Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 54 of 335
Found at i:19233667 original size:14 final size:14
Alignment explanation
Indices: 19233650--19233679 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19233640 GTGTTTTAAA
19233650 GTTTATTATTTAGG
1 GTTTATTATTTAGG
19233664 GTTTATTATTTAGG
1 GTTTATTATTTAGG
19233678 GT
1 GT
19233680 CTAAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:19233743 original size:8 final size:7
Alignment explanation
Indices: 19233704--19233745 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
19233694 TTTAGCGATA
19233704 TTAGGGT
1 TTAGGGT
19233711 TTAAGGGT
1 TT-AGGGT
*
19233719 TTAAGGT
1 TTAGGGT
19233726 TTAGGG-
1 TTAGGGT
19233732 TTAGGAGT
1 TTAGG-GT
19233740 TTAGGG
1 TTAGGG
19233746 GTTAATGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 5 0.17
7 13 0.43
8 12 0.40
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
TTAGGGT
Found at i:19234188 original size:7 final size:7
Alignment explanation
Indices: 19234176--19234208 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
19234166 CGGGGCTTAT
19234176 GGTTTGG
1 GGTTTGG
19234183 GGTTTGG
1 GGTTTGG
*
19234190 GATTTGG
1 GGTTTGG
19234197 GGTTTGG
1 GGTTTGG
19234204 GGTTT
1 GGTTT
19234209 AGTGTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.52, T:0.45
Consensus pattern (7 bp):
GGTTTGG
Found at i:19234439 original size:41 final size:40
Alignment explanation
Indices: 19234373--19234483 Score: 109
Period size: 41 Copynumber: 2.8 Consensus size: 40
19234363 AATTGTGAAT
* * *
19234373 TAGTGGCGTTTT-TTAAAAAATGCCACAAAAAATGAGCTA
1 TAGTGGCGTTTTAATAAAAAACGCCACAAAAAATGACCTA
**
19234412 TAGTGGCGTTTATAATAAAAAACGCCACTAAAAGTTGACCTA
1 TAGTGGCGTTT-TAATAAAAAACGCCAC-AAAAAATGACCTA
** *
19234454 TACCGGCGTTTTAA-ATAAAAACGCCGCAAA
1 TAGTGGCGTTTTAATA-AAAAACGCCACAAA
19234484 TATTTGAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
39 11 0.18
40 5 0.08
41 25 0.42
42 19 0.32
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (40 bp):
TAGTGGCGTTTTAATAAAAAACGCCACAAAAAATGACCTA
Found at i:19235156 original size:24 final size:24
Alignment explanation
Indices: 19235126--19235171 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
19235116 GTCAAGTAAC
19235126 TTTAATTTCTAAGTCTCTGTTTCT
1 TTTAATTTCTAAGTCTCTGTTTCT
19235150 TTTAATTTCTAAGTCTCTGTTT
1 TTTAATTTCTAAGTCTCTGTTT
19235172 ACAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTAATTTCTAAGTCTCTGTTTCT
Found at i:19235964 original size:24 final size:24
Alignment explanation
Indices: 19235901--19235970 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
19235891 TTTGTGACTG
*
19235901 TGAAAATCGTATTATAATAATGTTA
1 TGAAAATTGTATTATAAT-ATGTTA
**
19235926 T-ACTATCT-TATTTATAATATGTTA
1 TGAAAAT-TGTA-TTATAATATGTTA
19235950 TGAAAATTGTATTATAATATG
1 TGAAAATTGTATTATAATATG
19235971 CTTTGGTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TGAAAATTGTATTATAATATGTTA
Found at i:19238382 original size:26 final size:26
Alignment explanation
Indices: 19238353--19238405 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
19238343 TCAAACATGC
19238353 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
19238379 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
19238405 A
1 A
19238406 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:19239927 original size:26 final size:26
Alignment explanation
Indices: 19239891--19240026 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
19239881 CATGATATTC
19239891 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
19239917 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19239943 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19239969 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19239995 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19240021 TTATCA
1 TTATCA
19240027 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19241464 original size:46 final size:44
Alignment explanation
Indices: 19241360--19241467 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19241350 TGTCTTTGAC
** * * *
19241360 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
19241404 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
19241450 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
19241468 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:19252208 original size:25 final size:26
Alignment explanation
Indices: 19252171--19252222 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
19252161 TCAAACATGC
19252171 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
19252197 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
19252222 A
1 A
19252223 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:19253737 original size:26 final size:26
Alignment explanation
Indices: 19253701--19253836 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
19253691 ACATGAATTC
*
19253701 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
19253727 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
19253753 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
19253779 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
19253805 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
19253831 TTATCA
1 TTATCA
19253837 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:19256067 original size:9 final size:9
Alignment explanation
Indices: 19256053--19256169 Score: 117
Period size: 9 Copynumber: 12.3 Consensus size: 9
19256043 TCTTAAAAAA
19256053 TTACATAAC
1 TTACATAAC
19256062 TTACATAAC
1 TTACATAAC
* *
19256071 TCATATAAC
1 TTACATAAC
*
19256080 TTACATAAT
1 TTACATAAC
19256089 TTACATAACAAC
1 TTACAT---AAC
19256101 TTACATAAC
1 TTACATAAC
*
19256110 TCACATAAC
1 TTACATAAC
*
19256119 TTACATAAT
1 TTACATAAC
19256128 TTACATAAC
1 TTACATAAC
*
19256137 TCACATAAC
1 TTACATAAC
*
19256146 GTACATAACAAC
1 TTACAT---AAC
19256158 TTACATAAC
1 TTACATAAC
19256167 TTA
1 TTA
19256170 ACTAATACAT
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 72 0.82
12 16 0.18
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:19256106 original size:39 final size:39
Alignment explanation
Indices: 19256059--19256136 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
19256049 AAAATTACAT
*
19256059 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
19256098 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
19256137 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:19256143 original size:57 final size:57
Alignment explanation
Indices: 19256055--19256167 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
19256045 TTAAAAAATT
* * **
19256055 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
19256112 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
19256168 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:19256159 original size:39 final size:36
Alignment explanation
Indices: 19256054--19256165 Score: 129
Period size: 39 Copynumber: 2.9 Consensus size: 36
19256044 CTTAAAAAAT
19256054 TACATAACTTACATAACT-CATATAACTTACATAATT
1 TACATAACTTACATAACTACATA-AACTTACATAATT
19256090 TACATAACAACTTACATAACTCACAT-AACTTACATAATT
1 TACAT---AACTTACATAACT-ACATAAACTTACATAATT
*
19256129 TACATAACTCACATAACGTACATAACAACTTACATAA
1 TACATAACTTACATAAC-TACAT-A-AACTTACATAA
19256166 CTTAACTAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 15
0.80 0.01 0.18
Matches are distributed among these distances:
36 20 0.30
37 1 0.02
39 42 0.64
41 3 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.30
Consensus pattern (36 bp):
TACATAACTTACATAACTACATAAACTTACATAATT
Found at i:19258015 original size:12 final size:12
Alignment explanation
Indices: 19257998--19258023 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19257988 ACGATCGAGG
19257998 GATGAATCTGAT
1 GATGAATCTGAT
19258010 GATGAATCTGAT
1 GATGAATCTGAT
19258022 GA
1 GA
19258024 GGAGGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:19261734 original size:21 final size:21
Alignment explanation
Indices: 19261710--19261754 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
19261700 ACTTAGAGCT
*
19261710 GAGGCAGCAGCGCGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
*
19261731 GAGGCAGCAGTGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
19261752 GAG
1 GAG
19261755 CAGAACAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.58, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCG
Found at i:19262091 original size:44 final size:43
Alignment explanation
Indices: 19262043--19262166 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 43
19262033 GCAAAACTGG
*
19262043 GCAAATTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTATT
1 GCAAATTAGCGGCGTTTTTT-AAAAAAGCGCCGCTAAAAGTACT
* *
19262087 GCAAATTAGCGGCATTTTTT--AAAAGTGCCGCTAAAAGTACT
1 GCAAATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACT
**** *
19262128 GGTCTTTAGCTGCGTTTTTTTTTAAAAAAGCGCCGCTAA
1 GCAAATTAGCGGCG---TTTTTTAAAAAAGCGCCGCTAA
19262167 TTTTACCGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 27 0.42
44 25 0.38
46 13 0.20
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
GCAAATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACT
Found at i:19262123 original size:41 final size:42
Alignment explanation
Indices: 19262043--19262125 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 42
19262033 GCAAAACTGG
*
19262043 GCAAATTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAAGTATT
1 GCAAATTAGCGGCATTTTTT--AAAAAGCGCCGCTAAAAGTATT
*
19262087 GCAAATTAGCGGCATTTTTT-AAAAGTGCCGCTAAAAGTA
1 GCAAATTAGCGGCATTTTTTAAAAAGCGCCGCTAAAAGTA
19262126 CTGGTCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 18 0.49
44 19 0.51
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (42 bp):
GCAAATTAGCGGCATTTTTTAAAAAGCGCCGCTAAAAGTATT
Found at i:19264509 original size:28 final size:28
Alignment explanation
Indices: 19264466--19264537 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
19264456 ATATTAAAAT
*
19264466 ATAATTTTT-ATATTTTCATGCT-TTTTA
1 ATAATTTTTAAT-TTTTCATACTATTTTA
*
19264493 AGTAATTTTTAATTTTTCATATTATTTTA
1 A-TAATTTTTAATTTTTCATACTATTTTA
19264522 ATAAATTTTTAATTTT
1 AT-AATTTTTAATTTT
19264538 AAAATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.03
28 17 0.44
29 21 0.54
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (28 bp):
ATAATTTTTAATTTTTCATACTATTTTA
Found at i:19266359 original size:22 final size:22
Alignment explanation
Indices: 19266325--19266382 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
19266315 TTTTCTTGTT
* *
19266325 ATTTTCTTTTTATTTTGCGACC
1 ATTTTATTATTATTTTGCGACC
* * *
19266347 ATTTTATTATTATGTTGCTACT
1 ATTTTATTATTATTTTGCGACC
*
19266369 ATTTTATTGTTATT
1 ATTTTATTATTATT
19266383 ATTTGAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.10, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTTTATTATTATTTTGCGACC
Found at i:19266445 original size:30 final size:30
Alignment explanation
Indices: 19266411--19266475 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
19266401 ACTTATTTTA
19266411 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
19266441 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
19266471 TTGTT
1 TTGTT
19266476 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:19266577 original size:18 final size:20
Alignment explanation
Indices: 19266556--19266596 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
19266546 GAAATATTTA
*
19266556 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
19266574 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
19266594 TTT
1 TTT
19266597 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:19267806 original size:51 final size:51
Alignment explanation
Indices: 19267730--19267834 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
19267720 AGGGTTTCCA
19267730 TAAAAAAAATTTGGGAAAGATGATGAAAAAGATGATATTTTCTTATTTAAT
1 TAAAAAAAATTTGGGAAAGATGATGAAAAAGATGATATTTTCTTATTTAAT
19267781 TAAAAAAAATTTGGGAAAGATGATGAAAAAGATGATATTTTCTTATTTAAT
1 TAAAAAAAATTTGGGAAAGATGATGAAAAAGATGATATTTTCTTATTTAAT
19267832 TAA
1 TAA
19267835 CTTATCATCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (51 bp):
TAAAAAAAATTTGGGAAAGATGATGAAAAAGATGATATTTTCTTATTTAAT
Found at i:19269911 original size:35 final size:35
Alignment explanation
Indices: 19269844--19270011 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
19269834 TCCTCATTGA
*** *
19269844 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
19269880 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
19269920 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
19269955 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
19269990 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
19270012 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:19269970 original size:75 final size:73
Alignment explanation
Indices: 19269839--19270011 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
19269829 GGTTTTCCTC
*** * * **
19269839 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
19269904 TCAGTATGG
65 TCAGTATGG
*
19269913 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
19269977 ACTCAGTATGG
63 ACTCAGTATGG
19269988 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
19270012 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:19274224 original size:2 final size:2
Alignment explanation
Indices: 19274217--19274245 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19274207 ATTGGTATAA
19274217 TC 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 TC T
19274246 TTTTCTCGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19276451 original size:111 final size:110
Alignment explanation
Indices: 19276323--19276552 Score: 251
Period size: 113 Copynumber: 2.1 Consensus size: 110
19276313 GAGACATTAA
* *
19276323 AAAAAAAAATTTTGTGCTGGCCA-ATAGATGCTGGCA-C-CAGGTAAAATTTTCGG-TTCCCAA-
1 AAAAAAAAATTTTGTGCTGACCATATA-ATG--GGCAGCACAAGTAAAA-TTTCGGCTT-CCAAT
* * *
19276383 G-ATATTTTTTTT-TTACTTTAGGAA-ACTGATGGTCGACACCAGTGTATTT
61 GCAT-TTTTTTTTATTA-TTTAGGAATACTAATGGCCGACACCAATGTATTT
*
19276432 AAAAAAAAATTTTGGGTGCTGACCATATAATGGGCAGCAGCAAGTACAATTTCGGCTTCCAATGC
1 AAAAAAAAATTTT--GTGCTGACCATATAATGGGCAGCA-CAAGTAAAATTTCGGCTTCCAATGC
*
19276497 ATTTTTTTTTATTATTTTGGAATACTAATGGCCGACACCAATGTATTT
63 ATTTTTTTTTATTATTTAGGAATACTAATGGCCGACACCAATGTATTT
19276545 AAAAAAAA
1 AAAAAAAA
19276553 TTGGGTGCTG
Statistics
Matches: 103, Mismatches: 7, Indels: 18
0.80 0.05 0.14
Matches are distributed among these distances:
109 17 0.17
110 1 0.01
111 22 0.21
112 28 0.27
113 35 0.34
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (110 bp):
AAAAAAAAATTTTGTGCTGACCATATAATGGGCAGCACAAGTAAAATTTCGGCTTCCAATGCATT
TTTTTTTATTATTTAGGAATACTAATGGCCGACACCAATGTATTT
Found at i:19276775 original size:18 final size:20
Alignment explanation
Indices: 19276739--19276795 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
19276729 TTAATTAATA
* * *
19276739 TGAAAAAATATGAAGTGAAT
1 TGAAAAAAGATAAATTGAAT
19276759 TGAAAAAA-A-AAATTGAAT
1 TGAAAAAAGATAAATTGAAT
19276777 TGAAAAAAGATAAATTGAA
1 TGAAAAAAGATAAATTGAA
19276796 ATGAGACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
20 16 0.48
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (20 bp):
TGAAAAAAGATAAATTGAAT
Found at i:19276870 original size:16 final size:16
Alignment explanation
Indices: 19276845--19276894 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
19276835 ATATTAGGAA
19276845 AAAAATAAATTTAAATG
1 AAAAA-AAATTTAAATG
19276862 AAAAAAAA-TT-AATG
1 AAAAAAAATTTAAATG
**
19276876 AAATGAAATGTTAAATG
1 AAAAAAAAT-TTAAATG
19276893 AA
1 AA
19276895 TATGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.36
15 2 0.07
16 5 0.18
17 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAAAAAATTTAAATG
Found at i:19276879 original size:19 final size:20
Alignment explanation
Indices: 19276843--19276883 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19276833 GTATATTAGG
*
19276843 AAAAAAATAAATTTAAATGA
1 AAAAAAATAAATTGAAATGA
*
19276863 AAAAAAATTAA-TGAAATGA
1 AAAAAAATAAATTGAAATGA
19276882 AA
1 AA
19276884 TGTTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAAAATAAATTGAAATGA
Found at i:19277244 original size:47 final size:47
Alignment explanation
Indices: 19277174--19277263 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
19277164 AAAAATTGTA
* *
19277174 TCTGGTGCCAGCCATCTACTGGCCAGCACTAAATTTTTTTTAATGTC
1 TCTGGTGCCAGCCATCTACTGGCCAGAACCAAATTTTTTTTAATGTC
* *
19277221 TCTGGTGCTAGCCAT-TACATGGCCAGAACCAATTTTTTTTTAA
1 TCTGGTGCCAGCCATCTAC-TGGCCAGAACCAAATTTTTTTTAA
19277264 ATACTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.08
47 35 0.92
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (47 bp):
TCTGGTGCCAGCCATCTACTGGCCAGAACCAAATTTTTTTTAATGTC
Found at i:19277962 original size:120 final size:123
Alignment explanation
Indices: 19277811--19278118 Score: 282
Period size: 133 Copynumber: 2.4 Consensus size: 123
19277801 AGAGAATCGA
* * * ** * *
19277811 AACCCAACACGGTAGGGCACGGTTCTTCGAATTTCCAAACATTGAACATTGTCTCG-CTTT-G-G
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGTCTCGTCTTTAGTG
* * * * * *
19277873 AAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGC
66 AAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGC
* * * *
19277931 AACCCAGTACGATAGGGCACGATTCCCCGAATTACCGAACGTCGAACATT-TCCTTCGTTTTTAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGT-C-TCGTCTTT--
* **
19277995 AAAGTTTTTAGAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAA
62 --AG----T-GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAA
19278060 TTGC
120 TTGC
* * *
19278064 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATCGTCTC
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGTCTC
19278119 CGTTTTAAAG
Statistics
Matches: 147, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
119 1 0.01
120 41 0.28
121 3 0.02
122 3 0.02
127 1 0.01
132 2 0.01
133 95 0.65
134 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (123 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTGTCTCGTCTTTAGTG
AAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGC
Found at i:19278110 original size:133 final size:133
Alignment explanation
Indices: 19277872--19278112 Score: 356
Period size: 133 Copynumber: 1.8 Consensus size: 133
19277862 TCTCGCTTTG
* * * * * *
19277872 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * *
19277937 GTACGATAGGGCACGATTCCCCGAATTACCGAACGTCGAACATTTCCTTCGTTTTTAAAAAGTTT
66 GCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTTAAAAAGTTT
19278002 TTA
131 TTA
* **
19278005 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* *
19278070 GCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACAT
19278113 CGTCTCCGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 94 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (133 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTTAAAAAGTTT
TTA
Found at i:19278429 original size:3 final size:3
Alignment explanation
Indices: 19278416--19278469 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
19278406 ACAAACAATG
* * *
19278416 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19278464 ATA ATA
1 ATA ATA
19278470 CCACGTAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19278510 original size:2 final size:2
Alignment explanation
Indices: 19278505--19278529 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19278495 ATATGAATAA
19278505 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19278530 CATACGTATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19278691 original size:14 final size:14
Alignment explanation
Indices: 19278674--19278723 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 14
19278664 AATGTGATAT
19278674 TAAAAATATATACA
1 TAAAAATATATACA
19278688 TAAAAATATAATAGCTA
1 TAAAAATAT-ATA-C-A
19278705 TAATATAATATATACA
1 TAA-A-AATATATACA
19278721 TAA
1 TAA
19278724 TATAGTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.29
15 3 0.10
16 5 0.16
17 5 0.16
18 4 0.13
19 5 0.16
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (14 bp):
TAAAAATATATACA
Found at i:19278743 original size:25 final size:25
Alignment explanation
Indices: 19278571--19278690 Score: 52
Period size: 25 Copynumber: 4.8 Consensus size: 25
19278561 TAGTATTGAA
* * *
19278571 TATTAAAAGTATATATATAATAGAG
1 TATTAAAAATATATACATAATATAG
* *
19278596 -A-CAAAAATATATGCATAATATAG
1 TATTAAAAATATATACATAATATAG
* * * *
19278619 TATTGAAAGTATTTACATGGGATAATA-
1 TATTAAAAATATATACAT--AAT-ATAG
* * *
19278646 TATAAAAAACATATGA-ATAATGT-G
1 TATTAAAAATATAT-ACATAATATAG
19278670 ATATTAAAAATATATACATAA
1 -TATTAAAAATATATACATAA
19278691 AAATATAATA
Statistics
Matches: 66, Mismatches: 20, Indels: 18
0.63 0.19 0.17
Matches are distributed among these distances:
23 17 0.26
24 4 0.06
25 28 0.42
27 13 0.20
28 4 0.06
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.33
Consensus pattern (25 bp):
TATTAAAAATATATACATAATATAG
Found at i:19278826 original size:2 final size:2
Alignment explanation
Indices: 19278809--19278854 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
19278799 TACTTCATAA
* * * *
19278809 AT AT AT AC AT AC AT AT AT AT AT AT AT AT GT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19278851 AT AT
1 AT AT
19278855 GTTAAAAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:19278990 original size:24 final size:24
Alignment explanation
Indices: 19278963--19279017 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
19278953 TAGTAATTAT
* * *
19278963 AATACTAATACTAATAATAAATAC
1 AATAATAATACTAAAAATAAACAC
* *
19278987 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATACTAAAAATAAACAC
19279011 AATAATA
1 AATAATA
19279018 GTCATGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAATAATACTAAAAATAAACAC
Found at i:19279038 original size:24 final size:24
Alignment explanation
Indices: 19278978--19279040 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
19278968 TAATACTAAT
*
19278978 AATAAATACAATAATAGT-AGTAAA
1 AATAAATACAATAATAGTCA-TGAA
*
19279002 AATAAACACAATAATAGTCATGAA
1 AATAAATACAATAATAGTCATGAA
19279026 AATAATATA-AATAAT
1 AATAA-ATACAATAAT
19279041 GTGTACATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 31 0.91
25 3 0.09
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAAATACAATAATAGTCATGAA
Found at i:19279181 original size:35 final size:35
Alignment explanation
Indices: 19279137--19279206 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
19279127 AAAGAAAATA
19279137 AAAGAGTGTATTTAAAAGCATATATATAATATTAT
1 AAAGAGTGTATTTAAAAGCATATATATAATATTAT
19279172 AAAGAGTGTATTTAAAAGCATATATATAATATTAT
1 AAAGAGTGTATTTAAAAGCATATATATAATATTAT
19279207 TGGAACTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (35 bp):
AAAGAGTGTATTTAAAAGCATATATATAATATTAT
Found at i:19279915 original size:2 final size:2
Alignment explanation
Indices: 19279853--19279904 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
19279843 TTTTTGTTTC
19279853 TA TA TA TA 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
19279895 TA TA TA TA TA
1 TA TA TA TA TA
19279905 CCTTGATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19279981 original size:14 final size:13
Alignment explanation
Indices: 19279958--19279988 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
19279948 ATAATAAAAT
19279958 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
19279971 AAAAAAGAAAAGAA
1 AAAAAA-AAAAGAA
19279985 AAAA
1 AAAA
19279989 CCTTAAGCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:19284157 original size:17 final size:17
Alignment explanation
Indices: 19284135--19284173 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19284125 TAAACCCCAA
19284135 TTTCTCCCTTTT-CTTTC
1 TTTCT-CCTTTTCCTTTC
*
19284152 TTTCTCTTTTTCCTTTC
1 TTTCTCCTTTTCCTTTC
19284169 TTTCT
1 TTTCT
19284174 TTCTCCCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCCTTTTCCTTTC
Found at i:19286151 original size:27 final size:27
Alignment explanation
Indices: 19286120--19286190 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
19286110 TTAGTTTACC
19286120 AATTACTGAAATACCCTCGACCTATAA
1 AATTACTGAAATACCCTCGACCTATAA
* * *
19286147 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCCTCGACCTATAA
**
19286174 AATTACCAAAATACCCT
1 AATTACTGAAATACCCT
19286191 TGGTTTATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTCGACCTATAA
Found at i:19286203 original size:27 final size:27
Alignment explanation
Indices: 19286171--19286351 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
19286161 CCTCGACTTG
19286171 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
* * * *
19286198 TGAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
*
19286225 TAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
* * *
19286252 CAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* *
19286279 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
*
19286306 TAAAATTACCAAAATACCCATGGTTTGA
1 TAAAATTACCAAAATACCCTTGGTTT-A
*
19286334 -AAAATTACTAAAATACCC
1 TAAAATTACCAAAATACCC
19286352 CTGTAGGGTA
Statistics
Matches: 131, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 130 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGGTTTA
Found at i:19286213 original size:54 final size:54
Alignment explanation
Indices: 19286168--19286351 Score: 305
Period size: 54 Copynumber: 3.4 Consensus size: 54
19286158 TACCCTCGAC
* * *
19286168 TTGTAAAATTACCAAAATACCCTTGGTTTATGAAATCACCAAAATACCCCTGGT
1 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
*
19286222 TTGTAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
* *
19286276 TTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGT
1 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
*
19286330 TTGAAAAATTACTAAAATACCC
1 TTGTAAAATTACTAAAATACCC
19286352 CTGTAGGGTA
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
Found at i:19287021 original size:28 final size:28
Alignment explanation
Indices: 19286989--19287057 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
19286979 ACGTAGATCA
19286989 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
19287017 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
19287045 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
19287058 GGGTTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 3 0.08
27 8 0.20
28 29 0.73
ACGTcount: A:0.45, C:0.28, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:19294932 original size:39 final size:39
Alignment explanation
Indices: 19294873--19295074 Score: 350
Period size: 39 Copynumber: 5.2 Consensus size: 39
19294863 GCTCTGATGA
19294873 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
19294912 GCTTTAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* *
19294951 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
**
19294990 GCTTCAGTTAGCCTCTAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
19295029 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
19295068 GCTTCAG
1 GCTTCAG
19295075 CTAGATTTCG
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 152 1.00
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:19298550 original size:26 final size:26
Alignment explanation
Indices: 19298514--19298623 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
19298504 CATGAAATTC
19298514 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19298540 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19298566 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
19298592 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19298618 TTATCA
1 TTATCA
19298624 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19301107 original size:20 final size:18
Alignment explanation
Indices: 19301078--19301122 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
19301068 AACGAAAAGC
19301078 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
19301096 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
19301115 AGGGAAAA
1 AGGGAAAA
19301123 TTGAAGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:19302839 original size:53 final size:53
Alignment explanation
Indices: 19302723--19302841 Score: 202
Period size: 53 Copynumber: 2.2 Consensus size: 53
19302713 CTGTTACCGT
* *
19302723 TACTGTTACTATTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATGT
1 TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATGC
* *
19302776 TACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
1 TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATGC
19302829 TACTGTTACTGTT
1 TACTGTTACTGTT
19302842 ACTGTTCCGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (53 bp):
TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATGC
Found at i:19302845 original size:59 final size:58
Alignment explanation
Indices: 19302711--19302847 Score: 194
Period size: 53 Copynumber: 2.4 Consensus size: 58
19302701 CGGATATTGT
* *
19302711 TACTGTTACCGTTACTGTTACTATTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTG-TACTGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCG
*
19302770 TA----A-TGTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTACTGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCG
19302823 TACTGCTACTGTTACTGTTACTGTT
1 TACTG-TACTGTTACTGTTACTGTT
19302848 CCGGCTTCGG
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
53 49 0.71
54 1 0.01
58 1 0.01
59 18 0.26
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (58 bp):
TACTGTACTGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCG
Found at i:19303010 original size:18 final size:18
Alignment explanation
Indices: 19302969--19303003 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19302959 GATTATTTCT
19302969 GAATAAATGACTGTTACC
1 GAATAAATGACTGTTACC
*
19302987 GAATAATTGACTGTTAC
1 GAATAAATGACTGTTAC
19303004 TGGATAACCG
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:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
GAATAAATGACTGTTACC
Found at i:19303053 original size:18 final size:18
Alignment explanation
Indices: 19303027--19303089 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
19303017 AATTGATCGA
*
19303027 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* * *
19303045 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
19303063 TACTGAATAACTGACTGT
1 TACTGAATAACTGATTAT
19303081 TACTGAATA
1 TACTGAATA
19303090 GATAATTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:19303088 original size:36 final size:36
Alignment explanation
Indices: 19303017--19303089 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
19303007 ATAACCGATC
** *
19303017 AATTGATCGATACTGAATAACTGGTTATTATTGAAT
1 AATTGATCGATACTGAATAACTGACTATTACTGAAT
* * *
19303053 AATTGATTGTTACTGAATAACTGACTGTTACTGAAT
1 AATTGATCGATACTGAATAACTGACTATTACTGAAT
19303089 A
1 A
19303090 GATAATTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (36 bp):
AATTGATCGATACTGAATAACTGACTATTACTGAAT
Found at i:19303098 original size:36 final size:36
Alignment explanation
Indices: 19303027--19303103 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
19303017 AATTGATCGA
** * *
19303027 TACTGAATAACTGGTTATTATTGAATAATTGATTGT
1 TACTGAATAACTGACTATTACTGAATAATTAATTGT
*
19303063 TACTGAATAACTGACTGTTACTGAATAGA-TAATTGT
1 TACTGAATAACTGACTATTACTGAATA-ATTAATTGT
19303099 T-CTGA
1 TACTGA
19303104 GTGTTAATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 4 0.11
36 30 0.86
37 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (36 bp):
TACTGAATAACTGACTATTACTGAATAATTAATTGT
Found at i:19303099 original size:18 final size:18
Alignment explanation
Indices: 19303027--19303103 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
19303017 AATTGATCGA
** *
19303027 TACTGAATAACTGGTTAT
1 TACTGAATAACTAATTGT
* * *
19303045 TATTGAATAATTGATTGT
1 TACTGAATAACTAATTGT
* *
19303063 TACTGAATAACTGACTGT
1 TACTGAATAACTAATTGT
19303081 TACTGAATAGA-TAATTGT
1 TACTGAATA-ACTAATTGT
19303099 T-CTGA
1 TACTGA
19303104 GTGTTAATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
17 4 0.08
18 44 0.90
19 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTAATTGT
Found at i:19305151 original size:21 final size:21
Alignment explanation
Indices: 19305110--19305151 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19305100 CACTACAATA
* *
19305110 TTTCCTATCACTTCCTTTTAT
1 TTTCCTATCACTTCATATTAT
19305131 TTTCCT-TCACTATCATATTAT
1 TTTCCTATCACT-TCATATTAT
19305152 GAACATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTCCTATCACTTCATATTAT
Found at i:19306923 original size:4 final size:4
Alignment explanation
Indices: 19306914--19307005 Score: 50
Period size: 4 Copynumber: 22.8 Consensus size: 4
19306904 ATTTCTCCCT
* ** *
19306914 TTTC TTTC TTTC TCTT- TTCC TTTC TTTC TTTC TCCCC TGT- TTTC TTTC
1 TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC
*
19306962 ATTTC TATTC TGTTC -TTC TTT- TTT- TTTC TTTC TTATG TTTC TTT
1 -TTTC T-TTC T-TTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTT
19307006 TGTTTATTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
3 12 0.17
4 39 0.57
5 18 0.26
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:19307177 original size:8 final size:8
Alignment explanation
Indices: 19307164--19307194 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
19307154 TTTAATTAAT
19307164 ATAATATA
1 ATAATATA
*
19307172 ATAATACA
1 ATAATATA
19307180 ATAATATA
1 ATAATATA
19307188 ATAATAT
1 ATAATAT
19307195 TTACTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:19320398 original size:21 final size:21
Alignment explanation
Indices: 19320366--19320429 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
19320356 ATTATATTAT
* *
19320366 AATAAAACAAAATAAATAAAG
1 AATAAAACAAAAGAAAGAAAG
19320387 AATAAATA-AAAAGAAAGAAAG
1 AATAAA-ACAAAAGAAAGAAAG
19320408 -ATAGAAACGAAACAGAAAGAAA
1 AATA-AAAC-AAA-AGAAAGAAA
19320430 AAGAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 4 0.11
21 19 0.53
22 4 0.11
23 9 0.25
ACGTcount: A:0.73, C:0.05, G:0.12, T:0.09
Consensus pattern (21 bp):
AATAAAACAAAAGAAAGAAAG
Found at i:19320403 original size:4 final size:4
Alignment explanation
Indices: 19320396--19320464 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
19320386 GAATAAATAA
*
19320396 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
19320445 AAAAG AAA- AAGG AAAG AAAG
1 -AAAG AAAG AAAG AAAG AAAG
19320465 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 6 0.11
4 37 0.69
5 7 0.13
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:19320436 original size:33 final size:34
Alignment explanation
Indices: 19320394--19320463 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
19320384 AAGAATAAAT
* * *
19320394 AAAAAGAAAGAAAGATAGAAACGAAACA-GAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
19320427 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
19320461 AAA
1 AAA
19320464 GGAAGGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.01
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
Found at i:19320455 original size:29 final size:28
Alignment explanation
Indices: 19320383--19320464 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
19320373 CAAAATAAAT
* *
19320383 AAAGAATAAATAAAAAGAAAGAAAGATAG
1 AAAGAA-AAAGAAAAAGAAAGAAAGAAAG
*
19320412 AAACGAAACAGAAAGAA-AAAGAAAGAAAG
1 AAA-GAAAAAGAAA-AAGAAAGAAAGAAAG
19320441 AAAG-AAAAGAAAAAGGAAAGAAAG
1 AAAGAAAAAGAAAAA-GAAAGAAAG
19320465 GAAGGAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
26 2 0.04
27 7 0.16
28 9 0.20
29 22 0.49
30 5 0.11
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAGAAAGAAAGAAAG
Found at i:19320475 original size:20 final size:20
Alignment explanation
Indices: 19320396--19320475 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
19320386 GAATAAATAA
* *
19320396 AAAGAAAGAAAGATAGAAACGA
1 AAAGAAAGAAA-AGAGAAA-GG
19320418 AACAGAAAGAAAA-AGAAA-G
1 AA-AGAAAGAAAAGAGAAAGG
*
19320437 AAAGAAAGAAAAGAAAAAGG
1 AAAGAAAGAAAAGAGAAAGG
* *
19320457 AAAGAAAGGAAGGAGAAAG
1 AAAGAAAGAAAAGAGAAAG
19320476 CCACTGCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.20
19 6 0.12
20 17 0.34
21 5 0.10
22 3 0.06
23 9 0.18
ACGTcount: A:0.70, C:0.03, G:0.26, T:0.01
Consensus pattern (20 bp):
AAAGAAAGAAAAGAGAAAGG
Found at i:19321639 original size:23 final size:25
Alignment explanation
Indices: 19321613--19321659 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19321603 TATCATTCAT
*
19321613 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
19321636 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
19321660 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:19322023 original size:46 final size:44
Alignment explanation
Indices: 19321920--19322305 Score: 416
Period size: 46 Copynumber: 9.0 Consensus size: 44
19321910 TTTGACGTGA
* * * * * *
19321920 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CACTTTCATTCAGGT
** *
19321965 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTCAT-TCAGGT
*
19322011 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTCAT-TCAGGT
19322057 TGCCATGGTATCTTTCAACCATGGTCTTACA----CA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACTTTCATTCAGGT
* *
19322095 TACCATGGTATCTTTCAACCATGGTTTTACA----CA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACTTTCATTCAGGT
19322133 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTCAT-TCAGGT
19322179 TGCCATGGTATCTTTCAACCATGGT-TTACA----CA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACTTTCATTCAGGT
19322216 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTCAT-TCAGGT
19322262 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-TTTCAT-TCAG
19322306 AGAGCACACT
Statistics
Matches: 303, Mismatches: 18, Indels: 39
0.84 0.05 0.11
Matches are distributed among these distances:
37 30 0.10
38 75 0.25
40 2 0.01
41 2 0.01
43 4 0.01
44 4 0.01
45 31 0.10
46 155 0.51
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (44 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACTTTCATTCAGGT
Found at i:19322103 original size:38 final size:38
Alignment explanation
Indices: 19322052--19322294 Score: 317
Period size: 38 Copynumber: 6.0 Consensus size: 38
19322042 CATCTCATAT
19322052 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
19322090 CAGGTTACCATGGTATCTTTCAACCATGGTTTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19322128 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
19322173 TCAGGTTGCCATGGTATCTTTCAACCATGGT-TTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19322211 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
19322256 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
19322295 TTTCATATCA
Statistics
Matches: 184, Mismatches: 4, Indels: 33
0.83 0.02 0.15
Matches are distributed among these distances:
37 30 0.16
38 70 0.38
39 1 0.01
40 7 0.04
41 1 0.01
43 5 0.03
44 3 0.02
45 4 0.02
46 63 0.34
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:19322233 original size:83 final size:83
Alignment explanation
Indices: 19322090--19322294 Score: 383
Period size: 83 Copynumber: 2.4 Consensus size: 83
19322080 GTCTTACACA
*
19322090 CAGGTTACCATGGTATCTTTCAACCATGGTTTTACACACAGGTTGCCATGGTATCTTTCAACCAT
1 CAGGTTGCCATGGTATCTTTCAACCATGG-TTTACACACAGGTTGCCATGGTATCTTTCAACCAT
19322155 GGTCTTACACATTTCATAT
65 GGTCTTACACATTTCATAT
19322174 CAGGTTGCCATGGTATCTTTCAACCATGGTTTACACACAGGTTGCCATGGTATCTTTCAACCATG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTTTACACACAGGTTGCCATGGTATCTTTCAACCATG
19322239 GTCTTACACATTTCATAT
66 GTCTTACACATTTCATAT
19322257 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGT-TTACACA
19322295 TTTCATATCA
Statistics
Matches: 119, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
83 84 0.71
84 35 0.29
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (83 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTTTACACACAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATAT
Found at i:19326490 original size:2 final size:2
Alignment explanation
Indices: 19326483--19326537 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
19326473 ATGTAGCTAA
19326483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19326525 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
19326538 AAGAAAGGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19335530 original size:46 final size:46
Alignment explanation
Indices: 19335465--19335735 Score: 357
Period size: 46 Copynumber: 5.9 Consensus size: 46
19335455 TTATCTTTGA
* * * *
19335465 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
*
19335511 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGT
* * *
19335557 CACGTTGCCATGGTATCTTTCAACCGTGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGT
* * * * *
19335603 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCAGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* * *
19335649 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
*
19335695 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
19335736 CATTTCAGAA
Statistics
Matches: 204, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 4 0.02
46 197 0.97
47 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
Found at i:19335718 original size:138 final size:138
Alignment explanation
Indices: 19335470--19335738 Score: 412
Period size: 138 Copynumber: 1.9 Consensus size: 138
19335460 TTTGACATGA
* * * *
19335470 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCAGTCATGTTGCCATGGTATCTTTCAAC
** * * **
19335535 CATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCGTGGTCTTATTCATTTCA
66 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
19335600 TGTCACGC
131 TGTCACGC
* *
19335608 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCAGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCAGTCATGTTGCCATGGTATCTTTCAAC
* *
19335673 CATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
19335738 T
131 T
19335739 TTCAGAAACC
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 117 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCAGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TGTCACGC
Found at i:19337478 original size:11 final size:11
Alignment explanation
Indices: 19337462--19337509 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
19337452 CTTTATATAC
19337462 TAATAAAATAA
1 TAATAAAATAA
*
19337473 TAATAAAATATCT
1 TAATAAAATA--A
* *
19337486 TATTAAAATAT
1 TAATAAAATAA
19337497 TAATAAAATAA
1 TAATAAAATAA
19337508 TA
1 TA
19337510 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:19340448 original size:79 final size:80
Alignment explanation
Indices: 19340347--19340531 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 80
19340337 ACGACTCGCT
* ** *
19340347 CAAATGCCTTCAGGACGAAGCCCGG-TTATAGTGA-CTCGCACGAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTC-GGGCTTAGCCCGGATT-TA-TGATCTCGCACGAATGCCTTC-GGATCCTAACC
* *
19340409 CGGGTTTAGTAACTT-GCA
62 CGGATATAGTAACTTAGCA
* **
19340427 CAAATGCCTTCGGGCTTAGCCCGGATTTATTATCTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTATGATCTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
19340492 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
19340507 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
19340532 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 5 0.06
79 54 0.60
80 31 0.34
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTATGATCTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:19340472 original size:39 final size:40
Alignment explanation
Indices: 19340340--19340531 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 40
19340330 GGATATAACG
* * * * *
19340340 ACTCGCTCAAATGCCTTCAGGAC-GAAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
19340380 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
19340420 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * ** * *
19340459 TCTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
19340499 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
19340532 CATCATTCGA
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 79 0.64
41 12 0.10
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:19348480 original size:79 final size:81
Alignment explanation
Indices: 19348379--19348563 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
19348369 ACGACTCGCT
** *
19348379 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGA-CTCGCACGAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TA-TGATCTCGCACGAATGCCTTC-GGATCCTAACC
* *
19348441 CGGGTTTAGTAACTT-GCA
63 CGGATATAGTAACTTAGCA
* **
19348459 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTATCTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
*
19348523 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
19348539 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19348564 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTATGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:19348504 original size:39 final size:40
Alignment explanation
Indices: 19348372--19348563 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
19348362 GGATATAACG
* * * *
19348372 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
19348412 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
19348452 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * ** * *
19348491 TCTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
19348531 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
19348564 CATCATTCGA
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 80 0.65
41 12 0.10
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:19352368 original size:39 final size:39
Alignment explanation
Indices: 19352301--19352557 Score: 408
Period size: 39 Copynumber: 6.5 Consensus size: 39
19352291 ACAAAGCATG
* * *
19352301 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
19352341 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTG
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
19352381 CGGGACTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
19352420 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
19352459 CGGGACTTAGCCCGGATATAACACCAGCACGAATACCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
19352498 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
19352537 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
19352558 TTCTCCATTA
Statistics
Matches: 205, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 183 0.89
40 22 0.11
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:19354503 original size:6 final size:6
Alignment explanation
Indices: 19354492--19354530 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
19354482 AGTCCATCTA
* *
19354492 TTTTAT TTTTAT TTTTAT TTTTAT CTTTAT TTTCAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
19354531 GTCTTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:19372027 original size:30 final size:30
Alignment explanation
Indices: 19371983--19372041 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
19371973 AACTTTTTAT
19371983 TTTCCCCCAAAATTTTTACTT-CTTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCTTCCCAC
19372012 TTTCCCCCTAAAATTTTTACTTCCTTCCCA
1 TTTCCCCC-AAAATTTTTACTTCCTTCCCA
19372042 TCCCACCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.29
30 13 0.46
31 7 0.25
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCTTCCCAC
Found at i:19375874 original size:13 final size:13
Alignment explanation
Indices: 19375856--19375889 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
19375846 GTGATTTGGT
19375856 GCCACACGGCCTG
1 GCCACACGGCCTG
*
19375869 GCCACACGGCTTG
1 GCCACACGGCCTG
19375882 GCCACACG
1 GCCACACG
19375890 ATCATGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.44, G:0.29, T:0.09
Consensus pattern (13 bp):
GCCACACGGCCTG
Found at i:19377908 original size:23 final size:23
Alignment explanation
Indices: 19377855--19377909 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
19377845 ATGCATACAT
19377855 ACATATATCACTCATACTCATATC
1 ACATATAT-ACTCATACTCATATC
*
19377879 ACA-ATATACTTCATTCTCATA-C
1 ACATATATAC-TCATACTCATATC
*
19377901 CCATATATA
1 ACATATATA
19377910 AGTTGGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 19 0.70
24 3 0.11
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (23 bp):
ACATATATACTCATACTCATATC
Found at i:19378426 original size:21 final size:21
Alignment explanation
Indices: 19378386--19378492 Score: 137
Period size: 21 Copynumber: 5.2 Consensus size: 21
19378376 CAATTGAGCG
19378386 AACAGAAGCTCG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTA
19378405 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * * *
19378426 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTA
* * *
19378447 AATAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
19378468 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
19378489 AACA
1 AACA
19378493 TCAAGTAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
19 12 0.16
20 2 0.03
21 60 0.81
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:19381385 original size:24 final size:22
Alignment explanation
Indices: 19381344--19381414 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
19381334 TATTATTAAT
*
19381344 TTTAAAATTTTTGAAATATATA
1 TTTAAAATTTTTAAAATATATA
*
19381366 TTTAAAATATTTTAATAATATATGTT
1 TTTAAAAT-TTTTAA-AATATA--TA
*
19381392 TTTTAAA-TTTT-AAATATATA
1 TTTAAAATTTTTAAAATATATA
19381412 TTT
1 TTT
19381415 TGAAATTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.10
22 14 0.34
23 6 0.15
24 10 0.24
26 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTAAAATTTTTAAAATATATA
Found at i:19382411 original size:20 final size:20
Alignment explanation
Indices: 19382383--19382454 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
19382373 GTTGGTTATA
*
19382383 ATTTTTAAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
19382403 ATTTATAAATTTATA-TATTA-
1 ATTTATAAATTT-TAGTA-CAC
* *
19382423 ATTTTTTAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
19382443 ATTCATAAATTT
1 ATTTATAAATTT
19382455 ATGTACTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTATAAATTTTAGTACAC
Found at i:19382425 original size:40 final size:41
Alignment explanation
Indices: 19382381--19382465 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
19382371 GTGTTGGTTA
*
19382381 TAATTTTTAAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
* *
19382421 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
19382462 TAAT
1 TAAT
19382466 ATATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.52
Consensus pattern (41 bp):
TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
Found at i:19382476 original size:40 final size:40
Alignment explanation
Indices: 19382390--19382476 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
19382380 ATAATTTTTA
* * *
19382390 AATTTTAGTACACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
*
19382430 AATTTTAGTACACATTCATAAATTTATGTACTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
19382470 ATTTTTA
1 AATTTTA
19382477 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:19382614 original size:71 final size:72
Alignment explanation
Indices: 19382528--19382672 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
19382518 GTTTAAAAAC
* * * * * *
19382528 TTAAAGAAATTAAATATATTAAAAAACGTTATGTATAGCGAATTTTAAAATTTTAATATATTTAA
1 TTAAAGAAATTAAATATATTAAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
19382593 TATATTT
66 TATATTT
*
19382600 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
1 TTAAAGAAATTAAATATATTAAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
*
19382664 TTTATTT
66 TATATTT
19382671 TT
1 TT
19382673 TTAAAATATA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 60 0.92
72 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (72 bp):
TTAAAGAAATTAAATATATTAAAAAACGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
TATATTT
Found at i:19384874 original size:30 final size:30
Alignment explanation
Indices: 19384838--19384944 Score: 135
Period size: 30 Copynumber: 3.6 Consensus size: 30
19384828 GTCGCAGAGC
* *
19384838 AGTTCATATCACTCAGACAT-TGCTGGTTCA
1 AGTTCATATCACCCAGACATAGGC-GGTTCA
* * *
19384868 AGTTCATATCACCCGGGCATAGGCAGTTCA
1 AGTTCATATCACCCAGACATAGGCGGTTCA
*
19384898 AGTTCATATCACCCAGACATAGGCGGTTCG
1 AGTTCATATCACCCAGACATAGGCGGTTCA
*
19384928 AGTTCATTTCACCCAGA
1 AGTTCATATCACCCAGA
19384945 GCAACCACCG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
30 64 0.97
31 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGGCGGTTCA
Found at i:19388851 original size:23 final size:22
Alignment explanation
Indices: 19388824--19388866 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
19388814 TTAAATTTAA
*
19388824 ATTTAATAATTTATAAAAATTAT
1 ATTTAA-AATTTAAAAAAATTAT
19388847 ATTTAAAATTTAAAAAAATT
1 ATTTAAAATTTAAAAAAATT
19388867 TAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTAAAATTTAAAAAAATTAT
Found at i:19388871 original size:30 final size:30
Alignment explanation
Indices: 19388809--19388894 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
19388799 TGAATATCTT
* *
19388809 TAAAATTAAATTT-AAATTT-AATAATTTA
1 TAAAATTAAATTTAAAATTTAAAAAAATTA
*
19388837 TAAAAATTATATTTAAAATTTAAAAAAATT-
1 T-AAAATTAAATTTAAAATTTAAAAAAATTA
*
19388867 TAAAATATAAATTTAAAATATTATAAAA
1 TAAAAT-TAAATTTAAAAT-TTAAAAAA
19388895 CAAATAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 16 0.33
30 18 0.38
31 13 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAATTAAATTTAAAATTTAAAAAAATTA
Found at i:19388880 original size:13 final size:13
Alignment explanation
Indices: 19388862--19388887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19388852 AAATTTAAAA
19388862 AAATTTAAAATAT
1 AAATTTAAAATAT
19388875 AAATTTAAAATAT
1 AAATTTAAAATAT
19388888 TATAAAACAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:19388968 original size:24 final size:24
Alignment explanation
Indices: 19388922--19389001 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
19388912 ATGTCATATC
* * *
19388922 TTTAAAAATAATATATTTTAAATTA
1 TTTAAAAATCATA-ATTTAAAATAA
*
19388947 TTTCAAAATCATAATTTAAAATAA
1 TTTAAAAATCATAATTTAAAATAA
*
19388971 TTTAAAAATCATAA-TTAAAAAAA
1 TTTAAAAATCATAATTTAAAATAA
19388994 TTATAAAA
1 TT-TAAAA
19389002 CAAATTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 10 0.21
24 27 0.56
25 11 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTAAAAATCATAATTTAAAATAA
Found at i:19388990 original size:13 final size:13
Alignment explanation
Indices: 19388951--19388991 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
19388941 AAATTATTTC
*
19388951 AAAATCATAATTT
1 AAAATCATAATTA
*
19388964 AAAAT-A-ATTTA
1 AAAATCATAATTA
19388975 AAAATCATAATTA
1 AAAATCATAATTA
19388988 AAAA
1 AAAA
19388992 AATTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATCATAATTA
Found at i:19389109 original size:17 final size:18
Alignment explanation
Indices: 19389057--19389110 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
19389047 TTAAAAGGTC
*
19389057 ATATCTTTAAAATATTTAA
1 ATAT-TTTATAATATTTAA
* *
19389076 ATGTTTTATATTA-TTAA
1 ATATTTTATAATATTTAA
19389093 ATATTTT-TAATATTTAA
1 ATATTTTATAATATTTAA
19389110 A
1 A
19389111 AAATAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.14
17 15 0.52
18 7 0.24
19 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATTTTATAATATTTAA
Found at i:19389146 original size:33 final size:33
Alignment explanation
Indices: 19389104--19389208 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 33
19389094 TATTTTTAAT
* * *
19389104 ATTTAAAAAATAATATTTAAATTTTTA-AACAATG
1 ATTT-AAAAATAATATTTAAA-ATTTAGAAAAATA
19389138 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
* *
19389171 ATTTTAAATATATATATTTAAAACTTA-AAAAAT-
1 A-TTTAAAAATA-ATATTTAAAATTTAGAAAAATA
19389204 ATTTA
1 ATTTA
19389209 TTATAAAACA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
32 8 0.13
33 23 0.37
34 19 0.30
35 13 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:19389161 original size:20 final size:20
Alignment explanation
Indices: 19389138--19389178 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
19389128 TTAAACAATG
19389138 ATTT-AAAAATAATATTTAAA
1 ATTTAAAAAATAAT-TTTAAA
19389158 ATTTAGAAAAATAATTTTAAA
1 ATTTA-AAAAATAATTTTAAA
19389179 TATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTAAAAAATAATTTTAAA
Found at i:19389288 original size:24 final size:23
Alignment explanation
Indices: 19389244--19389314 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
19389234 TCAAGTTTTT
*
19389244 TAAAATTAATAATAAGAAAATAAAA
1 TAAAA-TAAAAATAA-AAAATAAAA
19389269 TAAAATAAAAATAAATAAAT-AAA
1 TAAAATAAAAATAAA-AAATAAAA
*
19389292 TAAAGATAAAGA-AAAAAATAAAA
1 TAAA-ATAAAAATAAAAAATAAAA
19389315 AATGTGAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 4 0.10
23 14 0.34
24 18 0.44
25 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAAATAAAAATAAAAAATAAAA
Found at i:19389292 original size:18 final size:18
Alignment explanation
Indices: 19389261--19389315 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
19389251 AATAATAAGA
19389261 AAATAAAATAAAATAAAAAT
1 AAAT-AAAT-AAATAAAAAT
*
19389281 AAATAAATAAATAAAGAT
1 AAATAAATAAATAAAAAT
* *
19389299 AAAGAAAAAAATAAAAA
1 AAATAAATAAATAAAAA
19389316 ATGTGAGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 23 0.74
19 4 0.13
20 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (18 bp):
AAATAAATAAATAAAAAT
Found at i:19389409 original size:21 final size:21
Alignment explanation
Indices: 19389354--19389420 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
19389344 AAAAGTAAAA
*
19389354 AAAAAATTTAAAAATATATATT
1 AAAAATTTTAAAAATA-ATATT
* ** *
19389376 TAATGTTTAAAAAATAATATT
1 AAAAATTTTAAAAATAATATT
*
19389397 AAAAATTTTAAAAACAAT-TT
1 AAAAATTTTAAAAATAATATT
19389417 AAAA
1 AAAA
19389421 TAATATTTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
20 6 0.17
21 18 0.51
22 11 0.31
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (21 bp):
AAAAATTTTAAAAATAATATT
Found at i:19389696 original size:19 final size:20
Alignment explanation
Indices: 19389657--19389700 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19389647 ATATATTTTT
* *
19389657 AAATAAATTTATTTTTTAAC
1 AAATAAATCTATTTATTAAC
19389677 AAATAAATCT-TTTATTAAC
1 AAATAAATCTATTTATTAAC
19389696 AAATA
1 AAATA
19389701 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAAATCTATTTATTAAC
Found at i:19389706 original size:17 final size:18
Alignment explanation
Indices: 19389668--19389709 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
19389658 AATAAATTTA
19389668 TTTT-TTAACAAATAAATC
1 TTTTATTAACAAAT-AATC
*
19389686 TTTTATTAACAAAT-ATT
1 TTTTATTAACAAATAATC
19389703 TTTTATT
1 TTTTATT
19389710 TTCTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
19 9 0.41
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTATTAACAAATAATC
Found at i:19390099 original size:22 final size:22
Alignment explanation
Indices: 19390072--19390126 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
19390062 GAAAGTTTAA
19390072 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAAT-TTAAAAAAAT
*
19390094 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAAT
*
19390116 AAT-TTCAAAAT
1 AATATTTAAAAT
19390127 ATATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:19390187 original size:24 final size:25
Alignment explanation
Indices: 19390143--19390209 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
19390133 TTAAATTTAA
19390143 AAAATATATATATTAATAAAATATTT
1 AAAATATATATATTAATAAAAT-TTT
* *
19390169 TAAATATATAT-TTCA-AAAATTTT
1 AAAATATATATATTAATAAAATTTT
*
19390192 AAAAT-TA-ATAATAATAAA
1 AAAATATATATATTAATAAA
19390210 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 2 0.06
22 4 0.12
23 10 0.29
24 5 0.15
25 3 0.09
26 10 0.29
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATATATATATTAATAAAATTTT
Found at i:19390195 original size:51 final size:46
Alignment explanation
Indices: 19390123--19390216 Score: 109
Period size: 51 Copynumber: 1.9 Consensus size: 46
19390113 AGTAATTTCA
*
19390123 AAATATATATTTAAATTTAAAA-AATATATATATTAATAAAATATTTT
1 AAATATATATTTAAATTTAAAATAATA-ATA-ATAAATAAAATATTTT
19390170 AAATATATATTTCAAAAATTTTAAAATTAATAATAATAAATAAAATA
1 AAATATATATTT---AAA-TTTAAAA-TAATAATAATAAATAAAATA
19390217 AATAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
47 12 0.30
50 3 0.08
51 18 0.45
52 3 0.08
53 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (46 bp):
AAATATATATTTAAATTTAAAATAATAATAATAAATAAAATATTTT
Found at i:19393497 original size:38 final size:38
Alignment explanation
Indices: 19393415--19393609 Score: 212
Period size: 38 Copynumber: 5.0 Consensus size: 38
19393405 AAACCCAAAC
* * * * *
19393415 ATAACACCAGCACAAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCAGGA-TTT-AACCCGGAT
* *
19393455 ATAATACCAGCACTAGGCCTGCAGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCAGGATTTAACCCGGAT
*
19393493 ATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCAGGATTTAACCCGGAT
*
19393531 ATATTACCAGCACAAAGCCTGC-GAGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCAG-GATTTAACCCGGAT
* * * * *
19393569 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCAGG-ATTTAA-CCCGGAT
19393609 A
1 A
19393610 CACATCAAAT
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 96 0.71
39 9 0.07
40 29 0.21
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCAGGATTTAACCCGGAT
Found at i:19402290 original size:21 final size:21
Alignment explanation
Indices: 19402252--19402379 Score: 127
Period size: 21 Copynumber: 6.2 Consensus size: 21
19402242 CAAATGAGCC
*
19402252 AACAGAAGCTCG--AAAGCTG
1 AACAGAAGCTCGTAAAAGCTA
*
19402271 AACAGAAGCTTGTAAAAGCTA
1 AACAGAAGCTCGTAAAAGCTA
* * * * * *
19402292 AACAAAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAAAGCTA
*
19402313 AACAGAAGCTC-AAAAGAGCTA
1 AACAGAAGCTCGTAAA-AGCTA
*
19402334 AACAAAAGCTCGTAAAAGCTA
1 AACAGAAGCTCGTAAAAGCTA
*
19402355 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAAAGCTA
19402376 AACA
1 AACA
19402380 AAAAGTAAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
19 11 0.13
20 2 0.02
21 70 0.81
22 3 0.03
ACGTcount: A:0.49, C:0.18, G:0.19, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTAAAAGCTA
Found at i:19402333 original size:42 final size:42
Alignment explanation
Indices: 19402264--19402383 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
19402254 CAGAAGCTCG
**
19402264 AAAGCTGAACAGAAGCTTGTAAA-AGCTAAACAAAAACTCATA
1 AAAGCTGAACAGAAGC-TCAAAAGAGCTAAACAAAAACTCATA
* * * *
19402306 AGAGTTGAACAGAAGCTCAAAAGAGCTAAACAAAAGCTCGTA
1 AAAGCTGAACAGAAGCTCAAAAGAGCTAAACAAAAACTCATA
* **
19402348 AAAGCTAAACAGAAGCTCGTAAGAGCTAAACAAAAA
1 AAAGCTGAACAGAAGCTCAAAAGAGCTAAACAAAAA
19402384 GTAAAACACG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 4 0.06
42 61 0.94
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (42 bp):
AAAGCTGAACAGAAGCTCAAAAGAGCTAAACAAAAACTCATA
Found at i:19402350 original size:63 final size:61
Alignment explanation
Indices: 19402252--19402372 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 61
19402242 CAAATGAGCC
* * * *
19402252 AACAGAAGCTCGAAAGCTGAACAGAAGCTTGTAAAAGCTAAACAAAAACTCATAAGAGTTG
1 AACAGAAGCTCAAAAGCTAAACAAAAGCTCGTAAAAGCTAAACAAAAACTCATAAGAGTTG
* * *
19402313 AACAGAAGCTCAAAAGAGCTAAACAAAAGCTCGTAAAAGCTAAACAGAAGCTCGTAAGAG
1 AACAGAAGCTC-AAA-AGCTAAACAAAAGCTCGTAAAAGCTAAACAAAAACTCATAAGAG
19402373 CTAAACAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 11 0.22
62 2 0.04
63 38 0.75
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (61 bp):
AACAGAAGCTCAAAAGCTAAACAAAAGCTCGTAAAAGCTAAACAAAAACTCATAAGAGTTG
Found at i:19402811 original size:76 final size:76
Alignment explanation
Indices: 19402685--19402838 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 76
19402675 TTTTTCCTTT
19402685 TTCACGAGTTTCTACGGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
1 TTCACGAGTTTCTACGGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
19402750 CTTATAATTCA
66 CTTATAATTCA
* *
19402761 TTCACGAGTTTCTACGGGATTTTGATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
1 TTCACGAGTTTCTACGGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
19402826 CTTATAATTCA
66 CTTATAATTCA
19402837 TT
1 TT
19402839 TCACAATTAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (76 bp):
TTCACGAGTTTCTACGGGATCTTAATTTAAAATATAAAATTATTCATTCATTAGCATATATTTCA
CTTATAATTCA
Found at i:19408365 original size:10 final size:10
Alignment explanation
Indices: 19408350--19408376 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19408340 GGGGCGGTGG
19408350 TGCGGTGTGA
1 TGCGGTGTGA
19408360 TGCGGTGTGA
1 TGCGGTGTGA
19408370 TGCGGTG
1 TGCGGTG
19408377 CATTTATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.11, G:0.52, T:0.30
Consensus pattern (10 bp):
TGCGGTGTGA
Found at i:19419914 original size:25 final size:24
Alignment explanation
Indices: 19419886--19419939 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
19419876 TTTATGTTTT
*
19419886 ATTTATATTATTTT-ATTATACATTC
1 ATTTATATT-TTTTAATT-TACATGC
19419911 ATTTTATATTTTTTAATTTACATGC
1 A-TTTATATTTTTTAATTTACATGC
19419936 ATTT
1 ATTT
19419940 TTATATTCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 11 0.42
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTATATTTTTTAATTTACATGC
Found at i:19419940 original size:25 final size:27
Alignment explanation
Indices: 19419887--19419946 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
19419877 TTATGTTTTA
*
19419887 TTTATATTATTTTATTATACATTCA-T
1 TTTATATTATTTTATTATACATGCATT
19419913 TTTATATT-TTTTAATT-TACATGCATT
1 TTTATATTATTTT-ATTATACATGCATT
19419939 TTTATATT
1 TTTATATT
19419947 CGTTCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTATATTATTTTATTATACATGCATT
Found at i:19419955 original size:26 final size:25
Alignment explanation
Indices: 19419904--19419955 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
19419894 TATTTTATTA
* **
19419904 TACATTCATTTTATATTTTTTAATT
1 TACATGCATTTTATATTCGTTAATT
*
19419929 TACATGCATTTTTATATTCGTTCATT
1 TACATGCA-TTTTATATTCGTTAATT
19419955 T
1 T
19419956 TGTTTTATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.60
Consensus pattern (25 bp):
TACATGCATTTTATATTCGTTAATT
Found at i:19420193 original size:3 final size:3
Alignment explanation
Indices: 19420077--19420174 Score: 144
Period size: 3 Copynumber: 32.3 Consensus size: 3
19420067 TAATATTGTC
* * *
19420077 TAT TAT TAT TAT TAT CAT T-T ATAT TCAT CAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT
19420123 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19420171 TAT T
1 TAT T
19420175 TTAAATCACT
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
2 1 0.01
3 84 0.95
4 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:19420205 original size:28 final size:28
Alignment explanation
Indices: 19420065--19420222 Score: 95
Period size: 27 Copynumber: 5.8 Consensus size: 28
19420055 TTGTGGTAAA
19420065 TTTAATATTGTCTATTATTATTATTA-TCA-
1 TTTAATA-TGT-TATTATTATTATTACT-AT
* * * *
19420094 TTT-ATAT-TCATCATCATTATTATTAT
1 TTTAATATGTTATTATTATTATTACTAT
* *
19420120 TATT-AT-TATTATTATTATTATTATTAT
1 T-TTAATATGTTATTATTATTATTACTAT
* *
19420147 TATT-AT-TATTATTATTATTATTATTAT
1 T-TTAATATGTTATTATTATTATTACTAT
19420174 TTTAAATCACTGTTATTATT-TT-TTACTA-
1 TTT-AAT-A-TGTTATTATTATTATTACTAT
19420202 TTTAATATGTTATTATTATTA
1 TTTAATATGTTATTATTATTA
19420223 CTAAATTTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
25 22 0.20
26 9 0.08
27 52 0.47
28 8 0.07
29 8 0.07
30 2 0.02
31 9 0.08
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTAATATGTTATTATTATTATTACTAT
Found at i:19420530 original size:9 final size:9
Alignment explanation
Indices: 19420517--19420585 Score: 95
Period size: 9 Copynumber: 7.7 Consensus size: 9
19420507 TTTAAAATAT
19420517 TTATTACTTA
1 TTATTA-TTA
19420527 -TATTATTA
1 TTATTATTA
* *
19420535 CTATTAATA
1 TTATTATTA
19420544 TTATTATTA
1 TTATTATTA
19420553 TTATTATTA
1 TTATTATTA
19420562 TTATTATTA
1 TTATTATTA
19420571 TTATTATTA
1 TTATTATTA
*
19420580 TCATTA
1 TTATTA
19420586 CTGTACTATC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
8 3 0.06
9 51 0.94
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
TTATTATTA
Found at i:19420545 original size:6 final size:6
Alignment explanation
Indices: 19420517--19420585 Score: 95
Period size: 6 Copynumber: 11.5 Consensus size: 6
19420507 TTTAAAATAT
* *
19420517 TTATTA CTTA-TA TTATTA CTATTA ATATTA TTATTA TTATTA TTATTA
1 TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
19420565 TTATTA TTATTA TTATCA TTA
1 TTATTA TTATTA TTATTA TTA
19420586 CTGTACTATC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
5 3 0.05
6 51 0.89
7 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (6 bp):
TTATTA
Done.