Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 69 of 153
Found at i:22048241 original size:7 final size:7
Alignment explanation
Indices: 22048207--22048241 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
22048197 TAAGGTTTAT
*
22048207 GGGTTAA
1 GGGTTAG
22048214 GGGTTAG
1 GGGTTAG
22048221 GGGTTAG
1 GGGTTAG
22048228 GGGTTAG
1 GGGTTAG
22048235 GGGTTAG
1 GGGTTAG
22048242 ATGTTAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:22048247 original size:21 final size:21
Alignment explanation
Indices: 22048207--22048257 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22048197 TAAGGTTTAT
* * *
22048207 GGGTTAAGGGTTAGGGGTTAG
1 GGGTTAGGGGTTAGAGGTTAA
*
22048228 GGGTTAGGGGTTAGATGTTAA
1 GGGTTAGGGGTTAGAGGTTAA
*
22048249 GAGTTAGGG
1 GGGTTAGGG
22048258 ATTTAGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (21 bp):
GGGTTAGGGGTTAGAGGTTAA
Found at i:22048366 original size:14 final size:14
Alignment explanation
Indices: 22048343--22048372 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22048333 ATATATTAAA
*
22048343 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
22048357 TAAGGGTTAGGGGT
1 TAAGGGTTAGGGGT
22048371 TA
1 TA
22048373 GGGATCGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:22048395 original size:88 final size:82
Alignment explanation
Indices: 22048292--22048518 Score: 208
Period size: 88 Copynumber: 2.7 Consensus size: 82
22048282 TTCGGTGTTA
* *
22048292 GGTTAGAGTTTAGGGTTTAGATTAATTAATATGTTTTAA-TTATATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAATATTTTTTAATTTATATATTAAATAAGGTTTAGGGG
* * *
22048356 TTAAGG-GTTAGGGGTTAG
66 TTAGGGAGTTA-GAG-TCG
* * * * *
22048374 GGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGA-ATTTTTTAATTTATATATTAAAAAAAGT
1 GGTTAGGGTT-TAG-----GGTTTAGATTAATTA-ATATTTTTTAATTTATATATTAAATAAGGT
*
22048438 TTAGGGGTTAGGGATTTAGAGTCG
59 TTAGGGGTTAGGGAGTTAGAGTCG
* * * *
22048462 GGTTAGGGTTTAAGATTTGGATTAATTAGTACTTTTTTAATTTATATATTAAATAAG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAATA-TTTTTTAATTTATATATTAAATAAG
22048519 TTCTTTATAT
Statistics
Matches: 114, Mismatches: 20, Indels: 21
0.74 0.13 0.14
Matches are distributed among these distances:
82 21 0.18
83 25 0.22
87 1 0.01
88 33 0.29
89 31 0.27
90 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.43
Consensus pattern (82 bp):
GGTTAGGGTTTAGGGTTTAGATTAATTAATATTTTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGGGAGTTAGAGTCG
Found at i:22048498 original size:82 final size:83
Alignment explanation
Indices: 22048360--22048514 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 83
22048350 TAGGGGTTAA
* * * *
22048360 GGGTTAGGGGTTAGGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGAA-TTTTTTAATTTAT
1 GGGTTAGGGGTTAGAGATCGGGTTAGGGTTTAAGATTTAGATTAATTAGAACTTTTTTAATTTAT
22048424 ATATTAAAAAAAGTTTAG
66 ATATTAAAAAAAGTTTAG
* * *
22048442 GGGTTAGGGATTTAGAG-TCGGGTTAGGGTTTAAGATTTGGATTAATTAGTACTTTTTTAATTTA
1 GGGTTAGGG-GTTAGAGATCGGGTTAGGGTTTAAGATTTAGATTAATTAGAACTTTTTTAATTTA
22048506 TATATTAAA
65 TATATTAAA
22048515 TAAGTTCTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
82 38 0.59
83 26 0.41
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (83 bp):
GGGTTAGGGGTTAGAGATCGGGTTAGGGTTTAAGATTTAGATTAATTAGAACTTTTTTAATTTAT
ATATTAAAAAAAGTTTAG
Found at i:22048619 original size:21 final size:21
Alignment explanation
Indices: 22048566--22048619 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
22048556 TAAAGATTAT
22048566 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
22048587 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
22048608 TAATTTAAAATT
1 TAATTTAAAATT
22048620 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:22048628 original size:9 final size:9
Alignment explanation
Indices: 22048614--22048656 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
22048604 ATAATAATTT
22048614 AAAATTGTA
1 AAAATTGTA
22048623 AAAATTGT-
1 AAAATTGTA
22048631 AAAATTGTAAA
1 AAAATTGT--A
22048642 AAAATTGTA
1 AAAATTGTA
22048651 AAAATT
1 AAAATT
22048657 ACAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
11 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (9 bp):
AAAATTGTA
Found at i:22048635 original size:17 final size:18
Alignment explanation
Indices: 22048609--22048653 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
22048599 TGAATATAAT
22048609 AATT-TAAAATTGT-AAA
1 AATTGTAAAATTGTAAAA
22048625 AATTGTAAAATTGTAAAAA
1 AATTGTAAAATTGT-AAAA
22048644 AATTGTAAAA
1 AATTGTAAAA
22048654 ATTACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 9 0.35
19 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (18 bp):
AATTGTAAAATTGTAAAA
Found at i:22048653 original size:8 final size:8
Alignment explanation
Indices: 22048609--22048642 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
22048599 TGAATATAAT
22048609 AATT-TAA
1 AATTGTAA
22048616 AATTGTAAA
1 AATTGT-AA
22048625 AATTGTAA
1 AATTGTAA
22048633 AATTGTAA
1 AATTGTAA
22048641 AA
1 AA
22048643 AAATTGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AATTGTAA
Found at i:22048662 original size:19 final size:19
Alignment explanation
Indices: 22048622--22048665 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
22048612 TTAAAATTGT
*
22048622 AAAAATTGTAAAATTGTAA
1 AAAAATTGTAAAAATGTAA
22048641 AAAAATTGTAAAAAT-TACA
1 AAAAATTGTAAAAATGTA-A
22048660 AAAAAT
1 AAAAAT
22048666 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAATTGTAAAAATGTAA
Found at i:22048680 original size:18 final size:18
Alignment explanation
Indices: 22048659--22048705 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
22048649 TAAAAATTAC
22048659 AAAAAATAAAATAA-AAAT
1 AAAAAATAAAA-AAGAAAT
22048677 AAAAAATAAAAAAGAAAT
1 AAAAAATAAAAAAGAAAT
22048695 AAAAAACTAAA
1 AAAAAA-TAAA
22048706 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.07
18 21 0.78
19 4 0.15
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAAATAAAAAAGAAAT
Found at i:22048744 original size:46 final size:47
Alignment explanation
Indices: 22048694--22048789 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 47
22048684 AAAAAAGAAA
** *
22048694 TAAAAAACT-AAATTTTTATTTTTACCTAA-TTTTTATAAATATTA-C
1 TAAAAAACTAAAATTGATAATTTTACCTAATTTTTTA-AAATATTACC
* *
22048739 TTAAAAACTAAAATTGATAATTTTATCTAATTTTTTAAAATATTACC
1 TAAAAAACTAAAATTGATAATTTTACCTAATTTTTTAAAATATTACC
22048786 TAAA
1 TAAA
22048790 TTAACAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
45 8 0.19
46 24 0.57
47 10 0.24
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (47 bp):
TAAAAAACTAAAATTGATAATTTTACCTAATTTTTTAAAATATTACC
Found at i:22049144 original size:75 final size:74
Alignment explanation
Indices: 22048985--22049148 Score: 203
Period size: 75 Copynumber: 2.2 Consensus size: 74
22048975 CATTTGATAA
*
22048985 AAAACTGCGCCGTTTTATTATTTGCTTTTAGTGGCACTTTAGAAAAACGTCGCAAATTAATGTAA
1 AAAACTGCGTCGTTTTATTATTTGCTTTTAGTGGCACTTTAGAAAAACGTCGCAAATTAATGTAA
22049050 CTGTTAAGG
66 CTGTTAAGG
* * *
22049059 AAAACGGCGTCGTTTTATTATTTGCTTTTAGTGGGGACTTTTGAAAAACG-CGGCAAA-T-ATGT
1 AAAACTGCGTCGTTTTATTATTTGCTTTTAGT-GGCACTTTAGAAAAACGTC-GCAAATTAATGT
22049121 ATTA-TGGGTTAAGG
64 A--ACT--GTTAAGG
22049135 -AAACTGCGTCGTTT
1 AAAACTGCGTCGTTT
22049149 CAGTTTTTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
73 5 0.06
74 33 0.42
75 34 0.43
76 7 0.09
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (74 bp):
AAAACTGCGTCGTTTTATTATTTGCTTTTAGTGGCACTTTAGAAAAACGTCGCAAATTAATGTAA
CTGTTAAGG
Found at i:22050922 original size:7 final size:7
Alignment explanation
Indices: 22050910--22050968 Score: 100
Period size: 7 Copynumber: 8.3 Consensus size: 7
22050900 TGTTTCTTTA
22050910 TTTTCTG
1 TTTTCTG
22050917 TTTTCTG
1 TTTTCTG
22050924 TTTTCTG
1 TTTTCTG
22050931 TTTTCTG
1 TTTTCTG
22050938 TTTTCTG
1 TTTTCTG
22050945 TTTTCTG
1 TTTTCTG
*
22050952 TTTTGCTA
1 TTTT-CTG
22050960 TTTTCTG
1 TTTTCTG
22050967 TT
1 TT
22050969 GAATGAAGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
7 43 0.88
8 6 0.12
ACGTcount: A:0.02, C:0.14, G:0.14, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:22051556 original size:13 final size:13
Alignment explanation
Indices: 22051538--22051682 Score: 89
Period size: 13 Copynumber: 11.0 Consensus size: 13
22051528 ATTTACTCTT
*
22051538 AATATATTACTTG
1 AATATATTACTTA
22051551 AATATATTACTTA
1 AATATATTACTTA
22051564 AATATATTACTTA
1 AATATATTACTTA
*
22051577 CTAA-A-ATTTCGTTA
1 --AATATATTAC-TTA
*
22051591 AATTTATTACTTA
1 AATATATTACTTA
* *
22051604 AATATGTTACTCA
1 AATATATTACTTA
* * *
22051617 GATACATCACTTA
1 AATATATTACTTA
* **
22051630 CTAAAAT-TTGGTTA
1 --AATATATTACTTA
* *
22051644 AATTTTTTACTTA
1 AATATATTACTTA
*
22051657 AATATGTTACTTA
1 AATATATTACTTA
*
22051670 AATACATTACTTA
1 AATATATTACTTA
22051683 CTAAAATTTA
Statistics
Matches: 98, Mismatches: 26, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
12 5 0.05
13 77 0.79
14 12 0.12
15 4 0.04
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:22051614 original size:53 final size:53
Alignment explanation
Indices: 22051520--22051691 Score: 229
Period size: 53 Copynumber: 3.2 Consensus size: 53
22051510 AACATATTTT
* * * * *
22051520 TTACTAAAATTTAC-TCTTAATATATTACTTGAATATATTACTTAAATATATTAC
1 TTACTAAAATTT-CGT-TAAATTTATTACTTAAATATGTTACTTAAATACATTAC
* * *
22051574 TTACTAAAATTTCGTTAAATTTATTACTTAAATATGTTACTCAGATACATCAC
1 TTACTAAAATTTCGTTAAATTTATTACTTAAATATGTTACTTAAATACATTAC
* *
22051627 TTACTAAAATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATACATTAC
1 TTACTAAAATTTCGTTAAATTTATTACTTAAATATGTTACTTAAATACATTAC
22051680 TTACTAAAATTT
1 TTACTAAAATTT
22051692 AAGTATATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
53 91 0.88
54 13 0.12
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (53 bp):
TTACTAAAATTTCGTTAAATTTATTACTTAAATATGTTACTTAAATACATTAC
Found at i:22051837 original size:9 final size:9
Alignment explanation
Indices: 22051823--22052142 Score: 202
Period size: 9 Copynumber: 35.8 Consensus size: 9
22051813 TAAGTACAAG
22051823 AACTTACAT
1 AACTTACAT
*
22051832 AACTTA-TT
1 AACTTACAT
*
22051840 AATATTTACAT
1 -A-ACTTACAT
22051851 AAACTTACAT
1 -AACTTACAT
*
22051861 AACTATCACAAA
1 AACT-T-AC-AT
*
22051873 AACTTATATGT
1 AACTTACA--T
22051884 AAACTTACAT
1 A-ACTTACAT
22051894 AA--TACAT
1 AACTTACAT
* *
22051901 AATTTACAC
1 AACTTACAT
22051910 AACTTACAT
1 AACTTACAT
*
22051919 AACCTACAT
1 AACTTACAT
22051928 AACTTACAT
1 AACTTACAT
22051937 AA--TACA-
1 AACTTACAT
22051943 AAGCTTACAT
1 AA-CTTACAT
* *
22051953 AACTGAAAT
1 AACTTACAT
* *
22051962 AGCTTACAC
1 AACTTACAT
22051971 AACTTACAT
1 AACTTACAT
22051980 AACTTACAT
1 AACTTACAT
*
22051989 AACTTACAC
1 AACTTACAT
22051998 AACTTACAT
1 AACTTACAT
*
22052007 AATACATA-AT
1 -A-ACTTACAT
22052017 AACTTAC--
1 AACTTACAT
22052024 AACTTACAT
1 AACTTACAT
*
22052033 AACATACAT
1 AACTTACAT
* **
22052042 TACTTTGAT
1 AACTTACAT
22052051 AACTTACAT
1 AACTTACAT
*
22052060 AAGTTACAT
1 AACTTACAT
*
22052069 AA--TACAC
1 AACTTACAT
22052076 AACTTACAT
1 AACTTACAT
** *
22052085 AGTTTACTT
1 AACTTACAT
22052094 AA--TACAT
1 AACTTACAT
22052101 AACTTACAT
1 AACTTACAT
22052110 AACTT--AT
1 AACTTACAT
*
22052117 ACACGTACAT
1 A-ACTTACAT
22052127 AACTTACAT
1 AACTTACAT
*
22052136 AATTTAC
1 AACTTAC
22052143 TTAATACATA
Statistics
Matches: 240, Mismatches: 44, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
6 2 0.01
7 33 0.14
8 8 0.03
9 152 0.63
10 23 0.10
11 11 0.05
12 11 0.05
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:22051928 original size:34 final size:33
Alignment explanation
Indices: 22051889--22052012 Score: 85
Period size: 34 Copynumber: 3.6 Consensus size: 33
22051879 TATGTAAACT
22051889 TACATAA-TACATAATTTACACAA-CTTACATAACC
1 TACATAACTACATAA--TACA-AAGCTTACATAACC
22051923 TACATAACTTACATAATACAAAGCTTACATAA-C
1 TACATAAC-TACATAATACAAAGCTTACATAACC
* * * *
22051956 TGAAATAGCTTACACAACTTACATAA-CTTACATAACT
1 T-ACATAAC-TACATAA--TACA-AAGCTTACATAACC
*
22051993 TACACAACTTACATAATACA
1 TACATAAC-TACATAATACA
22052013 TAATAACTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
33 4 0.05
34 36 0.49
36 31 0.42
37 3 0.04
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (33 bp):
TACATAACTACATAATACAAAGCTTACATAACC
Found at i:22052041 original size:53 final size:51
Alignment explanation
Indices: 22051966--22052085 Score: 152
Period size: 53 Copynumber: 2.3 Consensus size: 51
22051956 TGAAATAGCT
*
22051966 TACACAACTTACATAACTTACATAACTTACACAACTTACATAA-TACATAA
1 TACACAACTTACATAACATACATAACTTACACAACTTACATAAGTACATAA
* ** *
22052016 TAACTTACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAA
1 T-AC--ACAACTTACATAACATACATAACTTACACAACTTACATAAG-TACATAA
22052071 TACACAACTTACATA
1 TACACAACTTACATA
22052086 GTTTACTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
50 1 0.02
51 2 0.03
52 12 0.20
53 35 0.58
54 2 0.03
55 8 0.13
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (51 bp):
TACACAACTTACATAACATACATAACTTACACAACTTACATAAGTACATAA
Found at i:22052091 original size:25 final size:25
Alignment explanation
Indices: 22051993--22052150 Score: 106
Period size: 25 Copynumber: 6.2 Consensus size: 25
22051983 TTACATAACT
22051993 TACACAACTTACATAA--TACATAA
1 TACACAACTTACATAATTTACATAA
** *
22052016 TAACTTACAACTTACATAACATACATTACT
1 T-AC--ACAACTTACATAATTTACA-TA-A
** * *
22052046 TTGATAACTTACATAAGTTACATAA
1 TACACAACTTACATAATTTACATAA
* *
22052071 TACACAACTTACATAGTTTACTTAA
1 TACACAACTTACATAATTTACATAA
* **
22052096 TACATAACTTACATAACTTATACA-CG
1 TACACAACTTACATAA-TT-TACATAA
* *
22052122 TACATAACTTACATAATTTACTTAA
1 TACACAACTTACATAATTTACATAA
22052147 TACA
1 TACA
22052151 TAAATATATA
Statistics
Matches: 104, Mismatches: 21, Indels: 18
0.73 0.15 0.13
Matches are distributed among these distances:
23 1 0.01
24 5 0.05
25 39 0.38
26 33 0.32
27 19 0.18
28 4 0.04
29 2 0.02
30 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.34
Consensus pattern (25 bp):
TACACAACTTACATAATTTACATAA
Found at i:22052142 original size:51 final size:50
Alignment explanation
Indices: 22051889--22052153 Score: 162
Period size: 52 Copynumber: 5.1 Consensus size: 50
22051879 TATGTAAACT
* * * * *
22051889 TACATAA--TACATAATTTACACAACTTACATAACCTACATAACTTACATAA
1 TACATAACTTACATAACTTACACAA--TACACAACTTACATAATTTACTTAA
* * * * * *
22051939 TACA-AAGCTTACATAACTGAAATAGCTTACACAACTTACATAACTTACATAA
1 TACATAA-CTTACATAACTTACACA--ATACACAACTTACATAATTTACTTAA
* * ** *
22051991 CTTACACAACTTACATAA--TACATAATAACTTACAACTTACATAACATACATTACT
1 --TACATAACTTACATAACTTACACAAT-AC--ACAACTTACATAATTTAC-TTA-A
** * * *
22052046 TTGATAACTTACATAAGTTACATAATACACAACTTACATAGTTTACTTAA
1 TACATAACTTACATAACTTACACAATACACAACTTACATAATTTACTTAA
* * *
22052096 TACATAACTTACATAACTTATACACGTACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACACA-ATACACAACTTACATAATTTACTTAA
22052147 TACATAA
1 TACATAA
22052154 ATATATATCA
Statistics
Matches: 171, Mismatches: 28, Indels: 31
0.74 0.12 0.13
Matches are distributed among these distances:
49 2 0.01
50 24 0.14
51 35 0.20
52 53 0.31
53 30 0.18
54 17 0.10
55 10 0.06
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (50 bp):
TACATAACTTACATAACTTACACAATACACAACTTACATAATTTACTTAA
Found at i:22057673 original size:66 final size:66
Alignment explanation
Indices: 22057590--22057720 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
22057580 CACAGATGAG
* *
22057590 GTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGTAGT-GAGAGAAGCAG
1 GTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCA-TCGAGAGAAGCAG
22057654 AA
65 AA
* *
22057656 GTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCTGATGCGGCATCGAGAGAAGCAGA
1 GTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCATCGAGAGAAGCAGA
22057721 GCAGAGCAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 59 0.98
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (66 bp):
GTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCATCGAGAGAAGCAGA
A
Found at i:22057744 original size:66 final size:66
Alignment explanation
Indices: 22057593--22057757 Score: 176
Period size: 66 Copynumber: 2.5 Consensus size: 66
22057583 AGATGAGGTT
* * * *
22057593 CAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGTAGTGAGAGAAGCAGAAGT
1 CAAAAGAAATACGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGTGAGAGAAGCAGAAGA
*
22057658 T
66 G
* * *
22057659 CAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCTGATGCGGCA-TCGAGAGAAGCAGAGC
1 CAAAAGAAATACGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGT-GAGAGAAGCAGA--
22057723 AGAG
63 AGAG
* *
22057727 C-AAA-AAGTACGACGAACTCCAGC-AGCAACTT
1 CAAAAGAAATACGAAGAACTCCAGCTA-CAACTT
22057758 CAGAGTATGA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
65 2 0.02
66 78 0.91
67 3 0.03
68 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.14
Consensus pattern (66 bp):
CAAAAGAAATACGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGTGAGAGAAGCAGAAGA
G
Found at i:22058088 original size:42 final size:41
Alignment explanation
Indices: 22058041--22058178 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 41
22058031 TTGAACAAAA
* * * *
22058041 GTTCTTTAGCGGCGCTTAATAAAAAATGCCACCAAAGATCAT
1 GTTCTTTAGCGGCGCTTAA-AAAAAAAGCCGCTAAAGAACAT
* *
22058083 GTTCTTTAGCGACGATTAGAAAAAAAAGCCGCTAAAGAACAT
1 GTTCTTTAGCGGCGCTTA-AAAAAAAAGCCGCTAAAGAACAT
* *
22058125 GTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACAT
1 GTTCTTTAGCGGCGCTTA-AAAAAAAAGCCGCTAAAGAACAT
22058167 -TATCTTTAGCGG
1 GT-TCTTTAGCGG
22058179 TATTTTTGTT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 82 0.98
43 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (41 bp):
GTTCTTTAGCGGCGCTTAAAAAAAAAGCCGCTAAAGAACAT
Found at i:22066989 original size:15 final size:15
Alignment explanation
Indices: 22066969--22066998 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22066959 AGCTGGTACT
*
22066969 TCTTCTTCCTCCTCA
1 TCTTCTTCATCCTCA
22066984 TCTTCTTCATCCTCA
1 TCTTCTTCATCCTCA
22066999 CGTTTCTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTTCTTCATCCTCA
Found at i:22071793 original size:131 final size:130
Alignment explanation
Indices: 22071428--22071825 Score: 469
Period size: 131 Copynumber: 3.0 Consensus size: 130
22071418 GATGAGATCG
* * *
22071428 TTCATGATGTTAAATCGAATGAACTTAGGCTATAATATTAAATTAACGAGCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTATGATATTAAATTAGCGAGCCTTAACATTATTAG
* * * *
22071493 CTGCGATCTTATATCAGTGAGCTATTTAGAGTAGCAATATTAAATCAACTAACTCAAA-TAAAAT
66 CTGCGATCTTAAATCAG-GAGCTATTTAGAGTAGCGATATTAAATCAGCTAACTCAAAGAAAAAT
22071557 T
130 T
* * * * * *
22071558 ATTTATGATATTAAATTGAATAAACTT-GGCTACGATATTAAATT-GACGAGCTTTAACATTATC
1 -TTCATGATATTAAATCGAATGAACTTAGGCTATGATATTAAATTAG-CGAGCCTTAACATTATT
* * * * * * * *
22071621 AGCTGCAATATTAAATCAGTAACTTATTTAAAGTAGTGATATTAAATCGGGTAACTCAAAGAAAA
64 AGCTGCGATCTTAAATCAGGAGC-TATTTAGAGTAGCGATATTAAATCAGCTAACTCAAAGAAAA
22071686 ATT
128 ATT
* * *
22071689 TTCATGATATTAAATCGAATGAACTTAGGCTGTGATTTTAAATTAGTGAGCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTATGATATTAAATTAGCGAGCCTTAACATTATTAG
* * * * *
22071754 TTGTGATCTTAAATTAGCGAGCTATTTAGAGTAACGATATTAAATCAGCTAACTCAAAGAAAATT
66 CTGCGATCTTAAATCAG-GAGCTATTTAGAGTAGCGATATTAAATCAGCTAACTCAAAGAAAAAT
22071819 T
130 T
22071820 TTCATG
1 TTCATG
22071826 TTAGATAAAC
Statistics
Matches: 218, Mismatches: 43, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
129 2 0.01
130 99 0.45
131 114 0.52
132 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (130 bp):
TTCATGATATTAAATCGAATGAACTTAGGCTATGATATTAAATTAGCGAGCCTTAACATTATTAG
CTGCGATCTTAAATCAGGAGCTATTTAGAGTAGCGATATTAAATCAGCTAACTCAAAGAAAAATT
Found at i:22079422 original size:14 final size:14
Alignment explanation
Indices: 22079405--22079431 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22079395 TTATATTTAG
22079405 TTAATTTTTATTTC
1 TTAATTTTTATTTC
22079419 TTAATTTTTATTT
1 TTAATTTTTATTT
22079432 TATATTTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTAATTTTTATTTC
Found at i:22083023 original size:29 final size:31
Alignment explanation
Indices: 22082954--22083026 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
22082944 ATTCAAAAAA
* *
22082954 TACAATGACTAAAATTAATCAATATGTAAAG
1 TACAAGGACTAAAATTAATCAATATGCAAAG
*
22082985 TAC-AGAGACTAAAATTGATCAA-AT-CAAAG
1 TACAAG-GACTAAAATTAATCAATATGCAAAG
22083014 TACAAGGACTAAA
1 TACAAGGACTAAA
22083027 CTCACAACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.38
30 5 0.14
31 18 0.49
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (31 bp):
TACAAGGACTAAAATTAATCAATATGCAAAG
Found at i:22085481 original size:36 final size:33
Alignment explanation
Indices: 22085441--22085536 Score: 93
Period size: 36 Copynumber: 2.8 Consensus size: 33
22085431 ATGTATATAT
* *
22085441 ATTGCCATGGCCCAACCATGGTCTTATGTCTATAC
1 ATTGCCATGGCCCAACTATGGTCTTATG--TAAAC
* *** *
22085476 AATTGCCATAGCCTTGCTATGGTCTTACGTAAAC
1 -ATTGCCATGGCCCAACTATGGTCTTATGTAAAC
*
22085510 ATTGCCATGGTCCAACTATGGTCTTAT
1 ATTGCCATGGCCCAACTATGGTCTTAT
22085537 ACATTTTTAC
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
33 21 0.45
34 4 0.09
36 22 0.47
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (33 bp):
ATTGCCATGGCCCAACTATGGTCTTATGTAAAC
Found at i:22088826 original size:22 final size:21
Alignment explanation
Indices: 22088798--22088841 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
22088788 TCTCTCTATT
*
22088798 TTCTCTCAATCTCTCTTTCAAA
1 TTCTCTCAAACT-TCTTTCAAA
*
22088820 TTCTCTCAAACTTCTTTGAAA
1 TTCTCTCAAACTTCTTTCAAA
22088841 T
1 T
22088842 ATTTGGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (21 bp):
TTCTCTCAAACTTCTTTCAAA
Found at i:22105353 original size:16 final size:16
Alignment explanation
Indices: 22105328--22105365 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22105318 TTTTAAAAAG
*
22105328 AAAATACTTGTAGA-A
1 AAAATACTTGAAGAGA
22105343 AAAAGTACTTGAAGAGA
1 AAAA-TACTTGAAGAGA
22105360 AAAATA
1 AAAATA
22105366 ATTTGTGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (16 bp):
AAAATACTTGAAGAGA
Found at i:22111886 original size:6 final size:6
Alignment explanation
Indices: 22111875--22111916 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
22111865 GAAATAAATT
22111875 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
22111917 TATACTCGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTTC
Found at i:22120599 original size:21 final size:21
Alignment explanation
Indices: 22120575--22120617 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22120565 ATAGAGCCCG
22120575 TCGACTTTCTATTTTATTTAA
1 TCGACTTTCTATTTTATTTAA
22120596 TCGACTTTCTATTTTATTTAA
1 TCGACTTTCTATTTTATTTAA
22120617 T
1 T
22120618 TAACTCCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (21 bp):
TCGACTTTCTATTTTATTTAA
Found at i:22135551 original size:20 final size:20
Alignment explanation
Indices: 22135526--22135595 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
22135516 ATTATTAGAG
22135526 TAAACTACACCATTAGTCAT
1 TAAACTACACCATTAGTCAT
* ** * * *
22135546 TAAACTATGATTTATTATTAGAG
1 TAAACTA-CA-CCATTAGT-CAT
22135569 TAAACTACACCATTAGTCAT
1 TAAACTACACCATTAGTCAT
22135589 TAAACTA
1 TAAACTA
22135596 TGGGTAAGTT
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 15 0.43
21 6 0.17
22 6 0.17
23 8 0.23
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (20 bp):
TAAACTACACCATTAGTCAT
Found at i:22135573 original size:43 final size:43
Alignment explanation
Indices: 22135512--22135597 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
22135502 CTAAGAGATA
22135512 ATTTATTATTAGAGTAAACTACACCATTAGTCATTAAACTATG
1 ATTTATTATTAGAGTAAACTACACCATTAGTCATTAAACTATG
22135555 ATTTATTATTAGAGTAAACTACACCATTAGTCATTAAACTATG
1 ATTTATTATTAGAGTAAACTACACCATTAGTCATTAAACTATG
22135598 GGTAAGTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (43 bp):
ATTTATTATTAGAGTAAACTACACCATTAGTCATTAAACTATG
Found at i:22137801 original size:8 final size:8
Alignment explanation
Indices: 22137788--22137817 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
22137778 CCAGAAAAGC
22137788 TAATATAT
1 TAATATAT
22137796 TAATATAT
1 TAATATAT
22137804 TAATATAT
1 TAATATAT
22137812 TAATAT
1 TAATAT
22137818 TTGGTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATATAT
Found at i:22137869 original size:8 final size:8
Alignment explanation
Indices: 22137856--22137885 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
22137846 CCAGAAAAGC
22137856 TAATATAT
1 TAATATAT
22137864 TAATATAT
1 TAATATAT
22137872 TAATATAT
1 TAATATAT
22137880 TAATAT
1 TAATAT
22137886 TTGGTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATATAT
Found at i:22137956 original size:68 final size:68
Alignment explanation
Indices: 22137735--22137937 Score: 397
Period size: 68 Copynumber: 3.0 Consensus size: 68
22137725 TCCAGAAGAG
*
22137735 TTAATATATCAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
1 TTAATATATTAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
22137800 ATA
66 ATA
22137803 TTAATATATTAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
1 TTAATATATTAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
22137868 ATA
66 ATA
22137871 TTAATATATTAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
1 TTAATATATTAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
22137936 AT
66 AT
22137938 CTAAAAAGAA
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 134 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (68 bp):
TTAATATATTAATATTTGGTAGTAAAAAAATTAGTTGAAAGCTCCAGAAAAGCTAATATATTAAT
ATA
Found at i:22146923 original size:17 final size:17
Alignment explanation
Indices: 22146901--22146965 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
22146891 CATCAAAGGC
22146901 TACAATTAGAACCTGTA
1 TACAATTAGAACCTGTA
22146918 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAC-CT--GTA
* * **
22146937 CACAATTATAAGTTGTA
1 TACAATTAGAACCTGTA
22146954 TACAATTAGAAC
1 TACAATTAGAAC
22146966 TCTAAGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 1 0.03
17 22 0.59
18 3 0.08
19 10 0.27
20 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (17 bp):
TACAATTAGAACCTGTA
Found at i:22151824 original size:48 final size:48
Alignment explanation
Indices: 22151753--22151847 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
22151743 TTCTTTGCTT
22151753 AAAAACGCCTAAGTCAGCCTAACTGGCAATGATAAAGGACTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTGGCAATGATAAAGGACTCAACAGC
* * *
22151801 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTGGCAATGATAAAGGACTCAACAG
22151848 AATTCCCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTGGCAATGATAAAGGACTCAACAGC
Found at i:22152992 original size:29 final size:29
Alignment explanation
Indices: 22152917--22152992 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
22152907 CTAGTACTCA
*
22152917 CCACAAAGGCTTTCCTATCCAGAGTTGTG
1 CCACAAAGGCTTTCCTTTCCAGAGTTGTG
* * *
22152946 CCACAAAGGCTTAT-CTTTCTAGAGTTTTT
1 CCACAAAGGCTT-TCCTTTCCAGAGTTGTG
22152975 CCACAAAGG-TTGTCCTTT
1 CCACAAAGGCTT-TCCTTT
22152993 AACAAGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.08
29 36 0.90
30 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTTTCCAGAGTTGTG
Found at i:22153212 original size:53 final size:53
Alignment explanation
Indices: 22153131--22153289 Score: 237
Period size: 53 Copynumber: 3.0 Consensus size: 53
22153121 TTTTTTAATT
* * * * *
22153131 TTTCCATATGATTCCATAACCCATCAGTTATGATCTTACATGATATGGTCTTC
1 TTTCCATATGATTTCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
* *
22153184 TTTCCATATGATTTCATAACCCACCAGTTACGGTCTTACACAATATGGTATTC
1 TTTCCATATGATTTCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
* *
22153237 TTTCCATATGATGTCATAACTCACCAGTTACGGTCTTACACGATATGGTCTTC
1 TTTCCATATGATTTCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
22153290 AATGCCATGG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 95 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (53 bp):
TTTCCATATGATTTCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
Found at i:22172857 original size:23 final size:22
Alignment explanation
Indices: 22172824--22172880 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
22172814 CAATGATAAT
*
22172824 ATTTTGTTTTTACTTCTCTTTTAC
1 ATTTT-TTTTTACTTCT-TTTTAA
**
22172848 ATTTTTTTTTGTTTCTTTTTAA
1 ATTTTTTTTTACTTCTTTTTAA
*
22172870 ATATTTTTTTA
1 ATTTTTTTTTA
22172881 TGTAAATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 14 0.50
23 9 0.32
24 5 0.18
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.72
Consensus pattern (22 bp):
ATTTTTTTTTACTTCTTTTTAA
Found at i:22172867 original size:22 final size:23
Alignment explanation
Indices: 22172837--22172879 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22172827 TTGTTTTTAC
* *
22172837 TTCTCTTTTACATTTTTTTTTGT
1 TTCTCTTTTAAATATTTTTTTGT
22172860 TTCT-TTTTAAATATTTTTTT
1 TTCTCTTTTAAATATTTTTTT
22172880 ATGTAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (23 bp):
TTCTCTTTTAAATATTTTTTTGT
Found at i:22177989 original size:133 final size:132
Alignment explanation
Indices: 22177763--22178139 Score: 565
Period size: 133 Copynumber: 2.8 Consensus size: 132
22177753 TTAGTGCTTT
* * * * *
22177763 TATCCTCGAGTCTTAGGTTCAATTCTTCTCCTACCCACATTTTGTACTTTTTTTATTTCATGTTG
1 TATCCTTGAGTCTTAAGTTTAATTCTTCTCCTACTCACA-TTTGTATTTTTTTTATTTCATGTTG
* * *
22177828 CTTCAAACTTTTTAAATTTTTAATTAATTTTTTGAACATATTAGTTTTTTGGTTAGATGGTTGCA
65 CTTCAAACTTTTTTAATTTTTAATTAATTTTTT-AACATATTAGTTCTTTGGTTAGATAGTTGCA
22177893 ATTA
129 ATTA
*
22177897 TATCCTTGAGTCTCAAGTTTAATTCTTCTCCTACTCACATTTGTATTTTTTTTATTTCATGTTGC
1 TATCCTTGAGTCTTAAGTTTAATTCTTCTCCTACTCACATTTGTATTTTTTTTATTTCATGTTGC
22177962 TTCAAACTTTTTTAATTTTTAATTAATTTTTTAACATATTAGTTCTTTGGTTAGATAGTTGCAAT
66 TTCAAACTTTTTTAATTTTTAATTAATTTTTTAACATATTAGTTCTTTGGTTAGATAGTTGCAAT
22178027 TA
131 TA
* * * *
22178029 CATCCTTGAGTCTTGAGTTTAATTCCTCTCCTACTCACATTTGCATTTTGTTTTATTTCATGTTG
1 TATCCTTGAGTCTTAAGTTTAATTCTTCTCCTACTCACATTTGTATTTT-TTTTATTTCATGTTG
* *
22178094 CTTCAAGCTTTTCTTTTATTTTTAATTAATTTTTTTAACATATTAG
65 CTTCAAAC-TTT-TTTAATTTTTAATTAA-TTTTTTAACATATTAG
22178140 CTTGTTTCCT
Statistics
Matches: 223, Mismatches: 16, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
132 77 0.35
133 78 0.35
134 37 0.17
135 15 0.07
136 16 0.07
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.52
Consensus pattern (132 bp):
TATCCTTGAGTCTTAAGTTTAATTCTTCTCCTACTCACATTTGTATTTTTTTTATTTCATGTTGC
TTCAAACTTTTTTAATTTTTAATTAATTTTTTAACATATTAGTTCTTTGGTTAGATAGTTGCAAT
TA
Found at i:22178304 original size:20 final size:19
Alignment explanation
Indices: 22178247--22178340 Score: 95
Period size: 19 Copynumber: 4.7 Consensus size: 19
22178237 TGTTTCAAGC
22178247 TTTTTTATTTTTAATTAAT
1 TTTTTTATTTTTAATTAAT
22178266 GTTTTGATGATATTTTTAATT-A-
1 -TTTT--T--TATTTTTAATTAAT
*
22178288 -CTTTTATTTTTAATTAATAT
1 TTTTTTATTTTTAATT-A-AT
22178308 TTTTTTATTTTTAATTAAT
1 TTTTTTATTTTTAATTAAT
22178327 TTTTTTATTTTTAA
1 TTTTTTATTTTTAA
22178341 CTCTTAACCA
Statistics
Matches: 63, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
16 11 0.17
18 1 0.02
19 17 0.27
20 7 0.11
21 14 0.22
22 1 0.02
23 1 0.02
24 11 0.17
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTTATTTTTAATTAAT
Found at i:22178313 original size:16 final size:16
Alignment explanation
Indices: 22178276--22178329 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
22178266 GTTTTGATGA
*
22178276 TATTTTTAATTACTTT
1 TATTTTTAATTAATTT
22178292 TATTTTTAATTAATATTTTTT
1 TATTTTTAATT-A-A---TTT
22178313 TATTTTTAATTAATTT
1 TATTTTTAATTAATTT
22178329 T
1 T
22178330 TTTATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 15 0.47
17 1 0.03
19 1 0.03
20 1 0.03
21 14 0.44
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTTAATTAATTT
Found at i:22178333 original size:40 final size:40
Alignment explanation
Indices: 22178247--22178340 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
22178237 TGTTTCAAGC
*
22178247 TTTTTTATTTTTAATTAATGTTTTGATGATATTTTTAATTA
1 TTTTTTATTTTTAATTAATATTTT-ATGATATTTTTAATTA
* *
22178288 -CTTTTATTTTTAATTAATATTTT-T-TTATTTTTAATTAA
1 TTTTTTATTTTTAATTAATATTTTATGATATTTTTAATT-A
22178326 TTTTTTTATTTTTAA
1 -TTTTTTATTTTTAA
22178341 CTCTTAACCA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
37 11 0.24
38 2 0.04
40 33 0.72
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (40 bp):
TTTTTTATTTTTAATTAATATTTTATGATATTTTTAATTA
Found at i:22178417 original size:30 final size:31
Alignment explanation
Indices: 22178376--22178443 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
22178366 CATGCTTATA
22178376 AAAATAATTAAAAATA-A-AAAATACATTAATT
1 AAAA-AATTAAAAATACATAAAA-ACATTAATT
*
22178407 AAAAAATTAAAAATATCATCAAAACATTAATT
1 AAAAAATTAAAAATA-CATAAAAACATTAATT
22178439 AAAAA
1 AAAAA
22178444 TAAACTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 11 0.33
31 4 0.12
32 15 0.45
33 3 0.09
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (31 bp):
AAAAAATTAAAAATACATAAAAACATTAATT
Found at i:22179242 original size:20 final size:20
Alignment explanation
Indices: 22179217--22179271 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
22179207 GCAAAAAAAA
* *
22179217 TTATTGTTCTTTTTACTGTT
1 TTATTGTTATTTTTACCGTT
*
22179237 TTATTGCTGTTTTTTTACCGTT
1 TTATTG-T-TATTTTTACCGTT
*
22179259 TTGTTGTTATTTT
1 TTATTGTTATTTT
22179272 CTTGTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 16 0.55
ACGTcount: A:0.09, C:0.09, G:0.13, T:0.69
Consensus pattern (20 bp):
TTATTGTTATTTTTACCGTT
Found at i:22186258 original size:15 final size:15
Alignment explanation
Indices: 22186215--22186258 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22186205 TTTAATTCAT
*
22186215 TTTAAATTATTCAAG
1 TTTAAATTATTTAAG
*
22186230 TTTAGATTATTTTAAG
1 TTTAAATTA-TTTAAG
*
22186246 TTTAAATCATTTA
1 TTTAAATTATTTA
22186259 TACTTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (15 bp):
TTTAAATTATTTAAG
Found at i:22190841 original size:9 final size:9
Alignment explanation
Indices: 22190829--22190869 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
22190819 TTTGAATTTT
22190829 ATAATTCGA
1 ATAATTCGA
* *
22190838 ATAACTCAA
1 ATAATTCGA
*
22190847 ATAATTTGA
1 ATAATTCGA
22190856 ATAATTCGA
1 ATAATTCGA
22190865 ATAAT
1 ATAAT
22190870 AGATTGGTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (9 bp):
ATAATTCGA
Found at i:22191049 original size:21 final size:20
Alignment explanation
Indices: 22191007--22191051 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
22190997 ATATTTTTTT
*
22191007 AAAAAATATAAAAAATTCTA
1 AAAAAATATAAAAAAGTCTA
22191027 AAAAATATATAAAGAAAGT-TA
1 AAAAA-ATATAAA-AAAGTCTA
22191048 AAAA
1 AAAA
22191052 TTTCCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAAATATAAAAAAGTCTA
Found at i:22191308 original size:5 final size:5
Alignment explanation
Indices: 22191268--22191306 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
22191258 ATAATTTCTC
* *
22191268 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAC TCGAC TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
22191307 CTTGAATTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (5 bp):
TCGAT
Found at i:22195365 original size:25 final size:24
Alignment explanation
Indices: 22195337--22195464 Score: 73
Period size: 24 Copynumber: 5.2 Consensus size: 24
22195327 GTATAATAGA
22195337 AAGCTCATATGAGCCATGTAACGGG
1 AAGCTCATATGAGCCAT-TAACGGG
* * * ** *
22195362 AAGCTGATCTGGGCTGTATAACAGG
1 AAGCTCATATGAGCCAT-TAACGGG
* *
22195387 AAGATCATAAGAGCCA-TAACCGGG
1 AAGCTCATATGAGCCATTAA-CGGG
** *
22195411 AAGCTCATGCGAGCCAATAACGGG
1 AAGCTCATATGAGCCATTAACGGG
* *
22195435 TAGCTTCGA-A-GAGCTATTAACGGG
1 AAGC-TC-ATATGAGCCATTAACGGG
22195459 AAGCTC
1 AAGCTC
22195465 CGGATAGCCA
Statistics
Matches: 76, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
23 5 0.07
24 38 0.50
25 32 0.42
26 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (24 bp):
AAGCTCATATGAGCCATTAACGGG
Found at i:22195552 original size:26 final size:25
Alignment explanation
Indices: 22195505--22195562 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
22195495 ATCCATATCG
* *
22195505 GGAAGCTCCAGAGAGCAATTAATTA
1 GGAAGCTCCAAAGAGCAATTAATCA
** *
22195530 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTC-CAAAGAGCAATTAATCA
22195556 GGAAGCT
1 GGAAGCT
22195563 AAAGAAGAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (25 bp):
GGAAGCTCCAAAGAGCAATTAATCA
Found at i:22195595 original size:25 final size:25
Alignment explanation
Indices: 22195567--22195615 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
22195557 GAAGCTAAAG
* *
22195567 AAGAGCCATATAATGGAAAGCTCGC
1 AAGAACCATATAAAGGAAAGCTCGC
* *
22195592 AAGAACTATATAAAGGGAAGCTCG
1 AAGAACCATATAAAGGAAAGCTCG
22195616 AGATGGCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (25 bp):
AAGAACCATATAAAGGAAAGCTCGC
Found at i:22202902 original size:13 final size:14
Alignment explanation
Indices: 22202869--22202902 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
22202859 ATCTTATATA
22202869 TTTTTTTGTTTTCT
1 TTTTTTTGTTTTCT
*
22202883 TTGTTTTG-TTTCT
1 TTTTTTTGTTTTCT
22202896 TTTTTTT
1 TTTTTTT
22202903 TTGTGTTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (14 bp):
TTTTTTTGTTTTCT
Found at i:22204327 original size:12 final size:13
Alignment explanation
Indices: 22204304--22204332 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22204294 ATCTAAAAAA
22204304 AGAAGTGAAATGT
1 AGAAGTGAAATGT
22204317 AGAAG-GAAATGT
1 AGAAGTGAAATGT
22204329 AGAA
1 AGAA
22204333 ACCTATAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (13 bp):
AGAAGTGAAATGT
Found at i:22218926 original size:23 final size:23
Alignment explanation
Indices: 22218852--22218926 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
22218842 TTGAGAACAT
* ** *
22218852 TAAACAAACATATTCACAAATGT
1 TAAACAAACATGTTTGCAAATGC
* ** *
22218875 TAAAAAGAACATGTTTGTGAATAC
1 TAAACA-AACATGTTTGCAAATGC
*
22218899 CAAACAAACATGTTTGCAAATGC
1 TAAACAAACATGTTTGCAAATGC
22218922 TAAAC
1 TAAAC
22218927 GAATTGATCC
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 23 0.62
24 14 0.38
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (23 bp):
TAAACAAACATGTTTGCAAATGC
Found at i:22221008 original size:48 final size:48
Alignment explanation
Indices: 22220953--22221048 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
22220943 TAGACAAATC
* *
22220953 TACTCAATTCATGGTATTGACATTTTTAGACATCTTTTAGGTAATTTT
1 TACTCAATTCATGGTATTAACATTTTTAGACATCTTTTAGGAAATTTT
*
22221001 TACTCAATTCATGGTATTAACATTTTTCGACATCTTTTAGGAAATTTT
1 TACTCAATTCATGGTATTAACATTTTTAGACATCTTTTAGGAAATTTT
22221049 CTTAAAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (48 bp):
TACTCAATTCATGGTATTAACATTTTTAGACATCTTTTAGGAAATTTT
Found at i:22225633 original size:15 final size:15
Alignment explanation
Indices: 22225613--22225642 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22225603 CTTATCAAAT
*
22225613 GGAACCTTTTACAAC
1 GGAACCTCTTACAAC
22225628 GGAACCTCTTACAAC
1 GGAACCTCTTACAAC
22225643 CTTAGCTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.23
Consensus pattern (15 bp):
GGAACCTCTTACAAC
Found at i:22233384 original size:40 final size:40
Alignment explanation
Indices: 22233340--22233460 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 40
22233330 GAAAGTTTGT
* *
22233340 TCAGGGGTACAAAAGTACAAATAGGGGCACGTATG-GTCAA
1 TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTG-CAA
*
22233380 TCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAA
1 TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTGCAA
* * **
22233420 TCAGGGGTACCGAAGTACAAACAGGGGAAATTATGTGCAA
1 TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTGCAA
22233460 T
1 T
22233461 AATTTAATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 72 0.99
41 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.18
Consensus pattern (40 bp):
TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTGCAA
Found at i:22233385 original size:20 final size:20
Alignment explanation
Indices: 22233362--22233426 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
22233352 AAGTACAAAT
22233362 AGGGGCACGTATGGT-CAATC
1 AGGGGCACGTAT-GTACAATC
* * *
22233382 AGGGGTAC-TGAAGTACAAAC
1 AGGGGCACGT-ATGTACAATC
*
22233402 AGGGGCACGTATGTGCAATC
1 AGGGGCACGTATGTACAATC
22233422 AGGGG
1 AGGGG
22233427 TACCGAAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 3 0.09
20 31 0.89
21 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.37, T:0.17
Consensus pattern (20 bp):
AGGGGCACGTATGTACAATC
Found at i:22233444 original size:20 final size:20
Alignment explanation
Indices: 22233381--22233446 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
22233371 TATGGTCAAT
*
22233381 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
22233401 CAGGGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
22233421 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
22233441 CAGGGG
1 CAGGGG
22233447 AAATTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.03
20 32 0.91
21 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.35, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:22233485 original size:21 final size:22
Alignment explanation
Indices: 22233461--22233501 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22233451 TATGTGCAAT
*
22233461 AATTTAATT-ATTAACTATAGA
1 AATTTAATTAAATAACTATAGA
22233482 AATTTAATTAAATAACTATA
1 AATTTAATTAAATAACTATA
22233502 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
AATTTAATTAAATAACTATAGA
Found at i:22239396 original size:17 final size:17
Alignment explanation
Indices: 22239374--22239408 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22239364 GTTTTTAATG
22239374 TAAACCAAGACCAAAAT
1 TAAACCAAGACCAAAAT
22239391 TAAACCAAGACCAAAAT
1 TAAACCAAGACCAAAAT
22239408 T
1 T
22239409 CTCTATCTTC
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:0.57, C:0.23, G:0.06, T:0.14
Consensus pattern (17 bp):
TAAACCAAGACCAAAAT
Found at i:22243751 original size:42 final size:43
Alignment explanation
Indices: 22243704--22243786 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 43
22243694 AGTTACACGG
22243704 CGTGTGTCCCTGTTTCGAATACTCACACGGCC-GAGACATGAC
1 CGTGTGTCCCTGTTTCGAATACTCACACGGCCTGAGACATGAC
22243746 CGTGTGTCCCTGTTTCGAATACTCACACGGCCTGAGACATG
1 CGTGTGTCCCTGTTTCGAATACTCACACGGCCTGAGACATG
22243787 GGCGTGTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 32 0.80
43 8 0.20
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.25
Consensus pattern (43 bp):
CGTGTGTCCCTGTTTCGAATACTCACACGGCCTGAGACATGAC
Found at i:22248762 original size:42 final size:42
Alignment explanation
Indices: 22248683--22248765 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
22248673 TCAAAAAAAA
*
22248683 TCAAAAATCCCAAAAATATTTTCCATCTTTGTCTTTAATTTT
1 TCAAAAATCCCAAAAATATTTTCCATCATTGTCTTTAATTTT
* * *
22248725 TCAAAAAT-CCAAAAATATTTTTCTTCATTGTTTTTTAATTT
1 TCAAAAATCCCAAAAATATTTTCCATCATTG-TCTTTAATTT
22248766 GTGTTATTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 19 0.53
42 17 0.47
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (42 bp):
TCAAAAATCCCAAAAATATTTTCCATCATTGTCTTTAATTTT
Found at i:22257387 original size:26 final size:26
Alignment explanation
Indices: 22257352--22257411 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
22257342 ATTTTTCTTG
*
22257352 AAATTTTACCGGGGGTAAAATCATCA
1 AAATTTTACCGAGGGTAAAATCATCA
* *
22257378 AATTTTTACCGAGGGTAAAATTATCA
1 AAATTTTACCGAGGGTAAAATCATCA
22257404 AAATTTTA
1 AAATTTTA
22257412 TTGAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (26 bp):
AAATTTTACCGAGGGTAAAATCATCA
Found at i:22265816 original size:21 final size:20
Alignment explanation
Indices: 22265792--22265831 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22265782 AGTATTTTTA
*
22265792 TTTTTATTTTTTTTGTTTTGC
1 TTTTTATGTTTTTT-TTTTGC
*
22265813 TTTTTCTGTTTTTTTTTTG
1 TTTTTATGTTTTTTTTTTG
22265832 TTGAAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (20 bp):
TTTTTATGTTTTTTTTTTGC
Found at i:22266278 original size:7 final size:6
Alignment explanation
Indices: 22266262--22266312 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
22266252 TGTTTCCTGC
* *
22266262 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
22266312 A
1 A
22266313 GGAAAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.56
7 7 0.18
8 5 0.13
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:22268687 original size:31 final size:29
Alignment explanation
Indices: 22268619--22268690 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
22268609 CTCAAGTTAT
* *
22268619 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTCAAATGTAAC
* **
22268648 GTTTTAGTCACTTATGTTATCATGTTGTAAC
1 ATTTTAGTCACTTATGTT-TCA-AATGTAAC
22268679 ATTTTAGTCACT
1 ATTTTAGTCACT
22268691 GAGCCGTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 2 0.06
31 16 0.46
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTCAAATGTAAC
Found at i:22271355 original size:44 final size:44
Alignment explanation
Indices: 22271297--22271385 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
22271287 ATGGCCAAAT
22271297 CTTAAATAGGTGGCACTTTGAAATAAACACAGGTTTTGTTCTTA
1 CTTAAATAGGTGGCACTTTGAAATAAACACAGGTTTTGTTCTTA
* *
22271341 CTTAAATAGGTGGCACTTTGGAATGAACACAGGTTTTGTTCTTA
1 CTTAAATAGGTGGCACTTTGAAATAAACACAGGTTTTGTTCTTA
22271385 C
1 C
22271386 ATATGCATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (44 bp):
CTTAAATAGGTGGCACTTTGAAATAAACACAGGTTTTGTTCTTA
Found at i:22278384 original size:17 final size:17
Alignment explanation
Indices: 22278334--22278384 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
22278324 AAATGATGAA
*
22278334 AAGATAAAAAG-TATAT
1 AAGATAAAAAGAAATAT
*
22278350 CAA-ATAAAAA-AAAGAT
1 -AAGATAAAAAGAAATAT
22278366 AAGATAAAAAGAAATAT
1 AAGATAAAAAGAAATAT
22278383 AA
1 AA
22278385 TTAACCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.07
16 17 0.61
17 9 0.32
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.18
Consensus pattern (17 bp):
AAGATAAAAAGAAATAT
Found at i:22282698 original size:11 final size:11
Alignment explanation
Indices: 22282635--22282696 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
22282625 ATAAATCCTT
22282635 TCTCTAATTTCC
1 TCTC-AATTTCC
22282647 TCTCAATTTCC
1 TCTCAATTTCC
* *
22282658 ACTCAATTTGC
1 TCTCAATTTCC
*
22282669 TCTCAATTTGC
1 TCTCAATTTCC
22282680 TCTCAAATTT-C
1 TCTC-AATTTCC
22282691 TCTCAA
1 TCTCAA
22282697 ATCCCTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
10 2 0.04
11 35 0.76
12 9 0.20
ACGTcount: A:0.23, C:0.31, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:22285351 original size:29 final size:27
Alignment explanation
Indices: 22285292--22285355 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
22285282 TTCTTGATTT
*
22285292 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
22285319 ATATTATAAATTATATTAATTAAATTAAG
1 ATATTATAAA-AATATT-ATTAAATTAAA
22285348 ATATTATA
1 ATATTATA
22285356 TTATTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 17 0.53
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:22286347 original size:3 final size:3
Alignment explanation
Indices: 22286339--22286367 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22286329 ATTAGGTAAG
22286339 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22286368 AGATGAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22287608 original size:8 final size:8
Alignment explanation
Indices: 22287595--22287621 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22287585 TAAAATATTA
22287595 TATGATTT
1 TATGATTT
22287603 TATGATTT
1 TATGATTT
22287611 TATGATTT
1 TATGATTT
22287619 TAT
1 TAT
22287622 TTTAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (8 bp):
TATGATTT
Found at i:22291031 original size:124 final size:130
Alignment explanation
Indices: 22290846--22291144 Score: 403
Period size: 134 Copynumber: 2.3 Consensus size: 130
22290836 CAGGCCATGC
* * * *
22290846 GCCACTGTAGTAAAAGCACGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATTTT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
*
22290911 GCTTAAA-G-C-A-TTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTT-TCAGGA
66 GCTTAAAGGTCAACTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTCTCAGAA
* * * *
22290971 GCTACTGTAGCAAAAGCGCATCCACGTGGAAG-TTTTTTTAGTACTTCTGCTGACAAAGCATCTT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
22291035 GCTTAAAGTGTCTTAAAACGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTC
66 GCTTAAAG-GTC----AAC-TTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTC
22291100 TCAGAA
125 TCAGAA
**
22291106 GCCACTGTAGCAAAAGCGCGTCCACGTGGGTGCTTCTTT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTT
22291145 AAATTAACAA
Statistics
Matches: 148, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
124 36 0.24
125 27 0.18
126 1 0.01
127 1 0.01
132 1 0.01
134 44 0.30
135 33 0.22
136 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (130 bp):
GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCTT
GCTTAAAGGTCAACTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTCTCAGAA
Found at i:22298902 original size:18 final size:18
Alignment explanation
Indices: 22298875--22298911 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22298865 AAGTGACAAG
*
22298875 TGGTAGCTTTAGCTACAC
1 TGGTAACTTTAGCTACAC
22298893 TGGTAACTTTAGCTACAC
1 TGGTAACTTTAGCTACAC
22298911 T
1 T
22298912 TATCTGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (18 bp):
TGGTAACTTTAGCTACAC
Found at i:22299044 original size:45 final size:45
Alignment explanation
Indices: 22298902--22299075 Score: 255
Period size: 46 Copynumber: 3.9 Consensus size: 45
22298892 CTGGTAACTT
*
22298902 TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
1 TAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
22298947 TCAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
1 T-AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
* *
22298993 TTAGCTACACTTATCTGATCAAGT-AAAAAGGTGACAAGTGGTAGTC
1 -TAGCTACACTTATCTGATCAAGTGAAAAA-GTGATAAGTGGTAGCC
* *
22299039 TAGCTACACTTATCTGATTAAG-G-ACAAGTGATAAGTG
1 TAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
22299076 ATCATACGTA
Statistics
Matches: 119, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
43 9 0.08
44 3 0.03
45 27 0.23
46 79 0.66
47 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
TAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
Found at i:22301672 original size:21 final size:22
Alignment explanation
Indices: 22301646--22301700 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
22301636 AAATAGGGTG
22301646 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
22301667 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
22301688 GCAGTGAGATTAG
1 GCGGTGAGATTAG
22301701 AAACAACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:22305913 original size:12 final size:13
Alignment explanation
Indices: 22305890--22305928 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
22305880 TTTGCAACCC
*
22305890 AAGGGGAAGGGGA
1 AAGGGAAAGGGGA
22305903 AA-GGAAAGGGGA
1 AAGGGAAAGGGGA
22305915 AAGGGGAAAGGGGA
1 AA-GGGAAAGGGGA
22305929 GAAGAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 2 0.09
14 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (13 bp):
AAGGGAAAGGGGA
Found at i:22305915 original size:7 final size:7
Alignment explanation
Indices: 22305890--22305928 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
22305880 TTTGCAACCC
22305890 AAGGGG-
1 AAGGGGA
22305896 AAGGGGA
1 AAGGGGA
22305903 AA--GGA
1 AAGGGGA
22305908 AAGGGGA
1 AAGGGGA
22305915 AAGGGGA
1 AAGGGGA
22305922 AAGGGGA
1 AAGGGGA
22305929 GAAGAAGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 6 0.20
7 19 0.63
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (7 bp):
AAGGGGA
Found at i:22305920 original size:19 final size:18
Alignment explanation
Indices: 22305890--22305925 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
22305880 TTTGCAACCC
22305890 AAGGGGAAGGGGAAAGGA
1 AAGGGGAAGGGGAAAGGA
22305908 AAGGGGAAAGGGGAAAGG
1 AAGGGG-AAGGGGAAAGG
22305926 GGAGAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGA
Found at i:22307637 original size:11 final size:11
Alignment explanation
Indices: 22307613--22307678 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 11
22307603 TTTCTCATAT
22307613 TTCCTCTC-AA
1 TTCCTCTCAAA
22307623 TTCCTCTCAAA
1 TTCCTCTCAAA
22307634 TTCCT-TCCAAAA
1 TTCCTCT-C-AAA
*
22307646 TT-CTCTCAAT
1 TTCCTCTCAAA
22307656 TTCCT-TCCAAAA
1 TTCCTCT-C-AAA
22307668 TT-CTCTCAAA
1 TTCCTCTCAAA
22307678 T
1 T
22307679 CTATATTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
10 18 0.39
11 17 0.37
12 11 0.24
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCCTCTCAAA
Found at i:22307651 original size:22 final size:22
Alignment explanation
Indices: 22307621--22307678 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
22307611 ATTTCCTCTC
22307621 AATTCCTCTCAAATTCCTTCCAA
1 AATT-CTCTCAAATTCCTTCCAA
*
22307644 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAAATTCCTTCCAA
22307666 AATTCTCTCAAAT
1 AATTCTCTCAAAT
22307679 CTATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTCTCTCAAATTCCTTCCAA
Found at i:22307706 original size:51 final size:51
Alignment explanation
Indices: 22307648--22307763 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
22307638 TTCCAAAATT
* *
22307648 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
22307699 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
*
22307750 TTCTCAATTTCCTT
1 CTCTCAATTTCCTT
22307764 TTTTAAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:22308918 original size:7 final size:7
Alignment explanation
Indices: 22308908--22308932 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22308898 ATTCGACTGA
22308908 TATTTAG
1 TATTTAG
22308915 TATTTAG
1 TATTTAG
22308922 TATTTAG
1 TATTTAG
22308929 TATT
1 TATT
22308933 ATGTATGTAT
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:22310219 original size:50 final size:50
Alignment explanation
Indices: 22310127--22310554 Score: 433
Period size: 50 Copynumber: 8.4 Consensus size: 50
22310117 TTTATGACAT
* *
22310127 TTAA-TAAAAACCCT-AGCCTAACCTAATTCATTTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
* * * *
22310175 TTAATTAAAAACCCTAACCCTAGCCTAATTTAATTAAAAGCCCTAATCCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
* * *
22310225 TTAAATAAAAACCCTAACCCTAACCTAATTCAGTTAAAAACCTTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
** *
22310275 TTAATTAAAAACCCTAA-CCTAATTTAATTCATTTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
22310324 TTAATTAAAAACCCTAA-CCTAA--T--TT-AATTAAAAACCCTAACACTAACC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAA-AC---CC
* * * *
22310372 TAATTCAATTAAAACCCTAAACCTTAAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCC
1 ---TT-AATTAAAA------ACCCT-AACCCTAACCTAATTCAATTAAAAACCCTAAACCC
* * * * *
22310433 TTAAATAAAAACCCTAACCATAGCCTAATTTAATTAAAAATCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
* * *
22310483 TTAAATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
22310533 TTAATTAAAAACCCTAAACCCT
1 TTAATTAAAAACCCT-AACCCT
22310555 TAAATAAAAA
Statistics
Matches: 322, Mismatches: 34, Indels: 45
0.80 0.08 0.11
Matches are distributed among these distances:
44 14 0.04
45 4 0.01
47 1 0.00
48 6 0.02
49 60 0.19
50 177 0.55
51 12 0.04
52 8 0.02
57 7 0.02
58 6 0.02
59 2 0.01
60 4 0.01
61 2 0.01
62 1 0.00
64 4 0.01
65 14 0.04
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (50 bp):
TTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCC
Found at i:22310354 original size:23 final size:23
Alignment explanation
Indices: 22310240--22310369 Score: 101
Period size: 23 Copynumber: 5.6 Consensus size: 23
22310230 TAAAAACCCT
* *
22310240 AACCCTAACCTAATTCAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
22310263 AACCTTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
22310284 AACCCTAACCTAATTTAATTCATTTAAA
1 AACCCTAACCTAATTT-A---A-TTAAA
*
22310312 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
22310333 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
22310356 AACCCTAACACTAA
1 AACCCTAAC-CTAA
22310370 CCTAATTCAA
Statistics
Matches: 85, Mismatches: 8, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.09
21 23 0.27
22 1 0.01
23 25 0.29
24 9 0.11
25 1 0.01
26 2 0.02
27 1 0.01
28 11 0.13
29 4 0.05
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:22310370 original size:29 final size:28
Alignment explanation
Indices: 22310337--22310391 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
22310327 ATTAAAAACC
*
22310337 CTAACCTAATTTAATTAAAAACCCTAACA
1 CTAACCTAATTCAATT-AAAACCCTAACA
22310366 CTAACCTAATTCAATTAAAACCCTAA
1 CTAACCTAATTCAATTAAAACCCTAA
22310392 ACCTTAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAATTCAATTAAAACCCTAACA
Found at i:22310375 original size:24 final size:23
Alignment explanation
Indices: 22310325--22310376 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
22310315 CCTAAACCCT
**
22310325 TAATTAAAAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTAACC
22310348 TAATTAAAAACCCTAACACTAACC
1 TAATTAAAAACCCTAAC-CTAACC
22310372 TAATT
1 TAATT
22310377 CAATTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
TAATTAAAAACCCTAACCTAACC
Found at i:22310395 original size:23 final size:24
Alignment explanation
Indices: 22310146--22310395 Score: 98
Period size: 21 Copynumber: 10.2 Consensus size: 24
22310136 ACCCTAGCCT
*
22310146 AACCTAATTCATTTAAAAACCCTA
1 AACCTAATTCAATTAAAAACCCTA
*
22310170 AACC--CTT-AATTAAAAACCCTA
1 AACCTAATTCAATTAAAAACCCTA
* *
22310191 ACCCTAGCCTAATTTAATTAAAAGCCCTA
1 A----A-CCTAATTCAATTAAAAACCCTA
* * *
22310220 ATCC--CTT-AAATAAAAACCCTAA
1 AACCTAATTCAATTAAAAACCCT-A
* *
22310242 CCCTAACCTAATTCAGTTAAAAACCTTA
1 ----AACCTAATTCAATTAAAAACCCTA
*
22310270 AACC--CTT-AATTAAAAACCCT-
1 AACCTAATTCAATTAAAAACCCTA
*
22310290 AACCTAATTTAATTCATTTAAAAACCCTA
1 AACC-----TAATTCAATTAAAAACCCTA
*
22310319 AACC--CTT-AATTAAAAACCCT-
1 AACCTAATTCAATTAAAAACCCTA
*
22310339 AACCTAATTTAATTAAAAACCCTAACA
1 AACCTAATTCAATTAAAAACCCT---A
22310366 CTAACCTAATTCAATT-AAAACCCTA
1 --AACCTAATTCAATTAAAAACCCTA
22310391 AACCT
1 AACCT
22310396 TAAACCCTAG
Statistics
Matches: 170, Mismatches: 22, Indels: 69
0.65 0.08 0.26
Matches are distributed among these distances:
20 8 0.05
21 48 0.28
22 11 0.06
23 18 0.11
24 10 0.06
25 2 0.01
26 5 0.03
27 2 0.01
28 25 0.15
29 41 0.24
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (24 bp):
AACCTAATTCAATTAAAAACCCTA
Found at i:22310491 original size:21 final size:20
Alignment explanation
Indices: 22310462--22310574 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 20
22310452 ATAGCCTAAT
* *
22310462 TTAATTAAAAATCCTAAACCC
1 TTAAATAAAAACCCT-AACCC
22310483 TTAAATAAAAACCCTAACCCTAACC
1 TTAAATAAAAACCCTAA--C---CC
22310508 TTATTCAACTAAAAACCCTAAACCC
1 TTA---AA-TAAAAACCCT-AACCC
*
22310533 TTAATTAAAAACCCTAAACCC
1 TTAAATAAAAACCCT-AACCC
22310554 TTAAATAAAAACCCTAACCC
1 TTAAATAAAAACCCTAACCC
22310574 T
1 T
22310575 AGCCTAATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 21
0.76 0.04 0.20
Matches are distributed among these distances:
20 8 0.10
21 43 0.55
22 2 0.03
25 10 0.13
28 3 0.04
29 10 0.13
30 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
TTAAATAAAAACCCTAACCC
Found at i:22310537 original size:71 final size:71
Alignment explanation
Indices: 22310462--22310620 Score: 255
Period size: 71 Copynumber: 2.2 Consensus size: 71
22310452 ATAGCCTAAT
* *
22310462 TTAATTAAAAATCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTTATTCAACTAAAAACCCT
1 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTAATTCAACTAAAAACCCT
22310527 AAACCC
66 AAACCC
* * * *
22310533 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAGCCTAATTTAATTAAAAGCCCT
1 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTAATTCAACTAAAAACCCT
22310598 AAACCC
66 AAACCC
*
22310604 TTAAATAAAAACCCTAA
1 TTAATTAAAAACCCTAA
22310621 CCTAATTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 81 1.00
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (71 bp):
TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAACCTAATTCAACTAAAAACCCT
AAACCC
Found at i:22310600 original size:208 final size:207
Alignment explanation
Indices: 22310183--22310608 Score: 621
Period size: 208 Copynumber: 2.1 Consensus size: 207
22310173 CCTTAATTAA
* *
22310183 AAACCC-T-AACCCTAGCCTAATTTAATTAAAAGCCCTAATCCCTTAAATAAAAACCCTAACCCT
1 AAACCCTTAAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCAT
* * * **
22310246 AACCTAATTCAGTTAAAAACCTTAAACCCTTAATTAAAAACCCTAACCTAATTTAATTCATTTAA
66 AACCTAATTCAATTAAAAACCTTAAACCCTTAAATAAAAACCCTAACCTAACTTAATTCAACTAA
* *
22310311 AAACCCTAAACCCTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACACTAACCTAAT
131 AAACCCTAAACCCTTAATTAAAAACCCTAACC--ACTTAAATAAAAACCCTAACACTAACCTAAT
22310376 TCAATTAAAACCCT
194 TCAATTAAAACCCT
22310390 AAA-CCTTAAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCAT
1 AAACCCTTAAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCAT
* *
22310454 AGCCTAATTTAATTAAAAATCC-TAAACCCTTAAATAAAAACCCTAACCCTAACCTT-ATTCAAC
66 AACCTAATTCAATTAAAAA-CCTTAAACCCTTAAATAAAAACCCTAA-CCTAA-CTTAATTCAAC
* *
22310517 TAAAAACCCTAAACCCTTAATTAAAAACCCTAAACC-CTTAAATAAAAACCCTAACCCTAGCCTA
128 TAAAAACCCTAAACCCTTAATTAAAAACCCT-AACCACTTAAATAAAAACCCTAACACTAACCTA
*
22310581 ATTTAATTAAAAGCCCT
192 ATTCAATTAAAA-CCCT
22310598 AAACCCTTAAA
1 AAACCCTTAAA
22310609 TAAAAACCCT
Statistics
Matches: 197, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
206 2 0.01
207 39 0.20
208 100 0.51
209 50 0.25
210 6 0.03
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (207 bp):
AAACCCTTAAACCCTAGCCTAATTTAATTAAAAGCCCTAAACCCTTAAATAAAAACCCTAACCAT
AACCTAATTCAATTAAAAACCTTAAACCCTTAAATAAAAACCCTAACCTAACTTAATTCAACTAA
AAACCCTAAACCCTTAATTAAAAACCCTAACCACTTAAATAAAAACCCTAACACTAACCTAATTC
AATTAAAACCCT
Found at i:22310619 original size:44 final size:46
Alignment explanation
Indices: 22310533--22310632 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 46
22310523 CCCTAAACCC
*
22310533 TTAATTAAAAACCCTAAACCCTTAAATAAAAACCCTAACCCTAGCCTAAT
1 TTAATTAAAAACCCTAAACCCTTAAAT-AAAA--C-AACCCTAACCTAAT
*
22310583 TTAATTAAAAGCCCTAAACCCTTAAAT-AAA-AACCCTAACCTAAT
1 TTAATTAAAAACCCTAAACCCTTAAATAAAACAACCCTAACCTAAT
22310627 TTAATT
1 TTAATT
22310633 CATTTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
44 19 0.40
48 3 0.06
50 26 0.54
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (46 bp):
TTAATTAAAAACCCTAAACCCTTAAATAAAACAACCCTAACCTAAT
Found at i:22310862 original size:30 final size:30
Alignment explanation
Indices: 22310820--22310912 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
22310810 ATATATTTAT
* *
22310820 TTTTTTAA-TTTAAAATATTTTTTACATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
22310849 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
*
22310879 TTTTTTAAATTTTTTAAA-A-TTTTAAAATA-
1 TTTTTT-AA-TTTTAAAATATTTTTAAAATAC
22310908 TTTTT
1 TTTTT
22310913 AAAATATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
29 13 0.22
30 35 0.60
31 3 0.05
32 7 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:22310871 original size:11 final size:11
Alignment explanation
Indices: 22310857--22310960 Score: 114
Period size: 11 Copynumber: 9.9 Consensus size: 11
22310847 ACTTTTTTAA
22310857 TTTTAAAATAT
1 TTTTAAAATAT
22310868 TTTTAAAATACT
1 TTTTAAAATA-T
*
22310880 TTTTTAAAT-T
1 TTTTAAAATAT
22310890 TTTT-AAA-A-
1 TTTTAAAATAT
22310898 TTTTAAAATAT
1 TTTTAAAATAT
22310909 TTTTAAAATAT
1 TTTTAAAATAT
22310920 TTTTAAAATACT
1 TTTTAAAATA-T
**
22310932 TTTTTTAAT-T
1 TTTTAAAATAT
22310942 TTTT-AAA-AT
1 TTTTAAAATAT
22310951 TTTTAAAATA
1 TTTTAAAATA
22310961 AAAATGGGTC
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
8 4 0.05
9 13 0.16
10 14 0.17
11 32 0.40
12 17 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22310913 original size:52 final size:53
Alignment explanation
Indices: 22310857--22310960 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 53
22310847 ACTTTTTTAA
22310857 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAA-TTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATAT
*
22310909 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATA
22310961 AAAATGGGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 40 0.80
53 10 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATAT
Found at i:22310923 original size:30 final size:30
Alignment explanation
Indices: 22310868--22310928 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
22310858 TTTAAAATAT
*
22310868 TTTTAAAATACTTTTTTAAATTTTTTAAAA
1 TTTTAAAATACTTTTTAAAATTTTTTAAAA
22310898 TTTTAAAATA-TTTTTAAAATATTTTTAAAA
1 TTTTAAAATACTTTTTAAAAT-TTTTTAAAA
22310928 T
1 T
22310929 ACTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATTTTTTAAAA
Found at i:22310958 original size:9 final size:9
Alignment explanation
Indices: 22310880--22310959 Score: 61
Period size: 9 Copynumber: 8.1 Consensus size: 9
22310870 TTAAAATACT
*
22310880 TTTTTAAAT
1 TTTTTAAAA
22310889 TTTTTAAAA
1 TTTTTAAAA
*
22310898 TTTTAAAATA
1 TTTTTAAA-A
22310908 TTTTTAAAATA
1 TTTTT-AAA-A
22310919 TTTTTAAAATA
1 TTTTT-AAA-A
* *
22310930 CTTTTTTTAAT
1 --TTTTTAAAA
22310941 TTTTTAAAA
1 TTTTTAAAA
22310950 TTTTTAAAA
1 TTTTTAAAA
22310959 T
1 T
22310960 AAAAATGGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 32 0.53
10 5 0.08
11 16 0.27
12 2 0.03
13 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:22311251 original size:17 final size:18
Alignment explanation
Indices: 22311210--22311251 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
22311200 TTTACTAACC
* *
22311210 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
22311228 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
22311245 ATTAATA
1 ATTAATA
22311252 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:22316943 original size:3 final size:3
Alignment explanation
Indices: 22316935--22317070 Score: 272
Period size: 3 Copynumber: 45.3 Consensus size: 3
22316925 CATAGATATG
22316935 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22316983 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22317031 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
22317071 ACCTGAGAAG
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 133 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22318347 original size:30 final size:29
Alignment explanation
Indices: 22318307--22318369 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
22318297 TAAAAATATA
22318307 TAATAATAAATTTAAAAT-TTATATTAAAAT
1 TAATAATAAA--TAAAATATTATATTAAAAT
* *
22318337 TAATATTAAATAAAATAATTATATTAATAT
1 TAATAATAAATAAAAT-ATTATATTAAAAT
22318367 TAA
1 TAA
22318370 AAAAAGCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
30 23 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATAATAAATAAAATATTATATTAAAAT
Found at i:22318535 original size:29 final size:29
Alignment explanation
Indices: 22318503--22318580 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
22318493 ATATTAATAT
*
22318503 AAAATTTAAATTTATTATTATACT-TTTTG
1 AAAATTTATATTTATTATTATA-TATTTTG
* *
22318532 AAAATGTT-TATTTATTTTTATATATTTTT
1 AAAAT-TTATATTTATTATTATATATTTTG
*
22318561 AAATTTTATATATTATTATT
1 AAAATTTATAT-TTATTATT
22318581 TATTGTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
28 3 0.08
29 28 0.70
30 9 0.22
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (29 bp):
AAAATTTATATTTATTATTATATATTTTG
Found at i:22318579 original size:27 final size:27
Alignment explanation
Indices: 22318515--22318599 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
22318505 AATTTAAATT
* *
22318515 TATTATTATACT-TTTTGAAAATGTTTATT
1 TATTATTATA-TATTTT-TAAAT-TTTATA
*
22318544 TATTTTTATATATTTTTAAATTTTATA
1 TATTATTATATATTTTTAAATTTTATA
* *
22318571 TATTATTATTTATTGTTT-ATTTTTATA
1 TATTATTATATATT-TTTAAATTTTATA
22318598 TA
1 TA
22318600 ATTTTTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 27 0.56
28 8 0.17
29 13 0.27
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTATTATATATTTTTAAATTTTATA
Found at i:22318580 original size:37 final size:36
Alignment explanation
Indices: 22318539--22318625 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 36
22318529 TTGAAAATGT
* *
22318539 TTATTTATTTTTATATATTT-T-TAAATTTTATATATTA
1 TTATTTATTTTTAT-T-TTTATATAATTTTTAAAT-TTA
22318576 TTATTTATTGTTTATTTTTATATAATTTTTAAATTTA
1 TTATTTATT-TTTATTTTTATATAATTTTTAAATTTA
22318613 TTATTATATTTTT
1 TTATT-TATTTTT
22318626 TAGAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
36 3 0.07
37 22 0.50
38 19 0.43
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (36 bp):
TTATTTATTTTTATTTTTATATAATTTTTAAATTTA
Found at i:22318594 original size:44 final size:42
Alignment explanation
Indices: 22318542--22318623 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 42
22318532 AAAATGTTTA
22318542 TTTATTTTTATAT-ATTTTTAAATTTTATATATTATTATTTATTG
1 TTTATTTTTATATAATTTTTAAA-TTTAT-TATTA-TATTTATTG
22318586 TTTATTTTTATATAATTTTTAAATTTATTATTATATTT
1 TTTATTTTTATATAATTTTTAAATTTATTATTATATTT
22318624 TTTAGAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
42 5 0.14
43 5 0.14
44 18 0.49
45 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (42 bp):
TTTATTTTTATATAATTTTTAAATTTATTATTATATTTATTG
Found at i:22318637 original size:45 final size:44
Alignment explanation
Indices: 22318544--22318648 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
22318534 AATGTTTATT
**
22318544 TATTTTTATATATTTTTAAATTTTATATATTATTATTTATTGTT
1 TATTTTTATATATTTTTAAATTTTATATATTATTATTTATTGAA
*
22318588 TATTTTTATATAATTTTTAAA-TTTAT-TATTA-TATTTTTTAGAA
1 TATTTTTATAT-ATTTTTAAATTTTATATATTATTATTTATT-GAA
* * *
22318631 AATATTTATCTATTTTTA
1 TATTTTTATATATTTTTA
22318649 TATGTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 14 0.26
43 14 0.26
44 16 0.30
45 9 0.17
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (44 bp):
TATTTTTATATATTTTTAAATTTTATATATTATTATTTATTGAA
Found at i:22319829 original size:53 final size:54
Alignment explanation
Indices: 22319753--22319858 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 54
22319743 TCTTTTTCAA
*
22319753 TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATTGTTTAA-TTATTTTTTG
1 TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATCGTTTAACTTATTTTTTG
* * * * *
22319806 TTTGTAATATACAATGTTTTCGGTTTTGAACAAAATCGTTTAACTTTTTTTTT
1 TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATCGTTTAACTTATTTTTT
22319859 AGTATTGAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 38 0.83
54 8 0.17
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.49
Consensus pattern (54 bp):
TTTGTAAGACACAATGTTGTCGGTATTGAACAAAATCGTTTAACTTATTTTTTG
Found at i:22327282 original size:19 final size:18
Alignment explanation
Indices: 22327258--22327298 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
22327248 TGGTGACCAC
22327258 ACATCTTTGCTTCCCTACA
1 ACATCTTTGCTTCCCTA-A
22327277 ACATCTTTGCTTCCCTAA
1 ACATCTTTGCTTCCCTAA
22327295 ACAT
1 ACAT
22327299 TTCTGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.24, C:0.34, G:0.05, T:0.37
Consensus pattern (18 bp):
ACATCTTTGCTTCCCTAA
Found at i:22330938 original size:21 final size:19
Alignment explanation
Indices: 22330914--22330952 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
22330904 TAGACTATCG
*
22330914 AGAAAATATAAGTTACAACAA
1 AGAAAACAT-AGTTA-AACAA
22330935 AGAAAACATAGTTAAACA
1 AGAAAACATAGTTAAACA
22330953 GAGATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (19 bp):
AGAAAACATAGTTAAACAA
Found at i:22332424 original size:19 final size:19
Alignment explanation
Indices: 22332402--22332460 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
22332392 ACATTTAATT
*
22332402 AATTTTTTTAAATTTTAAA
1 AATTATTTTAAATTTTAAA
**
22332421 AATTATTTTAAAAATTAAA
1 AATTATTTTAAATTTTAAA
*
22332440 AA-TAATTTAAATTATTAAA
1 AATTATTTTAAATT-TTAAA
22332459 AA
1 AA
22332461 GTATAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATTTTAAATTTTAAA
Found at i:22332430 original size:12 final size:12
Alignment explanation
Indices: 22332413--22332437 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22332403 ATTTTTTTAA
22332413 ATTTTAAAAATT
1 ATTTTAAAAATT
22332425 ATTTTAAAAATT
1 ATTTTAAAAATT
22332437 A
1 A
22332438 AAAATAATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:22332685 original size:11 final size:11
Alignment explanation
Indices: 22332669--22332694 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22332659 TTATTTTTAA
22332669 TTTTAAAATAC
1 TTTTAAAATAC
22332680 TTTTAAAATAC
1 TTTTAAAATAC
22332691 TTTT
1 TTTT
22332695 TTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:22332719 original size:30 final size:31
Alignment explanation
Indices: 22332662--22332726 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
22332652 TATTTTTTTA
22332662 TTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAATTTTAAAATACTTTTAAAATACTT
* *
22332693 TTTTTAATTTTAAAAT-TTTTTTAAATACTT
1 TTTTTAATTTTAAAATACTTTTAAAATACTT
22332723 TTTT
1 TTTT
22332727 ACTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTAATTTTAAAATACTTTTAAAATACTT
Found at i:22332736 original size:41 final size:42
Alignment explanation
Indices: 22332669--22332793 Score: 171
Period size: 41 Copynumber: 3.0 Consensus size: 42
22332659 TTATTTTTAA
** ** *
22332669 TTTTAAAATACTTTTAAAATACTTTTTTTAATTTTAAAATTT
1 TTTTAAAATACTTTTTTAATTTTTTTTTTAATTTTAAAATAT
*
22332711 TTTT-AAATACTTTTTTACTTTTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTTTTAATTTTAAAATAT
*
22332752 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAATTTTTTTTTTAA-TTTTAAAATA
22332794 AATTTTTGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
41 35 0.48
42 28 0.38
43 10 0.14
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (42 bp):
TTTTAAAATACTTTTTTAATTTTTTTTTTAATTTTAAAATAT
Done.