Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_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: 3098974
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 16
Found at i:1872975 original size:33 final size:33
Alignment explanation
Indices: 1872891--1873021 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 33
1872881 CGAAACTTAA
* *
1872891 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
1872929 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
1872962 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
1872995 AATTGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1873022 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
33 58 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:1873018 original size:52 final size:50
Alignment explanation
Indices: 1872890--1873026 Score: 130
Period size: 52 Copynumber: 2.6 Consensus size: 50
1872880 ACGAAACTTA
* * * *
1872890 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAAT-GCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * * **
1872941 AAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
1872993 AGAATTGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AA-TGCAACGCGAAATGAAAATCGCAATGCGA
1873027 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 40 0.61
53 3 0.05
54 10 0.15
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (50 bp):
AAATGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:1873057 original size:14 final size:14
Alignment explanation
Indices: 1873038--1873096 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1873028 TTTGGTTTCG
1873038 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
1873052 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
1873069 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
1873085 CGTTGCGATTTT
1 CGTTGCGATTTT
1873097 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1873064 original size:33 final size:33
Alignment explanation
Indices: 1873022--1873145 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
1873012 AAAATCGCAA
*
1873022 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1873055 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
1873088 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
1873121 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
1873146 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1873076 original size:19 final size:18
Alignment explanation
Indices: 1873022--1873113 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
1873012 AAAATCGCAA
1873022 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1873041 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
1873055 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1873074 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1873088 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1873107 TGCGATT
1 TGCGATT
1873114 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1873123 original size:14 final size:14
Alignment explanation
Indices: 1873071--1873127 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1873061 TTTGGTTTCG
*
1873071 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
1873085 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1873104 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1873118 CGTTGCGATT
1 CGTTGCGATT
1873128 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1873538 original size:93 final size:93
Alignment explanation
Indices: 1873243--1873557 Score: 596
Period size: 93 Copynumber: 3.4 Consensus size: 93
1873233 TCAGGGTATT
1873243 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1873308 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
1873336 AGTTTAGCAGAATTGGCAGTAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGA-AAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1873400 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
1873428 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
1873493 GACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
1873521 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1873558 AAGCAATCTA
Statistics
Matches: 217, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 91 0.42
93 126 0.58
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:1875267 original size:20 final size:20
Alignment explanation
Indices: 1875236--1875332 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
1875226 TTTTGGTTGA
1875236 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
1875256 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1875276 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
1875295 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
1875310 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1875330 AAT
1 AAT
1875333 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:1875288 original size:21 final size:21
Alignment explanation
Indices: 1875234--1875298 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1875224 TCTTTTGGTT
1875234 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
1875255 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1875275 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1875296 GAA
1 GAA
1875299 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:1875302 original size:14 final size:14
Alignment explanation
Indices: 1875283--1875339 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1875273 GAGAAATGAA
1875283 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1875297 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1875316 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1875330 AATCGCAACG
1 AATCGCAACG
1875340 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1875315 original size:33 final size:33
Alignment explanation
Indices: 1875234--1875356 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1875224 TCTTTTGGTT
*
1875234 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
1875275 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1875308 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1875341 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1875357 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1875430 original size:21 final size:20
Alignment explanation
Indices: 1875384--1875476 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 20
1875374 GTTGCGATTC
1875384 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGATTTTCATTT
*
1875403 TCGCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCA-TTT
**
1875424 TCTCGTTGCAGATAGTCATTT
1 TCTCGTTGC-GATTTTCATTT
*
1875445 TCACGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
1875465 ATCTCGTTGCGA
1 -TCTCGTTGCGA
1875477 CTCTTCTGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
19 16 0.26
20 9 0.15
21 31 0.50
22 6 0.10
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (20 bp):
TCTCGTTGCGATTTTCATTT
Found at i:1875452 original size:42 final size:40
Alignment explanation
Indices: 1875384--1875476 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 40
1875374 GTTGCGATTC
** * *
1875384 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATAGTCATTTCACGTTGCGATTTTCATTTA
1875424 TCTCGTTGCAGATAGTCATTTTCACGTTGCGATTTTCATTTA
1 TCTCGTTGC-GATAGTCA-TTTCACGTTGCGATTTTCATTTA
1875466 TCTCGTTGCGA
1 TCTCGTTGCGA
1875477 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 9 0.19
41 8 0.17
42 30 0.64
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (40 bp):
TCTCGTTGCGATAGTCATTTCACGTTGCGATTTTCATTTA
Found at i:1875598 original size:33 final size:33
Alignment explanation
Indices: 1875556--1875626 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1875546 AATACTAACT
1875556 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1875589 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1875622 TGAAA
1 TGAAA
1875627 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1876031 original size:20 final size:20
Alignment explanation
Indices: 1876006--1876197 Score: 253
Period size: 20 Copynumber: 9.6 Consensus size: 20
1875996 CTTTAAAAAT
1876006 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1876026 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
1876047 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1876066 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
1876086 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1876106 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1876126 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1876146 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1876166 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1876186 CGCGTTGCGATT
1 CGCGTTGCGATT
1876198 CTTGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.01
20 147 0.97
21 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1877610 original size:2 final size:2
Alignment explanation
Indices: 1877605--1877633 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1877595 TCACACATGC
1877605 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 A
1877634 ATTATTTACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1885998 original size:31 final size:31
Alignment explanation
Indices: 1885962--1886027 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
1885952 ATTTGATAGC
*
1885962 CAAAGTAGAAATTTGGGAAAAAATTAAGGAT
1 CAAAGTAGAAATTTGAGAAAAAATTAAGGAT
*
1885993 CAAAGTAGAAATTTGAGAAAAAATTAAGGTT
1 CAAAGTAGAAATTTGAGAAAAAATTAAGGAT
1886024 CAAA
1 CAAA
1886028 ATAAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.23
Consensus pattern (31 bp):
CAAAGTAGAAATTTGAGAAAAAATTAAGGAT
Found at i:1886046 original size:32 final size:31
Alignment explanation
Indices: 1885978--1886049 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
1885968 AGAAATTTGG
* * *
1885978 GAAAAAATTAAGGATCAAAGTAGAAATTTGA
1 GAAAAAATTAAGGATCAAAATAAAAATTTCA
*
1886009 GAAAAAATTAAGGTTCAAAATAAAAAATTTC-
1 GAAAAAATTAAGGATCAAAAT-AAAAATTTCA
*
1886040 CAAAAAATTA
1 GAAAAAATTA
1886050 TTCTATAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (31 bp):
GAAAAAATTAAGGATCAAAATAAAAATTTCA
Found at i:1894254 original size:12 final size:12
Alignment explanation
Indices: 1894237--1894261 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1894227 TGTTCATAAA
1894237 TATAAATGAGTT
1 TATAAATGAGTT
1894249 TATAAATGAGTT
1 TATAAATGAGTT
1894261 T
1 T
1894262 TTTTTTGTGA
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TATAAATGAGTT
Found at i:1906559 original size:21 final size:21
Alignment explanation
Indices: 1906533--1906576 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1906523 AATATTGTAA
1906533 ATTAGTATTTTCTATGTTTTT
1 ATTAGTATTTTCTATGTTTTT
*
1906554 ATTAGTATTTTTTATGTTTTT
1 ATTAGTATTTTCTATGTTTTT
1906575 AT
1 AT
1906577 GTTTGTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (21 bp):
ATTAGTATTTTCTATGTTTTT
Found at i:1906724 original size:11 final size:10
Alignment explanation
Indices: 1906672--1906725 Score: 58
Period size: 9 Copynumber: 5.4 Consensus size: 10
1906662 ATTTGAATTT
1906672 AAAAAAAATC
1 AAAAAAAATC
1906682 -AAAAAAAT-
1 AAAAAAAATC
* *
1906690 ATAAAAAAGC
1 AAAAAAAATC
1906700 AGAAAAAAATC
1 A-AAAAAAATC
1906711 AAAAAAAATAC
1 AAAAAAAAT-C
1906722 AAAA
1 AAAA
1906726 CAATTAGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 14 0.39
10 9 0.25
11 13 0.36
ACGTcount: A:0.80, C:0.07, G:0.04, T:0.09
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:1907089 original size:16 final size:17
Alignment explanation
Indices: 1907070--1907110 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1907060 TGTTCTTAAC
1907070 TAATTTTAT-AATATTT
1 TAATTTTATGAATATTT
1907086 TAATTTT-TGAATATTT
1 TAATTTTATGAATATTT
1907102 TAATATTTA
1 TAAT-TTTA
1907111 ATTACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 18 0.82
17 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TAATTTTATGAATATTT
Found at i:1908107 original size:21 final size:21
Alignment explanation
Indices: 1908069--1908108 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1908059 GTCCATATTT
*
1908069 ATTTTTATTTTATTTTTAGTC
1 ATTTTTATTTTATATTTAGTC
1908090 ATTTTTATTATT-TATTTAG
1 ATTTTTATT-TTATATTTAG
1908109 AATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTTTATTTTATATTTAGTC
Found at i:1908117 original size:2 final size:2
Alignment explanation
Indices: 1908110--1908181 Score: 119
Period size: 2 Copynumber: 36.5 Consensus size: 2
1908100 TTTATTTAGA
1908110 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
* *
1908152 AT AT AT AT AT AT GT AT GT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1908182 ATTTTGAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1908255 original size:33 final size:33
Alignment explanation
Indices: 1908205--1908396 Score: 217
Period size: 33 Copynumber: 5.5 Consensus size: 33
1908195 TTTTGAAAAC
1908205 ATATATAT-TATAGTTTTTAAAACATTTTGAAA
1 ATATATATATATAGTTTTTAAAACATTTTGAAA
*
1908237 ACATATATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATATATAGTTTTTAAAACATTTTGAAA
1908270 A-ATATATTATATAGTTTTTAAAACATTTTGAAAA
1 ATATATA-TATATAGTTTTTAAAACATTTTG-AAA
* *
1908304 ATATATATGTTATATAATTTTTAAAACGTTTTTGAAA
1 ATATATA---TATATAGTTTTTAAAAC-ATTTTGAAA
* *
1908341 ATATAAATATAATATGGTTTTTAAAACAATTTTTTGAAT
1 ATAT--ATAT-ATATAGTTTTTAAAAC-A--TTTTGAAA
1908380 ATATATATATATAGTTT
1 ATATATATATATAGTTT
1908397 AAAAATTATT
Statistics
Matches: 139, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
32 12 0.09
33 48 0.35
34 4 0.03
35 5 0.04
36 9 0.06
37 42 0.30
38 5 0.04
39 14 0.10
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (33 bp):
ATATATATATATAGTTTTTAAAACATTTTGAAA
Found at i:1908408 original size:35 final size:34
Alignment explanation
Indices: 1908369--1908437 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
1908359 TTTTAAAACA
*
1908369 ATTTTTTGA-ATATATATATATATAGTTTAAAAATT
1 ATTTTTTAACATATATAT-TATATAG-TTAAAAATT
1908404 ATTTTTTAACATATATATTATATAGTTAAAAATT
1 ATTTTTTAACATATATATTATATAGTTAAAAATT
1908438 TTTCATTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 9 0.28
35 15 0.47
36 8 0.25
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (34 bp):
ATTTTTTAACATATATATTATATAGTTAAAAATT
Found at i:1908409 original size:34 final size:34
Alignment explanation
Indices: 1908371--1908437 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
1908361 TTAAAACAAT
*
1908371 TTTTTGAATATATATA-TATATAGTTTAAAAATTA
1 TTTTTGAACATATATATTATATAG-TTAAAAATTA
*
1908405 TTTTTTAACATATATATTATATAGTTAAAAATT
1 TTTTTGAACATATATATTATATAGTTAAAAATT
1908438 TTTCATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 23 0.77
35 7 0.23
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (34 bp):
TTTTTGAACATATATATTATATAGTTAAAAATTA
Found at i:1908457 original size:3 final size:3
Alignment explanation
Indices: 1908449--1908512 Score: 53
Period size: 3 Copynumber: 20.7 Consensus size: 3
1908439 TTCATTGTAT
*
1908449 TTA TTA TTA TTA TTA TTA TTA TT- TCTC TT- TT- TTA TATA TATA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA T-TA -TTA
1908495 TTA CTTA TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TT
1908513 TTTTTGTTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
2 5 0.09
3 37 0.67
4 12 0.22
5 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1909247 original size:10 final size:10
Alignment explanation
Indices: 1909232--1909256 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1909222 TTAGGTTTGC
1909232 TCGGCCACCG
1 TCGGCCACCG
1909242 TCGGCCACCG
1 TCGGCCACCG
1909252 TCGGC
1 TCGGC
1909257 GATAGCCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.48, G:0.32, T:0.12
Consensus pattern (10 bp):
TCGGCCACCG
Found at i:1911590 original size:19 final size:19
Alignment explanation
Indices: 1911556--1911600 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1911546 ATTTAGACAT
1911556 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
1911574 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
1911593 TTTGCATT
1 TTTGCATT
1911601 CATATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:1915225 original size:165 final size:164
Alignment explanation
Indices: 1914949--1915979 Score: 1343
Period size: 165 Copynumber: 6.2 Consensus size: 164
1914939 TTAACAAACT
* * * * * *
1914949 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCA--AAGACCCTCGAGTTCGATTACAC
* * * * * *
1915014 TCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
63 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTG-TAACCAAAG
1915078 ACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
127 ACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * *
1915116 ATTTGCAGTATAGCTTAAATCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* *
1915181 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACC-AAAGACC
*
1915246 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * **
1915281 ATTTGCAGCATAGCTTAAGTCGAGAAGCGCTATCTGCTAAAGACCCTTAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* * * *
1915346 GCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGACCT
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAGACCT
1915411 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * **
1915445 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* * * * * * * *
1915510 GCTTCGAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAGACCT
* * *
1915572 TCGAGTTCGACTACGTTCAGCTTCGAAGGCACATC
131 TTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * **
1915607 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGATTACA
* * * * * *
1915672 CTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAG
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAG
1915737 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
1915775 ATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* * ** * *
1915840 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTG-TAACCAAAGACC
1915905 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
1915940 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1915980 CAAAAGACCT
Statistics
Matches: 752, Mismatches: 100, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
161 28 0.04
162 44 0.06
163 1 0.00
164 235 0.31
165 274 0.36
166 69 0.09
167 31 0.04
168 43 0.06
169 27 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAGACCT
TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:1915432 original size:249 final size:248
Alignment explanation
Indices: 1914962--1916044 Score: 1270
Period size: 249 Copynumber: 4.4 Consensus size: 248
1914952 TGCAGCTTAG
* * ** *
1914962 CTCAAGGCCAGAAGGGCTATCTGCCCACC-AAGACCTTCGAGTTCGACTACACTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * * *
1915026 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCG
65 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCG
* * * * *
1915091 ACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAATCGAGAAGGGCTATCTG---
126 ACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCA
** * * *
1915152 -CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
191 ACCAAAGACCCTTGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAA
1915210 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * ** *
1915275 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGCGCTATCTGCTAAAGACCCTTAAGTTCGATTA
65 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTA
* * * ** * **
1915340 CACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TTACCA
130 CACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCA
* * * * *
1915404 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAG
195 AAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAA
* * * * * * *
1915458 CTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGG
*
1915520 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTA
65 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTA
** * * * *
1915585 CGTTCAGCTTCGAA-GGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACT
130 CACTCAGCTTC-AAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACC
* * * * *
1915649 AAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
194 AAAGACCCTTGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTACAGCATAA
* * *
1915705 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * *
1915770 ACATCATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGATTAC
66 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
* *
1915835 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACAAA
131 ACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAA
* * * *
1915900 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAG
196 AGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAA
* * * ** * *
1915953 CTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * * *
1916018 CATATCATTTGTAGCACAACTTAAGTC
65 CACATCATTTGCAGCATAGCTTAAGTC
1916045 AAGGGCTATT
Statistics
Matches: 710, Mismatches: 110, Indels: 29
0.84 0.13 0.03
Matches are distributed among these distances:
244 27 0.04
245 140 0.20
246 74 0.10
247 36 0.05
248 97 0.14
249 309 0.44
250 27 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (248 bp):
CTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
ACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAA
AGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAA
Found at i:1915762 original size:330 final size:330
Alignment explanation
Indices: 1914949--1916027 Score: 1528
Period size: 330 Copynumber: 3.3 Consensus size: 330
1914939 TTAACAAACT
* * * * * * *
1914949 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCCAC-CAAGA-CCTTCGAGTTCGACTAC
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACTAAAGACCCTT-AAGTTCGACTAC
* * * * * **
1915012 ACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
65 ACTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TTACCAAA
* *
1915077 GACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGTATAGCTTAAATCGAGA
129 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGA
*
1915141 AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGC
193 AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGC
* * *
1915206 ATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
258 ATAACTTAAGTCGAGAAGGGTTATC--TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
1915271 AAGGCACATC
321 AAGGCACATC
* * *
1915281 ATTTGCAGCATAGCTTAAGTCGAGAAGCGCTATCTG----CTAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACTAAAGACCCTTAAGTTCGACTACA
*
1915342 CTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAG
66 CTCAGCTCCAA-GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAG
1915407 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAG
130 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAG
* * ** * *
1915472 GGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGAAT
195 GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCAT
* * * * *
1915537 AGCTTAAGTCGAGAAGGGCTATCTG-CC-AAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAG
260 AACTTAAGTCGAGAAGGGTTATCTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAG
1915600 GCACATC
324 GCACATC
* * * *
1915607 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACTAAAGACCCTTAAGTTCGACTACA
* * *
1915672 CTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAG
66 CTCAGCTCCAA-GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAG
* *
1915737 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTGAGAAG
130 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAG
*
1915802 GGCTATCTGCCAAAAACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCAT
195 GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCAT
* * *
1915867 AACTTAAATCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
260 AACTTAAGTCGAGAAGGGTTATCTG--ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
1915932 GGCACATC
323 GGCACATC
* * * * *
1915940 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACTAAAGACCCTTAAGTTCGACTACA
1916005 CTCAGCTCCAAGGCATATCATTT
66 CTCAGCTCCAAGGCATATCATTT
1916028 GTAGCACAAC
Statistics
Matches: 668, Mismatches: 66, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
325 27 0.04
326 45 0.07
327 2 0.00
328 1 0.00
329 167 0.25
330 277 0.41
332 42 0.06
333 81 0.12
334 26 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (330 bp):
ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACTAAAGACCCTTAAGTTCGACTACA
CTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAGA
CCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGG
GCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATA
ACTTAAGTCGAGAAGGGTTATCTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATC
Found at i:1916645 original size:2 final size:2
Alignment explanation
Indices: 1916638--1916705 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
1916628 TTTATTTAGA
1916638 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
*
1916680 AT AT AT AT AT AT GT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1916706 ATTTTGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1916735 original size:38 final size:37
Alignment explanation
Indices: 1916693--1916971 Score: 323
Period size: 36 Copynumber: 7.4 Consensus size: 37
1916683 TATATATATG
* *
1916693 TATATATTATATAATTTTGAAAAACATTTTTGAAAACA
1 TATATATTATATAGTTTT-TAAAACATTTTTGAAAACA
1916731 TATATATTATATAGTTTTTAAAACA-TTTTGAAAACA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACA
*
1916767 TATATATTATATAGTTTTTAAAACA-TTTTGAAAAAA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACA
1916803 TATATATTATATAGTTTTTAAAACA-TTTTGAAAACA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACA
* * *
1916839 TATATATGTTATATAATTTTTAAAACGTTTTTGAAAATA
1 TATATA--TTATATAGTTTTTAAAACATTTTTGAAAACA
* * * *
1916878 TAAATATAATATATGGTTTTTAAAACAATTTTTTGAATATA
1 T--ATATATTATATAGTTTTTAAAAC-A-TTTTTGAAAACA
* * * **
1916919 TATATAATATATAGTTTTAAAAATTATTTTT-TTAACA
1 TATATATTATATAGTTTTTAAAA-CATTTTTGAAAACA
1916956 TATATATTATATAGTT
1 TATATATTATATAGTT
1916972 AAAAATTTTT
Statistics
Matches: 213, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
36 87 0.41
37 23 0.11
38 39 0.18
39 47 0.22
41 17 0.08
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATATTATATAGTTTTTAAAACATTTTTGAAAACA
Found at i:1916998 original size:3 final size:3
Alignment explanation
Indices: 1916990--1917051 Score: 56
Period size: 3 Copynumber: 19.7 Consensus size: 3
1916980 TTCATTGTAT
*
1916990 TTA TTA TTA TTA TTA TTA TTA TT- TCT- TTT TTA TATA TATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA T-TA -TTA TTA
1917037 CTTA TTA TTA TTA TT
1 -TTA TTA TTA TTA TT
1917052 TTTTTGTTCT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
2 2 0.04
3 39 0.74
4 11 0.21
5 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1917788 original size:10 final size:10
Alignment explanation
Indices: 1917773--1917797 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1917763 TTAGGTTTGC
1917773 TCGGCCACCG
1 TCGGCCACCG
1917783 TCGGCCACCG
1 TCGGCCACCG
1917793 TCGGC
1 TCGGC
1917798 GATAGCCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.48, G:0.32, T:0.12
Consensus pattern (10 bp):
TCGGCCACCG
Found at i:1923893 original size:12 final size:12
Alignment explanation
Indices: 1923876--1923900 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1923866 ATTTTTTGCG
1923876 AGGTTACTATTC
1 AGGTTACTATTC
1923888 AGGTTACTATTC
1 AGGTTACTATTC
1923900 A
1 A
1923901 TGTGAATAGT
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AGGTTACTATTC
Found at i:1928007 original size:22 final size:24
Alignment explanation
Indices: 1927982--1928026 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
1927972 GGCAACCAAC
1927982 TTTGGAAAATGTTT-TTT-CAAAG
1 TTTGGAAAATGTTTCTTTGCAAAG
*
1928004 TTTGGTAAATGTTTCTTTGCAAA
1 TTTGGAAAATGTTTCTTTGCAAA
1928027 ATGTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 3 0.15
24 4 0.20
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (24 bp):
TTTGGAAAATGTTTCTTTGCAAAG
Found at i:1948639 original size:18 final size:18
Alignment explanation
Indices: 1948578--1948647 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 18
1948568 ATTCTAAATG
*
1948578 TTTACAGTTATCAGATAA
1 TTTACAGTTATCAGATGA
** * *
1948596 TTTTTAGTGATCATATGA
1 TTTACAGTTATCAGATGA
*
1948614 TTTTCAGTTATCAGATGA
1 TTTACAGTTATCAGATGA
* *
1948632 TCTACAGTTATTAGAT
1 TTTACAGTTATCAGAT
1948648 AATTATAAGA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (18 bp):
TTTACAGTTATCAGATGA
Found at i:1948847 original size:41 final size:41
Alignment explanation
Indices: 1948777--1948858 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
1948767 AAGTGAGTGC
*
1948777 TTATCATTTCAACTTTAGTACATTCGTGTATCAATGTTCAG
1 TTATCAGTTCAACTTTAGTACATTCGTGTATCAATGTTCAG
* * * *
1948818 TTATCAGTTCAGCTTTGGTATATTTGTGTATCAATGTTCAG
1 TTATCAGTTCAACTTTAGTACATTCGTGTATCAATGTTCAG
1948859 CACTGTTGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (41 bp):
TTATCAGTTCAACTTTAGTACATTCGTGTATCAATGTTCAG
Found at i:1953248 original size:21 final size:20
Alignment explanation
Indices: 1953222--1953260 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1953212 ATATCTCTTA
1953222 ATTTTTTTTAATAATAAAAAT
1 ATTTTTTTTAATAA-AAAAAT
*
1953243 ATTTTTTTTATTAAAAAA
1 ATTTTTTTTAATAAAAAA
1953261 TCCCCTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTTTTTAATAAAAAAAT
Found at i:1961249 original size:18 final size:18
Alignment explanation
Indices: 1961226--1961269 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
1961216 CTAACAATTG
1961226 ACCATTTTCATTTTGACC
1 ACCATTTTCATTTTGACC
1961244 ACCATTTTCATTTTGACC
1 ACCATTTTCATTTTGACC
1961262 ACCATTTT
1 ACCATTTT
1961270 TGAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.45
Consensus pattern (18 bp):
ACCATTTTCATTTTGACC
Found at i:1961869 original size:29 final size:29
Alignment explanation
Indices: 1961788--1962129 Score: 228
Period size: 30 Copynumber: 11.6 Consensus size: 29
1961778 TTAATTTTAC
*
1961788 ATCTTAACATTAAAAATATATTTTATTTTT
1 ATCTTAAC-TTAAAAATATATTTTATTCTT
* * * *
1961818 ATTTTAGCTTATTAAATGTATTTTATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * *
1961848 GTCTTAACCTAAAAATATATTTTATTATT
1 ATCTTAACTTAAAAATATATTTTATTCTT
*
1961877 ATTTTAACTTAAAAATATATTTTAATAT-TT
1 ATCTTAACTTAAAAATATATTTT-AT-TCTT
1961907 ATCTTAACTTAAAAATATATATTTTATTCTT
1 ATCTTAACTT-AAAA-ATATATTTTATTCTT
* * * * *
1961938 ATCTTAACTTATTACATAAATTATATACTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * * * * *
1961968 ATCCTAACTTATTACATAAATTATATACTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * * *
1961998 AACTTAAATTATTAAATATATTATATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * * *
1962028 ACCTTAAATTATTAAATATCTTTTATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
*
1962058 ATCTTAAATTAAAAATATATATTTTATT-TT
1 ATCTTAACTT-AAAA-ATATATTTTATTCTT
* * *
1962088 A-ATT-AC-AAAAAATATATTATATT-TT
1 ATCTTAACTTAAAAATATATTTTATTCTT
* *
1962113 ATCTTAAATTTAAAATA
1 ATCTTAACTTAAAAATA
1962130 CTATCAGAAT
Statistics
Matches: 258, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
25 14 0.05
26 6 0.02
27 1 0.00
28 7 0.03
29 40 0.16
30 149 0.58
31 32 0.12
32 9 0.03
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.50
Consensus pattern (29 bp):
ATCTTAACTTAAAAATATATTTTATTCTT
Found at i:1961870 original size:59 final size:60
Alignment explanation
Indices: 1961788--1961978 Score: 201
Period size: 59 Copynumber: 3.2 Consensus size: 60
1961778 TTAATTTTAC
* * *
1961788 ATCTTAACATTAAAAATATATTTTATTTTTATTTTAGCTTATTAAATGTATTTT-AT-TCTT
1 ATCTTAAC-TTAAAAATATATTTTATTATTATTTTAACTTATTAAATATATTTTAATAT-TT
* * *
1961848 GTCTTAACCTAAAAATATATTTTATTATTATTTTAACTTA-AAAATATATTTTAATATTT
1 ATCTTAACTTAAAAATATATTTTATTATTATTTTAACTTATTAAATATATTTTAATATTT
* * * * * *
1961907 ATCTTAACTTAAAAATATATATTTTATTCTTATCTTAACTTATTACATAAATTAT-ATACTT
1 ATCTTAACTT-AAAA-ATATATTTTATTATTATTTTAACTTATTAAATATATTTTAATATTT
*
1961968 ATCCTAACTTA
1 ATCTTAACTTA
1961979 TTACATAAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
58 10 0.09
59 41 0.37
60 13 0.12
61 38 0.35
62 8 0.07
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (60 bp):
ATCTTAACTTAAAAATATATTTTATTATTATTTTAACTTATTAAATATATTTTAATATTT
Found at i:1962089 original size:25 final size:26
Alignment explanation
Indices: 1962051--1962113 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
1962041 AAATATCTTT
* *
1962051 TATTCTTATCTTAAATTA-AAAATATA
1 TATT-TTATTTTAAATTACAAAAAATA
1962077 TATTTTATTTT-AATTACAAAAAATA
1 TATTTTATTTTAAATTACAAAAAATA
*
1962102 TATTATATTTTA
1 TATTTTATTTTA
1962114 TCTTAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.16
25 23 0.72
26 4 0.12
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTTTATTTTAAATTACAAAAAATA
Found at i:1962190 original size:29 final size:28
Alignment explanation
Indices: 1962152--1962297 Score: 108
Period size: 29 Copynumber: 5.2 Consensus size: 28
1962142 AATATAAATA
**
1962152 TTTAAGTTAAGATAAGAATAAGTTATGTT
1 TTTAA-TTAAGATAAGAATAAAATATGTT
*
1962181 TTTAATTTAAGATAAGATTAAAATAT-TT
1 TTTAA-TTAAGATAAGAATAAAATATGTT
*
1962209 TTTGAATTAAAATAAGAATAAAATATG-T
1 TTT-AATTAAGATAAGAATAAAATATGTT
* *
1962237 TTTAAGGTTAAGA-ACAAAATAAAATA--TA
1 TTTAA--TTAAGATA-AGAATAAAATATGTT
* *
1962265 TTTAA-TAAGTTAAGATAAAAAATAT-TT
1 TTTAATTAAGATAAGA-ATAAAATATGTT
1962292 TTTAAT
1 TTTAAT
1962298 GTTAAGATGT
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
25 6 0.06
26 8 0.09
27 8 0.09
28 33 0.35
29 39 0.41
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (28 bp):
TTTAATTAAGATAAGAATAAAATATGTT
Found at i:1962282 original size:24 final size:25
Alignment explanation
Indices: 1962255--1962326 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
1962245 TAAGAACAAA
1962255 ATAAAATATATTTAATAA-GTTAAG
1 ATAAAATATATTTAATAATGTTAAG
* **
1962279 ATAAAAAATATTTTTTAATGTTAAG
1 ATAAAATATATTTAATAATGTTAAG
1962304 ATGTAAAAT-TAATTTAAT-ATGTT
1 A--TAAAATAT-ATTTAATAATGTT
1962327 GATTTAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 15 0.39
25 7 0.18
26 6 0.16
27 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (25 bp):
ATAAAATATATTTAATAATGTTAAG
Found at i:1962285 original size:25 final size:27
Alignment explanation
Indices: 1962257--1962326 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
1962247 AGAACAAAAT
1962257 AAAATATATTTAATAA-GTTAAGAT-A
1 AAAATATATTTAATAATGTTAAGATGA
** *
1962282 AAAA-ATATTTTTTAATGTTAAGATGT
1 AAAATATATTTAATAATGTTAAGATGA
1962308 AAAAT-TAATTTAAT-ATGTT
1 AAAATAT-ATTTAATAATGTT
1962327 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 9 0.25
25 12 0.33
26 10 0.28
27 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (27 bp):
AAAATATATTTAATAATGTTAAGATGA
Found at i:1963306 original size:23 final size:23
Alignment explanation
Indices: 1963258--1963307 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1963248 TTTACCCTTT
**
1963258 ATTTTGAATAATTTATCTTTAAA
1 ATTTTGAATAATTTATAATTAAA
*
1963281 ATTTT-AACTAATTTATAATTATA
1 ATTTTGAA-TAATTTATAATTAAA
1963304 ATTT
1 ATTT
1963308 GAACCTATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTGAATAATTTATAATTAAA
Found at i:1963360 original size:361 final size:361
Alignment explanation
Indices: 1962685--1963349 Score: 924
Period size: 361 Copynumber: 1.8 Consensus size: 361
1962675 ATTATGATCA
* * *
1962685 AATTGATAGAATATATAATTAACAATGACCAAATGTGTAATTATACAAAATATTTTAACCGCCAC
1 AATTGATAGAATATATAAGTAACAATCACCAAATGTGTAATTATACAAAATATTTTAACCACCAC
* * ** *
1962750 ATCAGCTTCTCCGTTATATATTAACAACAAATGCCTTAATTGAATGCATTTAAATAGTTGAGTGA
66 ATCAGCTTCTCCGTTAAATATTAACAACAAATGACTTAATTGAATAAATTTAAATAGTTAAGTGA
* * * * * * *
1962815 TCTGATGGATAAAATTTAAAAAATGATGGTCAAAATGAAAAGGGGCAATAGTTAGGTGGTCAGTG
131 CCTAATGGATAAAATTTAAAAAATGATGGTCAAAATGAAAAGAGGCAACAGTTAAGTGATCAGTA
* *
1962880 GTATAGTTTGCCCTTTATTTTAAATAATTTATCCTTAAATTGTTAACTAATTTATAATTTTACAT
196 GTATAGTTTACCCTTTATTTTAAATAATTTATCCTTAAATTGTTAACTAATTTATAATTATACAT
* * ** * * *
1962945 TGAGCACTTTAGAATTCTAGTTTTTTATATATTAAATTAATAGTGTTCATCGTTAGTGGTGTCCT
261 TGAACACTATAGAATTCTAAATTTTTATAAACTAAATTAATAATGTTCATCGTTAGTGGTGTCCT
1963010 TTATTTTAATTTATTAAAATTAGGACCAAATTGATT
326 TTATTTTAATTTATTAAAATTAGGACCAAATTGATT
* *
1963046 AATTGATAGAATATATGAGTAACAATCACCAAATGTGTAATTATACAAAATGTTTTCAA-CACCA
1 AATTGATAGAATATATAAGTAACAATCACCAAATGTGTAATTATACAAAATATTTT-AACCACCA
* ** *
1963110 CATCAGCTTCTCTGTTAAATATTAACGTCAAATGATTTAATTGAATAAATTTAAATAGTTAAGTG
65 CATCAGCTTCTCCGTTAAATATTAACAACAAATGACTTAATTGAATAAATTTAAATAGTTAAGTG
* * * * *
1963175 ACCTAATTGATAGAATTTCAAAAATGATTGTCAAAATGAAAAGAGGCAACAGTTAAGTGATCAAT
130 ACCTAATGGATAAAATTTAAAAAATGATGGTCAAAATGAAAAGAGGCAACAGTTAAGTGATC-AG
* *
1963240 TAGTATAGTTTACCCTTTATTTTGAATAATTTATCTTTAAAATT-TTAACTAATTTATAATTATA
194 TAGTATAGTTTACCCTTTATTTTAAATAATTTATCCTT-AAATTGTTAACTAATTTATAATTATA
*
1963304 -ATTTGAAC-CTATAGAATTTTAAATTTTTATAAACTAAATTAATAAT
258 CA-TTGAACACTATAGAATTCTAAATTTTTATAAACTAAATTAATAAT
1963350 TCTTATCGTT
Statistics
Matches: 262, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
361 196 0.75
362 61 0.23
363 5 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (361 bp):
AATTGATAGAATATATAAGTAACAATCACCAAATGTGTAATTATACAAAATATTTTAACCACCAC
ATCAGCTTCTCCGTTAAATATTAACAACAAATGACTTAATTGAATAAATTTAAATAGTTAAGTGA
CCTAATGGATAAAATTTAAAAAATGATGGTCAAAATGAAAAGAGGCAACAGTTAAGTGATCAGTA
GTATAGTTTACCCTTTATTTTAAATAATTTATCCTTAAATTGTTAACTAATTTATAATTATACAT
TGAACACTATAGAATTCTAAATTTTTATAAACTAAATTAATAATGTTCATCGTTAGTGGTGTCCT
TTATTTTAATTTATTAAAATTAGGACCAAATTGATT
Found at i:1963751 original size:27 final size:27
Alignment explanation
Indices: 1963721--1963778 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
1963711 ATTCAAATAC
* *
1963721 GATGTTGGATTGTCATAAACACTCATT
1 GATGTTAGATTCTCATAAACACTCATT
*
1963748 GATGTTAGATTCTCATAAATACTCATT
1 GATGTTAGATTCTCATAAACACTCATT
1963775 GATG
1 GATG
1963779 CAATTGAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
GATGTTAGATTCTCATAAACACTCATT
Found at i:1964324 original size:16 final size:16
Alignment explanation
Indices: 1964300--1964334 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1964290 GACAATTAAA
* *
1964300 TTTATTTTAATTTATT
1 TTTAATTTAATATATT
1964316 TTTAATTTAATATATT
1 TTTAATTTAATATATT
1964332 TTT
1 TTT
1964335 CTCACCAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTAATTTAATATATT
Found at i:1966871 original size:3 final size:3
Alignment explanation
Indices: 1966827--1966894 Score: 50
Period size: 3 Copynumber: 21.3 Consensus size: 3
1966817 AATAGTAAAA
*
1966827 AAT AA- AAT AAT -AT ATAT ATAT ATAT ATAT AAT ATAG AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT A-AT A-AT A-AT AAT A-AT AAT AAT AAT
*
1966872 AAT AAT AAT AAGC AAT AAT AAT A
1 AAT AAT AAT AA-T AAT AAT AAT A
1966895 GTATGTTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 4 0.07
3 33 0.59
4 19 0.34
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1966876 original size:19 final size:19
Alignment explanation
Indices: 1966827--1966894 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 19
1966817 AATAGTAAAA
*
1966827 AATAA-AATAATATA-TAT
1 AATAATAATAATATAGAAT
1966844 ATATATATATATAATATAGAAT
1 A-ATA-ATA-ATAATATAGAAT
1966866 AATAATAATAATAATAAGCAAT
1 AATAATAATAAT-AT-AG-AAT
1966888 AATAATA
1 AATAATA
1966895 GTATGTTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
17 1 0.02
18 3 0.07
19 6 0.14
20 6 0.14
21 13 0.31
22 13 0.31
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (19 bp):
AATAATAATAATATAGAAT
Found at i:1973199 original size:2 final size:2
Alignment explanation
Indices: 1973192--1973234 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
1973182 AACTTTAAAT
* * *
1973192 AC AC AC AC AC AC AA AC AC AT AG AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1973234 A
1 A
1973235 TATATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.42, G:0.02, T:0.02
Consensus pattern (2 bp):
AC
Found at i:1973828 original size:19 final size:19
Alignment explanation
Indices: 1973804--1973840 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1973794 TTCTTAGAGA
*
1973804 TCATCGGTTTAAACACCAG
1 TCATCGGTTCAAACACCAG
1973823 TCATCGGTTCAAACACCA
1 TCATCGGTTCAAACACCA
1973841 ATGATCTTAA
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:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (19 bp):
TCATCGGTTCAAACACCAG
Found at i:1974369 original size:19 final size:19
Alignment explanation
Indices: 1974331--1974369 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1974321 ATCAACAAAA
*
1974331 TCGCAACGCGAACTCTAAT
1 TCGCAACGCGAACTCCAAT
1974350 TCGCAACGC-AATCTCCAAT
1 TCGCAACGCGAA-CTCCAAT
1974369 T
1 T
1974370 TCTCAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (19 bp):
TCGCAACGCGAACTCCAAT
Found at i:1974424 original size:21 final size:21
Alignment explanation
Indices: 1974395--1974485 Score: 164
Period size: 21 Copynumber: 4.3 Consensus size: 21
1974385 CAAAATCGCA
1974395 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
1974416 TTACGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
1974437 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
1974458 TTGCGATAGCACTGTTCACCA
1 TTGCGATAGCACTGTTCACCG
1974479 TTGCGAT
1 TTGCGAT
1974486 CGCAACGTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 67 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:1974918 original size:21 final size:21
Alignment explanation
Indices: 1974894--1974964 Score: 133
Period size: 21 Copynumber: 3.4 Consensus size: 21
1974884 TATCGCAAAT
1974894 TCGCAACGGTGAACAGTGCTA
1 TCGCAACGGTGAACAGTGCTA
*
1974915 TCGCAACGGTGAACATTGCTA
1 TCGCAACGGTGAACAGTGCTA
1974936 TCGCAACGGTGAACAGTGCTA
1 TCGCAACGGTGAACAGTGCTA
1974957 TCGCAACG
1 TCGCAACG
1974965 TTGCAAAACG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (21 bp):
TCGCAACGGTGAACAGTGCTA
Found at i:1981359 original size:6 final size:6
Alignment explanation
Indices: 1981350--1981374 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1981340 GGAATGATAA
1981350 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
1981375 AAACCCGTTT
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:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:1981476 original size:12 final size:13
Alignment explanation
Indices: 1981431--1981475 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
1981421 CGCCCCGATT
1981431 ACCCGATTACCCG
1 ACCCGATTACCCG
*
1981444 GCCCGATTACCCG
1 ACCCGATTACCCG
*
1981457 ACCCGA-TACCCA
1 ACCCGATTACCCG
1981469 ACCCGAT
1 ACCCGAT
1981476 AAATATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.24, C:0.47, G:0.16, T:0.13
Consensus pattern (13 bp):
ACCCGATTACCCG
Found at i:1981620 original size:12 final size:12
Alignment explanation
Indices: 1981603--1981657 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
1981593 TTAAATATTT
* *
1981603 ATACCCGGCCCG
1 ATACCCGACCCA
*
1981615 ATACCC-AGCCCG
1 ATACCCGA-CCCA
1981627 ATACCCGACCCA
1 ATACCCGACCCA
1981639 ATACCCGACCCA
1 ATACCCGACCCA
1981651 ATACCCG
1 ATACCCG
1981658 TTTAAATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
12 38 0.97
13 1 0.03
ACGTcount: A:0.27, C:0.49, G:0.15, T:0.09
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:1985297 original size:28 final size:29
Alignment explanation
Indices: 1985234--1985295 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
1985224 ATGAAATTAT
1985234 TAAAATTTCAAAAAAACACCTTAAATTCCA
1 TAAAATTTC-AAAAAACACCTTAAATTCCA
*
1985264 TAAAATTTCAAAAAACTCC-TAAATTCC-
1 TAAAATTTCAAAAAACACCTTAAATTCCA
1985291 TAAAA
1 TAAAA
1985296 ATCCCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 5 0.16
28 8 0.26
29 9 0.29
30 9 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.27
Consensus pattern (29 bp):
TAAAATTTCAAAAAACACCTTAAATTCCA
Found at i:1985303 original size:28 final size:29
Alignment explanation
Indices: 1985244--1985306 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
1985234 TAAAATTTCA
**
1985244 AAAAAACACCTTAAATTCCATAAAATTTC
1 AAAAAACACCTTAAATTCCATAAAATCCC
*
1985273 AAAAAACTCC-TAAATTCC-TAAAAATCCC
1 AAAAAACACCTTAAATTCCAT-AAAATCCC
1985301 AAAAAA
1 AAAAAA
1985307 ATTTAGGGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 20 0.67
29 9 0.30
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (29 bp):
AAAAAACACCTTAAATTCCATAAAATCCC
Found at i:1985819 original size:28 final size:30
Alignment explanation
Indices: 1985788--1985858 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 30
1985778 AATTTTATGA
*
1985788 TTTTTTGGGATTTTTA-GGAATTT-AGGAG
1 TTTTTTGGAATTTTTATGGAATTTAAGGAG
* *
1985816 TTTTTT-GAAATTTTATGGAATTTAAGGTG
1 TTTTTTGGAATTTTTATGGAATTTAAGGAG
1985845 TTTTTTGGAATTTT
1 TTTTTTGGAATTTT
1985859 AATAATTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.19
28 13 0.36
29 10 0.28
30 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (30 bp):
TTTTTTGGAATTTTTATGGAATTTAAGGAG
Found at i:1985847 original size:29 final size:27
Alignment explanation
Indices: 1985799--1985859 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 27
1985789 TTTTTGGGAT
1985799 TTTTAGGAATTTAGGAGTTTTTTGAAA
1 TTTTAGGAATTTAGGAGTTTTTTGAAA
* *
1985826 TTTTATGGAATTTAAGGTGTTTTTTGGAA
1 TTTTA-GGAATTT-AGGAGTTTTTTGAAA
1985855 TTTTA
1 TTTTA
1985860 ATAATTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTTAGGAATTTAGGAGTTTTTTGAAA
Found at i:1985865 original size:28 final size:27
Alignment explanation
Indices: 1985788--1985866 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 27
1985778 AATTTTATGA
* **
1985788 TTTTTTGGGATTTTTAGGAATTTAGGAG
1 TTTTTT-GGAATTTTAATAATTTAGGAG
* *
1985816 TTTTTTGAAATTTT-ATGGAATTTAAGGTG
1 TTTTTTGGAATTTTAAT--AATTT-AGGAG
1985845 TTTTTTGGAATTTTAATAATTT
1 TTTTTTGGAATTTTAATAATTT
1985867 CATGGTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
27 6 0.15
28 16 0.39
29 17 0.41
30 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.54
Consensus pattern (27 bp):
TTTTTTGGAATTTTAATAATTTAGGAG
Found at i:1986934 original size:17 final size:19
Alignment explanation
Indices: 1986897--1986934 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1986887 TATATAAAAC
*
1986897 ATTTTAAAATTTAAAGATT
1 ATTTTAAAATTAAAAGATT
1986916 ATTTTAAAA-TAAAAG-TT
1 ATTTTAAAATTAAAAGATT
1986933 AT
1 AT
1986935 AATTTGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTTTAAAATTAAAAGATT
Found at i:2002490 original size:25 final size:23
Alignment explanation
Indices: 2002442--2002508 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 23
2002432 ATCTCAATTT
*
2002442 AATTATATTTTTAATAAATTAAAATA
1 AATTATATTTTT--TAAATGAAAA-A
2002468 AATTATATGTTTTTAAATGAAAAA
1 AATTATAT-TTTTTAAATGAAAAA
*
2002492 AA-AATATATTTTTAAAT
1 AATTATAT-TTTTTAAAT
2002509 TAAGTTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.35
24 3 0.08
25 9 0.24
26 8 0.22
27 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (23 bp):
AATTATATTTTTTAAATGAAAAA
Found at i:2002533 original size:22 final size:24
Alignment explanation
Indices: 2002508--2002565 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
2002498 TATTTTTAAA
2002508 TTAAGTTAATAAT-AAAATATATT
1 TTAAGTTAATAATAAAAATATATT
2002531 TAATAAGTTAAT-ATAAAAATAT-TT
1 T--TAAGTTAATAATAAAAATATATT
2002555 TTAAGTTAATA
1 TTAAGTTAATA
2002566 TTATATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 9 0.29
23 1 0.03
24 5 0.16
25 16 0.52
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (24 bp):
TTAAGTTAATAATAAAAATATATT
Found at i:2002566 original size:22 final size:24
Alignment explanation
Indices: 2002507--2002566 Score: 88
Period size: 22 Copynumber: 2.5 Consensus size: 24
2002497 ATATTTTTAA
2002507 ATTAAGTTAATAATAAAATATATTT
1 ATTAAGTTAAT-ATAAAATATATTT
*
2002532 AATAAGTTAATATAAAA-ATATTT
1 ATTAAGTTAATATAAAATATATTT
2002555 -TTAAGTTAATAT
1 ATTAAGTTAATAT
2002567 TATATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 11 0.33
23 6 0.18
24 6 0.18
25 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (24 bp):
ATTAAGTTAATATAAAATATATTT
Found at i:2002570 original size:25 final size:25
Alignment explanation
Indices: 2002507--2002575 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
2002497 ATATTTTTAA
2002507 ATTAAGTTAATA-ATAAAATATATTT
1 ATTAAGTTAATATATAAAA-ATATTT
*
2002532 AATAAGTT-A-ATATAAAAATATTT
1 ATTAAGTTAATATATAAAAATATTT
*
2002555 -TTAAGTTAATATTATATAAAT
1 ATTAAGTTAATA-TATAAAAAT
2002576 TTATATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 6 0.16
23 8 0.22
24 8 0.22
25 15 0.41
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
ATTAAGTTAATATATAAAAATATTT
Found at i:2002862 original size:22 final size:22
Alignment explanation
Indices: 2002823--2002864 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2002813 ATACTTTAAA
*
2002823 AAATAATTTGGAACATTAATGG
1 AAATAATTTAGAACATTAATGG
2002845 AAATAATTTAAGAA-ATTAAT
1 AAATAATTT-AGAACATTAAT
2002865 AATTTAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (22 bp):
AAATAATTTAGAACATTAATGG
Found at i:2004443 original size:21 final size:21
Alignment explanation
Indices: 2004419--2004571 Score: 202
Period size: 21 Copynumber: 7.4 Consensus size: 21
2004409 GCGTTGCATT
2004419 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
2004440 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
2004460 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2004481 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
2004502 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
2004522 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2004543 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2004564 TCGCGTTG
1 TCGCGTTG
2004572 TGATTTTCCA
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
20 30 0.27
21 80 0.73
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:2004462 original size:41 final size:42
Alignment explanation
Indices: 2004415--2004595 Score: 197
Period size: 41 Copynumber: 4.4 Consensus size: 42
2004405 ATTCGCGTTG
*
2004415 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTC
*
2004456 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTC
* ** * ** ** *
2004498 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTC
* ** * *
2004539 AAAATCGCGTTGCGATAGTTGAAAATCGCGTTGTGAT-TTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTC
2004580 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
2004596 TTTTCATTTC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 88 0.75
42 29 0.25
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (42 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTC
Found at i:2004643 original size:62 final size:62
Alignment explanation
Indices: 2004419--2004595 Score: 345
Period size: 62 Copynumber: 2.9 Consensus size: 62
2004409 GCGTTGCATT
2004419 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
2004481 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
2004543 TCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCATTTCGCGTTGCGAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
2004596 TTTTCATTTC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 114 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (62 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:2005275 original size:6 final size:6
Alignment explanation
Indices: 2005254--2005290 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2005244 TTTCGTCTCG
2005254 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2005291 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:2005408 original size:22 final size:21
Alignment explanation
Indices: 2005381--2005497 Score: 105
Period size: 21 Copynumber: 5.6 Consensus size: 21
2005371 AATTTGGAAA
2005381 ATCGCAACGAC-AACTGCAGACT
1 ATCGCAACG-CGAACTGCA-ACT
* *
2005403 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAACTGCAACT
* * *
2005424 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAACTGCAACT
* *
2005444 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAACTGCAACT
* * *
2005465 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAACTGCAACT
2005485 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2005498 ATGGAAAATC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 29 0.37
21 36 0.46
22 14 0.18
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.15
Consensus pattern (21 bp):
ATCGCAACGCGAACTGCAACT
Found at i:2005426 original size:21 final size:21
Alignment explanation
Indices: 2005400--2005477 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
2005390 ACAACTGCAG
2005400 ACTATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAATTTCA
* **
2005421 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
*
2005442 A-AATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAATTTCA
2005462 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
2005478 ATGGAAAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.33
21 32 0.67
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTTCA
Found at i:2005448 original size:41 final size:41
Alignment explanation
Indices: 2005403--2005561 Score: 230
Period size: 41 Copynumber: 3.9 Consensus size: 41
2005393 ACTGCAGACT
2005403 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
2005444 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
* ** * *
2005485 ATCGCAACGCGAAATGGAA-AATCGTAACGCGAAATGGAAA
1 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
* * * *
2005525 AACGCAACGCGATTTTCAACTATCGCAATGCAAAATG
1 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATG
2005562 CAACGTGAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
40 33 0.32
41 70 0.68
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
Found at i:2005449 original size:20 final size:20
Alignment explanation
Indices: 2005424--2005536 Score: 163
Period size: 20 Copynumber: 5.6 Consensus size: 20
2005414 AATTTCAACT
2005424 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** *
2005444 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAA-A
2005465 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
2005485 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
2005505 ATCGTAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
2005525 AACGCAACGCGA
1 ATCGCAACGCGA
2005537 TTTTCAACTA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 65 0.80
21 16 0.20
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:2005500 original size:61 final size:63
Alignment explanation
Indices: 2005375--2005517 Score: 193
Period size: 61 Copynumber: 2.3 Consensus size: 63
2005365 TCAACGAATT
* * *
2005375 TGGAAAATCGCAACGAC-AACTGCAGACTATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGAACTGCAGACTATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
* * *
2005438 TGGAAAATCGCAACGCGAATTTCA-ACTATCGCAACGCGAAATGGAA-AATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAACTGCAGACTATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
*
2005499 TGGAAAATCGTAACGCGAA
1 TGGAAAATCGCAACGCGAA
2005518 ATGGAAAAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
61 32 0.44
62 20 0.28
63 20 0.28
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (63 bp):
TGGAAAATCGCAACGCGAACTGCAGACTATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
Found at i:2019266 original size:44 final size:44
Alignment explanation
Indices: 2019183--2019267 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
2019173 TACGACAATT
* * * *
2019183 ATGGTCTCGAACATGAGCCTTTGGAGAGTTCCGGATGGGAGCTA
1 ATGGTCCCGAACATGAGCCTTTGAAGAGCTCAGGATGGGAGCTA
*
2019227 ATGGTCCCGAACATGAGCCTTTGAAGAGCTCAGGGTGGGAG
1 ATGGTCCCGAACATGAGCCTTTGAAGAGCTCAGGATGGGAG
2019268 TTGTCCGGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (44 bp):
ATGGTCCCGAACATGAGCCTTTGAAGAGCTCAGGATGGGAGCTA
Found at i:2019435 original size:4 final size:4
Alignment explanation
Indices: 2019436--2019656 Score: 352
Period size: 4 Copynumber: 55.2 Consensus size: 4
2019426 TGCATGCATG
* *
2019436 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
2019484 CATA CATA CATG CATA CATA TATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
2019532 CATA CATG CATA CATG CATA CATA CATA CATA CATA CATG CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2019580 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
2019628 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
2019657 GAGACAGTGG
Statistics
Matches: 201, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 201 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:2026192 original size:17 final size:17
Alignment explanation
Indices: 2026170--2026204 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2026160 TTAAAACTAT
*
2026170 TATATTATCTTATTAAA
1 TATATTATATTATTAAA
*
2026187 TATATTTTATTATTAAA
1 TATATTATATTATTAAA
2026204 T
1 T
2026205 TAGTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTATATTATTAAA
Found at i:2026233 original size:20 final size:21
Alignment explanation
Indices: 2026208--2026261 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
2026198 ATTAAATTAG
*
2026208 TTTAAAATATTTTAT-TTTTA
1 TTTAAAATATTTTATATTGTA
*
2026228 TTTAAAA-A-TATATATTGTA
1 TTTAAAATATTTTATATTGTA
2026247 TGTTAAAATATTTTA
1 T-TTAAAATATTTTA
2026262 AAATTTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 13 0.48
21 1 0.04
22 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAAAATATTTTATATTGTA
Found at i:2026319 original size:27 final size:27
Alignment explanation
Indices: 2026288--2026348 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
2026278 AATTTAAAGT
*
2026288 AATAATATAATATATTTAGTAAA-TTAA
1 AATAATAT-ATATATTTAGAAAATTTAA
* * *
2026315 GATAAAATATATATTTTGAAAATTTAA
1 AATAATATATATATTTAGAAAATTTAA
2026342 AATAATA
1 AATAATA
2026349 ATAAATACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
AATAATATATATATTTAGAAAATTTAA
Found at i:2026432 original size:27 final size:28
Alignment explanation
Indices: 2026388--2026452 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
2026378 AATAAAATAT
2026388 ATATATTTAAATTAAAATAAAAAATAAA
1 ATATATTTAAATTAAAATAAAAAATAAA
* * *
2026416 ATATTTTTAAATT-AAATTAATAATAAA
1 ATATATTTAAATTAAAATAAAAAATAAA
2026443 ATATATTTAA
1 ATATATTTAA
2026453 TAATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATATTTAAATTAAAATAAAAAATAAA
Found at i:2026457 original size:24 final size:28
Alignment explanation
Indices: 2026388--2026474 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 28
2026378 AATAAAATAT
* * *
2026388 ATATATTTAAATTAAAATAAAAAATAAA
1 ATATATTTAAATTAAATTTAATAATAAA
*
2026416 ATATTTTTAAATTAAA-TTAATAATAAA
1 ATATATTTAAATTAAATTTAATAATAAA
2026443 ATATATTT-AA-T-AATTTAAT-ATAAA
1 ATATATTTAAATTAAATTTAATAATAAA
*
2026467 ACATATTT
1 ATATATTT
2026475 TTTTATATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 14 0.26
25 6 0.11
26 2 0.04
27 16 0.30
28 15 0.28
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATATTTAAATTAAATTTAATAATAAA
Found at i:2026465 original size:27 final size:26
Alignment explanation
Indices: 2026410--2026510 Score: 77
Period size: 26 Copynumber: 3.9 Consensus size: 26
2026400 TAAAATAAAA
*
2026410 AATAAAATATTTTTA-AATTAAATTAAT
1 AATAAAATATTTTTATAATTTAA-T-AT
*
2026437 AATAAAATATATTTAATAATTTAATAT
1 AATAAAATAT-TTTTATAATTTAATAT
* *
2026464 AA-AACATATTTTTTTATATTTAATAT
1 AATAAAATATTTTTATA-ATTTAATAT
*
2026490 -AT--AATTTTTTTATGAATTTAA
1 AATAAAATATTTTTAT-AATTTAA
2026511 ATTAAGTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
24 14 0.23
25 7 0.11
26 15 0.25
27 14 0.23
28 5 0.08
29 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
AATAAAATATTTTTATAATTTAATAT
Found at i:2029708 original size:39 final size:39
Alignment explanation
Indices: 2029654--2029759 Score: 160
Period size: 39 Copynumber: 2.7 Consensus size: 39
2029644 TACGTCACGG
* *
2029654 AATCCATTCAGTTAGATGTAACAATTCAAATTAGGTTAC
1 AATCCATTCGGTTAGATGTAACAATTCAAATTAGGTCAC
*
2029693 AATCCATTTGGTTAGATGTAACAATTCAAATTAGGTCAC
1 AATCCATTCGGTTAGATGTAACAATTCAAATTAGGTCAC
* *
2029732 ATTCCATTCGGTTAGATGT-ACAAATCAA
1 AATCCATTCGGTTAGATGTAACAATTCAA
2029760 TGGGCTGTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 8 0.13
39 53 0.87
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (39 bp):
AATCCATTCGGTTAGATGTAACAATTCAAATTAGGTCAC
Found at i:2030225 original size:61 final size:61
Alignment explanation
Indices: 2030130--2030287 Score: 168
Period size: 61 Copynumber: 2.6 Consensus size: 61
2030120 TCTTTCATCC
* * *
2030130 AAAGTTT-AGGATCAATTTAGAA--AAATG-GTCATAGTTTGA-AGATTAAATTATAATGTTTA
1 AAAGTTTAAGGATCAATTTA-AAGTAAA-GAGTCATAGTTTGAGA-ATGAAATTAAAATATTTA
* * *
2030189 AAAGTTTAAGGAAT-AATTTAGAGTGAAGAGTCATAGTTTGGGAATGAAATTAAAATATTTA
1 AAAGTTTAAGG-ATCAATTTAAAGTAAAGAGTCATAGTTTGAGAATGAAATTAAAATATTTA
*
2030250 AAAGTTTAAGGATCAATTTAAAGTAAAGA-TAATAGTTT
1 AAAGTTTAAGGATCAATTTAAAGTAAAGAGTCATAGTTT
2030288 AGGGACATGG
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
59 8 0.10
60 20 0.24
61 54 0.65
62 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (61 bp):
AAAGTTTAAGGATCAATTTAAAGTAAAGAGTCATAGTTTGAGAATGAAATTAAAATATTTA
Found at i:2034933 original size:3 final size:3
Alignment explanation
Indices: 2034925--2034949 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2034915 TTTAAATTTT
2034925 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2034950 CTATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2035341 original size:18 final size:20
Alignment explanation
Indices: 2035318--2035354 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
2035308 ACGAAGAGCT
2035318 ATTTTAAT-CT-CCAAAAAC
1 ATTTTAATACTCCCAAAAAC
2035336 ATTTTAATACTCCCAAAAA
1 ATTTTAATACTCCCAAAAA
2035355 TTTATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTTAATACTCCCAAAAAC
Found at i:2038985 original size:11 final size:12
Alignment explanation
Indices: 2038947--2038987 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
2038937 ACATCAATTT
2038947 AGTTAGGTGAAG
1 AGTTAGGTGAAG
*
2038959 AATTAGGTGAAG
1 AGTTAGGTGAAG
2038971 AGTTAGGTG-AG
1 AGTTAGGTGAAG
2038982 AGTTAG
1 AGTTAG
2038988 ATATTTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.34, C:0.00, G:0.39, T:0.27
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:2043699 original size:12 final size:12
Alignment explanation
Indices: 2043682--2043725 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
2043672 ACATCAATTT
2043682 AGTTAGGTGAAG
1 AGTTAGGTGAAG
*
2043694 AGTTAGATGAAG
1 AGTTAGGTGAAG
*
2043706 AATTAGGTGAAG
1 AGTTAGGTGAAG
2043718 AGTTAGGT
1 AGTTAGGT
2043726 ATTTGTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:2046242 original size:286 final size:287
Alignment explanation
Indices: 2045730--2046303 Score: 1132
Period size: 286 Copynumber: 2.0 Consensus size: 287
2045720 CCTGCACCCC
2045730 CGCACCCCCAACCCACATAATTCGTAACCCCACAACGAGACTTTTTATGATCCATACATAACAAA
1 CGCACCCCCAACCCACATAATTCGTAACCCCACAACGAGACTTTTTATGATCCATACATAACAAA
2045795 TCTCCACCTTGGCAAATATCCTGCCCCTTGGAAACTTCAATGTGGGTTGGGTTACCTTGCTTCTT
66 TCTCCACCTTGGCAAATATCCTGCCCCTTGGAAACTTCAATGTGGGTTGGGTTACCTTGCTTCTT
2045860 TAACAACTCGAAACATTCAATAAGTCCAAGCAATGCTTAAACTTGTCTGTCGTAACTGGCTTGGT
131 TAACAACTCGAAACATTCAATAAGTCCAAGCAATGCTTAAACTTGTCTGTCGTAACTGGCTTGGT
2045925 GAACATATCAGCGGCATTCTCATCAGTATGTACCTTCTGAAAC-AAACCTCTCCAGATGCAACCA
196 GAACATATCAGCGGCATTCTCATCAGTATGTACCTTCTGAAACAAAACCTCTCCAGATGCAACCA
2045989 ACTCTCTGATCTTGTGGAACCTTACAT
261 ACTCTCTGATCTTGTGGAACCTTACAT
2046016 CGCACCCCCAACCCACATAATTCGTAACCCCACAACGAGACTTTTTATGATCCATACATAACAAA
1 CGCACCCCCAACCCACATAATTCGTAACCCCACAACGAGACTTTTTATGATCCATACATAACAAA
*
2046081 TCTCCACCTTGGCGAATATCCTGCCCCTTGGAAACTTCAATGTGGGTTGGGTTACCTTGCTTCTT
66 TCTCCACCTTGGCAAATATCCTGCCCCTTGGAAACTTCAATGTGGGTTGGGTTACCTTGCTTCTT
2046146 TAACAACTCGAAACATTCAATAAGTCCAAGCAATGCTTAAACTTGTCTGTCGTAACTGGCTTGGT
131 TAACAACTCGAAACATTCAATAAGTCCAAGCAATGCTTAAACTTGTCTGTCGTAACTGGCTTGGT
2046211 GAACATATCAGCGGCATTCTCATCAGTATGTACCTTCTGAAACAAAACCTCTCCAGATGCAACCA
196 GAACATATCAGCGGCATTCTCATCAGTATGTACCTTCTGAAACAAAACCTCTCCAGATGCAACCA
2046276 ACTCTCTGATCTTGTGGAACCTTACAT
261 ACTCTCTGATCTTGTGGAACCTTACAT
2046303 C
1 C
2046304 AATATGTTTA
Statistics
Matches: 286, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
286 237 0.83
287 49 0.17
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (287 bp):
CGCACCCCCAACCCACATAATTCGTAACCCCACAACGAGACTTTTTATGATCCATACATAACAAA
TCTCCACCTTGGCAAATATCCTGCCCCTTGGAAACTTCAATGTGGGTTGGGTTACCTTGCTTCTT
TAACAACTCGAAACATTCAATAAGTCCAAGCAATGCTTAAACTTGTCTGTCGTAACTGGCTTGGT
GAACATATCAGCGGCATTCTCATCAGTATGTACCTTCTGAAACAAAACCTCTCCAGATGCAACCA
ACTCTCTGATCTTGTGGAACCTTACAT
Found at i:2056333 original size:17 final size:17
Alignment explanation
Indices: 2056311--2056394 Score: 143
Period size: 17 Copynumber: 5.0 Consensus size: 17
2056301 GGGGACTTGC
2056311 ACCGTTGATCATCAGGG
1 ACCGTTGATCATCAGGG
2056328 ACCGTTGATCATCA-GG
1 ACCGTTGATCATCAGGG
* *
2056344 ACCGTTGATCATCCGAG
1 ACCGTTGATCATCAGGG
2056361 ACCGTTGATCATCAGGG
1 ACCGTTGATCATCAGGG
2056378 ACCGTTGATCATCAGGG
1 ACCGTTGATCATCAGGG
2056395 GTTTATGTGG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
16 15 0.24
17 47 0.76
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (17 bp):
ACCGTTGATCATCAGGG
Found at i:2056353 original size:33 final size:34
Alignment explanation
Indices: 2056311--2056394 Score: 143
Period size: 33 Copynumber: 2.5 Consensus size: 34
2056301 GGGGACTTGC
2056311 ACCGTTGATCATCAGGGACCGTTGATCATCA-GG
1 ACCGTTGATCATCAGGGACCGTTGATCATCAGGG
* *
2056344 ACCGTTGATCATCCGAGACCGTTGATCATCAGGG
1 ACCGTTGATCATCAGGGACCGTTGATCATCAGGG
2056378 ACCGTTGATCATCAGGG
1 ACCGTTGATCATCAGGG
2056395 GTTTATGTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 29 0.63
34 17 0.37
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (34 bp):
ACCGTTGATCATCAGGGACCGTTGATCATCAGGG
Found at i:2057355 original size:2 final size:2
Alignment explanation
Indices: 2057344--2057548 Score: 211
Period size: 2 Copynumber: 106.5 Consensus size: 2
2057334 TTGAAACAAT
2057344 TA TA -A 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
2057385 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
* * * * *
2057427 TA TA TA TA TA TA TA TA TG TA CA T- TA TA CT- TA TG CA TA CA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
2057467 TA TA -A GTA TA TA CT- TA TA T- TA TA TA TA -A GA -A 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
*
2057506 -A TA TA T- TA GTA TA TA TA TA TA T- TA GTA TA TA TA -A TA TA AA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
2057546 TA T
1 TA T
2057549 TTTGGGTAAT
Statistics
Matches: 174, Mismatches: 11, Indels: 36
0.79 0.05 0.16
Matches are distributed among these distances:
1 13 0.07
2 154 0.89
3 7 0.04
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2057503 original size:19 final size:19
Alignment explanation
Indices: 2057481--2057527 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2057471 AGTATATACT
2057481 TATATTATATATAAGAATA
1 TATATTATATATAAGAATA
* * *
2057500 TATATAATATATTAGTATA
1 TATATTATATATAAGAATA
2057519 TATA-TATAT
1 TATATTATAT
2057528 TAGTATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
TATATTATATATAAGAATA
Found at i:2062778 original size:21 final size:21
Alignment explanation
Indices: 2062754--2062859 Score: 140
Period size: 21 Copynumber: 5.0 Consensus size: 21
2062744 GAGAAGACTG
*
2062754 TTCATAAAGACATGAAGGCCA
1 TTCATAAAGACATGAAGACCA
* *
2062775 TTCACCAAGGACATGAAGACCA
1 TTCA-TAAAGACATGAAGACCA
*
2062797 TTCATAAAGACATGAAGAACA
1 TTCATAAAGACATGAAGACCA
* * *
2062818 TTCATAAAGATATGAGGACCC
1 TTCATAAAGACATGAAGACCA
2062839 TTCATAAAGACATGAAGACCA
1 TTCATAAAGACATGAAGACCA
2062860 CTTCGCATGG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 53 0.75
22 18 0.25
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (21 bp):
TTCATAAAGACATGAAGACCA
Found at i:2062801 original size:43 final size:43
Alignment explanation
Indices: 2062735--2062856 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
2062725 ATACAGTCAT
** **
2062735 ACCAAGGACGA-GAAGACTGTTCATAAAGACATGAAGGCCATTC
1 ACCAAGGAC-ATGAAGACCATTCATAAAGACATGAAGAACATTC
2062778 ACCAAGGACATGAAGACCATTCATAAAGACATGAAGAACATTC
1 ACCAAGGACATGAAGACCATTCATAAAGACATGAAGAACATTC
* * * * *
2062821 A-TAAAGATATGAGGACCCTTCATAAAGACATGAAGA
1 ACCAAGGACATGAAGACCATTCATAAAGACATGAAGA
2062857 CCACTTCGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (43 bp):
ACCAAGGACATGAAGACCATTCATAAAGACATGAAGAACATTC
Found at i:2068279 original size:125 final size:125
Alignment explanation
Indices: 2068106--2068406 Score: 460
Period size: 125 Copynumber: 2.4 Consensus size: 125
2068096 AAGTTGTGAT
* * *
2068106 ATGTTGGGGCACGACTGAACCCACATCACGTTGAGATGACAAGATTCAGACCAAGGAGGCATTAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
2068171 GAATGAGCCTTACAATTTGAGGTG-TAGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGAT-GGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* *
2068231 ATGTTGGGGCATGATTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
* * *
2068296 GAATGAGTCTTACAATTTGAGGTGATGGGGTATTTTGAAGGCCCGTACCAGTGTAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* * * * * *
2068356 ATGTTGGGGCACGACCGAACCCACGTTATGCTAAGATGAAAATATTCAGAC
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGAC
2068407 AAGAAATTAT
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 158 0.99
126 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (125 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
Found at i:2069184 original size:36 final size:37
Alignment explanation
Indices: 2069137--2069209 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
2069127 AAAGTCAATT
*
2069137 TTAAGCCTTCACCAAAGAGGAGTGAAGTAAA-CCATC
1 TTAAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATC
* *
2069173 TTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATC
1 TTAAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATC
2069210 CATAAGACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 28 0.85
37 5 0.15
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (37 bp):
TTAAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATC
Found at i:2069389 original size:42 final size:41
Alignment explanation
Indices: 2069323--2069424 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 41
2069313 TTCACAATTT
* * *
2069323 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
2069364 CATAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
2069406 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
2069425 CATAAGACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 17 0.33
42 35 0.67
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:2069842 original size:216 final size:215
Alignment explanation
Indices: 2069205--2071173 Score: 3336
Period size: 216 Copynumber: 9.1 Consensus size: 215
2069195 TGAAGCAAAT
*
2069205 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAGAATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2069270 AGAAGATGAAATTTTTGAAAATGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
2069335 GGCCATCAGTAAGTCTTTCGAGCATGATGCATAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
2069400 AAGATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
*
2069420 CCATCCATAAGACCTTCGGGTAGGATG-TTTCAAATGAATTTGAAGATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2069484 AGAAGATTG-AATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCATTC
66 AGAAGA-TGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
2069548 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTT-AAATCCTTCGGGTCATCTGTAAGCCTTTAGA
*
2069613 GCAAGATGATAAGTCCTTCGAG
194 GCAAGATGATAAGTCCTTCGGG
* **
2069635 CCATCCATAAAACCTTCGGGTAGGATGTTTTCGCATGAATTTGAAAATGAAAAAAATGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG-AAAAAATGATGTTTT
*
2069700 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
*
2069765 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTTATCTGTAAGCCTTTAGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
*
2069830 CAAGATGATAAGTCCTTTGGG
195 CAAGATGATAAGTCCTTCGGG
* *
2069851 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2069916 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTTCACAATTTATAAGTCATTC
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TTTCACAATTTATAAGTCCTTC
2069981 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
*
2070046 CAAGATGATAAGTCATTCGGG
195 CAAGATGATAAGTCCTTCGGG
2070067 CCATCCATAAGACCTTCGGGTAGGATGTTTTCACAA-GAATTTGAAAATGAAAAAAATGATGTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCA-AATGAATTTGAAAATG-AAAAAATGATGTTT
*
2070131 TAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
64 TAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
*
2070196 TGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
129 CGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
*
2070261 GCAAGATGATAAGTCATTCGGG
194 GCAAGATGATAAGTCCTTCGGG
* * * *
2070283 CCATCCATAAAACCTTCGGGTAGGATATTTTCAAATGAATTTGAAAATG-GAAAATAATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2070347 AGAAGATGGAA-TTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCATTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
2070411 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
2070476 AAGATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
* * * *
2070496 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTTAACATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2070561 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCTTTCA
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
2070626 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTT-AAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
2070691 CAAGATGATAAGTCCTTCGGG
195 CAAGATGATAAGTCCTTCGGG
* *
2070712 CCGTCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAGAATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* * *
2070777 AGAAGATGGAATTTTTTAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
2070842 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGGTTATCTGTAAGCCTTTAGAG
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTT-AAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
2070907 CAAGATGATAAGTCCTTCGGG
195 CAAGATGATAAGTCCTTCGGG
*
2070928 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2070993 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* ** * * * * *
2071058 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTAAGGTCATTTGTGAGTCTCTCGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
*
2071123 AAGATGATAAATCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
* *
2071143 TCATCCATAAGACCTTCGGGCAGGATGTTTT
1 CCATCCATAAGACCTTCGGGTAGGATGTTTT
2071174 GCACCAAGGT
Statistics
Matches: 1665, Mismatches: 77, Indels: 24
0.94 0.04 0.01
Matches are distributed among these distances:
213 179 0.11
214 173 0.10
215 322 0.19
216 827 0.50
217 164 0.10
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (215 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGG
Found at i:2070501 original size:645 final size:646
Alignment explanation
Indices: 2069205--2071173 Score: 3435
Period size: 645 Copynumber: 3.0 Consensus size: 646
2069195 TGAAGCAAAT
* * *
2069205 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAGAATGAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
2069270 AGAAGATGAAATTTTTGAAAATGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCATTCG
*
2069335 GGCCATCAGTAAGTCTTTCGAGCATGATGCATAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
2069400 AAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATG-TTTCAAATGAATTTGAA
196 AAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAA
* *
2069464 GATGAAAAAATGATGTTTTAAGAAGATTGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTT
261 AATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTT
*
2069529 CACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGG
326 CACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGG
*
2069594 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGAGCCATCCATAAAACCTTCGGGTAGG
391 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
** * *
2069659 ATGTTTTCGCATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACG
456 ATGTTTTCAAATGAATTTGAAAATG-AGAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACG
2069724 AAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
520 AAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * *
2069789 ATGATGCTTAAATCCTTCGGGTTATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGG
585 ATGATGCTTAAATCCTTAGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
2069851 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
2069916 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTTCACAATTTATAAGTCATTC
66 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAA-TTTCACAATTTATAAGTCATTC
2069981 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
*
2070046 CAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACAA-GAATTTG
195 CAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCA-AATGAATTTG
*
2070110 AAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA
259 AAAATG-AAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAA
*
2070175 TTTCACAATTTATAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTT-AAATCCTTC
323 TTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTC
*
2070239 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATCCATAAAACCTTCGGGT
388 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGT
* *
2070304 AGGATATTTTCAAATGAATTTGAAAATG-GAAAATAATGTTTTAAGAAGATGGAA-TTTTGAAAA
453 AGGATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAA
* *
2070367 CGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGA
518 CGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
*
2070432 GCATGATGCTTAAATCCTTTGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
583 GCATGATGCTTAAATCCTTAGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
* *
2070496 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTTAACATGAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* * *
2070561 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCTTTCA
66 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCATTCG
2070626 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTT-AAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
*
2070691 CAAGATGATAAGTCCTTCGGGCCGTCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGA
195 CAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGA
* *
2070756 GAATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTTAAAACGAAGAATGTGATTTTCAAAATT
260 AAATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATT
2070821 TCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGG
325 TCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGG
* *
2070886 GTTATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAG
390 GTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAG
2070951 GATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACG
455 GATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACG
2071016 AAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
520 AAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * * * * * * *
2071081 ATGATGTTTAAATCCTTAAGGTCATTTGTGAGTCTCTCGAGCAAGATGATAAATCCTTCGGG
585 ATGATGCTTAAATCCTTAGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
* * *
2071143 TCATCCATAAGACCTTCGGGCAGGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTT
2071174 GCACCAAGGT
Statistics
Matches: 1259, Mismatches: 55, Indels: 17
0.95 0.04 0.01
Matches are distributed among these distances:
644 165 0.13
645 431 0.34
646 151 0.12
647 287 0.23
648 114 0.09
649 111 0.09
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (646 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCATTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAA
AATGAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTT
CACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAATCCTTCGGG
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
ATGTTTTCAAATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGA
AGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGCTTAAATCCTTAGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
Found at i:2071145 original size:41 final size:42
Alignment explanation
Indices: 2071045--2071147 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
2071035 TTTCACGATT
* * * *
2071045 TATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 TATAAATCCTTCGGGTCATCAGTAAGTCTCTCGAGCAAGATG
* ** ** *
2071087 TTTAAATCCTTAAGGTCATTTGTGAGTCTCTCGAGCAAGATG
1 TATAAATCCTTCGGGTCATCAGTAAGTCTCTCGAGCAAGATG
2071129 -ATAAATCCTTCGGGTCATC
1 TATAAATCCTTCGGGTCATC
2071148 CATAAGACCT
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
41 15 0.32
42 32 0.68
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
TATAAATCCTTCGGGTCATCAGTAAGTCTCTCGAGCAAGATG
Found at i:2075308 original size:2 final size:2
Alignment explanation
Indices: 2075303--2075330 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2075293 AATGGGTAGA
2075303 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
2075331 CATTATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2076571 original size:192 final size:190
Alignment explanation
Indices: 2076226--2076590 Score: 468
Period size: 192 Copynumber: 1.9 Consensus size: 190
2076216 AGTGATGAGA
*
2076226 GAAAAGAAAGTAGTGAAAGTGAACTTGAAATGGTTTGATGGACACAAGGACCGAGCCAGGATCAT
1 GAAAAGAAAGTAGTGAAAGTGAACTTGAAATGGTTTGATAGACACAAGGACCGAGCCAGGA--AT
* ** * *
2076291 TAGACAATAGGAAGGGCTAAATCGTTTGAATTTAAAGTTAGGAACCTAATAAGTATTTAATCCAA
64 TAGACAATAGGAAGGGCTAAATCGATCAAATTTAAAGTTAGGAACCTAACAAGTATTTAATACAA
* * *
2076356 AATTTGGGAGGGGAAAAGATTAATTTGA-AAATTATTTGAATTAAAATTTACTACTGATAAGC
129 AATTTGGGAGGAGAAAAGATTAATATGACAAA-TATTTAAATTAAAATTTACTACTGATAAGC
* * * *
2076418 GAAAAGAAAGTAGTGAAATTGAACTTGAAATGGTTTGATAGAGACAAGGGCTGAGCCAGG-ATTA
1 GAAAAGAAAGTAGTGAAAGTGAACTTGAAATGGTTTGATAGACACAAGGACCGAGCCAGGAATTA
* *
2076482 GACAAT-GAGAGGGGTTAAATC-ATCAAATTTTAAAGTTAATAGGAACCTAACAAGTATTTAATA
66 GACAATAG-GAAGGGCTAAATCGATCAAA-TTTAAAG-T--TAGGAACCTAACAAGTATTTAATA
** *
2076545 CAAAATTTGGGAGGAGCGATGATTAATATGACAAATATTTAAATTA
126 CAAAATTTGGGAGGAGAAAAGATTAATATGACAAATATTTAAATTA
2076591 GTAGGGATTA
Statistics
Matches: 149, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
188 4 0.03
189 28 0.19
190 1 0.01
192 113 0.76
193 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (190 bp):
GAAAAGAAAGTAGTGAAAGTGAACTTGAAATGGTTTGATAGACACAAGGACCGAGCCAGGAATTA
GACAATAGGAAGGGCTAAATCGATCAAATTTAAAGTTAGGAACCTAACAAGTATTTAATACAAAA
TTTGGGAGGAGAAAAGATTAATATGACAAATATTTAAATTAAAATTTACTACTGATAAGC
Found at i:2093034 original size:29 final size:29
Alignment explanation
Indices: 2092991--2093073 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
2092981 CTCACCTAAC
2092991 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
2093021 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
2093050 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
2093074 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:2097797 original size:29 final size:29
Alignment explanation
Indices: 2097754--2097836 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
2097744 CTCACCTAAC
2097754 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
2097784 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
2097813 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
2097837 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:2111570 original size:19 final size:19
Alignment explanation
Indices: 2111546--2111582 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2111536 TAGAATGCAT
2111546 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
2111565 TCCATGCACCGATGCACT
1 TCCATGCACCGATGCACT
2111583 ATGAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.22
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2111685 original size:64 final size:65
Alignment explanation
Indices: 2111532--2111690 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 65
2111522 GAATTAATTG
* * * *** * *
2111532 AACATAGAATGCATTCCATGCACCGATGCACTCTCCATGCACCGATGCACTATGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCACCGATGCACCAGGAATATTTTCAA
* * *
2111597 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACCAGG-CTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCACCGATGCACCAGGAATA-TTTTCA
2111660 A
65 A
*
2111661 AACATCGAATGCATTTTATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
2111691 TCCTTAGTGC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
64 32 0.40
65 49 0.60
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCACCGATGCACCAGGAATATTTTCAA
Found at i:2113214 original size:114 final size:114
Alignment explanation
Indices: 2113008--2113218 Score: 250
Period size: 114 Copynumber: 1.8 Consensus size: 114
2112998 ATCTTATTTT
*
2113008 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAA
1 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
*
2113073 TAAAATCGAAAAACTTTGAAAAAGAAATTTTCAAATTAAACAAACTTCTA
66 TAAAATCGAAAAAC-TGGAAAAAGAAATTTTCAAATTAAACAAACTTCTA
* * * * *
2113123 GAAA-CTAAAATGGATTTTGAAAA-ACAAAATGAAAT-TTCGAAGAAGAATTTAGAGCTTTCAAA
1 GAAAGCTAAAAAGGACTTGGAAAATA-AAAATGAAATGTT-GAAAAAGAAGTTAGAGCTTTCAAA
* * * *
2113185 GATAAAATTTGAAAGTA-TGGAAAAGGAAATTTTC
64 AATAAAA-TCGAAA-AACTGGAAAAAGAAATTTTC
2113219 GATTTAGAAG
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
113 3 0.04
114 68 0.84
115 9 0.11
116 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (114 bp):
GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
TAAAATCGAAAAACTGGAAAAAGAAATTTTCAAATTAAACAAACTTCTA
Found at i:2113783 original size:20 final size:21
Alignment explanation
Indices: 2113750--2113789 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2113740 TTTTAATGTA
2113750 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
2113770 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
2113790 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:2113797 original size:22 final size:20
Alignment explanation
Indices: 2113749--2113793 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2113739 ATTTTAATGT
2113749 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
2113769 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
2113790 AATT
1 AATT
2113794 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:2118258 original size:30 final size:31
Alignment explanation
Indices: 2118222--2118293 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
2118212 ATTTAACAAA
2118222 AAGGGGGAG-AAATTTAAGATGTGCTATAGT
1 AAGGGGGAGTAAATTTAAGATGTGCTATAGT
* **
2118252 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
1 AAGGGGGAGTAAATTTAAGATGTGCTATAGT
2118283 AA-GGGGAGTAA
1 AAGGGGGAGTAA
2118294 GTTTTTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (31 bp):
AAGGGGGAGTAAATTTAAGATGTGCTATAGT
Done.