Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 43
Found at i:1975563 original size:20 final size:20
Alignment explanation
Indices: 1975538--1975576 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1975528 TTTTCAAGGG
1975538 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1975558 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1975577 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1975645 original size:45 final size:46
Alignment explanation
Indices: 1975596--1975682 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 46
1975586 GAACATCGAA
* *
1975596 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
*
1975641 TGCATTTGATGCATCGATGCACAAGACTATGCATCGATGCAC
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCAC
1975683 ATGCTTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:1990301 original size:14 final size:13
Alignment explanation
Indices: 1990273--1990312 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
1990263 TATATAAATG
1990273 AAAACTAAAATAAT
1 AAAA-TAAAATAAT
*
1990287 AAACATAACATAAT
1 AAA-ATAAAATAAT
1990301 AAAATAAAATAA
1 AAAATAAAATAA
1990313 AATATATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 8 0.35
14 14 0.61
15 1 0.04
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:1990307 original size:13 final size:14
Alignment explanation
Indices: 1990274--1990312 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
1990264 ATATAAATGA
1990274 AAAC-TAAAATAAT
1 AAACATAAAATAAT
*
1990287 AAACATAACATAAT
1 AAACATAAAATAAT
1990301 AAA-ATAAAATAA
1 AAACATAAAATAA
1990313 AATATATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACATAAAATAAT
Found at i:1998369 original size:20 final size:20
Alignment explanation
Indices: 1998346--1998412 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
1998336 GAAACTTAAA
1998346 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
1998366 ATCGCAAAGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1998386 ATCGCAACGCTAATTTGACT
1 ATCGCAACGCGAAAATGACT
1998406 ATCGCAA
1 ATCGCAA
1998413 TGGGATAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1998513 original size:19 final size:20
Alignment explanation
Indices: 1998486--1998524 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1998476 GCAACGCGGA
*
1998486 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
1998506 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
1998525 ATCCCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:1998554 original size:20 final size:20
Alignment explanation
Indices: 1998529--1998617 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
1998519 GCGATTATCC
1998529 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
1998549 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1998569 CGTTGCGATAGTC-ATTTCCA
1 CGTTGCGATAGTCAAATT-CG
* **
1998589 CGTTGCGATAGGCATTTTCG
1 CGTTGCGATAGTCAAATTCG
1998609 CGTTGCGAT
1 CGTTGCGAT
1998618 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
19 3 0.05
20 56 0.90
21 3 0.05
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1998627 original size:20 final size:20
Alignment explanation
Indices: 1998604--1998647 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1998594 CGATAGGCAT
1998604 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
1998624 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
1998644 TTTC
1 TTTC
1998648 AGAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:1999155 original size:21 final size:21
Alignment explanation
Indices: 1999129--1999209 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 21
1999119 CTCACATGTC
1999129 ATCATTCAAGAGGCCTCTCCT
1 ATCATTCAAGAGGCCTCTCCT
*
1999150 ATCATTTAAGAGG-C-C-CCT
1 ATCATTCAAGAGGCCTCTCCT
* * *
1999168 ATCATTCCTCAAGAGTCCCCTCCC
1 ATCA-T--TCAAGAGGCCTCTCCT
*
1999192 ACCATTCAAGAGGCCTCT
1 ATCATTCAAGAGGCCTCT
1999210 GTCATCGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 7 0.15
19 2 0.04
20 1 0.02
21 29 0.62
22 1 0.02
23 2 0.04
24 5 0.11
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.26
Consensus pattern (21 bp):
ATCATTCAAGAGGCCTCTCCT
Found at i:1999203 original size:42 final size:42
Alignment explanation
Indices: 1999134--1999245 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
1999124 ATGTCATCAT
* * * * *
1999134 TCAAGAGGCCTCTCCTATCATTTAAGAGGCCCCTATCATTC-C
1 TCAAGAGTCCCCTCCCACCATTCAAGAGGCCCCTATCA-TCGC
* * *
1999176 TCAAGAGTCCCCTCCCACCATTCAAGAGGCCTCTGTCATCGT
1 TCAAGAGTCCCCTCCCACCATTCAAGAGGCCCCTATCATCGC
*
1999218 TGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCAAGA-GTCCCCTCCCACCATTCAAGAG
1999246 CCCGATTCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 55 0.93
43 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCCACCATTCAAGAGGCCCCTATCATCGC
Found at i:1999244 original size:21 final size:21
Alignment explanation
Indices: 1999176--1999245 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
1999166 CTATCATTCC
1999176 TCAAGA-GTCCCCTCCCACCAT
1 TCAAGAGGT-CCCTCCCACCAT
** * *
1999197 TCAAGAGG-CCTCTGTCATCGT
1 TCAAGAGGTCC-CTCCCACCAT
*
1999218 TGAAGAGGTCCCTCCCACCAT
1 TCAAGAGGTCCCTCCCACCAT
1999239 TCAAGAG
1 TCAAGAG
1999246 CCCGATTCAC
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 2 0.06
21 31 0.86
22 3 0.08
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
TCAAGAGGTCCCTCCCACCAT
Found at i:2000769 original size:20 final size:20
Alignment explanation
Indices: 2000744--2000815 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
2000734 AACGCTAAAC
*
2000744 TCAAAATCACAATACGAAAG
1 TCAAAATCGCAATACGAAAG
2000764 TCAAAATCGCAATACGAAAG
1 TCAAAATCGCAATACGAAAG
*
2000784 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATACGAAAG
*
2000804 CCAAAATCGCAA
1 TCAAAATCGCAA
2000816 CGCGAAATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.50, C:0.22, G:0.14, T:0.14
Consensus pattern (20 bp):
TCAAAATCGCAATACGAAAG
Found at i:2000774 original size:40 final size:40
Alignment explanation
Indices: 2000730--2000827 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
2000720 AGGTACACTT
* *
2000730 TCGCAACGCTAAACTCAAAATCACAATACGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAATCACAATACGAAAGCCAAAA
** * * *
2000770 TCGCAATACGAAAGTCAAAATCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAACTCAAAATCACAATACGAAAGCCAAAA
*
2000810 TCGCAACGCGAAATTCAA
1 TCGCAACGCGAAACTCAA
2000828 TTCGCGTTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.14
Consensus pattern (40 bp):
TCGCAACGCGAAACTCAAAATCACAATACGAAAGCCAAAA
Found at i:2000876 original size:34 final size:34
Alignment explanation
Indices: 2000832--2000968 Score: 159
Period size: 34 Copynumber: 3.9 Consensus size: 34
2000822 ATTCAATTCG
* * * *
2000832 CGTTGTGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
*
2000866 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
2000906 CGTTGCGATAGTCAAATTCGCGTTGCGATTTT-T
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
2000939 GCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 -CGTTGCGATAGTCAAATTCGCGTTGCGAT
2000969 ATTCAAATGA
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
34 56 0.62
36 1 0.01
38 1 0.01
40 32 0.36
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
Found at i:2000891 original size:20 final size:20
Alignment explanation
Indices: 2000866--2000976 Score: 153
Period size: 20 Copynumber: 5.8 Consensus size: 20
2000856 GCGATTTTCT
2000866 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2000886 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
2000906 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2000926 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
2000940 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2000960 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
2000977 GAATGTGTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
14 12 0.15
16 1 0.01
18 1 0.01
20 66 0.82
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2000916 original size:74 final size:74
Alignment explanation
Indices: 2000826--2000976 Score: 241
Period size: 74 Copynumber: 2.0 Consensus size: 74
2000816 CGCGAAATTC
* * *
2000826 AATTCGCGTTGTGATAGTCTAATACGCTTTGCGATTTTCT-CGTTGCGATAGTCAAATTCGCGTT
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTT-TGCGTTGCGATAGTCAAATTCGCGTT
2000890 GCGATAATCA
65 GCGATAATCA
*
2000900 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAAATTCGCGTTG
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTTGCGATAGTCAAATTCGCGTTG
*
2000965 CGATATTCA
66 CGATAATCA
2000974 AAT
1 AAT
2000977 GAATGTGTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 1 0.01
74 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTTGCGATAGTCAAATTCGCGTTG
CGATAATCA
Found at i:2001162 original size:12 final size:12
Alignment explanation
Indices: 2001144--2001182 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2001134 GTGAAGCCAG
**
2001144 TTGTGATTGGGA
1 TTGTGATTTTGA
*
2001156 TTTTGATTTTGA
1 TTGTGATTTTGA
2001168 TTGTGATTTTGA
1 TTGTGATTTTGA
2001180 TTG
1 TTG
2001183 CCTTTTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (12 bp):
TTGTGATTTTGA
Found at i:2001170 original size:18 final size:18
Alignment explanation
Indices: 2001147--2001181 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2001137 AAGCCAGTTG
2001147 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
2001165 TGATTGTGATTTTGATT
1 TGATTGGGATTTTGATT
2001182 GCCTTTTTCT
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:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:2004132 original size:17 final size:17
Alignment explanation
Indices: 2004110--2004145 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2004100 GATGGGGAAT
2004110 GATGTCGTTGGATATAG
1 GATGTCGTTGGATATAG
2004127 GATGTCGTTGGATATAG
1 GATGTCGTTGGATATAG
2004144 GA
1 GA
2004146 ACGGATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.36, T:0.33
Consensus pattern (17 bp):
GATGTCGTTGGATATAG
Found at i:2004429 original size:19 final size:19
Alignment explanation
Indices: 2004405--2004441 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2004395 TGTGATACTG
*
2004405 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
2004424 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
2004442 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:2009349 original size:29 final size:29
Alignment explanation
Indices: 2009312--2009369 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2009302 GCTACTTCTT
* *
2009312 TAACAAAACGTCCTAACATGTTCGAGCAA
1 TAACAAAACGTCCTAAAATATTCGAGCAA
*
2009341 TAACGAAACGTCCTAAAATATTCGAGCAA
1 TAACAAAACGTCCTAAAATATTCGAGCAA
2009370 GAACTCAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (29 bp):
TAACAAAACGTCCTAAAATATTCGAGCAA
Found at i:2012176 original size:136 final size:136
Alignment explanation
Indices: 2011932--2012210 Score: 506
Period size: 136 Copynumber: 2.1 Consensus size: 136
2011922 CATCAAAAAG
* *
2011932 AAAGTAGGGTAAAGCCTGGTTACCAAATCTTTACTTGTTTGAAATGGTTTGTACTCGAGTTAACA
1 AAAGTTGGGTAAAGCCTGGTTACCAAATCTTTACTTGTTTGAAATGGTTTGTACTCAAGTTAACA
2011997 AGAGGGTTTACACATATACTTACAAAAGCTAGCGGTTGATTGTTTCCACATTTACACCATAGCAT
66 AGAGGGTTTACACATATACTTACAAAAGCTAGCGGTTGATTGTTTCCACATTTACACCATAGCAT
2012062 CAGCAC
131 CAGCAC
*
2012068 AAAGTTGGGTAAAGCTTGGTTACCAAATCTTTACTTGTTTGAAATGGTTTGTACTCAAGTTAACA
1 AAAGTTGGGTAAAGCCTGGTTACCAAATCTTTACTTGTTTGAAATGGTTTGTACTCAAGTTAACA
*
2012133 AGAGGGTTTACACATATACTTACAAAAG-TCCGCGGTTGATTGTTTCCACATTTACACCATAGCA
66 AGAGGGTTTACACATATACTTACAAAAGCT-AGCGGTTGATTGTTTCCACATTTACACCATAGCA
2012197 TCAGCAC
130 TCAGCAC
2012204 AAAGTTG
1 AAAGTTG
2012211 ATTTCTTGTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 1 0.01
136 137 0.99
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (136 bp):
AAAGTTGGGTAAAGCCTGGTTACCAAATCTTTACTTGTTTGAAATGGTTTGTACTCAAGTTAACA
AGAGGGTTTACACATATACTTACAAAAGCTAGCGGTTGATTGTTTCCACATTTACACCATAGCAT
CAGCAC
Found at i:2014926 original size:5 final size:6
Alignment explanation
Indices: 2014911--2014935 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2014901 CAAGAATACC
2014911 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
2014936 GTCGTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:2017914 original size:15 final size:15
Alignment explanation
Indices: 2017878--2017908 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2017868 AGTGCACAAG
2017878 AACTGGATTGGATAT
1 AACTGGATTGGATAT
2017893 AACTGGATTGGATAT
1 AACTGGATTGGATAT
2017908 A
1 A
2017909 TTTGGAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (15 bp):
AACTGGATTGGATAT
Found at i:2018199 original size:22 final size:21
Alignment explanation
Indices: 2018145--2018199 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
2018135 ACAATCTCGA
2018145 TGGTATTGATACTCCTCTTTG
1 TGGTATTGATACTCCTCTTTG
*
2018166 -GGTATTGGTACTCCT-TTCATG
1 TGGTATTGATACTCCTCTT--TG
*
2018187 TGGTATCGATACT
1 TGGTATTGATACT
2018200 TCACCGAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
20 14 0.50
21 2 0.07
22 10 0.36
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (21 bp):
TGGTATTGATACTCCTCTTTG
Found at i:2020443 original size:54 final size:55
Alignment explanation
Indices: 2020290--2020457 Score: 239
Period size: 55 Copynumber: 3.0 Consensus size: 55
2020280 ATTACCAAAT
* * *
2020290 GGCACTAAGTGTACGAAAACTTAAGAAATCCATACTAAGTGTATAAATTTCTGTATG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
* * *
2020347 GGTACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
* *
2020402 GGCACTATGTGTGC-GAACTAAGAAATCCATACTAAGTGTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
2020456 GG
1 GG
2020458 AAATATATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
54 39 0.39
55 46 0.46
56 5 0.05
57 10 0.10
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
Found at i:2021181 original size:271 final size:271
Alignment explanation
Indices: 2020669--2021331 Score: 1017
Period size: 271 Copynumber: 2.4 Consensus size: 271
2020659 AAAGATTAAT
* * ** * * *
2020669 AGGCCTAACTCTGCATTTGATAGAAATATGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGCTAAGTGCCT
* * * *
2020734 TTGAGGCCTAACTGTGCATTTTACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTG
66 TTGAGGCCTAACTGTGCATTTGACAGAAA-GAGTCATTTATGCCAATTAGATGAAAGACTAAGTG
* * * *
2020799 CCTTTGAGGCCTAACTATGCATTTGACAGAAAGATGTCATTTATGTCAGTTAGATGAAAAGCTAA
130 CCTTTCAGGCCTAACTATGCATTTGACAGAAAGATGTCAATTATGACAGTTAGATGAAAAGATAA
* *
2020864 GTGCCTTTAAGGCCTAACTTTGCATTTGACGAAAATGTGTCAATTATGCCAGTTAGATTAAAGGC
195 GTGCCTTTAAGGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAGGC
* *
2020929 TAAGTGCCTTTG
260 TAAGTGACTTCG
* *
2020941 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTACACTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGCTAAGTGCCT
2021006 TTGAGGCCTAACTGTGCATTTGACAGAAAGAAGTCATTTATG-CAATTAGATGAAAGACTAAAG-
66 TTGAGGCCTAACTGTGCATTTGACAGAAAG-AGTCATTTATGCCAATTAGATGAAAGACT-AAGT
* * *
2021069 GCCTTTCAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGACAGTTAGAT-AAAAGGAT
129 GCCTTTCAGGCCTAACTATGCATTTGACAGAAAGATGTCAATTATGACAGTTAGATGAAAA-GAT
*
2021133 AAGTGCCTTTGAGGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAG
193 AAGTGCCTTTAAGGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAG
2021198 GCTAAGTGACTTCG
258 GCTAAGTGACTTCG
*
2021212 AGGACTAACTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGCTAAGTGCCT
*
2021277 TTGAGGCCTAACTGTGCATTTGACAGAAATGAGTCATTTATGCCATTTAGATGAA
66 TTGAGGCCTAACTGTGCATTTGACAGAAA-GAGTCATTTATGCCAATTAGATGAA
2021332 CGGTTGAATA
Statistics
Matches: 357, Mismatches: 29, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
270 4 0.01
271 244 0.68
272 109 0.31
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (271 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGCTAAGTGCCT
TTGAGGCCTAACTGTGCATTTGACAGAAAGAGTCATTTATGCCAATTAGATGAAAGACTAAGTGC
CTTTCAGGCCTAACTATGCATTTGACAGAAAGATGTCAATTATGACAGTTAGATGAAAAGATAAG
TGCCTTTAAGGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAGGCT
AAGTGACTTCG
Found at i:2021349 original size:68 final size:68
Alignment explanation
Indices: 2020669--2021331 Score: 918
Period size: 68 Copynumber: 9.8 Consensus size: 68
2020659 AAAGATTAAT
* * ** * *
2020669 AGGCCTAACTCTGCATTTGATAGAAATATGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2020734 TTG
66 TTG
* *
2020737 AGGCCTAACTGTGCATTTTACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2020802 TTG
66 TTG
* * * * *
2020805 AGGCCTAACTATGCATTTGACAGAAAGATGTCATTTATGTCAGTTAGATGAAAAGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
2020870 TTA
66 TTG
* * *
2020873 AGGCCTAACTTTGCATTTGAC-GAAAATGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCC
1 AGGCCTAACTGTGCATTTGACAG-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
2020937 TTTG
65 TTTG
** *
2020941 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTACACTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2021006 TTG
66 TTG
** * * *
2021009 AGGCCTAACTGTGCATTTGACAGAAAGAAGTCATTTATG-CAATTAGATGAAAGACTAAAG-GCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT-AAGTGCC
*
2021072 TTTC
65 TTTG
* * * *
2021076 AGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGACAGTTAGATAAAAGGATAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2021141 TTG
66 TTG
* * * *
2021144 AGGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGACT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
2021209 TCG
66 TTG
* *
2021212 AGGACTAACTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2021277 TTG
66 TTG
* * * *
2021280 AGGCCTAACTGTGCATTTGACAGAAATGAGTCATTTATGCCATTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2021332 CGGTTGAATA
Statistics
Matches: 525, Mismatches: 65, Indels: 10
0.88 0.11 0.02
Matches are distributed among these distances:
67 59 0.11
68 465 0.89
69 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:2021430 original size:81 final size:81
Alignment explanation
Indices: 2021289--2021556 Score: 324
Period size: 81 Copynumber: 3.3 Consensus size: 81
2021279 GAGGCCTAAC
* * * * * * * *
2021289 TGTGCATTTGACAGAAATGAGTCATTTATGCCATTTAGATGAACGGTTGAATATCGTTGAGTAAA
1 TGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTGAGTAAA
2021354 AGATTAATGGCATAGA
66 AGATTAATGGCATAGA
** * *
2021370 TGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATGCCATTGAGTAAA
1 TGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTGAGTAAA
* *
2021435 AGATTAATGGCCTAGC
66 AGATTAATGGCATAGA
* * * *
2021451 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAATAGTTAAACACTATTGAGTAAA
1 TGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTGAGTAAA
*
2021516 AGAATAATGG-ACTA-A
66 AGATTAATGGCA-TAGA
*
2021531 CTGTGCATTTGATAGAAAAGTGTCAA
1 -TGTGCATTTGACAGAAAAGTGTCAA
2021557 AGATGCAAGT
Statistics
Matches: 161, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 161 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (81 bp):
TGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTGAGTAAA
AGATTAATGGCATAGA
Found at i:2021598 original size:81 final size:81
Alignment explanation
Indices: 2021284--2021603 Score: 315
Period size: 81 Copynumber: 4.0 Consensus size: 81
2021274 CCTTTGAGGC
** * * * * * * * *
2021284 CTAACTGTGCATTTGACAGAAATGAGTCATTTATGCCATTTAGATGAACGGTTGAATATCGTTGA
1 CTAACTGTGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCTTTGA
*
2021349 GTAAAAGATTAATGG-
66 GTAAAAGAATAATGGA
* * *
2021364 CATAGA-TGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATGCCATT
1 C-TA-ACTGTGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCTTT
* *
2021428 GAGTAAAAGATTAATGGC
64 GAGTAAAAGAATAATGGA
* * * *
2021446 CTAGCTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAATAGTTAAACA-CTATTG
1 CTAACTGTGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCT-TTG
2021510 AGTAAAAGAATAATGGA
65 AGTAAAAGAATAATGGA
* ** * * * *
2021527 CTAACTGTGCATTTGATAGAAAAGTGTCAAAGATGCAAGTCAGATTAA-AGGCTAAATACCTTTG
1 CTAACTGTGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACA-GTTAAATACCTTTG
* *
2021591 GGAAAAAGAATAA
65 AGTAAAAGAATAA
2021604 AGGAATTATA
Statistics
Matches: 201, Mismatches: 32, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.01
81 194 0.97
82 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (81 bp):
CTAACTGTGCATTTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCTTTGA
GTAAAAGAATAATGGA
Found at i:2021667 original size:2 final size:2
Alignment explanation
Indices: 2021660--2021701 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2021650 AGGGATGTTG
2021660 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
2021702 ACGTACAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2023384 original size:45 final size:45
Alignment explanation
Indices: 2023308--2023396 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
2023298 GTCCCAAAGA
* *
2023308 ATCAATATCTCACAAGTACCATACGCGAGGTCTAGGTCACATAGC
1 ATCAATATCTCACAAGTACCATACGCGAGGTCCAAGTCACATAGC
* * * *
2023353 ATCAATATCTCACAA-TCATCTTAGGCTAGGTCCAAGTCACATAG
1 ATCAATATCTCACAAGT-ACCATACGCGAGGTCCAAGTCACATAG
2023397 TGTCAGCACC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (45 bp):
ATCAATATCTCACAAGTACCATACGCGAGGTCCAAGTCACATAGC
Found at i:2026966 original size:7 final size:7
Alignment explanation
Indices: 2026954--2027013 Score: 120
Period size: 7 Copynumber: 8.6 Consensus size: 7
2026944 CAAAACGTAA
2026954 CTCACTG
1 CTCACTG
2026961 CTCACTG
1 CTCACTG
2026968 CTCACTG
1 CTCACTG
2026975 CTCACTG
1 CTCACTG
2026982 CTCACTG
1 CTCACTG
2026989 CTCACTG
1 CTCACTG
2026996 CTCACTG
1 CTCACTG
2027003 CTCACTG
1 CTCACTG
2027010 CTCA
1 CTCA
2027014 GAGCTGAGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.15, C:0.43, G:0.13, T:0.28
Consensus pattern (7 bp):
CTCACTG
Found at i:2032170 original size:36 final size:36
Alignment explanation
Indices: 2032123--2032194 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
2032113 TAAACGTCGC
*
2032123 TATGGAGTACACTAATCAAATAAGTAGGAACAAAAT
1 TATGGAGTACACTAAGCAAATAAGTAGGAACAAAAT
2032159 TATGGAGTACACTAAGCAAATAAGTAGGAACAAAAT
1 TATGGAGTACACTAAGCAAATAAGTAGGAACAAAAT
2032195 CGAAAGACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (36 bp):
TATGGAGTACACTAAGCAAATAAGTAGGAACAAAAT
Found at i:2039895 original size:9 final size:9
Alignment explanation
Indices: 2039871--2039914 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
2039861 CCTGTAAAAA
*
2039871 AATAAAATT
1 AATAATATT
*
2039880 AAAAATATT
1 AATAATATT
*
2039889 AATAATAAT
1 AATAATATT
2039898 AATAATAATT
1 AATAAT-ATT
2039908 AATAATA
1 AATAATA
2039915 ACAATAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATAATATT
Found at i:2039896 original size:3 final size:3
Alignment explanation
Indices: 2039883--2039926 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
2039873 TAAAATTAAA
* *
2039883 AAT ATT AAT AAT AAT AAT AAT AATT AAT AAT AAC AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT
2039927 GTATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:2039912 original size:16 final size:16
Alignment explanation
Indices: 2039889--2039926 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2039879 TAAAAATATT
*
2039889 AATAATAATAATAATA
1 AATAATAATAACAATA
*
2039905 ATTAATAATAACAATA
1 AATAATAATAACAATA
2039921 AATAAT
1 AATAAT
2039927 GTATATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAATAATAACAATA
Found at i:2042682 original size:55 final size:55
Alignment explanation
Indices: 2042496--2042939 Score: 569
Period size: 55 Copynumber: 8.1 Consensus size: 55
2042486 GATGCACATG
** *
2042496 TAGTGCCAATACGG-TAGTTCATCAACTCATGATGAATTCCATAGG--TTGCACACA
1 TAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCC-TTGGATTTGCACACA
* * *
2042550 TCA-TGTCTGTACGGTTATTCATCAACTCACGATGAATTCCGTGGGATTTGCACACA
1 T-AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCC-TTGGATTTGCACACA
* * *
2042606 TAATGCCTGTACGGTTTTTCATAAACTCATGATGAATTCCTTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACA
* * **
2042661 TAGTGTCTATACGGTTATTCATCAACTCATGATGAATTCAGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACA
* *
2042716 TAGTGCCTGTACGATTATTCATCAACTCATGACGAATT-CTGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCT-TGGATTTGCACACA
*
2042771 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATT-TTGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCT-TGGATTTGCACACA
* * *
2042826 TAATGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACA
* * * * *
2042881 TAGTGCATGTACGGTTATTCATCCACTCATGATGAATTCCGTGGA-ATGCACACT
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACA
2042935 TAGTG
1 TAGTG
2042940 TTTATTTGGT
Statistics
Matches: 348, Mismatches: 35, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
54 46 0.13
55 259 0.74
56 43 0.12
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (55 bp):
TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACA
Found at i:2043397 original size:95 final size:95
Alignment explanation
Indices: 2043277--2043487 Score: 287
Period size: 95 Copynumber: 2.2 Consensus size: 95
2043267 TCAATACTGA
* * * * *
2043277 TACCTTGGTACCGATACTTCTATACTATGGTACCGATACCCCCTTCCGATATCGATACCAAATTT
1 TACCATGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCCGATATCGATACCAAATTT
* * * *
2043342 AGGTTTAATGTTTCCTAGTATCGATACCCT
66 AGCTTCAATGATGCCTAGTATCGATACCCT
* * *
2043372 TACCATGGTATCGATACTACCATACTATGGTACCAATATCCCCTTCCGGTATCGATACCAATTTT
1 TACCATGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCCGATATCGATACCAAATTT
* * *
2043437 AGCTTCGATGATGCTTGGTATCGATACCCT
66 AGCTTCAATGATGCCTAGTATCGATACCCT
2043467 TACCATGGTATCGATACTACC
1 TACCATGGTATCGATACTACC
2043488 TCATCGGTAT
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 101 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (95 bp):
TACCATGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCCGATATCGATACCAAATTT
AGCTTCAATGATGCCTAGTATCGATACCCT
Found at i:2047812 original size:55 final size:55
Alignment explanation
Indices: 2047694--2048123 Score: 535
Period size: 55 Copynumber: 7.8 Consensus size: 55
2047684 CTATACGATA
* * * *
2047694 ATTCATCAACTCATGATGAATTCTCTGTGG-GTTACACACATCGTGTCAT-TACAGTT
1 ATTCATCAACTCATGATGAATT-TC-GTGGATTTGCACACATAGTG-CATGTACGGTT
*
2047750 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTGTACGGTT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTT
* **
2047805 ATTCATCAACTCATGATGAATTTCGTGGATTTACACACATAGTGTC-TGTACAATT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTG-CATGTACGGTT
* * * * * *
2047860 ATTCATCAACTCATGTTGAATTCCATGTATTTACACACATAGTGCATGTACCGTT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTT
* * *
2047915 ATTCATTAACTCACGATGAATTTCGTGGATTTGCACACATAGTGCCTGTACGGTT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTT
* * * *
2047970 ATTCATCAACTCATGATGAATTCCATGGATTTGTACACATAGTGCATGTTCGGTT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTT
* * * *
2048025 ATTTATCAACTCATGATGAATTCCGTGGATTTCCACACATAGTGCCTGTACGGTT
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTT
* * * *
2048080 ATTCATCAACGCATGATGAATTTTGTGGA-ATGCACACTTAGTGC
1 ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGC
2048124 CTATTTTGTA
Statistics
Matches: 327, Mismatches: 43, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
54 19 0.06
55 285 0.87
56 23 0.07
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTT
Found at i:2048552 original size:95 final size:95
Alignment explanation
Indices: 2048449--2048670 Score: 241
Period size: 95 Copynumber: 2.3 Consensus size: 95
2048439 TGGTTTCATA
* * ***
2048449 GTATCGATACTAC-TACCCTGGTACCGATACT-TCTATACTATGGTACCGATACCCCATTCTGGT
1 GTATCGATAC-ACTTACCATCGTACCGATACTATC-ATACTATGGTACCGATACCCCATTCCAAT
2048512 ATCGATACCAATTTTAGGTTCAATGTTTCCTG
64 ATCGATACCAATTTTAGGTTCAATGTTTCCTG
* * * * *
2048544 GTATCGATACCCTTACCATCGTATCGATACTATCATACTATGGTATCGATGCCCCCTTCCAATAT
1 GTATCGATACACTTACCATCGTACCGATACTATCATACTATGGTACCGATACCCCATTCCAATAT
* * * * *
2048609 CGATACCAATTTTAGCTTCGATGATGCTTG
66 CGATACCAATTTTAGGTTCAATGTTTCCTG
* * * *
2048639 GTATTGATACCCTTACCATGGTATCGATACTA
1 GTATCGATACACTTACCATCGTACCGATACTA
2048671 CCTCGTCGGT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 105 0.97
96 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (95 bp):
GTATCGATACACTTACCATCGTACCGATACTATCATACTATGGTACCGATACCCCATTCCAATAT
CGATACCAATTTTAGGTTCAATGTTTCCTG
Found at i:2052937 original size:21 final size:21
Alignment explanation
Indices: 2052913--2052991 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
2052903 TGACACTAGG
*
2052913 TACCTAGCTAGCTTCCTTAAC-
1 TACCTAGCTAGCTACC-TAACT
*
2052934 TACCTAGATAGCTACCTAACT
1 TACCTAGCTAGCTACCTAACT
* *
2052955 TACTTAGCTAGCTACACT-ACC
1 TACCTAGCTAGCTAC-CTAACT
*
2052976 TACCTAGTTAGCTACC
1 TACCTAGCTAGCTACC
2052992 AAGTCAAGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
20 5 0.10
21 42 0.86
22 2 0.04
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (21 bp):
TACCTAGCTAGCTACCTAACT
Found at i:2053237 original size:20 final size:20
Alignment explanation
Indices: 2053214--2053266 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2053204 CGACCTAAGG
*
2053214 CATGAATATTCATTAAAAAT
1 CATGAATCTTCATTAAAAAT
2053234 CATGAATCTTCATTAAAAAT
1 CATGAATCTTCATTAAAAAT
2053254 CATGAATCTTCAT
1 CATGAATCTTCAT
2053267 AAGAACATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (20 bp):
CATGAATCTTCATTAAAAAT
Found at i:2060253 original size:3 final size:3
Alignment explanation
Indices: 2060245--2060279 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2060235 CCTACTCTTG
2060245 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2060280 TTGTTTGCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2061866 original size:45 final size:45
Alignment explanation
Indices: 2061760--2061866 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
2061750 TGCACATATC
*
2061760 ATGCATCGATGCACTCAGGTTTTATGAAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCTGGTTTTATGAAAACATCGAATGCATTTT
* *
2061805 ATGCATCGATGTACTCTGGCTTGTT-T-AAAACATCGAATTCATTTT
1 ATGCATCGATGCACTCTGG-TT-TTATGAAAACATCGAATGCATTTT
2061850 ATGCATCGATGCACTCT
1 ATGCATCGATGCACTCT
2061867 TAGTGCACCG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
45 51 0.91
46 3 0.05
47 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (45 bp):
ATGCATCGATGCACTCTGGTTTTATGAAAACATCGAATGCATTTT
Found at i:2069143 original size:64 final size:64
Alignment explanation
Indices: 2069075--2069233 Score: 246
Period size: 64 Copynumber: 2.5 Consensus size: 64
2069065 GAATAAATTG
* * *
2069075 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATTGATGCACTCAGGTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTAATGAA
* ** *
2069139 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTGGCTTGTTTAA
1 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTAATGAA
*
2069203 AACATTGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
2069234 TCTTAGTGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 87 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTAATGAA
Found at i:2076214 original size:45 final size:45
Alignment explanation
Indices: 2076109--2076204 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
2076099 GGAAGCGTTA
*
2076109 ATTTGTCGAAATTATATACCATCACATAAAATTGTTTTTAGAATT
1 ATTTGTCGGAATTATATACCATCACATAAAATTGTTTTTAGAATT
2076154 ATTTGTCGGAATTATATACCATCACATAAAATTGTTTTTAGAATT
1 ATTTGTCGGAATTATATACCATCACATAAAATTGTTTTTAGAATT
2076199 ATTTGT
1 ATTTGT
2076205 GTACCTTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (45 bp):
ATTTGTCGGAATTATATACCATCACATAAAATTGTTTTTAGAATT
Found at i:2077866 original size:41 final size:41
Alignment explanation
Indices: 2077807--2077892 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
2077797 TATTCACCAG
* * *
2077807 CTGCGCTAAACTCTACTAAGACATCCATATGCACCGAAATC
1 CTGCGCTAAACTCCACTAAGACATCCACATACACCGAAATC
* *
2077848 CTGCGGTAAACTCCACTAAGACATCCACATACACCGAAATG
1 CTGCGCTAAACTCCACTAAGACATCCACATACACCGAAATC
2077889 CTGC
1 CTGC
2077893 CAATATTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.20
Consensus pattern (41 bp):
CTGCGCTAAACTCCACTAAGACATCCACATACACCGAAATC
Found at i:2078464 original size:14 final size:15
Alignment explanation
Indices: 2078433--2078466 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2078423 CGAAGAAAAG
*
2078433 AAACAACGGTGACGA
1 AAACAACGCTGACGA
2078448 AAACAACGCTGAC-A
1 AAACAACGCTGACGA
2078462 AAACA
1 AAACA
2078467 CGAACCGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.53, C:0.24, G:0.18, T:0.06
Consensus pattern (15 bp):
AAACAACGCTGACGA
Found at i:2081281 original size:17 final size:17
Alignment explanation
Indices: 2081261--2081304 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2081251 ACAATTTGTC
2081261 AAGATAAAGACTCAACA
1 AAGATAAAGACTCAACA
* *
2081278 AAGATGAAA-ACTTAGCA
1 AAGAT-AAAGACTCAACA
2081295 AAGATAAAGA
1 AAGATAAAGA
2081305 AGAAAGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.59, C:0.11, G:0.16, T:0.14
Consensus pattern (17 bp):
AAGATAAAGACTCAACA
Found at i:2081812 original size:118 final size:119
Alignment explanation
Indices: 2081601--2081858 Score: 313
Period size: 118 Copynumber: 2.2 Consensus size: 119
2081591 AGATTAATTT
* * * ** *
2081601 CATCACAAAAGGAGGTGAATCAACATTTCCAGTGGAGAGTTCATAATAAAAAGAACTCATCCGAT
1 CATCACAGAAGGAGGTGGATCAACATTCCCAGTAAAGAGTTCATAATAAAAAGAACTCATCAGAT
*
2081666 GAAGGAGAATAAGTTCATAATGAAAATAA-TTGTTCAACACGCTCGCTCGATTC
66 GAAGGAGAAGAAGTTCATAATGAAAATAACTTGTTCAACACGCTCGCTCGATTC
* * * * *
2081719 CATCACAGAAGGAGGTGGATCAGCATTCCC-GATAAAGAGTTCATAATGAGAATAACTCGTCAGA
1 CATCACAGAAGGAGGTGGATCAACATTCCCAG-TAAAGAGTTCATAATAAAAAGAACTCATCAGA
* * * * * *
2081783 TGAGGGAGAAGAAGTTCATAATGAGAATAACTTGTTCATCACGCTTGTTTGATTC
65 TGAAGGAGAAGAAGTTCATAATGAAAATAACTTGTTCAACACGCTCGCTCGATTC
* *
2081838 CATCATAGAAGAAGGTGGATC
1 CATCACAGAAGGAGGTGGATC
2081859 GACGTGTACA
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
117 1 0.01
118 78 0.66
119 39 0.33
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (119 bp):
CATCACAGAAGGAGGTGGATCAACATTCCCAGTAAAGAGTTCATAATAAAAAGAACTCATCAGAT
GAAGGAGAAGAAGTTCATAATGAAAATAACTTGTTCAACACGCTCGCTCGATTC
Found at i:2081881 original size:119 final size:118
Alignment explanation
Indices: 2081635--2081894 Score: 308
Period size: 119 Copynumber: 2.2 Consensus size: 118
2081625 ATTTCCAGTG
* * * * *
2081635 GAGAGTTCATAATAAAAAGAACTCATCCGATGAAGGAGAATAAGTTCATAATGAAAATAATTGTT
1 GAGAGTTCATAATGAGAATAACTCATCAGATGAAGGAGAAGAAGTTCATAATGAAAATAATTGTT
* * * *
2081700 CAACACGCTCGCTCGATTCCATCACAGAAGGAGGTGGATCAGCATTCCCGATA
66 CAACACGCTCGCTCGATTCCATCACAGAAGAAGGTGGATCAGCATTACAGACA
* * * *
2081753 AAGAGTTCATAATGAGAATAACTCGTCAGATGAGGGAGAAGAAGTTCATAATGAGAATAACTTGT
1 GAGAGTTCATAATGAGAATAACTCATCAGATGAAGGAGAAGAAGTTCATAATGAAAATAA-TTGT
* * * * * *
2081818 TCATCACGCTTGTTTGATTCCATCATAGAAGAAGGTGGATC-GACGTGTACAG-CA
65 TCAACACGCTCGCTCGATTCCATCACAGAAGAAGGTGGATCAG-CAT-TACAGACA
2081872 GAGAGTTCATAATGAGAATAACT
1 GAGAGTTCATAATGAGAATAACT
2081895 AAAAAATTTT
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
118 52 0.44
119 64 0.54
120 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (118 bp):
GAGAGTTCATAATGAGAATAACTCATCAGATGAAGGAGAAGAAGTTCATAATGAAAATAATTGTT
CAACACGCTCGCTCGATTCCATCACAGAAGAAGGTGGATCAGCATTACAGACA
Found at i:2088972 original size:15 final size:15
Alignment explanation
Indices: 2088952--2088981 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2088942 TGGAAACCAA
2088952 AGCTCAAATATGCAG
1 AGCTCAAATATGCAG
2088967 AGCTCAAATATGCAG
1 AGCTCAAATATGCAG
2088982 GAAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
AGCTCAAATATGCAG
Found at i:2089144 original size:14 final size:14
Alignment explanation
Indices: 2089103--2089145 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
2089093 AAATAGAGAA
* *
2089103 ATTAAAATTTAAAA
1 ATTAAAATTGAAAT
2089117 ATTAAAATTGAAAT
1 ATTAAAATTGAAAT
2089131 ATTAAAATTGAAAT
1 ATTAAAATTGAAAT
2089145 A
1 A
2089146 CATTAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (14 bp):
ATTAAAATTGAAAT
Found at i:2089144 original size:20 final size:20
Alignment explanation
Indices: 2089100--2089144 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2089090 AACAAATAGA
2089100 GAAATTAAAATTTAAAAATT
1 GAAATTAAAATTTAAAAATT
* *
2089120 AAAATTGAAATATT-AAAATT
1 GAAATTAAAAT-TTAAAAATT
2089140 GAAAT
1 GAAAT
2089145 ACATTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
GAAATTAAAATTTAAAAATT
Found at i:2089895 original size:11 final size:11
Alignment explanation
Indices: 2089865--2089895 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2089855 ATTTTCTCAT
2089865 AAAAAAAAATG
1 AAAAAAAAATG
*
2089876 AAAAGAAAATG
1 AAAAAAAAATG
2089887 AAAAAAAAA
1 AAAAAAAAA
2089896 AACTAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:2090432 original size:22 final size:19
Alignment explanation
Indices: 2090402--2090452 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
2090392 TGGGTTAATG
2090402 TAAATAATAATATTTTATT
1 TAAATAATAATATTTTATT
2090421 TAAATAATAATATTTTATT
1 TAAATAATAATATTTTATT
2090440 TAAATAATAATAT
1 TAAATAATAATAT
2090453 AATATATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATAATAATATTTTATT
Found at i:2090708 original size:53 final size:53
Alignment explanation
Indices: 2090640--2090757 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 53
2090630 ACATCTCTCG
*
2090640 ATATCTTAACAATTAACACATACTGACAC-CGATGTAAGTATGTATATCTCTTT
1 ATATCTTAACAATTAACACATACTGACACAAG-TGTAAGTATGTATATCTCTTT
* * *
2090693 ATATCTT-ACAAATTAACAGATACTTACACAAGTGTAAGTATGTATATCTCTCT
1 ATATCTTAAC-AATTAACACATACTGACACAAGTGTAAGTATGTATATCTCTTT
* *
2090746 CTATATTAACAA
1 ATATCTTAACAA
2090758 CACATACTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.04
53 51 0.91
54 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (53 bp):
ATATCTTAACAATTAACACATACTGACACAAGTGTAAGTATGTATATCTCTTT
Found at i:2090875 original size:2 final size:2
Alignment explanation
Indices: 2090868--2090893 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2090858 AAGAAATAAA
2090868 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
2090894 TAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2091222 original size:18 final size:18
Alignment explanation
Indices: 2091165--2091234 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 18
2091155 GTATCGTTCC
*
2091165 GGTAATCCTATTCCCAAT
1 GGTAATCTTATTCCCAAT
* *
2091183 GATAATCTTACATCCC---
1 GGTAATCTTA-TTCCCAAT
2091199 GGTAATCTTATTCCCAAT
1 GGTAATCTTATTCCCAAT
* *
2091217 GGTAATATTATTTCCAAT
1 GGTAATCTTATTCCCAAT
2091235 TTGGTAAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
15 4 0.10
16 9 0.22
18 24 0.59
19 4 0.10
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (18 bp):
GGTAATCTTATTCCCAAT
Found at i:2095988 original size:2 final size:2
Alignment explanation
Indices: 2095981--2096013 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2095971 TTGAGACATC
2095981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2096014 ATTAGGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2102871 original size:61 final size:61
Alignment explanation
Indices: 2102792--2102960 Score: 284
Period size: 61 Copynumber: 2.8 Consensus size: 61
2102782 ATGTGTGTCA
* *
2102792 AATGACCTACACTACTAACTAAATCGGGTGAGTCCTAGATCATACATAAAAATATACATCT
1 AATGACCCACACTACTAACTAAATCGGGTGAGACCTAGATCATACATAAAAATATACATCT
* * * *
2102853 AATGATCCACAGTACTAACTAAATCGGGTGAGACCTAGATCATACATAAAAATGTATATCT
1 AATGACCCACACTACTAACTAAATCGGGTGAGACCTAGATCATACATAAAAATATACATCT
2102914 AATGACCCACACTACTAACTAAATCGGGTGAGACCTAGATCATACAT
1 AATGACCCACACTACTAACTAAATCGGGTGAGACCTAGATCATACAT
2102961 CCATCAAGAA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 100 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (61 bp):
AATGACCCACACTACTAACTAAATCGGGTGAGACCTAGATCATACATAAAAATATACATCT
Found at i:2104356 original size:18 final size:17
Alignment explanation
Indices: 2104317--2104359 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2104307 ATTATATGGA
2104317 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
2104333 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
2104351 TATTATTAT
1 TATTATTAT
2104360 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:2104370 original size:2 final size:2
Alignment explanation
Indices: 2104363--2104475 Score: 135
Period size: 2 Copynumber: 57.5 Consensus size: 2
2104353 TTATTATACG
2104363 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
* * * *
2104405 TA TA TA TA TA TA T- TA TA AA TA T- TT TCA T- TT TT TA CTA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA -TA TA TA
*
2104445 TT 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 T
2104476 GTTTCTTTAA
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
1 4 0.04
2 93 0.93
3 3 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2106026 original size:10 final size:10
Alignment explanation
Indices: 2106003--2106044 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
2105993 TTTTCTTGCC
2106003 ATTT-TTTTT
1 ATTTATTTTT
2106012 A-TTATTTTT
1 ATTTATTTTT
*
2106021 ATTTATTTCT
1 ATTTATTTTT
*
2106031 ATTTACTTTT
1 ATTTATTTTT
2106041 ATTT
1 ATTT
2106045 TACTAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 2 0.07
9 7 0.25
10 19 0.68
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:2109532 original size:21 final size:21
Alignment explanation
Indices: 2109506--2109551 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2109496 AATCAAGAAC
2109506 AAAAAAA-AAGAAGCAAAAAAG
1 AAAAAAACAAGAA-CAAAAAAG
*
2109527 AAAAAAACATGAACAAAAAAG
1 AAAAAAACAAGAACAAAAAAG
2109548 AAAA
1 AAAA
2109552 GAAGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAAACAAGAACAAAAAAG
Found at i:2110620 original size:18 final size:18
Alignment explanation
Indices: 2110597--2110632 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2110587 TCAACATCAA
*
2110597 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
2110615 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
2110633 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:2111164 original size:36 final size:38
Alignment explanation
Indices: 2111117--2111193 Score: 131
Period size: 36 Copynumber: 2.1 Consensus size: 38
2111107 GTGCTCACTA
*
2111117 TTGTCTCTCTTGAGACAGTTTCCCTT-GAAACAAA-CT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGGAAAAAAACCT
2111153 TTGTCTCTCTTGAGACAGTTTCCCTTGGAAAAAAACCT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGGAAAAAAACCT
2111191 TTG
1 TTG
2111194 AAATTGTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 26 0.68
37 7 0.18
38 5 0.13
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (38 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGGAAAAAAACCT
Found at i:2111435 original size:37 final size:37
Alignment explanation
Indices: 2111327--2111436 Score: 96
Period size: 37 Copynumber: 2.9 Consensus size: 37
2111317 TTGGAACTAG
* * * * **
2111327 TTTTATCTCCCTGTGAGACAATTTCTTTTGGAACTATG
1 TTTTATCTCCCT-TGAGACCATTTCTCTTGAAACAAAA
* * * *
2111365 TTTTGTCTCTCTTGAGA-CAGTTTTTCTTAAAACAAAA
1 TTTTATCTCCCTTGAGACCA-TTTCTCTTGAAACAAAA
*
2111402 TTTTATCTCCCTTGAGACCATTTCTCATGAAACAA
1 TTTTATCTCCCTTGAGACCATTTCTCTTGAAACAA
2111437 TAGATATCTT
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
36 1 0.02
37 42 0.76
38 12 0.22
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (37 bp):
TTTTATCTCCCTTGAGACCATTTCTCTTGAAACAAAA
Found at i:2112209 original size:106 final size:106
Alignment explanation
Indices: 2112055--2112585 Score: 893
Period size: 106 Copynumber: 5.0 Consensus size: 106
2112045 TCGCACCACC
* * *
2112055 CGAGACAACACAAGTTCAATTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
2112120 TTCAGAGGCAATTTCAACTTCACAGCGAAGGATATTGGACT
66 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
*
2112161 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* **
2112226 TTCAGAGCCAATTTCAATTTCACAGCGAAGGGCATTGGACT
66 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
*
2112267 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
**
2112332 TTCAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGGACT
66 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
2112373 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
2112438 TTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACT
66 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
*
2112479 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAGT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
2112544 TCCGGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACT
66 TTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
2112585 C
1 C
2112586 AGAACAATAC
Statistics
Matches: 402, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
106 402 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
Found at i:2113915 original size:18 final size:17
Alignment explanation
Indices: 2113876--2113918 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2113866 ATTATATGGA
2113876 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
2113892 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
2113910 TATTATTAT
1 TATTATTAT
2113919 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:2114173 original size:2 final size:2
Alignment explanation
Indices: 2114166--2114200 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2114156 CTTATAACTT
2114166 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 T
2114201 TATTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2114465 original size:38 final size:40
Alignment explanation
Indices: 2114414--2114492 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
2114404 AGTGAGAGGG
*
2114414 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
2114452 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
2114492 T
1 T
2114493 TTTTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 12 0.33
39 7 0.19
40 17 0.47
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:2114501 original size:38 final size:37
Alignment explanation
Indices: 2114417--2114505 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
2114407 GAGAGGGTAG
* *
2114417 CTTTTCTATTTTTAAATATTTGTTGTATATATATATA
1 CTTTTTTATTTTTAAATATTTGATGTATATATATATA
* *
2114454 GCTTATTTATTTTATTAATACTTTGATGTATATATATAT-
1 -CTTTTTTATTTT-TAAATA-TTTGATGTATATATATATA
*
2114493 TTTTTTTATTTTT
1 CTTTTTTATTTTT
2114506 CAATTATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.02
38 20 0.47
39 5 0.12
40 17 0.40
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (37 bp):
CTTTTTTATTTTTAAATATTTGATGTATATATATATA
Found at i:2114571 original size:9 final size:9
Alignment explanation
Indices: 2114557--2114581 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2114547 CCTTAACTTA
2114557 TTTATTTAT
1 TTTATTTAT
2114566 TTTATTTAT
1 TTTATTTAT
2114575 TTTATTT
1 TTTATTT
2114582 TTTCCCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTAT
Found at i:2117521 original size:25 final size:24
Alignment explanation
Indices: 2117426--2117522 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 24
2117416 CTATCTATCT
** *
2117426 TGTATTAGTGCATTTTTGTACTCC
1 TGTATTAGTATATTTGTGTACTCC
* * * *
2117450 TATATTAGTTTTTTTGTGCACT-C
1 TGTATTAGTATATTTGTGTACTCC
*
2117473 TCGTATTAGTACTA-TTGCTATACTCC
1 T-GTATTAGTA-TATTTG-TGTACTCC
2117499 TGTATTTAGTATATTTGTGTACTC
1 TGTA-TTAGTATATTTGTGTACTC
2117523 TTGACACTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
23 2 0.04
24 26 0.47
25 16 0.29
26 11 0.20
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (24 bp):
TGTATTAGTATATTTGTGTACTCC
Found at i:2117685 original size:29 final size:29
Alignment explanation
Indices: 2117643--2117702 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
2117633 TCACTCGTAT
2117643 ATAACTCACGTACCTTAAGTTCTCATCCC
1 ATAACTCACGTACCTTAAGTTCTCATCCC
2117672 ATAACTCACGTACCTTAAGTTCTCATCCC
1 ATAACTCACGTACCTTAAGTTCTCATCCC
2117701 AT
1 AT
2117703 GTACATTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.32
Consensus pattern (29 bp):
ATAACTCACGTACCTTAAGTTCTCATCCC
Found at i:2120030 original size:44 final size:43
Alignment explanation
Indices: 2119981--2120073 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 43
2119971 ATTTACCATG
* * *
2119981 TGCACAAAGCAGAGGAGCATGCA-AAAACAATAAGGTCTTATACT
1 TGCACAAAGCAAAAGAGCATG-AGAAAACAATAA-GTCTTACACT
* * *
2120025 TGCACATAGCAAAAGAGCCTGAGAAAACTATAAGTCTTACACT
1 TGCACAAAGCAAAAGAGCATGAGAAAACAATAAGTCTTACACT
2120068 TGCACA
1 TGCACA
2120074 CAACAAAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 16 0.38
44 26 0.62
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (43 bp):
TGCACAAAGCAAAAGAGCATGAGAAAACAATAAGTCTTACACT
Found at i:2120149 original size:43 final size:42
Alignment explanation
Indices: 2120023--2120270 Score: 300
Period size: 43 Copynumber: 5.8 Consensus size: 42
2120013 AGGTCTTATA
* * * ** * * *
2120023 CTTGCACATAGCAAAAGAGCCTGAGAAAACTATAAGTCTTACA
1 CTTGCACACAGCAAAGGAACCTG-GGGAACTGTAAGGCTTACC
*
2120066 CTTGCACACAACAAAGGAACCT-GGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGAACTGTAAGGCTTACC
*
2120107 CTTGCACACAGCAAAAGAACCTGGTGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGG-GGAACTGTAAGGCTTACC
* * *
2120150 CTTGCACACAACAAAGGGACCTGGGGAAACTTTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGG-AACTGTAAGGCTTACC
* *
2120193 CTTGCACACAGCAAAGGGACCTGAGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTG-GGGAACTGTAAGGCTTACC
*
2120236 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAA
1 CTTGCACACAGCAAAGGAACCT-GGGGAACTGTAA
2120271 CGGTAATTAA
Statistics
Matches: 181, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 34 0.19
42 3 0.02
43 141 0.78
44 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (42 bp):
CTTGCACACAGCAAAGGAACCTGGGGAACTGTAAGGCTTACC
Found at i:2120215 original size:86 final size:85
Alignment explanation
Indices: 2120023--2120270 Score: 347
Period size: 86 Copynumber: 2.9 Consensus size: 85
2120013 AGGTCTTATA
* * * * * * *
2120023 CTTGCACATAGCAAAAGAGCCTGAGAAAACTATAAGTCTTACACTTGCACACAACAAAGGAACCT
1 CTTGCACACAGCAAAAGAACCTGAGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
2120088 -GGGAACTGTAAGGCTTACC
66 GGGGAACTGTAAGGCTTACC
*
2120107 CTTGCACACAGCAAAAGAACCTG-GTGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACC
1 CTTGCACACAGCAAAAGAACCTGAG-GAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACC
*
2120171 TGGGGAAACTTTAAGGCTTACC
65 TGGGG-AACTGTAAGGCTTACC
* * *
2120193 CTTGCACACAGCAAAGGGACCTGAGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
1 CTTGCACACAGCAAAAGAACCTGAGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
2120258 GGGGGAACTGTAA
66 -GGGGAACTGTAA
2120271 CGGTAATTAA
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
83 1 0.01
84 55 0.38
85 3 0.02
86 81 0.56
87 5 0.03
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (85 bp):
CTTGCACACAGCAAAAGAACCTGAGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
GGGGAACTGTAAGGCTTACC
Found at i:2125092 original size:41 final size:42
Alignment explanation
Indices: 2125036--2125221 Score: 257
Period size: 43 Copynumber: 4.4 Consensus size: 42
2125026 AGCAAAAGAG
*
2125036 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGAAA
1 CCTGGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
*
2125079 CCT-GGGAGCTGTAAGGCTTACCCTTGCACACAACAAAGGAA
1 CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
* ** *
2125120 CCTGGGGGAACCGTAAGGCTTACCCTTGCACACAGTAAAGGGA
1 CCT-GGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
* *
2125163 CCTGGAGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
1 CCTGG-GGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
2125206 CCTGGGGGAACTGTAA
1 CCT-GGGGAACTGTAA
2125222 CGGTAATTAA
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
41 36 0.28
42 5 0.04
43 87 0.67
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (42 bp):
CCTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAA
Found at i:2127764 original size:13 final size:13
Alignment explanation
Indices: 2127731--2127767 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2127721 CGATCAACGA
*
2127731 GTCAACGAGTCGG
1 GTCAACGGGTCGG
2127744 GTCAACGGGTCGG
1 GTCAACGGGTCGG
2127757 GTCAACGGGTC
1 GTCAACGGGTC
2127768 AAGTCGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.19, C:0.24, G:0.41, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:2129101 original size:28 final size:28
Alignment explanation
Indices: 2128973--2129159 Score: 241
Period size: 29 Copynumber: 6.5 Consensus size: 28
2128963 CACATTCGAA
*
2128973 AATTCCCAAAATGTCCCATTTTTCAAAAT
1 AATTCCC-AAATGTCACATTTTTCAAAAT
**
2129002 AATTCCCATAATGTCACCCTTTTCAAAAT
1 AATTCCCA-AATGTCACATTTTTCAAAAT
* *
2129031 AATTCCTAAAATGTCACCTTTTTCAAAAT
1 AATTCC-CAAATGTCACATTTTTCAAAAT
*
2129060 AATTCCCAGAATATCACATTTTTCAAAAT
1 AATTCCCA-AATGTCACATTTTTCAAAAT
* *
2129089 AATTCCCAAATATAAC-TTTTTCAAAAT
1 AATTCCCAAATGTCACATTTTTCAAAAT
*
2129116 AATTCCCAAATTTCACATTTTTCAAAAT
1 AATTCCCAAATGTCACATTTTTCAAAAT
2129144 AATTCCCAGAATGTCA
1 AATTCCCA-AATGTCA
2129160 TTGGGTCGGG
Statistics
Matches: 141, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
27 25 0.18
28 28 0.20
29 87 0.62
30 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.35
Consensus pattern (28 bp):
AATTCCCAAATGTCACATTTTTCAAAAT
Found at i:2135047 original size:29 final size:29
Alignment explanation
Indices: 2134954--2135133 Score: 202
Period size: 28 Copynumber: 6.2 Consensus size: 29
2134944 CACATTCGAA
* * *
2134954 AATTTCCAAAATGCCACATTTTCTTCAAAAT
1 AATTCCCAAAATGTCAC-CTTT-TTCAAAAT
* *
2134985 AATTCCCATAATGTCACCTCTTTTAAAAAT
1 AATTCCCAAAATGTCACCT-TTTTCAAAAT
2135015 AATTCCCAAAATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
** *
2135044 AATTATCAGAATGTCA-CTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
2135072 AATTACCAAAATGTCACATTTTT-AAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* * *
2135100 AATTTCCAGAATTTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
2135129 AATTC
1 AATTC
2135134 GTTGAATGTC
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
28 50 0.39
29 36 0.28
30 26 0.20
31 16 0.12
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:2135144 original size:57 final size:57
Alignment explanation
Indices: 2134957--2135133 Score: 225
Period size: 57 Copynumber: 3.1 Consensus size: 57
2134947 ATTCGAAAAT
* * * *
2134957 TTCCAAAATGCCACATTTTCTTCAAAATAATTCCCATAATGTCACCTCTTTTAAAAATAA
1 TTCCAAAATGTCACA-TTT-TTCAAAATAATTTCCAGAATGTCACCT-TTTTCAAAATAA
*
2135017 TTCCCAAAATGTCACCTTTTTCAAAATAATTAT-CAGAATGTCA-CTTTTTCAAAATAA
1 TT-CCAAAATGTCACATTTTTCAAAATAATT-TCCAGAATGTCACCTTTTTCAAAATAA
*
2135074 TTACCAAAATGTCACATTTTT-AAAATAATTTCCAGAATTTCACCTTTTTCAAAATAA
1 TT-CCAAAATGTCACATTTTTCAAAATAATTTCCAGAATGTCACCTTTTTCAAAATAA
2135131 TTC
1 TTC
2135134 GTTGAATGTC
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
55 1 0.01
56 19 0.18
57 46 0.44
58 2 0.02
59 21 0.20
60 5 0.05
61 11 0.10
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.37
Consensus pattern (57 bp):
TTCCAAAATGTCACATTTTTCAAAATAATTTCCAGAATGTCACCTTTTTCAAAATAA
Found at i:2135163 original size:17 final size:17
Alignment explanation
Indices: 2135141--2135173 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2135131 TTCGTTGAAT
2135141 GTCAACGGGTCGGGTCG
1 GTCAACGGGTCGGGTCG
*
2135158 GTCAACGGGTTGGGTC
1 GTCAACGGGTCGGGTC
2135174 AGACCGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.45, T:0.21
Consensus pattern (17 bp):
GTCAACGGGTCGGGTCG
Found at i:2135209 original size:17 final size:18
Alignment explanation
Indices: 2135172--2135215 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
2135162 ACGGGTTGGG
2135172 TCAGACCGGTCAACCCGGT
1 TCAGACCGGTCAA-CCGGT
2135191 TCAGACCGGTCAA-CGGT
1 TCAGACCGGTCAACCGGT
2135208 TCAGACCG
1 TCAGACCG
2135216 ATTTTGACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 12 0.48
19 13 0.52
ACGTcount: A:0.23, C:0.34, G:0.27, T:0.16
Consensus pattern (18 bp):
TCAGACCGGTCAACCGGT
Found at i:2136556 original size:29 final size:29
Alignment explanation
Indices: 2136532--2136615 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
2136522 TTTTTAGGTG
2136532 TTTATGT-TC-TGTTCATGTTCGTTTAAT
1 TTTATGTATCATGTTCATGTTCGTTTAAT
*
2136559 TTTTTGTATCATGTTCATGTTCGTTTAATT
1 TTTATGTATCATGTTCATGTTCGTTTAA-T
* *
2136589 TTTTTGTATCATGTTCATGTTTGTTTA
1 TTTATGTATCATGTTCATGTTCGTTTA
2136616 TTTATTTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 6 0.12
28 2 0.04
29 17 0.33
30 27 0.52
ACGTcount: A:0.15, C:0.10, G:0.14, T:0.61
Consensus pattern (29 bp):
TTTATGTATCATGTTCATGTTCGTTTAAT
Found at i:2136594 original size:30 final size:30
Alignment explanation
Indices: 2136541--2136625 Score: 136
Period size: 30 Copynumber: 2.8 Consensus size: 30
2136531 GTTTATGTTC
2136541 TGTTCATGTTCGTTTAA-TTTTTTGTATCA
1 TGTTCATGTTCGTTTAATTTTTTTGTATCA
2136570 TGTTCATGTTCGTTTAATTTTTTTGTATCA
1 TGTTCATGTTCGTTTAATTTTTTTGTATCA
* *
2136600 TGTTCATGTTTGTTTATTTATTTTTG
1 TGTTCATGTTCGTTTAATT-TTTTTG
2136626 AAGGTATTCG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.33
30 29 0.56
31 6 0.12
ACGTcount: A:0.15, C:0.08, G:0.14, T:0.62
Consensus pattern (30 bp):
TGTTCATGTTCGTTTAATTTTTTTGTATCA
Found at i:2136677 original size:23 final size:23
Alignment explanation
Indices: 2136645--2136737 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 23
2136635 GTATTCGTTT
* *
2136645 ATTTATTGTTCACGAACATTTTC
1 ATTTAATGTTCACGAACATGTTC
* **
2136668 GTTTAATGTTCGTGAACATGTTC
1 ATTTAATGTTCACGAACATGTTC
* *
2136691 ATTTATATGTTCAAGAAC-GGATTC
1 ATTTA-ATGTTCACGAACATG-TTC
* *
2136715 ATTTGACGTTCACGAACATGTTC
1 ATTTAATGTTCACGAACATGTTC
2136738 GTTTTTTGTT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
23 36 0.67
24 18 0.33
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (23 bp):
ATTTAATGTTCACGAACATGTTC
Found at i:2136748 original size:23 final size:23
Alignment explanation
Indices: 2136646--2136749 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 23
2136636 TATTCGTTTA
* *
2136646 TTTATTGTTCACGAACATTTTCGT
1 TTTA-TGTTCACGAACATGTTCAT
* **
2136670 TTAATGTTCGTGAACATGTTCAT
1 TTTATGTTCACGAACATGTTCAT
* *
2136693 TTATATGTTCAAGAAC-GGATTCAT
1 TT-TATGTTCACGAACATG-TTCAT
* * *
2136717 TTGACGTTCACGAACATGTTCGT
1 TTTATGTTCACGAACATGTTCAT
*
2136740 TTTTTGTTCA
1 TTTATGTTCA
2136750 TTTAATGTTT
Statistics
Matches: 60, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
23 39 0.65
24 21 0.35
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (23 bp):
TTTATGTTCACGAACATGTTCAT
Found at i:2136758 original size:11 final size:11
Alignment explanation
Indices: 2136732--2136786 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
2136722 GTTCACGAAC
*
2136732 ATGTTCGTTTT
1 ATGTTCGTTTA
* *
2136743 TTGTTCATTTA
1 ATGTTCGTTTA
*
2136754 ATGTTTGTTTA
1 ATGTTCGTTTA
* *
2136765 GTGTCCGTTTA
1 ATGTTCGTTTA
2136776 ATGTTCGTTTA
1 ATGTTCGTTTA
2136787 GAGGTTCAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (11 bp):
ATGTTCGTTTA
Found at i:2136758 original size:22 final size:22
Alignment explanation
Indices: 2136732--2136787 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2136722 GTTCACGAAC
** *
2136732 ATGTTCGTTTTTTGTTCATTTA
1 ATGTTCGTTTAGTGTCCATTTA
* *
2136754 ATGTTTGTTTAGTGTCCGTTTA
1 ATGTTCGTTTAGTGTCCATTTA
2136776 ATGTTCGTTTAG
1 ATGTTCGTTTAG
2136788 AGGTTCAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.14, C:0.09, G:0.20, T:0.57
Consensus pattern (22 bp):
ATGTTCGTTTAGTGTCCATTTA
Found at i:2139874 original size:13 final size:13
Alignment explanation
Indices: 2139856--2139880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2139846 GGGCATTTTT
2139856 GAGTTCTCCTTTC
1 GAGTTCTCCTTTC
2139869 GAGTTCTCCTTT
1 GAGTTCTCCTTT
2139881 TGTAGATAAA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
GAGTTCTCCTTTC
Found at i:2140188 original size:12 final size:12
Alignment explanation
Indices: 2140160--2140222 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
2140150 AATCCTTGTA
*
2140160 TTATTATTTTA-
1 TTATTATATTAT
2140171 TT-TTATATTAT
1 TTATTATATTAT
2140182 TTATTATA-TAT
1 TTATTATATTAT
*
2140193 ATATATATATATAT
1 TTAT-TATAT-TAT
* *
2140207 TTAATATCTTAT
1 TTATTATATTAT
2140219 TTAT
1 TTAT
2140223 GCACCTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 7 0.17
11 10 0.24
12 15 0.37
13 4 0.10
14 5 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:2140399 original size:3 final size:3
Alignment explanation
Indices: 2140391--2140427 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
2140381 TTTTTTGTCT
2140391 TTA TTA TTA TTA TTA TTA TATA TT- TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
2140428 ACTACCTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2140420 original size:18 final size:19
Alignment explanation
Indices: 2140392--2140428 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2140382 TTTTTGTCTT
2140392 TATTATTATTATTATTATA
1 TATTATTATTATTATTATA
2140411 TATT-TTATTATTATTATA
1 TATTATTATTATTATTATA
2140429 CTACCTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTATTATTATTATA
Found at i:2140779 original size:12 final size:12
Alignment explanation
Indices: 2140762--2140786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2140752 TTTTTATCTT
2140762 TATATCTTATTA
1 TATATCTTATTA
2140774 TATATCTTATTA
1 TATATCTTATTA
2140786 T
1 T
2140787 TTCTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATCTTATTA
Found at i:2140873 original size:2 final size:2
Alignment explanation
Indices: 2140866--2140901 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2140856 ATTTTATTAA
2140866 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
2140902 TACTAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2151666 original size:18 final size:18
Alignment explanation
Indices: 2151643--2151680 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2151633 CGTGAGAATA
2151643 GGGCAGTGGTCCAACATG
1 GGGCAGTGGTCCAACATG
*
2151661 GGGCAGTGGTCCAGCATG
1 GGGCAGTGGTCCAACATG
2151679 GG
1 GG
2151681 CATCTGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.45, T:0.16
Consensus pattern (18 bp):
GGGCAGTGGTCCAACATG
Found at i:2155950 original size:19 final size:19
Alignment explanation
Indices: 2155926--2155967 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
2155916 ATCTTCGCTG
2155926 TGGCTCTATGGATTTGCCA
1 TGGCTCTATGGATTTGCCA
2155945 TGGCTCTATGGATTTGCCA
1 TGGCTCTATGGATTTGCCA
2155964 TGGC
1 TGGC
2155968 ATTCTTCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (19 bp):
TGGCTCTATGGATTTGCCA
Found at i:2160290 original size:18 final size:18
Alignment explanation
Indices: 2160267--2160304 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2160257 CGTGAGGATA
2160267 GGGCAGTGGTCCAGCATG
1 GGGCAGTGGTCCAGCATG
2160285 GGGCAGTGGTCCAGCATG
1 GGGCAGTGGTCCAGCATG
2160303 GG
1 GG
2160305 CATCTGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (18 bp):
GGGCAGTGGTCCAGCATG
Found at i:2160377 original size:10 final size:10
Alignment explanation
Indices: 2160352--2160380 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
2160342 AGCTGACATC
2160352 TGCAGCATGG
1 TGCAGCATGG
2160362 -GCAGCATGG
1 TGCAGCATGG
2160371 TGCAGCATGG
1 TGCAGCATGG
2160381 CCTGTGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.17
Consensus pattern (10 bp):
TGCAGCATGG
Found at i:2163162 original size:116 final size:120
Alignment explanation
Indices: 2162965--2163301 Score: 379
Period size: 116 Copynumber: 2.9 Consensus size: 120
2162955 CTCGAGATTA
* * * * * * * *
2162965 GATTTCAACTTCACGACGAAGGATATCTAACTC-GAAGC-CAA-ACAA-TACTTGGATTTTACCT
1 GATTTCAACTTCACAACGAAGGATATCGATCCCACAAGCACAATGCAACT-CTTGGATTTCAACT
*
2163026 TCATGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCAC
65 TCACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCAC
* ** * * * *
2163082 GATTTTAACTTCATGACGAAGGATATC-AT-GC-CAA-CA-ATATTCATCTTTTGGATTTCAACT
1 GATTTCAACTTCACAACGAAGGATATCGATCCCACAAGCACA-ATGCAACTCTTGGATTTCAACT
* *
2163142 TCACGACGAAGGATATCCAATTCAAGACTCAATTTCACAACGAATGGGTCATCCAC
65 TCACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCAC
* *
2163198 GATTTCAACTTCACAACGAAGTATATCGTTCCCACAAGCAGCAATGCAACTCTTGGATTTCAACT
1 GATTTCAACTTCACAACGAAGGATATCGATCCCACAAGCA-CAATGCAACTCTTGGATTTCAACT
*
2163263 TCACGACGAATGATATCCAATTCAA-AGCTCAACTTCACA
65 TCACGACGAAGGATATCCAATTCAAGA-CTCAACTTCACA
2163302 GTGGAGGAGC
Statistics
Matches: 185, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
114 2 0.01
115 4 0.02
116 90 0.49
117 27 0.15
118 1 0.01
119 3 0.02
120 3 0.02
121 54 0.29
122 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (120 bp):
GATTTCAACTTCACAACGAAGGATATCGATCCCACAAGCACAATGCAACTCTTGGATTTCAACTT
CACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCAC
Found at i:2165020 original size:2 final size:2
Alignment explanation
Indices: 2165004--2165127 Score: 128
Period size: 2 Copynumber: 63.5 Consensus size: 2
2164994 TTATTTATTT
* *
2165004 TA TA TA CA TA CA 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
* * * * * **
2165046 TA TA TA TA TT TA -A TA TC T- TA TT TA TG CA CC TA -A 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
* *
2165085 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA AA 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
2165127 T
1 T
2165128 TGTTTTTATT
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
1 3 0.03
2 97 0.97
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2165240 original size:27 final size:30
Alignment explanation
Indices: 2165210--2165283 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 30
2165200 ATTCTTTTTG
2165210 ATTTTTTATTTATTA-C-TATTA-TATTAT
1 ATTTTTTATTTATTATCTTATTATTATTAT
*
2165237 ATTTTTTATTTTTTTATCTTTATTATTATTAT
1 ATTTTTTA-TTTATTATC-TTATTATTATTAT
*
2165269 ATATTTTA-TTATTAT
1 ATTTTTTATTTATTAT
2165284 TATAATACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 8 0.21
28 6 0.15
29 1 0.03
30 6 0.15
31 5 0.13
32 13 0.33
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (30 bp):
ATTTTTTATTTATTATCTTATTATTATTAT
Found at i:2165272 original size:34 final size:36
Alignment explanation
Indices: 2165211--2165281 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 36
2165201 TTCTTTTTGA
*
2165211 TTTTTTATTTATTACTATTATATTATATTTT-TTAT
1 TTTTTTATCTATTACTATTATATTATATTTTATTAT
*
2165246 TTTTTTATCT-TTATTATTAT-TATATATTTTATTAT
1 TTTTTTATCTATTACTATTATAT-TATATTTTATTAT
2165281 T
1 T
2165282 ATTATAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 1 0.03
34 17 0.53
35 14 0.44
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (36 bp):
TTTTTTATCTATTACTATTATATTATATTTTATTAT
Found at i:2165277 original size:15 final size:15
Alignment explanation
Indices: 2165231--2165283 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
2165221 ATTACTATTA
2165231 TATTATATTTTTTAT
1 TATTATATTTTTTAT
* *
2165246 TTTTTTATCTTTATTAT
1 TATTATAT-TTT-TTAT
*
2165263 TATTATATATTTTAT
1 TATTATATTTTTTAT
2165278 TATTAT
1 TATTAT
2165284 TATAATACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 16 0.52
16 5 0.16
17 10 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTATATTTTTTAT
Found at i:2165279 original size:44 final size:44
Alignment explanation
Indices: 2165190--2165280 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
2165180 ATTTAGTTTC
*
2165190 TATATTTTTTATTCTTTTTGATTTTTTATTTATTACTATTATAT
1 TATATTTTTTATTCTTTTTGATTTTTTATTTATTAATATTATAT
*
2165234 TATATTTTTTATT-TTTTT-ATCTTTATTA-TTATTATATATTTTAT
1 TATATTTTTTATTCTTTTTGAT-TTT-TTATTTATTA-ATATTATAT
2165278 TAT
1 TAT
2165281 TATTATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 14 0.33
44 26 0.62
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (44 bp):
TATATTTTTTATTCTTTTTGATTTTTTATTTATTAATATTATAT
Found at i:2165285 original size:6 final size:6
Alignment explanation
Indices: 2165219--2165286 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
2165209 GATTTTTTAT
* *
2165219 TTATTA CTATTA -TATTA -TATT- TT-TTA TT-TTT TTATCT- TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTAT-TA TTATTA
2165262 TTATTA TATATT- TTATTA TTATTA T
1 TTATTA T-TATTA TTATTA TTATTA T
2165287 AATACCTACA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
4 2 0.04
5 21 0.40
6 25 0.47
7 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (6 bp):
TTATTA
Found at i:2165286 original size:9 final size:8
Alignment explanation
Indices: 2165192--2165286 Score: 54
Period size: 9 Copynumber: 11.4 Consensus size: 8
2165182 TTAGTTTCTA
2165192 TATT-TTT
1 TATTATTT
*
2165199 TATTCTTT
1 TATTATTT
*
2165207 T-TGATTT
1 TATTATTT
2165214 T-TTA-TT
1 TATTATTT
2165220 TATTACTATT
1 TATTA-T-TT
2165230 ATATTATATT
1 -TATTAT-TT
*
2165240 TTTTATTT
1 TATTATTT
*
2165248 TTTTATCTT
1 TATTAT-TT
2165257 TATTATTAT
1 TATTATT-T
2165266 TATATATTT
1 TAT-TATTT
2165275 TATTATTAT
1 TATTATT-T
2165284 TAT
1 TAT
2165287 AATACCTACA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
6 3 0.04
7 14 0.19
8 17 0.23
9 24 0.33
10 10 0.14
11 5 0.07
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (8 bp):
TATTATTT
Found at i:2165894 original size:82 final size:83
Alignment explanation
Indices: 2165794--2165958 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 83
2165784 CTCCACTTTC
*
2165794 GGTGAAGTGATGGGGGTAATTATTTATTTATTACATATGTTTTTATTTTCATTT-TTTTCTTTTG
1 GGTGAAGTGATGGGGGTAATTATTTATTTATTAAATATGTTTTTATTTTCATTTATTTTCTTTTG
2165858 TTTTATTCTATTAATTCT
66 TTTTATTCTATTAATTCT
2165876 GGTGAAGTGATGGGGGTAATTATTTATTTATTAAATATGTTTTTATTTTCATTTATTTTCTTTTG
1 GGTGAAGTGATGGGGGTAATTATTTATTTATTAAATATGTTTTTATTTTCATTTATTTTCTTTTG
2165941 TTTTATTCTATTAATTCT
66 TTTTATTCTATTAATTCT
2165959 ATCTTATTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 53 0.65
83 28 0.35
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.58
Consensus pattern (83 bp):
GGTGAAGTGATGGGGGTAATTATTTATTTATTAAATATGTTTTTATTTTCATTTATTTTCTTTTG
TTTTATTCTATTAATTCT
Found at i:2166211 original size:9 final size:9
Alignment explanation
Indices: 2166117--2166214 Score: 58
Period size: 9 Copynumber: 10.3 Consensus size: 9
2166107 ATTCATTTTC
2166117 TTTTATTTA
1 TTTTATTTA
2166126 -TTT-TTTA
1 TTTTATTTA
2166133 TGTTT-TTTA
1 T-TTTATTTA
* *
2166142 CTTTCATTTT
1 -TTTTATTTA
2166152 TTTTATCTTA
1 TTTTAT-TTA
2166162 TTTTATTTA
1 TTTTATTTA
*
2166171 TTGCACTAGTTTA
1 TT---TTA-TTTA
2166184 TTTTATTTTA
1 TTTTA-TTTA
**
2166194 TTTCCTTTA
1 TTTTATTTA
2166203 TTTTATTTA
1 TTTTATTTA
2166212 TTT
1 TTT
2166215 GCATTACTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
7 4 0.06
8 3 0.04
9 33 0.48
10 21 0.30
12 2 0.03
13 6 0.09
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:2166224 original size:23 final size:22
Alignment explanation
Indices: 2166159--2166224 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 22
2166149 TTTTTTTATC
*
2166159 TTATTTTATTTA-TTGCACTAGT
1 TTATTTTATTTATTTGCA-TACT
2166181 TTATTTTATTTTATTT-C---CT
1 TTATTTTA-TTTATTTGCATACT
2166200 TTATTTTATTTATTTGCATTACT
1 TTATTTTATTTATTTGCA-TACT
2166223 TT
1 TT
2166225 TTCCTCTAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
18 7 0.19
19 10 0.28
22 8 0.22
23 9 0.25
24 2 0.06
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTTTATTTATTTGCATACT
Found at i:2166305 original size:34 final size:36
Alignment explanation
Indices: 2166262--2166362 Score: 161
Period size: 34 Copynumber: 2.8 Consensus size: 36
2166252 TTCGTCCTAA
*
2166262 TAGGATTCAAACTCCTAAAAATATGATAGAA-TTT-
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTC
*
2166296 TAGGATTCAAACTCCTAAAAATAGGATAAAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTT-C
2166333 TAGGATTCAAACTCCTAAAAATAGGATAGA
1 TAGGATTCAAACTCCTAAAAATAGGATAGA
2166363 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.29
Consensus pattern (36 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTC
Found at i:2166386 original size:37 final size:37
Alignment explanation
Indices: 2166262--2166396 Score: 150
Period size: 37 Copynumber: 3.7 Consensus size: 37
2166252 TTCGTCCTAA
* *
2166262 TAGGATTCAAACTCCTAAAAATATGATAGAATT-T--
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* *
2166296 TAGGATTCAAACTCCTAAAAATAGGATAAAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* *
2166333 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
** * * *
2166370 TATTATTTAAATTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
2166397 CCACAAGCAC
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
34 31 0.36
35 1 0.01
37 55 0.63
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
Found at i:2169679 original size:16 final size:16
Alignment explanation
Indices: 2169653--2169732 Score: 64
Period size: 16 Copynumber: 5.1 Consensus size: 16
2169643 AGATCCAATC
2169653 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
2169668 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
* *
2169685 AA-AA-AACAAAGAAA
1 AAGAACAAAAAAGCAA
2169699 AAGAGA-AACAAGAA-CAA
1 AAGA-ACAA-AA-AAGCAA
2169716 AAGAA-AAAAAAGCAA
1 AAGAACAAAAAAGCAA
2169731 AA
1 AA
2169733 ATCAAAATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
14 12 0.22
15 13 0.24
16 16 0.30
17 11 0.20
18 2 0.04
ACGTcount: A:0.78, C:0.09, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:2169687 original size:9 final size:9
Alignment explanation
Indices: 2169659--2169733 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
2169649 AATCAAGAAC
2169659 AAAAAAG-A
1 AAAAAAGCA
*
2169667 AAAGAAGC-
1 AAAAAAGCA
2169675 AAAAAAGCA
1 AAAAAAGCA
*
2169684 AAAAAAACAA
1 AAAAAAGC-A
2169694 AGAAAAAG-A
1 A-AAAAAGCA
*
2169703 GAAACAAG-A
1 -AAAAAAGCA
* *
2169712 ACAAAAGAA
1 AAAAAAGCA
2169721 AAAAAAGCA
1 AAAAAAGCA
2169730 AAAA
1 AAAA
2169734 TCAAAATGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
8 18 0.35
9 26 0.50
10 3 0.06
11 5 0.10
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAGCA
Found at i:2169718 original size:37 final size:36
Alignment explanation
Indices: 2169660--2169731 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
2169650 ATCAAGAACA
*
2169660 AAAAAGAAAAGAAGCAAAAAAGCAAAAAAAA-CAAAG
1 AAAAAGAAAACAAGCAAAAAAG-AAAAAAAAGCAAAG
2169696 AAAAAGAGAAACAAG-AACAAAAGAAAAAAAAGCAAA
1 AAAAAGA-AAACAAGCAA-AAAAGAAAAAAAAGCAAA
2169732 AATCAAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 17 0.53
37 15 0.47
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (36 bp):
AAAAAGAAAACAAGCAAAAAAGAAAAAAAAGCAAAG
Found at i:2169733 original size:8 final size:7
Alignment explanation
Indices: 2169659--2169724 Score: 62
Period size: 8 Copynumber: 8.9 Consensus size: 7
2169649 AATCAAGAAC
2169659 AAAAAAG
1 AAAAAAG
2169666 AAAAGAAG
1 AAAA-AAG
2169674 CAAAAAAG
1 -AAAAAAG
2169682 CAAAAAA-
1 -AAAAAAG
*
2169689 AACAAAG
1 AAAAAAG
2169696 AAAAAGAG
1 AAAAA-AG
*
2169704 AAACAAG
1 AAAAAAG
2169711 AACAAAAG
1 AA-AAAAG
2169719 AAAAAA
1 AAAAAA
2169725 AAGCAAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
6 5 0.10
7 16 0.32
8 25 0.50
9 4 0.08
ACGTcount: A:0.79, C:0.08, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Done.