Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 43 of 82
Found at i:16003334 original size:2 final size:2
Alignment explanation
Indices: 16003327--16003411 Score: 107
Period size: 2 Copynumber: 40.5 Consensus size: 2
16003317 TATGATGATG
* * *
16003327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TG TGN TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
16003370 GTA GTA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 -TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16003412 GTGTGTTATA
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
2 69 0.88
3 9 0.12
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16009470 original size:9 final size:9
Alignment explanation
Indices: 16009456--16009497 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
16009446 GGTCATCTTT
16009456 CTCTCTCAA
1 CTCTCTCAA
*
16009465 CTCTCTGAA
1 CTCTCTCAA
*
16009474 CTGTCTCAA
1 CTCTCTCAA
16009483 CTCTGC-CAA
1 CTCT-CTCAA
16009492 CTCTCT
1 CTCTCT
16009498 ATTGAGCACC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.19, C:0.40, G:0.07, T:0.33
Consensus pattern (9 bp):
CTCTCTCAA
Found at i:16009532 original size:63 final size:63
Alignment explanation
Indices: 16009456--16009579 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
16009446 GGTCATCTTT
*
16009456 CTCTCTCAACTCTCTGAACTGTCTCAACTCTGCCAACTCTCTATTGAGCACCATCGTCATCAG
1 CTCTCTCAACTCTCTGAACTGTATCAACTCTGCCAACTCTCTATTGAGCACCATCGTCATCAG
* * * *
16009519 CTCTCTCAGCTCTCTGAACTGTATGAGCTCTGTCAACTCTCTATTGAGCACCATCGTCATC
1 CTCTCTCAACTCTCTGAACTGTATCAACTCTGCCAACTCTCTATTGAGCACCATCGTCATC
16009580 TAGATGTGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (63 bp):
CTCTCTCAACTCTCTGAACTGTATCAACTCTGCCAACTCTCTATTGAGCACCATCGTCATCAG
Found at i:16009964 original size:31 final size:31
Alignment explanation
Indices: 16009928--16010076 Score: 194
Period size: 31 Copynumber: 4.9 Consensus size: 31
16009918 TCAGTGTTGG
* * *
16009928 CGTTATATACATGGTGTGTTACCACATTTTA
1 CGTTATATGCATGGCGTGTTACCACATTCTA
*
16009959 AGTTATATGCATGGCGTGTTACCACATTCTA
1 CGTTATATGCATGGCGTGTTACCACATTCTA
* **
16009990 CGTGATATATATGGC--GTTACCACATTCTA
1 CGTTATATGCATGGCGTGTTACCACATTCTA
*
16010019 CGTTATATGCATGGCGTGTTACCACATTTTA
1 CGTTATATGCATGGCGTGTTACCACATTCTA
* *
16010050 TGTTATATGCATGGCGTGTTACAACAT
1 CGTTATATGCATGGCGTGTTACCACAT
16010077 GACTGACAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 26 0.25
31 76 0.75
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (31 bp):
CGTTATATGCATGGCGTGTTACCACATTCTA
Found at i:16010064 original size:60 final size:60
Alignment explanation
Indices: 16009945--16010066 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
16009935 TACATGGTGT
* *
16009945 GTTACCACATTTTAAGTTATATGCATGGCGTGTTACCACATTCTACGTGATATATATGGC
1 GTTACCACATTCTAAGTTATATGCATGGCGTGTTACCACATTCTACGTGATATACATGGC
* * * * *
16010005 GTTACCACATTCTACGTTATATGCATGGCGTGTTACCACATTTTATGTTATATGCATGGC
1 GTTACCACATTCTAAGTTATATGCATGGCGTGTTACCACATTCTACGTGATATACATGGC
16010065 GT
1 GT
16010067 GTTACAACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (60 bp):
GTTACCACATTCTAAGTTATATGCATGGCGTGTTACCACATTCTACGTGATATACATGGC
Found at i:16016479 original size:117 final size:117
Alignment explanation
Indices: 16016271--16016507 Score: 348
Period size: 117 Copynumber: 2.0 Consensus size: 117
16016261 TCGGCTTGAA
* * ** * *
16016271 GAAGATCCTCTCCTTTCGCCATGACTGAGTGAAGGTCCCCTTCCCTTCCCACAGATGCATCGATA
1 GAAGATCCTCTCCTTCCACCACAACTGAGTGAAGGTCCCCCTCCCCTCCCACAGATGCATCGATA
* * * *
16016336 ACCGAATCGGCCTCAGGAACAGGGTCTCCTTCAGCACCAGCAACGTCATCAT
66 ACCGAATCGACCTCAAGAACAAGGTCTCCTTCAGCACCAGCAACATCATCAT
* **
16016388 GAAGATCCTCTCCTTCCACCACAATTGAGTGAAGGTCCCCCTCCCCTCCCGTAGATGCATCGATA
1 GAAGATCCTCTCCTTCCACCACAACTGAGTGAAGGTCCCCCTCCCCTCCCACAGATGCATCGATA
*
16016453 ACCGGATCGACCTCAAGAACAAGGTCTCCTTCAGCACCAGCAACATCATCAT
66 ACCGAATCGACCTCAAGAACAAGGTCTCCTTCAGCACCAGCAACATCATCAT
16016505 GAA
1 GAA
16016508 TGTGCACACC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (117 bp):
GAAGATCCTCTCCTTCCACCACAACTGAGTGAAGGTCCCCCTCCCCTCCCACAGATGCATCGATA
ACCGAATCGACCTCAAGAACAAGGTCTCCTTCAGCACCAGCAACATCATCAT
Found at i:16018706 original size:31 final size:31
Alignment explanation
Indices: 16018670--16018940 Score: 337
Period size: 31 Copynumber: 8.7 Consensus size: 31
16018660 ACCCATAATA
** * *
16018670 TGGTAACATGCCATACATATAACATAAAATG
1 TGGTAACATGCCACGCATATAACGTAAACTG
* * * *
16018701 TGGTAACATGCTATGAACATAACGTAAACTG
1 TGGTAACATGCCACGCATATAACGTAAACTG
*
16018732 TGGTAACACGCCACGCATATAACGTAAACTG
1 TGGTAACATGCCACGCATATAACGTAAACTG
**
16018763 TGGTAACACACCACGCATATAACGTAAACTG
1 TGGTAACATGCCACGCATATAACGTAAACTG
16018794 TGGTAACATGCCACGCATATAACGTAAACTG
1 TGGTAACATGCCACGCATATAACGTAAACTG
* *
16018825 TGGTAACATGCCACGCATATAACATAAGCTG
1 TGGTAACATGCCACGCATATAACGTAAACTG
* *
16018856 TGGTAACACGCCACGCATATAACGTAAAATG
1 TGGTAACATGCCACGCATATAACGTAAACTG
* * *
16018887 CGATAAC-TCGCCACGCATATAACGTAAAATG
1 TGGTAACAT-GCCACGCATATAACGTAAACTG
* * *
16018918 TCGTAACACGCCATGCATATAAC
1 TGGTAACATGCCACGCATATAAC
16018941 ATATAACGTA
Statistics
Matches: 210, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
31 210 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (31 bp):
TGGTAACATGCCACGCATATAACGTAAACTG
Found at i:16018752 original size:62 final size:62
Alignment explanation
Indices: 16018670--16019030 Score: 346
Period size: 62 Copynumber: 5.7 Consensus size: 62
16018660 ACCCATAATA
* ** * * * * *
16018670 TGGTAACATGCCATACATATAACATAAAATGTGGTAACATGCTATGAACATAACGTAAACTG
1 TGGTAACACGCCACGCATATAACGTAAAATGTGGTAACATGCCACGCATATAACGTAAACTG
* **
16018732 TGGTAACACGCCACGCATATAACGTAAACTGTGGTAACACACCACGCATATAACGTAAACTG
1 TGGTAACACGCCACGCATATAACGTAAAATGTGGTAACATGCCACGCATATAACGTAAACTG
* * * *
16018794 TGGTAACATGCCACGCATATAACGTAAACTGTGGTAACATGCCACGCATATAACATAAGCTG
1 TGGTAACACGCCACGCATATAACGTAAAATGTGGTAACATGCCACGCATATAACGTAAACTG
* * *
16018856 TGGTAACACGCCACGCATATAACGTAAAATGCGATAAC-TCGCCACGCATATAACGTAAAATG
1 TGGTAACACGCCACGCATATAACGTAAAATGTGGTAACAT-GCCACGCATATAACGTAAACTG
* * * * * *
16018918 TCGTAACACGCCATGCATATAACATATAACGTAAAATGTCGTAACACGCCATGCATATAATGTAA
1 TGGTAACACGCCA--C-----GCATATAACGTAAAATGTGGTAACATGCCACGCATATAACGTAA
*
16018983 AATG
59 ACTG
** * * * * * *
16018987 TCATAACACACCATGCATATATCGTAAAATCTCGTAACACGCCA
1 TGGTAACACGCCACGCATATAACGTAAAATGTGGTAACATGCCA
16019031 ACGCTAACAC
Statistics
Matches: 253, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
61 1 0.00
62 200 0.79
64 1 0.00
69 51 0.20
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (62 bp):
TGGTAACACGCCACGCATATAACGTAAAATGTGGTAACATGCCACGCATATAACGTAAACTG
Found at i:16018944 original size:38 final size:38
Alignment explanation
Indices: 16018902--16018977 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
16018892 ACTCGCCACG
16018902 CATATAACGTAAAATGTCGTAACACGCCATGCATATAA
1 CATATAACGTAAAATGTCGTAACACGCCATGCATATAA
16018940 CATATAACGTAAAATGTCGTAACACGCCATGCATATAA
1 CATATAACGTAAAATGTCGTAACACGCCATGCATATAA
16018978 TGTAAAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (38 bp):
CATATAACGTAAAATGTCGTAACACGCCATGCATATAA
Found at i:16018975 original size:31 final size:31
Alignment explanation
Indices: 16018940--16019030 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
16018930 ATGCATATAA
16018940 CATATAACGTAAAATGTCGTAACACGCCATG
1 CATATAACGTAAAATGTCGTAACACGCCATG
* * *
16018971 CATATAATGTAAAATGTCATAACACACCATG
1 CATATAACGTAAAATGTCGTAACACGCCATG
* *
16019002 CATATATCGTAAAATCTCGTAACACGCCA
1 CATATAACGTAAAATGTCGTAACACGCCA
16019031 ACGCTAACAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (31 bp):
CATATAACGTAAAATGTCGTAACACGCCATG
Found at i:16018983 original size:69 final size:69
Alignment explanation
Indices: 16018871--16019007 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
16018861 ACACGCCACG
* * *
16018871 CATATAACGTAAAATGCGATAACTCGCCACGCATATAACGTAAAATGTCGTAACACGCCATGCAT
1 CATATAACGTAAAATGCGATAACACGCCACGCATATAACGTAAAATGTCATAACACACCATGCAT
16018936 ATAA
66 ATAA
* *
16018940 CATATAACGTAAAATGTCG-TAACACGCCATGCATATAATGTAAAATGTCATAACACACCATGCA
1 CATATAACGTAAAATG-CGATAACACGCCACGCATATAACGTAAAATGTCATAACACACCATGCA
16019004 TATA
65 TATA
16019008 TCGTAAAATC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 60 0.97
70 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (69 bp):
CATATAACGTAAAATGCGATAACACGCCACGCATATAACGTAAAATGTCATAACACACCATGCAT
ATAA
Found at i:16019821 original size:47 final size:47
Alignment explanation
Indices: 16019710--16019957 Score: 257
Period size: 47 Copynumber: 5.3 Consensus size: 47
16019700 ATTCTAAACA
* * * *
16019710 CTGGCATGTCACAGATTCCCTCCATGACGTGTCA-CGATTCTGAACA
1 CTGGCGTGTCACAGATTCCCTCCATGACGTGTCACCAACTCTGAACG
* * * * *
16019756 CTAGTGTCTCACAAATTCCCTCCATGGCGTGTCACCAACTCTGAACG
1 CTGGCGTGTCACAGATTCCCTCCATGACGTGTCACCAACTCTGAACG
* * * *
16019803 CTGGCGTGTCACAGATTCCCTCCATGCCATGTCACAAACTCTTAACG
1 CTGGCGTGTCACAGATTCCCTCCATGACGTGTCACCAACTCTGAACG
* * * * *
16019850 TTGGCATATCATAGATTCCCTCCAT-AGCGTGTCACCAACTCTGAACT
1 CTGGCGTGTCACAGATTCCCTCCATGA-CGTGTCACCAACTCTGAACG
* * * *
16019897 CTGGCGTTTCACAGATTCCTTCCATGATGTGTCACCAACTTTGAACG
1 CTGGCGTGTCACAGATTCCCTCCATGACGTGTCACCAACTCTGAACG
* *
16019944 TTGACGTGTCACAG
1 CTGGCGTGTCACAG
16019958 TCGTTTCACA
Statistics
Matches: 162, Mismatches: 37, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
46 28 0.17
47 133 0.82
48 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
CTGGCGTGTCACAGATTCCCTCCATGACGTGTCACCAACTCTGAACG
Found at i:16020012 original size:24 final size:24
Alignment explanation
Indices: 16019984--16020062 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
16019974 TACCATGGCA
16019984 TGTCACAAACTCTAAACCCTGTCG
1 TGTCACAAACTCTAAACCCTGTCG
* * * * *
16020008 TGTCACATATTC-CAACCATGTTG
1 TGTCACAAACTCTAAACCCTGTCG
16020031 TGTCACAAACTCTAAACCCTG-CTG
1 TGTCACAAACTCTAAACCCTGTC-G
16020055 TGTCACAA
1 TGTCACAA
16020063 CCCTGCCACA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 18 0.42
24 25 0.58
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (24 bp):
TGTCACAAACTCTAAACCCTGTCG
Found at i:16020026 original size:47 final size:47
Alignment explanation
Indices: 16019957--16020061 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 47
16019947 ACGTGTCACA
* *
16019957 GTCGTTTCACACATTCCTACCATGGCATGTCACAAACTCTAAACCCT
1 GTCGTGTCACACATTCCAACCATGGCATGTCACAAACTCTAAACCCT
* ***
16020004 GTCGTGTCACATATTCCAACCATGTTGTGTCACAAACTCTAAACCCT
1 GTCGTGTCACACATTCCAACCATGGCATGTCACAAACTCTAAACCCT
16020051 G-CTGTGTCACA
1 GTC-GTGTCACA
16020062 ACCCTGCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
46 1 0.02
47 50 0.98
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (47 bp):
GTCGTGTCACACATTCCAACCATGGCATGTCACAAACTCTAAACCCT
Found at i:16021685 original size:13 final size:13
Alignment explanation
Indices: 16021667--16021691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16021657 CAGTAAGCCA
16021667 ATTTTTATATTTC
1 ATTTTTATATTTC
16021680 ATTTTTATATTT
1 ATTTTTATATTT
16021692 GTGTTTAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTATATTTC
Found at i:16026748 original size:14 final size:14
Alignment explanation
Indices: 16026726--16026778 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
16026716 TGTCTATTTT
16026726 TTTATTTATTATTA
1 TTTATTTATTATTA
*
16026740 TTTAATTATTATT-
1 TTTATTTATTATTA
*
16026753 TTCATTTTATTA-TA
1 TTTA-TTTATTATTA
16026767 TTTATTTATTAT
1 TTTATTTATTAT
16026779 CATATTTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:16026778 original size:16 final size:16
Alignment explanation
Indices: 16026737--16026785 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
16026727 TTATTTATTA
16026737 TTATTTAATTATTAT-T
1 TTATTT-ATTATTATAT
16026753 TTCA-TT-TTATTATAT
1 TT-ATTTATTATTATAT
*
16026768 TTATTTATTATCATAT
1 TTATTTATTATTATAT
16026784 TT
1 TT
16026786 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 14 0.50
17 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTATTATTATAT
Found at i:16026935 original size:23 final size:23
Alignment explanation
Indices: 16026904--16026967 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
16026894 TGAACAAAAA
16026904 TTTTATTTTTT-TA-TTATACTAT
1 TTTTATTTTTTATATTTATA-TAT
*
16026926 TTTTATTTTTTATATTTTTATAT
1 TTTTATTTTTTATATTTATATAT
16026949 TTTTATTATTATTATATTT
1 TTTTATT-TT-TTATATTT
16026968 TTCGTAAGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 11 0.30
23 12 0.32
24 6 0.16
25 8 0.22
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTTTTATATTTATATAT
Found at i:16026951 original size:17 final size:18
Alignment explanation
Indices: 16026904--16026969 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 18
16026894 TGAACAAAAA
16026904 TTTTAT-TTTTTTATTAT
1 TTTTATATTTTTTATTAT
*
16026921 ACTATTTTTATTTTTTA-TAT
1 --T-TTTATATTTTTTATTAT
16026941 TTTTATA-TTTTTATTAT
1 TTTTATATTTTTTATTAT
*
16026958 TATTATATTTTT
1 TTTTATATTTTT
16026970 CGTAAGCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
16 6 0.15
17 14 0.35
18 5 0.12
19 1 0.03
20 7 0.17
21 7 0.17
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATATTTTTTATTAT
Found at i:16027168 original size:20 final size:20
Alignment explanation
Indices: 16027144--16027187 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
16027134 TGTTTTAGAT
*
16027144 TTTTTTTATATTATTTATTTA
1 TTTTTCTAT-TTATTTATTTA
*
16027165 TTTTTCTATTTTTTTATTTA
1 TTTTTCTATTTATTTATTTA
16027185 TTT
1 TTT
16027188 AATGTCGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTCTATTTATTTATTTA
Found at i:16028601 original size:111 final size:111
Alignment explanation
Indices: 16028446--16028673 Score: 343
Period size: 111 Copynumber: 2.1 Consensus size: 111
16028436 TCATCGTCAA
* * *
16028446 ACAGCTTCTCATTGGCGAGCATGAGGCTTTCCGTTACTCCCTCCAGCAAA-CTGATTAGATCTCC
1 ACAGCTTCTCACTAGCGAGCAGGAGGCTTTCCGTTACTCCCTCCAGCAAATC-GATTAGATCTCC
*
16028510 CTCCTTTTCTCTCCTTTACTG-CAGATCGAGCTCTTCTTCACCGCCGG
65 CTCCTTTTCTCTCCTTTACTGTC-GATCGAGCTCTTCCTCACCGCCGG
* *
16028557 ACAGCTTCTCACTAGCTAGCAGGAGGCTTTTCGTTACTCCCTCCAGCAAATCGATTAGATCTCCC
1 ACAGCTTCTCACTAGCGAGCAGGAGGCTTTCCGTTACTCCCTCCAGCAAATCGATTAGATCTCCC
* * *
16028622 TCTTTTTCTCTCTTTTACTGTCGATCGGGCTCTTCCTCACCGCCGG
66 TCCTTTTCTCTCCTTTACTGTCGATCGAGCTCTTCCTCACCGCCGG
16028668 ACAGCT
1 ACAGCT
16028674 CCTAAAACCC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
111 104 0.98
112 2 0.02
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.32
Consensus pattern (111 bp):
ACAGCTTCTCACTAGCGAGCAGGAGGCTTTCCGTTACTCCCTCCAGCAAATCGATTAGATCTCCC
TCCTTTTCTCTCCTTTACTGTCGATCGAGCTCTTCCTCACCGCCGG
Found at i:16029018 original size:17 final size:17
Alignment explanation
Indices: 16028993--16029034 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
16028983 CCCTCTCCCC
*
16028993 TTTTCTCTTTTTTTGTT
1 TTTTTTCTTTTTTTGTT
16029010 TTTTTTCTTTTTTTGTT
1 TTTTTTCTTTTTTTGTT
16029027 TATTTTTC
1 T-TTTTTC
16029035 ATTTACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTTTTTGTT
Found at i:16029227 original size:37 final size:37
Alignment explanation
Indices: 16029174--16029245 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
16029164 TTTTTTTTTT
* *
16029174 AAAATAAACTCTTCAAAATTGAGGCAAC-GAAACTTGA
1 AAAATAAACTCCTCAAAACTGAGGC-ACTGAAACTTGA
* *
16029211 AAAATGAACTCCTCAAAGCTGAGGCACTGAAACTT
1 AAAATAAACTCCTCAAAACTGAGGCACTGAAACTT
16029246 TTTTGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 2 0.07
37 28 0.93
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (37 bp):
AAAATAAACTCCTCAAAACTGAGGCACTGAAACTTGA
Found at i:16029294 original size:86 final size:87
Alignment explanation
Indices: 16029164--16029333 Score: 272
Period size: 86 Copynumber: 2.0 Consensus size: 87
16029154 AATTTTAAAA
* *
16029164 TTTTTTTTTTAAAATAAACTCTTCAAAATTGAGGCAACGAAACTTGAAAAATGAACTCCTCAAAG
1 TTTTTTTTTTAAAATAAACTCTTCAAAATAGAAGCAACGAAACTTGAAAAATGAACTCCTCAAAG
*
16029229 CTGAGGCACTGAAACTTTTTTG
66 CTGAGGCACCGAAACTTTTTTG
* *
16029251 TTTTTTTTTT-AAATGAACT-TCTCAAAATAGAAGCAATGAAACTTGAAAAATGAACTCCTCAAA
1 TTTTTTTTTTAAAATAAACTCT-TCAAAATAGAAGCAACGAAACTTGAAAAATGAACTCCTCAAA
16029314 GCTGAGGCACCGAAACTTTT
65 GCTGAGGCACCGAAACTTTT
16029334 AAAAAATGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
85 1 0.01
86 66 0.86
87 10 0.13
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (87 bp):
TTTTTTTTTTAAAATAAACTCTTCAAAATAGAAGCAACGAAACTTGAAAAATGAACTCCTCAAAG
CTGAGGCACCGAAACTTTTTTG
Found at i:16029533 original size:190 final size:187
Alignment explanation
Indices: 16029261--16030177 Score: 914
Period size: 190 Copynumber: 4.7 Consensus size: 187
16029251 TTTTTTTTTT
* * * * * *
16029261 AAATGAACTTCTCAAA-ATAGAAGCAATGAAACTTGAAAAATGAACTCCTCAAAGCTGAGGCACC
1 AAATGAACTCCTCAAAGCT-GAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
* * * * *
16029325 GAAACTTTTAAAAAATGAACACCTCAAAATTGAGGCAATGAAACTTGAAAAATGAACTTCTCAAA
65 GAAACTTTT-AAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAA
* * ** * * *
16029390 GTTGAGGCACCGAAACTTT-AAAAATGAACTCCTCAAAATTGAGGCAATGAAATTTTAAA
129 GCTGAGACAATGAAACTTTAAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTT-AA
* * ** * *
16029449 AAATAAAACTCCCCAAAGCTGAGGCAACGAGATTTTTTAAAATGAACTCCTCAAAACTGAGGCAA
1 AAAT-GAACTCCTCAAAGCTGAGGCAACGA-AACTTTAAAAATGAACTCCTCAAAGCTGAGGCAA
* * *
16029514 CGAGACTTTTAAAAAATGAACTCCTCGAAGTTGAGGCAACGAAACTTTAAAAATGAAATCCTCAA
64 CGAAACTTTT-AAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAA
* **
16029579 AGCTAAGGTGATGAAACTTTAAAAATG-AACTTT-AAAAATGAACTTCTCAATGCTGAGGCAACG
128 AGC-----TGA-G--AC------AATGAAACTTTAAAAAATGAACTCCTCAAAACTGAGGCAACG
*
16029642 TAACTTTAA
179 AAACTTTAA
* * *
16029651 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTAAAAAATGAAATCCTCAAAGCTGAGGCAATG
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACG
* *
16029716 AAAC-TTTAAAAATGAACTCTTCAATGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGC
66 AAACTTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGC
* **
16029780 TGAGGCAATGAAACTTTTTAAAAAAATGAACTCCTCAATGCTGAGGCAACGAAACTTTAA
131 TGAGACAATGAAAC--TTT-AAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTAA
* *
16029840 AAATGAACTCCTCAAATCTGAGGCAATGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACG
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACG
* *
16029905 AAAGTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGC
66 AAACTTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGC
* * *
16029970 TGAGACAATGAAACTTTAAAAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTAA
131 TGAGACAATGAAACTTTAAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTAA
* *
16030027 NGACAATAGAACTTTAAAAAATGAACTTCTCGAAA-TTGAGGCAACGAAACTTTAAAAATGAAAT
1 --A-AAT-GAAC---------T---C--CTC-AAAGCTGAGGCAACGAAACTTTAAAAATGAACT
* * *
16030091 CCTCAAAGCTGAGGTAACGAAAC-TTT-AAAATGAACTCCTCAAAGTTGAGGCGACGAAAGTTTC
47 CCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTT-
* *
16030154 AAAAATGAACTCCTTAAAACTGAG
111 AAAAATGAACTCCTCAAAGCTGAG
16030178 GTAACGAAAC
Statistics
Matches: 613, Mismatches: 73, Indels: 70
0.81 0.10 0.09
Matches are distributed among these distances:
184 4 0.01
185 3 0.00
187 38 0.06
188 7 0.01
189 118 0.19
190 162 0.26
191 4 0.01
192 1 0.00
193 3 0.00
195 3 0.00
196 1 0.00
198 54 0.09
199 3 0.00
200 33 0.05
201 23 0.04
202 6 0.01
203 70 0.11
204 27 0.04
205 50 0.08
206 3 0.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (187 bp):
AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACG
AAACTTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGC
TGAGACAATGAAACTTTAAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTAA
Found at i:16029595 original size:37 final size:37
Alignment explanation
Indices: 16029261--16030026 Score: 757
Period size: 37 Copynumber: 20.0 Consensus size: 37
16029251 TTTTTTTTTT
* * * * *
16029261 AAATGAACTTCTCAAA-ATAGAAGCAATGAAACTTGAA
1 AAATGAACTCCTCAAAGCT-GAGGCAACGAAACTTTAA
*
16029298 AAATGAACTCCTCAAAGCTGAGGCACCGAAACTTTTAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAAC-TTT-AA
* ** * *
16029337 AAATGAACACCTCAAAATTGAGGCAATGAAACTTGAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* * *
16029374 AAATGAACTTCTCAAAGTTGAGGCACCGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
** * *
16029411 AAATGAACTCCTCAAAATTGAGGCAATGAAATTTTAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTT-AA
* * ** *
16029449 AAATAAAACTCCCCAAAGCTGAGGCAACGAGATTTTTTA
1 AAAT-GAACTCCTCAAAGCTGAGGCAACGA-AACTTTAA
* *
16029488 AAATGAACTCCTCAAAACTGAGGCAACGAGACTTTTAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAAC-TTT-AA
* *
16029527 AAATGAACTCCTCGAAGTTGAGGCAACGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* * ** *
16029564 AAATGAAATCCTCAAAGCTAAGGTGATGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* * *** *
16029601 AAATGAACT-TTAAAAATGAACT-TCTCAATGCTGAGGCAACGTAACTTTA
1 AAATGAACTCCT-CAAA-G--CTGAGGCAA--C-GA---AAC-T---TTAA
*
16029650 AAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTAAA
1 AAA-TGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* *
16029688 AAATGAAATCCTCAAAGCTGAGGCAATGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* * *
16029725 AAATGAACTCTTCAATGTTGAGGCAACGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
*
16029762 AAATGAACTCCTCAAAGCTGAGGCAATGAAACTTTTTAAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAAC--TTT--AA
*
16029803 AAATGAACTCCTCAATGCTGAGGCAACGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* *
16029840 AAATGAACTCCTCAAATCTGAGGCAATGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
*
16029877 AAATGAACTCCTCAAAGCTGAGGCAACGAAAGTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAA-CTTTAA
16029915 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
* *
16029952 AAATGAACTCCTCAAAGCTGAGACAATGAAACTTTAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTT-AA
* *
16029990 AAATGAACTTCTCGAAA-TTGAGGCAACGAAACTTTAA
1 AAATGAACTCCTC-AAAGCTGAGGCAACGAAACTTTAA
16030027 NGACAATAGA
Statistics
Matches: 605, Mismatches: 92, Indels: 64
0.80 0.12 0.08
Matches are distributed among these distances:
36 1 0.00
37 327 0.54
38 110 0.18
39 93 0.15
40 7 0.01
41 33 0.05
42 5 0.01
45 5 0.01
46 2 0.00
47 2 0.00
48 3 0.00
49 7 0.01
50 9 0.01
51 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (37 bp):
AAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTAA
Found at i:16029611 original size:13 final size:13
Alignment explanation
Indices: 16029593--16029623 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
16029583 AAGGTGATGA
16029593 AACTTTAAAAATG
1 AACTTTAAAAATG
16029606 AACTTTAAAAATG
1 AACTTTAAAAATG
16029619 AACTT
1 AACTT
16029624 CTCAATGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (13 bp):
AACTTTAAAAATG
Found at i:16029619 original size:87 final size:87
Alignment explanation
Indices: 16029525--16029694 Score: 243
Period size: 87 Copynumber: 2.0 Consensus size: 87
16029515 GAGACTTTTA
* **
16029525 AAAAATGAACTCCTCGAA-GTTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAGCTAAGGTG
1 AAAAATGAACTCCTC-AATGCTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAGCTAAGGCA
* *
16029589 ATGAAACTTTAAAAATGAACTTT
65 ACGAAACTTAAAAAATGAACTTT
* * * *
16029612 AAAAATGAACTTCTCAATGCTGAGGCAACGTAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAA
1 AAAAATGAACTCCTCAATGCTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAGCTAAGGCAA
16029677 CGAAACTTAAAAAATGAA
66 CGAAACTTAAAAAATGAA
16029695 ATCCTCAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.03
87 71 0.97
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (87 bp):
AAAAATGAACTCCTCAATGCTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAGCTAAGGCAA
CGAAACTTAAAAAATGAACTTT
Found at i:16029647 original size:50 final size:50
Alignment explanation
Indices: 16029556--16029659 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 50
16029546 GAGGCAACGA
** *
16029556 AACTTTAAAAATGAAATCCTCAAAGCTAAGGTGATGAAACTTTAAAAATG
1 AACTTTAAAAATGAAATCCTCAAAGCTAAGGCAACGAAACTTTAAAAATG
* * * * *
16029606 AACTTTAAAAATGAACTTCTCAATGCTGAGGCAACGTAACTTTAAAAATG
1 AACTTTAAAAATGAAATCCTCAAAGCTAAGGCAACGAAACTTTAAAAATG
16029656 AACT
1 AACT
16029660 CCTCAAAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (50 bp):
AACTTTAAAAATGAAATCCTCAAAGCTAAGGCAACGAAACTTTAAAAATG
Found at i:16030040 original size:55 final size:54
Alignment explanation
Indices: 16029972--16030089 Score: 197
Period size: 55 Copynumber: 2.2 Consensus size: 54
16029962 CTCAAAGCTG
16029972 AGACAATGAAACTTTAAAAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTA
1 AGACAATGAAACTTTAAAAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTA
16030026 ANGACAAT-AGAACTTTAAAAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTA
1 A-GACAATGA-AACTTTAAAAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTA
16030081 A-A-AATGAAA
1 AGACAATGAAA
16030090 TCCTCAAAGC
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
52 5 0.08
53 2 0.03
54 2 0.03
55 52 0.85
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (54 bp):
AGACAATGAAACTTTAAAAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTA
Found at i:16030130 original size:36 final size:37
Alignment explanation
Indices: 16030036--16030187 Score: 173
Period size: 36 Copynumber: 4.1 Consensus size: 37
16030026 ANGACAATAG
* *
16030036 AACTTTAAAAAATGAACTTCTCGAAA-TTGAGGCAACGA
1 AACTTT-AAAAATGAACTCCTC-AAAGCTGAGGCAACGA
* *
16030074 AACTTTAAAAATGAAATCCTCAAAGCTGAGGTAACGA
1 AACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGA
* *
16030111 AACTTT-AAAATGAACTCCTCAAAGTTGAGGCGACGA
1 AACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGA
* * * *
16030147 AAGTTTCAAAAATGAACTCCTTAAAACTGAGGTAACGA
1 AACTTT-AAAAATGAACTCCTCAAAGCTGAGGCAACGA
16030185 AAC
1 AAC
16030188 GTTTTTTCTT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
36 34 0.35
37 29 0.30
38 33 0.34
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.22
Consensus pattern (37 bp):
AACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGA
Found at i:16030186 original size:74 final size:73
Alignment explanation
Indices: 16030044--16030187 Score: 209
Period size: 74 Copynumber: 2.0 Consensus size: 73
16030034 AGAACTTTAA
* *
16030044 AAAATGAACTTCTCGAAATTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAGCTGAGGTAAC
1 AAAATGAACTCCTCGAAATTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAACTGAGGTAAC
16030109 GAAACTTT
66 GAAACTTT
* * * *
16030117 AAAATGAACTCCTC-AAAGTTGAGGCGACGAAAGTTTCAAAAATGAACTCCTTAAAACTGAGGTA
1 AAAATGAACTCCTCGAAA-TTGAGGCAACGAAACTTT-AAAAATGAAATCCTCAAAACTGAGGTA
16030181 ACGAAAC
64 ACGAAAC
16030188 GTTTTTTCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
72 3 0.05
73 29 0.46
74 31 0.49
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (73 bp):
AAAATGAACTCCTCGAAATTGAGGCAACGAAACTTTAAAAATGAAATCCTCAAAACTGAGGTAAC
GAAACTTT
Found at i:16032504 original size:14 final size:12
Alignment explanation
Indices: 16032474--16032502 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16032464 TAAGACAAGA
16032474 ATATAAGAATAT
1 ATATAAGAATAT
16032486 ATATAAGAATAT
1 ATATAAGAATAT
16032498 ATATA
1 ATATA
16032503 TATTTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
ATATAAGAATAT
Found at i:16033178 original size:13 final size:13
Alignment explanation
Indices: 16033160--16033222 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
16033150 AAAGTTATTC
16033160 AATAAAAATAATA
1 AATAAAAATAATA
*
16033173 AATAAATAACAATA
1 AATAAA-AATAATA
* *
16033187 GATAAAAA-AA-G
1 AATAAAAATAATA
*
16033198 GATAAAAATAATA
1 AATAAAAATAATA
16033211 AATAAAAATAAT
1 AATAAAAATAAT
16033223 TCAAATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
11 8 0.19
12 4 0.10
13 19 0.45
14 11 0.26
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (13 bp):
AATAAAAATAATA
Found at i:16033202 original size:21 final size:21
Alignment explanation
Indices: 16033161--16033217 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
16033151 AAGTTATTCA
16033161 ATAAAAATAATAAAT--AA--
1 ATAAAAATAATAAATAAAAGG
*
16033178 ATAACAATAGATAAA-AAAAGG
1 ATAAAAATA-ATAAATAAAAGG
16033199 ATAAAAATAATAAATAAAA
1 ATAAAAATAATAAATAAAA
16033218 ATAATTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 2 0.06
20 5 0.16
21 12 0.38
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
ATAAAAATAATAAATAAAAGG
Found at i:16033554 original size:30 final size:32
Alignment explanation
Indices: 16033502--16033561 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
16033492 TAATAATTAG
16033502 AAATAAAATATAAAATATGATAA-AAAAAATA
1 AAATAAAATATAAAATATGATAATAAAAAATA
*
16033533 AAATGAAAATA-ATAAT-TGATAATAAAAAA
1 AAAT-AAAATATAAAATATGATAATAAAAAA
16033562 ATGGACAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 14 0.54
32 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (32 bp):
AAATAAAATATAAAATATGATAATAAAAAATA
Found at i:16054410 original size:14 final size:14
Alignment explanation
Indices: 16054388--16054440 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
16054378 TGTCTATTTT
16054388 TTTATTTATTATTA
1 TTTATTTATTATTA
*
16054402 TTTAATTATTATT-
1 TTTATTTATTATTA
*
16054415 TTCATTTTATTA-TA
1 TTTA-TTTATTATTA
16054429 TTTATTTATTAT
1 TTTATTTATTAT
16054441 CATATTTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:16054440 original size:16 final size:16
Alignment explanation
Indices: 16054399--16054447 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
16054389 TTATTTATTA
16054399 TTATTTAATTATTAT-T
1 TTATTT-ATTATTATAT
16054415 TTCA-TT-TTATTATAT
1 TT-ATTTATTATTATAT
*
16054430 TTATTTATTATCATAT
1 TTATTTATTATTATAT
16054446 TT
1 TT
16054448 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 14 0.50
17 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTATTATTATAT
Found at i:16054598 original size:16 final size:15
Alignment explanation
Indices: 16054568--16054628 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
16054558 AACAAAAATT
*
16054568 TTATTTTT-TTATTA
1 TTATTTTTATTTTTA
16054582 TCTATTTTTATTTTTA
1 T-TATTTTTATTTTTA
16054598 -TATTTTTATATTTTA
1 TTATTTTTAT-TTTTA
16054613 TTATTATTATATTTTT
1 TTATT-TT-TATTTTT
16054629 CGTAAGCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 10 0.25
15 12 0.30
16 9 0.22
17 6 0.15
18 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:16054614 original size:27 final size:27
Alignment explanation
Indices: 16054566--16054628 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
16054556 TGAACAAAAA
*
16054566 TTTTATTTTTTTATTATCTATTTTTAT
1 TTTTATTTTTTTATTATCTATTATTAT
*
16054593 TTTTATATTTTTA-TAT-T-TTATTAT
1 TTTTATTTTTTTATTATCTATTATTAT
* *
16054617 TATTATATTTTT
1 TTTTATTTTTTT
16054629 CGTAAGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.52
25 1 0.03
26 3 0.09
27 12 0.36
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTATTTTTTTATTATCTATTATTAT
Found at i:16054616 original size:24 final size:22
Alignment explanation
Indices: 16054565--16054627 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
16054555 ATGAACAAAA
*
16054565 ATTTTATTTTT-TTATTATCTAT
1 ATTTTATTTTTATTATT-TTTAT
16054587 -TTTTATTTTTA-TATTTTTAT
1 ATTTTATTTTTATTATTTTTAT
*
16054607 ATTTTATTATTATTATATTTT
1 ATTTTATTTTTATTAT-TTTT
16054628 TCGTAAGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 4 0.11
21 24 0.69
22 3 0.09
23 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (22 bp):
ATTTTATTTTTATTATTTTTAT
Found at i:16054938 original size:17 final size:17
Alignment explanation
Indices: 16054916--16054951 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16054906 ACTTTTATCC
16054916 TTTTTTATCTATTGTTAT
1 TTTTTTAT-TATTGTTAT
*
16054934 TTTTTTATTATTTTTAT
1 TTTTTTATTATTGTTAT
16054951 T
1 T
16054952 GAATACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTTATTATTGTTAT
Found at i:16055099 original size:21 final size:21
Alignment explanation
Indices: 16055075--16055114 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16055065 TTAGCNAAAT
*
16055075 TTATTTTTA-TTATATATTTAA
1 TTATCTTTATTTAT-TATTTAA
16055096 TTATCTTTATTTATTATTT
1 TTATCTTTATTTATTATTT
16055115 TTATCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATCTTTATTTATTATTTAA
Found at i:16055107 original size:205 final size:206
Alignment explanation
Indices: 16054863--16055267 Score: 724
Period size: 205 Copynumber: 2.0 Consensus size: 206
16054853 TGCATTTTCA
16054863 CAAATTTATTATTTATTATATATTTGAATTATCTTTATTTATTACTTTTATCCTTTTTTATCTAT
1 CAAATTTATTATTTATTATATATTTGAATTATCTTTATTTATTACTTTTATCCTTTTTTATCTAT
16054928 TGTTATTTTTTTATTATTTTTATTGAATACCTTTTGTATAGTCAAATTCTTTATTTATTAAAATT
66 TGTTATTTTTTTATTATTTTTATTGAATACCTTTTGTATAGTCAAATTCTTTATTTATTAAAATT
** * * *
16054993 TCGGGATCTTAAAATCGAGGCCCTCCCATCGTACTGGTGGGGCCTTAATTCGGATTTCGAACCTA
131 TCAAGATCTTAAAATCGAGGCCCTCACATCGTACTGGTGGAGCCTTAATTCGAATTTCGAACCTA
16055058 GGAAAATTTAG
196 GGAAAATTTAG
*
16055069 CNAAATTTATT-TTTATTATATATTT-AATTATCTTTATTTATTATTTTTATCCTTTTTTATCTA
1 C-AAATTTATTATTTATTATATATTTGAATTATCTTTATTTATTACTTTTATCCTTTTTTATCTA
16055132 TTGTTATTTTTTTATTATTTTTATTGAATACCTTTTGTATAGTCAAATTCTTTATTTATTAAAAT
65 TTGTTATTTTTTTATTATTTTTATTGAATACCTTTTGTATAGTCAAATTCTTTATTTATTAAAAT
*
16055197 TTCAAGATCTTGAAATCGAGGCCCTCACATCGTACTGGTGGAGCCTTAATTCGAATTTCGAACCT
130 TTCAAGATCTTAAAATCGAGGCCCTCACATCGTACTGGTGGAGCCTTAATTCGAATTTCGAACCT
16055262 AGGAAA
195 AGGAAA
16055268 TATGGGCCCG
Statistics
Matches: 191, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
205 167 0.87
206 15 0.08
207 9 0.05
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (206 bp):
CAAATTTATTATTTATTATATATTTGAATTATCTTTATTTATTACTTTTATCCTTTTTTATCTAT
TGTTATTTTTTTATTATTTTTATTGAATACCTTTTGTATAGTCAAATTCTTTATTTATTAAAATT
TCAAGATCTTAAAATCGAGGCCCTCACATCGTACTGGTGGAGCCTTAATTCGAATTTCGAACCTA
GGAAAATTTAG
Found at i:16055143 original size:17 final size:17
Alignment explanation
Indices: 16055105--16055156 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
16055095 ATTATCTTTA
*
16055105 TTTATTATTTTTATCCTTT
1 TTTATTATTGTTAT--TTT
16055124 TTTATCTATTGTTATTTT
1 TTTAT-TATTGTTATTTT
*
16055142 TTTATTATTTTTATT
1 TTTATTATTGTTATT
16055157 GAATACCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.30
18 8 0.27
19 5 0.17
20 8 0.27
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTATTATTGTTATTTT
Found at i:16055154 original size:9 final size:9
Alignment explanation
Indices: 16055105--16055156 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
16055095 ATTATCTTTA
16055105 TTTATTATT
1 TTTATTATT
16055114 TTTATCCT-TT
1 TTTAT--TATT
16055124 TTTATCTATT
1 TTTAT-TATT
*
16055134 GTTATT-TT
1 TTTATTATT
16055142 TTTATTATT
1 TTTATTATT
16055151 TTTATT
1 TTTATT
16055157 GAATACCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 7 0.19
9 16 0.43
10 13 0.35
11 1 0.03
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTATT
Found at i:16055692 original size:20 final size:17
Alignment explanation
Indices: 16055649--16055683 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16055639 TATAAATAAG
16055649 TAATTTTTCTACTTCTT
1 TAATTTTTCTACTTCTT
16055666 TAATTTTTCTACTTCTT
1 TAATTTTTCTACTTCTT
16055683 T
1 T
16055684 CCTAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (17 bp):
TAATTTTTCTACTTCTT
Found at i:16056515 original size:111 final size:111
Alignment explanation
Indices: 16056319--16056549 Score: 372
Period size: 111 Copynumber: 2.1 Consensus size: 111
16056309 TTTTCACAGT
* *
16056319 CGGACAACTTCTCACTAGCGAGCAAGAGGCTTTCCGTTACTCCCTCCAGCAAACCGATTAGATCT
1 CGGACAGCTTATCACTAGCGAGCAAGAGGCTTTCCGTTACTCCCTCCAGCAAACCGATTAGATCT
* *
16056384 CCCTCCTTTTCTCTCCTTTACTACCGATCGGGCTCTTCCTCACCGC
66 CCCTCCTTTTCTCTCCTTTACTACCGATCAGACTCTTCCTCACCGC
* * * *
16056430 TGGACAGCTTATCACTGGCGAGCAGGAGGCTTTCCGTTACTCCCTCTAGCAAACCGATTAGATCT
1 CGGACAGCTTATCACTAGCGAGCAAGAGGCTTTCCGTTACTCCCTCCAGCAAACCGATTAGATCT
* *
16056495 CCCTCCTTTTCTCTCTTTTACTGCCGATCAGACTCTTCCTCACCGC
66 CCCTCCTTTTCTCTCCTTTACTACCGATCAGACTCTTCCTCACCGC
16056541 CGGACAGCT
1 CGGACAGCT
16056550 CCTAAAACCC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.29
Consensus pattern (111 bp):
CGGACAGCTTATCACTAGCGAGCAAGAGGCTTTCCGTTACTCCCTCCAGCAAACCGATTAGATCT
CCCTCCTTTTCTCTCCTTTACTACCGATCAGACTCTTCCTCACCGC
Found at i:16056993 original size:17 final size:18
Alignment explanation
Indices: 16056971--16057007 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
16056961 TCCCCCTTTC
16056971 TCTTTTTTTGTTT-TTTT
1 TCTTTTTTTGTTTATTTT
16056988 TCTTTTTTTGTTTATTTT
1 TCTTTTTTTGTTTATTTT
16057006 TC
1 TC
16057008 ATTTACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (18 bp):
TCTTTTTTTGTTTATTTT
Found at i:16063708 original size:106 final size:106
Alignment explanation
Indices: 16063588--16063795 Score: 362
Period size: 106 Copynumber: 2.0 Consensus size: 106
16063578 GTAGAATAAC
*
16063588 ATTAAGACTCAAATATGTAACAAGAAGTTTAAAACTAAATAACTACTCAATATTATATACAAATA
1 ATTAAGACTCAAATATGTAACAAAAAGTTTAAAACTAAATAACTACTCAATATTATATACAAATA
16063653 AAAATTCTAGCCAAATAAAATCTTGAATTCCAATCAATAGG
66 AAAATTCTAGCCAAATAAAATCTTGAATTCCAATCAATAGG
* * *
16063694 ATTAAGATTCAAATATGTAACAAAAAGTTTAAAACTATATAACTACTCAATATTGTATACAAATA
1 ATTAAGACTCAAATATGTAACAAAAAGTTTAAAACTAAATAACTACTCAATATTATATACAAATA
* *
16063759 AAAATTTTAGCCAAATAAAATCTTGAATTCCGATCAA
66 AAAATTCTAGCCAAATAAAATCTTGAATTCCAATCAA
16063796 CCTAAAATTC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (106 bp):
ATTAAGACTCAAATATGTAACAAAAAGTTTAAAACTAAATAACTACTCAATATTATATACAAATA
AAAATTCTAGCCAAATAAAATCTTGAATTCCAATCAATAGG
Found at i:16067448 original size:12 final size:12
Alignment explanation
Indices: 16067433--16067466 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16067423 GGTTATGCTC
*
16067433 CTTCAGCTTCTG
1 CTTCAGCTTCTA
*
16067445 CTTCTGCTTCTA
1 CTTCAGCTTCTA
16067457 CTTCAGCTTC
1 CTTCAGCTTC
16067467 AGCTGCCCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.35, G:0.12, T:0.44
Consensus pattern (12 bp):
CTTCAGCTTCTA
Found at i:16079083 original size:23 final size:23
Alignment explanation
Indices: 16079047--16079093 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16079037 TTCTTTCTTC
16079047 TCTTTAATTATTCTTTCAAGTTA
1 TCTTTAATTATTCTTTCAAGTTA
* * *
16079070 TCTTTATTTGTTCTTTTAAGTTA
1 TCTTTAATTATTCTTTCAAGTTA
16079093 T
1 T
16079094 ATTTTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (23 bp):
TCTTTAATTATTCTTTCAAGTTA
Found at i:16085164 original size:15 final size:14
Alignment explanation
Indices: 16085144--16085190 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
16085134 TATCAAAGCC
16085144 AAAAAAAAGAATGA
1 AAAAAAAAGAATGA
16085158 TAAAAAATAA-AATGA
1 -AAAAAA-AAGAATGA
* *
16085173 AAAACAAAGAAAGA
1 AAAAAAAAGAATGA
16085187 AAAA
1 AAAA
16085191 GAAGAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 13 0.46
15 11 0.39
16 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAAAAAAGAATGA
Found at i:16086398 original size:2 final size:2
Alignment explanation
Indices: 16086391--16086421 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16086381 TGAGTCCTTT
16086391 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
16086422 ATAAGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:16089370 original size:31 final size:31
Alignment explanation
Indices: 16089300--16089370 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
16089290 TTATTTATTG
*
16089300 ATGTGTTTTAGTACAACTCTATTAAGAACTTG
1 ATGTG-TTTAGTACAACTCTATTAAGAACTTA
* * * * *
16089332 GTATGTTTAGTATAATTCTATTAAGAAGTTA
1 ATGTGTTTAGTACAACTCTATTAAGAACTTA
16089363 ATGTGTTT
1 ATGTGTTT
16089371 TAATATGTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (31 bp):
ATGTGTTTAGTACAACTCTATTAAGAACTTA
Found at i:16093763 original size:22 final size:20
Alignment explanation
Indices: 16093738--16093802 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
16093728 AAAAATTCAC
16093738 TTTTATATTTTAAATGTCTTAA
1 TTTTAT-TTTTAAAT-TCTTAA
*
16093760 TTTT-TTTATTAAA-T-TAAA
1 TTTTATTT-TTAAATTCTTAA
*
16093778 TTTTATTTTTAATTTTCTTAA
1 TTTTATTTTTAA-ATTCTTAA
16093799 TTTT
1 TTTT
16093803 CAAATCTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
18 11 0.31
19 4 0.11
20 3 0.09
21 13 0.37
22 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATTTTTAAATTCTTAA
Found at i:16096408 original size:10 final size:9
Alignment explanation
Indices: 16096343--16096410 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
16096333 GAAATATTAA
16096343 ATATATATT
1 ATATATATT
16096352 ATAT-T-TT
1 ATATATATT
*
16096359 ATATAAATT
1 ATATATATT
* * *
16096368 A-AAAAATA
1 ATATATATT
*
16096376 ATATATAGT
1 ATATATATT
16096385 ATA-ATATT
1 ATATATATT
16096393 ATATATATT
1 ATATATATT
16096402 AATATATAT
1 -ATATATAT
16096411 AAAAAATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
7 6 0.13
8 14 0.30
9 18 0.39
10 8 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (9 bp):
ATATATATT
Found at i:16101014 original size:20 final size:21
Alignment explanation
Indices: 16100989--16101041 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
16100979 ATAATACTTT
16100989 AAAAAATTTTAAATTAT-TGA
1 AAAAAATTTTAAATTATGTGA
16101009 AAAAAATTTTAAATTATGTG-
1 AAAAAATTTTAAATTATGTGA
16101029 AAAAAA-TTTAAAT
1 AAAAAATTTTAAAT
16101042 AAATTCTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.22
20 23 0.72
21 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (21 bp):
AAAAAATTTTAAATTATGTGA
Found at i:16106859 original size:3 final size:3
Alignment explanation
Indices: 16106851--16106880 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16106841 TTGGCCTGCA
*
16106851 AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16106881 GGTAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:16110658 original size:43 final size:45
Alignment explanation
Indices: 16110610--16110717 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 45
16110600 CTAAGGCTTA
* *
16110610 GTGCTGTTGTGTGTGTGTG-CGCT-TGCTTGCTGACCA-AAACCTT
1 GTGCTGTTGTGTGTGTGTGTCG-TGAGCCTGCTGACCAGAAACCTT
* * *
16110653 GTGCTGTTGTGTGGGTGTGTTGTGAGCCTGCTGACCAGAAGCCTT
1 GTGCTGTTGTGTGTGTGTGTCGTGAGCCTGCTGACCAGAAACCTT
16110698 GTGCTGTTGTGTGTGTGTGT
1 GTGCTGTTGTGTGTGTGTGT
16110718 GTTGAGTGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 19 0.34
44 12 0.21
45 25 0.45
ACGTcount: A:0.09, C:0.17, G:0.36, T:0.38
Consensus pattern (45 bp):
GTGCTGTTGTGTGTGTGTGTCGTGAGCCTGCTGACCAGAAACCTT
Found at i:16112003 original size:18 final size:18
Alignment explanation
Indices: 16111982--16112025 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
16111972 AAAAACAATT
16111982 ATAACAAAAAAAATAACA
1 ATAACAAAAAAAATAACA
** *
16112000 ATAACATCAAATATAACA
1 ATAACAAAAAAAATAACA
16112018 A-AACAAAA
1 ATAACAAAA
16112026 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (18 bp):
ATAACAAAAAAAATAACA
Found at i:16112220 original size:36 final size:36
Alignment explanation
Indices: 16112170--16112239 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
16112160 TAAACGTGTC
* *
16112170 ATGTATATATGTTTAAACACGATAACACGATTAAAT
1 ATGTATATACGTTTAAACACAATAACACGATTAAAT
* *
16112206 ATGTTTATACGTTTAAACACAATAACATGATTAA
1 ATGTATATACGTTTAAACACAATAACACGATTAA
16112240 TTAAACGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (36 bp):
ATGTATATACGTTTAAACACAATAACACGATTAAAT
Found at i:16118686 original size:23 final size:23
Alignment explanation
Indices: 16118651--16118698 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
16118641 ACTTTTCTAT
* * *
16118651 TTTTTCTTTATTTGTATTTTTCA
1 TTTTTCTTAATTTATAATTTTCA
*
16118674 TTTTTGTTAATTTATAATTTTCA
1 TTTTTCTTAATTTATAATTTTCA
16118697 TT
1 TT
16118699 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTCTTAATTTATAATTTTCA
Found at i:16118725 original size:15 final size:15
Alignment explanation
Indices: 16118701--16118748 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16118691 TTTTCATTAA
16118701 AAAT-TTAATAATTT
1 AAATATTAATAATTT
16118715 AAATATTAAT-ATTT
1 AAATATTAATAATTT
*
16118729 ---TATTTATAATTT
1 AAATATTAATAATTT
16118741 AAATATTA
1 AAATATTA
16118749 TTATGATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
14 8 0.30
15 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATATTAATAATTT
Found at i:16119244 original size:24 final size:23
Alignment explanation
Indices: 16119204--16119248 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
16119194 TAATAAAGCT
16119204 AACAATGACATATTGCTCATAAGA
1 AACAATGACATATTGCT-ATAAGA
*
16119228 AACAATGTACCTA-TGCTATAA
1 AACAATG-ACATATTGCTATAA
16119249 TTTGTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (23 bp):
AACAATGACATATTGCTATAAGA
Found at i:16119448 original size:2 final size:2
Alignment explanation
Indices: 16119441--16119484 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
16119431 CACATGACAC
16119441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16119483 AT
1 AT
16119485 TAAAGGACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16121584 original size:13 final size:13
Alignment explanation
Indices: 16121566--16121596 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
16121556 CAGACCACTG
16121566 CAATGTAAGATTA
1 CAATGTAAGATTA
16121579 CAATGTAAGATTA
1 CAATGTAAGATTA
16121592 CAATG
1 CAATG
16121597 CAATCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTAAGATTA
Found at i:16121795 original size:31 final size:34
Alignment explanation
Indices: 16121739--16121804 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
16121729 ATAATATTAT
*
16121739 AATTGAAATAAAATATATAATATAAG-AATTAAA
1 AATTAAAATAAAATATATAATATAAGAAATTAAA
16121772 AATTAAAATAAAATA-A-AATATAAGAAATTAAA
1 AATTAAAATAAAATATATAATATAAGAAATTAAA
16121804 A
1 A
16121805 TTTATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 8 0.26
32 9 0.29
33 14 0.45
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (34 bp):
AATTAAAATAAAATATATAATATAAGAAATTAAA
Found at i:16121816 original size:55 final size:55
Alignment explanation
Indices: 16121752--16121856 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
16121742 TGAAATAAAA
16121752 TATATAATATAAG-AATTAA-AAATTAAAATAAA-ATAAAATATAAGAAATTAAAATT
1 TATATAATATAAGTAA--AAGAAATTAAAATAAATATAAAATATAA-AAATTAAAATT
* *
16121807 TATATAATATAGGTAAAAGAAATTAAAATAAATATATAATATAAAAATTA
1 TATATAATATAAGTAAAAGAAATTAAAATAAATATAAAATATAAAAATTA
16121857 TATTAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
54 2 0.04
55 31 0.69
56 12 0.27
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (55 bp):
TATATAATATAAGTAAAAGAAATTAAAATAAATATAAAATATAAAAATTAAAATT
Found at i:16121863 original size:25 final size:24
Alignment explanation
Indices: 16121834--16121900 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
16121824 AGAAATTAAA
16121834 ATAAATATATAATATAAAAATTAT
1 ATAAATATATAATATAAAAATTAT
* *
16121858 ATTAAAGAAATGAA-AT-AAAA-TAT
1 A-TAAATATAT-AATATAAAAATTAT
16121881 AT-AATATTATAATATAAAAA
1 ATAAATA-TATAATATAAAAA
16121901 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
21 5 0.15
22 5 0.15
23 8 0.24
24 5 0.15
25 9 0.26
26 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (24 bp):
ATAAATATATAATATAAAAATTAT
Found at i:16121866 original size:39 final size:36
Alignment explanation
Indices: 16121821--16121912 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 36
16121811 TAATATAGGT
16121821 AAAAGAAATTAAAATAAATATATAATATAAAAATTATA
1 AAAAGAAA-TAAAATAAATATATAATATAAAAA-TATA
* * * *
16121859 TTAAAGAAATGAAATAAAATATATAATATTATAATATA
1 -AAAAGAAATAAAAT-AAATATATAATATAAAAATATA
16121897 AAAAGAAAATAAAATA
1 AAAAG-AAATAAAATA
16121913 TATGACATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
37 5 0.11
38 17 0.38
39 23 0.51
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (36 bp):
AAAAGAAATAAAATAAATATATAATATAAAAATATA
Found at i:16121930 original size:47 final size:45
Alignment explanation
Indices: 16121825--16121930 Score: 106
Period size: 47 Copynumber: 2.3 Consensus size: 45
16121815 ATAGGTAAAA
* ** * *
16121825 GAAATTAAAATA-AATATATAATATAAAAATTATATTAAAGAAAT
1 GAAATAAAAATATAATATATAATATAAAAAGAAAATAAAAGAAAT
* *
16121869 GAAATAAAATATATAATATTATAATATAAAAAGAAAATAAAATATAT
1 GAAATAAAA-ATATAATA-TATAATATAAAAAGAAAATAAAAGAAAT
*
16121916 GACATTAAAAATATA
1 GA-AATAAAAATATA
16121931 TTTAAGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
44 8 0.16
45 3 0.06
46 4 0.08
47 29 0.58
48 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (45 bp):
GAAATAAAAATATAATATATAATATAAAAAGAAAATAAAAGAAAT
Found at i:16132248 original size:40 final size:41
Alignment explanation
Indices: 16132204--16132287 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 41
16132194 TATTTTTTGT
16132204 TTTGGGCTTAATAATATGAT-GAATAAT-GATTTATGAATGA
1 TTTGGGCTTAATAATATGATGGAA-AATCGATTTATGAATGA
* * *
16132244 TTT-GGTTTACTTATATGATGGAAAATCGATTTATGAATGA
1 TTTGGGCTTAATAATATGATGGAAAATCGATTTATGAATGA
16132284 TTTG
1 TTTG
16132288 AGTTATACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (41 bp):
TTTGGGCTTAATAATATGATGGAAAATCGATTTATGAATGA
Found at i:16132300 original size:40 final size:38
Alignment explanation
Indices: 16132217--16132331 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 38
16132207 GGGCTTAATA
16132217 ATATGATGAATAATGATTTATGAATGATTTGGTTTACTT
1 ATATGATGAATAATGATTTATGAATGATTTGGTTTAC-T
16132256 ATATGATGGAA-AATCGATTTATGAATGATTTGAGTTATAC-
1 ATATGAT-GAATAAT-GATTTATGAATGATTTG-GTT-TACT
** * * * *
16132296 ATATGACAAACATTGTTTTATGAATGTTTTGGTTTA
1 ATATGATGAATAATGATTTATGAATGATTTGGTTTA
16132332 TTTATTTGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
37 2 0.03
38 3 0.05
39 27 0.41
40 28 0.42
41 3 0.05
42 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.43
Consensus pattern (38 bp):
ATATGATGAATAATGATTTATGAATGATTTGGTTTACT
Found at i:16132852 original size:19 final size:19
Alignment explanation
Indices: 16132828--16132865 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16132818 CCATTTAACT
*
16132828 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
16132847 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
16132866 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:16147783 original size:64 final size:64
Alignment explanation
Indices: 16147682--16147813 Score: 255
Period size: 64 Copynumber: 2.1 Consensus size: 64
16147672 AATAGACATT
16147682 TCAATACCTGCAATTTACCCAAATATATTTTTAGTTAGGAAGTTATTACACCAATCAAGGAAGG
1 TCAATACCTGCAATTTACCCAAATATATTTTTAGTTAGGAAGTTATTACACCAATCAAGGAAGG
*
16147746 TCAATACCTGTAATTTACCCAAATATATTTTTAGTTAGGAAGTTATTACACCAATCAAGGAAGG
1 TCAATACCTGCAATTTACCCAAATATATTTTTAGTTAGGAAGTTATTACACCAATCAAGGAAGG
16147810 TCAA
1 TCAA
16147814 ATCTTTCAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (64 bp):
TCAATACCTGCAATTTACCCAAATATATTTTTAGTTAGGAAGTTATTACACCAATCAAGGAAGG
Found at i:16153244 original size:111 final size:112
Alignment explanation
Indices: 16153044--16153247 Score: 304
Period size: 111 Copynumber: 1.8 Consensus size: 112
16153034 CAATTAAAAA
* * *
16153044 AAAAAGAATAGCATTTATCAAAGTAGTTAAAAGATTAAATAATGCATTACATAAGTAAGAAAATT
1 AAAAAGAATAGCATTTATCAAAATAGTTAAAACATTAAATAATGCATTACATAAGTAAGAAAAGT
16153109 AAATTTTAAGTTGTCTGTGACTTGTAATAATCACCCCTCCCCCAATT
66 AAATTTTAAGTTGTCTGTGACTTGTAATAATCACCCCTCCCCCAATT
* * * * * *
16153156 AAAAA-AATAGTATTTAT-AGAAATAGTTAAGACATTAAATAATGTATTATATAATTAAGCAAAG
1 AAAAAGAATAGCATTTATCA-AAATAGTTAAAACATTAAATAATGCATTACATAAGTAAGAAAAG
16153219 TAAATTTTAAGTTGTCTGTGACTTGTAAT
65 TAAATTTTAAGTTGTCTGTGACTTGTAAT
16153248 TATTCTCTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
110 1 0.01
111 76 0.93
112 5 0.06
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (112 bp):
AAAAAGAATAGCATTTATCAAAATAGTTAAAACATTAAATAATGCATTACATAAGTAAGAAAAGT
AAATTTTAAGTTGTCTGTGACTTGTAATAATCACCCCTCCCCCAATT
Found at i:16158206 original size:46 final size:45
Alignment explanation
Indices: 16158151--16158253 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
16158141 CAATTGCATT
* * *
16158151 TTCCGTTGGAAAGA-AATTTTTCGACGGAAAATTTCGATGGAAATAA
1 TTCCGTTGGAAA-ACAATTTCT-AACGGAAAATTTCGATGGAAAGAA
* * *
16158197 TTCCATTGGAAAACCATTTCTAACGGAAAATTTCGTTGGAAAGAA
1 TTCCGTTGGAAAACAATTTCTAACGGAAAATTTCGATGGAAAGAA
*
16158242 TTCTGTTGGAAA
1 TTCCGTTGGAAA
16158254 TTGGTTGAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
45 32 0.67
46 16 0.33
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (45 bp):
TTCCGTTGGAAAACAATTTCTAACGGAAAATTTCGATGGAAAGAA
Found at i:16160210 original size:19 final size:20
Alignment explanation
Indices: 16160183--16160228 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
16160173 AGGAGACAAG
*
16160183 ATAAAATTTTTAG-AATAAA
1 ATAATATTTTTAGTAATAAA
16160202 ATAATA-TTTTAGTAATAAA
1 ATAATATTTTTAGTAATAAA
16160221 ATAATATT
1 ATAATATT
16160229 AAAATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 17 0.71
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
ATAATATTTTTAGTAATAAA
Found at i:16160213 original size:18 final size:19
Alignment explanation
Indices: 16160190--16160228 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16160180 AAGATAAAAT
16160190 TTTTAG-AATAAAATAATA
1 TTTTAGTAATAAAATAATA
16160208 TTTTAGTAATAAAATAATA
1 TTTTAGTAATAAAATAATA
16160227 TT
1 TT
16160229 AAAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
TTTTAGTAATAAAATAATA
Found at i:16163571 original size:20 final size:21
Alignment explanation
Indices: 16163526--16163572 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16163516 AGATATCTAA
16163526 AATAATTATTTGAAAAGAAAT
1 AATAATTATTTGAAAAGAAAT
* * *
16163547 TATAATTGTTTGAATA-AAAT
1 AATAATTATTTGAAAAGAAAT
16163567 AATAAT
1 AATAAT
16163573 ATTCAATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (21 bp):
AATAATTATTTGAAAAGAAAT
Found at i:16165498 original size:544 final size:544
Alignment explanation
Indices: 16164469--16165558 Score: 1851
Period size: 544 Copynumber: 2.0 Consensus size: 544
16164459 TAAAACACAA
*
16164469 TTTATAACACAAGCGGGCAGTCTCCAATTACTCTACTTTCAAAACCAGTATTCAATTTTTCAGAA
1 TTTATAACACAAGCGGACAGTCTCCAATTACTCTACTTTCAAAACCAGTATTCAATTTTTCAGAA
* *
16164534 AATTTATATTATCATTTTATAAAATCGCAATTTCTCCTAAAACATAGCAATGTATCATTTAAACT
66 AATTTATATTATCATTTTATAAAATCACAATTTCTCCTAAAACATAGCAATGTATCATTTAAACC
* * *
16164599 CATTTTCTATAAAATCACACAAATGTATAAAATTACTCTAAATAATTAAGACGATAGTAAGTTCA
131 CATTTTCTATAAAATCACACAAATGTACAAAACTACTCTAAATAATTAAGACGATAATAAGTTCA
16164664 CTCACAGTTCTAAGAGTCGACATACTCCTAATCCCAATCTTCAAGCACAATCTCTATACTTTTAC
196 CTCACAGTTCTAAGAGTCGACATACTCCTAATCCCAATCTTCAAGCACAATCTCTATACTTTTAC
* * *
16164729 CAGCGTAATTTGCTCACCACTTATCCATAATGTGCAATACATAATTCACCACATTAATGCTTAAC
261 CAGCGTAATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACATTAATGCTTAAC
16164794 CATTATAAATCAATTCAGGCTCGGTGTATATGCATGATATGATATGCAACTTATCCGACTACCGC
326 CATTATAAATCAATTCAGGCTCGGTGTATATGCATGATATGATATGCAACTTATCCGACTACCGC
* *
16164859 TTAAATGCAATGCTGACCTAATTCGGCCTATTACCCTATTAAATGACAATTGTGTCCGATTTGGC
391 TTAAATGCAATGCTGACCTAATTCAGCCTATTACCCGATTAAATGACAATTGTGTCCGATTTGGC
*
16164924 TCCAAATTACTCCATTTCATTTCCAATACCTCAATTCACCAAATATTATTCAAAAAACATCAATT
456 TCCAAATTACTCCATTTCATTTCCAATACCTCAATTCACCAAACATTATTCAAAAAACATCAATT
*
16164989 TTAGCATCAAAACCCTCCCATTTC
521 TCAGCATCAAAACCCTCCCATTTC
* *
16165013 TTTATAACATAAGCGGACAGTTTCCAATTACTCTACTTTCAAAACC-GATATTC-ATTTTTCCAG
1 TTTATAACACAAGCGGACAGTCTCCAATTACTCTACTTTCAAAACCAG-TATTCAATTTTT-CAG
*
16165076 AAAATTTATATTATCATTTTATAAAATCACAATTTCTCCTAAAACATAGCAATTTATCATTTAAA
64 AAAATTTATATTATCATTTTATAAAATCACAATTTCTCCTAAAACATAGCAATGTATCATTTAAA
*
16165141 CCCATTTTCTATAAAATCACACAAATGTACAAAACTACTCTAGATAATTAAGACGATAATAAGTT
129 CCCATTTTCTATAAAATCACACAAATGTACAAAACTACTCTAAATAATTAAGACGATAATAAGTT
* * * * *
16165206 CACTCACAGTTCTAGGAGTCGACGTACTCCTAATCCCAGTCTTCAAGCACAATCTTTGTACTTTT
194 CACTCACAGTTCTAAGAGTCGACATACTCCTAATCCCAATCTTCAAGCACAATCTCTATACTTTT
* *
16165271 ACCAGTGTAATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACATTAATGCTTG
259 ACCAGCGTAATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACATTAATGCTTA
* * *
16165336 ACCATTATAAATCAATTCAGGCTCGGTGTATATTCATGATATGATATGTAACTTATCCGACTATC
324 ACCATTATAAATCAATTCAGGCTCGGTGTATATGCATGATATGATATGCAACTTATCCGACTACC
*
16165401 GCTTAAATGCAGTGCTGACCTAATTCAGCCTATTACCCGATTAAATGACAATTGTGTCCGATTTG
389 GCTTAAATGCAATGCTGACCTAATTCAGCCTATTACCCGATTAAATGACAATTGTGTCCGATTTG
* * * * *
16165466 GCTCCGAATTGCTCCATTTCATTTCTAATACCTCAATTCACTAAACATTATTCAAATAACATCAA
454 GCTCCAAATTACTCCATTTCATTTCCAATACCTCAATTCACCAAACATTATTCAAAAAACATCAA
16165531 TTTCAGCATCAAAACCCTCCCATTTC
519 TTTCAGCATCAAAACCCTCCCATTTC
16165557 TT
1 TT
16165559 CATGAAAAAA
Statistics
Matches: 511, Mismatches: 33, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
543 7 0.01
544 504 0.99
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.33
Consensus pattern (544 bp):
TTTATAACACAAGCGGACAGTCTCCAATTACTCTACTTTCAAAACCAGTATTCAATTTTTCAGAA
AATTTATATTATCATTTTATAAAATCACAATTTCTCCTAAAACATAGCAATGTATCATTTAAACC
CATTTTCTATAAAATCACACAAATGTACAAAACTACTCTAAATAATTAAGACGATAATAAGTTCA
CTCACAGTTCTAAGAGTCGACATACTCCTAATCCCAATCTTCAAGCACAATCTCTATACTTTTAC
CAGCGTAATTTGCTCACCACCTATCCACAATGTACAATACATAATTCACCACATTAATGCTTAAC
CATTATAAATCAATTCAGGCTCGGTGTATATGCATGATATGATATGCAACTTATCCGACTACCGC
TTAAATGCAATGCTGACCTAATTCAGCCTATTACCCGATTAAATGACAATTGTGTCCGATTTGGC
TCCAAATTACTCCATTTCATTTCCAATACCTCAATTCACCAAACATTATTCAAAAAACATCAATT
TCAGCATCAAAACCCTCCCATTTC
Found at i:16166270 original size:28 final size:28
Alignment explanation
Indices: 16166236--16166312 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
16166226 ATGGTGGTGA
*
16166236 AAAATTATAATTTTGCCTCTAAGGTGGT
1 AAAATTATAATTTTGCCCCTAAGGTGGT
16166264 AAAATTATAATTTTGCCCCTAAGGTGGT
1 AAAATTATAATTTTGCCCCTAAGGTGGT
* *
16166292 AAAATTATCATTTTACCCCTA
1 AAAATTATAATTTTGCCCCTA
16166313 TGCTCCGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (28 bp):
AAAATTATAATTTTGCCCCTAAGGTGGT
Found at i:16167307 original size:14 final size:15
Alignment explanation
Indices: 16167273--16167309 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
16167263 GATTTCCAAC
16167273 GAAAAATTTTCCGTTG
1 GAAAAA-TTTCCGTTG
16167289 G-AAAATTT-CGTTG
1 GAAAAATTTCCGTTG
16167302 GAAAAATT
1 GAAAAATT
16167310 GGTGGGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 4 0.20
16 1 0.05
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (15 bp):
GAAAAATTTCCGTTG
Found at i:16167756 original size:24 final size:24
Alignment explanation
Indices: 16167723--16167776 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
16167713 ACTGAATTTT
16167723 ATATT-AAATAGCCTCATCCTAGA
1 ATATTCAAATAGCCTCATCCTAGA
* *
16167746 ATATTCAAATAGTCTCATTCTAGA
1 ATATTCAAATAGCCTCATCCTAGA
*
16167770 ACATTCA
1 ATATTCA
16167777 GTGTGACTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (24 bp):
ATATTCAAATAGCCTCATCCTAGA
Found at i:16168411 original size:23 final size:24
Alignment explanation
Indices: 16168332--16168415 Score: 143
Period size: 24 Copynumber: 3.5 Consensus size: 24
16168322 AGTACAGACA
*
16168332 CATCTGTTGAAAGTAAAAAAGATG
1 CATCTGTTGAAAGTGAAAAAGATG
16168356 CATCTGTTGAAAGTGAAAAAGATG
1 CATCTGTTGAAAGTGAAAAAGATG
16168380 CATCTGTTGAAAGTGAAAAAGATG
1 CATCTGTTGAAAGTGAAAAAGATG
*
16168404 TATC-GTTGAAAG
1 CATCTGTTGAAAG
16168416 ACAACAGACA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
23 8 0.14
24 50 0.86
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (24 bp):
CATCTGTTGAAAGTGAAAAAGATG
Found at i:16170359 original size:3 final size:3
Alignment explanation
Indices: 16170316--16170341 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16170306 CCTCTCACAT
16170316 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
16170342 CTTCTTGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16170667 original size:21 final size:21
Alignment explanation
Indices: 16170642--16170683 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16170632 TCTATAACAA
16170642 TTTTTGTTGCGAATATTTTCT
1 TTTTTGTTGCGAATATTTTCT
*
16170663 TTTTTGTTGTGAATATTTTCT
1 TTTTTGTTGCGAATATTTTCT
16170684 GTAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (21 bp):
TTTTTGTTGCGAATATTTTCT
Found at i:16170721 original size:72 final size:72
Alignment explanation
Indices: 16170636--16170790 Score: 274
Period size: 72 Copynumber: 2.2 Consensus size: 72
16170626 TAATGGTCTA
*
16170636 TAACAATTTTTGTTGCGAATATTTTCTTTTTTGTTGTGAATATTTTCTGTAATTATAAAAAAAAA
1 TAACAATTTTTGTTGCGAATACTTTCTTTTTTGTTGTGAATATTTTCTGTAATTATAAAAAAAAA
16170701 TGCTGTG
66 TGCTGTG
*
16170708 TAACAATTTTTGTTGTGAATACTTTCTTTTTTGTTGTGAATATTTTCTGTAATTATAAAAAAAAA
1 TAACAATTTTTGTTGCGAATACTTTCTTTTTTGTTGTGAATATTTTCTGTAATTATAAAAAAAAA
*
16170773 TGGTGTG
66 TGCTGTG
*
16170780 TAACAGTTTTT
1 TAACAATTTTT
16170791 TTTTTTAACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 79 1.00
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.49
Consensus pattern (72 bp):
TAACAATTTTTGTTGCGAATACTTTCTTTTTTGTTGTGAATATTTTCTGTAATTATAAAAAAAAA
TGCTGTG
Found at i:16170739 original size:21 final size:21
Alignment explanation
Indices: 16170714--16170755 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16170704 TGTGTAACAA
16170714 TTTTTGTTGTGAATACTTTCT
1 TTTTTGTTGTGAATACTTTCT
*
16170735 TTTTTGTTGTGAATATTTTCT
1 TTTTTGTTGTGAATACTTTCT
16170756 GTAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (21 bp):
TTTTTGTTGTGAATACTTTCT
Found at i:16172974 original size:19 final size:19
Alignment explanation
Indices: 16172942--16172985 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16172932 ATAATGGATT
16172942 AATTGAGTTATATTTAAATA
1 AATT-AGTTATATTTAAATA
*
16172962 AATTAGTTGTATTTAAATA
1 AATTAGTTATATTTAAATA
*
16172981 TATTA
1 AATTA
16172986 ATAGTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (19 bp):
AATTAGTTATATTTAAATA
Found at i:16172992 original size:19 final size:19
Alignment explanation
Indices: 16172952--16172992 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16172942 AATTGAGTTA
* *
16172952 TATTTAAATAAATTAGTTG
1 TATTTAAATAAATTAATAG
*
16172971 TATTTAAATATATTAATAG
1 TATTTAAATAAATTAATAG
16172990 TAT
1 TAT
16172993 CATGTCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
TATTTAAATAAATTAATAG
Found at i:16178703 original size:54 final size:54
Alignment explanation
Indices: 16178632--16178780 Score: 174
Period size: 54 Copynumber: 2.8 Consensus size: 54
16178622 TTCCCCATAC
* * * * * *
16178632 TCGGGTCTCCGGCCATACCCAGATTCAAATTCAGGCGGTGGAGGTTGCTCAAAT
1 TCGGGCCTCTGGCCATACCCAGATCCAAATTCCGGCGGAGGAGGCTGCTCAAAT
* * * **
16178686 TCGGGCCT-TCGTCCATACCCGGATCCAAATTCCGGCGGAGGTGGCTGCTCGTAT
1 TCGGGCCTCT-GGCCATACCCAGATCCAAATTCCGGCGGAGGAGGCTGCTCAAAT
*
16178740 TCGGGCCTCTGGCCATACCCAGATCCAAACTCCGGCGGAGG
1 TCGGGCCTCTGGCCATACCCAGATCCAAATTCCGGCGGAGG
16178781 CTGCTTGAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (54 bp):
TCGGGCCTCTGGCCATACCCAGATCCAAATTCCGGCGGAGGAGGCTGCTCAAAT
Found at i:16182723 original size:20 final size:20
Alignment explanation
Indices: 16182697--16182742 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
16182687 CTAAAAAAAT
*
16182697 ACAAAAAAAAAAAGAAAACAA
1 ACAAAATAAAAAA-AAAACAA
*
16182718 ACAAAATAAAAAAAAAACAT
1 ACAAAATAAAAAAAAAACAA
16182738 ACAAA
1 ACAAA
16182743 TAATAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.04
Consensus pattern (20 bp):
ACAAAATAAAAAAAAAACAA
Found at i:16182750 original size:20 final size:19
Alignment explanation
Indices: 16182689--16182750 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 19
16182679 ATACGAATCT
*
16182689 AAAAAA-ATACAAAAAAAAA
1 AAAAAACATAC-AAATAAAA
*
16182708 AAGAAAACAAACAAAATAAAA
1 AA-AAAACATAC-AAATAAAA
*
16182729 AAAAAACATACAAATAATA
1 AAAAAACATACAAATAAAA
16182748 AAA
1 AAA
16182751 CTCAAGCCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 12 0.32
20 12 0.32
21 13 0.35
ACGTcount: A:0.82, C:0.08, G:0.02, T:0.08
Consensus pattern (19 bp):
AAAAAACATACAAATAAAA
Found at i:16184191 original size:17 final size:17
Alignment explanation
Indices: 16184169--16184211 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
16184159 ATAAGATCTT
16184169 CTTATTCTTTCTAAATA
1 CTTATTCTTTCTAAATA
16184186 CTTATTCTTTCTAAATA
1 CTTATTCTTTCTAAATA
*
16184203 CTTTTTCTT
1 CTTATTCTT
16184212 ATAGTTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (17 bp):
CTTATTCTTTCTAAATA
Found at i:16184962 original size:44 final size:43
Alignment explanation
Indices: 16184906--16184993 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 43
16184896 CAAAAAATTT
* *
16184906 TATTGAACTTTATCAAATATCATTAAATGCTAAAAGGAAAAAAA
1 TATTAAACTTTATCAAACATCATTAAATGCTAAAA-GAAAAAAA
* *
16184950 TATTAAACTTTATCAAGCATCATTGAATGCTAAAAGAAAAAAA
1 TATTAAACTTTATCAAACATCATTAAATGCTAAAAGAAAAAAA
16184993 T
1 T
16184994 CAAAGTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.22
44 31 0.77
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (43 bp):
TATTAAACTTTATCAAACATCATTAAATGCTAAAAGAAAAAAA
Found at i:16186195 original size:16 final size:16
Alignment explanation
Indices: 16186143--16186195 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
16186133 ATTATATACT
* *
16186143 ATTTTTTCTTTATTCAG
1 ATTTTTTC-TTAATAAG
*
16186160 ATTTTTTC-TAATGAG
1 ATTTTTTCTTAATAAG
*
16186175 GTTTTTTCTTAATAAG
1 ATTTTTTCTTAATAAG
16186191 ATTTT
1 ATTTT
16186196 AACAAGACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 12 0.40
16 10 0.33
17 8 0.27
ACGTcount: A:0.23, C:0.08, G:0.09, T:0.60
Consensus pattern (16 bp):
ATTTTTTCTTAATAAG
Found at i:16195192 original size:29 final size:29
Alignment explanation
Indices: 16195159--16195217 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
16195149 GTGCTCTGAG
16195159 AAAATTAGCACCACTGTTTATTTAGGATT
1 AAAATTAGCACCACTGTTTATTTAGGATT
*
16195188 AAAATTAGCACCATTGTTTATTTAGGATT
1 AAAATTAGCACCACTGTTTATTTAGGATT
16195217 A
1 A
16195218 CTGATCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (29 bp):
AAAATTAGCACCACTGTTTATTTAGGATT
Found at i:16223931 original size:41 final size:41
Alignment explanation
Indices: 16223872--16223986 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
16223862 TCCATGAGTA
*
16223872 TAATCAAT-CAGATGACATGAGCAGCTTCAGATAAGCAATGT
1 TAATCAATCCA-ATAACATGAGCAGCTTCAGATAAGCAATGT
* * * *
16223913 TAATCGATTCAATAACATGGGCATCTTCAGATAAGCAATGT
1 TAATCAATCCAATAACATGAGCAGCTTCAGATAAGCAATGT
*
16223954 TAATCAATCCAATAACATGAGCAGCGTCAGATA
1 TAATCAATCCAATAACATGAGCAGCTTCAGATA
16223987 TTGCAAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 62 0.97
42 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (41 bp):
TAATCAATCCAATAACATGAGCAGCTTCAGATAAGCAATGT
Found at i:16226715 original size:6 final size:6
Alignment explanation
Indices: 16226706--16226746 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
16226696 AAGAATCATT
*
16226706 ATCAAG ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAA
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAA
16226747 GCAAAGCAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.63, C:0.17, G:0.02, T:0.17
Consensus pattern (6 bp):
ATCAAA
Found at i:16240352 original size:44 final size:44
Alignment explanation
Indices: 16240282--16240387 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
16240272 CATGTCTAGT
* *
16240282 TTTTAGGCATTGTGTGACTAATTTTTAGGCATAACGTGACTAAA
1 TTTTAGGCATTATGTGACTAATTTTTAAGCATAACGTGACTAAA
* * **
16240326 TTTTAGGTATTATGTGACTGAA-TTTTAAGCATTACGTGACTGGA
1 TTTTAGGCATTATGTGACT-AATTTTTAAGCATAACGTGACTAAA
* *
16240370 TTTTAAGCATTTTGTGAC
1 TTTTAGGCATTATGTGAC
16240388 ACGTGTTTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (44 bp):
TTTTAGGCATTATGTGACTAATTTTTAAGCATAACGTGACTAAA
Found at i:16240386 original size:22 final size:22
Alignment explanation
Indices: 16240282--16240387 Score: 97
Period size: 22 Copynumber: 4.8 Consensus size: 22
16240272 CATGTCTAGT
* *
16240282 TTTTAGGCATTGTGTGACT-AA
1 TTTTAAGCATTATGTGACTGAA
* * * *
16240303 TTTTTAGGCATAACGTGACTAAA
1 -TTTTAAGCATTATGTGACTGAA
* *
16240326 TTTTAGGTATTATGTGACTGAA
1 TTTTAAGCATTATGTGACTGAA
* *
16240348 TTTTAAGCATTACGTGACTGGA
1 TTTTAAGCATTATGTGACTGAA
*
16240370 TTTTAAGCATTTTGTGAC
1 TTTTAAGCATTATGTGAC
16240388 ACGTGTTTGA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
22 68 0.97
23 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (22 bp):
TTTTAAGCATTATGTGACTGAA
Found at i:16244199 original size:43 final size:43
Alignment explanation
Indices: 16244085--16244201 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
16244075 AAAAAACCAT
* *** *
16244085 TCATGTAATGCCTGAA-TCACATAATGCAATGTTGGATGTCGGG
1 TCATGTAATGCCT-AAGTCACGTAATGCAATGTCAAATGTAGGG
* * * *
16244128 TCACGTAATGCTTAAGTCATGCAATGCAATGTCAAATGTAGGG
1 TCATGTAATGCCTAAGTCACGTAATGCAATGTCAAATGTAGGG
* *
16244171 TCATGCAATGCCTAAGTCACGTAGTGCAATG
1 TCATGTAATGCCTAAGTCACGTAATGCAATG
16244202 CTGGATATAG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
TCATGTAATGCCTAAGTCACGTAATGCAATGTCAAATGTAGGG
Found at i:16247714 original size:45 final size:45
Alignment explanation
Indices: 16247665--16247962 Score: 173
Period size: 45 Copynumber: 6.7 Consensus size: 45
16247655 ATGCCCTACA
** *
16247665 AACCAATCACGCAATGCCTTATCAACTAGTCACGTAATGTCTATC
1 AACCAATCACGCAATGCCTTAAAAACTAGTCACGTAATGACTATC
* * *
16247710 AACCAATCACGCAATG-CTTAAAAACTAGTCATGCAATAACT-TAC
1 AACCAATCACGCAATGCCTTAAAAACTAGTCACGTAATGACTAT-C
* * *** * **
16247754 AAACCAGTCATGCAACAAC-TAAAAACTAGTCACATAATGACTAAA
1 -AACCAATCACGCAATGCCTTAAAAACTAGTCACGTAATGACTATC
** ** * *
16247799 AATTAATCACGCAATGCC-TATCAACTAGTCACGCAATGCTCTATC
1 AACCAATCACGCAATGCCTTAAAAACTAGTCACGTAATG-ACTATC
* * * * *
16247844 AACCAGTCATGCAATG-ATTAAAAA-TCAGTCACATAATGCCTTATC
1 AACCAATCACGCAATGCCTTAAAAACT-AGTCACGTAATGAC-TATC
** * ** *
16247889 AACCAATCACATAATGCC-TAAAAA-TAAGCCACAAAATGTCTTATC
1 AACCAATCACGCAATGCCTTAAAAACT-AGTCACGTAATGAC-TATC
**
16247934 AACCAATCACATAATGCC-TAAAAACTAGT
1 AACCAATCACGCAATGCCTTAAAAACTAGT
16247963 AATGCAATAC
Statistics
Matches: 193, Mismatches: 50, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.01
44 49 0.25
45 141 0.73
46 2 0.01
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.23
Consensus pattern (45 bp):
AACCAATCACGCAATGCCTTAAAAACTAGTCACGTAATGACTATC
Found at i:16247719 original size:22 final size:23
Alignment explanation
Indices: 16247645--16247726 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
16247635 GTCTAAAAAT
* *
16247645 CAATCATGCAATGCCCTA-CAAAC
1 CAATCACGCAATGCCTTATC-AAC
16247668 CAATCACGCAATGCCTTATCAAC
1 CAATCACGCAATGCCTTATCAAC
* * * *
16247691 TAGTCACGTAATGTC-TATCAAC
1 CAATCACGCAATGCCTTATCAAC
16247713 CAATCACGCAATGC
1 CAATCACGCAATGC
16247727 TTAAAAACTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 17 0.35
23 30 0.62
24 1 0.02
ACGTcount: A:0.35, C:0.32, G:0.11, T:0.22
Consensus pattern (23 bp):
CAATCACGCAATGCCTTATCAAC
Found at i:16247745 original size:22 final size:22
Alignment explanation
Indices: 16247671--16247875 Score: 85
Period size: 22 Copynumber: 9.2 Consensus size: 22
16247661 TACAAACCAA
**
16247671 TCACGCAATGCCTTATCAACTAG
1 TCACGCAATG-CTTAAAAACTAG
* ** * *
16247694 TCACGTAATG-TCTATCAACCAA
1 TCACGCAATGCT-TAAAAACTAG
16247716 TCACGCAATGCTTAAAAACTAG
1 TCACGCAATGCTTAAAAACTAG
* * * *
16247738 TCATGCAATAACTTACAAACCAG
1 TCACGCAAT-GCTTAAAAACTAG
* **
16247761 TCATGCAACAAC-TAAAAACTAG
1 TCACGCAA-TGCTTAAAAACTAG
** * *
16247783 TCACATAATGAC-TAAAAATTAA
1 TCACGCAATG-CTTAAAAACTAG
* **
16247805 TCACGCAATGCCTATCAACTAG
1 TCACGCAATGCTTAAAAACTAG
** *
16247827 TCACGCAATGCTCTATCAACCAG
1 TCACGCAATGCT-TAAAAACTAG
* *
16247850 TCATGCAATGATTAAAAA-TCAG
1 TCACGCAATGCTTAAAAACT-AG
16247872 TCAC
1 TCAC
16247876 ATAATGCCTT
Statistics
Matches: 138, Mismatches: 36, Indels: 17
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.01
22 87 0.63
23 49 0.36
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (22 bp):
TCACGCAATGCTTAAAAACTAG
Found at i:16247815 original size:89 final size:89
Alignment explanation
Indices: 16247714--16247881 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 89
16247704 TCTATCAACC
* *
16247714 AATCACGCAATGCTTAAAAACTAGTCATGCAATAACT-TA-CAAACCAGTCATGCAACAACTAAA
1 AATCACGCAATGCCTAAAAACTAGTCACGCAAT-ACTCTATC-AACCAGTCATGCAACAACTAAA
16247777 AA-CTAGTCACATAATGACTAAAAATT
64 AATC-AGTCACATAATGACTAAAAATT
** * ** *
16247803 AATCACGCAATGCCTATCAACTAGTCACGCAATGCTCTATCAACCAGTCATGCAATGATTAAAAA
1 AATCACGCAATGCCTAAAAACTAGTCACGCAATACTCTATCAACCAGTCATGCAACAACTAAAAA
16247868 TCAGTCACATAATG
66 TCAGTCACATAATG
16247882 CCTTATCAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
88 2 0.03
89 64 0.94
90 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (89 bp):
AATCACGCAATGCCTAAAAACTAGTCACGCAATACTCTATCAACCAGTCATGCAACAACTAAAAA
TCAGTCACATAATGACTAAAAATT
Found at i:16247860 original size:67 final size:68
Alignment explanation
Indices: 16247669--16247891 Score: 188
Period size: 67 Copynumber: 3.3 Consensus size: 68
16247659 CCTACAAACC
* *
16247669 AATCACGCAATGCCTTATCAACTAGTCACGTAATG-TCTATCAACCAATCACGCAATG-CTTAAA
1 AATCACGCAATGCCTTATCAACTAGTCACGCAATGCTCTATCAACCAGTCACGCAATGAC-TAAA
*
16247732 AACT
65 AATT
* * ** * * * ** * **
16247736 AGTCATGCAATAACTTA-CAAACCAGTCATGCAA--CAACTAAAAACTAGTCACATAATGACTAA
1 AATCACGCAATGCCTTATC-AACTAGTCACGCAATGC-TCTATCAACCAGTCACGCAATGACTAA
16247798 AAATT
64 AAATT
* *
16247803 AATCACGCAATGCC-TATCAACTAGTCACGCAATGCTCTATCAACCAGTCATGCAATGATTAAAA
1 AATCACGCAATGCCTTATCAACTAGTCACGCAATGCTCTATCAACCAGTCACGCAATGACTAAAA
*
16247867 ATC
66 ATT
* **
16247870 AGTCACATAATGCCTTATCAAC
1 AATCACGCAATGCCTTATCAAC
16247892 CAATCACATA
Statistics
Matches: 115, Mismatches: 33, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
66 15 0.13
67 91 0.79
68 9 0.08
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.24
Consensus pattern (68 bp):
AATCACGCAATGCCTTATCAACTAGTCACGCAATGCTCTATCAACCAGTCACGCAATGACTAAAA
ATT
Found at i:16247898 original size:23 final size:23
Alignment explanation
Indices: 16247872--16247952 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
16247862 TAAAAATCAG
16247872 TCACATAATGCCTTATCAACCAA
1 TCACATAATGCCTTATCAACCAA
* **
16247895 TCACATAATGCC-TA-AAAATAA
1 TCACATAATGCCTTATCAACCAA
* * *
16247916 GCCACAAAATGTCTTATCAACCAA
1 -TCACATAATGCCTTATCAACCAA
16247940 TCACATAATGCCT
1 TCACATAATGCCT
16247953 AAAAACTAGT
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
21 4 0.09
22 11 0.26
23 24 0.56
24 4 0.09
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (23 bp):
TCACATAATGCCTTATCAACCAA
Found at i:16248088 original size:22 final size:22
Alignment explanation
Indices: 16248063--16248148 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 22
16248053 CACGATGCCC
16248063 TAAAAACCAATCACGCAATGTT
1 TAAAAACCAATCACGCAATGTT
* * * *
16248085 TAAAAATCGATCATGCAATGCTC
1 TAAAAACCAATCACGCAATG-TT
* * **
16248108 TAAAAACCAACCACACAATACT
1 TAAAAACCAATCACGCAATGTT
* *
16248130 TAAAAACCAGTCATGCAAT
1 TAAAAACCAATCACGCAAT
16248149 CCCTCATCAA
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
22 32 0.68
23 15 0.32
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (22 bp):
TAAAAACCAATCACGCAATGTT
Found at i:16248111 original size:23 final size:23
Alignment explanation
Indices: 16248006--16248148 Score: 82
Period size: 23 Copynumber: 6.4 Consensus size: 23
16247996 TAAAATCTAG
*
16248006 TCACGCAATG--CGAAAAACCAA
1 TCACGCAATGCTCTAAAAACCAA
* *
16248027 TCACACAATGC-CTTAAAAA-TAA
1 TCACGCAATGCTC-TAAAAACCAA
* * * *
16248049 GTAACACGATGCCCTAAAAACCAA
1 -TCACGCAATGCTCTAAAAACCAA
* * *
16248073 TCACGCAATG-TTTAAAAATCGA
1 TCACGCAATGCTCTAAAAACCAA
*
16248095 TCATGCAATGCTCTAAAAACCAA
1 TCACGCAATGCTCTAAAAACCAA
* * * *
16248118 CCACACAATACT-TAAAAACCAG
1 TCACGCAATGCTCTAAAAACCAA
*
16248140 TCATGCAAT
1 TCACGCAAT
16248149 CCCTCATCAA
Statistics
Matches: 91, Mismatches: 25, Indels: 11
0.72 0.20 0.09
Matches are distributed among these distances:
21 9 0.10
22 35 0.38
23 44 0.48
24 3 0.03
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (23 bp):
TCACGCAATGCTCTAAAAACCAA
Found at i:16248111 original size:45 final size:45
Alignment explanation
Indices: 16248057--16248152 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
16248047 AAGTAACACG
* * ** *
16248057 ATGCCCTAAAAACCAATCACGCAATGTTTAAAAATC-GATCATGCA
1 ATGCCCTAAAAACCAACCACACAATACTTAAAAACCAG-TCATGCA
*
16248102 ATGCTCTAAAAACCAACCACACAATACTTAAAAACCAGTCATGCA
1 ATGCCCTAAAAACCAACCACACAATACTTAAAAACCAGTCATGCA
16248147 AT-CCCT
1 ATGCCCT
16248153 CATCAACCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 3 0.07
45 39 0.91
46 1 0.02
ACGTcount: A:0.43, C:0.28, G:0.08, T:0.21
Consensus pattern (45 bp):
ATGCCCTAAAAACCAACCACACAATACTTAAAAACCAGTCATGCA
Found at i:16248501 original size:15 final size:15
Alignment explanation
Indices: 16248462--16248506 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
16248452 TTTCTTTCTA
16248462 GAGAGAAATGCTCTG
1 GAGAGAAATGCTCTG
* *
16248477 GTGAGGAATGCTCTG
1 GAGAGAAATGCTCTG
* *
16248492 GAGATAAATGGTCTG
1 GAGAGAAATGCTCTG
16248507 TCAAGAAAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.29, C:0.11, G:0.36, T:0.24
Consensus pattern (15 bp):
GAGAGAAATGCTCTG
Found at i:16249792 original size:4 final size:4
Alignment explanation
Indices: 16249785--16249813 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
16249775 ATATATAATT
16249785 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
16249814 CCTTCCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:16252072 original size:29 final size:29
Alignment explanation
Indices: 16252030--16252085 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16252020 ATTTAGAAAA
*
16252030 ATTCAAATAAACCCTTATACTTTTATTAC
1 ATTCAAATAAACCCATATACTTTTATTAC
*
16252059 ATTC-AATCAAACCCATATATTTTTATT
1 ATTCAAAT-AAACCCATATACTTTTATT
16252086 TTCAGCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.43
Consensus pattern (29 bp):
ATTCAAATAAACCCATATACTTTTATTAC
Found at i:16252110 original size:30 final size:30
Alignment explanation
Indices: 16252074--16252131 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
16252064 ATCAAACCCA
16252074 TATATTTTTATTTTCAG-CTAAATAAGCTTC
1 TATATTTTTATTTTCAGTC-AAATAAGCTTC
*
16252104 TATATTTTTATTTTTAGTCAAATAAGCT
1 TATATTTTTATTTTCAGTCAAATAAGCT
16252132 CTTATGACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (30 bp):
TATATTTTTATTTTCAGTCAAATAAGCTTC
Found at i:16253347 original size:15 final size:15
Alignment explanation
Indices: 16253306--16253348 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16253296 GTTTTTCTTC
16253306 TTGGAGAGAAATGCT
1 TTGGAGAGAAATGCT
*
16253321 CT-GATGAGAAATGCT
1 TTGGA-GAGAAATGCT
*
16253336 TTGGAGATAAATG
1 TTGGAGAGAAATG
16253349 GTCTGTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (15 bp):
TTGGAGAGAAATGCT
Found at i:16256870 original size:22 final size:24
Alignment explanation
Indices: 16256813--16256874 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 24
16256803 TATAAAATTT
*
16256813 ATTTAATTTAAAATATAAATATAAAT
1 ATTT-ATTT-AAATATAAATATAAAA
*
16256839 ATTTAATTAAATAT-AATA-AAAA
1 ATTTATTTAAATATAAATATAAAA
16256861 ATTTATTTAAATAT
1 ATTTATTTAAATAT
16256875 TTTTAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.48
23 4 0.12
24 6 0.18
25 3 0.09
26 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTATTTAAATATAAATATAAAA
Found at i:16260705 original size:2 final size:2
Alignment explanation
Indices: 16260693--16260771 Score: 74
Period size: 2 Copynumber: 41.0 Consensus size: 2
16260683 TGGTCATGTA
* * * * * *
16260693 AT AT AT GT AT AT AT AT A- AT -T AT AT AT AT NT GT TT GT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
16260733 A- AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16260772 CTTTTATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 3 0.05
2 62 0.95
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
AT
Done.