Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 80 of 161
Found at i:25205384 original size:70 final size:70
Alignment explanation
Indices: 25205271--25205545 Score: 505
Period size: 70 Copynumber: 3.9 Consensus size: 70
25205261 TAGCACATAA
* *
25205271 CACCATGATTTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
25205336 CCAAG
66 CCAAG
25205341 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
25205406 CCAAG
66 CCAAG
25205411 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
25205476 CCAAG
66 CCAAG
* * *
25205481 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
25205546 TAATAAACTA
Statistics
Matches: 200, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 200 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACTGCAGCATATTAATTAG
CCAAG
Found at i:25209146 original size:20 final size:20
Alignment explanation
Indices: 25209099--25209139 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
25209089 AAAAGCAGGG
25209099 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
25209119 AAAGAAAG-AAGAAAGG-GA
1 AAAGAAAGAAAGAAAGGAGA
25209137 AAA
1 AAA
25209140 TTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:25210679 original size:12 final size:12
Alignment explanation
Indices: 25210662--25210686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25210652 GCCGACTACT
25210662 GTTACTGTTACC
1 GTTACTGTTACC
25210674 GTTACTGTTACC
1 GTTACTGTTACC
25210686 G
1 G
25210687 ATTCGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:25210714 original size:45 final size:45
Alignment explanation
Indices: 25210664--25210774 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
25210654 CGACTACTGT
*
25210664 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
** * * *
25210709 TACTGTTACTATTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
25210754 TACTGTTACCGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
25210775 TGTTTCGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:25210716 original size:51 final size:49
Alignment explanation
Indices: 25210641--25210778 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 49
25210631 TTACTGATCA
* * *
25210641 GGCAC-TTATGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTT--CGATTC
*
25210691 GGCACTTTGTGTGTCGAATACTGTTACTATTACCGTTA----TCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
* * * *
25210736 AGCACTTTGTGTGTTGAATACTGTTACCGTTACTGTTACTGTT
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTT
25210779 TCGGATTTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
45 39 0.53
47 1 0.01
49 1 0.01
50 5 0.07
51 28 0.38
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (49 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
Found at i:25211203 original size:18 final size:18
Alignment explanation
Indices: 25210942--25211334 Score: 224
Period size: 18 Copynumber: 21.1 Consensus size: 18
25210932 AAAGGTATAA
* * *
25210942 AATAACTGATTATTGCTG
1 AATAATTGATTGTTACTG
* *
25210960 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
* *
25210978 GATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
25210996 GAT-ATTAGACTGTTACTG
1 AATAATT-GATTGTTACTG
* * *
25211014 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
*
25211032 AATAATTGATTATTACTG
1 AATAATTGATTGTTACTG
* *
25211050 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
* *
25211068 AATGAA-TGACTGCTACTG
1 AAT-AATTGATTGTTACTG
*
25211086 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
25211105 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
25211122 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
25211141 ATAACCGATTAATTGATCGATACTG
1 ---A---A-TAATTGATTGTTACTG
* * * *
25211166 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
25211184 AATAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
25211202 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
25211219 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
25211238 ATAACCGATTAATTGATCGATACTG
1 ---A---A-TAATTGATTGTTACTG
* * * *
25211263 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
25211281 AATAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
* *
25211299 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
25211317 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
25211334 A
1 A
25211335 GAGTTAATGA
Statistics
Matches: 292, Mismatches: 56, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
17 38 0.13
18 202 0.69
19 20 0.07
22 4 0.01
25 4 0.01
26 24 0.08
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:25211217 original size:97 final size:97
Alignment explanation
Indices: 25211084--25211321 Score: 431
Period size: 97 Copynumber: 2.4 Consensus size: 97
25211074 TGACTGCTAC
*
25211084 TGAATAACTTAATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGA
1 TGAATAA-TTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGA
25211149 TTAATTGATCGATACTGAATAACTGGTTATTAT
65 TTAATTGATCGATACTGAATAACTGGTTATTAT
25211182 TGAATAATTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGAT
1 TGAATAATTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGAT
25211247 TAATTGATCGATACTGAATAACTGGTTATTAT
66 TAATTGATCGATACTGAATAACTGGTTATTAT
* *
25211279 TGAATAATTGATTGTTACTGAATAACTGACTGTTACTGAATAA
1 TGAATAATTGATTGTTACTGAATATCTGA-TTTTACTGAATAA
25211322 ATAATTGTTC
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
97 117 0.86
98 19 0.14
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (97 bp):
TGAATAATTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGAT
TAATTGATCGATACTGAATAACTGGTTATTAT
Found at i:25211296 original size:62 final size:61
Alignment explanation
Indices: 25211186--25211304 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
25211176 TATTATTGAA
* * * *
25211186 TAATTGATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGAT
1 TAATTGATCGATACTGAATAACTGATTTTACTGAATAATTGACTGTTACTGAATAACCGAT
* * *
25211247 TAATTGATCGATACTGAATAACTGGTTATTATTGAATAATTGATTGTTACTGAATAAC
1 TAATTGATCGATACTGAATAACTGATT-TTACTGAATAATTGACTGTTACTGAATAAC
25211305 TGACTGTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 23 0.46
62 27 0.54
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (61 bp):
TAATTGATCGATACTGAATAACTGATTTTACTGAATAATTGACTGTTACTGAATAACCGAT
Found at i:25214935 original size:19 final size:19
Alignment explanation
Indices: 25214898--25214935 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25214888 AAAGTGTCCA
*
25214898 GGTTCAATGTATCTAGCTT
1 GGTTCAATGTACCTAGCTT
25214917 GGTTCAATGATACCT-GCTT
1 GGTTCAATG-TACCTAGCTT
25214936 ACGTAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (19 bp):
GGTTCAATGTACCTAGCTT
Found at i:25220900 original size:20 final size:20
Alignment explanation
Indices: 25220863--25220900 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25220853 CACAAAATCC
*
25220863 TTGATTCAATAGATTAGAAT
1 TTGATTCAATAGACTAGAAT
25220883 TTGATTCGAAT-GACTAGA
1 TTGATTC-AATAGACTAGA
25220901 CTACATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGATTCAATAGACTAGAAT
Found at i:25221593 original size:67 final size:67
Alignment explanation
Indices: 25221479--25221611 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
25221469 TAAAAAGAAT
* * ** *
25221479 TTCGTCCTCGAAATTTACTTGAACTAAACAAATAGGGATATTTTCGCTTCATCGCATCTTCGGCT
1 TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
25221544 TC
66 TC
25221546 TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
1 TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
25221611 T
66 T
25221612 TTCAAGTAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (67 bp):
TTCGTCCTCAAAATTTACTTGAACTAAACAAATAAGGATATCATCGCTTCATCACATCTTCGGCT
TC
Found at i:25223748 original size:43 final size:43
Alignment explanation
Indices: 25223693--25223801 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
25223683 TTTATTTGAA
*
25223693 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
1 AAAAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
* * * * *
25223736 ACAAACTCCGCTAAAGATCACGATCTTTAGCGGCGCTTTTCTT
1 AAAAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
25223779 AAAAACACCGCTAAA-AGTCATGA
1 AAAAACACCGCTAAAGA-TCATGA
25223802 AATTCAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCT
Found at i:25224029 original size:19 final size:21
Alignment explanation
Indices: 25224000--25224041 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
25223990 AAGTTATCTT
25224000 AAATATTAAAAT-AAAAATAA
1 AAATATTAAAATCAAAAATAA
*
25224020 AAAT-TTAAAATCAAAACTAA
1 AAATATTAAAATCAAAAATAA
25224040 AA
1 AA
25224042 TAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATATTAAAATCAAAAATAA
Found at i:25225039 original size:15 final size:15
Alignment explanation
Indices: 25225019--25225052 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
25225009 CTCGGATGAA
*
25225019 CAAAAATGGTACATC
1 CAAAAATGGAACATC
25225034 CAAAAATGGAACATC
1 CAAAAATGGAACATC
25225049 CAAA
1 CAAA
25225053 CATCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.15
Consensus pattern (15 bp):
CAAAAATGGAACATC
Found at i:25229515 original size:7 final size:7
Alignment explanation
Indices: 25229503--25229607 Score: 56
Period size: 7 Copynumber: 14.7 Consensus size: 7
25229493 ACTAATTAAT
25229503 CTAAACC
1 CTAAACC
25229510 CTAAACC
1 CTAAACC
*
25229517 TCTTAACCC
1 -C-TAAACC
*
25229526 CT-ATCC
1 CTAAACC
*
25229532 CATAAACA
1 C-TAAACC
25229540 CTAAACC
1 CTAAACC
25229547 CTAAACC
1 CTAAACC
*
25229554 CTTAACC
1 CTAAACC
*
25229561 CCAAACC
1 CTAAACC
*
25229568 CTTACACC
1 C-TAAACC
*
25229576 TTAAACTC
1 CTAAAC-C
*
25229584 C--AACA
1 CTAAACC
25229589 CT-AACAC
1 CTAAAC-C
25229596 CTAAACC
1 CTAAACC
25229603 CTAAA
1 CTAAA
25229608 TTATAATCCC
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
5 1 0.01
6 10 0.14
7 45 0.61
8 13 0.18
9 5 0.07
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:25229560 original size:14 final size:14
Alignment explanation
Indices: 25229503--25229581 Score: 59
Period size: 15 Copynumber: 5.4 Consensus size: 14
25229493 ACTAATTAAT
*
25229503 CTAAACCCTAAACC
1 CTAAACCCTTAACC
* * *
25229517 TCTTAACCCCTATCC
1 -CTAAACCCTTAACC
* *
25229532 CATAAACACTAAACC
1 C-TAAACCCTTAACC
25229547 CTAAACCCTTAACC
1 CTAAACCCTTAACC
*
25229561 CCAAACCCTTACACC
1 CTAAACCCTTA-ACC
*
25229576 TTAAAC
1 CTAAAC
25229582 TCCAACACTA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
14 22 0.46
15 26 0.54
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:25229674 original size:7 final size:7
Alignment explanation
Indices: 25229662--25229715 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
25229652 AGTTAACTCC
25229662 TAAACCT
1 TAAACCT
25229669 TAAACCT
1 TAAACCT
*
25229676 TAAACCC
1 TAAACCT
* *
25229683 TAAAACA
1 TAAACCT
* *
25229690 TATATCT
1 TAAACCT
*
25229697 TAAACCA
1 TAAACCT
25229704 TAAACCT
1 TAAACCT
25229711 TAAAC
1 TAAAC
25229716 TATAATGATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:25229679 original size:14 final size:14
Alignment explanation
Indices: 25229662--25229720 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
25229652 AGTTAACTCC
*
25229662 TAAACCTTAAACCT
1 TAAACCTTAAACCA
* *
25229676 TAAACCCTAAAACA
1 TAAACCTTAAACCA
* *
25229690 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
25229704 TAAACCTTAAACTA
1 TAAACCTTAAACCA
25229718 TAA
1 TAA
25229721 TGATAATTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:25229935 original size:41 final size:41
Alignment explanation
Indices: 25229878--25230096 Score: 325
Period size: 41 Copynumber: 5.4 Consensus size: 41
25229868 GTTATATGAC
*
25229878 TTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
25229919 TTTTAGCGGCGTTTTACCAAAAAGCGCC-CTAACGCTCTGGT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
* * * *
25229960 TTTTAACGGCATTTTACCGAAAGCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
25230001 TTTTTGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
25230042 TTTTAGCGGCGTTTTACCAAAAGCACCACTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
25230082 TTTTAGCAGCGTTTT
1 TTTTAGCGGCGTTTT
25230097 TTTACTAAAA
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 24 0.15
41 127 0.79
42 9 0.06
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:25230127 original size:42 final size:43
Alignment explanation
Indices: 25230012--25230139 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 43
25230002 TTTTGCGGCG
* * ** *
25230012 TTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCG---
1 TTTTACCAAAAGCACCACTAATGCTC-CATTTTTAGCAGCGTTT
**
25230053 TTTTACCAAAAGCACCACTAATGCTCTGTTTTTAGCAGCGTTT
1 TTTTACCAAAAGCACCACTAATGCTCCATTTTTAGCAGCGTTT
* * * *
25230096 TTTTACTAAAA-CGCCACTATTGCTCCATTTTTAGCGGCGTTT
1 TTTTACCAAAAGCACCACTAATGCTCCATTTTTAGCAGCGTTT
25230138 TT
1 TT
25230140 GGTAAAACGC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
40 12 0.16
41 24 0.32
42 28 0.38
43 10 0.14
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (43 bp):
TTTTACCAAAAGCACCACTAATGCTCCATTTTTAGCAGCGTTT
Found at i:25230154 original size:123 final size:123
Alignment explanation
Indices: 25229878--25230138 Score: 332
Period size: 123 Copynumber: 2.1 Consensus size: 123
25229868 GTTATATGAC
*
25229878 TTTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
* * * **
25229943 CGCCCTAACGCTCTGGTTTTTAACGGCATTTTACCGAAAGCGCCGCCAATGCTCTGGT
66 CACCCTAACGCTCTGGTTTTTAACGGCATTTTACCGAAAACGCCACCAATGCTCTCAT
*
25230001 TTTTTGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACC-AAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
* *** * * *
25230065 CACCACTAATGCTCT-GTTTTTAGCAGCGTTTTTTTA-CTAAAACGCCACTATTGCTC-CAT
66 CACC-CTAACGCTCTGGTTTTTA--A-CGGCATTTTACCGAAAACGCCACCAATGCTCTCAT
25230124 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
25230139 TGGTAAAACG
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
122 15 0.13
123 81 0.68
124 16 0.13
125 7 0.06
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAAG
CACCCTAACGCTCTGGTTTTTAACGGCATTTTACCGAAAACGCCACCAATGCTCTCAT
Found at i:25234354 original size:27 final size:27
Alignment explanation
Indices: 25234324--25234378 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25234314 CAACTATGTC
25234324 ATGAATTTGCAATAACCCATACCTAAA
1 ATGAATTTGCAATAACCCATACCTAAA
25234351 ATGAATTTGCAATAACCCATACCTAAA
1 ATGAATTTGCAATAACCCATACCTAAA
25234378 A
1 A
25234379 CATGTCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.25
Consensus pattern (27 bp):
ATGAATTTGCAATAACCCATACCTAAA
Found at i:25234403 original size:16 final size:16
Alignment explanation
Indices: 25234375--25234407 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25234365 ACCCATACCT
25234375 AAAACATGTCCAAAAC
1 AAAACATGTCCAAAAC
25234391 AAAACCATG-CCAAAAC
1 AAAA-CATGTCCAAAAC
25234407 A
1 A
25234408 CAATATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.58, C:0.27, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAACATGTCCAAAAC
Found at i:25235544 original size:108 final size:107
Alignment explanation
Indices: 25235356--25235562 Score: 247
Period size: 108 Copynumber: 1.9 Consensus size: 107
25235346 ATGTCATCCC
* *
25235356 GGATTGCCCGACAATGATGGTTTCTTAATTCATTTATGTCATCCCAGATTGTCCGGCAACAATGA
1 GGATTGCCCGACAATGATGGTTTCTTAATTCATTCATGTCATCCCAGATTGTCCAGCAACAATGA
* *
25235421 CCTACCACCCCGGGTTGCCTGACGATAATGGCTTACCACCTT
66 CCTACCACCCCGGGTTGCCCGACGACAATGGCTTACCACCTT
* * * * *
25235463 GGATTGCTCGACAATGATGGTTTTTTTAATTCATTCATGTCATCTC-GAATTG-CACAGTAACGA
1 GGATTGCCCGACAATGATGG-TTTCTTAATTCATTCATGTCATCCCAG-ATTGTC-CAGCAACAA
* ** * *
25235526 TGACTTGTCACCTCGGGTTGCCCGACGACGATGGCTT
63 TGACCTACCACCCCGGGTTGCCCGACGACAATGGCTT
25235563 TGTCGAGTCT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
107 21 0.25
108 62 0.75
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (107 bp):
GGATTGCCCGACAATGATGGTTTCTTAATTCATTCATGTCATCCCAGATTGTCCAGCAACAATGA
CCTACCACCCCGGGTTGCCCGACGACAATGGCTTACCACCTT
Found at i:25236511 original size:33 final size:32
Alignment explanation
Indices: 25236468--25236531 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
25236458 CTCTTCTTTT
*
25236468 CTTTTATTTTGTTTTGCTCTTCAAATTAAAACA
1 CTTTTATTTTGCTTTGCTCTTC-AATTAAAACA
* *
25236501 CTTTTGTTTTGCTTTGTTCTTCAATTAAAAC
1 CTTTTATTTTGCTTTGCTCTTCAATTAAAAC
25236532 TTTTTCTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.23, C:0.16, G:0.08, T:0.53
Consensus pattern (32 bp):
CTTTTATTTTGCTTTGCTCTTCAATTAAAACA
Found at i:25237136 original size:14 final size:14
Alignment explanation
Indices: 25237117--25237146 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25237107 CTTACTTTTT
25237117 AGATATCGAAATTC
1 AGATATCGAAATTC
25237131 AGATATCGAAATTC
1 AGATATCGAAATTC
25237145 AG
1 AG
25237147 GCTTAGCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (14 bp):
AGATATCGAAATTC
Found at i:25240423 original size:14 final size:15
Alignment explanation
Indices: 25240399--25240431 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25240389 TATCATCATC
25240399 TCATGTTTTCATATA
1 TCATGTTTTCATATA
*
25240414 TCAT-TTTTCATGTA
1 TCATGTTTTCATATA
25240428 TCAT
1 TCAT
25240432 CATTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (15 bp):
TCATGTTTTCATATA
Found at i:25243465 original size:13 final size:13
Alignment explanation
Indices: 25243449--25243473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25243439 ACTAGATTGA
25243449 TAAATATTTTTAT
1 TAAATATTTTTAT
25243462 TAAATATTTTTA
1 TAAATATTTTTA
25243474 GAGATATTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:25245026 original size:17 final size:17
Alignment explanation
Indices: 25244986--25245043 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
25244976 GACAACAATT
* *
25244986 TTGAAATGGAAAATGATA
1 TTGAAAT-GACAATGTTA
*
25245004 TGGAAATGACAATGTTA
1 TTGAAATGACAATGTTA
*
25245021 TTGAAATAACAAATGTTA
1 TTGAAATGAC-AATGTTA
*
25245039 CTGAA
1 TTGAA
25245044 TGAAATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (17 bp):
TTGAAATGACAATGTTA
Found at i:25245037 original size:18 final size:18
Alignment explanation
Indices: 25244996--25245043 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
25244986 TTGAAATGGA
* * *
25244996 AAATGATATGGAAATGAC
1 AAATGTTATTGAAATAAC
25245014 -AATGTTATTGAAATAAC
1 AAATGTTATTGAAATAAC
*
25245031 AAATGTTACTGAA
1 AAATGTTATTGAA
25245044 TGAAATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (18 bp):
AAATGTTATTGAAATAAC
Found at i:25247260 original size:30 final size:31
Alignment explanation
Indices: 25247224--25247301 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
25247214 TTTAACGGTT
25247224 ACTGGGCCGAAGCCTTTTCAT-AATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
25247254 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
25247285 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
25247302 ATTGTAAACG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 21 0.46
31 25 0.54
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:25247385 original size:42 final size:42
Alignment explanation
Indices: 25247325--25247416 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
25247315 TGGCCCATAG
*
25247325 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
25247367 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
25247409 GCCCATTT
1 GCCCATTT
25247417 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:25247625 original size:26 final size:26
Alignment explanation
Indices: 25247561--25247735 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
25247551 CCTCTTTAAT
* **
25247561 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
25247586 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
25247611 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
25247637 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
25247663 AATTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
25247689 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
25247715 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
25247736 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.23
26 104 0.77
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:25247674 original size:52 final size:52
Alignment explanation
Indices: 25247561--25247735 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
25247551 CCTCTTTAAT
* *
25247561 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
25247611 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
25247663 AATTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
25247715 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
25247736 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 9 0.08
51 25 0.21
52 83 0.71
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:25247810 original size:20 final size:20
Alignment explanation
Indices: 25247785--25247860 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
25247775 TTATGAATTC
*
25247785 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
25247805 ATCATGTGCATGTCATACAT
1 ATCATGTGCATATCATACAT
25247825 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
25247845 ATCATGT--ATATCATAC
1 ATCATGTGCATATCATAC
25247861 CCCACGTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 42 0.79
21 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:25248587 original size:27 final size:27
Alignment explanation
Indices: 25248557--25248621 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
25248547 GGGCATATTC
25248557 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
25248584 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
* *
25248611 ATCTTTTTACC
1 GTCATTTTACC
25248622 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:25248705 original size:27 final size:27
Alignment explanation
Indices: 25248652--25248984 Score: 208
Period size: 27 Copynumber: 12.3 Consensus size: 27
25248642 TTCCATCCTA
* * * *
25248652 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
25248679 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
25248706 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
25248735 TAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
25248762 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
25248789 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
25248816 C-AGTGGTATTTTGGTAACTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
25248843 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
25248870 CAGGGGTATTTTAGTAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
25248896 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
25248923 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
25248950 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
25248977 CGAGGGTA
1 CAAGGGTA
25248985 AAACAGTAAT
Statistics
Matches: 247, Mismatches: 50, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
26 25 0.10
27 192 0.78
28 15 0.06
29 15 0.06
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:25248824 original size:54 final size:53
Alignment explanation
Indices: 25248737--25248970 Score: 245
Period size: 54 Copynumber: 4.4 Consensus size: 53
25248727 TAGAAAGTTA
* ** * *
25248737 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
* * *
25248790 GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAACTTTACAAACT
1 -AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
* * *
25248844 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACT
1 A-GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
* ** * ** *
25248898 AGGGTATTTTGGTAATTTTACTGATC-GAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAA-CT
**
25248952 AGGGTATTTTAGTAATTTT
1 AGGGTATTTCGGTAATTTT
25248971 GTAAATCGAG
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.01
53 42 0.27
54 111 0.72
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACT
Found at i:25248950 original size:80 final size:81
Alignment explanation
Indices: 25248763--25248970 Score: 251
Period size: 80 Copynumber: 2.6 Consensus size: 81
25248753 TTTGTAAATC
** ** *
25248763 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACCAGTGGTATTT
*
25248827 TGGTAACTTTACAAACT
65 TGGTAACTTTACAAACG
* *
25248844 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
* * *
25248908 GGTAATTTTACTGATCG
66 GGTAACTTTAC-AAACG
** *
25248925 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
25248971 GTAAATCGAG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 60 0.54
81 50 0.45
82 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
GGTAACTTTACAAACG
Found at i:25248979 original size:54 final size:53
Alignment explanation
Indices: 25248654--25248984 Score: 236
Period size: 54 Copynumber: 6.1 Consensus size: 53
25248644 CCATCCTACA
* * * ** *
25248654 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAC-C
* * * ** *
25248708 ATGGTATTTCT-ATAATTTTTAGAAAGTTAAGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTT-TGGTAATTTTGTAAACC
*** * ***
25248763 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACC
* * * **
25248817 AGTGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACC
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACC
* * * * * * *
25248871 AGGGGTATTTTAGTAATTTTACAGA-CTAGGGTATTTTGGTAATTTTACTGATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAACC
** * *
25248925 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAA-CC
25248979 AGGGTA
1 AGGGTA
25248985 AAACAGTAAT
Statistics
Matches: 219, Mismatches: 46, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
53 40 0.18
54 128 0.58
55 18 0.08
56 33 0.15
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACC
Found at i:25248992 original size:27 final size:27
Alignment explanation
Indices: 25248963--25249225 Score: 355
Period size: 27 Copynumber: 9.7 Consensus size: 27
25248953 GGGTATTTTA
* *
25248963 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
** ** *
25248990 GTAATTCTACAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
25249017 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
25249044 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
25249071 GTATTTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
25249098 ATAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
25249125 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
25249152 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
25249179 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
25249206 GTAATTCTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGG
25249226 CATTTCAGTA
Statistics
Matches: 209, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:25250732 original size:14 final size:13
Alignment explanation
Indices: 25250702--25250743 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
25250692 CATAATTCTG
25250702 TTATTGTTTTA-TT
1 TTATT-TTTTATTT
25250715 TTATGTTTTTATTT
1 TTAT-TTTTTATTT
25250729 TTATTTATTTATTT
1 TTATTT-TTTATTT
25250743 T
1 T
25250744 CTTTATCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:25260743 original size:6 final size:6
Alignment explanation
Indices: 25260732--25260764 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
25260722 TCAGTTTCCT
25260732 TTTTTA TTTTTA TTTTT- TATTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTT
25260765 CACCTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 23 0.92
7 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:25260754 original size:12 final size:12
Alignment explanation
Indices: 25260731--25260764 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
25260721 GTCAGTTTCC
25260731 TTTTTTATTTTTA
1 TTTTTTA-TTTTA
25260744 TTTTTTATTTTA
1 TTTTTTATTTTA
25260756 -TTTTTATTT
1 TTTTTTATTT
25260765 CACCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 5 0.24
13 7 0.33
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:25262523 original size:6 final size:6
Alignment explanation
Indices: 25262504--25262538 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
25262494 ATTGAGTTCA
25262504 TTTA-T TTTATTT TTTATT TTTATT TTTATT TTTAT
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTAT
25262539 GTTTCTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.14
6 19 0.68
7 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:25264565 original size:103 final size:103
Alignment explanation
Indices: 25264386--25264592 Score: 353
Period size: 103 Copynumber: 2.0 Consensus size: 103
25264376 GCACATGCCC
* *
25264386 GTGTAAGCCACACGGGCTGGCCATCTGCCAATACGCAAGCCCGTGTTGATTTCGAGTCCTACTTC
1 GTGTAAGCCACACGGGCTGGCCATCTGCCAATACGCAAGCCCGTGTCGATTTCGAGCCCTACTTC
*
25264451 TCTTTTACACTGAAAAACTCAATTTTTAGGGTTTCTAA
66 TCTTTTACACTGAAAAACTCAATTTTTAGGGTTTATAA
*
25264489 GTGTAAGCCACACGGGCTGGCCA-CATGCCAATACGCGAGCCCGTGTCGATTTCGAGCCCTACTT
1 GTGTAAGCCACACGGGCTGGCCATC-TGCCAATACGCAAGCCCGTGTCGATTTCGAGCCCTACTT
*
25264553 CTCTTTTACACTGAAAAATTCAATTTTTAGGGTTTATAA
65 CTCTTTTACACTGAAAAACTCAATTTTTAGGGTTTATAA
25264592 G
1 G
25264593 CATTCTAAAG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 1 0.01
103 97 0.99
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (103 bp):
GTGTAAGCCACACGGGCTGGCCATCTGCCAATACGCAAGCCCGTGTCGATTTCGAGCCCTACTTC
TCTTTTACACTGAAAAACTCAATTTTTAGGGTTTATAA
Found at i:25265157 original size:28 final size:28
Alignment explanation
Indices: 25265126--25265181 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25265116 TTTTAATTAG
25265126 AAAGAGATTTCAATTAATCAACCTAGAT
1 AAAGAGATTTCAATTAATCAACCTAGAT
25265154 AAAGAGATTTCAATTAATCAACCTAGAT
1 AAAGAGATTTCAATTAATCAACCTAGAT
25265182 TCAGTTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (28 bp):
AAAGAGATTTCAATTAATCAACCTAGAT
Found at i:25266164 original size:14 final size:16
Alignment explanation
Indices: 25266145--25266187 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
25266135 GGTAATCCAT
25266145 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
25266159 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
25266175 ATTCAGTTTAATT
1 ATTTA-TTTAATT
25266188 CATGTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 5 0.20
17 7 0.28
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:25268093 original size:19 final size:19
Alignment explanation
Indices: 25268069--25268107 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25268059 GTTATAGATG
25268069 TATGAAATAATCACATGCC
1 TATGAAATAATCACATGCC
25268088 TATGAAATAATCACATGCC
1 TATGAAATAATCACATGCC
25268107 T
1 T
25268108 GGTAATGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (19 bp):
TATGAAATAATCACATGCC
Found at i:25276226 original size:37 final size:37
Alignment explanation
Indices: 25276180--25276250 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
25276170 GGTAAGTCAT
* *
25276180 CCCAAGTTCGGTACTATTAAGGTAAACAATACCCATC
1 CCCAAGTTCGGCACTATTAAGGTAAACAACACCCATC
*
25276217 CCCAAGTTCGGCACTTTTAAGGTAAACAACACCC
1 CCCAAGTTCGGCACTATTAAGGTAAACAACACCC
25276251 GATTAAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.23
Consensus pattern (37 bp):
CCCAAGTTCGGCACTATTAAGGTAAACAACACCCATC
Found at i:25276578 original size:56 final size:57
Alignment explanation
Indices: 25276504--25276615 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 57
25276494 TGAGGCCGTG
25276504 TGGAAACAGGGCAAAAATTTCC-CTAACACGGGCTACGATAAATTGCCACGACCATGT
1 TGGAAACAGGGCAAAAATTTCCTC-AACACGGGCTACGATAAATTGCCACGACCATGT
*
25276561 TGGAAACA-GGCAAAAATTTCCTCAACACGGGCTACGATAAATTGCCACGGCCATG
1 TGGAAACAGGGCAAAAATTTCCTCAACACGGGCTACGATAAATTGCCACGACCATG
25276616 CGACATGGCC
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 44 0.83
57 9 0.17
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (57 bp):
TGGAAACAGGGCAAAAATTTCCTCAACACGGGCTACGATAAATTGCCACGACCATGT
Found at i:25284738 original size:21 final size:21
Alignment explanation
Indices: 25284712--25284752 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
25284702 CACGACCGTC
25284712 TGACCTATCCACATGGCCATT
1 TGACCTATCCACATGGCCATT
*
25284733 TGACCTATTCACATGGCCAT
1 TGACCTATCCACATGGCCAT
25284753 GTAGCCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (21 bp):
TGACCTATCCACATGGCCATT
Found at i:25284760 original size:21 final size:21
Alignment explanation
Indices: 25284713--25284767 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
25284703 ACGACCGTCT
* *
25284713 GACCTATCCACATGGCCATTT
1 GACCTATTCACATGGCCATTA
25284734 GACCTATTCACATGGCCATGTA
1 GACCTATTCACATGGCCAT-TA
25284756 G-CCTATCTCACA
1 GACCTAT-TCACA
25284768 CAGGCACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (21 bp):
GACCTATTCACATGGCCATTA
Found at i:25286050 original size:34 final size:34
Alignment explanation
Indices: 25286012--25286079 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
25286002 TTCCCACATC
25286012 TTTCGTAATTCCTTTCTCATCTGCTCCTCTCTTT
1 TTTCGTAATTCCTTTCTCATCTGCTCCTCTCTTT
*
25286046 TTTCGTAATTCCTTTCTCTTCTGCTCCTCTCTTT
1 TTTCGTAATTCCTTTCTCATCTGCTCCTCTCTTT
25286080 CCCTACTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.07, C:0.32, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTCGTAATTCCTTTCTCATCTGCTCCTCTCTTT
Found at i:25297972 original size:60 final size:60
Alignment explanation
Indices: 25297879--25298000 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
25297869 ATTTTTGTTA
25297879 TTGGTTTGAAGTGATGCATTCGGCTATGGGTTGTAGAGTGTCTTGGTGGGGGGTTTGATG
1 TTGGTTTGAAGTGATGCATTCGGCTATGGGTTGTAGAGTGTCTTGGTGGGGGGTTTGATG
* *
25297939 TTGGTTTGAAGTGATGCATTCGGCTATGGGTTGTAGAGTGTCTTGGTGGGTGTTTTGATG
1 TTGGTTTGAAGTGATGCATTCGGCTATGGGTTGTAGAGTGTCTTGGTGGGGGGTTTGATG
25297999 TT
1 TT
25298001 TTTGTTATGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.13, C:0.07, G:0.39, T:0.41
Consensus pattern (60 bp):
TTGGTTTGAAGTGATGCATTCGGCTATGGGTTGTAGAGTGTCTTGGTGGGGGGTTTGATG
Found at i:25300053 original size:49 final size:49
Alignment explanation
Indices: 25299993--25301100 Score: 2005
Period size: 49 Copynumber: 22.6 Consensus size: 49
25299983 GATAATTGTG
25299993 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300040 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300089 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300138 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300187 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300236 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300285 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300334 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300383 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300432 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300481 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300530 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300579 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300628 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300677 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300726 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25300775 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25300824 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25300875 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25300926 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25300977 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
25301028 ATGTGAAAGTG--TATATATGTGAT-AGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
25301075 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
25301101 TCCCGAAGGG
Statistics
Matches: 1046, Mismatches: 7, Indels: 15
0.98 0.01 0.01
Matches are distributed among these distances:
46 2 0.00
47 50 0.05
48 5 0.00
49 788 0.75
51 201 0.19
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:25305263 original size:20 final size:20
Alignment explanation
Indices: 25305238--25305276 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25305228 AAGGACTAAA
* *
25305238 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
25305258 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
25305277 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:25313031 original size:37 final size:36
Alignment explanation
Indices: 25312978--25313117 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 36
25312968 CGAATAGTCC
25312978 CCACACGTAGTCATCGGGTCTTACCCGGACGAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAC-AAATCT
*
25313015 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAC-AAATCT
25313052 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACA-AATCT
25313089 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
25313118 ATATATTTCC
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 1 0.01
37 98 0.99
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (36 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAATCT
Found at i:25313316 original size:48 final size:48
Alignment explanation
Indices: 25313258--25313499 Score: 439
Period size: 48 Copynumber: 5.0 Consensus size: 48
25313248 ATATACACAC
* *
25313258 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
25313306 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
25313354 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
25313402 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
25313450 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
25313498 AT
1 AT
25313500 ATTTATCTTG
Statistics
Matches: 189, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 189 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:25317066 original size:28 final size:28
Alignment explanation
Indices: 25317035--25317191 Score: 136
Period size: 28 Copynumber: 5.5 Consensus size: 28
25317025 CTGACTGATT
*
25317035 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
25317063 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
25317092 TCACACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
25317120 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
25317149 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
25317177 TTGCACACACAGTGC
1 TCGCACACATAGTGC
25317192 CTCATAACTC
Statistics
Matches: 99, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.55
29 43 0.43
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:25317099 original size:29 final size:29
Alignment explanation
Indices: 25317062--25317163 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
25317052 GATTAAAGAA
25317062 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * **
25317091 CTCACACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
25317119 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
25317148 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
25317164 TCGGTTGAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:25317109 original size:57 final size:57
Alignment explanation
Indices: 25317038--25317195 Score: 226
Period size: 57 Copynumber: 2.8 Consensus size: 57
25317028 ACTGATTTCG
* * *
25317038 CACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTCA
1 CACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTCA
** **
25317095 CACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTGG
1 CACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTCA
* * *
25317152 CACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 CACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
25317196 TAACTCCAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 91 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
CACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTCA
Found at i:25317269 original size:40 final size:40
Alignment explanation
Indices: 25317223--25317473 Score: 430
Period size: 40 Copynumber: 6.3 Consensus size: 40
25317213 CTTTCGAGGT
*
25317223 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
25317263 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAA
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
25317303 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
25317343 TTAGCCCGGATACACCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
25317383 TTAGCCCGGATTCATCACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
25317423 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
25317463 TTAGCCCGGAT
1 TTAGCCCGGAT
25317474 CTATATAACT
Statistics
Matches: 200, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 200 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:25317637 original size:26 final size:26
Alignment explanation
Indices: 25317608--25317659 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
25317598 CATACAAAGA
25317608 TCACATTTATAGTCATAACACTCTTT
1 TCACATTTATAGTCATAACACTCTTT
*
25317634 TCACATTTATAGTCATAACCCTCTTT
1 TCACATTTATAGTCATAACACTCTTT
25317660 CAAAATTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.42
Consensus pattern (26 bp):
TCACATTTATAGTCATAACACTCTTT
Found at i:25318939 original size:37 final size:37
Alignment explanation
Indices: 25318789--25318928 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
25318779 CGAATAGTCC
* * *
25318789 CCACACGTAGTTATCGGGTCTTACTCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
25318826 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
25318863 CCACACGTAGTCATCGGGTCTTACCCGGACATAATTT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
25318900 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
25318929 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:25319130 original size:48 final size:48
Alignment explanation
Indices: 25319069--25319358 Score: 517
Period size: 48 Copynumber: 6.0 Consensus size: 48
25319059 ATATACACAC
*
25319069 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
25319117 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
25319165 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
25319213 ATCTCATACATATTTCACATTAGCCATTCGGCTTGACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
25319261 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
25319309 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
25319357 AT
1 AT
25319359 ATTTATCTTG
Statistics
Matches: 231, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 231 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:25322621 original size:26 final size:26
Alignment explanation
Indices: 25322591--25322672 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
25322581 TGAAATTCCC
25322591 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
25322617 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
25322643 TTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25322669 ATCA
1 ATCA
25322673 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25329551 original size:48 final size:48
Alignment explanation
Indices: 25329480--25329575 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
25329470 TGCAGCCAGT
25329480 GTAGGGAACTCAAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGA
1 GTAGGGAACTCAAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGA
* *
25329528 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCGGTGTGGTAGA
1 GTAGGGAACTCAAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGA
25329576 AATCATTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (48 bp):
GTAGGGAACTCAAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGA
Found at i:25335484 original size:31 final size:31
Alignment explanation
Indices: 25335448--25335523 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
25335438 AAAGCAGGAT
*
25335448 CACACGCCCGTGTGTGTAGGCTGTGTGGTCA
1 CACACGCCCGTGTGTGTAAGCTGTGTGGTCA
25335479 CACACGCCCGTGTGTGTAAGCTGTGTGGTCA
1 CACACGCCCGTGTGTGTAAGCTGTGTGGTCA
*
25335510 CACACGCCCATGTG
1 CACACGCCCGTGTG
25335524 CTGAGGTTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.16, C:0.29, G:0.32, T:0.24
Consensus pattern (31 bp):
CACACGCCCGTGTGTGTAAGCTGTGTGGTCA
Found at i:25342764 original size:60 final size:60
Alignment explanation
Indices: 25342688--25342817 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
25342678 AACTATGTTA
* * *
25342688 ATATGGG-TAAGGCCCAATATA-TCTCGA-ATTGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCT-AGGCCCAATATACTCT-GATACTATAA-AGGGCTACGGCCCAGATTAATACTG
* * *
25342748 ATATGGGCTAGGCCCAATATACTCTGATACTATAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATACTATAAAGGGCTACGGCCCAGATTAATACTG
25342808 ATATGGGCTA
1 ATATGGGCTA
25342818 AGGACCAGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
60 52 0.85
61 9 0.15
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATACTCTGATACTATAAAGGGCTACGGCCCAGATTAATACTG
Found at i:25343520 original size:16 final size:17
Alignment explanation
Indices: 25343488--25343520 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25343478 CATCAAGAAG
25343488 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
25343506 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
25343521 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:25346864 original size:14 final size:13
Alignment explanation
Indices: 25346834--25346870 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
25346824 ATGTTTAAAA
25346834 ACTTTTATTTTTT
1 ACTTTTATTTTTT
25346847 -CTTTTATGTTTTT
1 ACTTTTAT-TTTTT
25346860 ACTTTTATTTT
1 ACTTTTATTTT
25346871 ATTTTAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 8 0.36
14 7 0.32
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (13 bp):
ACTTTTATTTTTT
Found at i:25350038 original size:35 final size:35
Alignment explanation
Indices: 25349982--25350051 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
25349972 ACACGGCCTA
* * * *
25349982 AGCCTTGCCACAATGGTAGCTCACATGCCCGTGTC
1 AGCCGTGCCACAAGGGCAGCTCACACGCCCGTGTC
25350017 AGCCGTGCCACAAGGGCAGCTCACACGCCCGTGTC
1 AGCCGTGCCACAAGGGCAGCTCACACGCCCGTGTC
25350052 TTTCGAGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.20, C:0.37, G:0.26, T:0.17
Consensus pattern (35 bp):
AGCCGTGCCACAAGGGCAGCTCACACGCCCGTGTC
Found at i:25364234 original size:40 final size:40
Alignment explanation
Indices: 25364179--25364400 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
25364169 TATTCGAATG
* *
25364179 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
25364219 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
25364259 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
25364299 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
25364339 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
25364379 ATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25364401 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 13 0.08
40 150 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:25364578 original size:40 final size:40
Alignment explanation
Indices: 25364523--25364603 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
25364513 GTCAGCTACC
*
25364523 AGACTCGGAAGTGTCAAAGTTGAAGTCATCCACACTATCT
1 AGACTCGGAAGTGTCAAAGTCGAAGTCATCCACACTATCT
25364563 AGACTCGGAAGTGTCAAAGTCGAAGTCATCCACACTATCT
1 AGACTCGGAAGTGTCAAAGTCGAAGTCATCCACACTATCT
25364603 A
1 A
25364604 AGCCACCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
AGACTCGGAAGTGTCAAAGTCGAAGTCATCCACACTATCT
Found at i:25372396 original size:40 final size:40
Alignment explanation
Indices: 25372300--25372522 Score: 333
Period size: 40 Copynumber: 5.6 Consensus size: 40
25372290 TATTCGAATG
* *
25372300 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGAAT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
*
25372340 GATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTATTGACT
1 -ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
* *
25372381 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
25372421 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
* * *
25372461 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTA-TTGACT
*
25372501 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25372523 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 114 0.68
41 40 0.24
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
Found at i:25377011 original size:36 final size:38
Alignment explanation
Indices: 25376961--25377031 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 38
25376951 TACTAGAACT
25376961 CAACTTTTGCA-TTTTATGCAATTTAGT-CTTTCCACC
1 CAACTTTTGCATTTTTATGCAATTTAGTCCTTTCCACC
*
25376997 CAACTTTTGTATTTTTATGCAATTTAGTCCTTTCC
1 CAACTTTTGCATTTTTATGCAATTTAGTCCTTTCC
25377032 CTAATTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 10 0.31
37 16 0.50
38 6 0.19
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (38 bp):
CAACTTTTGCATTTTTATGCAATTTAGTCCTTTCCACC
Found at i:25387278 original size:16 final size:15
Alignment explanation
Indices: 25387248--25387286 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
25387238 CATATAAAGT
* *
25387248 TAATAATAATTAATA
1 TAATTATAATGAATA
25387263 TATATTATAATGAATA
1 TA-ATTATAATGAATA
25387279 TAATTATA
1 TAATTATA
25387287 TATTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAATTATAATGAATA
Found at i:25387294 original size:16 final size:16
Alignment explanation
Indices: 25387253--25387294 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
25387243 AAAGTTAATA
25387253 ATAATTAATATATATT
1 ATAATTAATATATATT
*
25387269 ATAATGAATATA-ATT
1 ATAATTAATATATATT
25387284 ATATATTAATA
1 ATA-ATTAATA
25387295 ATTATCATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATTAATATATATT
Found at i:25387406 original size:29 final size:30
Alignment explanation
Indices: 25387349--25387406 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
25387339 GTTTTGAAAA
* * *
25387349 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
25387379 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
25387407 AAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:25395148 original size:7 final size:7
Alignment explanation
Indices: 25395136--25395171 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
25395126 ATTTCTAATG
25395136 ATCCCTC
1 ATCCCTC
25395143 ATCCCTC
1 ATCCCTC
25395150 ATCCCTC
1 ATCCCTC
25395157 AT-CCTC
1 ATCCCTC
*
25395163 ATTCCTC
1 ATCCCTC
25395170 AT
1 AT
25395172 TCATTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (7 bp):
ATCCCTC
Found at i:25395155 original size:14 final size:13
Alignment explanation
Indices: 25395136--25395171 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
25395126 ATTTCTAATG
25395136 ATCCCTCATCCCTC
1 ATCCCTCAT-CCTC
25395150 ATCCCTCATCCTC
1 ATCCCTCATCCTC
*
25395163 ATTCCTCAT
1 ATCCCTCAT
25395172 TCATTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (13 bp):
ATCCCTCATCCTC
Found at i:25398033 original size:69 final size:70
Alignment explanation
Indices: 25397902--25398033 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 70
25397892 AGTTTATTAC
* * * * *
25397902 TAATTAATTTACTGCTGTAATGCTGTAAATTGTTGGCTGTCCAAATTAGGACAAATTTATGGTAC
1 TAATTAATATACTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTAC
25397967 TTAGT
66 TTAGT
*
25397972 TAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 TAATTAATATACTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
25398034 GTTATGTGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
69 35 0.62
70 21 0.38
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (70 bp):
TAATTAATATACTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTAC
TTAGT
Found at i:25398845 original size:40 final size:40
Alignment explanation
Indices: 25398792--25398975 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
25398782 CTTTGATGTA
** * *
25398792 TATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG
* *
25398832 TATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* ** *
25398872 TATCCAGACTT-AAGGTCTGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
**
25398911 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* *
25398950 TATCCGGACTT-AAGATCCGTAGGCTT
1 TATCCGGACTTAAAGACCCGCAGGCTT
25398976 TGTGTTGGTG
Statistics
Matches: 130, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 86 0.66
40 44 0.34
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:25398905 original size:39 final size:39
Alignment explanation
Indices: 25398821--25398975 Score: 220
Period size: 39 Copynumber: 3.9 Consensus size: 39
25398811 GCAGGCTATA
* * ** *
25398821 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCTTTG
1 TGCTGGAATTGTATCCGGACTT-AAGGTCCGCAGGCTTCG
* *
25398861 TGCTGGAATTGTATCCAGACTTAAGGTCTGCAGGCTTCG
1 TGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCG
25398900 TGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCG
1 TGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCG
* *
25398939 TGCTGGAATTGTATCCGGACTTAAGATCCGTAGGCTT
1 TGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTT
25398976 TGTGTTGGTG
Statistics
Matches: 104, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 85 0.82
40 19 0.18
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
TGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCG
Found at i:25406329 original size:42 final size:43
Alignment explanation
Indices: 25406282--25406396 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
25406272 ACCTGTTTTG
* * * *
25406282 CGTGTAAGACCATGTTTGGGACATTGGCATCG-TATCTGATTT
1 CGTGTAAGACCATGTCTAGGACAGTGGCATCGATATCTGATTA
* * *
25406324 CGTGTAAGACCCTGTCTAGGACAGTGGCATCGATGTTTGATTA
1 CGTGTAAGACCATGTCTAGGACAGTGGCATCGATATCTGATTA
* **
25406367 CATGTAAGACCACATCTAGGAC-GCTGGCAT
1 CGTGTAAGACCATGTCTAGGACAG-TGGCAT
25406397 TATATTTTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACAGTGGCATCGATATCTGATTA
Found at i:25408964 original size:21 final size:20
Alignment explanation
Indices: 25408938--25408979 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
25408928 GTCCTTAAGC
* *
25408938 AAACTAAACAGAAGAAACTAA
1 AAACTAAAAACAAGAAA-TAA
25408959 AAACTAAAAACAAGAAATAA
1 AAACTAAAAACAAGAAATAA
25408979 A
1 A
25408980 CATTCAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (20 bp):
AAACTAAAAACAAGAAATAA
Found at i:25410968 original size:12 final size:12
Alignment explanation
Indices: 25410951--25410976 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25410941 TAAGAGATTA
25410951 ATTATATCTTCC
1 ATTATATCTTCC
25410963 ATTATATCTTCC
1 ATTATATCTTCC
25410975 AT
1 AT
25410977 ATTTTCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTATATCTTCC
Found at i:25413632 original size:12 final size:13
Alignment explanation
Indices: 25413610--25413638 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25413600 TAATTAAATG
25413610 AATTAAAAAGCCA
1 AATTAAAAAGCCA
25413623 AATT-AAAAGCCA
1 AATTAAAAAGCCA
25413635 AATT
1 AATT
25413639 TTATCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:25414548 original size:42 final size:42
Alignment explanation
Indices: 25414488--25414639 Score: 187
Period size: 42 Copynumber: 3.6 Consensus size: 42
25414478 AGATTAAGTC
* * * *
25414488 TAAGACGATATCTGGGATATGGTATCGATATGAGACTTCGTG
1 TAAGACCATATCTAGGATATGGCATCGATAAGAGACTTCGTG
* *
25414530 TAAGACCATATCTAGGATATGGCATAGATACGAGACTTCGTG
1 TAAGACCATATCTAGGATATGGCATCGATAAGAGACTTCGTG
* * * * * *
25414572 TAAGACCATACCTGGGCTATTGCCATCGATAAGAGATTTCATG
1 TAAGACCATATCTAGGATA-TGGCATCGATAAGAGACTTCGTG
25414615 TAAGACCATATCTAGGATATGGCAT
1 TAAGACCATATCTAGGATATGGCAT
25414640 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 58 0.63
43 34 0.37
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATGGCATCGATAAGAGACTTCGTG
Found at i:25428401 original size:41 final size:43
Alignment explanation
Indices: 25428302--25428417 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 43
25428292 GAATGCCAAC
*
25428302 GTCCCAGACGTGGTCTTACATGTAATCACATACCGAAGCCACT
1 GTCCCAGACATGGTCTTACATGTAATCACATACCGAAGCCACT
* * * * *
25428345 GTCCCAGATAGGGTCTTACATG-AATGACATA-CGATGCTGA-T
1 GTCCCAGACATGGTCTTACATGTAATCACATACCGAAGC-CACT
* *
25428386 GTCCCAGACATGGTCTTACACGTAACCACATA
1 GTCCCAGACATGGTCTTACATGTAATCACATA
25428418 TATCAATCCC
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 25 0.42
42 16 0.27
43 19 0.32
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAATCACATACCGAAGCCACT
Found at i:25428478 original size:45 final size:45
Alignment explanation
Indices: 25428384--25428472 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
25428374 TACGATGCTG
* * **
25428384 ATGTCCCAGACATGGTCTTACACGTAACCACATATATCAATCCCA
1 ATGTCCTAGACATGGTCTTACACGTAAACACATATAGAAATCCCA
*
25428429 ATGTCCTAGACATGGTCTTACACG-AGAACACATATCGGAAATCC
1 ATGTCCTAGACATGGTCTTACACGTA-AACACATAT-AGAAATCC
25428473 TATGTCATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 1 0.03
45 31 0.84
46 5 0.14
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (45 bp):
ATGTCCTAGACATGGTCTTACACGTAAACACATATAGAAATCCCA
Found at i:25432794 original size:42 final size:42
Alignment explanation
Indices: 25432679--25432796 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
25432669 ATACGAATGC
****
25432679 CATATCCCAGATATGGTCTTACATGGGATCTCATATCAATAT
1 CATATCCCAGATATGGTCTTACACAAAATCTCATATCAATAT
* * *
25432721 CAATAGCCCAGTTATGGTCTTACACAAAATCTCATATCGATAT
1 C-ATATCCCAGATATGGTCTTACACAAAATCTCATATCAATAT
* *
25432764 CATATCTCAGATATGGTCTTACACATAATCTCA
1 CATATCCCAGATATGGTCTTACACAAAATCTCA
25432797 ACTAACCATA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACAAAATCTCATATCAATAT
Found at i:25434415 original size:17 final size:17
Alignment explanation
Indices: 25434393--25434426 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25434383 TAGGTAAGTT
25434393 TGATTAAGGTCAATGAG
1 TGATTAAGGTCAATGAG
25434410 TGATTAAGGTCAATGAG
1 TGATTAAGGTCAATGAG
25434427 ATCAATCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
TGATTAAGGTCAATGAG
Found at i:25436211 original size:12 final size:13
Alignment explanation
Indices: 25436189--25436217 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25436179 TAATTAAATT
25436189 AATTAAAAAGCCA
1 AATTAAAAAGCCA
25436202 AATT-AAAAGCCA
1 AATTAAAAAGCCA
25436214 AATT
1 AATT
25436218 TTATCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:25440943 original size:42 final size:42
Alignment explanation
Indices: 25440897--25441050 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
25440887 TGAGATTACT
* *
25440897 TGTAAGACCATATCTGGGATATGGCATTGATATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTTG
* *
25440939 TGTAAGACCCTATCTGGGATATGGCATCGATACGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTTG
* * * *
25440981 TGTAAGACCATAGCTGGGCTATTGGCATCGACACGAGA-TTTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGACTTT-G
*
25441024 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
25441051 TGGTACGGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTTG
Found at i:25441069 original size:85 final size:84
Alignment explanation
Indices: 25440897--25441069 Score: 197
Period size: 85 Copynumber: 2.0 Consensus size: 84
25440887 TGAGATTACT
* * * * * * *
25440897 TGTAAGACCATATCTGGGATATGGCATTGATATGAGACTTTGTGTAAGACCCTATCTGGGATATG
1 TGTAAGACCATAGCTGGGATATGGCATCGACACGAGACTTTATGTAAGACCATATCTAGGATATG
**
25440962 GCATCGATACGAGACTTCG
66 GCATCGATACGAGACTGAG
*
25440981 TGTAAGACCATAGCTGGGCTATTGGCATCGACACGAGA-TTTCATGTAAGACCATATCTAGGATA
1 TGTAAGACCATAGCTGGGATA-TGGCATCGACACGAGACTTT-ATGTAAGACCATATCTAGGATA
* *
25441045 TGGCATTGGTACG-GTACTGAG
64 TGGCATCGATACGAG-ACTGAG
25441066 TGTA
1 TGTA
25441070 CGAGATTCCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
84 23 0.31
85 51 0.69
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (84 bp):
TGTAAGACCATAGCTGGGATATGGCATCGACACGAGACTTTATGTAAGACCATATCTAGGATATG
GCATCGATACGAGACTGAG
Found at i:25452115 original size:45 final size:45
Alignment explanation
Indices: 25452042--25452138 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
25452032 TAATGAATAG
* *
25452042 AAATAGAGAAATGGAAAACATTTAGAAATGATTATAGTTTTCTCCA
1 AAATGGAGAAATGGAAAACATTTAGAAATGAATATAGTTTTCT-CA
* * *
25452088 AAATGGAGAAATGG-AACCATTTAGAAATGAATGTGGTTTTCTCA
1 AAATGGAGAAATGGAAAACATTTAGAAATGAATATAGTTTTCTCA
25452132 AAATGGA
1 AAATGGA
25452139 AATGAAAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.20
45 24 0.52
46 13 0.28
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (45 bp):
AAATGGAGAAATGGAAAACATTTAGAAATGAATATAGTTTTCTCA
Found at i:25455457 original size:10 final size:9
Alignment explanation
Indices: 25455434--25455462 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25455424 ATTATAACAG
25455434 TAAAAAATA
1 TAAAAAATA
25455443 TAAAAAATA
1 TAAAAAATA
25455452 TAAAAAA-A
1 TAAAAAATA
25455460 TAA
1 TAA
25455463 TATATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
TAAAAAATA
Found at i:25455883 original size:19 final size:19
Alignment explanation
Indices: 25455859--25455896 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25455849 TTTGAACTTT
25455859 TATTTTTTAATAATTTTAA
1 TATTTTTTAATAATTTTAA
*
25455878 TATTTTTTTATAATTTTAA
1 TATTTTTTAATAATTTTAA
25455897 AAAGTTTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTTTAATAATTTTAA
Found at i:25456902 original size:2 final size:2
Alignment explanation
Indices: 25456895--25456939 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
25456885 GTCACACCTA
*
25456895 AT AT AT AT AT AT AT AT AT AT AT TT 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
25456937 AT A
1 AT A
25456940 CGGTTAGGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:25459709 original size:42 final size:42
Alignment explanation
Indices: 25459650--25459771 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
25459640 TTAGGATTAC
25459650 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
25459692 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTAGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
25459735 CGAGATTACATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
25459772 TGGTATGGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:25463227 original size:15 final size:16
Alignment explanation
Indices: 25463191--25463228 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
25463181 GAAAATGTAA
25463191 TAATTAAACACGAAAC
1 TAATTAAACACGAAAC
*
25463207 TAATTAAAGAC-AAAC
1 TAATTAAACACGAAAC
*
25463222 TCATTAA
1 TAATTAA
25463229 GTGCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (16 bp):
TAATTAAACACGAAAC
Found at i:25466193 original size:26 final size:26
Alignment explanation
Indices: 25466133--25466194 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
25466123 TCTCAAAAGT
*
25466133 ACTTCTCAAAAGTACTTTTCCACAGC
1 ACTTCTCAAAAGTACTTTTCCACAAC
* *
25466159 ATTTTTCAAAAGTACTTTTCCACAAC
1 ACTTCTCAAAAGTACTTTTCCACAAC
25466185 ACTTCTCAAA
1 ACTTCTCAAA
25466195 TGTAACGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (26 bp):
ACTTCTCAAAAGTACTTTTCCACAAC
Found at i:25468856 original size:73 final size:72
Alignment explanation
Indices: 25468734--25468897 Score: 251
Period size: 73 Copynumber: 2.3 Consensus size: 72
25468724 GGATAGAAGC
25468734 ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAACAGAAGATGCTTCAG
1 ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAA-AGAAGATGCTTCAG
25468799 ACGA-GAGA
65 AC-ATGAGA
* * * *
25468807 ATGAAAGAGAGAGAGAAGGTTGTAAGGAAATGGGAAGAAGAA-TGAAAAAAAGAAGATGCTTCAT
1 ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTG-AAAAAAGAAGATGCTTCAG
25468871 ACATGAGA
65 ACATGAGA
25468879 ATGAAAAAGAGGGAGAAGG
1 ATGAAAAAGAGGGAGAAGG
25468898 GTAAAGTTGA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
71 1 0.01
72 38 0.46
73 44 0.53
ACGTcount: A:0.49, C:0.04, G:0.34, T:0.13
Consensus pattern (72 bp):
ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAAAGAAGATGCTTCAGA
CATGAGA
Found at i:25468895 original size:72 final size:73
Alignment explanation
Indices: 25468734--25468897 Score: 260
Period size: 72 Copynumber: 2.3 Consensus size: 73
25468724 GGATAGAAGC
*
25468734 ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAACAGAAGATGCTTCAG
1 ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAAAAGAAGATGCTTCAG
25468799 ACGAGAGA
66 ACGAGAGA
* * * *
25468807 ATGAAAGAGAGAGAGAAGGTTGTAAGGAAATGGGAAGAAGAA-TGAAAAAAAGAAGATGCTTCAT
1 ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAAAAGAAGATGCTTCAG
25468871 AC-ATGAGA
66 ACGA-GAGA
25468879 ATGAAAAAGAGGGAGAAGG
1 ATGAAAAAGAGGGAGAAGG
25468898 GTAAAGTTGA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.01
72 43 0.52
73 39 0.47
ACGTcount: A:0.49, C:0.04, G:0.34, T:0.13
Consensus pattern (73 bp):
ATGAAAAAGAGGGAGAAGGTTGGAAGGAAATGGGAAGAAGAATTGAAAAAAAGAAGATGCTTCAG
ACGAGAGA
Found at i:25469583 original size:22 final size:22
Alignment explanation
Indices: 25469552--25469607 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
25469542 ATTATACCTT
* **
25469552 TTTATCTTATAAATTGTATAGA
1 TTTATATTATAAATTAAATAGA
* *
25469574 TTTATATTATTAATTAAATTGA
1 TTTATATTATAAATTAAATAGA
*
25469596 TATATATTATAA
1 TTTATATTATAA
25469608 GGTTTAAGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTATATTATAAATTAAATAGA
Found at i:25469763 original size:19 final size:19
Alignment explanation
Indices: 25469739--25469775 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25469729 AAAAGACTCC
*
25469739 ATAATTAAAATTTTAATTT
1 ATAATTAAAATTTAAATTT
*
25469758 ATAATTATAATTTAAATT
1 ATAATTAAAATTTAAATT
25469776 AACCTGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATTAAAATTTAAATTT
Found at i:25474923 original size:32 final size:32
Alignment explanation
Indices: 25474887--25474953 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
25474877 TATTTTTTGT
* *
25474887 TTTTA-TATTAAAATTTTTTAAATTATTTGCTA
1 TTTTAGTATTAAAA-TTTTAAAATTATTTGCAA
* *
25474919 TTTTAGTTTTAATATTTTAAAATTATTTGCAA
1 TTTTAGTATTAAAATTTTAAAATTATTTGCAA
25474951 TTT
1 TTT
25474954 AAAATCGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 24 0.80
33 6 0.20
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (32 bp):
TTTTAGTATTAAAATTTTAAAATTATTTGCAA
Found at i:25475051 original size:20 final size:21
Alignment explanation
Indices: 25475013--25475053 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
25475003 GTCATTATTG
25475013 ATTTGATCACACTATGATGATA
1 ATTTGATCACAC-ATGATGATA
25475035 ATTTGATCACA-ATGATGAT
1 ATTTGATCACACATGATGAT
25475054 GCTAAACGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
ATTTGATCACACATGATGATA
Found at i:25476720 original size:5 final size:5
Alignment explanation
Indices: 25476710--25476735 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25476700 CAGCTGCATG
25476710 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
25476736 ATCCATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:25480778 original size:27 final size:28
Alignment explanation
Indices: 25480748--25480800 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
25480738 ATTCCACATC
* *
25480748 TATTTTATATTTTATA-TTTTAAAATAA
1 TATTATATATATTATATTTTTAAAATAA
25480775 TATTATATATATTATATTTTTAAAAT
1 TATTATATATATTATATTTTTAAAAT
25480801 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTATATATATTATATTTTTAAAATAA
Found at i:25482027 original size:21 final size:20
Alignment explanation
Indices: 25482003--25482099 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 20
25481993 GGATTGTTAT
25482003 TTTTAATAAATTTTTTTATAA
1 TTTT-ATAAATTTTTTTATAA
* *
25482024 TTTTA-AAATTTTTATAAATTCA
1 TTTTATAAATTTTT-T-TA-TAA
*
25482046 TTTTATAAATTTTGTTTGTAA
1 TTTTATAAATTTT-TTTATAA
*
25482067 TTTTAT-GATTTTTTTAAATAA
1 TTTTATAAATTTTTTT--ATAA
25482088 TTTT-TAAATTTT
1 TTTTATAAATTTT
25482100 AAAAGGGTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
19 11 0.18
20 8 0.13
21 25 0.42
22 7 0.12
23 8 0.13
24 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATAAATTTTTTTATAA
Found at i:25482035 original size:30 final size:31
Alignment explanation
Indices: 25482001--25482058 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
25481991 TTGGATTGTT
*
25482001 ATTTTTAATAAATT-TTTTTAT-AATTTTAAA
1 ATTTTT-ATAAATTCATTTTATAAATTTTAAA
25482031 ATTTTTATAAATTCATTTTATAAATTTT
1 ATTTTTATAAATTCATTTTATAAATTTT
25482059 GTTTGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 12 0.48
31 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTATAAATTCATTTTATAAATTTTAAA
Found at i:25482068 original size:43 final size:41
Alignment explanation
Indices: 25482003--25482099 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 41
25481993 GGATTGTTAT
*
25482003 TTTTAATAAATTTTTTTATAATTTTAAAATTTTTATAAATTCA
1 TTTT-ATAAATTTTTTTATAATTTTAAAATTTTTATAAA-TAA
* ** *
25482046 TTTTATAAATTTTGTTTGTAATTTTATGATTTTTTTAAATAA
1 TTTTATAAATTTT-TTTATAATTTTAAAATTTTTATAAATAA
25482088 TTTT-TAAATTTT
1 TTTTATAAATTTT
25482100 AAAAGGGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 8 0.17
42 15 0.31
43 25 0.52
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (41 bp):
TTTTATAAATTTTTTTATAATTTTAAAATTTTTATAAATAA
Found at i:25483520 original size:20 final size:20
Alignment explanation
Indices: 25483483--25483521 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25483473 TTTTTTCATG
*
25483483 TTTTAAATAAAAACATATAA
1 TTTTAAATAAAAAAATATAA
25483503 TTTTAAA-AAAATAAATATA
1 TTTTAAATAAAA-AAATATA
25483522 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTTAAATAAAAAAATATAA
Found at i:25490259 original size:3 final size:3
Alignment explanation
Indices: 25490251--25490275 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25490241 TCGATTTTAC
25490251 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
25490276 CCAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25490919 original size:3 final size:3
Alignment explanation
Indices: 25490911--25490961 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
25490901 CTATCATTGC
*
25490911 ATT ATT ATT ATT ATT AATT ATT ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
25490957 TTT AT
1 ATT AT
25490962 CATTGTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25506294 original size:30 final size:30
Alignment explanation
Indices: 25506260--25506319 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
25506250 TGTTTGGATT
*
25506260 TAGAATGCATTATAAGTAGATTTTGGTGGC
1 TAGAATGCATTATAAGTAAATTTTGGTGGC
25506290 TAGAATGCATTATAAGTAAATTTTGGTGGC
1 TAGAATGCATTATAAGTAAATTTTGGTGGC
25506320 AAAAACCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (30 bp):
TAGAATGCATTATAAGTAAATTTTGGTGGC
Found at i:25508058 original size:7 final size:7
Alignment explanation
Indices: 25508046--25508073 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
25508036 ATCCAAAAAT
25508046 GAAAGAA
1 GAAAGAA
25508053 GAAAGAA
1 GAAAGAA
25508060 GAAAGAA
1 GAAAGAA
25508067 GAAAGAA
1 GAAAGAA
25508074 AAACGATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
GAAAGAA
Done.