Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 136 of 186
Found at i:44828613 original size:29 final size:29
Alignment explanation
Indices: 44828550--44828617 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
44828540 TAATCAACCA
*
44828550 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44828579 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44828608 CGCACACTTA
1 CGCACACTTA
44828618 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44828787 original size:29 final size:29
Alignment explanation
Indices: 44828724--44828791 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
44828714 TAATCAACCA
*
44828724 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44828753 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44828782 CGCACACTTA
1 CGCACACTTA
44828792 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44828961 original size:29 final size:29
Alignment explanation
Indices: 44828898--44828965 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
44828888 TAATCAACCA
*
44828898 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44828927 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44828956 CGCACACTTA
1 CGCACACTTA
44828966 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44829108 original size:29 final size:30
Alignment explanation
Indices: 44829074--44829145 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
44829064 ATCAACCACG
*
44829074 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
44829103 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
44829132 CACACTTAGTGCCA
1 CACACTTAGTGCCA
44829146 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:44829139 original size:174 final size:174
Alignment explanation
Indices: 44828091--44829114 Score: 1976
Period size: 174 Copynumber: 5.9 Consensus size: 174
44828081 AACTCAAGGT
44828091 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
44828156 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
44828221 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * * *
44828265 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
44828330 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
44828395 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
44828439 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
44828504 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
44828569 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
44828613 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
44828678 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
44828743 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
44828787 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
44828852 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
44828917 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * * *
44828961 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
44829026 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
44829091 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
44829115 TGTACAATTT
Statistics
Matches: 838, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 838 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:44832575 original size:20 final size:20
Alignment explanation
Indices: 44832535--44832575 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44832525 ATGATTTCAT
* *
44832535 GAAATTTTTCTAAGTGTTCG
1 GAAATTTTTATAAGTGATCG
*
44832555 GAAATTTTTATATGTGATCG
1 GAAATTTTTATAAGTGATCG
44832575 G
1 G
44832576 TTGAGTCTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (20 bp):
GAAATTTTTATAAGTGATCG
Found at i:44836783 original size:6 final size:6
Alignment explanation
Indices: 44836757--44836795 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
44836747 TAATTAAGAT
* * *
44836757 AAATAA AGATAA AAGTGA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
44836796 GTTTTTAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:44838442 original size:13 final size:13
Alignment explanation
Indices: 44838424--44838448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44838414 TGTGGGTGCA
44838424 CATGGCCGTGTCG
1 CATGGCCGTGTCG
44838437 CATGGCCGTGTC
1 CATGGCCGTGTC
44838449 TTGCTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CATGGCCGTGTCG
Found at i:44843463 original size:21 final size:20
Alignment explanation
Indices: 44843439--44843494 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
44843429 GAAACAGGGC
44843439 ACACGCCTGTGTGGAAGGGAA
1 ACACGCC-GTGTGGAAGGGAA
* *
44843460 ACACGTCCGTGTAGAAGGGGA
1 ACACG-CCGTGTGGAAGGGAA
44843481 ACACGCCCGTGTGG
1 ACACG-CCGTGTGG
44843495 CCATTATAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.14
Consensus pattern (20 bp):
ACACGCCGTGTGGAAGGGAA
Found at i:44844694 original size:49 final size:47
Alignment explanation
Indices: 44844622--44844882 Score: 168
Period size: 46 Copynumber: 5.5 Consensus size: 47
44844612 AACATAAGGT
44844622 ATGTCCCAGACATAGTCTTACACTGACTATCGAAATTGAGGCCAATGCC
1 ATGTCCCAGACATAGTCTTACACTGACTA-C-AAATTGAGGCCAATGCC
* * * **
44844671 ATGTCCCAGACATGGTCTTACACTTG-CTCCCACATCTCCGTGCCAATGCC
1 ATGTCCCAGACATAGTCTTACAC-TGACT-ACAAAT-TGAG-GCCAATGCC
** *
44844721 ATGTCCCAGACATAGTCTTACACTGAC-ACATCTCGTA-GCCAATG-C
1 ATGTCCCAGACATAGTCTTACACTGACTACAAATTG-AGGCCAATGCC
* * *
44844766 ATGTCCCAGACAT-GTCTTACACT-AGCTTACATCA-CGAGGCCGATG-C
1 ATGTCCCAGACATAGTCTTACACTGA-C-TACA-AATTGAGGCCAATGCC
* ** * * *
44844812 ATGTCCCATACAT-GTCTTACACT-AGCT-CTCATCTCAATGCCGATGCC
1 ATGTCCCAGACATAGTCTTACACTGA-CTACAAAT-T-GAGGCCAATGCC
44844859 ATGTCCCAGACAT-GTCTTACACTG
1 ATGTCCCAGACATAGTCTTACACTG
44844883 GCCCACAAAT
Statistics
Matches: 175, Mismatches: 21, Indels: 33
0.76 0.09 0.14
Matches are distributed among these distances:
43 3 0.02
44 12 0.07
45 16 0.09
46 52 0.30
47 23 0.13
48 6 0.03
49 29 0.17
50 34 0.19
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (47 bp):
ATGTCCCAGACATAGTCTTACACTGACTACAAATTGAGGCCAATGCC
Found at i:44844732 original size:50 final size:47
Alignment explanation
Indices: 44844662--44844881 Score: 245
Period size: 46 Copynumber: 4.7 Consensus size: 47
44844652 CGAAATTGAG
*
44844662 GCCAATGCCATGTCCCAGACATGGTCTTACACTTGCTCCCACATCTCCGT
1 GCCAATGCCATGTCCCAGACAT-GTCTTACACTAGCT--CACATCTCCGT
*
44844712 GCCAATGCCATGTCCCAGACATAGTCTTACACT-G-ACACATCT-CGT
1 GCCAATGCCATGTCCCAGACAT-GTCTTACACTAGCTCACATCTCCGT
* * *
44844757 AGCCAATG-CATGTCCCAGACATGTCTTACACTAGCTTACATC-ACGAG
1 -GCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTCCG-T
* * * **
44844804 GCCGATG-CATGTCCCATACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTCCGT
*
44844850 GCCGATGCCATGTCCCAGACATGTCTTACACT
1 GCCAATGCCATGTCCCAGACATGTCTTACACT
44844882 GGCCCACAAA
Statistics
Matches: 149, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
44 10 0.07
45 18 0.12
46 65 0.44
47 23 0.15
49 1 0.01
50 32 0.21
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.26
Consensus pattern (47 bp):
GCCAATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTCCGT
Found at i:44856623 original size:28 final size:28
Alignment explanation
Indices: 44856580--44856695 Score: 130
Period size: 28 Copynumber: 4.2 Consensus size: 28
44856570 AGCATGGCTG
*
44856580 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGACAGAGCCA
* * * *
44856606 CCAGATATAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGACAGAGCCA
* *
44856634 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGACAGAGCCA
*
44856662 CCAGAAACAGATATTTGT-AGCAGAGCCA
1 CCAGAAACAGATAATTGTGA-CAGAGCCA
44856690 CCAGAA
1 CCAGAA
44856696 TGCTTCCTCC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.05
27 5 0.06
28 68 0.88
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGACAGAGCCA
Found at i:44856664 original size:56 final size:55
Alignment explanation
Indices: 44856580--44856695 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 55
44856570 AGCATGGCTG
* * * * *
44856580 CCAG-AACAGATATTGTGACAGAGTCACCAGATATAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGAAACAGATAATTGTAGCAGAGCCA
* *
44856634 CCAGAAACAGATATTTGTGGCAGAGCCACCAGAAACAGATATTTGTAGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATTGTAGCAGAGCCA
44856690 CCAGAA
1 CCAGAA
44856696 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 4 0.08
55 8 0.15
56 41 0.77
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGAAACAGATAATTGTAGCAGAGCCA
Found at i:44861602 original size:79 final size:79
Alignment explanation
Indices: 44861506--44861662 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
44861496 AGTTCTTTAT
44861506 GTTTTTGGAGTCCCGGTAACTTGATTTAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATT
1 GTTTTTGGAGTCCCGGTAACTTGATTTAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATT
44861571 TGGAAAAATACCCC
66 TGGAAAAATACCCC
*
44861585 GTTTTTTGAGTCCCGGTAACTTGATTTAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATT
1 GTTTTTGGAGTCCCGGTAACTTGATTTAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATT
44861650 TGGAAAAATACCC
66 TGGAAAAATACCC
44861663 ATAGGTAAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (79 bp):
GTTTTTGGAGTCCCGGTAACTTGATTTAGCTTATGCTAGCAATAATTCAACCTAGGGTTCATATT
TGGAAAAATACCCC
Found at i:44864583 original size:68 final size:68
Alignment explanation
Indices: 44864474--44864610 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
44864464 CTCCGTAGAC
44864474 TCAAATAAGGGACTATGTGTAAGAGAATGAACGCTTTGAAATATGAATAAAATTTTATGGCTCAT
1 TCAAATAAGGGACTATGTGTAAGAGAATGAACGCTTTGAAATATGAATAAAATTTTATGGCTCAT
44864539 ATT
66 ATT
44864542 TCAAATAAGGGACTATGTGTAAGAGAATGAACGCTTTGAAATATGAATAAAATTTTATGGCTCAT
1 TCAAATAAGGGACTATGTGTAAGAGAATGAACGCTTTGAAATATGAATAAAATTTTATGGCTCAT
44864607 ATT
66 ATT
44864610 T
1 T
44864611 TAGTTTAATG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (68 bp):
TCAAATAAGGGACTATGTGTAAGAGAATGAACGCTTTGAAATATGAATAAAATTTTATGGCTCAT
ATT
Found at i:44872540 original size:45 final size:45
Alignment explanation
Indices: 44872476--44872567 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
44872466 GATAAATGCT
44872476 TTTGGATTAGAATCGAATGATAATATGAGACTTACTAAGTGTTTA
1 TTTGGATTAGAATCGAATGATAATATGAGACTTACTAAGTGTTTA
44872521 TTTGGATTAGAATCGAATGATAATATGAGACTTACTAAGTGTTTA
1 TTTGGATTAGAATCGAATGATAATATGAGACTTACTAAGTGTTTA
44872566 TT
1 TT
44872568 AATTGACAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.39
Consensus pattern (45 bp):
TTTGGATTAGAATCGAATGATAATATGAGACTTACTAAGTGTTTA
Found at i:44881266 original size:43 final size:42
Alignment explanation
Indices: 44881211--44881365 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 42
44881201 ATATCGTACA
** * * *
44881211 ATGCCAACGTCCCAGACGCGATCTTACATGCCATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATCG
* *
44881254 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAATCACATATCG
* * *
44881295 ATGCCAATGTTCCAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-GAATCACATATCG
*
44881338 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
44881366 TGATAACACA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 26 0.28
42 18 0.19
43 50 0.53
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:44881310 original size:41 final size:43
Alignment explanation
Indices: 44881243--44881365 Score: 169
Period size: 41 Copynumber: 2.9 Consensus size: 43
44881233 CTTACATGCC
* *
44881243 ATCACATATCGATGCCACTGTCCCAGACAAGGTCTTACAC-GA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACAGA
* * *
44881285 ATCAAATA-CGATGCCAATGTTCCAGACATGGTCTTACACATA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACAGA
* *
44881327 ATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA
44881366 TGATAACACA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 28 0.40
42 15 0.21
43 27 0.39
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACAGA
Found at i:44884525 original size:26 final size:26
Alignment explanation
Indices: 44884489--44884572 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
44884479 CATGAAATTC
44884489 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44884515 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44884541 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
44884567 TTATCA
1 TTATCA
44884573 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44894581 original size:37 final size:37
Alignment explanation
Indices: 44894522--44894630 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
44894512 AGCTCAGACG
* *
44894522 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44894559 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
44894596 TACTCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44894631 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44894997 original size:22 final size:22
Alignment explanation
Indices: 44894925--44895001 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
44894915 GCTCACATTC
*
44894925 ATCACATAGGCCATTCGGCCTT
1 ATCACATAGGCCATTCAGCCTT
* *
44894947 ATCACATATATG-CATGTTCA-CATT
1 ATCAC--ATAGGCCA--TTCAGCCTT
44894971 CATCACATAGGCCATTCAGCCTT
1 -ATCACATAGGCCATTCAGCCTT
44894994 ATCACATA
1 ATCACATA
44895002 CATCACATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 17 0.40
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATAGGCCATTCAGCCTT
Found at i:44894999 original size:31 final size:31
Alignment explanation
Indices: 44894964--44895032 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
44894954 ATATGCATGT
*
44894964 TCACATTCATCACATAGGCCATTCAGCCTTA
1 TCACATACATCACATAGGCCATTCAGCCTTA
*
44894995 TCACATACATCACATAGGCCATTCGGCCTTA
1 TCACATACATCACATAGGCCATTCAGCCTTA
44895026 TCACATA
1 TCACATA
44895033 TATGCATGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.28
Consensus pattern (31 bp):
TCACATACATCACATAGGCCATTCAGCCTTA
Found at i:44895018 original size:47 final size:47
Alignment explanation
Indices: 44894785--44895001 Score: 310
Period size: 47 Copynumber: 4.6 Consensus size: 47
44894775 CCTACATATT
* * * * * *
44894785 TCACACTA-GCCATTCGGCTTTACCATATTTATGCATGTTCATATTCA
1 TCACA-TAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * *
44894832 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
44894879 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
44894926 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
44894973 TCACATAGGCCATTCAGCCTTATCACATA
1 TCACATAGGCCATTCGGCCTTATCACATA
44895002 CATCACATAG
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 154 0.99
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:44895046 original size:47 final size:47
Alignment explanation
Indices: 44894995--44895197 Score: 388
Period size: 47 Copynumber: 4.3 Consensus size: 47
44894985 TTCAGCCTTA
*
44894995 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
1 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
44895042 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
1 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
44895089 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
1 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
*
44895136 TCACATTCATCACATAGGCCATTCGGCCTTATCACACATATGCATGC
1 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
44895183 TCACATTCATCACAT
1 TCACATTCATCACAT
44895198 TAAATCCTAA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.29
Consensus pattern (47 bp):
TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGC
Found at i:44895096 original size:78 final size:78
Alignment explanation
Indices: 44894917--44895079 Score: 299
Period size: 78 Copynumber: 2.1 Consensus size: 78
44894907 ATATGCATGC
* *
44894917 TCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGG
1 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
44894982 CCATTCAGCCTTA
66 CCATTCAGCCTTA
44894995 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
1 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
*
44895060 CCATTCGGCCTTA
66 CCATTCAGCCTTA
44895073 TCACATA
1 TCACATA
44895080 TATGCATGCT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (78 bp):
TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
CCATTCAGCCTTA
Found at i:44895125 original size:172 final size:172
Alignment explanation
Indices: 44894833--44895171 Score: 633
Period size: 172 Copynumber: 2.0 Consensus size: 172
44894823 TCATATTCAC
* *
44894833 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATAGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATAGGCCATTCGGCC
44894898 TTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATG
66 TTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATG
*
44894963 TTCACATTCATCACATAGGCCATTCAGCCTTATCACATACAT
131 CTCACATTCATCACATAGGCCATTCAGCCTTATCACATACAT
*
44895005 CACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCC
1 CACATAGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATAGGCCATTCGGCC
44895070 TTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATG
66 TTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATG
*
44895135 CTCACATTCATCACATAGGCCATTCGGCCTTATCACA
131 CTCACATTCATCACATAGGCCATTCAGCCTTATCACA
44895172 CATATGCATG
Statistics
Matches: 162, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 162 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (172 bp):
CACATAGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATAGGCCATTCGGCC
TTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATG
CTCACATTCATCACATAGGCCATTCAGCCTTATCACATACAT
Found at i:44895143 original size:125 final size:125
Alignment explanation
Indices: 44894870--44895126 Score: 478
Period size: 125 Copynumber: 2.1 Consensus size: 125
44894860 ATATGCATGC
* *
44894870 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
1 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
*
44894935 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCATTCAGCCTTA
66 CCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCAGCCTTA
44894995 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
1 TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
*
44895060 CCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTTA
66 CCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCAGCCTTA
44895120 TCACATA
1 TCACATA
44895127 TATGCATGCT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 128 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (125 bp):
TCACATACATCACATAGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGG
CCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATAGGCCATTCAGCCTTA
Found at i:44921197 original size:36 final size:36
Alignment explanation
Indices: 44921157--44921225 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
44921147 CTGAATGAAG
* *
44921157 TCCCACGTAACCCATTCTTTCCGAACAATTGAATCA
1 TCCCACGTAACCCATTCATTCAGAACAATTGAATCA
44921193 TCCCACGTAACCCATTCATTCAGAACAATTGAA
1 TCCCACGTAACCCATTCATTCAGAACAATTGAA
44921226 ATCAGAGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.33, C:0.32, G:0.09, T:0.26
Consensus pattern (36 bp):
TCCCACGTAACCCATTCATTCAGAACAATTGAATCA
Found at i:44922307 original size:31 final size:32
Alignment explanation
Indices: 44922250--44922311 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
44922240 ATGAAGTCAC
* *
44922250 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
44922282 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
44922312 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:44923092 original size:27 final size:27
Alignment explanation
Indices: 44923059--44923229 Score: 234
Period size: 27 Copynumber: 6.3 Consensus size: 27
44923049 GGTATCACAA
44923059 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
44923086 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
44923113 TAATTCTATCCTAAAGTGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* **
44923140 TAATTCTACCCTACAGGAGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGG
*
44923167 TAATTCTACCCTGCAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
44923194 TAATTCTACCTTACAGGGGTAATTCGC
1 TAATTCTACCCTACAGGGGTATTTCGG
44923221 TAATTCTAC
1 TAATTCTAC
44923230 AACTTATCCA
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:44923096 original size:54 final size:54
Alignment explanation
Indices: 44923030--44923229 Score: 233
Period size: 54 Copynumber: 3.7 Consensus size: 54
44923020 ATGGCAAAAT
* **
44923030 GGTAATAT-TACCCCACAAGGGTATCACAATAATTCTACCCTACAGGGGTATTTC
1 GGTAAT-TCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* ** * * *
44923084 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTAAAGTGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
*
44923138 GGTAATTCTACCCTAC-AGGAGTATTTCAATAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * * **
44923192 GGTAATTCTACCTTACAGGGGTAATTCGCTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
44923230 AACTTATCCA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.03
54 116 0.95
55 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
Found at i:44929696 original size:31 final size:32
Alignment explanation
Indices: 44929639--44929700 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
44929629 ACGAAGTCAC
* *
44929639 CAGATATAGATATTGTGGCTATGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
44929671 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
44929701 TTGCAGTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:44930491 original size:54 final size:54
Alignment explanation
Indices: 44930408--44930607 Score: 251
Period size: 54 Copynumber: 3.7 Consensus size: 54
44930398 GGGGCAAAAT
* * *
44930408 GGTAATTTTACCCCACTAG-GGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTAC-AGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
44930462 GGTATTTCTACCCTACAAAGGTATTTCAGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * * *
44930516 GGTAATTCTACCCTACCGGGGTATTTCAATAATTCTACCATACAGGGGAATTTC
1 GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
44930570 GGTAATTCTACCTTACAGAGGTATTTC-GATAATTCTAC
1 GGTAATTCTACCCTACAGAGGTATTTCAG-TAATTCTAC
44930608 AACTTATCCA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.99
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:44930597 original size:27 final size:27
Alignment explanation
Indices: 44930408--44930607 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
44930398 GGGGCAAAAT
* * *
44930408 GGTAATTTTACCCCACTA-GGGTATCTC
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
44930435 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
44930462 GGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
44930489 AGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44930516 GGTAATTCTACCCTACCGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
44930543 AATAATTCTACCATACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44930570 GGTAATTCTACCTTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44930597 GATAATTCTAC
1 GGTAATTCTAC
44930608 AACTTATCCA
Statistics
Matches: 143, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:44945506 original size:30 final size:30
Alignment explanation
Indices: 44945448--44945507 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44945438 TTCCCGAGCC
* *
44945448 TAGGGGCAAAAGTGTAATTATGTAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
44945478 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
44945508 GGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:44952489 original size:38 final size:38
Alignment explanation
Indices: 44952418--44952490 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
44952408 AAAGACTCGC
**
44952418 AGGCTTCGTGCTGGTAAAATATCCAGGTTAAATCCAGT
1 AGGCTTCGTGCTGGTAAAATATCCAGGAGAAATCCAGT
* ** *
44952456 AGGCTTCGTGTTGGTATTATATCCTGGAGAAATCC
1 AGGCTTCGTGCTGGTAAAATATCCAGGAGAAATCC
44952491 CCCAGGCCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (38 bp):
AGGCTTCGTGCTGGTAAAATATCCAGGAGAAATCCAGT
Found at i:44952637 original size:43 final size:43
Alignment explanation
Indices: 44952513--44952624 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
44952503 ACTGGTATTA
* *
44952513 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
44952556 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
44952599 TATTCGGGCCTTTGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
44952625 GTAATGCCAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:44957908 original size:40 final size:40
Alignment explanation
Indices: 44957846--44958109 Score: 238
Period size: 40 Copynumber: 6.6 Consensus size: 40
44957836 CGGATGATAA
* * * *
44957846 CCGGGCTAAGTCTCGAAAGCATTTGTGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATAT
* * **
44957886 CCAGGCTAAGTCCCGAAGGCATTCGTGAAAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATAT
* * * * *
44957926 TCGGGCTAAGTACCAAAGGCATTCGTGCGAGCTACT-TTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATAT
* *
44957966 CCGGGCTAAGTCCCGAAGG-ACGTTGTGCGAGCTA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAG-TACTAATAT
*
44958006 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATAT
* *
44958046 -CGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATAT
*
44958085 CTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44958110 AGCTAGTGGC
Statistics
Matches: 191, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
39 39 0.20
40 150 0.79
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATAT
Found at i:44958091 original size:79 final size:80
Alignment explanation
Indices: 44957892--44958109 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 80
44957882 AATTCCAGGC
* ** * * * *
44957892 TAAGTCCCGAAGGCATTCGTGAAAGCTACTAT-ATTCGGGCTAAGTACCAAAGGCATTCGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACT-GGGCTAAGTCCCGAAGGCATTTGTGCGA
*
44957956 GCTACTTTATCCGGGC
65 GCTACTTTATCCGGGA
* * * *
44957972 TAAGTCCCGAAGG-ACGTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCA-TTTGTGCGAGCTACTATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
44958036 GTTA-TTATAT-CGGGA
65 GCTACTT-TATCCGGGA
*
44958051 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
44958110 AGCTAGTGGC
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 59 0.51
80 57 0.49
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAG
CTACTTTATCCGGGA
Found at i:44958124 original size:79 final size:80
Alignment explanation
Indices: 44957842--44958132 Score: 295
Period size: 80 Copynumber: 3.7 Consensus size: 80
44957832 TATTCGGATG
* * * * *
44957842 ATAACCGGGCTAAGTCTCGAAAGCATTTGTGCTAGTGGCTA-ATTCCAGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGC
* **
44957906 ATTCGTGAAAGCTACT
65 ATTTGTGCGAGCTACT
** * * * *
44957922 ATATTCGGGCTAAGTACCAAAGGCATTCGTGCGAGCT-ACTTTATCCGGGCTAAGTCCCGAAGG-
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
* *
44957985 ACGTTGTGCGAGCTATT
65 A-TTTGTGCGAGCTACT
* * * *
44958002 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT-CGGGATAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
44958066 TTTGTGCGAGTTACT
66 TTTGTGCGAGCTACT
* * * *
44958081 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAA
44958133 ACTCCGAAGG
Statistics
Matches: 171, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
79 73 0.43
80 96 0.56
81 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGCTACT
Found at i:44966079 original size:40 final size:39
Alignment explanation
Indices: 44966031--44966314 Score: 333
Period size: 40 Copynumber: 7.2 Consensus size: 39
44966021 GATGATAATT
* * *
44966031 GGGCTAAGTCCCGAAAGCATTTGTGCTAGTGGCTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCC
*
44966071 GGGCTAAGTCCCGAAGGC-TTCGTGCGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
* * *
44966110 GGGCTAAGTCCCGAAGGGATTCGTGCGAGCTACTTTATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
* * *
44966150 GGGCTAAGTCCCAAAGGCGTTTGTGCGAGCTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
*
44966190 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
*
44966229 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC
* * *
44966269 GGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCC
44966309 -GGCTAA
1 GGGCTAA
44966315 ACTCCGAAGG
Statistics
Matches: 219, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
39 76 0.35
40 143 0.65
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCC
Found at i:44966306 original size:119 final size:119
Alignment explanation
Indices: 44966031--44966314 Score: 378
Period size: 119 Copynumber: 2.4 Consensus size: 119
44966021 GATGATAATT
*
44966031 GGGCTAAGTCCCGAAAGCATTTGTGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCTTCGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGGCTTCGTG
* * *
44966095 CGAGCTACTATATCCGGGCTAAGTCCCGAAGGGATTCGTGCGAGCTACTTTATCC
65 CGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACC
* * * ** *
44966150 GGGCTAAGTCCCAAAGGCGTTTGTGCGAGCT-ATTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGGCTATATCCGGGCTAAGTCCCGAAGGC-TTCGT
* * * *
44966214 GCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
64 GCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACC
*
44966269 GGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGGCTAA
44966315 ACTCCGAAGG
Statistics
Matches: 141, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
118 7 0.05
119 117 0.83
120 17 0.12
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCTTCGTGC
GAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACC
Found at i:44966324 original size:79 final size:79
Alignment explanation
Indices: 44966031--44966314 Score: 360
Period size: 79 Copynumber: 3.6 Consensus size: 79
44966021 GATGATAATT
* * * *
44966031 GGGCTAAGTCCCGAAAGCATTTGTGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCTTCGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCTTTGTG
44966095 CGAGCTACTATATCC
65 CGAGCTACTATATCC
* * * *
44966110 GGGCTAAGTCCCGAAGGGATTCGTGCGAGCT-ACTTTATCCGGGCTAAGTCCCAAAGGCGTTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGC-TTTGT
*
44966174 GCGAGCTATTATATCC
64 GCGAGCTACTATATCC
* *
44966190 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGC-TTTGTG
* *
44966254 CGAGTTACTATAACC
65 CGAGCTACTATATCC
* * *
44966269 GGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAA
44966315 ACTCCGAAGG
Statistics
Matches: 177, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
79 123 0.69
80 54 0.31
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCTTTGTGC
GAGCTACTATATCC
Found at i:44969485 original size:38 final size:40
Alignment explanation
Indices: 44969419--44969493 Score: 118
Period size: 38 Copynumber: 1.9 Consensus size: 40
44969409 ATTTGATGTG
44969419 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
* *
44969459 TATCCGGG-TTAAA-TCCCGTAGGCTTCGTGCTGGTA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTA
44969494 TTATATTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 20 0.61
39 5 0.15
40 8 0.24
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
Found at i:44969588 original size:43 final size:43
Alignment explanation
Indices: 44969535--44969775 Score: 392
Period size: 43 Copynumber: 5.6 Consensus size: 43
44969525 GCTGATATTA
*
44969535 TATTCTGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
44969578 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCAGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
44969621 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
44969664 TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
44969707 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
44969750 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
44969776 GTAATGCCGG
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 184 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:44973370 original size:40 final size:40
Alignment explanation
Indices: 44973230--44973453 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
44973220 TTGAATGATG
* *
44973230 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
44973269 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTGAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
44973309 TCTGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44973348 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44973388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44973429 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44973454 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 49 0.31
40 102 0.64
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44973433 original size:80 final size:80
Alignment explanation
Indices: 44973230--44973453 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
44973220 TTGAATGATG
* * * * *
44973230 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
44973292 TTGTGCAAGTTACTGAT
64 TTGTGCAAGTTACTAAA
* * * * *
44973309 TCTGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
44973372 TGTGCGAGTTACTAAA
65 TGTGCAAGTTACTAAA
* *
44973388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
44973453 G
66 G
44973454 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 10 0.08
79 55 0.46
80 52 0.44
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCAAGTTACTAAA
Found at i:44973471 original size:80 final size:78
Alignment explanation
Indices: 44973316--44973476 Score: 191
Period size: 80 Copynumber: 2.0 Consensus size: 78
44973306 GATTCTGGGC
* * **
44973316 TAAGCCCAAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
1 TAAGCCCAAAGGCATTGGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
*
44973381 TACTAAATCCGGGT
66 GACTAAATCC-GGT
* * *
44973395 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAG-CCCAAAGGCATTGGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA
*
44973459 G-GAGCTATATCCGGT
64 GTGA-CTAAATCCGGT
44973474 TAA
1 TAA
44973477 ATTTCGAAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 11 0.16
80 57 0.81
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGCCCAAAGGCATTGGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
GACTAAATCCGGT
Found at i:44980659 original size:41 final size:41
Alignment explanation
Indices: 44980602--44980744 Score: 162
Period size: 41 Copynumber: 3.5 Consensus size: 41
44980592 TTATTCCATG
* * * *
44980602 AATTGAACATACATGCCCCTATTTGTACTTTAGTGCGCCTA
1 AATTGCACATACATGCCCCTATTTGTACTTTAATACCCCTA
* * * * *
44980643 AATTGCATATACATGCCCTTATTCGTACTTCAATACCCCTG
1 AATTGCACATACATGCCCCTATTTGTACTTTAATACCCCTA
* * *
44980684 AATTGCACATACATGCCACTATTTGTACTTTGATACCCCTG
1 AATTGCACATACATGCCCCTATTTGTACTTTAATACCCCTA
44980725 AATTGCACATA-AGTGCCCCT
1 AATTGCACATACA-TGCCCCT
44980745 GTTTACACTC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
40 1 0.01
41 84 0.99
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (41 bp):
AATTGCACATACATGCCCCTATTTGTACTTTAATACCCCTA
Found at i:44980759 original size:82 final size:82
Alignment explanation
Indices: 44980600--44980759 Score: 180
Period size: 82 Copynumber: 2.0 Consensus size: 82
44980590 AATTATTCCA
* * * * *
44980600 TGAATTGAACATACATGCCCCTATTTGTACTTTAGTGCGCCTAAATTGCATATACATGCCCTTAT
1 TGAATTGAACATACATGCCACTATTTGTACTTTAGTACCCCTAAATTGCACATACATGCCCCTAT
** *
44980665 TCGTACTTCAATACCCC
66 TCACACTCCAATACCCC
* *
44980682 TGAATTGCACATACATGCCACTATTTGTACTTT-GATACCCCTGAATTGCACATA-AGTGCCCCT
1 TGAATTGAACATACATGCCACTATTTGTACTTTAG-TACCCCTAAATTGCACATACA-TGCCCCT
* *
44980745 GTTTACACTCCAATA
64 ATTCACACTCCAATA
44980760 ACATTGACTA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
81 2 0.03
82 62 0.97
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (82 bp):
TGAATTGAACATACATGCCACTATTTGTACTTTAGTACCCCTAAATTGCACATACATGCCCCTAT
TCACACTCCAATACCCC
Found at i:44988500 original size:28 final size:27
Alignment explanation
Indices: 44988449--44988533 Score: 98
Period size: 28 Copynumber: 3.1 Consensus size: 27
44988439 TGGCTGCTAG
* *
44988449 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
44988476 TACAGATAATTGTGGCAGGGCCACCAGA
1 AACAGAT-ATTGTGGCAGAGCCACCAGA
* *
44988504 AATAGATGTTTGTGGCAGAGCCACCAGA
1 AACAGAT-ATTGTGGCAGAGCCACCAGA
44988532 AA
1 AA
44988534 GCTTCCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
27 6 0.12
28 42 0.88
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:44993491 original size:119 final size:120
Alignment explanation
Indices: 44993315--44993537 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
44993305 TACTCGTTCA
* * * *
44993315 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCAGTAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
44993380 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
44993435 AATGCCTTCGGG-CTTAGCCCAG-AATCAGTAACTTGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCAGTAAT-AGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
44993497 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
44993538 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 5 0.06
119 64 0.72
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCAGTAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:44993537 original size:40 final size:40
Alignment explanation
Indices: 44993294--44993537 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
44993284 CAGAATTTAA
** *
44993294 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44993334 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44993374 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44993414 CCGGATTTAGTAACTCGCACGAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
44993453 CCAGA-ATCAGTAACTTGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATAT-AGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44993493 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44993533 CCGGA
1 CCGGA
44993538 CATCATTCAA
Statistics
Matches: 177, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.02
39 30 0.17
40 131 0.74
41 13 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45000621 original size:54 final size:54
Alignment explanation
Indices: 45000539--45000648 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
45000529 TTCATCAAGG
*
45000539 TTCGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGAT
1 TTCGTTTACATAATTTATTCACTATTTAATTCCATTCCTACAATTTTTAGTGAT
* *
45000593 TTCGTTTACATGATTTATTCACTATTTAATTTCATTCCTACAATTTTTAGTGAT
1 TTCGTTTACATAATTTATTCACTATTTAATTCCATTCCTACAATTTTTAGTGAT
45000647 TT
1 TT
45000649 TCCAAATCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.53
Consensus pattern (54 bp):
TTCGTTTACATAATTTATTCACTATTTAATTCCATTCCTACAATTTTTAGTGAT
Found at i:45001452 original size:40 final size:40
Alignment explanation
Indices: 45001422--45001696 Score: 238
Period size: 40 Copynumber: 6.6 Consensus size: 40
45001412 GCTACTCGTT
* *
45001422 CAAATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
45001462 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
45001502 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
45001542 CGAATGCCTTCGGG-CTTAGCCCAGAATCAGTAACTGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-----GT---T-A--TAGTAACTCGCA
* * * * *
45001593 CCAATGCCTTTGGG-CTTAGCCCAG-AATCAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT-AGTAACTCGCA
* * * * *
45001632 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
45001673 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
45001697 ACATCATTCA
Statistics
Matches: 196, Mismatches: 19, Indels: 40
0.77 0.07 0.16
Matches are distributed among these distances:
38 3 0.02
39 26 0.13
40 116 0.59
41 15 0.08
44 1 0.01
45 2 0.01
47 1 0.01
51 32 0.16
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:45001602 original size:51 final size:51
Alignment explanation
Indices: 45001526--45001627 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
45001516 ACTTAACCCG
*
45001526 GATTTAGTAACTCGCACGAATGCCTTCGGGCTTAGCCCAGAATCAGTAACT
1 GATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCAGAATCAGTAACT
*
45001577 GATTTAGTAACTCGCACCAATGCCTTTGGGCTTAGCCCAGAATCAGTAACT
1 GATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCAGAATCAGTAACT
45001628 TGCACAAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (51 bp):
GATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCAGAATCAGTAACT
Found at i:45001657 original size:130 final size:132
Alignment explanation
Indices: 45001450--45001694 Score: 311
Period size: 130 Copynumber: 1.9 Consensus size: 132
45001440 AGCCCGGTTA
* * *
45001450 TAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTAATAGTAACTCGCACAAATGCCTTCGG
* * *
45001515 GACTTAACCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGG-CTTAGCCCAGAATCAGTAACTG
66 GACTTAACCCGGATATAGTAACTTAGCAC-AAAGCCTTCGGGACTTAGCCCAGAATCAGTAACTG
45001578 ATT
130 ATT
* * *
45001581 TAGTAACTCGCACCAATGCCTTTGGG-CTTAGCCCAG-AATCAGTAACTTGCACAAATGCCTTC-
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTAAT-AGTAACTCGCACAAATGCCTTCG
** * *
45001643 GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
65 GGA-CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCC
45001695 GGACATCATT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
129 5 0.05
130 56 0.58
131 36 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (132 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTAATAGTAACTCGCACAAATGCCTTCGG
GACTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCAGAATCAGTAACTGA
TT
Found at i:45003526 original size:12 final size:12
Alignment explanation
Indices: 45003509--45003534 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45003499 TGGAGGTGGG
45003509 ACTAGCAGTAAA
1 ACTAGCAGTAAA
45003521 ACTAGCAGTAAA
1 ACTAGCAGTAAA
45003533 AC
1 AC
45003535 ATTTTGGTTT
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:0.50, C:0.19, G:0.15, T:0.15
Consensus pattern (12 bp):
ACTAGCAGTAAA
Found at i:45004271 original size:27 final size:26
Alignment explanation
Indices: 45004227--45004674 Score: 186
Period size: 27 Copynumber: 16.7 Consensus size: 26
45004217 TTAGTTTACC
*
45004227 AAATTACTGAAATA-CCCCCAGTTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* * *
45004253 AAATTACCAAAGTACCCCCGACTTATA
1 AAATTACGAAA-TACCCCCCACTTGTA
** * *
45004280 AAATTATCGAAATA-CCGTCAATTGTC
1 AAATTA-CGAAATACCCCCCACTTGTA
* * *
45004306 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* * *
45004333 AAATTACCGAAATA-CCCTCAGTTTGCA
1 AAATTA-CGAAATACCCCCCA-CTTGTA
* * *
45004360 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* *
45004387 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* ** * *
45004414 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACGAAA-TACCCCCCACTTGTA
* * * * *
45004441 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CGAAATACCCCCCACTTGTA
** ** *
45004468 AAACCACGGAAATACCATCGA-TTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* ** *
45004494 AAATTACTGACATACCTTCGACTTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* *
45004521 AAATTACCGAAATA-CCCTCAGTTTGTA
1 AAATTA-CGAAATACCCCCCA-CTTGTA
* * * *
45004548 AAATTACTGAAATACCCTCAATTTGTG
1 AAATTAC-GAAATACCCCCCACTTGTA
* * * *
45004575 AAATTACTGAAATACCCTCGACCTATA
1 AAATTAC-GAAATACCCCCCACTTGTA
* * * *
45004602 AATTTACTGAAATACCCTCGACCTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
* * *
45004629 AATTTACTGAAATACCCTCGACTTGTA
1 AAATTAC-GAAATACCCCCCACTTGTA
*
45004656 AAATTACCAAAGTACCCCC
1 AAATTACGAAA-TACCCCC
45004675 GATTTACAGA
Statistics
Matches: 339, Mismatches: 65, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.01
26 62 0.18
27 256 0.76
28 17 0.05
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATTACGAAATACCCCCCACTTGTA
Found at i:45004495 original size:161 final size:161
Alignment explanation
Indices: 45004227--45004617 Score: 443
Period size: 161 Copynumber: 2.4 Consensus size: 161
45004217 TTAGTTTACC
* * * *
45004227 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGACTTATAAAATTATCGAA
1 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGACTTATAAAATTACCCAA
* ** * * *
45004291 ATACCGTCAATTGTCAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC-AGT
66 ATACCGTCAATTGTAAAACCACGGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCGA-C
*
45004355 TTGCAAAATTACTGAAATACCCTC-GATTTGTA
130 TTGCAAAATTACCGAAATACCCTCAG-TTTGTA
* * *
45004387 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGACTTATAAAATTACCCAA
* * * * *
45004452 ATATCC-TCGATTTGTAAAACCACGGAAATACCATCGA-TTGTAAAATTACTGACATACCTTCGA
66 ATA-CCGTC-AATTGTAAAACCACGGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCGA
*
45004515 CTTGTAAAATTACCGAAATACCCTCAGTTTGTA
129 CTTGCAAAATTACCGAAATACCCTCAGTTTGTA
* * * * * * **
45004548 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAA-TACCCTCGACCTATAAATTTACTGA
1 AAATTACTGAAATACCCTCAACTTGTAAAATTAC-CAAAGTACCCCCGACTTATAAAATTACCCA
45004612 AATACC
65 AATACC
45004618 CTCGACCTGT
Statistics
Matches: 195, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
160 19 0.10
161 148 0.76
162 28 0.14
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (161 bp):
AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGACTTATAAAATTACCCAA
ATACCGTCAATTGTAAAACCACGGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCGACT
TGCAAAATTACCGAAATACCCTCAGTTTGTA
Found at i:45004672 original size:54 final size:54
Alignment explanation
Indices: 45004227--45004662 Score: 431
Period size: 54 Copynumber: 8.1 Consensus size: 54
45004217 TTAGTTTACC
* * * * * *
45004227 AAATTACTGAAATACCC-CCAGTTGTAAAATTAC-CAAAGTACCCCCGACTTATA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAA-TACCCTCGATTTGTA
* * * *
45004280 AAATTA-TCGAAATACCGTC-AATTGTCAAATTACTGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGACTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
45004333 AAATTACCGAAATACCCTC-AGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGA-CTTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
45004387 AAATTACTGAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCC-CTGATTTATA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAA-TACCCTC-GATTTGTA
** * * ** * *
45004441 AAATTACCCAAATATCCTCGATTTGTAAAACCACGGAAATACCATCGA-TTGTA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
45004494 AAATTACTGACATACCTTCGACTTGTAAAATTACCGAAATACCCTC-AGTTTGTA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAATACCCTCGA-TTTGTA
* * * ** *
45004548 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
45004602 AATTTACTGAAATACCCTCGACCTGTAAATTTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAATACCCTCGATTTGTA
45004656 AAATTAC
1 AAATTAC
45004663 CAAAGTACCC
Statistics
Matches: 314, Mismatches: 56, Indels: 25
0.79 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 98 0.31
54 208 0.66
55 6 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:45004687 original size:27 final size:27
Alignment explanation
Indices: 45004655--45004726 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
45004645 CTCGACTTGT
*
45004655 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
* **** *
45004682 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
*
45004709 AAAATTACAAAAATACCC
1 AAAATTACCAAAATACCC
45004727 TTGTAACGTA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCCGATTTAC
Found at i:45004699 original size:81 final size:80
Alignment explanation
Indices: 45004227--45004727 Score: 472
Period size: 81 Copynumber: 6.2 Consensus size: 80
45004217 TTAGTTTACC
* * * *
45004227 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGACTTATAAAATTATCGAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAA-TACCCCCGATTTATAAAATTACCGAA
* * *
45004291 ATACCGTC-AATTGTC
65 ATACCCTCGATTTGTA
* * * ** *
45004306 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC-AGTTTGCAAAATTACTGA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAATACCCCCGA-TTTATAAAATTACCGA
45004370 AATACCCTCGATTTGTA
64 AATACCCTCGATTTGTA
* *
45004387 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAA-TACCCCCGATTTATAAAATTACCGAA
*
45004452 ATATCCTCGATTTGTA
65 ATACCCTCGATTTGTA
** * * * * ** * *
45004468 AAACCACGGAAATACCATCGA-TTGTAAAATTACTGACATACCTTCGACTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTAC-CAAATACCCCCGATTTATAAAATTACCGAA
45004532 ATACCCTC-AGTTTGTA
65 ATACCCTCGA-TTTGTA
* * * * * ** * *
45004548 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAATACCCTCGACCTATAAATTTACTGAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTAC-CAAATACCCCCGATTTATAAAATTACCGAA
**
45004613 ATACCCTCGACCTGTA
65 ATACCCTCGATTTGTA
* * * **
45004629 AATTTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTT
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAA-TACCCCCGATTTATAAAATTACCGAA
* **
45004694 TTACCCTCGATTTACA
65 ATACCCTCGATTTGTA
**
45004710 AAATTACAAAAATACCCT
1 AAATTACTGAAATACCCT
45004728 TGTAACGTAG
Statistics
Matches: 342, Mismatches: 69, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
79 19 0.06
80 107 0.31
81 214 0.63
82 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAATACCCCCGATTTATAAAATTACCGAAA
TACCCTCGATTTGTA
Found at i:45004764 original size:27 final size:27
Alignment explanation
Indices: 45004734--45004852 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
45004724 CCCTTGTAAC
45004734 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* ** * *
45004761 GTAGAATTACTGAAATACCATTGTGGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * *
45004788 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * * *
45004815 ATAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
45004842 GTAAAATTACC
1 GTAGAATTACC
45004853 ATTTTGCCCT
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:45004769 original size:54 final size:54
Alignment explanation
Indices: 45004711--45004824 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
45004701 CGATTTACAA
* * * *
45004711 AATTACAAAAATACCCTTGTAACGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACAAAAATACCATTGTAACGTAAAAATACCGAAATACCCCTATAGGATAG
** *** *
45004765 AATTACTGAAATACCATTGTGGGGTAAAAATACCGAAATACCCCTGTAGGATAG
1 AATTACAAAAATACCATTGTAACGTAAAAATACCGAAATACCCCTATAGGATAG
45004819 AATTAC
1 AATTAC
45004825 CGAGATACCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (54 bp):
AATTACAAAAATACCATTGTAACGTAAAAATACCGAAATACCCCTATAGGATAG
Found at i:45004833 original size:54 final size:54
Alignment explanation
Indices: 45004741--45004852 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
45004731 AACGTAGAAT
* * *
45004741 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCATTGTGGGGTAAAAA
1 TACCGAAATACCCCTATAGGATAGAATTACCGAAATACCATTATGGGGTAAAAA
* * * *
45004795 TACCGAAATACCCCTGTAGGATAGAATTACCGAGATACCCTTATGGGGTAAAAT
1 TACCGAAATACCCCTATAGGATAGAATTACCGAAATACCATTATGGGGTAAAAA
45004849 TACC
1 TACC
45004853 ATTTTGCCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
TACCGAAATACCCCTATAGGATAGAATTACCGAAATACCATTATGGGGTAAAAA
Found at i:45005332 original size:22 final size:22
Alignment explanation
Indices: 45005280--45005344 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
45005270 TTAAAGTCTT
* *
45005280 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
45005302 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
45005324 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
45005345 ACGCATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:45005533 original size:27 final size:26
Alignment explanation
Indices: 45005503--45005609 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
45005493 ATTCTGTTAA
* *
45005503 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
45005530 GTGGCTATGCCACAAATATCTG-TCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
45005556 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * * *
45005583 GTGACTCTGTCACAATATCTATTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
45005609 G
1 G
45005610 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
25 7 0.10
26 21 0.30
27 36 0.51
28 7 0.10
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:45005609 original size:53 final size:53
Alignment explanation
Indices: 45005503--45005602 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 53
45005493 ATTCTGTTAA
* * * * *
45005503 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAAATATCTGTCTG
* *
45005556 GTGGCTCTGCCACAATATCTATATCTGGTGACTCTGTCAC-AATATCT
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAAATATCT
45005603 ATTCTGGCAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 7 0.17
53 33 0.82
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAAATATCTGTCTG
Found at i:45005736 original size:6 final size:6
Alignment explanation
Indices: 45005727--45005819 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
45005717 TTGCATTCCC
* *
45005727 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG GTTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * *
45005775 ATCACCTG ATTCTG ATTCTA ATTCTC ATT-TG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
45005820 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 9 0.13
6 51 0.74
7 6 0.09
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:45005758 original size:25 final size:25
Alignment explanation
Indices: 45005730--45005799 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
45005720 CATTCCCATT
* *
45005730 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTATCAC
* *
45005755 CTGATACTGGTTCTGATTCTATCAC
1 CTGATTCTGATTCTGATTCTATCAC
*
45005780 CTGATTCTGATTCTAATTCT
1 CTGATTCTGATTCTGATTCT
45005800 CATTTGATTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTATCAC
Found at i:45009430 original size:30 final size:30
Alignment explanation
Indices: 45009396--45009456 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45009386 TCCTTAACTC
45009396 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45009426 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45009456 A
1 A
45009457 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:45019747 original size:85 final size:85
Alignment explanation
Indices: 45019604--45019838 Score: 296
Period size: 84 Copynumber: 2.8 Consensus size: 85
45019594 ATCTGAGACA
* *
45019604 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCTATTGAGATTTACATATAAGACCATGTCTGGGA
*
45019669 CATCGGTATCGTATCTAATT
66 CATCGGCATCGTATCTAATT
* * * *
45019689 TCGTGTAAGACTGTGTTTGGGATACAGGCCTCTATTGAGATTTACATATAAGACCATGT-TTGGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCTATTGAGATTTACATATAAGACCATGTCTGGGA
* *
45019753 CATCTGCATCGTATCTGATT
66 CATCGGCATCGTATCTAATT
* * * * * *
45019773 TCATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCCGG
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTC--TATTGAGATTTACATATAAGACCATGTCTGG
45019836 GAC
64 GAC
45019839 GTTGATATTG
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 63 0.49
85 59 0.46
86 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACCGTGTCTGGGACACAGGCCTCTATTGAGATTTACATATAAGACCATGTCTGGGA
CATCGGCATCGTATCTAATT
Found at i:45019827 original size:43 final size:42
Alignment explanation
Indices: 45019607--45019838 Score: 163
Period size: 43 Copynumber: 5.5 Consensus size: 42
45019597 TGAGACATCG
* * *
45019607 TGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTACA
* * * *
45019650 TATAAGACCATGTCTGGGACATC-GGTATCGTATCT-AATTTCG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGAATTACA
** * * *
45019692 TGTAAGACTGTGTTTGGGATACAGGCCTC-TATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTACA
* * * *
45019735 TATAAGACCATGT-TTGGACATC-TGCATCGTATCTG-ATTTCA
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGAATTACA
* *
45019776 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTACA
*
45019819 TGTAAGACCATGTCCGGGAC
1 TGTAAGACCATGTCTGGGAC
45019839 GTTGATATTG
Statistics
Matches: 145, Mismatches: 30, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.01
41 20 0.14
42 49 0.34
43 68 0.47
44 6 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTACA
Found at i:45033489 original size:59 final size:59
Alignment explanation
Indices: 45033426--45033661 Score: 454
Period size: 59 Copynumber: 4.0 Consensus size: 59
45033416 AGGGAAGATG
45033426 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
1 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
45033485 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
1 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
45033544 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
1 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
* *
45033603 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAAGTTCAAATTTGGTGGATATCCTCATT
1 AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
45033662 CCCTTTTCAG
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 175 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (59 bp):
AGTTTGTGCCAAAATAGGATTATTGCTTCTCAATTTCAGATTTGGTGGATATCCTCATT
Found at i:45034915 original size:26 final size:26
Alignment explanation
Indices: 45034885--45034942 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
45034875 GTATACCTAG
* *
45034885 ACCCTAAATTGATAAATGACTATTTT
1 ACCCTAAATGGAAAAATGACTATTTT
* *
45034911 TCCCTTATATGGAAAAATGACTATTTT
1 ACCC-TAAATGGAAAAATGACTATTTT
45034938 ACCCT
1 ACCCT
45034943 TATACGGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (26 bp):
ACCCTAAATGGAAAAATGACTATTTT
Found at i:45034928 original size:27 final size:27
Alignment explanation
Indices: 45034898--45034969 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
45034888 CTAAATTGAT
* *
45034898 AAATGACTATTTTTCCCTTATATGGAA
1 AAATGACTATTTTACCCTTATACGGAA
*
45034925 AAATGACTATTTTACCCTTATACGGTA
1 AAATGACTATTTTACCCTTATACGGAA
* * *
45034952 AGATGACTGTTTTGCCCT
1 AAATGACTATTTTACCCT
45034970 ATGTGATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTACCCTTATACGGAA
Found at i:45035360 original size:18 final size:18
Alignment explanation
Indices: 45035333--45035382 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
45035323 GTTTAAACTG
*
45035333 TTACTACACTGATTACTA
1 TTACTGCACTGATTACTA
* *
45035351 TTACTGCACTGTTTACTG
1 TTACTGCACTGATTACTA
*
45035369 TTACTGCATTGATT
1 TTACTGCACTGATT
45035383 GTTTGTAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (18 bp):
TTACTGCACTGATTACTA
Found at i:45036353 original size:28 final size:27
Alignment explanation
Indices: 45036306--45036410 Score: 106
Period size: 27 Copynumber: 3.8 Consensus size: 27
45036296 TGCTAGAAAG
* * *
45036306 GATAATGTGACAGAGTCACCCGATACA
1 GATAATGTGGCAGAGCCACCAGATACA
45036333 GATAATCGTGGCAGAGCCACCAGA-ACA
1 GATAAT-GTGGCAGAGCCACCAGATACA
*
45036360 GATATATGTGGTAGAGCCACCAGAT-CA
1 GATA-ATGTGGCAGAGCCACCAGATACA
* *
45036387 AATAATTTGTGGCATAGCCACCAG
1 GATAA--TGTGGCAGAGCCACCAG
45036411 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 34 0.52
28 31 0.47
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
GATAATGTGGCAGAGCCACCAGATACA
Found at i:45056803 original size:27 final size:26
Alignment explanation
Indices: 45056741--45056835 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
45056731 AGCATGGCTG
* ** *
45056741 CCAGAAAAGATAATGTAACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
45056767 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
45056795 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
45056822 CCAGATCAGATAAT
1 CCAGAACAGATAAT
45056836 TTGTGACATA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.10
27 38 0.64
28 15 0.25
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:45056852 original size:28 final size:27
Alignment explanation
Indices: 45056741--45056853 Score: 86
Period size: 27 Copynumber: 4.1 Consensus size: 27
45056731 AGCATGGCTG
* * *
45056741 CCAGAAAAGATA-ATGTAACAGAGTCA
1 CCAGAACAGATATATGTGACAGAGACA
* * *
45056767 CTAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGACAGAGACA
* *
45056795 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGACA
* * *
45056822 CCAGATCAGATAATTTGTGACATAGACA
1 CCAGAACAGAT-ATATGTGACAGAGACA
45056850 CCAG
1 CCAG
45056854 CACGCTTCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.06
27 37 0.51
28 31 0.43
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGACAGAGACA
Found at i:45062899 original size:43 final size:42
Alignment explanation
Indices: 45062851--45062964 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
45062841 GTGTGATTTA
* *
45062851 GTGTAAAACCATGTCTGGGACATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATATGAGATAAC
* * *
45062894 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATATGAGATAAC
* * *
45062937 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
45062965 TGTCTGTGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 5 0.08
43 55 0.92
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATAAC
Found at i:45066876 original size:13 final size:13
Alignment explanation
Indices: 45066858--45066882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45066848 AATTGATATA
45066858 TGTGAAAATTTTG
1 TGTGAAAATTTTG
45066871 TGTGAAAATTTT
1 TGTGAAAATTTT
45066883 AACATTTGTG
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:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:45071439 original size:23 final size:22
Alignment explanation
Indices: 45071413--45071455 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
45071403 TTATGAAACA
*
45071413 TATGTTTTGGTATGACTTTGGCT
1 TATGTTTTGGCATGA-TTTGGCT
45071436 TATGTTTTGGCATGATTTGG
1 TATGTTTTGGCATGATTTGG
45071456 TATGGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.51
Consensus pattern (22 bp):
TATGTTTTGGCATGATTTGGCT
Found at i:45096417 original size:28 final size:28
Alignment explanation
Indices: 45096352--45096437 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
45096342 TCCACATACT
* *
45096352 TGTATGTGGCCCACTAGGCCCAATCTC-
1 TGTATGTGGCCCATTAGGCCCAATCACA
* *
45096379 TTTCATATGGCCCATTAGGCCCAATCACA
1 TGT-ATGTGGCCCATTAGGCCCAATCACA
*
45096408 TGTATGTGGCCCATTAGTCCCAGATCACA
1 TGTATGTGGCCCATTAGGCCCA-ATCACA
45096437 T
1 T
45096438 TCATATGACC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
27 2 0.04
28 38 0.78
29 9 0.18
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (28 bp):
TGTATGTGGCCCATTAGGCCCAATCACA
Found at i:45096450 original size:56 final size:57
Alignment explanation
Indices: 45096352--45096465 Score: 151
Period size: 56 Copynumber: 2.0 Consensus size: 57
45096342 TCCACATACT
* * * *
45096352 TGTATGTGGCCCACTAGGCCCAATCTCTTTCATATGGCCCATTAGG-CCCAATCACA
1 TGTATGTGGCCCACTAGGCCCAATCACATTCATATGGACCATTAGGTCCAAATCACA
* *
45096408 TGTATGTGGCCCATTAGTCCCAGATCACATTCATAT-GACCATTAGGTCCAAATCACA
1 TGTATGTGGCCCACTAGGCCCA-ATCACATTCATATGGACCATTAGGTCCAAATCACA
45096465 T
1 T
45096466 TTACAGTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 29 0.58
57 21 0.42
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (57 bp):
TGTATGTGGCCCACTAGGCCCAATCACATTCATATGGACCATTAGGTCCAAATCACA
Found at i:45101166 original size:16 final size:16
Alignment explanation
Indices: 45101147--45101199 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
45101137 ATGCTTTTGA
*
45101147 CTTTTTGGCATTTTGG
1 CTTTTTGGCATTTCGG
** *
45101163 CTTTTCAGCATTTCAG
1 CTTTTTGGCATTTCGG
45101179 CTTTTTGGCATTTCGG
1 CTTTTTGGCATTTCGG
45101195 CTTTT
1 CTTTT
45101200 GTCAATCTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (16 bp):
CTTTTTGGCATTTCGG
Found at i:45107547 original size:7 final size:7
Alignment explanation
Indices: 45107535--45107559 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45107525 GCTATACAAT
45107535 CCCCACA
1 CCCCACA
45107542 CCCCACA
1 CCCCACA
45107549 CCCCACA
1 CCCCACA
45107556 CCCC
1 CCCC
45107560 TCAAACACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.76, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCCACA
Found at i:45114104 original size:262 final size:262
Alignment explanation
Indices: 45113639--45114164 Score: 1052
Period size: 262 Copynumber: 2.0 Consensus size: 262
45113629 CTTTGGATTA
45113639 TTAATTAGAGGTCCTTAAATAGCAATTTTCCCAATTTCCATTTTTATGGACAAAAATGGGCATGC
1 TTAATTAGAGGTCCTTAAATAGCAATTTTCCCAATTTCCATTTTTATGGACAAAAATGGGCATGC
45113704 ATGTATAAAATTTGAAAGTTTAGTGAAAAGGGCATTTTGGTCATTTGGTTAATAAAATAATAAAA
66 ATGTATAAAATTTGAAAGTTTAGTGAAAAGGGCATTTTGGTCATTTGGTTAATAAAATAATAAAA
45113769 AGGGAAAATCAAGCAAAATTTGCTCATCTTCTCCATGCCATAGCTGAAATTCTCAAGCTCTCCAT
131 AGGGAAAATCAAGCAAAATTTGCTCATCTTCTCCATGCCATAGCTGAAATTCTCAAGCTCTCCAT
45113834 AGCAAGGGTTTTTCAACTTTTCAAGCTTGATTGTAAGTGCTCCCTAGCCTAGTTTTTTTTATGTT
196 AGCAAGGGTTTTTCAACTTTTCAAGCTTGATTGTAAGTGCTCCCTAGCCTAGTTTTTTTTATGTT
45113899 TT
261 TT
45113901 TTAATTAGAGGTCCTTAAATAGCAATTTTCCCAATTTCCATTTTTATGGACAAAAATGGGCATGC
1 TTAATTAGAGGTCCTTAAATAGCAATTTTCCCAATTTCCATTTTTATGGACAAAAATGGGCATGC
45113966 ATGTATAAAATTTGAAAGTTTAGTGAAAAGGGCATTTTGGTCATTTGGTTAATAAAATAATAAAA
66 ATGTATAAAATTTGAAAGTTTAGTGAAAAGGGCATTTTGGTCATTTGGTTAATAAAATAATAAAA
45114031 AGGGAAAATCAAGCAAAATTTGCTCATCTTCTCCATGCCATAGCTGAAATTCTCAAGCTCTCCAT
131 AGGGAAAATCAAGCAAAATTTGCTCATCTTCTCCATGCCATAGCTGAAATTCTCAAGCTCTCCAT
45114096 AGCAAGGGTTTTTCAACTTTTCAAGCTTGATTGTAAGTGCTCCCTAGCCTAGTTTTTTTTATGTT
196 AGCAAGGGTTTTTCAACTTTTCAAGCTTGATTGTAAGTGCTCCCTAGCCTAGTTTTTTTTATGTT
45114161 TT
261 TT
45114163 TT
1 TT
45114165 GCATTTTTGA
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 264 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (262 bp):
TTAATTAGAGGTCCTTAAATAGCAATTTTCCCAATTTCCATTTTTATGGACAAAAATGGGCATGC
ATGTATAAAATTTGAAAGTTTAGTGAAAAGGGCATTTTGGTCATTTGGTTAATAAAATAATAAAA
AGGGAAAATCAAGCAAAATTTGCTCATCTTCTCCATGCCATAGCTGAAATTCTCAAGCTCTCCAT
AGCAAGGGTTTTTCAACTTTTCAAGCTTGATTGTAAGTGCTCCCTAGCCTAGTTTTTTTTATGTT
TT
Found at i:45114944 original size:16 final size:16
Alignment explanation
Indices: 45114903--45114955 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
45114893 TCACTAGGAA
*
45114903 ATATGTGATTATGAGCT
1 ATATGTGATTATGTG-T
* *
45114920 -CATGAGATTATGTGT
1 ATATGTGATTATGTGT
*
45114935 ATATGTGATTATGTGA
1 ATATGTGATTATGTGT
45114951 ATATG
1 ATATG
45114956 GGTGCTAGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.42
Consensus pattern (16 bp):
ATATGTGATTATGTGT
Found at i:45124204 original size:46 final size:47
Alignment explanation
Indices: 45124098--45124219 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
45124088 TGTCTTCGAC
** * *
45124098 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
45124148 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
45124194 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
45124220 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:45126107 original size:15 final size:14
Alignment explanation
Indices: 45126069--45126121 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
45126059 TGTTTTTCGT
*
45126069 AAAATGATTTCTGA
1 AAAATGATTTCTGG
*
45126083 AAAATAATTTCTTGG
1 AAAATGATTTC-TGG
45126098 AAAATGATTTCTGG
1 AAAATGATTTCTGG
45126112 AAAATGATTT
1 AAAATGATTT
45126122 ACTTTTCTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:45128459 original size:55 final size:54
Alignment explanation
Indices: 45128372--45128626 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
45128362 ATTAGGGTTT
*
45128372 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
45128427 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
45128482 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
45128535 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
45128584 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
45128627 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:45128578 original size:108 final size:110
Alignment explanation
Indices: 45128379--45128579 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
45128369 TTTAAGGATA
*
45128379 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
45128444 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
45128489 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
45128551 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
45128580 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:45131303 original size:24 final size:24
Alignment explanation
Indices: 45131276--45131326 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
45131266 ATTTAGCAGT
* *
45131276 GAGGCCAGATGTTAGAGCATCTGC
1 GAGGACAGATGCTAGAGCATCTGC
**
45131300 GAGGACTTATGCTAGAGCATCTGC
1 GAGGACAGATGCTAGAGCATCTGC
45131324 GAG
1 GAG
45131327 AACTTATGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (24 bp):
GAGGACAGATGCTAGAGCATCTGC
Found at i:45131331 original size:24 final size:24
Alignment explanation
Indices: 45131288--45131337 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
45131278 GGCCAGATGT
*
45131288 TAGAGCATCTGCGAGGACTTATGC
1 TAGAGCATCTGCGAGAACTTATGC
45131312 TAGAGCATCTGCGAGAACTTATGC
1 TAGAGCATCTGCGAGAACTTATGC
45131336 TA
1 TA
45131338 TTCGTGCTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (24 bp):
TAGAGCATCTGCGAGAACTTATGC
Found at i:45133953 original size:18 final size:18
Alignment explanation
Indices: 45133930--45133966 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45133920 CAAAGTTGAG
45133930 TTTTAGTACAGCTTTCTA
1 TTTTAGTACAGCTTTCTA
45133948 TTTTAGTACAGCTTTCTA
1 TTTTAGTACAGCTTTCTA
45133966 T
1 T
45133967 CCTCAAACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTTAGTACAGCTTTCTA
Found at i:45135408 original size:24 final size:24
Alignment explanation
Indices: 45135381--45135433 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
45135371 AGGCTGTCAA
*
45135381 GAGAATATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
* *
45135405 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAAGATTTAGGAGCTGATAAGG
45135429 GAGAA
1 GAGAA
45135434 CGATGTTGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.23
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTGATAAGG
Found at i:45136903 original size:27 final size:27
Alignment explanation
Indices: 45136863--45136971 Score: 157
Period size: 27 Copynumber: 4.1 Consensus size: 27
45136853 AGGAAGCGTC
* *
45136863 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
45136890 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
45136917 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
45136944 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
45136970 CT
1 CT
45136972 TGCAGCAATG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
26 11 0.15
27 64 0.85
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:45145606 original size:39 final size:40
Alignment explanation
Indices: 45145535--45145679 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
45145525 GCTCCTCGTT
* *
45145535 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
45145575 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
45145614 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
45145655 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45145680 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:45151618 original size:24 final size:24
Alignment explanation
Indices: 45151591--45151691 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
45151581 AAGGCTGTCA
*
45151591 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
45151615 GGAGAGGATTTAGGAGATGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
45151639 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
45151663 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
45151687 GGAGA
1 GGAGA
45151692 ACGGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.02, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:45153587 original size:24 final size:24
Alignment explanation
Indices: 45153560--45153660 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
45153550 AAGGCTGTCA
*
45153560 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
45153584 GGAGAGGATTTAGGAGATGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
45153608 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
45153632 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
45153656 GGAGA
1 GGAGA
45153661 ACGGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.02, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:45155136 original size:27 final size:27
Alignment explanation
Indices: 45155092--45155196 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
45155082 AGGAAGCGTC
* *
45155092 CTGGTGGCTATGCGACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
45155119 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
*
45155146 CTGGTGGCTCTGCCACAATTATCT-ATT
1 CTGGTGGCTCTGCCACATTTATCTGA-T
* *
45155173 CTGGTGACTCTGTCACA-TTATCTG
1 CTGGTGGCTCTGCCACATTTATCTG
45155197 TTCTTGCAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.09
27 61 0.91
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:45155176 original size:54 final size:53
Alignment explanation
Indices: 45155092--45155200 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 53
45155082 AGGAAGCGTC
* * *
45155092 CTGGTGGCTATGCGACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* *
45155146 CTGGTGGCTCTGCCACAATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTGCCACATTATCTGTT
45155199 CT
1 CT
45155201 TGCAGCAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 11 0.22
54 38 0.78
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:45159338 original size:55 final size:54
Alignment explanation
Indices: 45159261--45159516 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
45159251 CATTAGGGTT
*
45159261 TAAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTTTAAGG
1 TAAGGATACCATGTAAGACCATGTC-AAGGCATGGCAATTGGTAA-GTTTATAAGG
* * * * *
45159316 TAAGGAAATCATGTAAGACCATGTCAAGACATGG-TATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTT--TATAAGG
* * * * * *
45159371 CAAAGG-TCCCATCTAAGACCATGCCAAGGCATGGC-ATTGGTGAGTTCATAAGG
1 -TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTTTATAAGG
* * *
45159424 CAAGGATACCATGTAAGACCATGTCAAGTCATGGCAA-TGGTAAGTTT-CAA--
1 TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTTTATAAGG
* * * *
45159474 -AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAG
45159517 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
48 2 0.01
49 38 0.23
52 6 0.04
53 42 0.25
54 8 0.05
55 66 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTTTATAAGG
Found at i:45159468 original size:108 final size:110
Alignment explanation
Indices: 45159269--45159469 Score: 280
Period size: 108 Copynumber: 1.8 Consensus size: 110
45159259 TTTAAGGATA
* * ** * *
45159269 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTTTAAGGTAAGGAAATCATGTAAGA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
45159334 CCATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
45159379 CCATCTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
45159442 CCATGTCAAGTCATGGCAATGGTAAGTT
66 CCATGTCAAGACATGGCAATGATAAGTT
45159470 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 47 0.59
109 7 0.09
110 25 0.32
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (110 bp):
CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:45164452 original size:50 final size:50
Alignment explanation
Indices: 45164353--45164466 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
45164343 TGGTTGGTAT
*
45164353 CAAAGCTAGCCAAGTTGGGTTAAGGCTCATGAGGCTAGAGTTCACCGAGC
1 CAAAGCTAGCCAAGTTGGGTTAAGACTCATGAGGCTAGAGTTCACCGAGC
* * * **
45164403 CAAAGCTAGCTAGGTTGGGTATAA-ACTCTTGAGGCTAGAGTTCTTCGAGC
1 CAAAGCTAGCCAAGTTGGGT-TAAGACTCATGAGGCTAGAGTTCACCGAGC
* *
45164453 TAGAGCTAGCCAAG
1 CAAAGCTAGCCAAG
45164467 ATAAGTTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 50 0.94
51 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
CAAAGCTAGCCAAGTTGGGTTAAGACTCATGAGGCTAGAGTTCACCGAGC
Found at i:45167252 original size:28 final size:30
Alignment explanation
Indices: 45167176--45167281 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 30
45167166 AACAATAGAT
* *
45167176 AGATAGCCACAAAGGCGTCCAAAT-ACATACAC
1 AGATAGCCACAAAGGCATCCACATAACAT---C
* ** *
45167208 AAGATAGCCACAGAGGCATCCATGT-AGAT-
1 -AGATAGCCACAAAGGCATCCACATAACATC
45167237 AGATAGCCACAAAGGCATCCACATAACATC
1 AGATAGCCACAAAGGCATCCACATAACATC
45167267 AGATAGCCACAAAGG
1 AGATAGCCACAAAGG
45167282 TGTCCTCATA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 21 0.34
29 3 0.05
30 15 0.24
33 23 0.37
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.13
Consensus pattern (30 bp):
AGATAGCCACAAAGGCATCCACATAACATC
Found at i:45171513 original size:29 final size:29
Alignment explanation
Indices: 45171448--45171566 Score: 125
Period size: 29 Copynumber: 4.2 Consensus size: 29
45171438 TATATACATG
* * *
45171448 CATATAGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
45171476 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * **
45171505 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
45171534 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
45171563 -ATAT
1 CATAT
45171567 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 20 0.28
29 52 0.72
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:45171553 original size:58 final size:57
Alignment explanation
Indices: 45171454--45171562 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
45171444 CATGCATATA
* * **
45171454 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
*
45171511 GCCCACTAGGCCCAAT-TCACCTTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATTAGGCCCAAATCATATT
45171563 ATATTCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 2 0.04
57 16 0.36
58 27 0.60
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
Found at i:45171657 original size:18 final size:19
Alignment explanation
Indices: 45171634--45171671 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45171624 ATGGGCCCAA
45171634 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCAGGCCCATT
*
45171652 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCAGGCCCATT
45171671 T
1 T
45171672 GGCCAATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.37, G:0.16, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCAGGCCCATT
Found at i:45172941 original size:16 final size:16
Alignment explanation
Indices: 45172920--45172952 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45172910 AAACCCTCAA
45172920 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
45172936 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
45172952 G
1 G
45172953 GGCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:45174054 original size:9 final size:9
Alignment explanation
Indices: 45174040--45174066 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45174030 CCACGTTAGG
45174040 AGCCACGCC
1 AGCCACGCC
45174049 AGCCACGCC
1 AGCCACGCC
45174058 AGCCACGCC
1 AGCCACGCC
45174067 CTTAAAGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (9 bp):
AGCCACGCC
Found at i:45177444 original size:16 final size:16
Alignment explanation
Indices: 45177423--45177455 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45177413 AAAAATTCAA
45177423 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
45177439 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
45177455 G
1 G
45177456 GGCATTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:45183152 original size:135 final size:135
Alignment explanation
Indices: 45182910--45183152 Score: 477
Period size: 135 Copynumber: 1.8 Consensus size: 135
45182900 GAGCTTCATC
45182910 TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACATATATATACTTTCGTACAATAGTG
1 TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACATATATATACTTTCGTACAATAGTG
45182975 ATCTAGATGGTCGAATATTTCCAAAGCACATTCTTCATCAATTAAAGATGGATTCACATGGTAAG
66 ATCTAGATGGTCGAATATTTCCAAAGCACATTCTTCATCAATTAAAGATGGATTCACATGGTAAG
45183040 CACAT
131 CACAT
*
45183045 TCGAACTATAATATTAATAAACGCATCACTTAACTCTCACATATATATACTTTCGTACAATAGTG
1 TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACATATATATACTTTCGTACAATAGTG
45183110 ATCTAGATGGTCGAATATTTCCAAAGCACATTCTTCATCAATT
66 ATCTAGATGGTCGAATATTTCCAAAGCACATTCTTCATCAATT
45183153 TTCAACTTTC
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 107 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (135 bp):
TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACATATATATACTTTCGTACAATAGTG
ATCTAGATGGTCGAATATTTCCAAAGCACATTCTTCATCAATTAAAGATGGATTCACATGGTAAG
CACAT
Found at i:45192082 original size:14 final size:14
Alignment explanation
Indices: 45192063--45192093 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45192053 AAAAAATGGT
*
45192063 CCGATTAAACTGAA
1 CCGATTAAACCGAA
45192077 CCGATTAAACCGAA
1 CCGATTAAACCGAA
45192091 CCG
1 CCG
45192094 GCCAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.16
Consensus pattern (14 bp):
CCGATTAAACCGAA
Found at i:45197912 original size:20 final size:20
Alignment explanation
Indices: 45197860--45197912 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
45197850 TTTGATTATA
* *
45197860 TAGTTTTATTAATGATTAAT
1 TAGTTTAATTACTGATTAAT
* *
45197880 TAGTTTAACTACTTATTAAT
1 TAGTTTAATTACTGATTAAT
45197900 TAGTTTAATTACT
1 TAGTTTAATTACT
45197913 CATGTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
TAGTTTAATTACTGATTAAT
Found at i:45199393 original size:12 final size:12
Alignment explanation
Indices: 45199376--45199400 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45199366 GTGATTTTAC
45199376 TTAGTTTCTAGT
1 TTAGTTTCTAGT
45199388 TTAGTTTCTAGT
1 TTAGTTTCTAGT
45199400 T
1 T
45199401 CAAAGACTAA
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:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTAGTTTCTAGT
Found at i:45202195 original size:13 final size:14
Alignment explanation
Indices: 45202177--45202206 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
45202167 CATGAACAAA
45202177 ACAAAAAATAAC-C
1 ACAAAAAATAACAC
45202190 ACAAAAAATAACAC
1 ACAAAAAATAACAC
45202204 ACA
1 ACA
45202207 CCAAGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (14 bp):
ACAAAAAATAACAC
Found at i:45203049 original size:15 final size:14
Alignment explanation
Indices: 45203012--45203050 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
45203002 AAAGAAATAT
*
45203012 ATATTTTTTAAAAA
1 ATATTTTTAAAAAA
45203026 ATATCTTTTAAAAAA
1 ATAT-TTTTAAAAAA
45203041 ATTATTTTTA
1 A-TATTTTTA
45203051 TTTTTAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTTTTAAAAAA
Done.