Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_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: 2464137
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1937253 original size:13 final size:13
Alignment explanation
Indices: 1937235--1937259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1937225 ATAGTTGAAC
1937235 AGTCTTCATATGT
1 AGTCTTCATATGT
1937248 AGTCTTCATATG
1 AGTCTTCATATG
1937260 CGCGTCTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
AGTCTTCATATGT
Found at i:1939516 original size:21 final size:21
Alignment explanation
Indices: 1939490--1939534 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1939480 GATTTCTGGG
* *
1939490 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1939511 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1939532 CAA
1 CAA
1939535 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1941288 original size:23 final size:22
Alignment explanation
Indices: 1941229--1941295 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1941219 TATGGACATC
*
1941229 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1941251 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1941273 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1941296 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:1944462 original size:21 final size:21
Alignment explanation
Indices: 1944436--1944480 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1944426 GATTTCTGGG
* *
1944436 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1944457 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1944478 CAA
1 CAA
1944481 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1946235 original size:23 final size:22
Alignment explanation
Indices: 1946176--1946242 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1946166 TATGGACATC
*
1946176 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1946198 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1946220 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1946243 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:1952915 original size:13 final size:13
Alignment explanation
Indices: 1952897--1952922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1952887 TATACGACTT
1952897 ATTTTGGTATTAA
1 ATTTTGGTATTAA
1952910 ATTTTGGTATTAA
1 ATTTTGGTATTAA
1952923 TTGAAATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTTGGTATTAA
Found at i:1953684 original size:24 final size:24
Alignment explanation
Indices: 1953634--1953689 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
1953624 TATTCATCTC
* *
1953634 TAATTTTATATTATTAAAATTTTA
1 TAATTTTACATTATTAAAATTTAA
*
1953658 TAATTTTACATT-TTAAACGTTTAA
1 TAATTTTACATTATTAAA-ATTTAA
*
1953682 TAAATTTA
1 TAATTTTA
1953690 AAAATTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
TAATTTTACATTATTAAAATTTAA
Found at i:1955060 original size:11 final size:11
Alignment explanation
Indices: 1955044--1955081 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
1955034 TTCTATCTCT
1955044 AAAAAACAAAA
1 AAAAAACAAAA
1955055 AAAAAACAAAA
1 AAAAAACAAAA
1955066 AAAAAACAAAA
1 AAAAAACAAAA
1955077 CAAAA
1 -AAAA
1955082 TGAAAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:1955087 original size:16 final size:16
Alignment explanation
Indices: 1955045--1955081 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1955035 TCTATCTCTA
1955045 AAAAACAAAAAAAAAAC
1 AAAAA-AAAAAAAAAAC
*
1955062 AAAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAAC
1955078 AAAA
1 AAAA
1955082 TGAAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:1958240 original size:21 final size:21
Alignment explanation
Indices: 1958215--1958254 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1958205 AAGACTCTAT
1958215 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1958236 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1958255 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1963149 original size:18 final size:18
Alignment explanation
Indices: 1963116--1963150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1963106 CAGCACGAGG
* *
1963116 AACAAGCACGAGCAGAGA
1 AACAAGCACAACCAGAGA
1963134 AACAAGCACAACCAGAG
1 AACAAGCACAACCAGAG
1963151 GATCAAATGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.26, G:0.23, T:0.00
Consensus pattern (18 bp):
AACAAGCACAACCAGAGA
Found at i:1966440 original size:30 final size:30
Alignment explanation
Indices: 1966397--1966457 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1966387 AGTACCCGTC
* *
1966397 GAAAGTCGCCGGGAACACAGTGCGTCTTCG
1 GAAAATCGCCGGGAACACAATGCGTCTTCG
* *
1966427 GAAAATCGTCGGGAAGACAATGCGTCTTCG
1 GAAAATCGCCGGGAACACAATGCGTCTTCG
1966457 G
1 G
1966458 TTTTGTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (30 bp):
GAAAATCGCCGGGAACACAATGCGTCTTCG
Found at i:1967563 original size:32 final size:32
Alignment explanation
Indices: 1967518--1967583 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
1967508 TTGGATTCCC
* *
1967518 AATAATTTAATTAT-ATTCTTTTAAAAACAAA
1 AATAATTTAATTATAATTCATATAAAAACAAA
*
1967549 AATACTTTATATTATAAATTCATATAAAAACAAA
1 AATAATTTA-ATTAT-AATTCATATAAAAACAAA
1967583 A
1 A
1967584 GATTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 8 0.28
32 5 0.17
34 16 0.55
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
AATAATTTAATTATAATTCATATAAAAACAAA
Found at i:1968855 original size:16 final size:16
Alignment explanation
Indices: 1968834--1968864 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1968824 TAATAAATAA
1968834 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1968850 ACGAACATAAACGAA
1 ACGAACATAAACGAA
1968865 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1968951 original size:16 final size:16
Alignment explanation
Indices: 1968930--1968966 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1968920 CATTTAATAA
1968930 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
1968946 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
1968962 ATAAA
1 ATAAA
1968967 AGTTGAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.59, C:0.22, G:0.11, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:1969158 original size:16 final size:16
Alignment explanation
Indices: 1969128--1969158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1969118 TGAAACTCGA
*
1969128 CTCGAACTCGAAAAAG
1 CTCGAACTCAAAAAAG
1969144 CTCGAACTCAAAAAA
1 CTCGAACTCAAAAAA
1969159 AATTAAGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAAG
Found at i:1969220 original size:23 final size:23
Alignment explanation
Indices: 1969165--1969251 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
1969155 AAAAAATTAA
* **
1969165 GAGCTCGATTAAAACTCGAAACT
1 GAGCTCGATTAAAGCTCGATTCT
* *
1969188 CAAGCTCGATTAAAGGTCGATTCT
1 -GAGCTCGATTAAAGCTCGATTCT
* * *
1969212 GAGCTCGATTCAAGCTCGGTTTT
1 GAGCTCGATTAAAGCTCGATTCT
*
1969235 GAGCTCGATTCAAGCTC
1 GAGCTCGATTAAAGCTC
1969252 AACATTGCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
23 35 0.66
24 18 0.34
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
GAGCTCGATTAAAGCTCGATTCT
Found at i:1969221 original size:12 final size:12
Alignment explanation
Indices: 1969204--1969245 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1969194 CGATTAAAGG
1969204 TCGATTCTGAGC
1 TCGATTCTGAGC
*
1969216 TCGATTC-AAGC
1 TCGATTCTGAGC
* *
1969227 TCGGTTTTGAGC
1 TCGATTCTGAGC
1969239 TCGATTC
1 TCGATTC
1969246 AAGCTCAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (12 bp):
TCGATTCTGAGC
Found at i:1969227 original size:11 final size:11
Alignment explanation
Indices: 1969187--1969251 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
1969177 AACTCGAAAC
1969187 TCAAGCTCGAT
1 TCAAGCTCGAT
* *
1969198 TAAAGGTCGAT
1 TCAAGCTCGAT
*
1969209 TCTGAGCTCGAT
1 TC-AAGCTCGAT
*
1969221 TCAAGCTCGGTT
1 TCAAGCTC-GAT
**
1969233 TTGAGCTCGAT
1 TCAAGCTCGAT
1969244 TCAAGCTC
1 TCAAGCTC
1969252 AACATTGCCC
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
11 23 0.57
12 17 0.43
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (11 bp):
TCAAGCTCGAT
Found at i:1970121 original size:24 final size:24
Alignment explanation
Indices: 1970094--1970153 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
1970084 TATTGGGTTA
*
1970094 AACATAAATGAATGAACATAAACG
1 AACATAAACGAATGAACATAAACG
*
1970118 AACATAACCGAATGAACATAAACG
1 AACATAAACGAATGAACATAAACG
*
1970142 AACATAACCGAA
1 AACATAAACGAA
1970154 CGTAAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (24 bp):
AACATAAACGAATGAACATAAACG
Found at i:1970134 original size:14 final size:14
Alignment explanation
Indices: 1970094--1970143 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
1970084 TATTGGGTTA
*
1970094 AACATAAATGAATG
1 AACATAAACGAATG
1970108 AACATAAAC----G
1 AACATAAACGAATG
*
1970118 AACATAACCGAATG
1 AACATAAACGAATG
1970132 AACATAAACGAA
1 AACATAAACGAA
1970144 CATAACCGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
10 9 0.31
14 20 0.69
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (14 bp):
AACATAAACGAATG
Found at i:1971107 original size:22 final size:22
Alignment explanation
Indices: 1971063--1971107 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1971053 AGATTTACGG
*
1971063 TAAAAAAATATGATTTATTTTT
1 TAAAAAAATATGATCTATTTTT
*
1971085 TAAAAAAATGT-ATCTATTATTT
1 TAAAAAAATATGATCTATT-TTT
1971107 T
1 T
1971108 GAAATGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TAAAAAAATATGATCTATTTTT
Found at i:1971389 original size:29 final size:30
Alignment explanation
Indices: 1971332--1971389 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
1971322 ATACAATTTT
*
1971332 TAAATTTGACACTTAAAAATAATTTTTCTC
1 TAAATTTGACACCTAAAAATAATTTTTCTC
1971362 TAAATTTGACACCT-AAAATAATTTTTCT
1 TAAATTTGACACCTAAAAATAATTTTTCT
1971390 AGCTCCGCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (30 bp):
TAAATTTGACACCTAAAAATAATTTTTCTC
Found at i:1972013 original size:12 final size:12
Alignment explanation
Indices: 1971996--1972020 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1971986 ACTGTCACAA
1971996 TTTCAAACATGT
1 TTTCAAACATGT
1972008 TTTCAAACATGT
1 TTTCAAACATGT
1972020 T
1 T
1972021 GAAAAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTCAAACATGT
Found at i:1972946 original size:18 final size:16
Alignment explanation
Indices: 1972912--1972949 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 16
1972902 ATTTTGGTCT
1972912 TTTTATTTTATATTAA
1 TTTTATTTTATATTAA
1972928 TTTTATTTTAATCATTAA
1 TTTTATTTT-AT-ATTAA
1972946 TTTT
1 TTTT
1972950 GTGTGTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTTTATATTAA
Found at i:1973198 original size:6 final size:6
Alignment explanation
Indices: 1973184--1973218 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
1973174 TGAATTGAAT
*
1973184 TTTTAAA TTTCAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1973219 TGCAATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 23 0.88
7 3 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTTAA
Found at i:1977206 original size:32 final size:31
Alignment explanation
Indices: 1977165--1977248 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
1977155 AAGCAATAGA
* *
1977165 GGGCATATTTGAAGATTCAACATCAAATGTTG
1 GGGCATATTTG-AGATTCAACATCAAATATCG
* *
1977197 GGGCATATTTTGAGCTTCAACGTCAAATATCG
1 GGGCATA-TTTGAGATTCAACATCAAATATCG
* *
1977229 GGGCATCTTTGGGAATTCAA
1 GGGCATATTTGAG-ATTCAA
1977249 TATCCCAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 5 0.12
32 34 0.79
33 4 0.09
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (31 bp):
GGGCATATTTGAGATTCAACATCAAATATCG
Found at i:1977658 original size:110 final size:110
Alignment explanation
Indices: 1977496--1978155 Score: 1013
Period size: 110 Copynumber: 6.0 Consensus size: 110
1977486 TATGGAGGTT
* *
1977496 GCTCAACTTCACAACGAAGGGGC-A---ACTGTTAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
1977557 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * *
1977602 ACTCAACTTCACAGCGAATGGGTGACTGACTGTCAACAAATAACTTTTTAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
1977667 AATTTCTACTTCACATCGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
*
1977712 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
1977777 AATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * *
1977822 GCTCAACTTTACAGCGAATGAGCGACTGACTGTCAACAAACAACTTTTCAGTTTTATTCAGAGTT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
1977887 AATTTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
1977932 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
1977997 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
** ** * *
1978042 GCTCAACTTCACAGCGAAGGGGTAACTGACTGTCAACAAACAACTTCCCAGTTTCATTTAAGAGC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA-TTCAGAGT
* * * *
1978107 CAATTTCAACTTCACGGCAAAGGATATTGGACTCGAAACAGCACAA
65 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
1978153 GCT
1 GCT
1978156 TGGATTTCAA
Statistics
Matches: 505, Mismatches: 44, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
106 19 0.04
107 1 0.00
110 435 0.86
111 50 0.10
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
Found at i:1978492 original size:50 final size:50
Alignment explanation
Indices: 1978358--1978483 Score: 243
Period size: 50 Copynumber: 2.5 Consensus size: 50
1978348 TTCAGAGTCA
1978358 ATTTCAACTTCACGGCGAAGGATATTGGACTCAAAATAGAACAAGCTTGG
1 ATTTCAACTTCACGGCGAAGGATATTGGACTCAAAATAGAACAAGCTTGG
1978408 ATTTCAACTTCACGGCGAAGGATATTGGACTCAAAATAGAACAAGCTTGG
1 ATTTCAACTTCACGGCGAAGGATATTGGACTCAAAATAGAACAAGCTTGG
*
1978458 ATTTCAACTTCACGACGAAGGATATT
1 ATTTCAACTTCACGGCGAAGGATATT
1978484 CAAGTCAAAG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (50 bp):
ATTTCAACTTCACGGCGAAGGATATTGGACTCAAAATAGAACAAGCTTGG
Found at i:1982459 original size:23 final size:23
Alignment explanation
Indices: 1982425--1982473 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1982415 AGTCCGAACT
*
1982425 CATACAATGAGAAATAACATAAA
1 CATACAACGAGAAATAACATAAA
1982448 CATACAACGAGAAATAACATAAA
1 CATACAACGAGAAATAACATAAA
1982471 CAT
1 CAT
1982474 TCTTGACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.59, C:0.16, G:0.08, T:0.16
Consensus pattern (23 bp):
CATACAACGAGAAATAACATAAA
Found at i:1995570 original size:17 final size:17
Alignment explanation
Indices: 1995548--1995590 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
1995538 TCTCTCTGGA
1995548 TTCTTGTTGATTGTTGT
1 TTCTTGTTGATTGTTGT
1995565 TTCTTGTTGATTGTTGT
1 TTCTTGTTGATTGTTGT
1995582 TTCTTGTTG
1 TTCTTGTTG
1995591 TTGATCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (17 bp):
TTCTTGTTGATTGTTGT
Found at i:1996008 original size:65 final size:66
Alignment explanation
Indices: 1995854--1996017 Score: 174
Period size: 65 Copynumber: 2.5 Consensus size: 66
1995844 AAAATAGTCT
* * * * ** * *
1995854 GAGTGCATCGATGCATAG-CTTGTGCATCGGTGCATTGAATGCATTCGATGTTTCTATTTGTTCA
1 GAGTGCATCGATGCATAGACTAGTGCATCGGTACACTAAATGCATTCGATAATTCAATTTATTCA
1995918 A
66 A
* *
1995919 GAGTGCATCGATGCATATA-GAGTGCATCGGTACACTAAATGCATTCGA-AATTCAATTTAATT-
1 GAGTGCATCGATGCATAGACTAGTGCATCGGTACACTAAATGCATTCGATAATTCAATTT-ATTC
*
1995981 GA
65 AA
* *
1995983 GAGTGCATCGATGCATGGACTAGTGCATCAGTACA
1 GAGTGCATCGATGCATAGACTAGTGCATCGGTACA
1996018 TCTCTTTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
64 25 0.31
65 56 0.69
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (66 bp):
GAGTGCATCGATGCATAGACTAGTGCATCGGTACACTAAATGCATTCGATAATTCAATTTATTCA
A
Found at i:1998667 original size:21 final size:21
Alignment explanation
Indices: 1998643--1998706 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 21
1998633 TCGGTGTATC
1998643 TTCATGATATATCGATGCACA
1 TTCATGATATATCGATGCACA
* *
1998664 TTCATAGAGATGCATCGATGCACC
1 TTCAT-GATAT--ATCGATGCACA
*
1998688 TTCAT-AGTGTATCGATGCA
1 TTCATGA-TATATCGATGCA
1998707 TTATGTACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 14 0.40
22 5 0.14
23 1 0.03
24 15 0.43
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (21 bp):
TTCATGATATATCGATGCACA
Found at i:1998701 original size:45 final size:44
Alignment explanation
Indices: 1998609--1998706 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
1998599 GGCTCTGTGC
* * * *
1998609 ATCGATGCACATTCAAGGCGTGCATCGGTGTATCTTCATGATAT
1 ATCGATGCACATTCAAGGCATGCATCGATGCACCTTCATGATAT
*
1998653 ATCGATGCACATTCATAGAG-ATGCATCGATGCACCTTCAT-AGTGT
1 ATCGATGCACATTCA-AG-GCATGCATCGATGCACCTTCATGA-TAT
1998698 ATCGATGCA
1 ATCGATGCA
1998707 TTATGTACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 16 0.35
45 29 0.63
46 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCATGCATCGATGCACCTTCATGATAT
Found at i:2000721 original size:12 final size:12
Alignment explanation
Indices: 2000704--2000738 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
2000694 ATGATGGTTC
2000704 TCCAACGTCATG
1 TCCAACGTCATG
2000716 TCCAACGTCATG
1 TCCAACGTCATG
2000728 TCCAACGTCAT
1 TCCAACGTCAT
2000739 TTATGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:2004643 original size:19 final size:19
Alignment explanation
Indices: 2004619--2004655 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2004609 TGAAGAACCC
2004619 AATGGAGAACACATAACTT
1 AATGGAGAACACATAACTT
2004638 AATGGAGAACACATAACT
1 AATGGAGAACACATAACT
2004656 CTGGCATATC
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:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (19 bp):
AATGGAGAACACATAACTT
Found at i:2005617 original size:82 final size:82
Alignment explanation
Indices: 2005480--2005876 Score: 476
Period size: 82 Copynumber: 4.8 Consensus size: 82
2005470 CCTTGTAGAT
* * *
2005480 AATCTACACTATTCACATCTTTTTCTTGTTATTGACATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACGTCATTTTCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
2005545 ATTTTAGAGAATCAAGG
66 ATTTTAGAGAATCAAGG
* * * *
2005562 AATCTGCACTATTCATGTTATTTTCTTGTTATTGACATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACGTCATTTTCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
*
2005627 ATTTTAGAGAACCAAGG
66 ATTTTAGAGAATCAAGG
* * * *
2005644 AATTTACACTATTCTCGTCCTTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACGTCATTTTCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
*
2005709 AATTTCCACTGA-AATC-AGAG
66 -ATTT-TA--GAGAATCAAG-G
* * * * * *
2005729 AATTTACATTATTCACGACCA-TTGCTTGTCATTGACATTTCACATTAACTCAGATAAACTAAAA
1 AATCTACACTATTCACG-TCATTTTCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAA
*
2005793 TATTTTAGAGAATCAGGG
65 TATTTTAGAGAATCAAGG
* * * * * * *
2005811 AATCTATACTATTCACGTCCTTTTCTTGTCACTGATATTTTACATCAACTTAGATAAATTGAAAT
1 AATCTACACTATTCACGTCATTTTCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
2005876 A
66 A
2005877 ATTTCCATTA
Statistics
Matches: 267, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
81 3 0.01
82 189 0.71
83 6 0.02
84 7 0.03
85 59 0.22
86 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (82 bp):
AATCTACACTATTCACGTCATTTTCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
ATTTTAGAGAATCAAGG
Found at i:2005824 original size:167 final size:165
Alignment explanation
Indices: 2005480--2005919 Score: 537
Period size: 167 Copynumber: 2.6 Consensus size: 165
2005470 CCTTGTAGAT
* * * *
2005480 AATCTACACTATTCACATCTTTTTCTTGTTATTGACATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACGTCCTTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* * * * ** * *
2005545 -ATTT-TA-GAGAATCAAGGAATCTGCACTATTCATGTTATTTTCTTGTTATTGACATTTCACAT
66 AATTTCCATGA-AATCAA-GAATCTACATTATTCACGCCATTTGCTTGTCATTGACATTTCACAT
*
2005607 CAACTCAGATAAACTGAAATATTTTAGAGAACCAAGG
129 CAACTCAGATAAACTAAAATATTTTAGAGAACCAAGG
* *
2005644 AATTTACACTATTCTCGTCCTTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTACACTATTCACGTCCTTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
*
2005709 AATTTCCACTGAAATCAGAGAATTTACATTATTCACGACCA-TTGCTTGTCATTGACATTTCACA
66 AATTTCCA-TGAAATCA-AGAATCTACATTATTCACG-CCATTTGCTTGTCATTGACATTTCACA
* * *
2005773 TTAACTCAGATAAACTAAAATATTTTAGAGAATCAGGG
128 TCAACTCAGATAAACTAAAATATTTTAGAGAACCAAGG
* * * * *
2005811 AATCTATACTATTCACGTCCTTTTCTTGTCACTGATATTTTACATCAACTTAGATAAATTGAAAT
1 AATCTACACTATTCACGTCCTTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
* * * *
2005876 AATTTCCATTAAAATCAAAGAATCAATATTATTCACGTCATTTG
66 AATTTCCA-TGAAATC-AAGAATCTACATTATTCACGCCATTTG
2005920 TTTTTTAGAG
Statistics
Matches: 236, Mismatches: 32, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
164 59 0.25
165 4 0.02
166 3 0.01
167 165 0.70
168 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (165 bp):
AATCTACACTATTCACGTCCTTTTCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAAT
AATTTCCATGAAATCAAGAATCTACATTATTCACGCCATTTGCTTGTCATTGACATTTCACATCA
ACTCAGATAAACTAAAATATTTTAGAGAACCAAGG
Found at i:2008458 original size:2 final size:2
Alignment explanation
Indices: 2008451--2008481 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2008441 CATTAAAATA
2008451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2008482 ATGGATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2009112 original size:11 final size:11
Alignment explanation
Indices: 2009096--2009136 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2009086 TTCATTTATA
2009096 TAATCATATTC
1 TAATCATATTC
* *
2009107 TAATCATCTATA
1 TAATCATAT-TC
2009119 TAATCATATTC
1 TAATCATATTC
2009130 TAATCAT
1 TAATCAT
2009137 TTGGTCTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATCATATTC
Found at i:2009113 original size:23 final size:23
Alignment explanation
Indices: 2009087--2009138 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
2009077 TCATTTTTTT
2009087 TCATTTATATAATCATATTCTAA
1 TCATTTATATAATCATATTCTAA
*
2009110 TCATCTATATAATCATATTCTAA
1 TCATTTATATAATCATATTCTAA
2009133 TCATTT
1 TCATTT
2009139 GGTCTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (23 bp):
TCATTTATATAATCATATTCTAA
Found at i:2017941 original size:31 final size:31
Alignment explanation
Indices: 2017906--2017968 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
2017896 TGCAGGTTCT
*
2017906 GGGGGTTCCGTGATTGATGCTAAACCTAATA
1 GGGGGTTCCGTGACTGATGCTAAACCTAATA
* *
2017937 GGGGGTTCTGTGACTGATGCTAAGCCTAATA
1 GGGGGTTCCGTGACTGATGCTAAACCTAATA
2017968 G
1 G
2017969 CTCTACCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (31 bp):
GGGGGTTCCGTGACTGATGCTAAACCTAATA
Found at i:2023384 original size:55 final size:54
Alignment explanation
Indices: 2023265--2023595 Score: 493
Period size: 55 Copynumber: 6.0 Consensus size: 54
2023255 GTAGTGCCTA
* *
2023265 TACGGTAATTCATCAACTCATGATGAATTCCGTGG-TTTGCACACATAGTGTCTG
1 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTG-CTG
2023319 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCGTG
1 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGC-TG
*
2023374 TACGGTGATTCATCAACCCATGATGAATTCCGTGGATTTGCACACAAAGTGTCTG
1 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTG-CTG
* * * *
2023429 TACAGTGATTCATCAACCCATGATGAATTTCGTGGATTTACACACAAAGTGCCTG
1 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTG-CTG
* * *
2023484 TATGATGATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCCTG
1 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTG-CTG
* *
2023539 TATGGTGATTCATCAACTCATGATGAATTCCGTGAATTTGCACACAAAGTGTCTG
1 TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTG-CTG
2023594 TA
1 TA
2023596 GTACACTTCG
Statistics
Matches: 256, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
54 35 0.14
55 220 0.86
56 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (54 bp):
TACGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCTG
Found at i:2024050 original size:95 final size:95
Alignment explanation
Indices: 2023898--2024108 Score: 305
Period size: 95 Copynumber: 2.2 Consensus size: 95
2023888 TCGATACTAC
* * * * * *
2023898 TACCCTGGTACCGATACTTCTATACTATAGTACTGATACCCCCTTTCGGTATCGATACCAATATT
1 TACCATGGTATCGATACTACCATACTATAGTACTGATACCCCCTTCCGGTATCGATACAAATATT
*
2023963 AGGTTCGATGTTGCCTGGCATCGATACCCT
66 AGATTCGATGTTGCCTGGCATCGATACCCT
* * *
2023993 TACCATGGTATCGATACTACCATACTATGGTACTGATACCTCCTTCCGGTATCGATACAAATTTT
1 TACCATGGTATCGATACTACCATACTATAGTACTGATACCCCCTTCCGGTATCGATACAAATATT
* * *
2024058 AGATTCGATGTTGCTTGGTATCGATACTCT
66 AGATTCGATGTTGCCTGGCATCGATACCCT
2024088 TACCATGGTATCGATACTACC
1 TACCATGGTATCGATACTACC
2024109 TCGCCGGTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 103 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (95 bp):
TACCATGGTATCGATACTACCATACTATAGTACTGATACCCCCTTCCGGTATCGATACAAATATT
AGATTCGATGTTGCCTGGCATCGATACCCT
Found at i:2029467 original size:18 final size:19
Alignment explanation
Indices: 2029446--2029549 Score: 81
Period size: 18 Copynumber: 5.4 Consensus size: 19
2029436 GGAAACCATG
* *
2029446 GAAGAAGAGGTGGAGTAT-
1 GAAGAAGAGGAGGAGAATA
* *
2029464 GAAGAAGTGGAGGTAG-A-G
1 GAAGAAGAGGAGG-AGAATA
2029482 GAAGAAGAGGAGGAGGAAATA
1 GAAGAAGAGGAGGA-G-AATA
2029503 GAAGAAGAGGAGGA-AATA
1 GAAGAAGAGGAGGAGAATA
* *
2029521 GAAGAAGAGGTGGAAGAAGAA
1 GAAGAAGAGGAGG-AGAA-TA
2029542 GAAGAAGA
1 GAAGAAGA
2029550 AGATCAGGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.01
18 41 0.58
19 3 0.04
20 3 0.04
21 23 0.32
ACGTcount: A:0.49, C:0.00, G:0.43, T:0.08
Consensus pattern (19 bp):
GAAGAAGAGGAGGAGAATA
Found at i:2029496 original size:21 final size:21
Alignment explanation
Indices: 2029482--2029549 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
2029472 GGAGGTAGAG
2029482 GAAGAAGAGGAGGAGGAAATA
1 GAAGAAGAGGAGGAGGAAATA
2029503 GAAG-A-A-GAGGAGGAAATA
1 GAAGAAGAGGAGGAGGAAATA
* *
2029521 GAAGAAGAGGTGGAAGAAGA-A
1 GAAGAAGAGGAGGAGGAA-ATA
2029542 GAAGAAGA
1 GAAGAAGA
2029550 AGATCAGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 16 0.39
19 2 0.05
20 2 0.05
21 20 0.49
22 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.04
Consensus pattern (21 bp):
GAAGAAGAGGAGGAGGAAATA
Found at i:2035619 original size:162 final size:159
Alignment explanation
Indices: 2035352--2035833 Score: 532
Period size: 162 Copynumber: 3.0 Consensus size: 159
2035342 CATTTCTGAT
* * * * * **** *
2035352 TTTTGGCTTATGTTATTCGGATTTAGGTGTGTGCGTCAAATAGTAGTATGTGGCTTTTGGCCTAT
1 TTTTGGCCTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGCAATTTTTGGCATAT
* * * ** * *
2035417 GTTATCCGGATTTAGGTGTGTGCGTCAAATAGTAGTATGTGGCTTTTGGCCTATGTTATCCGGAT
66 GTTATTCGGATTTAGGTGTGAGTGTCAAATAGTAGTATGTGTTTTTTGGCGTATGTTATTCGGAT
*
2035482 TTAGGTGTGTGCGTCAAATAGTAGTATGTGGC
131 TTAGGTGTGT--GTCAAATA-TAGTATGTGAC
*
2035514 TTTTGGCCTATGTTATCCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGCAATTTTTGGCATAT
1 TTTTGGCCTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGCAATTTTTGGCATAT
* *
2035579 GTTATTCGGGTTTAGGTGCGAGTGTCAAATAGTAGTATGTGATTTTTTGGCGTATGTTATTCGGA
66 GTTATTCGGATTTAGGTGTGAGTGTCAAATAGTAGTATGTG-TTTTTTGGCGTATGTTATTCGGA
*** *
2035644 TTTAGGCCAGTGTCAAATAATAGTATGTGAT
130 TTTAGGTGTGTGTCAAAT-ATAGTATGTGAC
* * * * * * *
2035675 TTTTGGCGTATGTTATTCAAATTTAGGTGCGAGTGTCAAATAATGGTATGTGATTTTTTGGCGTA
1 TTTTGGCCTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATG-CAATTTTTGGCATA
* * * * * * * *
2035740 TGTTATTCCGATTAAGGTGTGAGTATGAAATAGTAGGATGTTATTTTTTGACGTATGTTATTCAG
65 TGTTATTCGGATTTAGGTGTGAGTGTCAAATAGTAGTATG-TGTTTTTTGGCGTATGTTATTCGG
2035805 ATTTAGGTGTGTGTCAAATTATAGTATGT
129 ATTTAGGTGTGTGTCAAA-TATAGTATGT
2035834 TTAATTTCAT
Statistics
Matches: 269, Mismatches: 46, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
161 61 0.23
162 179 0.67
163 29 0.11
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (159 bp):
TTTTGGCCTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGCAATTTTTGGCATAT
GTTATTCGGATTTAGGTGTGAGTGTCAAATAGTAGTATGTGTTTTTTGGCGTATGTTATTCGGAT
TTAGGTGTGTGTCAAATATAGTATGTGAC
Found at i:2035814 original size:55 final size:55
Alignment explanation
Indices: 2035351--2035833 Score: 482
Period size: 54 Copynumber: 8.9 Consensus size: 55
2035341 TCATTTCTGA
* * * * * *
2035351 TTTTTGGCTTATGTTATTCGGATTTAGGTGTGTGCGTCAAATAGTAGTATGTG-G
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * * * * * * *
2035405 CTTTTGGCCTATGTTATCCGGATTTAGGTGTGTGCGTCAAATAGTAGTATGTG-G
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * * * * * * *
2035459 CTTTTGGCCTATGTTATCCGGATTTAGGTGTGTGCGTCAAATAGTAGTATGTG-G
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * * * *
2035513 CTTTTGGCCTATGTTATCCAGATTTAGGTGCGAGTGTCAAATAGTAGTATG-CAA
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * *
2035567 TTTTTGGCATATGTTATTCGGGTTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * *
2035622 TTTTTGGCGTATGTTATTCGGATTTA-G-GCCAGTGTCAAATAATAGTATGTGA-
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * *
2035674 TTTTTGGCGTATGTTATTCAAATTTAGGTGCGAGTGTCAAATAATGGTATGTGAT
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* * * * * * *
2035729 TTTTTGGCGTATGTTATTCCGATTAAGGTGTGAGTATGAAATAGTAGGATGTTAT
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
* *
2035784 TTTTTGACGTATGTTATTCAGATTTAGGT--GTGTGTCAAATTA-TAGTATGT
1 TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAA-TAGTAGTATGT
2035834 TTAATTTCAT
Statistics
Matches: 382, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
52 24 0.06
53 38 0.10
54 224 0.59
55 96 0.25
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (55 bp):
TTTTTGGCGTATGTTATTCAGATTTAGGTGCGAGTGTCAAATAGTAGTATGTGAT
Found at i:2047165 original size:2 final size:2
Alignment explanation
Indices: 2047158--2047186 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2047148 TATAAAAGAA
2047158 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
2047187 AATTTTCAGT
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:2047607 original size:23 final size:23
Alignment explanation
Indices: 2047572--2047630 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2047562 ATCAAGCACA
* *
2047572 ATAACATATTAGGTAGCGCTTAG
1 ATAATATAATAGGTAGCGCTTAG
*
2047595 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAG
*
2047618 ATAATAAAATAGG
1 ATAATATAATAGG
2047631 CATTTAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAG
Found at i:2047692 original size:87 final size:87
Alignment explanation
Indices: 2047545--2047706 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
2047535 ATGTTATATT
* *
2047545 ATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAGATAATATAATAGGTA
1 ATTTAACCAGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGTA
2047610 GCGCTTATATAATAAAATAGGC
66 GCGCTTATATAATAAAATAGGC
* * *
2047632 ATTTAACCAGAAATATTATCAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCAGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGTA
*
2047697 GCGTTTATAT
66 GCGCTTATAT
2047707 TGACATATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (87 bp):
ATTTAACCAGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGTA
GCGCTTATATAATAAAATAGGC
Found at i:2048179 original size:200 final size:197
Alignment explanation
Indices: 2047734--2048179 Score: 555
Period size: 197 Copynumber: 2.2 Consensus size: 197
2047724 AAAATGGTAA
* * *
2047734 ATTTAAACCGGTTACATT-ATAAATTGACCTATTACATTATAAATATCGATTTCGATGTTTTCAG
1 ATTTTAACCGGTTACATTGA-AAATTTACCTATTACATTATAATTATCGATTTCGATGTTTTCAG
* * *
2047798 GATCGATACAATTTTAAATGTATCGACACTTTATACGTGCAACTCGTTTGTGCTTTATTTTGGAA
65 GATCGATACAATTTTAAATGTATCGACACTTTATACGTACAACTCGTTTGTCCTTCATTTTGGAA
* * * *
2047863 AAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATGTAGACCTATTTCCTAATTAACCAG
130 AAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTTCCTAATGAACCAG
2047928 TAT
195 TAT
* * *
2047931 ATTTTAACCGGTTACATTGTAAATTTACCTGTTACATAATAATTATCGATTTCGATG-TTTCAAG
1 ATTTTAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTTC-AG
* * *
2047995 GATCGATAC-TTTTTAAAAATGTATCGACACTTTATGCGTACACCTCGTTTG-CCATTCATTTT-
65 GATCGATACAATTTT--AAATGTATCGACACTTTATACGTACAACTCGTTTGTCC-TTCATTTTG
* * * *
2048057 GAAAAAATGTATCGACACAAATTAAACAAAGTGTCGATACTTTATGTTGACCTA-TTCTCTCATG
127 GAAAAAA-GTATCGACACAAATTAAA-AAAGTGTCGATACATAATGTAGACCTATTTC-CTAATG
*
2048121 AACCCGGTAT
189 AA-CCAGTAT
*
2048131 ATTTCT-ACCGGTTACATTGAAAATTTACCTATTACATTATATTTATCGA
1 ATTT-TAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGA
2048180 CACAAAATCT
Statistics
Matches: 214, Mismatches: 25, Indels: 17
0.84 0.10 0.07
Matches are distributed among these distances:
196 8 0.04
197 69 0.32
198 58 0.27
199 29 0.14
200 49 0.23
201 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (197 bp):
ATTTTAACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTTCAGG
ATCGATACAATTTTAAATGTATCGACACTTTATACGTACAACTCGTTTGTCCTTCATTTTGGAAA
AAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTTCCTAATGAACCAGT
AT
Found at i:2051860 original size:201 final size:199
Alignment explanation
Indices: 2051384--2052324 Score: 997
Period size: 201 Copynumber: 4.7 Consensus size: 199
2051374 TTCTGTAGGC
*
2051384 ATATTTTCTCATAAAACCGGTAAATTTAAACTGG-TACATTGTAAAGTGACCTATTACATTATAA
1 ATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAA
* * * *
2051448 TTACGAGTTTCAATGTTTTTAGGATCGACACTTTTTTCTAAATGTATCGACACTTTTTCGTGAAC
66 TTACGGGTTTCGATGTTTTTGGGATCGACAC-TTTTTATAAATGTATCGACACTTTTTCGTGAAC
** * * * * *
2051513 TTA-TTTGGAAAATTTATTATGGACATA-AAGTGTCGACACAAATGTATAAAGTATCGATACA-T
130 TTAGTTTGG-AAATACATTATGGACA-ACAAGTATCGACACAAATGAATAAAGTGTCAACACATT
**
2051575 TATGTAT
193 TATAAAT
** * * * * * * * * *
2051582 ACCTTTTTTTA-AATAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCGATTACATTATA
1 ATATTTTCTCATAA-AACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATA
* * * * * *
2051646 ATTATGTGTTTCGATGTTTGTAGGATTGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCA
65 ATTACGGGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAA
* * *
2051711 CTTAGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGTGTCGACACATAT
129 CTTAGTTTGGAAATACATTATGGACAACAAGTATCGACACAAATGAATAAAGTGTCAACACAT-T
*
2051776 TGTAAAT
193 TATAAAT
* *
2051783 ATATTTTCTCATAAAATCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAG
1 ATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAA
** *
2051848 TTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAAC
66 TTACGGGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAAC
* * **
2051912 TTGTTTTGTTTGGAAA-ACATATTATGGAC-ACAAAGTATC-AGTACAAATTTATAAAGTGTCAA
130 ----TTAGTTTGGAAATAC--ATTATGGACAAC-AAGTATCGA-CACAAATGAATAAAGTGTCAA
* *
2051974 TAC-TTTATGAAT
187 CACATTTATAAAT
* * * * ** *
2051986 ACCTCTTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTAT
1 A--TATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTAT
* * * *
2052050 AATTACGGATTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCGTGC
64 AATTACGGGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGA
* * *
2052115 ACTTGGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGTGTCAACACATT
128 ACTTAGTTTGGAAATACATTATGGACAACAAGTATCGACACAAATGAATAAAGTGTCAACACA-T
* *
2052180 TTATAGAC
192 TTATAAAT
* * *
2052188 CTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTATATTGTAAAGTGACCTATTACATTATAG
1 ATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAA
** *
2052253 TTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAAC
66 TTACGGGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAAC
*
2052317 TTATTTTG
130 TTAGTTTG
2052325 TTTGAAAAAC
Statistics
Matches: 608, Mismatches: 107, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
197 2 0.00
198 47 0.08
199 105 0.17
200 65 0.11
201 210 0.35
202 12 0.02
203 10 0.02
204 109 0.18
205 48 0.08
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (199 bp):
ATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAA
TTACGGGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACT
TAGTTTGGAAATACATTATGGACAACAAGTATCGACACAAATGAATAAAGTGTCAACACATTTAT
AAAT
Found at i:2052102 original size:405 final size:403
Alignment explanation
Indices: 2051383--2052347 Score: 1426
Period size: 405 Copynumber: 2.4 Consensus size: 403
2051373 ATTCTGTAGG
*
2051383 CATATTTTCTCATAAAACCGGTAAATTTAAACTGG-TACATTGTAAAGTGACCTATTACATTATA
1 CATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATA
* * * * ** * *
2051447 ATTACGAGTTTCAATGTTTTTAGGATCGACACTTTTTTCTAAATGTATCGACACTT-TTTCGTGA
66 GTTACGGGTTTCGATGTTTTTGGGATCGACAC-TTGATATAAATGTGTCGACACTTATTT-GTGA
* ** * * *
2051511 AC----TTATTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAATGTATAAAGTATCGATA
129 ACTTTTTTGTTTGGAAAACATATTATGGACACAAAGTATCGACACAAATGTATAAAGTATCAATA
* *
2051572 CATTATGTATACCTTTTTTTAAATAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCGAT
194 CATTATGAATACCTTTTTTCAAATAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCGAT
* * *
2051637 TACATTATAATTATGTGTTTCGATGTTTGTAGGATTGACACTTTTTATAAATGTATCGACACTTT
259 TACATTATAATTACGTGTTTCGATATTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTT
2051702 GTTCGTGCACTTAGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGTGTC
324 GTTCGTGCACTTAGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGTGTC
* *
2051767 GACACATATTGTAAA
389 AACACATATTATAAA
* *
2051782 TATATTTTCTCATAAAATCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATA
1 CATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATA
2051847 GTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAAC
66 GTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAAC
* * *
2051912 TTGTTTTGTTTGGAAAACATATTATGGACACAAAGTATC-AGTACAAATTTATAAAGTGTCAATA
131 TT-TTTTGTTTGGAAAACATATTATGGACACAAAGTATCGA-CACAAATGTATAAAGTATCAATA
* * * * *
2051976 CTTTATGAATACCTCTTTTCTCATA-AACCGGTATATTTAGACCGGTTACATTGTTATTTTACCT
194 CATTATGAATACCT-TTTT-TCAAATAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCG
* * *
2052040 ATTACATTATAATTACG-GATTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
257 ATTACATTATAATTACGTG-TTTCGATATTTGTAGGATCGACACTTTTTATAAATGTATCGACAC
*
2052104 TTTGTTCGTGCACTTGGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGT
321 TTTGTTCGTGCACTTAGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGT
* *
2052169 GTCAACACATTTTATAGA
386 GTCAACACATATTATAAA
* *
2052187 CCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTATATTGTAAAGTGACCTATTACATTATA
1 CATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATA
2052252 GTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAAC
66 GTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAAC
*
2052317 TTATTTTGTTTGAAAAACATATTATGGACAC
131 TT-TTTTGTTTGGAAAACATATTATGGACAC
2052348 TTTTGCCTTT
Statistics
Matches: 511, Mismatches: 44, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
399 57 0.11
400 60 0.12
403 1 0.00
404 61 0.12
405 329 0.64
406 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (403 bp):
CATATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATA
GTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAAC
TTTTTTGTTTGGAAAACATATTATGGACACAAAGTATCGACACAAATGTATAAAGTATCAATACA
TTATGAATACCTTTTTTCAAATAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCGATTA
CATTATAATTACGTGTTTCGATATTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGT
TCGTGCACTTAGTTTGGAAATACATTCTGGACAACATGTATCGACACAAATGAATAAAGTGTCAA
CACATATTATAAA
Found at i:2054146 original size:182 final size:181
Alignment explanation
Indices: 2053831--2054481 Score: 887
Period size: 182 Copynumber: 3.6 Consensus size: 181
2053821 ATTAAAGTAC
* * * * *
2053831 CGACACTTTCAACATAACCGATAGCGTTTTACCGGTTTTGTCATTTCGATACCGGTTTTATCATA
1 CGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTATCATA
* ** *
2053896 TTTTTTACCT-ATTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTTTAGGCG
66 -TTATTACCTGA-TATATTACTATGGATCGATACATTTTTATAAAGTATCGACAC-TTTTAGGCG
* * *
2053960 CTATAATTTCTTCTCTTTTAAATTACAAAAGTGTTGATACTTATATTAATTTAT
128 CTATAACTTATTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * ** *
2054014 CGACACTTTCAATATATCCAGTATCTTTTTACCGGTTTTATCATTTCGATACCTCTTTTGTCATA
1 CGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTATCATA
* *
2054079 TTATTACCGGATATATTACTATGGATCGATACATTTGTATAAAGTATCGACACTTTTCAGGCGCT
66 TTATTACCTGATATATTACTATGGATCGATACATTTTTATAAAGTATCGACACTTTT-AGGCGCT
2054144 ATAACTTATTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
130 ATAACTTATTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * * * *
2054196 CGACACTTTCAAAATATCCGGTAGT-TTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCAT
1 CGACACTTTCAATATATCCGGTA-TCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTATCAT
* *
2054260 ATTATTACCTGTTATATTACTATGGATCGACACATTTTTATAAAGTATCGACACCTTTTAGGCGC
65 ATTATTACCTGATATATTACTATGGATCGATACATTTTTATAAAGTATCGACA-CTTTTAGGCGC
* * *
2054325 TATAACTTATTATCTTTTAAATTACAAAAGTGTCGACACTTAAATTAATTTAT
129 TATAACTTATTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * *
2054378 CGACACTTTCAATATATCCGGT-TGCGCTTTACCGGTTTTATCATAAT-GACACCGGTTTTATCA
1 CGACACTTTCAATATATCCGGTAT-CGTTTTACCGGTTTTATCAT-TTCGATACCGGTTTTATCA
* * *
2054441 TATTTTTACCTGTTATATTGCTATGGATCGATACATTTTTA
64 TATTATTACCTGATATATTACTATGGATCGATACATTTTTA
2054482 ATTTGTATCG
Statistics
Matches: 421, Mismatches: 40, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
180 1 0.00
181 4 0.01
182 353 0.84
183 63 0.15
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (181 bp):
CGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTATCATA
TTATTACCTGATATATTACTATGGATCGATACATTTTTATAAAGTATCGACACTTTTAGGCGCTA
TAACTTATTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
Found at i:2065821 original size:13 final size:13
Alignment explanation
Indices: 2065790--2066059 Score: 131
Period size: 13 Copynumber: 19.5 Consensus size: 13
2065780 ATATAATATA
*
2065790 TATATAATATAAAA
1 TATAT-ATATAAAC
2065804 T-TATATATAAAC
1 TATATATATAAAC
2065816 TATATAATTATTATAAAC
1 --TAT-A-TA-TATAAAC
*
2065834 TATATATATAAAT
1 TATATATATAAAC
* *
2065847 TATATTTATGTGAAC
1 TATA--TATATAAAC
2065862 TATATATATAAAC
1 TATATATATAAAC
2065875 TATATAATTATTATAAGC
1 TATAT-A-TA-TA-AA-C
*
2065893 TATATATATAAAT
1 TATATATATAAAC
* * *
2065906 TATGTTTATGTGAAC
1 TA--TATATATAAAC
2065921 TATATATATAAAC
1 TATATATATAAAC
*
2065934 TATGTATATAAAC
1 TATATATATAAAC
*
2065947 TATGTATATAAAC
1 TATATATATAAAC
2065960 TATATATGTATAAAC
1 TATATA--TATAAAC
2065975 TATA-A-A-AAGTA-
1 TATATATATAA--AC
* *
2065986 TATAGTTTATAAAA
1 TATA-TATATAAAC
* * *
2066000 TAT-TATTTATAT
1 TATATATATAAAC
*
2066012 TAATATAGTATATA-
1 T-ATATA-TATAAAC
2066026 TATATATATAAAC
1 TATATATATAAAC
2066039 TATATATGTATAAAC
1 TATATA--TATAAAC
2066054 TATATA
1 TATATA
2066060 AAATATATAG
Statistics
Matches: 202, Mismatches: 24, Indels: 59
0.71 0.08 0.21
Matches are distributed among these distances:
10 2 0.01
11 5 0.02
12 19 0.09
13 79 0.39
14 15 0.07
15 56 0.28
16 8 0.04
17 5 0.02
18 13 0.06
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:2065843 original size:59 final size:59
Alignment explanation
Indices: 2065780--2065936 Score: 192
Period size: 59 Copynumber: 2.7 Consensus size: 59
2065770 AATTGAAAAA
2065780 ATAT-AATATATATATAATATAAAAT-TATATATAAACTATATAATTATTATAAACTATAT
1 ATATAAAT-TATAT-TAATATAAAATATATATATAAACTATATAATTATTATAAACTATAT
* * * * *
2065839 ATATAAATTATATTTATGTGAACTATATATATAAACTATATAATTATTATAAGCTATAT
1 ATATAAATTATATTAATATAAAATATATATATAAACTATATAATTATTATAAACTATAT
* * * * *
2065898 ATATAAATTATGTTTATGTGAACTATATATATAAACTAT
1 ATATAAATTATATTAATATAAAATATATATATAAACTAT
2065937 GTATATAAAC
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
58 7 0.08
59 80 0.89
60 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (59 bp):
ATATAAATTATATTAATATAAAATATATATATAAACTATATAATTATTATAAACTATAT
Found at i:2065850 original size:11 final size:11
Alignment explanation
Indices: 2065785--2065851 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
2065775 AAAAAATATA
* *
2065785 ATATATATATA
1 ATATATAAATT
2065796 ATATA-AAATT
1 ATATATAAATT
2065806 ATATATAAA--
1 ATATATAAATT
*
2065815 CTATAT-AATT
1 ATATATAAATT
2065825 AT-TATAAACTAT
1 ATATATAAA-T-T
2065837 ATATATAAATT
1 ATATATAAATT
2065848 ATAT
1 ATAT
2065852 TTATGTGAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
8 2 0.04
9 8 0.18
10 11 0.24
11 14 0.31
12 4 0.09
13 6 0.13
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATATAAATT
Found at i:2065937 original size:28 final size:28
Alignment explanation
Indices: 2065805--2065964 Score: 146
Period size: 28 Copynumber: 5.6 Consensus size: 28
2065795 AATATAAAAT
* *
2065805 TATATATAAACTATATAATTATTATAAACTA
1 TATATATAAACTATAT--TTA-TGTGAACTA
*
2065836 TATATATAAATTATATTTATGTGAACTA
1 TATATATAAACTATATTTATGTGAACTA
*
2065864 TATATATAAACTATATAATTAT-TATAAGCTA
1 TATATATAAACTATAT--TTATGT-GAA-CTA
* *
2065895 TATATATAAATTATGTTTATGTGAACTA
1 TATATATAAACTATATTTATGTGAACTA
* * *
2065923 TATATATAAAC--TATGTATATAAACTA
1 TATATATAAACTATATTTATGTGAACTA
*
2065949 TGTATATAAACTATAT
1 TATATATAAACTATAT
2065965 ATGTATAAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
26 21 0.19
28 38 0.35
29 10 0.09
30 7 0.06
31 32 0.30
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (28 bp):
TATATATAAACTATATTTATGTGAACTA
Found at i:2065943 original size:41 final size:40
Alignment explanation
Indices: 2065827--2066059 Score: 129
Period size: 41 Copynumber: 5.7 Consensus size: 40
2065817 ATATAATTAT
* * * *
2065827 TATAAACTATATA-TATAAATTATATTTATGTGAACTATATA
1 TATAAACTATATAGTATAAACTATA--TATATAAACTATGTA
* *
2065868 TATAAACTATATAATTATTATAAGCTATATATATAAATTATGTTTA
1 TATAAACTATAT-AGTA-TA-AA-CTATATATATAAACTATG--TA
* * *
2065914 TGTGAACTATATA-TATAAACTATGTATATAAACTATGTA
1 TATAAACTATATAGTATAAACTATATATATAAACTATGTA
* * * *
2065953 TATAAACTATATATGTATAAACTATAAAAAGTATA-TA-GTT
1 TATAAACTATATA-GTATAAACTATATATA-TAAACTATGTA
* * * * * *
2065993 TATAAAATAT-TA-TTTATATTAATATAGTATATA-TATATA
1 TATAAACTATATAGTATAAACT-ATATA-TATAAACTATGTA
2066032 TATAAACTATATATGTATAAACTATATA
1 TATAAACTATATA-GTATAAACTATATA
2066060 AAATATATAG
Statistics
Matches: 148, Mismatches: 28, Indels: 32
0.71 0.13 0.15
Matches are distributed among these distances:
37 5 0.03
38 10 0.07
39 26 0.18
40 13 0.09
41 47 0.32
42 11 0.07
43 4 0.03
44 13 0.09
45 3 0.02
46 16 0.11
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (40 bp):
TATAAACTATATAGTATAAACTATATATATAAACTATGTA
Found at i:2066051 original size:79 final size:79
Alignment explanation
Indices: 2065951--2066107 Score: 253
Period size: 79 Copynumber: 2.0 Consensus size: 79
2065941 ATAAACTATG
*
2065951 TATATAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATTATTTATATTAA
1 TATATAAACTATATATGTATAAACTATATAAAA-TATATAGTTTATAAAATATAATTTATATTAA
*
2066015 TATAGTATATATATA
65 TATAATATATATATA
***
2066030 TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATATGTTATAATTTATATTAAT
1 TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAAT
2066095 ATAATATATATAT
66 ATAATATATATAT
2066108 GTATGTATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
79 68 0.94
80 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (79 bp):
TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAAT
ATAATATATATATA
Found at i:2066313 original size:20 final size:18
Alignment explanation
Indices: 2066221--2066331 Score: 100
Period size: 18 Copynumber: 6.1 Consensus size: 18
2066211 TAATTTACTT
2066221 TATATAGTTTATATATATA
1 TATATA-TTTATATATATA
* *
2066240 TATGTA--TATGTATATA
1 TATATATTTATATATATA
* * *
2066256 TACATATATACATATATA
1 TATATATTTATATATATA
*
2066274 TATATATATATATATATA
1 TATATATTTATATATATA
2066292 TATATAGTTTATATATACTA
1 TATATA-TTTATATATA-TA
* *
2066312 TACATGGTTTATATATATA
1 TATAT-ATTTATATATATA
2066331 T
1 T
2066332 TAGGGTTTAG
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
16 13 0.17
18 30 0.39
19 17 0.22
20 16 0.21
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (18 bp):
TATATATTTATATATATA
Found at i:2066331 original size:2 final size:2
Alignment explanation
Indices: 2066230--2066313 Score: 105
Period size: 2 Copynumber: 41.0 Consensus size: 2
2066220 TTATATAGTT
* * * *
2066230 TA TA TA TA TA TA TG TA TA TG TA TA TA TA CA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2066272 TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
2066314 CATGGTTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
2 67 0.96
3 3 0.04
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2066343 original size:7 final size:7
Alignment explanation
Indices: 2066331--2066375 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
2066321 TATATATATA
2066331 TTAGGGT
1 TTAGGGT
2066338 TTAGGGT
1 TTAGGGT
2066345 TTAGGGT
1 TTAGGGT
* *
2066352 TTATGAT
1 TTAGGGT
*
2066359 TTAAGGT
1 TTAGGGT
2066366 TTAGGGT
1 TTAGGGT
2066373 TTA
1 TTA
2066376 TATAAACTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:2066366 original size:21 final size:21
Alignment explanation
Indices: 2066337--2066376 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2066327 TATATTAGGG
*
2066337 TTTAGGGTTTAGGGTTTATGA
1 TTTAAGGTTTAGGGTTTATGA
2066358 TTTAAGGTTTAGGGTTTAT
1 TTTAAGGTTTAGGGTTTAT
2066377 ATAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTATGA
Found at i:2066644 original size:19 final size:19
Alignment explanation
Indices: 2066595--2066645 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
2066585 CAACTTCCCA
*
2066595 AAATTTTCTA-TTCCCTCT
1 AAATTTTCAATTTCCCTCT
2066613 AAATTTCTCAATTTCCCTCT
1 AAATTT-TCAATTTCCCTCT
2066633 AAATTTTCAATTT
1 AAATTTTCAATTT
2066646 ACCTATATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
20 14 0.47
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTTCAATTTCCCTCT
Found at i:2066765 original size:2 final size:2
Alignment explanation
Indices: 2066758--2066810 Score: 72
Period size: 2 Copynumber: 26.5 Consensus size: 2
2066748 ACTTTGAATA
* *
2066758 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT AT AT AG AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
2066800 AT AT AT AT AT A
1 AT AT AT AT AT A
2066811 ATTAAACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.96
3 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2070145 original size:82 final size:81
Alignment explanation
Indices: 2070051--2070257 Score: 265
Period size: 80 Copynumber: 2.5 Consensus size: 81
2070041 AGGGAAAGTG
* * *
2070051 GAAA-AAATATTATAATGATTCCATATATTATAATCAATAAAAAACTAAACCTCTATTGCTTAAA
1 GAAACAAATATTATAATGATTCCATATATTATTAT-AATAAAAAACTAAACCACTATAGCTTAAA
*
2070115 TTAAAGAAATAAGTGGA
65 TTAAAGAAACAAGTGGA
* * * *
2070132 GAAACAAATATTATAATGATTTCATATA-TATTATAATTAAAAGCTAAACCACTATAGCTTAGAT
1 GAAACAAATATTATAATGATTCCATATATTATTATAATAAAAAACTAAACCACTATAGCTTAAAT
*
2070196 TAAGGAAACAAGTGGA
66 TAAAGAAACAAGTGGA
* * *
2070212 CAAACAAATACTATAATGATTCTATATATATATTATAATTAAAAAA
1 GAAACAAATATTATAATGATTCCATATAT-TATTATAA-TAAAAAA
2070258 AACAAACAAC
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
80 63 0.59
81 9 0.08
82 30 0.28
83 5 0.05
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (81 bp):
GAAACAAATATTATAATGATTCCATATATTATTATAATAAAAAACTAAACCACTATAGCTTAAAT
TAAAGAAACAAGTGGA
Found at i:2070532 original size:2 final size:2
Alignment explanation
Indices: 2070521--2070587 Score: 72
Period size: 2 Copynumber: 35.5 Consensus size: 2
2070511 TTCTACATAC
* *
2070521 TA TA TA -A TA TA TA TA TA TA TA TA TA -A TA CA CT- TA AA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
2070560 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2070588 CCTTACAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
1 5 0.09
2 50 0.91
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2071490 original size:2 final size:2
Alignment explanation
Indices: 2071483--2071518 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2071473 TTAGACTCAC
2071483 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
2071519 TTTTTGCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2072082 original size:3 final size:3
Alignment explanation
Indices: 2072074--2072119 Score: 74
Period size: 3 Copynumber: 14.7 Consensus size: 3
2072064 AGTAATCTTA
2072074 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AACTT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AA
2072120 CGGGACGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 38 0.93
5 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2072223 original size:18 final size:18
Alignment explanation
Indices: 2072200--2072279 Score: 70
Period size: 18 Copynumber: 4.9 Consensus size: 18
2072190 TGTGTTCTAC
*
2072200 GTGGTCCTATGGGACATA
1 GTGGTCCTACGGGACATA
2072218 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
*
2072236 -TGTGT--T-C--TAC--A
1 GTG-GTCCTACGGGACATA
2072247 -TGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
2072264 GTGGTCCTACGGGACA
1 GTGGTCCTACGGGACA
2072280 AATTCTACGC
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
10 2 0.04
11 3 0.06
12 1 0.02
13 3 0.06
15 3 0.06
16 1 0.02
17 3 0.06
18 34 0.68
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (18 bp):
GTGGTCCTACGGGACATA
Found at i:2072227 original size:28 final size:28
Alignment explanation
Indices: 2072168--2072228 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
2072158 GTCGAGGGTT
* *
2072168 CTACATGGTCCTACGGGACATATGTGTT
1 CTACGTGGTCCTACGGGACATATGTGTC
*
2072196 CTACGTGGTCCTATGGGACATA-GTGGTC
1 CTACGTGGTCCTACGGGACATATGT-GTC
2072224 CTACG
1 CTACG
2072229 GGACATATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (28 bp):
CTACGTGGTCCTACGGGACATATGTGTC
Found at i:2072240 original size:46 final size:46
Alignment explanation
Indices: 2072173--2072279 Score: 196
Period size: 46 Copynumber: 2.3 Consensus size: 46
2072163 GGGTTCTACA
* *
2072173 TGGTCCTACGGGACATATGTGTTCTACGTGGTCCTATGGGACATAG
1 TGGTCCTACGGGACATATGTGTTCTACATGGTCCTACGGGACATAG
2072219 TGGTCCTACGGGACATATGTGTTCTACATGGTCCTACGGGACATAG
1 TGGTCCTACGGGACATATGTGTTCTACATGGTCCTACGGGACATAG
2072265 TGGTCCTACGGGACA
1 TGGTCCTACGGGACA
2072280 AATTCTACGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TGGTCCTACGGGACATATGTGTTCTACATGGTCCTACGGGACATAG
Found at i:2072273 original size:28 final size:28
Alignment explanation
Indices: 2072219--2072273 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
2072209 TGGGACATAG
*
2072219 TGGTCCTACGGGACATATGTGTTCTACA
1 TGGTCCTACGGGACATATGTGTCCTACA
2072247 TGGTCCTACGGGACATA-GTGGTCCTAC
1 TGGTCCTACGGGACATATGT-GTCCTAC
2072274 GGGACAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (28 bp):
TGGTCCTACGGGACATATGTGTCCTACA
Found at i:2073086 original size:2 final size:2
Alignment explanation
Indices: 2073079--2073111 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2073069 TATGTTTAAT
2073079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2073112 TTCAAAGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2073461 original size:115 final size:116
Alignment explanation
Indices: 2073257--2073489 Score: 450
Period size: 115 Copynumber: 2.0 Consensus size: 116
2073247 AAAATTTGGG
2073257 AAGTTGGTGCCAAATATAGTGTCCAACAAGATATTTTGGGTTTATTAGGCTCATGCTCCTCCAAC
1 AAGTTGGTGCCAAATATAG-GTCCAACAAGATATTTTGGGTTTATTAGGCTCATGCTCCTCCAAC
2073322 AATCATCATTTTTCCACTTGTATTTGATTTTGTAATTTCTTTCATTTTAGTC
65 AATCATCATTTTTCCACTTGTATTTGATTTTGTAATTTCTTTCATTTTAGTC
2073374 AAGTTGGTGCCAAATATA-GTCCAACAAGATATTTTGGGTTTATTAGGCTCATGCTCCTCCAACA
1 AAGTTGGTGCCAAATATAGGTCCAACAAGATATTTTGGGTTTATTAGGCTCATGCTCCTCCAACA
2073438 ATCATCATTTTTCCACTTGTATTTGATTTTGTAATTTCTTTCATTTTAGTC
66 ATCATCATTTTTCCACTTGTATTTGATTTTGTAATTTCTTTCATTTTAGTC
2073489 A
1 A
2073490 TGGTTTAATT
Statistics
Matches: 116, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
115 98 0.84
117 18 0.16
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (116 bp):
AAGTTGGTGCCAAATATAGGTCCAACAAGATATTTTGGGTTTATTAGGCTCATGCTCCTCCAACA
ATCATCATTTTTCCACTTGTATTTGATTTTGTAATTTCTTTCATTTTAGTC
Found at i:2073852 original size:14 final size:14
Alignment explanation
Indices: 2073833--2073925 Score: 72
Period size: 14 Copynumber: 7.7 Consensus size: 14
2073823 ATTTTTTCTT
2073833 TATATAAATTAAAC
1 TATATAAATTAAAC
2073847 TATAT-AATT----
1 TATATAAATTAAAC
2073856 TATATAAATTAAAC
1 TATATAAATTAAAC
2073870 TATAT-AATT----
1 TATATAAATTAAAC
2073879 TATATAAATTAAAC
1 TATATAAATTAAAC
2073893 TATAT-AATT----
1 TATATAAATTAAAC
2073902 TATATAAATTAAAC
1 TATATAAATTAAAC
*
2073916 TATATTAATT
1 TATATAAATT
2073926 TTCCTTTGCA
Statistics
Matches: 63, Mismatches: 1, Indels: 30
0.67 0.01 0.32
Matches are distributed among these distances:
9 15 0.24
10 12 0.19
13 12 0.19
14 24 0.38
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:2073857 original size:23 final size:23
Alignment explanation
Indices: 2073831--2073926 Score: 183
Period size: 23 Copynumber: 4.1 Consensus size: 23
2073821 TTATTTTTTC
2073831 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
2073854 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
2073877 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
2073900 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATA-TAA
2073924 TTT
1 TTT
2073927 TCCTTTGCAT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
23 66 0.92
24 6 0.08
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTATATAAATTAAACTATATAA
Found at i:2075860 original size:33 final size:36
Alignment explanation
Indices: 2075778--2075860 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 36
2075768 ATTTAAAAAT
* * *
2075778 TAAAATATATATATTATATAATAATATAGTTTTTTA
1 TAAACTATATATATTATATAATAATATAGATTATTA
* *
2075814 TAAACTATTTATATTATA-AA-CATATA-ATTATTA
1 TAAACTATATATATTATATAATAATATAGATTATTA
*
2075847 TAAGCTATATATAT
1 TAAACTATATATAT
2075861 AAATATGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
33 17 0.43
34 5 0.12
35 2 0.05
36 16 0.40
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (36 bp):
TAAACTATATATATTATATAATAATATAGATTATTA
Found at i:2075962 original size:123 final size:121
Alignment explanation
Indices: 2075852--2076080 Score: 297
Period size: 123 Copynumber: 1.9 Consensus size: 121
2075842 TATTATAAGC
* * * * * *
2075852 TATATATATAAATATGT-TTTATGTGAACTATATA-TATAAACTGTATAAACTATCAAA-AGATA
1 TATATATATAAATATGTATGTATATAAACTATATAGTATAAACTATATAAA-AATAAAATAGATA
2075914 -TTTATAAAATATAATTTATATTAATATAGATATATATTATATATATATATATATATA
65 GTTTATAAAATATAATTTATATTAATATAG-TATATATTATATATATATATATATATA
* * *
2075971 TATATATATATATATGTATGTATATAAATTATATATGTATAAACTATATAAAAATAAAATATATA
1 TATATATATAAATATGTATGTATATAAACTATATA-GTATAAACTATATAAAAATAAAATAGATA
* *
2076036 GTTTATATATTATAATTTATATTAATATAGTATATA-TATATATAT
65 GTTTATAAAATATAATTTATATTAATATAGTATATATTATATATAT
2076081 GTATGCATAA
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
119 16 0.17
120 13 0.14
121 14 0.15
122 24 0.26
123 27 0.29
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (121 bp):
TATATATATAAATATGTATGTATATAAACTATATAGTATAAACTATATAAAAATAAAATAGATAG
TTTATAAAATATAATTTATATTAATATAGTATATATTATATATATATATATATATA
Found at i:2076098 original size:2 final size:2
Alignment explanation
Indices: 2075937--2076080 Score: 113
Period size: 2 Copynumber: 74.0 Consensus size: 2
2075927 ATTTATATTA
*
2075937 AT AT AG AT AT AT AT -T 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
* * * * *
2075978 AT AT AT AT GT AT GT AT AT AA AT -T AT AT AT GT AT AA ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * *
2076020 AA AA AT A- AA AT AT AT AGT TT AT AT AT -T AT A- AT TT AT AT -T
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
2076059 A- AT AT AGT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT
2076081 GTATGCATAA
Statistics
Matches: 113, Mismatches: 19, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
1 7 0.06
2 102 0.90
3 4 0.04
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2076108 original size:95 final size:95
Alignment explanation
Indices: 2075944--2076115 Score: 235
Period size: 95 Copynumber: 1.8 Consensus size: 95
2075934 TTAATATAGA
* *
2075944 TATATATTATATATATATATATATATATATATATATATATATGTATGTATATAAATTATATATGT
1 TATATATTATATATATATATATATATATATATATATATATATGTATGCATATAAATTATATAAGT
2076009 ATAAACTATATAAAAATAAAATATATAGTT
66 ATAAACTATATAAAAATAAAATATATAGTT
* *
2076039 TATATATTATA-ATTTATAT-TAATATAGTATATATATATATATGTATGC--ATAAACTATATAA
1 TATATATTATATATATATATAT-ATATA-TATATATATATATATGTATGCATATAAATTATAT-A
*
2076100 AGTAATAAATTATATA
63 AGT-ATAAACTATATA
2076116 GTTTATAGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
93 11 0.16
94 15 0.22
95 42 0.62
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (95 bp):
TATATATTATATATATATATATATATATATATATATATATATGTATGCATATAAATTATATAAGT
ATAAACTATATAAAAATAAAATATATAGTT
Found at i:2076145 original size:14 final size:14
Alignment explanation
Indices: 2076124--2076170 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
2076114 TAGTTTATAG
2076124 AAACCCTAAATCAT
1 AAACCCTAAATCAT
* *
2076138 ATACCCTAAAACAT
1 AAACCCTAAATCAT
*
2076152 AAACCCTAAATCCT
1 AAACCCTAAATCAT
2076166 AAACC
1 AAACC
2076171 TTATAAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:2076583 original size:32 final size:32
Alignment explanation
Indices: 2076501--2076585 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 32
2076491 GATCATTTTC
* *
2076501 AGGTCAGATTAAAAACAGATCAGGTTAAAAAT
1 AGGTCAGGTTAAAAACAGGTCAGGTTAAAAAT
* * * *
2076533 AGATTAGGTTAAAAACAGGTCAGGTTCATAAT
1 AGGTCAGGTTAAAAACAGGTCAGGTTAAAAAT
*
2076565 AGGTCAGGTTGAAAACAGGTC
1 AGGTCAGGTTAAAAACAGGTC
2076586 GGGTAATAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (32 bp):
AGGTCAGGTTAAAAACAGGTCAGGTTAAAAAT
Found at i:2076584 original size:16 final size:16
Alignment explanation
Indices: 2076500--2076585 Score: 91
Period size: 16 Copynumber: 5.4 Consensus size: 16
2076490 GGATCATTTT
*
2076500 CAGGTCAGATTAAAAA
1 CAGGTCAGGTTAAAAA
*
2076516 CAGATCAGGTTAAAAA
1 CAGGTCAGGTTAAAAA
* * *
2076532 TAGATTAGGTTAAAAA
1 CAGGTCAGGTTAAAAA
* *
2076548 CAGGTCAGGTTCATAA
1 CAGGTCAGGTTAAAAA
* *
2076564 TAGGTCAGGTTGAAAA
1 CAGGTCAGGTTAAAAA
2076580 CAGGTC
1 CAGGTC
2076586 GGGTAATAAC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (16 bp):
CAGGTCAGGTTAAAAA
Found at i:2077961 original size:49 final size:50
Alignment explanation
Indices: 2077889--2077988 Score: 193
Period size: 49 Copynumber: 2.0 Consensus size: 50
2077879 ACAACGAACG
2077889 AAATCTTGAATGCTCGGTATCAGCCATGGCC-AAGCGCATTGGCCCAAAC
1 AAATCTTGAATGCTCGGTATCAGCCATGGCCAAAGCGCATTGGCCCAAAC
2077938 AAATCTTGAATGCTCGGTATCAGCCATGGCCAAAGCGCATTGGCCCAAAC
1 AAATCTTGAATGCTCGGTATCAGCCATGGCCAAAGCGCATTGGCCCAAAC
2077988 A
1 A
2077989 CCTATCTGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 31 0.62
50 19 0.38
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (50 bp):
AAATCTTGAATGCTCGGTATCAGCCATGGCCAAAGCGCATTGGCCCAAAC
Found at i:2083850 original size:22 final size:21
Alignment explanation
Indices: 2083800--2083851 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2083790 TATGTGAAAT
* * *
2083800 TTATAAATTTTAAAGAATTTT
1 TTATAAATTCTAAAAAATTTA
*
2083821 TTAAAAATTCTAAAAAGATTTA
1 TTATAAATTCTAAAAA-ATTTA
2083843 TTATAAATT
1 TTATAAATT
2083852 AATAAGTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
TTATAAATTCTAAAAAATTTA
Found at i:2087400 original size:17 final size:17
Alignment explanation
Indices: 2087378--2087410 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2087368 ATTAATAAAA
2087378 TCATAATTTTTTTTAAG
1 TCATAATTTTTTTTAAG
2087395 TCATAATTTTTTTTAA
1 TCATAATTTTTTTTAA
2087411 AAAAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TCATAATTTTTTTTAAG
Found at i:2088559 original size:49 final size:48
Alignment explanation
Indices: 2088482--2088626 Score: 191
Period size: 53 Copynumber: 2.9 Consensus size: 48
2088472 TATCACCCTA
*
2088482 TAAATTTCAATGCTATAATTGATATAAAATGTAAAATTTCAATGTATTT
1 TAAATTTCAATGCTAGAATTGATATAAAATGTAAAATTT-AATGTATTT
* **
2088531 TAAATTTCAATGCTAGAATTGATGTAAAATTCGTTGTTAATATTAATGTATTT
1 TAAATTTCAATGCTAGAATTGATATAAAA-T-G-T-AAAAT-TTAATGTATTT
*
2088584 TAAATTTCAATGCTAGAATTGATATAAAATCTAAAATTTAATG
1 TAAATTTCAATGCTAGAATTGATATAAAATGTAAAATTTAATG
2088627 ACTAGCTGTA
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
48 6 0.07
49 30 0.36
50 2 0.02
51 1 0.01
52 2 0.02
53 40 0.48
54 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.42
Consensus pattern (48 bp):
TAAATTTCAATGCTAGAATTGATATAAAATGTAAAATTTAATGTATTT
Found at i:2092466 original size:21 final size:21
Alignment explanation
Indices: 2092400--2092473 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 21
2092390 TTAAATTCTT
*
2092400 ATTTTAATAATAT-ATAATAAAA
1 ATTTTAA-AATATAAT-ATAATA
*
2092422 ATTCCTTAAAATATATTTATTAATA
1 ATT--TTAAAATATA-ATA-TAATA
2092447 ATTTTAAAATATAATATAATA
1 ATTTTAAAATATAATATAATA
2092468 ATTTTA
1 ATTTTA
2092474 TTTTTATAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 11 0.25
22 5 0.11
23 15 0.34
24 5 0.11
25 8 0.18
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTTAAAATATAATATAATA
Found at i:2103075 original size:91 final size:91
Alignment explanation
Indices: 2102938--2103559 Score: 929
Period size: 91 Copynumber: 6.9 Consensus size: 91
2102928 GAATCAAGAA
** * *
2102938 AAGGTTGAACAAACTCTT-T-ATTATGAA--TCCTCTCTCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
2102999 GAACTCTCTACTGGAAAT-CTTGAACC
66 GAACTCTCCACTGGAAATGC-TGAACC
2103025 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
** * *
2103090 GAACTCTCCGTTGGAAATGCTGAGCT
66 GAACTCTCCACTGGAAATGCTGAACC
* * *
2103116 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
** *
2103181 GAACTCTCCGTTGGAAATGCTG-ACT
66 GAACTCTCCACTGGAAATGCTGAACC
* *
2103206 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
2103271 GAACTCTCCACTGGAAAT-CTTGAACC
66 GAACTCTCCACTGGAAATGC-TGAACC
* *
2103297 AAGGTTGAACAAGTTCTTCTCATGATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
** *
2103362 GAACTCTCCGTTGGAAATGCTG-ACT
66 GAACTCTCCACTGGAAATGCTGAACC
2103387 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
2103452 GAACTCTCCACTGGAAAT-CTTGAACC
66 GAACTCTCCACTGGAAATGC-TGAACC
* * *
2103478 AAGGTTGAACACGTTATTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
2103543 GAACTCTCCACTGGAAA
66 GAACTCTCCACTGGAAA
2103560 CGTTGATCCC
Statistics
Matches: 489, Mismatches: 36, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
87 16 0.03
88 1 0.00
89 10 0.02
90 163 0.33
91 297 0.61
92 2 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGCTGAACC
Found at i:2103288 original size:181 final size:181
Alignment explanation
Indices: 2102938--2103551 Score: 961
Period size: 181 Copynumber: 3.4 Consensus size: 181
2102928 GAATCAAGAA
** * *
2102938 AAGGTTGAACAAACTCTT-T-ATTATGAA--TCCTCTCTCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*** *
2102999 GAACTCTCTACTGGAAAT-CTTGAACCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
66 GAACTCTCCGTTGGAAATGC-TG-ACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
** * *
2103063 CCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGTTGGAAATGC-TGAGCT
129 CCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAAT-CTTGAACC
* * *
2103116 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
2103181 GAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCC
66 GAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
*
2103246 TCATTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
131 TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
* *
2103297 AAGGTTGAACAAGTTCTTCTCATGATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
2103362 GAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
66 GAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
2103427 TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
131 TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
* * *
2103478 AAGGTTGAACACGTTATTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
2103543 GAACTCTCC
66 GAACTCTCC
2103552 ACTGGAAACG
Statistics
Matches: 401, Mismatches: 29, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
178 16 0.04
179 1 0.00
180 9 0.02
181 328 0.82
182 46 0.11
183 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (181 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
GAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
Found at i:2103364 original size:39 final size:39
Alignment explanation
Indices: 2103308--2103456 Score: 127
Period size: 39 Copynumber: 3.5 Consensus size: 39
2103298 AGGTTGAACA
*
2103308 AGTTCTTCTCATGATGAACTTCTTCTCCCTCGTTGGACG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACG
** * * *
2103347 AGTTCTTCTCATTATGAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACA
1 AGTTCTTCTCATTATGAACT-T-C--T-----T-CTCCCT--CGTTGGACG
*
2103398 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACG
2103437 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
2103457 CTCCACTGGA
Statistics
Matches: 86, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
39 44 0.51
40 1 0.01
41 5 0.06
42 1 0.01
43 1 0.01
47 1 0.01
48 1 0.01
49 5 0.06
50 1 0.01
51 26 0.30
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACG
Found at i:2103484 original size:272 final size:272
Alignment explanation
Indices: 2102977--2103559 Score: 1008
Period size: 272 Copynumber: 2.1 Consensus size: 272
2102967 CTCTCTCTCG
*
2102977 TTGGATGAGTTCTTCTCATTATGAACTCTCTACTGGAAATCTTGAACCAAGGTTGAACAAGTTCT
1 TTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACAAGTTCT
* *
2103042 TCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGTTGGAAA
66 TCTCATGATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCCGTTGGAAA
* *
2103107 TGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATAAGTTCT
131 TGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCT
** * *
2103172 TCTCATTATGAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACT
196 TCTCATTATGAACTCTCCACTGGAAATGCTGACCAAGGTTGAACAAGTTATTCTCATTATGAACT
*
2103237 TCTTATCCCTCA
261 TATTATCCCTCA
2103249 TTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACAAGTTCT
1 TTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACAAGTTCT
2103314 TCTCATGATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCCGTTGGAAA
66 TCTCATGATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCCGTTGGAAA
*
2103379 TGCTGA-CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCT
131 TGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCT
*
2103443 TCTCATTATGAACTCTCCACTGGAAAT-CTTGAACCAAGGTTGAACACGTTATTCTCATTATGAA
196 TCTCATTATGAACTCTCCACTGGAAATGC-TG-ACCAAGGTTGAACAAGTTATTCTCATTATGAA
* *
2103507 CTTATTCTCCCTCG
259 CTTATTATCCCTCA
2103521 TTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAA
1 TTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAA
2103560 CGTTGATCCC
Statistics
Matches: 295, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
270 1 0.00
271 82 0.28
272 212 0.72
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (272 bp):
TTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACAAGTTCT
TCTCATGATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCCGTTGGAAA
TGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCT
TCTCATTATGAACTCTCCACTGGAAATGCTGACCAAGGTTGAACAAGTTATTCTCATTATGAACT
TATTATCCCTCA
Found at i:2103647 original size:20 final size:20
Alignment explanation
Indices: 2103622--2103666 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2103612 GAGATAAGGT
2103622 TGAACAAGTTCTTCTCATTA
1 TGAACAAGTTCTTCTCATTA
2103642 TGAACAAGTTCTTCTCATTA
1 TGAACAAGTTCTTCTCATTA
2103662 TGAAC
1 TGAAC
2103667 TTCTTCTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (20 bp):
TGAACAAGTTCTTCTCATTA
Found at i:2103670 original size:17 final size:18
Alignment explanation
Indices: 2103630--2103674 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
2103620 GTTGAACAAG
2103630 TTCTTCTCATTATGAACAA
1 TTCTTCTCATTATGAAC-A
2103649 GTTCTTCTCATTATGAAC-
1 -TTCTTCTCATTATGAACA
2103667 TTCTTCTC
1 TTCTTCTC
2103675 CCTCATTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.32
20 17 0.68
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (18 bp):
TTCTTCTCATTATGAACA
Found at i:2103797 original size:91 final size:91
Alignment explanation
Indices: 2103642--2103815 Score: 312
Period size: 91 Copynumber: 1.9 Consensus size: 91
2103632 CTTCTCATTA
2103642 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACT
*
2103707 CTCCACTGGAAATCTTGAACCAAGGT
66 CTCCACTAGAAATCTTGAACCAAGGT
* *
2103733 TGAACATGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACT
*
2103798 CTCCACTAGAAATGTTGA
66 CTCCACTAGAAATCTTGA
2103816 GTTGTTTATC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (91 bp):
TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACT
CTCCACTAGAAATCTTGAACCAAGGT
Found at i:2104416 original size:36 final size:36
Alignment explanation
Indices: 2104350--2104732 Score: 325
Period size: 36 Copynumber: 10.6 Consensus size: 36
2104340 AAAGATTTTA
* * * *
2104350 TGTTTCAAGAGAAAATGTCTCCAACA-AGACAAAATT
1 TGTTTCAAGGGAAACTATCT-CAAGAGAGACAAAATT
* *
2104386 TGTTTAAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* ** * *
2104422 CGTTTCAAGGGAAACTGCCTCAAGAAAGACAAAACT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* * * *
2104458 CGTTTCAAGGGAAACTGTCTCAAGTGAGACAGAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
2104494 TGTTTCAAGGGAAACAATCTC-A-A-AG-----ATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
2104522 GGTGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAATATTT
1 --TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAA-A-TT
* * * *
2104563 TGTTTCGAGGGAAACTATCTCTAGCGAGATAAAATTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA--TT
* *
2104601 CTGTTTTAAGGGAAACTATCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
2104638 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* * * * *
2104674 CGTTTTAAGGGAAACTGTCTCAAGTGATACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
2104710 TGTTTCAAAGGAAACAATCTCAA
1 TGTTTCAAGGGAAACTATCTCAA
2104733 AGATTGGTGT
Statistics
Matches: 283, Mismatches: 48, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.01
30 18 0.06
31 1 0.00
32 1 0.00
33 4 0.01
35 5 0.02
36 186 0.66
37 3 0.01
38 6 0.02
39 53 0.19
40 1 0.00
41 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:2104430 original size:21 final size:21
Alignment explanation
Indices: 2104405--2104466 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2104395 GGAAACTATC
2104405 TCAAGAGAGACAAAACTCGTT
1 TCAAGAGAGACAAAACTCGTT
**
2104426 TCAAG-G-G---AAACT-GCC
1 TCAAGAGAGACAAAACTCGTT
*
2104441 TCAAGAAAGACAAAACTCGTT
1 TCAAGAGAGACAAAACTCGTT
2104462 TCAAG
1 TCAAG
2104467 GGAAACTGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 6 0.20
16 5 0.17
17 1 0.03
19 1 0.03
20 6 0.20
21 11 0.37
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (21 bp):
TCAAGAGAGACAAAACTCGTT
Found at i:2104799 original size:36 final size:36
Alignment explanation
Indices: 2104759--2104856 Score: 117
Period size: 37 Copynumber: 2.7 Consensus size: 36
2104749 TAAAAAAATA
2104759 TCTCAAATGAGACGAAATTTGTTTTG-AGAAAAATTG
1 TCTCAAATGAGACGAAATTTGTTTTGAAG-AAAATTG
* * * *
2104795 TCTCAAAAGAGACAAAACTTCTTTTGAATGAAAATTG
1 TCTCAAATGAGACGAAATTTGTTTTGAA-GAAAATTG
* *
2104832 TCTCAAGTGAGACGAAATTCGTTTT
1 TCTCAAATGAGACGAAATTTGTTTT
2104857 TTTTTGCATA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
36 22 0.44
37 27 0.54
38 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (36 bp):
TCTCAAATGAGACGAAATTTGTTTTGAAGAAAATTG
Found at i:2105339 original size:90 final size:90
Alignment explanation
Indices: 2104895--2105341 Score: 680
Period size: 90 Copynumber: 5.0 Consensus size: 90
2104885 AAAATCAGGC
* * *
2104895 TTCTAAAAACTCATTTGAAAACATCTTGCACTGAAGGTCTTATGAATGGCCCGAAGGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
* * ** * *
2104960 ATCAAGAAATCCCTGAA-AATCAGGC
66 ATCAAGAAACCCCCGAAGGCTTA-GT
*
2104985 TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
*
2105050 ATCAAGAAACCCCCGAAGGCTTAAT
66 ATCAAGAAACCCCCGAAGGCTTAGT
* *
2105075 TTCTAAAATGTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAATGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
2105140 ATCAAGAAACCCCCGAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
* * * **
2105165 TTCTAAAATCTCATTTGAAAACATCATGTACTGAAGGTCTTATGAATGGCTTGAAGGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
*
2105230 ATCAAGAAACCCCCAAAGGCTTAGT
66 ATCAAGAAACCCCCGAAGGCTTAGT
* * *
2105255 TTCTAAAATTTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAATGACTTACAA
1 TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
2105320 ATCAAGAAACCCCCGAAGGCTT
66 ATCAAGAAACCCCCGAAGGCTT
2105342 TTATTTGAGA
Statistics
Matches: 324, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
90 322 0.99
91 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (90 bp):
TTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACAA
ATCAAGAAACCCCCGAAGGCTTAGT
Found at i:2107411 original size:19 final size:19
Alignment explanation
Indices: 2107388--2107431 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2107378 TTTATTTTCT
* *
2107388 TTTTTTATTTCTTTTTTATG
1 TTTTTTATGT-TTTTTTATC
2107408 TTTTTTATGTTTTTTTATC
1 TTTTTTATGTTTTTTTATC
2107427 TTTTT
1 TTTTT
2107432 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTTATGTTTTTTTATC
Found at i:2107688 original size:2 final size:2
Alignment explanation
Indices: 2107681--2107727 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
2107671 GGACAACAAG
* *
2107681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2107723 AT AT A
1 AT AT A
2107728 AGGATAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2110449 original size:18 final size:18
Alignment explanation
Indices: 2110409--2110450 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2110399 AAATCGGGTG
* *
2110409 ATTTTAATAAAATATTTT
1 ATTTTAATAAAATATCTA
2110427 ATTTTAATAAAATA-CTA
1 ATTTTAATAAAATATCTA
2110444 AGTTTTA
1 A-TTTTA
2110451 GGGTCTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTTAATAAAATATCTA
Found at i:2116629 original size:21 final size:19
Alignment explanation
Indices: 2116593--2116648 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
2116583 ATAGAGCAGA
*
2116593 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATA-CCCCTT--AG
*
2116615 GGGAACCGATTCCCCTTAG
1 GGGAACCGATACCCCTTAG
*
2116634 GGGAATCGATACCCC
1 GGGAACCGATACCCC
2116649 CCACGGGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 15 0.50
21 6 0.20
22 9 0.30
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (19 bp):
GGGAACCGATACCCCTTAG
Found at i:2130003 original size:3 final size:3
Alignment explanation
Indices: 2129988--2130027 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
2129978 AGTTAAAAAA
*
2129988 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2130028 AGTGTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2130446 original size:22 final size:20
Alignment explanation
Indices: 2130401--2130448 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2130391 GGTTTTCAAC
2130401 AAAAAAAAAAAAAAGAAACG
1 AAAAAAAAAAAAAAGAAACG
*
2130421 AAAACAAAAAAAAATAGAGA-G
1 AAAA-AAAAAAAAA-AGAAACG
2130442 AAAAAAA
1 AAAAAAA
2130449 TCGAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAAAAAGAAACG
Found at i:2133209 original size:29 final size:30
Alignment explanation
Indices: 2133168--2133235 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
2133158 AAGGGTCCTG
2133168 TTTTATTTATTAAGTCCTTTAA-TT-TATTT
1 TTTTATTTATTAA-TCCTTTAAGTTCTATTT
* * *
2133197 TTTTCTTTTTTAATTCTTTAAGTTCTATTT
1 TTTTATTTATTAATCCTTTAAGTTCTATTT
2133227 TTGTTATTT
1 TT-TTATTT
2133236 TGGATCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 7 0.22
29 13 0.41
30 7 0.22
31 5 0.16
ACGTcount: A:0.19, C:0.07, G:0.04, T:0.69
Consensus pattern (30 bp):
TTTTATTTATTAATCCTTTAAGTTCTATTT
Found at i:2133308 original size:30 final size:30
Alignment explanation
Indices: 2133272--2133343 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
2133262 ATTTTAGTCA
2133272 TTTGAGTTTTTGTTTATT-TTATCTAGGTCC
1 TTTGAGTTTTTGTTT-TTGTTATCTAGGTCC
* * **
2133302 TTTGAGTTTCTGTTTTTGTTATTTTTGTCC
1 TTTGAGTTTTTGTTTTTGTTATCTAGGTCC
*
2133332 TTTAAGTTTTTG
1 TTTGAGTTTTTG
2133344 AAATTATTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.11, C:0.08, G:0.17, T:0.64
Consensus pattern (30 bp):
TTTGAGTTTTTGTTTTTGTTATCTAGGTCC
Found at i:2133458 original size:30 final size:30
Alignment explanation
Indices: 2133382--2133505 Score: 85
Period size: 30 Copynumber: 4.2 Consensus size: 30
2133372 TGTTTTTGCC
* * *
2133382 ATTTTAGTCTTTTAAATTTCATCTTGTGA-T
1 ATTTTAGTCTTTTAAATTT-ATATTTTTACT
* **
2133412 A-TTTGGTCTTCAAAATTTATATTTTTACT
1 ATTTTAGTCTTTTAAATTTATATTTTTACT
*
2133441 ATTTTAGTCTTTTAAATTTATGTTTGTGT-C-
1 ATTTTAGTCTTTTAAATTTATATTT-T-TACT
* * * * *
2133471 ATTTTAGTCCTTTAATTTTTTAATTTTATT
1 ATTTTAGTCTTTTAAATTTATATTTTTACT
2133501 ATTTT
1 ATTTT
2133506 GATTCTTAAG
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
28 7 0.10
29 17 0.24
30 45 0.62
31 2 0.03
32 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (30 bp):
ATTTTAGTCTTTTAAATTTATATTTTTACT
Found at i:2143388 original size:28 final size:28
Alignment explanation
Indices: 2143345--2143400 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
2143335 TTAATATGCA
2143345 AATGTATAATAACCCGGCACGCTGTTAT
1 AATGTATAATAACCCGGCACGCTGTTAT
*
2143373 AATGTATAATACCCCGGCACGCTGTTAT
1 AATGTATAATAACCCGGCACGCTGTTAT
2143401 GATATCGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (28 bp):
AATGTATAATAACCCGGCACGCTGTTAT
Found at i:2144627 original size:23 final size:23
Alignment explanation
Indices: 2144602--2144689 Score: 66
Period size: 21 Copynumber: 4.2 Consensus size: 23
2144592 TTGAAGAAAA
*
2144602 AAAAGGAACAAAT-AAAAAGATG
1 AAAAGGAAAAAATGAAAAAGATG
* **
2144624 AAAATGAAAAAATGAAAAAGAAA
1 AAAAGGAAAAAATGAAAAAGATG
*
2144647 AAAATG--AAAATGAAAAA-A-G
1 AAAAGGAAAAAATGAAAAAGATG
*
2144666 -AAATGAAAAAAT-AAAAAGA-G
1 AAAAGGAAAAAATGAAAAAGATG
2144686 AAAA
1 AAAA
2144690 AGGAGGGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
18 5 0.09
19 5 0.09
20 8 0.14
21 14 0.25
22 11 0.20
23 13 0.23
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (23 bp):
AAAAGGAAAAAATGAAAAAGATG
Found at i:2144628 original size:14 final size:14
Alignment explanation
Indices: 2144611--2144681 Score: 87
Period size: 14 Copynumber: 5.2 Consensus size: 14
2144601 AAAAAGGAAC
2144611 AAAT-AAAAAGATGA
1 AAATGAAAAA-ATGA
2144625 AAATGAAAAAATGA
1 AAATGAAAAAATGA
*
2144639 AAAAGAAAAAAATGA
1 AAATG-AAAAAATGA
2144654 AAATGAAAAAA-G-
1 AAATGAAAAAATGA
2144666 AAATGAAAAAAT-A
1 AAATGAAAAAATGA
2144679 AAA
1 AAA
2144682 AGAGAAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 18 0.35
15 18 0.35
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (14 bp):
AAATGAAAAAATGA
Found at i:2144647 original size:29 final size:28
Alignment explanation
Indices: 2144600--2144676 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
2144590 GCTTGAAGAA
* *
2144600 AAAAAAGGAACAAATAAAAAGATGAAAATG
1 AAAAAA-GAA-AAAGAAAAAAATGAAAATG
2144630 AAAAAATGAAAAAGAAAAAAATGAAAATG
1 AAAAAA-GAAAAAGAAAAAAATGAAAATG
*
2144659 AAAAAAG-AAATGAAAAAA
1 AAAAAAGAAAAAGAAAAAA
2144677 TAAAAAGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 10 0.23
28 1 0.02
29 23 0.53
30 9 0.21
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.09
Consensus pattern (28 bp):
AAAAAAGAAAAAGAAAAAAATGAAAATG
Found at i:2145954 original size:19 final size:17
Alignment explanation
Indices: 2145929--2145982 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
2145919 CAATGAAGAG
2145929 TTCATAATGAGAAGAAC
1 TTCATAATGAGAAGAAC
* * *
2145946 TCATCATAAAG-GAAAAAG
1 T--TCATAATGAGAAGAAC
2145964 TTCATAATGAGAAGAAC
1 TTCATAATGAGAAGAAC
2145981 TT
1 TT
2145983 GTTCCTTTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 6 0.21
19 7 0.25
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (17 bp):
TTCATAATGAGAAGAAC
Found at i:2146126 original size:105 final size:105
Alignment explanation
Indices: 2145906--2146199 Score: 306
Period size: 105 Copynumber: 2.8 Consensus size: 105
2145896 CTCGCTTGAG
*
2145906 GGATCGACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAAAAAGTTCATAA
1 GGATCAACATTTCC--TGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAAAAAGTTCATAA
* * * *
2145971 TGAGAAGAACTTGTTCCTTTCAAATTCACCACAGATGGAGGT
64 TGAGAAGAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
* * * * * *
2146013 GAACCAACATTTCCTGAAGAGTTCATAATGAGAAGAACTCGTCCTAATGGAGAAAGTTCATAATG
1 GGATCAACATTTCCTGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAAAAAGTTCATAATG
* * **
2146078 AGAA-AACCATGTT-CTTTCTAAGTCCACCGCAAAAGGATTT
66 AGAAGAA-CATGTTCCTTTC-AAATCCACCACAAAAGGAGGT
** * * *
2146118 GGATCAACATTTCCAAAAGAGTTCATAATGATAAGAACTCATCCACGAGAA-AAAAGAAGTTCAT
1 GGATCAACATTTCCTGAAGAGTTCATAATGAGAAGAACTCAT-CA-TA-AAGGAAA-AAGTTCAT
*
2146182 AATGAGAAGAACTTGTTC
62 AATGAGAAGAACATGTTC
2146200 AATCTAACGA
Statistics
Matches: 152, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
104 7 0.05
105 106 0.70
106 1 0.01
107 14 0.09
108 22 0.14
109 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (105 bp):
GGATCAACATTTCCTGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAAAAAGTTCATAATG
AGAAGAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
Found at i:2146341 original size:3 final size:3
Alignment explanation
Indices: 2146333--2146380 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
2146323 AAAATATTAA
2146333 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2146380 A
1 A
2146381 AGGTTTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2146378 original size:23 final size:23
Alignment explanation
Indices: 2146327--2146378 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
2146317 AGTTAAAAAA
*
2146327 TATTAAATTATTATTATTATTAT
1 TATTATATTATTATTATTATTAT
2146350 TATTATATTATTATTATTATTAT
1 TATTATATTATTATTATTATTAT
2146373 TATTAT
1 TATTAT
2146379 TAAGGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATATTATTATTATTATTAT
Found at i:2149378 original size:29 final size:30
Alignment explanation
Indices: 2149337--2149404 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
2149327 AAGGGCCCTG
2149337 TTTTATTTATTAAGTCCTTTAA-TT-TATTT
1 TTTTATTTATTAA-TCCTTTAAGTTCTATTT
* * *
2149366 TTTTCTTTTTTAATTCTTTAAGTTCTATTT
1 TTTTATTTATTAATCCTTTAAGTTCTATTT
2149396 TTGTTATTT
1 TT-TTATTT
2149405 TGGATCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 7 0.22
29 13 0.41
30 7 0.22
31 5 0.16
ACGTcount: A:0.19, C:0.07, G:0.04, T:0.69
Consensus pattern (30 bp):
TTTTATTTATTAATCCTTTAAGTTCTATTT
Done.