928558 TGATGTCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGTCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* *
3928605 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGTCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* * *
3928652 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGTCATATCCCAGATATGGTCTTACACAG
3928684 AAATCACTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
47 68 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (47 bp):
TGATGTCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:3928742 original size:31 final size:31
Alignment explanation
Indices: 3928707--3928915 Score: 283
Period size: 31 Copynumber: 6.7 Consensus size: 31
3928697 CTTGTCACTT
* * *
3928707 GTAGCCAAAGCTGCCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
3928738 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
3928769 GTAGCCGGAGCTACCACTTTTTACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3928800 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3928831 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
3928862 GTAGCTGAAACTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3928893 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
3928916 GTTGTCATTT
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 158 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:3928999 original size:50 final size:50
Alignment explanation
Indices: 3928893--3929069 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
3928883 CACTAATCAG
* * * *
3928893 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
3928944 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
3928994 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
3929044 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
3929070 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:3935005 original size:22 final size:22
Alignment explanation
Indices: 3934976--3935043 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
3934966 TGCACAAACG
3934976 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
3934998 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
3935020 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
3935043 A
1 A
3935044 TAATAGAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:3935056 original size:30 final size:29
Alignment explanation
Indices: 3935020--3935076 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
3935010 AGATGTGCTA
3935020 AACAGAGAGCACTTAACGTGCTAATAATAG
1 AACAGAGAGCAC-TAACGTGCTAATAATAG
*
3935050 AACAGAGAGCACTAATGTGCTAATAAT
1 AACAGAGAGCACTAACGTGCTAATAAT
3935077 CAGAGAGCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (29 bp):
AACAGAGAGCACTAACGTGCTAATAATAG
Found at i:3942589 original size:13 final size:13
Alignment explanation
Indices: 3942558--3942582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3942548 TAGATAATTA
3942558 ACAAATCATACAC
1 ACAAATCATACAC
3942571 ACAAATCATACA
1 ACAAATCATACA
3942583 TATAAATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
ACAAATCATACAC
Found at i:3943022 original size:37 final size:39
Alignment explanation
Indices: 3942928--3943024 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 39
3942918 CATACCAGAA
* *
3942928 TGGCGACCAACGCCTCATCGGATAGTTCGAAGCAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGTCCAAAGC-AATAAG
** * *
3942968 TGATGACCAACGTCTCATCGGCTAAG-CCAAAGC-AT-AG
1 TGGCGACCAACGCCTCATCGGAT-AGTCCAAAGCAATAAG
3943005 TGGCGACCAACGCCTCATCG
1 TGGCGACCAACGCCTCATCG
3943025 AATCTATTCG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
40 24 0.51
41 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.24, T:0.18
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGTCCAAAGCAATAAG
Found at i:3944170 original size:12 final size:13
Alignment explanation
Indices: 3944140--3944174 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
3944130 CTATCTCAAT
3944140 TAATAGATAAAATA
1 TAATA-ATAAAATA
3944154 TAATAATAAAA-A
1 TAATAATAAAATA
3944166 TAATAATAA
1 TAATAATAA
3944175 GTAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 6 0.29
14 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
TAATAATAAAATA
Found at i:3947440 original size:15 final size:15
Alignment explanation
Indices: 3947420--3947472 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
3947410 CGATGAATTT
3947420 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
3947435 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
3947450 ATTGAATTTATATTG
1 ATTGAATTTATATTG
3947465 ATTGAATT
1 ATTGAATT
3947473 ACATAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:3947928 original size:21 final size:21
Alignment explanation
Indices: 3947850--3947932 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
3947840 TTTATCGATC
* *
3947850 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGT-TTT
* * * *
3947872 CAAGCACCTCGTGTGTCGTATC
1 -AGGCACCTCATGTGTCGTTTT
* *
3947894 AGACACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
3947915 AGGCACTTTATGTGTCGT
1 AGGCACCTCATGTGTCGT
3947933 ATACTGATCA
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
21 31 0.67
22 1 0.02
23 14 0.30
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:3950766 original size:21 final size:21
Alignment explanation
Indices: 3950740--3950788 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3950730 CATTCTTTTT
* *
3950740 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
3950761 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
3950782 AATCTCA
1 AATCTCA
3950789 TCGCCACTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.29
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:3955347 original size:21 final size:20
Alignment explanation
Indices: 3955332--3955378 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
3955322 GAAGAGAATG
3955332 GAAAAAAAAAAAAAGAAAAA
1 GAAAAAAAAAAAAAGAAAAA
3955352 GAAAAAAAACATAAAAGAAAAA
1 GAAAAAAAA-A-AAAAGAAAAA
3955374 -AAAAA
1 GAAAAA
3955379 CTAAATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.36
21 6 0.24
22 10 0.40
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAAAAAAGAAAAA
Found at i:3955383 original size:17 final size:16
Alignment explanation
Indices: 3955333--3955383 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
3955323 AAGAGAATGG
3955333 AAAA-AAAAAAAAAGA-
1 AAAAGAAAAAAAAA-AT
*
3955348 AAAAGAAAAAAAACAT
1 AAAAGAAAAAAAAAAT
3955364 AAAAGAAAAAAAAAACT
1 AAAAGAAAAAAAAAA-T
3955381 AAA
1 AAA
3955384 TTGGTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 5 0.16
16 22 0.71
17 4 0.13
ACGTcount: A:0.86, C:0.04, G:0.06, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAT
Found at i:3955950 original size:20 final size:20
Alignment explanation
Indices: 3955922--3955960 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3955912 TTTAAACTCA
* *
3955922 ACTTTTCTCTCTAAATCCAC
1 ACTTCTCTCCCTAAATCCAC
*
3955942 ACTTCTCTCCCTAAGTCCA
1 ACTTCTCTCCCTAAATCCA
3955961 AAAAGGCCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.36
Consensus pattern (20 bp):
ACTTCTCTCCCTAAATCCAC
Found at i:3965014 original size:16 final size:17
Alignment explanation
Indices: 3964993--3965026 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3964983 CTAAGAGCTT
3964993 GGCTTG-TGTAGCTTAG
1 GGCTTGATGTAGCTTAG
3965009 GGCTTGACTGTAGCTTAG
1 GGCTTGA-TGTAGCTTAG
3965027 ATATGTGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.15, C:0.15, G:0.35, T:0.35
Consensus pattern (17 bp):
GGCTTGATGTAGCTTAG
Found at i:3969542 original size:11 final size:12
Alignment explanation
Indices: 3969520--3969550 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3969510 AGTTTACGAA
3969520 TTAAATTTTTTT
1 TTAAATTTTTTT
3969532 TTAAATTTTTTT
1 TTAAATTTTTTT
*
3969544 TTCAATT
1 TTAAATT
3969551 CAACATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTAAATTTTTTT
Found at i:3970265 original size:54 final size:54
Alignment explanation
Indices: 3970183--3970319 Score: 274
Period size: 54 Copynumber: 2.5 Consensus size: 54
3970173 AACCTTGTAG
3970183 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
3970237 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
3970291 CGGGATTACCAGTCCAGGCTAAATCCCCT
1 CGGGATTACCAGTCCAGGCTAAATCCCCT
3970320 ACAACGACAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGT
Found at i:3982355 original size:38 final size:38
Alignment explanation
Indices: 3982289--3982361 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
3982279 ACCAGTTTGG
*
3982289 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTAA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTAA
* * *
3982327 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGT
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGT
3982362 GGTACCCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.90
39 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTAA
Found at i:3982883 original size:15 final size:15
Alignment explanation
Indices: 3982841--3982883 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3982831 TATTTACTAT
* *
3982841 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
3982856 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
3982870 AAAATAAATAACTT
1 AAAATAAATAACTT
3982884 GAATTATGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:3989217 original size:12 final size:12
Alignment explanation
Indices: 3989162--3989217 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
3989152 CTCGCCTTAA
*
3989162 ATTATGTTATTT
1 ATTATTTTATTT
3989174 ATGT-TTTTAATTAT
1 AT-TATTTT-ATT-T
3989188 ATTATTTATATTT
1 ATTATTT-TATTT
3989201 A-TATTTTATTT
1 ATTATTTTATTT
3989212 ATTATT
1 ATTATT
3989218 GATTTAGGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
11 6 0.16
12 14 0.38
13 7 0.19
14 9 0.24
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (12 bp):
ATTATTTTATTT
Found at i:3989217 original size:27 final size:28
Alignment explanation
Indices: 3989169--3989223 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
3989159 TAAATTATGT
*
3989169 TATTTATGTTTTTAATTATATT-ATTTA
1 TATTTATGATTTTAATTATATTGATTTA
*
3989196 TATTTAT-ATTTTATTTATTATTGATTTA
1 TATTTATGATTTTAATTA-TATTGATTTA
3989224 GGGAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 11 0.46
28 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTATGATTTTAATTATATTGATTTA
Found at i:3989273 original size:21 final size:20
Alignment explanation
Indices: 3989247--3989286 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3989237 AAAAATGAGC
*
3989247 TTATATTATAAACTAAGAGAA
1 TTATATAATAAAC-AAGAGAA
3989268 TTATATAATAAACAAGAGA
1 TTATATAATAAACAAGAGA
3989287 GAATAGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (20 bp):
TTATATAATAAACAAGAGAA
Found at i:3991613 original size:57 final size:57
Alignment explanation
Indices: 3991544--3991685 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 57
3991534 TACCTAAACA
* * * * *
3991544 GTAATCAGTAACGGTAGCAATAACAGTAATAGTATTCAACACACAAAGTGCTGAATCT
1 GTAA-CAGTAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCG
* * * *
3991602 GTAACAGTAACGGTAACAGTAACGGTAACAGTATTCGACATACAAAGTATTGAATCG
1 GTAACAGTAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCG
*
3991659 GCAACAGTAACGGTAACAGTAACAGTA
1 GTAACAGTAACGGTAACAGTAACAGTA
3991686 GTCGACACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 69 0.95
58 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (57 bp):
GTAACAGTAACGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCG
Found at i:3991619 original size:12 final size:12
Alignment explanation
Indices: 3991602--3991634 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
3991592 TGCTGAATCT
3991602 GTAACAGTAACG
1 GTAACAGTAACG
3991614 GTAACAGTAACG
1 GTAACAGTAACG
3991626 GTAACAGTA
1 GTAACAGTA
3991635 TTCGACATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (12 bp):
GTAACAGTAACG
Found at i:3992685 original size:6 final size:6
Alignment explanation
Indices: 3992670--3992713 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
3992660 AAATCTCTAG
** *
3992670 TTTTTCC TTTTTC TTTTTC TTTCCC TTTTTC TTTCTC TTTTTC T
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
3992714 CCCCTGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:3992691 original size:12 final size:12
Alignment explanation
Indices: 3992670--3992713 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
3992660 AAATCTCTAG
*
3992670 TTTTTCCTTTTTC
1 TTTTT-CTTTCTC
*
3992683 TTTTTCTTTCCC
1 TTTTTCTTTCTC
3992695 TTTTTCTTTCTC
1 TTTTTCTTTCTC
3992707 TTTTTCT
1 TTTTTCT
3992714 CCCCTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 23 0.82
13 5 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:3992698 original size:18 final size:18
Alignment explanation
Indices: 3992675--3992709 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3992665 TCTAGTTTTT
*
3992675 CCTTTTTCTTTTTCTTTC
1 CCTTTTTCTTTCTCTTTC
3992693 CCTTTTTCTTTCTCTTT
1 CCTTTTTCTTTCTCTTT
3992710 TTCTCCCCTG
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:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CCTTTTTCTTTCTCTTTC
Found at i:3992723 original size:24 final size:24
Alignment explanation
Indices: 3992670--3992724 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
3992660 AAATCTCTAG
* *
3992670 TTTTTCCTTTTTCTTTTTCTTTCCC
1 TTTTT-CTTTCTCTTTTTCTTCCCC
3992695 TTTTTCTTTCTCTTTTTC-TCCCC
1 TTTTTCTTTCTCTTTTTCTTCCCC
3992718 TGTTTTC
1 T-TTTTC
3992725 GAATGCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 17 0.63
25 5 0.19
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTCTTTCTCTTTTTCTTCCCC
Found at i:3992812 original size:16 final size:16
Alignment explanation
Indices: 3992762--3992814 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
3992752 GTTTTGTTTC
*
3992762 TATTTATTTTATACTT
1 TATTTACTTTATACTT
*
3992778 TATTT-CTTTTTACTT
1 TATTTACTTTATACTT
3992793 TATTTACTTTATA-TT
1 TATTTACTTTATACTT
3992808 ATATTTA
1 -TATTTA
3992815 ATAATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTACTTTATACTT
Found at i:3993030 original size:33 final size:33
Alignment explanation
Indices: 3992961--3993023 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
3992951 ATTATTTAAT
*
3992961 TAATAAATATCTCTTAATTTTAATAACAATAAA
1 TAATAAATATCTCTTAATTTAAATAACAATAAA
3992994 TAATAAATATCTAC-TAATTTAAATAA-AATA
1 TAATAAATATCT-CTTAATTTAAATAACAATA
3993024 TTATAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAACAATAAA
Found at i:3993415 original size:3 final size:3
Alignment explanation
Indices: 3993407--3993464 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
3993397 TTAATTTATT
* *
3993407 TAA TAA TAA TAA TAA TAA TTAA TAA TTA TAA TAA TCAA TTA T-A TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA
3993453 T-A TAA T-A TAA TA
1 TAA TAA TAA TAA TA
3993465 TATATAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 6 0.13
3 35 0.74
4 6 0.13
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:3993470 original size:19 final size:19
Alignment explanation
Indices: 3993409--3993472 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
3993399 AATTTATTTA
3993409 ATAATAATAATAATAATTA-
1 ATAAT-ATAATAATAATTAT
3993428 ATAATTATAATAATCAATTAT
1 ATAA-TATAATAAT-AATTAT
3993449 ATAATATAAT-ATAATATAT
1 ATAATATAATAATAAT-TAT
3993468 ATAAT
1 ATAAT
3993473 TTAAATAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.07
19 22 0.54
20 12 0.29
21 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATATAATAATAATTAT
Found at i:3994564 original size:2 final size:2
Alignment explanation
Indices: 3994557--3994584 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3994547 CACCTGGAAA
3994557 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
3994585 TTTAGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3997266 original size:3 final size:3
Alignment explanation
Indices: 3997258--3997282 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3997248 CTTGGTACTT
3997258 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
3997283 AAAATTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:4002479 original size:3 final size:3
Alignment explanation
Indices: 4002471--4002514 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4002461 CAAACTATGG
4002471 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4002515 ATGATCAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4018479 original size:18 final size:17
Alignment explanation
Indices: 4018455--4018498 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
4018445 AATTATGGGC
*
4018455 TTATAAATA-AATATTAA
1 TTATAAATATAAT-TAAA
4018472 TTATTAAATATAATTAAA
1 TTA-TAAATATAATTAAA
4018490 TTATAAATA
1 TTATAAATA
4018499 GACACTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATAAATATAATTAAA
Found at i:4021862 original size:2 final size:2
Alignment explanation
Indices: 4021855--4021891 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4021845 ATCAAGAAAC
4021855 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
4021892 GTGAAAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4022085 original size:21 final size:18
Alignment explanation
Indices: 4022038--4022075 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
4022028 ACTTTCTTGA
4022038 TAAATTATATATATATATT
1 TAAATTAT-TATATATATT
4022057 TAAA-TATTATATATATT
1 TAAATTATTATATATATT
4022074 TA
1 TA
4022076 TAATCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 3 0.16
19 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATTATTATATATATT
Found at i:4022116 original size:61 final size:61
Alignment explanation
Indices: 4022002--4022118 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 61
4021992 TTAAATATTT
* * *
4022002 TTATATATATTTATAGTCTCATATTTACTTTCTTGATAAATTATATATATATATTTAAATA
1 TTATATATATTTATAATCTCATATTTAATTTCTTAATAAATTATATATATATATTTAAATA
* *
4022063 TTATATATATTTATAATCTTATTTTTTAATTTCTTAATAAATTATATATTATATAT
1 TTATATATATTTATAATCTCA-TATTTAATTTCTTAATAAATTATATA-TATATAT
4022119 GCATGCAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 19 0.39
62 23 0.47
63 7 0.14
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (61 bp):
TTATATATATTTATAATCTCATATTTAATTTCTTAATAAATTATATATATATATTTAAATA
Found at i:4023892 original size:28 final size:25
Alignment explanation
Indices: 4023850--4023905 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
4023840 AAAATATTTT
*
4023850 TAAAAATTAAAATTAAATAAAATTA
1 TAAAAATTAAAATTAAATAAAAATA
*
4023875 TAAAAATATAAAATATTAATTAAAAATA
1 TAAAAAT-T-AAA-ATTAAATAAAAATA
4023903 TAA
1 TAA
4023906 TTTTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 1 0.04
27 3 0.12
28 15 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAATTAAAATTAAATAAAAATA
Found at i:4036369 original size:53 final size:53
Alignment explanation
Indices: 4036288--4036438 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
4036278 CTTACACGGT
* *
4036288 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
4036343 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
4036396 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
4036439 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:4043885 original size:53 final size:53
Alignment explanation
Indices: 4043804--4043954 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
4043794 CTTACACGGT
* *
4043804 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
4043859 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
4043912 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
4043955 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:4049647 original size:20 final size:20
Alignment explanation
Indices: 4049603--4049648 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
4049593 TTTTATTATA
4049603 TAAAAATAAAAAATTATATT
1 TAAAAATAAAAAATTATATT
4049623 T-AAAATAGTAAAAA-TA-ATT
1 TAAAAATA--AAAAATTATATT
4049642 TAAAAAT
1 TAAAAAT
4049649 TCTTAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAATAAAAAATTATATT
Found at i:4053492 original size:2 final size:2
Alignment explanation
Indices: 4053485--4053509 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4053475 CCGAATTCCC
4053485 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
4053510 GATGTTGTTC
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:4057033 original size:20 final size:20
Alignment explanation
Indices: 4057010--4057050 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4057000 AACTTCAAAT
4057010 TACATGTATATATATATATA
1 TACATGTATATATATATATA
*
4057030 TACATGTGTATATATATATA
1 TACATGTATATATATATATA
4057050 T
1 T
4057051 CAAATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (20 bp):
TACATGTATATATATATATA
Found at i:4074321 original size:15 final size:16
Alignment explanation
Indices: 4074295--4074325 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4074285 TAATTATAAA
4074295 TAAATGTTAAAATTTT
1 TAAATGTTAAAATTTT
4074311 TAAAT-TTAAAATTTT
1 TAAATGTTAAAATTTT
4074326 AAGTCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TAAATGTTAAAATTTT
Found at i:4074327 original size:14 final size:14
Alignment explanation
Indices: 4074295--4074344 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
4074285 TAATTATAAA
4074295 TAAATGTTAAAATTTT
1 TAAAT-TTAAAA-TTT
4074311 TAAATTTAAAATTT
1 TAAATTTAAAATTT
* **
4074325 TAAGTCCAAAATTT
1 TAAATTTAAAATTT
4074339 TAAATT
1 TAAATT
4074345 CGAGACATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 18 0.62
15 6 0.21
16 5 0.17
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (14 bp):
TAAATTTAAAATTT
Found at i:4075213 original size:32 final size:33
Alignment explanation
Indices: 4075140--4075213 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
4075130 ATATATATTA
*
4075140 TAATTTTCTCTTTTAACAACAACGCAAATATACTT
1 TAATTTTCTCTTTT-A-AACAACGCAAATATACAT
* * *
4075175 TTATTTTCTCTTTT-AACAACTCAAATATAGAT
1 TAATTTTCTCTTTTAAACAACGCAAATATACAT
4075207 TAATTTT
1 TAATTTT
4075214 TAGGAATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 21 0.62
35 13 0.38
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (33 bp):
TAATTTTCTCTTTTAAACAACGCAAATATACAT
Found at i:4086252 original size:45 final size:45
Alignment explanation
Indices: 4086197--4086286 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
4086187 AGAAGCTTCA
* * *
4086197 TTTTTTGGATGAATAATTTAAGCTCATGCTTAGGAGTATAATTTT
1 TTTTTTGGATGAACAATTTAAGCTCATACTTAGGAGCATAATTTT
* * * *
4086242 TTTTTTGGATGAACAGTTTAGGTTCATACTTAGGAGCATTATTTT
1 TTTTTTGGATGAACAATTTAAGCTCATACTTAGGAGCATAATTTT
4086287 GAATTAACAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.47
Consensus pattern (45 bp):
TTTTTTGGATGAACAATTTAAGCTCATACTTAGGAGCATAATTTT
Found at i:4096817 original size:16 final size:16
Alignment explanation
Indices: 4096793--4096823 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4096783 ATTAATTTAT
*
4096793 TATTTTTCTTCTGTTA
1 TATTCTTCTTCTGTTA
4096809 TATTCTTCTTCTGTT
1 TATTCTTCTTCTGTT
4096824 GTACTCTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.16, G:0.06, T:0.68
Consensus pattern (16 bp):
TATTCTTCTTCTGTTA
Found at i:4096831 original size:16 final size:16
Alignment explanation
Indices: 4096798--4096831 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4096788 TTTATTATTT
*
4096798 TTCTTCTGTTATATTC
1 TTCTTCTGTTATACTC
*
4096814 TTCTTCTGTTGTACTC
1 TTCTTCTGTTATACTC
4096830 TT
1 TT
4096832 TGGAACTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.62
Consensus pattern (16 bp):
TTCTTCTGTTATACTC
Found at i:4100340 original size:17 final size:17
Alignment explanation
Indices: 4100318--4100355 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4100308 TATTTATATA
* *
4100318 TTAATATATTTGTTATC
1 TTAATAGATTTCTTATC
4100335 TTAATAGATTTCTTATC
1 TTAATAGATTTCTTATC
4100352 TTAA
1 TTAA
4100356 AATACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAATAGATTTCTTATC
Found at i:4100945 original size:130 final size:130
Alignment explanation
Indices: 4100710--4101081 Score: 431
Period size: 130 Copynumber: 2.9 Consensus size: 130
4100700 AAAATTCTTC
*
4100710 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGTAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
4100775 TTTCGCATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTCCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATATCTTTTAAAATCCCT
* * * * * *
4100840 TAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTGACATGTTGGGTTGCGA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * *
4100905 TTTTGCATTTGCTCAAAATAATCGAATATCACTTTAAAATTTCGCTCGTGTCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATATCTTTTAAAATCCCT
* * * * * * * * *
4100970 AAAACGAAGGCGATATCTGGTATTTGGCAATTCGTGGGATCGTGCCCTAACGTGTTGGGTAGTAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * * *
4101035 TTTCTCGA-TTGTTTAAAATAATCAAATACCCCTTCAAAATTTCACTC
66 TTTCGC-ATTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTC
4101082 GGCTCTTCTA
Statistics
Matches: 201, Mismatches: 40, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
130 200 1.00
131 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (130 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATATCTTTTAAAATCCCT
Found at i:4105000 original size:53 final size:53
Alignment explanation
Indices: 4104919--4105069 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
4104909 CTTACACGGT
* *
4104919 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
4104974 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
4105027 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
4105070 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:4112516 original size:53 final size:53
Alignment explanation
Indices: 4112435--4112585 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
4112425 CTTACACGGT
* *
4112435 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
4112490 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
4112543 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
4112586 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:4122574 original size:24 final size:24
Alignment explanation
Indices: 4122537--4122599 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
4122527 TCATGTACAC
*
4122537 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
4122561 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
4122585 ATTATTGTATTTATT
1 ATTATTGTATTTATT
4122600 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:4122614 original size:24 final size:24
Alignment explanation
Indices: 4122558--4122614 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
4122548 TATTTTCATG
* *
4122558 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
4122582 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
4122606 ATTAGTATT
1 ATTATTATT
4122615 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:4122849 original size:2 final size:2
Alignment explanation
Indices: 4122832--4122885 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
4122822 CTACATTATG
*
4122832 TA TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TT TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4122871 TT TT TA TG TA TA TA T
1 TA TA TA TA TA TA TA T
4122886 TTTTAATATC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (2 bp):
TA
Found at i:4122849 original size:12 final size:13
Alignment explanation
Indices: 4122832--4122886 Score: 57
Period size: 12 Copynumber: 4.6 Consensus size: 13
4122822 CTACATTATG
4122832 TATATATTATAT-
1 TATATATTATATA
4122844 TATATA-TATATA
1 TATATATTATATA
4122856 TATATATT-TAT-
1 TATATATTATATA
* *
4122867 TATAT-TTTTATG
1 TATATATTATATA
4122879 TATATATT
1 TATATATT
4122887 TTTAATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.05
11 13 0.34
12 20 0.53
13 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATATATTATATA
Found at i:4122902 original size:25 final size:24
Alignment explanation
Indices: 4122807--4122902 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 24
4122797 GTATGTATTA
4122807 TATATATTT-TTAATACTACATTATG
1 TATATATTTATT-ATA-TACATTATG
* *
4122832 TATATATTATATTATATATA-TATA
1 TATATATT-TATTATATACATTATG
**
4122856 TATATATTTATTATAT-TTTTATG
1 TATATATTTATTATATACATTATG
4122879 TATATATTT-TTAATATCACATTAT
1 TATATATTTATT-ATAT-ACATTAT
4122903 TCATATGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
22 3 0.05
23 24 0.41
24 11 0.19
25 15 0.25
26 4 0.07
27 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATATTTATTATATACATTATG
Found at i:4123071 original size:3 final size:3
Alignment explanation
Indices: 4123063--4123129 Score: 66
Period size: 3 Copynumber: 22.0 Consensus size: 3
4123053 TTTATTCATA
* *
4123063 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
4123109 TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
4123130 CATTTTCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 4 0.08
3 45 0.85
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4123090 original size:26 final size:25
Alignment explanation
Indices: 4123061--4123129 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
4123051 TCTTTATTCA
4123061 TATATTATTATCATTAT-TT-TCTACGT
1 TATATTATTATCATTATATTAT-TA--T
*
4123087 TATATTATTATTATTATATTATTAT
1 TATATTATTATCATTATATTATTAT
4123112 TATTATTATTATCATTAT
1 TA-TATTATTATCATTAT
4123130 CATTTTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 3 0.08
26 30 0.79
27 4 0.11
28 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (25 bp):
TATATTATTATCATTATATTATTAT
Found at i:4125742 original size:631 final size:631
Alignment explanation
Indices: 4124539--4125802 Score: 2501
Period size: 631 Copynumber: 2.0 Consensus size: 631
4124529 TGAAAACTGC
4124539 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
1 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
4124604 AAGTATTTTTAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
66 AAGTATTTTTAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
4124669 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
131 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
*
4124734 ACCTCCTGAATTACAGAAAATGCACAATGTCTTTCATGTTTCTATACTAAGAAGATATCGATCGG
196 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAGAAGATATCGATCGG
4124799 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCGACTTGACTTATCGTATGAAGAAGAA
261 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCGACTTGACTTATCGTATGAAGAAGAA
4124864 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
326 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
4124929 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
391 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
4124994 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
456 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
*
4125059 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCTGTGAAATTTATTCATGAATA
521 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTCATGAATA
4125124 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
586 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
4125170 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
1 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
4125235 AAGTATTTTTAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
66 AAGTATTTTTAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
4125300 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
131 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
4125365 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAGAAGATATCGATCGG
196 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAGAAGATATCGATCGG
4125430 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCGACTTGACTTATCGTATGAAGAAGAA
261 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCGACTTGACTTATCGTATGAAGAAGAA
4125495 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
326 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
*
4125560 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACTGGAAGAAACGATGAGATCTCAAT
391 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
4125625 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
456 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
4125690 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTCATGAATA
521 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTCATGAATA
4125755 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
586 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
4125801 TT
1 TT
4125803 AATTAAGTGA
Statistics
Matches: 630, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
631 630 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (631 bp):
TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
AAGTATTTTTAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAGAAGATATCGATCGG
ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCGACTTGACTTATCGTATGAAGAAGAA
CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTCATGAATA
TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
Found at i:4132719 original size:24 final size:24
Alignment explanation
Indices: 4132682--4132744 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
4132672 TCATGTACAC
*
4132682 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
4132706 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
4132730 ATTATTGTATTTATT
1 ATTATTGTATTTATT
4132745 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:4132759 original size:24 final size:24
Alignment explanation
Indices: 4132703--4132759 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
4132693 TATTTTCATG
* *
4132703 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
4132727 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
4132751 ATTAGTATT
1 ATTATTATT
4132760 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:4134939 original size:631 final size:631
Alignment explanation
Indices: 4133736--4134999 Score: 2465
Period size: 631 Copynumber: 2.0 Consensus size: 631
4133726 TGAAAACTGC
4133736 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
1 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
*
4133801 AAGTATTTTTAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
66 AAGTATTTTCAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
4133866 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
131 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
*
4133931 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTTTATACTAAAAAGATATCGATCGG
196 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAAAAGATATCGATCGG
*
4133996 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCGACTTGACTTATCGTATGAAGAAGAA
261 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCAACTTGACTTATCGTATGAAGAAGAA
4134061 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
326 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
4134126 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
391 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
4134191 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
456 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
*
4134256 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTATTGTTTCCGTGAAATTTATTAATGAATA
521 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTAATGAATA
4134321 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
586 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
4134367 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
1 TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
4134432 AAGTATTTTCAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
66 AAGTATTTTCAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
4134497 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
131 CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
*
4134562 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAGAAGATATCGATCGG
196 ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAAAAGATATCGATCGG
*
4134627 ATCCTTCACATGTTATTATGACTGAGAATGTAGAGATTCAACTTGACTTATCGTATGAAGAAGAA
261 ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCAACTTGACTTATCGTATGAAGAAGAA
4134692 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
326 CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
4134757 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
391 GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
4134822 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
456 ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
*
4134887 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTCATGAATA
521 ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTAATGAATA
4134952 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
586 TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
4134998 TT
1 TT
4135000 AATTAAGTGA
Statistics
Matches: 626, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
631 626 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (631 bp):
TTTTGATAGACAGAAATCGTATGCAGATTTGAAACGATGGGATATTGAATACTCAGTCGGGGATA
AAGTATTTTCAAAGGTTTCACCTTGGAAGAAAATTCTAAGATTTGGTCAAAAAGGAAAATTAAGT
CCTCGTTTTATTGGGCCTTACGAAGTTATTGAGAGAATTGGACCAGTAGCGTATCGATTGGCCTT
ACCTCCTGAATTACAGAAAATGCACAATGTCTTCCATGTTTCTATACTAAAAAGATATCGATCGG
ATCCTTCACATGTTATTATGACCGAGAATGTAGAGATTCAACTTGACTTATCGTATGAAGAAGAA
CCAATTGAGATTCTAGCACGAGAGGTAAAAGAATTACGTAATAAACGTATTCATTTAGTAAAAGT
GCTATGGCGAAGTCATAGTGTTGAAAAAGCTACGTGGGAACCGGAAGAAACGATGAGATCTCAAT
ACCCCCATCTCTTTTCAGGTAAATTTCGAGGATGAAATTTATTAAGGGGGAGAGAATTGTAATGA
ACCTAAAGTTACGGTATCGAAAATTGAGTCTTGAGTACTGTTTCCGTGAAATTTATTAATGAATA
TTTATTAGAAATATTTATGAATTATAGTTGAATGGTTATTTAGTGT
Found at i:4140448 original size:35 final size:35
Alignment explanation
Indices: 4140421--4140586 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
4140411 CATGGCAAAG
*
4140421 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
4140456 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
4140491 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
4140531 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
4140566 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
4140587 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Done.