Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 9 of 410
Found at i:2376127 original size:10 final size:10
Alignment explanation
Indices: 2376112--2376155 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
2376102 GTTCTAATAT
2376112 TTTTTTTTAC
1 TTTTTTTTAC
2376122 TTTTTTTTAC
1 TTTTTTTTAC
2376132 -TTTTTTTAC
1 TTTTTTTTAC
2376141 --TTTTTTAC
1 TTTTTTTTAC
2376149 TTTTTTT
1 TTTTTTT
2376156 CTTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
9 9 0.28
10 15 0.47
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:2376135 original size:7 final size:8
Alignment explanation
Indices: 2376114--2376154 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
2376104 TCTAATATTT
2376114 TTTTTTAC
1 TTTTTTAC
2376122 TTTTTTTTAC
1 --TTTTTTAC
2376132 TTTTTTTAC
1 -TTTTTTAC
2376141 TTTTTTAC
1 TTTTTTAC
2376149 TTTTTT
1 TTTTTT
2376155 TCTTATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 14 0.45
9 9 0.29
10 8 0.26
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAC
Found at i:2376295 original size:22 final size:22
Alignment explanation
Indices: 2376270--2376326 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
2376260 GTAAAATATA
2376270 TTTAAAATGTTTTA-TAATATTT
1 TTTAAAAT-TTTTATTAATATTT
* *
2376292 TTTAAAATTTTAATTATTATTT
1 TTTAAAATTTTTATTAATATTT
*
2376314 TTAAAAATATTTT
1 TTTAAAAT-TTTT
2376327 TCAACTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 4 0.14
22 22 0.76
23 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTAAAATTTTTATTAATATTT
Found at i:2376476 original size:13 final size:13
Alignment explanation
Indices: 2376440--2376478 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2376430 TTTAATATTT
*
2376440 TATTAATTTTACA
1 TATTAATTTTAAA
2376453 TA-TAATTTTAAA
1 TATTAATTTTAAA
*
2376465 TATTATTTTTAAA
1 TATTAATTTTAAA
2376478 T
1 T
2376479 TCTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTAATTTTAAA
Found at i:2376540 original size:16 final size:16
Alignment explanation
Indices: 2376519--2376551 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2376509 AATTTTAAAG
2376519 TTTAAATTAAAATATA
1 TTTAAATTAAAATATA
2376535 TTTAAATTAAAATATA
1 TTTAAATTAAAATATA
2376551 T
1 T
2376552 ATATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAATTAAAATATA
Found at i:2376640 original size:21 final size:21
Alignment explanation
Indices: 2376605--2376657 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2376595 TAATAAATTT
2376605 AAATA-TAAATA-TATTAAAA
1 AAATATTAAATATTATTAAAA
** *
2376624 AAATATTAAATATTATTTTAT
1 AAATATTAAATATTATTAAAA
2376645 AAATATTAAATAT
1 AAATATTAAATAT
2376658 ACTTTTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 18 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATTAAATATTATTAAAA
Found at i:2376840 original size:27 final size:26
Alignment explanation
Indices: 2376810--2376875 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
2376800 TTTTAAATAC
* *
2376810 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
2376837 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
2376863 AATATTTTAAATA
1 AAT-TTTTAAATA
2376876 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:2376859 original size:26 final size:27
Alignment explanation
Indices: 2376810--2376872 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
2376800 TTTTAAATAC
* * *
2376810 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
2376837 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
2376863 AATATTTTAA
1 AATTTTTTAA
2376873 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:2378439 original size:30 final size:30
Alignment explanation
Indices: 2378403--2378525 Score: 183
Period size: 30 Copynumber: 4.1 Consensus size: 30
2378393 GTCCCAGAGT
*
2378403 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
2378433 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
2378463 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
** * *
2378493 AGTTCATATCACTGGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
2378523 AGT
1 AGT
2378526 CCATTTGACC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 86 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:2381996 original size:13 final size:13
Alignment explanation
Indices: 2381978--2382048 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 13
2381968 ACTTGAAATG
2381978 TATTTTTTAAAAA
1 TATTTTTTAAAAA
* *
2381991 TATTTTAT-AATA
1 TATTTTTTAAAAA
*
2382003 TATTTTTTATAAA
1 TATTTTTTAAAAA
2382016 TA----TTAAAAA
1 TATTTTTTAAAAA
* * *
2382025 TATATTTTCAAAT
1 TATTTTTTAAAAA
2382038 TATTTTTTAAA
1 TATTTTTTAAA
2382049 TATTAAATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
9 8 0.19
12 10 0.23
13 25 0.58
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:2382006 original size:25 final size:24
Alignment explanation
Indices: 2381973--2382032 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
2381963 GAAAAACTTG
* *
2381973 AAATGTATTTTTTAAAAATATTTTA
1 AAATATATTTTTTAAAAATA-TTAA
* *
2381998 TAATATATTTTTTATAAATATTAA
1 AAATATATTTTTTAAAAATATTAA
2382022 AAATATATTTT
1 AAATATATTTT
2382033 CAAATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
AAATATATTTTTTAAAAATATTAA
Found at i:2382012 original size:14 final size:13
Alignment explanation
Indices: 2381978--2382019 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
2381968 ACTTGAAATG
2381978 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
2381990 -ATATTTTATAATA
1 TATTTTTTATAA-A
2382003 TATTTTTTATAAA
1 TATTTTTTATAAA
2382016 TATT
1 TATT
2382020 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:2382054 original size:33 final size:33
Alignment explanation
Indices: 2381984--2382072 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 33
2381974 AATGTATTTT
* *
2381984 TTAAAAATATTTTATAATA-TATTTTTTATAAATA
1 TTAAATATATTTT-CAATATTA-TTTTTATAAATA
2382018 TTAAAAATATATTTTCAA-ATTATTTTT-TAAATA
1 TT--AAATATATTTTCAATATTATTTTTATAAATA
*
2382051 TTAAATATATTTTTAATATTAT
1 TTAAATATATTTTCAATATTAT
2382073 AAAATATTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 13 0.27
32 5 0.10
33 8 0.17
34 8 0.17
35 4 0.08
36 10 0.21
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (33 bp):
TTAAATATATTTTCAATATTATTTTTATAAATA
Found at i:2382080 original size:10 final size:9
Alignment explanation
Indices: 2382046--2382129 Score: 62
Period size: 10 Copynumber: 8.9 Consensus size: 9
2382036 ATTATTTTTT
2382046 AAATA-TTA
1 AAATATTTA
*
2382054 AATATATTTT
1 AA-ATATTTA
*
2382064 TAATATTATA
1 AAATATT-TA
2382074 AAATATTTA
1 AAATATTTA
2382083 AAATGATTTA
1 AAAT-ATTTA
*
2382093 AAATATTTTT
1 AAATA-TTTA
* *
2382103 TAATATTTT
1 AAATATTTA
*
2382112 AAATGATTTT
1 AAAT-ATTTA
2382122 AAATATTT
1 AAATATTT
2382130 TTTAAATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
8 2 0.03
9 26 0.41
10 35 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
AAATATTTA
Found at i:2382126 original size:19 final size:18
Alignment explanation
Indices: 2382042--2382130 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 18
2382032 TCAAATTATT
*
2382042 TTTTAAATA-TTAAATATA
1 TTTTAAATATTTTAA-ATA
* *
2382060 TTTTTAATATTATAAAATA
1 TTTTAAATATT-TTAAATA
* *
2382079 TTTAAAATGATTTAAAATA
1 TTTTAAAT-ATTTTAAATA
*
2382098 TTTTTTAATATTTTAAATGA
1 -TTTTAAATATTTTAAAT-A
2382118 TTTTAAATATTTT
1 TTTTAAATATTTT
2382131 TTAAATTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.14
19 37 0.63
20 14 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTAAATATTTTAAATA
Found at i:2382131 original size:10 final size:10
Alignment explanation
Indices: 2382026--2382136 Score: 56
Period size: 10 Copynumber: 11.2 Consensus size: 10
2382016 TATTAAAAAT
*
2382026 ATATTTTCAA
1 ATATTTTTAA
2382036 ATTATTTTTTAA
1 A-TA-TTTTTAA
2382048 ATA---TTAA
1 ATATTTTTAA
*
2382055 ATATATTTTTA
1 ATAT-TTTTAA
* *
2382066 ATATTATAAA
1 ATATTTTTAA
*
2382076 ATA-TTTAAA
1 ATATTTTTAA
*
2382085 ATGA-TTTAAA
1 AT-ATTTTTAA
*
2382095 ATATTTTTTA
1 ATATTTTTAA
2382105 ATA-TTTTAA
1 ATATTTTTAA
2382114 ATGA-TTTTAA
1 AT-ATTTTTAA
2382124 ATATTTTTTAA
1 ATA-TTTTTAA
2382135 AT
1 AT
2382137 TTTACATAGA
Statistics
Matches: 81, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
7 7 0.09
9 16 0.20
10 32 0.40
11 19 0.23
12 7 0.09
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:2382158 original size:29 final size:29
Alignment explanation
Indices: 2382028--2382140 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
2382018 TTAAAAATAT
* *
2382028 ATTTTCAAATTATTTTTTAA-ATATTAAATAT
1 ATTTT-AAA-TATTTTTTAATATTTTAAAT-G
* * ** *
2382059 ATTTTTAATATTATAAAATATTTAAAATG
1 ATTTTAAATATTTTTTAATATTTTAAATG
*
2382088 ATTTAAAATATTTTTTAATATTTTAAATG
1 ATTTTAAATATTTTTTAATATTTTAAATG
2382117 ATTTTAAATATTTTTTAA-ATTTTA
1 ATTTTAAATATTTTTTAATATTTTA
2382141 CATAGAATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 6 0.09
29 47 0.70
30 9 0.13
31 5 0.07
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (29 bp):
ATTTTAAATATTTTTTAATATTTTAAATG
Found at i:2382380 original size:22 final size:23
Alignment explanation
Indices: 2382333--2382380 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
2382323 AAAATATGGT
*
2382333 TAATATTTAAAAAATAATATTTA
1 TAATATTTAAAAAATAATATTGA
*
2382356 TAAT-TTTCAAAAATTAAT-TTGA
1 TAATATTT-AAAAAATAATATTGA
2382378 TAA
1 TAA
2382381 ATATACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATATTTAAAAAATAATATTGA
Found at i:2382747 original size:18 final size:18
Alignment explanation
Indices: 2382720--2382763 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
2382710 GAAATGTATA
2382720 ATAAAAAAAATAAAATAG
1 ATAAAAAAAATAAAATAG
*
2382738 ATAAACAAAATAAAATAAG
1 ATAAAAAAAATAAAAT-AG
2382757 A-AAAAAA
1 ATAAAAAA
2382764 TTAGACTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (18 bp):
ATAAAAAAAATAAAATAG
Found at i:2382876 original size:37 final size:36
Alignment explanation
Indices: 2382806--2382876 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
2382796 AATAATTATT
*
2382806 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
2382842 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
2382877 TATATAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:2382943 original size:22 final size:21
Alignment explanation
Indices: 2382898--2382938 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2382888 AAAAAATATT
2382898 TTTAAAAATAATAATTAAAAA
1 TTTAAAAATAATAATTAAAAA
2382919 TTTAAAAA-AAT-ATTATAAAA
1 TTTAAAAATAATAATTA-AAAA
2382939 CATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAATAATAATTAAAAA
Found at i:2382945 original size:23 final size:22
Alignment explanation
Indices: 2382897--2382970 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
2382887 TAAAAAATAT
*
2382897 TTTTAAAAATAATAAT-TAAAAA
1 TTTTAAAAA-AATATTATAAAAA
2382919 -TTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAA-A
* * * **
2382941 TTTTAAATATATATTACAAATT
1 TTTTAAAAAAATATTATAAAAA
2382963 TTTTAAAA
1 TTTTAAAA
2382971 TTAATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.12
21 13 0.31
22 8 0.19
23 16 0.38
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAATATTATAAAAA
Found at i:2383013 original size:36 final size:37
Alignment explanation
Indices: 2382973--2383046 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
2382963 TTTTAAAATT
*
2382973 AATAATAT-AAA-TTAAATAAGTAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
2383009 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
2383046 A
1 A
2383047 GAGATAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:2383018 original size:18 final size:18
Alignment explanation
Indices: 2382968--2383019 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
2382958 AAATTTTTTA
*
2382968 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
2382986 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
2383004 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
2383020 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:2384808 original size:13 final size:13
Alignment explanation
Indices: 2384790--2384817 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2384780 CACATCTAAG
2384790 TTATCAAATTGAA
1 TTATCAAATTGAA
2384803 TTATCAAATTGAA
1 TTATCAAATTGAA
2384816 TT
1 TT
2384818 GTGACCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTATCAAATTGAA
Found at i:2400867 original size:24 final size:25
Alignment explanation
Indices: 2400839--2400893 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
2400829 GGTGTGTTTC
2400839 ATTATATATTGAAAAT-TTTTAATA
1 ATTATATATTGAAAATGTTTTAATA
* * * *
2400863 TTTAT-TTTTGTAAATGTTTTTATA
1 ATTATATATTGAAAATGTTTTAATA
2400887 ATTATAT
1 ATTATAT
2400894 TAACTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 8 0.33
24 15 0.62
25 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (25 bp):
ATTATATATTGAAAATGTTTTAATA
Found at i:2400995 original size:14 final size:14
Alignment explanation
Indices: 2400978--2401008 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2400968 ATATTAAATT
*
2400978 AATTTTATTTTTAA
1 AATTTTATTTATAA
2400992 AATTTTATTTATAA
1 AATTTTATTTATAA
2401006 AAT
1 AAT
2401009 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTTATTTATAA
Found at i:2412804 original size:11 final size:11
Alignment explanation
Indices: 2412790--2412814 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2412780 TGCTACTAAC
2412790 GAAAATCTAGT
1 GAAAATCTAGT
2412801 GAAAATCTAGT
1 GAAAATCTAGT
2412812 GAA
1 GAA
2412815 TCTCATGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (11 bp):
GAAAATCTAGT
Found at i:2413659 original size:21 final size:20
Alignment explanation
Indices: 2413635--2413686 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
2413625 TTATGCCACA
2413635 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
2413656 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
*
2413676 TTAGTATTTTA
1 TCAGTATTTTA
2413687 ATTTGGACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:2415936 original size:16 final size:13
Alignment explanation
Indices: 2415904--2415932 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2415894 TTTTAGTCAC
2415904 TTACGTTATTTTT
1 TTACGTTATTTTT
2415917 TTACGTTATTTTT
1 TTACGTTATTTTT
2415930 TTA
1 TTA
2415933 TTACAAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (13 bp):
TTACGTTATTTTT
Found at i:2423449 original size:21 final size:21
Alignment explanation
Indices: 2423402--2423455 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
2423392 ATTTTTAGGA
2423402 GAAAAAAGTTGAAAACCTGAAG
1 GAAAAAAGTTGAAAA-CTGAAG
*
2423424 G-AAAAAGTTGAAAA-TTAAGG
1 GAAAAAAGTTGAAAACTGAA-G
*
2423444 GAAAAAATTTGA
1 GAAAAAAGTTGA
2423456 TTTGTCATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 22 0.79
22 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.22, T:0.19
Consensus pattern (21 bp):
GAAAAAAGTTGAAAACTGAAG
Found at i:2424687 original size:23 final size:24
Alignment explanation
Indices: 2424649--2424694 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2424639 TAGGAAAAGC
*
2424649 TCTTGATTTCTGGGTTTTTTATTG
1 TCTTGATTTCTGGGTTTTGTATTG
*
2424673 TCTTGA-TTCTTGGTTTTGTATT
1 TCTTGATTTCTGGGTTTTGTATT
2424695 ATTTTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.63
Consensus pattern (24 bp):
TCTTGATTTCTGGGTTTTGTATTG
Found at i:2431395 original size:28 final size:29
Alignment explanation
Indices: 2431341--2431396 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
2431331 TAAATTTATT
* *
2431341 TCTTTATTTATAAAAATTTATCAATTTAA
1 TCTTAATTTATAAAAATTAATCAATTTAA
*
2431370 TCTTAATTTTTAAAAATTAAT-AATTTA
1 TCTTAATTTATAAAAATTAATCAATTTA
2431397 TAGCTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (29 bp):
TCTTAATTTATAAAAATTAATCAATTTAA
Found at i:2432463 original size:21 final size:20
Alignment explanation
Indices: 2432439--2432477 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2432429 TGTTAGTTTT
2432439 TAATATTACATGTTTTACATG
1 TAATATTACAT-TTTTACATG
* *
2432460 TAATTTTATATTTTTACA
1 TAATATTACATTTTTACA
2432478 ATTTATTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
TAATATTACATTTTTACATG
Found at i:2440129 original size:17 final size:17
Alignment explanation
Indices: 2440104--2440138 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2440094 CACATAAAAC
*
2440104 ACGAGTTGCAAATTCAA
1 ACGACTTGCAAATTCAA
2440121 ACGACTTGCAAATTCAA
1 ACGACTTGCAAATTCAA
2440138 A
1 A
2440139 TGACCCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (17 bp):
ACGACTTGCAAATTCAA
Found at i:2444786 original size:12 final size:12
Alignment explanation
Indices: 2444771--2444819 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
2444761 TAATTTTTTT
2444771 ATAATTAAAATA
1 ATAATTAAAATA
2444783 ATAA-TAAAATA
1 ATAATTAAAATA
*
2444794 ACTAAATAAAAT-
1 A-TAATTAAAATA
*
2444806 ATTATTAAAATA
1 ATAATTAAAATA
2444818 AT
1 AT
2444820 TAAATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 16 0.50
12 10 0.31
13 6 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATTAAAATA
Found at i:2444803 original size:24 final size:24
Alignment explanation
Indices: 2444776--2444826 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2444766 TTTTTATAAT
2444776 TAAAATAATAATAAAATAACTAAA
1 TAAAATAATAATAAAATAACTAAA
* * *
2444800 TAAAATATTATTAAAATAATTAAA
1 TAAAATAATAATAAAATAACTAAA
2444824 TAA
1 TAA
2444827 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAATAATAATAAAATAACTAAA
Found at i:2446111 original size:24 final size:24
Alignment explanation
Indices: 2446065--2446111 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
2446055 GGGACAAAAA
*
2446065 TTAAAAAAAAAAAAAAGTTGAATTT
1 TTAAAAAAAAAAAAAAG-AGAATTT
2446090 TTAAAAAGAAAAAAAAA-AGAAT
1 TTAAAAA-AAAAAAAAAGAGAAT
2446112 ATAACCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 7 0.35
26 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (24 bp):
TTAAAAAAAAAAAAAAGAGAATTT
Found at i:2446404 original size:16 final size:15
Alignment explanation
Indices: 2446365--2446407 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
2446355 TCCTAAAATA
2446365 ATAAAATTTTAATTT
1 ATAAAATTTTAATTT
*
2446380 A-AATTATTTATAATTT
1 ATAA-AATTT-TAATTT
2446396 ATAAAATTTTAA
1 ATAAAATTTTAA
2446408 ATTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 11 0.48
17 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAAAATTTTAATTT
Found at i:2446456 original size:82 final size:80
Alignment explanation
Indices: 2446359--2446515 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 80
2446349 ATGATCTCCT
* * * *
2446359 AAAATAATAAAATTTTAATTTAA-ATTATTTATAATTTATAAA-ATTTTAA-ATTAATAATAATA
1 AAAATAATAAAATTTT-ATTTAACA--ATTTAAAAATTATAAAGATGTAAACATTAA-AATAATA
2446421 AAATTATATTTTAGGCCCA
62 AAATTATATTTTAGGCCCA
*
2446440 AAAATGATAAAAATTTTATTTAACAATTTAAAAATTATAAAGATGTAAACTATTAAAATAATAAA
1 AAAATAAT-AAAATTTTATTTAACAATTTAAAAATTATAAAGATGTAAAC-ATTAAAATAATAAA
2446505 ATTATATTTTA
64 ATTATATTTTA
2446516 TTATTATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
80 14 0.21
81 18 0.27
82 29 0.44
83 5 0.08
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (80 bp):
AAAATAATAAAATTTTATTTAACAATTTAAAAATTATAAAGATGTAAACATTAAAATAATAAAAT
TATATTTTAGGCCCA
Found at i:2449053 original size:56 final size:56
Alignment explanation
Indices: 2448976--2449088 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
2448966 TTTGCCTAAA
*
2448976 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAGGCTATTAAATTGTC
1 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAAGCTATTAAATTGTC
2449032 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAAGCTATTAAATTGTC
1 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAAGCTATTAAATTGTC
2449088 T
1 T
2449089 TTGTGCTGCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (56 bp):
TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAAGCTATTAAATTGTC
Found at i:2451844 original size:19 final size:19
Alignment explanation
Indices: 2451822--2451902 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 19
2451812 TGTAATATAT
2451822 AATATATAAATTAATAAAA
1 AATATATAAATTAATAAAA
* * *
2451841 AATA-AAAAATTTACAAAA
1 AATATATAAATTAATAAAA
*
2451859 AA-ATA-AAA-GAATTAAAA
1 AATATATAAATTAA-TAAAA
* *
2451876 AAT-TACAAATTTATAAAAA
1 AATATATAAATTAAT-AAAA
2451895 AATATATA
1 AATATATA
2451903 TAAACAATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
16 1 0.02
17 12 0.26
18 18 0.39
19 12 0.26
20 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.27
Consensus pattern (19 bp):
AATATATAAATTAATAAAA
Found at i:2451876 original size:18 final size:17
Alignment explanation
Indices: 2451829--2451877 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 17
2451819 TATAATATAT
2451829 AAATTAATAAAAAATAAA
1 AAATTAA-AAAAAATAAA
2451847 AAATTTACAAAAAAATAAA
1 AAA-TTA-AAAAAAATAAA
2451866 AGAATTAAAAAA
1 A-AATTAAAAAA
2451878 TTACAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.29
19 17 0.61
20 3 0.11
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAATTAAAAAAAATAAA
Found at i:2451891 original size:27 final size:26
Alignment explanation
Indices: 2451829--2451895 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
2451819 TATAATATAT
2451829 AAATTAATAAAAAATAAAAAATTTAC
1 AAATTAATAAAAAATAAAAAATTTAC
**
2451855 AAAAAAATAAAAGAATTAAAAAA-TTAC
1 AAATTAATAAAA-AA-TAAAAAATTTAC
*
2451882 AAATTTATAAAAAA
1 AAATTAATAAAAAA
2451896 ATATATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 12 0.35
27 15 0.44
28 7 0.21
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (26 bp):
AAATTAATAAAAAATAAAAAATTTAC
Found at i:2454936 original size:10 final size:9
Alignment explanation
Indices: 2454909--2454934 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2454899 TTTTATATCT
2454909 TAATTTTTA
1 TAATTTTTA
2454918 TAATTTTTA
1 TAATTTTTA
2454927 TAATTTTT
1 TAATTTTT
2454935 TACTTCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TAATTTTTA
Found at i:2458683 original size:21 final size:21
Alignment explanation
Indices: 2458657--2458707 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2458647 TCGATTAAAA
2458657 ATTTAATTAATTTCGATTTT-C
1 ATTTAATTAATTT-GATTTTAC
*
2458678 ATTTAA-AAATTTGATTTTAC
1 ATTTAATTAATTTGATTTTAC
*
2458698 ATCTAATTAA
1 ATTTAATTAA
2458708 ATCGGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 6 0.24
20 11 0.44
21 8 0.32
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTAATTAATTTGATTTTAC
Found at i:2459301 original size:20 final size:21
Alignment explanation
Indices: 2459254--2459303 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2459244 TTCTCCACCA
*
2459254 GGTTTTTGTTAATTCAATTGTT
1 GGTTTTT-TCAATTCAATTGTT
**
2459276 TTTTTTTTCAATT-AATTGTT
1 GGTTTTTTCAATTCAATTGTT
2459296 GGTTTTTT
1 GGTTTTTT
2459304 AATGGAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (21 bp):
GGTTTTTTCAATTCAATTGTT
Found at i:2459301 original size:21 final size:21
Alignment explanation
Indices: 2459254--2459303 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2459244 TTCTCCACCA
2459254 GGTTTTTGTTAATTCAATTGTT
1 GGTTTTT-TTAATTCAATTGTT
*
2459276 -TTTTTTTTCAATT-AATTGTT
1 GGTTTTTTT-AATTCAATTGTT
2459296 GGTTTTTT
1 GGTTTTTT
2459304 AATGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (21 bp):
GGTTTTTTTAATTCAATTGTT
Found at i:2462726 original size:17 final size:18
Alignment explanation
Indices: 2462704--2462743 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2462694 ATGATAAGGG
2462704 TTCATACATA-TTTGACT
1 TTCATACATATTTTGACT
*
2462721 TTCATATATATTTTGACT
1 TTCATACATATTTTGACT
2462739 TTCAT
1 TTCAT
2462744 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (18 bp):
TTCATACATATTTTGACT
Found at i:2468398 original size:16 final size:15
Alignment explanation
Indices: 2468377--2468428 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
2468367 CGAAAAAATT
*
2468377 AATTAATTATTTTAAA
1 AATTAATT-TTTAAAA
2468393 AATTAATTTTTAAAA
1 AATTAATTTTTAAAA
* **
2468408 AA-TATTTTTTATTA
1 AATTAATTTTTAAAA
2468422 AATTAAT
1 AATTAAT
2468429 ATCAAATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 11 0.37
15 11 0.37
16 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTAATTTTTAAAA
Found at i:2480299 original size:16 final size:17
Alignment explanation
Indices: 2480273--2480324 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
2480263 TTATTATTTA
2480273 AAAATTAAAAAATA-TAT
1 AAAATTAAAAAA-AGTAT
2480290 AAAA-TAAAAAAAGTAT
1 AAAATTAAAAAAAGTAT
* *
2480306 AAAAGTATAAAAAATTAT
1 AAAATTA-AAAAAAGTAT
2480324 A
1 A
2480325 TGAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 1 0.03
16 14 0.45
17 6 0.19
18 10 0.32
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAATTAAAAAAAGTAT
Found at i:2480300 original size:18 final size:19
Alignment explanation
Indices: 2480279--2480334 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
2480269 TTTAAAAATT
2480279 AAAAAATATATAAAATA-A
1 AAAAAATATATAAAATATA
* *
2480297 AAAAAGTATA-AAAGTATA
1 AAAAAATATATAAAATATA
*
2480315 AAAAATTATATGAAAA-ATA
1 AAAAAATATAT-AAAATATA
2480334 A
1 A
2480335 CTGGATTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 5 0.16
18 19 0.61
19 4 0.13
20 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAAATATATAAAATATA
Found at i:2482032 original size:13 final size:13
Alignment explanation
Indices: 2482014--2482073 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
2482004 TCTTCGTTGC
2482014 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
2482027 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
* * **
2482040 TATGGAAAAGTAC
1 TTTTGAAAAGTGT
*
2482053 TTTTGAGAAGTG-
1 TTTTGAAAAGTGT
*
2482065 CTTTGAAAA
1 TTTTGAAAA
2482074 AATTTAAATG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
12 7 0.19
13 30 0.81
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:2486003 original size:22 final size:23
Alignment explanation
Indices: 2485975--2486019 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
2485965 AAGTAAAATA
*
2485975 AATATTTAAATATAAT-TTTTTT
1 AATATTTAAATAAAATATTTTTT
2485997 AATATTTAAATAAAATATTTTTT
1 AATATTTAAATAAAATATTTTTT
2486020 TCTATATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATATTTAAATAAAATATTTTTT
Found at i:2487572 original size:21 final size:22
Alignment explanation
Indices: 2487540--2487580 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2487530 GATTACTTTT
*
2487540 TTAAAGTTAAAAGTCAAAATCA
1 TTAAAGTTAAAAGACAAAATCA
2487562 TTAAA-TTAAAAGACAAAAT
1 TTAAAGTTAAAAGACAAAAT
2487581 TATATCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (22 bp):
TTAAAGTTAAAAGACAAAATCA
Found at i:2489627 original size:27 final size:25
Alignment explanation
Indices: 2489597--2489679 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 25
2489587 TATTGGCTAA
*
2489597 TTTAAACTATTTTCATGTATTATTTAT
1 TTTAAA-T-TTTTTATGTATTATTTAT
* *
2489624 TTT-ATTTTTTTACGTATTATTTAT
1 TTTAAATTTTTTATGTATTATTTAT
2489648 TTTAAAAGTTGTTTTATG-ATTATTTAT
1 TTT-AAA-TT-TTTTATGTATTATTTAT
2489675 TTTAA
1 TTTAA
2489680 GATATTGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 19 0.40
25 1 0.02
26 4 0.09
27 17 0.36
28 6 0.13
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (25 bp):
TTTAAATTTTTTATGTATTATTTAT
Found at i:2491299 original size:17 final size:17
Alignment explanation
Indices: 2491279--2491340 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
2491269 CTACCATAAA
2491279 TATAATAAATATTTTAT
1 TATAATAAATATTTTAT
* ** * *
2491296 TATATTAAA-AAGTAAA
1 TATAATAAATATTTTAT
2491312 TATAATAAATATTTTAT
1 TATAATAAATATTTTAT
* *
2491329 TGTATTAAATAT
1 TATAATAAATAT
2491341 AATTTTTAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATAATAAATATTTTAT
Found at i:2491315 original size:33 final size:33
Alignment explanation
Indices: 2491275--2491337 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
2491265 AATACTACCA
2491275 TAAATATAATAAATATTTTATTATATTAAAAAG
1 TAAATATAATAAATATTTTATTATATTAAAAAG
*
2491308 TAAATATAATAAATATTTTATTGTATTAAA
1 TAAATATAATAAATATTTTATTATATTAAA
2491338 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
TAAATATAATAAATATTTTATTATATTAAAAAG
Found at i:2492363 original size:20 final size:20
Alignment explanation
Indices: 2492335--2492385 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 20
2492325 CACAAAGCAT
*
2492335 AAGCTGACAATGTAATGATA
1 AAGCAGACAATGTAATGATA
2492355 AAGCAGACACAATGTAATGATA
1 AAGCAG--ACAATGTAATGATA
2492377 AAGCAGACA
1 AAGCAGACA
2492386 TAGCAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
22 20 0.71
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.18
Consensus pattern (20 bp):
AAGCAGACAATGTAATGATA
Found at i:2492369 original size:22 final size:22
Alignment explanation
Indices: 2492341--2492385 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2492331 GCATAAGCTG
2492341 ACAATGTAATGATAAAGCAGAC
1 ACAATGTAATGATAAAGCAGAC
2492363 ACAATGTAATGATAAAGCAGAC
1 ACAATGTAATGATAAAGCAGAC
2492385 A
1 A
2492386 TAGCAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (22 bp):
ACAATGTAATGATAAAGCAGAC
Found at i:2493107 original size:14 final size:14
Alignment explanation
Indices: 2493081--2493122 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
2493071 TCAATAATAA
2493081 TTTATTAAAATATT
1 TTTATTAAAATATT
2493095 TTTA-TAAATATATT
1 TTTATTAAA-ATATT
2493109 TTTAATGTAAAATA
1 TTT-AT-TAAAATA
2493123 ATTTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 4 0.17
14 12 0.50
15 1 0.04
16 3 0.12
17 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TTTATTAAAATATT
Found at i:2499841 original size:24 final size:24
Alignment explanation
Indices: 2499813--2499859 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2499803 CCGCTTCAAT
* *
2499813 AAATAAATATTTTTAATGCAAAAC
1 AAATAAATAATTTGAATGCAAAAC
*
2499837 AAATAAATAATTTGAATGGAAAA
1 AAATAAATAATTTGAATGCAAAA
2499860 AATCATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATAAATAATTTGAATGCAAAAC
Found at i:2500794 original size:35 final size:35
Alignment explanation
Indices: 2500708--2500798 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
2500698 AATCTCGAAC
* *
2500708 CCTAAACCCTAAAATCTTAAATCTTGCATTATAAAT
1 CCTAAA-CCTAAAATCTTAAATCTAGCATCATAAAT
**
2500744 CCTAAACCTCGAATCTTAAATACTAG-ATCATAAAT
1 CCTAAACCTAAAATCTTAAAT-CTAGCATCATAAAT
**
2500779 CCTAAATTTAAAATCTTAAA
1 CCTAAACCTAAAATCTTAAA
2500799 ACCAAAAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
35 37 0.80
36 9 0.20
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (35 bp):
CCTAAACCTAAAATCTTAAATCTAGCATCATAAAT
Found at i:2508437 original size:3 final size:3
Alignment explanation
Indices: 2508414--2508606 Score: 123
Period size: 3 Copynumber: 64.3 Consensus size: 3
2508404 GGGAAGAGTG
* * *
2508414 TTA TTT TTA ATA TTG TTA TTA TTA TTA TATA TTA TTA CTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA
2508461 TTA TTA TTA TTA TTA -TA TTTA TTA -TA TTA -TA TTTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * * **
2508504 CTG TTA CTG TTA TT- TTA -TA TATA TTTA TCA CCA TTA TATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA T-TA -TTA TTA
* ** * *
2508551 TTA TTA TTA GTA ACA -TA TTG TTA TTT TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2508597 TTA TTA TTA T
1 TTA TTA TTA T
2508607 CATGGTACTA
Statistics
Matches: 148, Mismatches: 26, Indels: 32
0.72 0.13 0.16
Matches are distributed among these distances:
2 15 0.10
3 113 0.76
4 18 0.12
5 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2525056 original size:41 final size:41
Alignment explanation
Indices: 2525011--2525092 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
2525001 CCTATGGTGC
2525011 ATGGATATTTAATTACTGTGATAATATATTCATTTTTTTAT
1 ATGGATATTTAATTACTGTGATAATATATTCATTTTTTTAT
2525052 ATGGATATTTAATTACTGTGATAATATATTCATTTTTTTAT
1 ATGGATATTTAATTACTGTGATAATATATTCATTTTTTTAT
2525093 TTAGTCAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (41 bp):
ATGGATATTTAATTACTGTGATAATATATTCATTTTTTTAT
Found at i:2528856 original size:31 final size:31
Alignment explanation
Indices: 2528818--2528878 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2528808 CGTGTGCTAG
* *
2528818 GCCATGTGGATCAAATGGGCCAAATACCCAA
1 GCCATGTGGATCAAACGGGCCAAACACCCAA
* *
2528849 GCCATGTGGGTCACACGGGCCAAACACCCA
1 GCCATGTGGATCAAACGGGCCAAACACCCA
2528879 GGCCGTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.13
Consensus pattern (31 bp):
GCCATGTGGATCAAACGGGCCAAACACCCAA
Found at i:2530889 original size:31 final size:33
Alignment explanation
Indices: 2530824--2530896 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
2530814 TTTAGGTTCA
* *
2530824 TTAAAAGTTGGTAAATACTTTTTTTTATGTCCC
1 TTAAAAGTTGGTAAATAATTTTTTTGATGTCCC
2530857 TTAAAAGTTGGTAGAA-AATTTTTTTGA-G-CCC
1 TTAAAAGTTGGTA-AATAATTTTTTTGATGTCCC
2530888 TTAAAAGTT
1 TTAAAAGTT
2530897 AGAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 12 0.32
32 1 0.03
33 22 0.59
34 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (33 bp):
TTAAAAGTTGGTAAATAATTTTTTTGATGTCCC
Found at i:2530980 original size:28 final size:27
Alignment explanation
Indices: 2530934--2530992 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 27
2530924 AGTTGATAAC
*
2530934 AAATTTTTTTGACCTTTAAAAGTT-AA
1 AAATTTTTTTGACCTTTAAAAATTGAA
*
2530960 AAATTTTTTTGGGCCTCTTAAAAATTGAA
1 AAATTTTTTT-GACCT-TTAAAAATTGAA
2530989 AAAT
1 AAAT
2530993 AATATTTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 10 0.36
27 4 0.14
28 8 0.29
29 6 0.21
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (27 bp):
AAATTTTTTTGACCTTTAAAAATTGAA
Found at i:2531565 original size:31 final size:31
Alignment explanation
Indices: 2531517--2531611 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
2531507 CATTTATATT
* **
2531517 TTATATATTATTATATTAAATTATTTGAATA
1 TTATTTATTATTATATTAAATTATTCAAATA
* *
2531548 -TAGTTTATTTTTATATTAAATTACTCAAATA
1 TTA-TTTATTATTATATTAAATTATTCAAATA
* *
2531579 TTATTTATTATTATATTTAATTATTAAAATA
1 TTATTTATTATTATATTAAATTATTCAAATA
2531610 TT
1 TT
2531612 TTTGTAAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 2 0.04
31 49 0.92
32 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TTATTTATTATTATATTAAATTATTCAAATA
Found at i:2533745 original size:22 final size:24
Alignment explanation
Indices: 2533710--2533754 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
2533700 TTATTAAATA
* *
2533710 TTAAAATAATATAATATAAATATT
1 TTAAAATAATATAAAAAAAATATT
2533734 TTAAAA-AA-ATAAAAAAAATAT
1 TTAAAATAATATAAAAAAAATAT
2533755 GGACGAGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TTAAAATAATATAAAAAAAATATT
Found at i:2534073 original size:15 final size:16
Alignment explanation
Indices: 2534055--2534087 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2534045 TATTTATTAA
*
2534055 ATTTATAAT-TATTTT
1 ATTTAAAATGTATTTT
2534070 ATTTAAAATGTATTTT
1 ATTTAAAATGTATTTT
2534086 AT
1 AT
2534088 GACACTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTAAAATGTATTTT
Found at i:2536481 original size:25 final size:27
Alignment explanation
Indices: 2536453--2536516 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 27
2536443 TAAGAAAGGA
2536453 ACAAGTAA-G-AGTTCCAAGTTGGTTG
1 ACAAGTAAGGAAGTTCCAAGTTGGTTG
2536478 ACAAGTAATAGTGTAAGTTCCAAGTTGGTTG
1 ACAAGT-A-AG-G-AAGTTCCAAGTTGGTTG
2536509 ACAAGTAA
1 ACAAGTAA
2536517 TAGTGTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
25 6 0.18
26 1 0.03
27 1 0.03
29 2 0.06
30 1 0.03
31 22 0.67
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (27 bp):
ACAAGTAAGGAAGTTCCAAGTTGGTTG
Found at i:2536497 original size:31 final size:31
Alignment explanation
Indices: 2536462--2536524 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2536452 AACAAGTAAG
2536462 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
1 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
2536493 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
1 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
2536524 A
1 A
2536525 TTACAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (31 bp):
AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
Found at i:2538036 original size:16 final size:16
Alignment explanation
Indices: 2538010--2538079 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
2538000 TGAATTACTA
* *
2538010 ATTACAGCTCTATTCT
1 ATTACAACTCTATTCC
*
2538026 ATTATAACTCTATTCC
1 ATTACAACTCTATTCC
* *
2538042 ATTACAACTCGATACC
1 ATTACAACTCTATTCC
** *
2538058 ATTACAGTTCTATTTC
1 ATTACAACTCTATTCC
2538074 ATTACA
1 ATTACA
2538080 GCGAACCAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:2540016 original size:18 final size:18
Alignment explanation
Indices: 2539993--2540029 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2539983 TATCTCGTAA
2539993 ATTATTTGTTATTTTTAT
1 ATTATTTGTTATTTTTAT
* *
2540011 ATTATTTTTTGTTTTTAT
1 ATTATTTGTTATTTTTAT
2540029 A
1 A
2540030 CATTTGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
ATTATTTGTTATTTTTAT
Found at i:2543713 original size:74 final size:74
Alignment explanation
Indices: 2543429--2543699 Score: 353
Period size: 74 Copynumber: 3.7 Consensus size: 74
2543419 TTGTGCTCAA
* * * * * * * * *
2543429 TGCTAGTTGGATTAACCGACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGCCAATGATAT
1 TGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
2543494 TGCACCTAG
66 TGCACCTAG
*
2543503 TGCTAGTCGGATAAATTGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
1 TGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
*
2543568 TGCACCCAG
66 TGCACCTAG
* * * *
2543577 TGCTAGTCGGATAAACCGACAATAATGAATGTGAGCACAGCTCTAGTTGGATAAGACAACGATAT
1 TGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
2543642 TGCACCTAG
66 TGCACCTAG
* ** * * *
2543651 TGCTAGTCAGATAAATCGATGATGATAAATGTGAGCCCAGCTCAAGTTG
1 TGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTG
2543700 AACGTATCAA
Statistics
Matches: 172, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 172 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (74 bp):
TGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
TGCACCTAG
Found at i:2543713 original size:148 final size:148
Alignment explanation
Indices: 2543429--2543699 Score: 409
Period size: 148 Copynumber: 1.8 Consensus size: 148
2543419 TTGTGCTCAA
* * * *
2543429 TGCTAGTTGGATTAACCGACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGCCAATGATAT
1 TGCTAGTCGGATAAACCGACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGACAACGATAT
* * * *
2543494 TGCACCTAGTGCTAGTCGGATAAATTGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGA
66 TGCACCTAGTGCTAGTCAGATAAATCGAAAATAATAAATGTGAGCCCAGCTCAAGTTGGACAAGA
2543559 CAACGATATTGCACCCAG
131 CAACGATATTGCACCCAG
* *
2543577 TGCTAGTCGGATAAACCGACAATAATGAATGTGAGCAC-AGCTCTAGTTGGATAAGACAACGATA
1 TGCTAGTCGGATAAACCGACAATAATGAATGTGAGC-CTAGATCTAGTTGGAAAAGACAACGATA
** *
2543641 TTGCACCTAGTGCTAGTCAGATAAATCGATGATGATAAATGTGAGCCCAGCTCAAGTTG
65 TTGCACCTAGTGCTAGTCAGATAAATCGAAAATAATAAATGTGAGCCCAGCTCAAGTTG
2543700 AACGTATCAA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
148 108 0.99
149 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (148 bp):
TGCTAGTCGGATAAACCGACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGACAACGATAT
TGCACCTAGTGCTAGTCAGATAAATCGAAAATAATAAATGTGAGCCCAGCTCAAGTTGGACAAGA
CAACGATATTGCACCCAG
Found at i:2545807 original size:29 final size:30
Alignment explanation
Indices: 2545775--2545836 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
2545765 ACTTAACAAG
*
2545775 CAAATG-CTTCTAAAATTATAA-AAAAATAA
1 CAAATGCCTT-TAAAATAATAAGAAAAATAA
*
2545804 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAAATAA
2545834 CAA
1 CAA
2545837 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAAATAA
Found at i:2546704 original size:44 final size:46
Alignment explanation
Indices: 2546635--2546722 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 46
2546625 TTACAACATC
*
2546635 ATTCCATTCAACCAAACACAAGAATT-C-TATTACAGTTCTATTTT
1 ATTCCATCCAACCAAACACAAGAATTACTTATTACAGTTCTATTTT
***
2546679 ATTCCATCCAACCAAACAGTTGAATTACTTATTACAGTTCTATT
1 ATTCCATCCAACCAAACACAAGAATTACTTATTACAGTTCTATT
2546723 CCATTACAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 22 0.58
45 1 0.03
46 15 0.39
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (46 bp):
ATTCCATCCAACCAAACACAAGAATTACTTATTACAGTTCTATTTT
Found at i:2546730 original size:16 final size:16
Alignment explanation
Indices: 2546709--2546748 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2546699 TGAATTACTT
2546709 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
2546725 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
2546741 ATTACAGT
1 ATTACAGT
2546749 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:2550367 original size:35 final size:35
Alignment explanation
Indices: 2550328--2550398 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
2550318 CACTTGCCTC
*
2550328 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
2550363 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
2550398 T
1 T
2550399 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:2550800 original size:12 final size:12
Alignment explanation
Indices: 2550780--2550825 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
2550770 ATTAAAACAT
2550780 AAAAAATATACA
1 AAAAAATATACA
*
2550792 AAAAGATATACA
1 AAAAAATATACA
2550804 AAAAAATATACA
1 AAAAAATATACA
2550816 AAAAAATATA
1 AAAAAATATA
2550826 AATTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAATATACA
Found at i:2551425 original size:3 final size:3
Alignment explanation
Indices: 2551417--2551450 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2551407 TGCATTTCAA
2551417 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2551451 GAAATACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2551559 original size:3 final size:3
Alignment explanation
Indices: 2551551--2551575 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2551541 GTGTTTCAAT
2551551 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2551576 ATTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2551865 original size:32 final size:31
Alignment explanation
Indices: 2551798--2551867 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
2551788 TAATATTATG
*
2551798 TATATATTTTAATATTATCAGTTATATATAC
1 TATATATTTTAATACTATCAGTTATATATAC
*
2551829 TATATGATTTCTAATACTAT-ATTTATATATTA-
1 TATAT-ATTT-TAATACTATCAGTTATATA-TAC
2551861 TATATAT
1 TATATAT
2551868 ATTTCTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 7 0.21
32 17 0.50
33 10 0.29
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (31 bp):
TATATATTTTAATACTATCAGTTATATATAC
Found at i:2552279 original size:16 final size:16
Alignment explanation
Indices: 2552258--2552295 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2552248 ATATTTTTGC
* *
2552258 ATATTATCTTATGTAT
1 ATATTACCTTATATAT
2552274 ATATTACCTTATATAT
1 ATATTACCTTATATAT
2552290 -TATTAC
1 ATATTAC
2552296 TAAATGTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATTACCTTATATAT
Found at i:2562110 original size:2 final size:2
Alignment explanation
Indices: 2562103--2562134 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2562093 TAAACAATAA
2562103 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2562135 ATGTCCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2566493 original size:16 final size:17
Alignment explanation
Indices: 2566472--2566506 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2566462 TAAAACTCAA
*
2566472 TTGATAATTTA-TTAAT
1 TTGATAATTCATTTAAT
2566488 TTGATAATTCATTTAAT
1 TTGATAATTCATTTAAT
2566505 TT
1 TT
2566507 TAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (17 bp):
TTGATAATTCATTTAAT
Found at i:2566547 original size:20 final size:19
Alignment explanation
Indices: 2566519--2566556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2566509 AAAATATATA
2566519 TTTTTAACCCAAACTTTTT
1 TTTTTAACCCAAACTTTTT
*
2566538 TTTTTGAACCCCAACTTTT
1 TTTTT-AACCCAAACTTTT
2566557 GTAAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTTTAACCCAAACTTTTT
Found at i:2567837 original size:29 final size:29
Alignment explanation
Indices: 2567755--2567836 Score: 101
Period size: 31 Copynumber: 2.7 Consensus size: 29
2567745 AAATCTCAAA
* * *
2567755 TCTATACATGAACTTTGGTCTAATGTTCAAT
1 TCTATACATGAACTTTGAT-T-TTGTGCAAT
2567786 TCTATACATGAACTTTGATTTTGTGCAAT
1 TCTATACATGAACTTTGATTTTGTGCAAT
*
2567815 TTTATACATGAAACTTTGATTT
1 TCTATACATG-AACTTTGATTT
2567837 GATCCAATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 16 0.35
30 12 0.26
31 18 0.39
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (29 bp):
TCTATACATGAACTTTGATTTTGTGCAAT
Found at i:2567845 original size:30 final size:29
Alignment explanation
Indices: 2567755--2567847 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 29
2567745 AAATCTCAAA
* * *
2567755 TCTATACATGAACTTTGGTCTAATGTTCAAT
1 TCTATACATGAACTTTGAT-T-TTGTCCAAT
*
2567786 TCTATACATGAACTTTGATTTTGTGCAAT
1 TCTATACATGAACTTTGATTTTGTCCAAT
*
2567815 TTTATACATGAAACTTTGA-TTTGATCCAAT
1 TCTATACATG-AACTTTGATTTTG-TCCAAT
2567845 TCT
1 TCT
2567848 CACAAATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 20 0.37
30 16 0.30
31 18 0.33
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (29 bp):
TCTATACATGAACTTTGATTTTGTCCAAT
Found at i:2570649 original size:4 final size:4
Alignment explanation
Indices: 2570640--2570672 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
2570630 AGCAAACGTG
2570640 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
2570673 TAGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:2572063 original size:16 final size:16
Alignment explanation
Indices: 2572044--2572078 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2572034 AACCTAACCC
*
2572044 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
2572059 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
2572075 AAAA
1 AAAA
2572079 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:2572092 original size:15 final size:17
Alignment explanation
Indices: 2572074--2572110 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2572064 AAAGAAAAAG
2572074 AAAAACCT-A-CCCCAA
1 AAAAACCTAATCCCCAA
2572089 AAAAACCTAATCCCCAA
1 AAAAACCTAATCCCCAA
2572106 AAAAA
1 AAAAA
2572111 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAACCTAATCCCCAA
Found at i:2572691 original size:2 final size:2
Alignment explanation
Indices: 2572686--2572720 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2572676 TAAATACTAT
*
2572686 TA TA TA TA CA 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 T
2572721 TTTAAATACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2574695 original size:12 final size:12
Alignment explanation
Indices: 2574675--2574710 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2574665 ATTCATTTAA
2574675 CATTCATGCATT
1 CATTCATGCATT
*
2574687 CATTTATGCATT
1 CATTCATGCATT
*
2574699 CATTCATTCATT
1 CATTCATGCATT
2574711 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:2581532 original size:71 final size:71
Alignment explanation
Indices: 2581433--2581567 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
2581423 CTTTTCAAGG
2581433 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC-CTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGC-TGAGGTATTTTTAATTTT
2581497 TGTTTTC
65 TGTTTTC
** * *
2581504 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTT
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTT
2581568 AAATTGACTC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
70 1 0.02
71 56 0.97
72 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTTT
GTTTTC
Found at i:2581782 original size:14 final size:14
Alignment explanation
Indices: 2581763--2581797 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2581753 CGCCGAGGTA
2581763 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
2581777 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
2581791 CTTTCAA
1 TTTTCAA
2581798 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:2581835 original size:96 final size:90
Alignment explanation
Indices: 2581626--2581876 Score: 269
Period size: 88 Copynumber: 2.8 Consensus size: 90
2581616 TTTCAAAATC
*
2581626 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA--CCGAGGTATTTTCAATTTCTGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTT
* ** * **
2581689 TCATTGTTATGTTTTTGAAAGAATC
66 TCAATGTTATGTTTTAAAAAAAAAA
* *
2581714 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCG-TT
*
2581779 TTCAAT-TTCTGTCTTTCAAAAAAAAAAAAAA
65 TTCAATGTTATGT-TTT-----AAAAAAAAAA
* * * * *
2581810 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAAGTAATTTCAATTTCTGTTG
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTT
2581873 TCAA
66 TCAA
2581877 AAAAATCAAC
Statistics
Matches: 137, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
88 37 0.27
90 25 0.18
91 10 0.07
93 6 0.04
94 22 0.16
96 37 0.27
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (90 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTT
TCAATGTTATGTTTTAAAAAAAAAA
Found at i:2581985 original size:78 final size:75
Alignment explanation
Indices: 2581800--2582085 Score: 325
Period size: 78 Copynumber: 3.8 Consensus size: 75
2581790 TCTTTCAAAA
** * *
2581800 AAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAAGTAATTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCA
2581863 ATTTCTGTTGT
66 ATTTCTGTT-T
* * * * *
2581874 CAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCA
2581939 ATTTCTGCCTTTT
66 ATTTCTG---TTT
* *
2581952 AAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCTGAGGTATTTTC
2582016 AATTTCTG---
65 AATTTCTGTTT
* * * ** *
2582024 -AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACATACTGTGGTATTTT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTT
2582086 TTTTCAATTT
Statistics
Matches: 183, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
71 54 0.30
72 1 0.01
74 38 0.21
76 23 0.13
77 2 0.01
78 63 0.34
79 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCA
ATTTCTGTTT
Found at i:2582028 original size:71 final size:71
Alignment explanation
Indices: 2581953--2582085 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 71
2581943 CTGCCTTTTA
* * * *
2581953 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACATACTGAGGTATTTTCAA
2582018 TTTCTG
66 TTTCTG
* * *
2582024 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACATACTGTGGTATTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACATACTGAGGTATTTT
2582086 TTTTCAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (71 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACATACTGAGGTATTTTCAA
TTTCTG
Found at i:2582058 original size:149 final size:149
Alignment explanation
Indices: 2581800--2582071 Score: 361
Period size: 149 Copynumber: 1.8 Consensus size: 149
2581790 TCTTTCAAAA
2581800 AAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAAT
1 AAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAAT
* * *
2581865 TTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAG
66 TTC--TTG-CAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAG
2581930 GTATTTTCAATTTCTGCCTTTT
128 GTATTTTCAATTTCTGCCTTTT
** * * * *
2581952 AAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTC
1 AAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAAGTAATTTC
* * *
2582016 AATTTC-TG-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACA
63 AATTTCTTGCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACA
2582072 TACTGTGGTA
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
149 42 0.40
151 4 0.04
152 38 0.36
154 21 0.20
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (149 bp):
AAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAAT
TTCTTGCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTA
TTTTCAATTTCTGCCTTTT
Found at i:2582326 original size:91 final size:87
Alignment explanation
Indices: 2582129--2582741 Score: 365
Period size: 88 Copynumber: 7.2 Consensus size: 87
2582119 TTGTAATTTC
* ** *
2582129 TGCGAGAGGTGAGTTGAGCCTC-GAGTCACATGTCGAGGTATTTTCAAAATCTGCTTTTCAAGTT
1 TGCGAGAGGTGAGTTGAGCCTCAG-GTCACACG-CGAGGTATTTTCAATTTCCGCTTTTCAAGTT
* *
2582193 AAGTTTCAAAAAATCAACTCGTAT
64 AAGTTTAAAAAAATCAACTCATAT
* * * * *
2582217 TGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCGGAGGTATTTTCAATTTCCGTTTTTCAATTTC
1 TGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC-GAGGTATTTTCAATTTCCGCTTTTCAAGTTA
*
2582282 TGCCTTTTAAAAAAATCAACTCATAT
65 AG---TTTAAAAAAATCAACTCATAT
* *
2582308 TGCGAGAGGTGAGTTGAGCCTCAAG--ACACGCTGAGGTAATTTCAATTT---C---T---GTT-
1 TGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC-GAGGTATTTTCAATTTCCGCTTTTCAAGTTA
* *
2582361 -G-TCAAAAAAATCAACTCGTAT
65 AGTTTAAAAAAATCAACTCATAT
* * * * * * *
2582382 TGTGAGAGGCGAGTTGAGCCTTAGGTCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTC
1 TGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC-GAGGTATTTTCAATTTCCGCTTTTCAAGTTA
*
2582447 TGTCTTTCAAAAAAATCAACTCATAT
65 AG--TTT-AAAAAAATCAACTCATAT
* * * **
2582473 TGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTA-TTT---TTT-C-AATTT-ATA-TT
1 TGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC-GAGGTATTTTCAATTTCCGCTTTTCA-AGTT
*
2582530 ---TTTCAAAAAAATCAACTCACAT
64 AAGTTT-AAAAAAATCAACTCATAT
* * * * ** * * * *
2582552 TGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTC
1 TGCGAGAGGTGAGTTGAGCCTCAGGTCACACG-CGAGGTATTTTCAATTTCCGCTTTTCAAGTTA
* **
2582617 TGTTTTCAAAAATCAACTCATAT
65 AGTTTAAAAAAATCAACTCATAT
* * ** * *
2582640 TGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTG-TTTT----TT
1 TGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGC-GAGGTATTTTCAATTTCCGCTTTTCAAGTT
** *
2582699 -TTTTTCAAAAAATTCAACTCATAT
64 AAGTTT-AAAAAAATCAACTCATAT
2582723 TGCGAGAGGTGAGTTGAGC
1 TGCGAGAGGTGAGTTGAGC
2582742 TTTTTAATTT
Statistics
Matches: 420, Mismatches: 67, Indels: 81
0.74 0.12 0.14
Matches are distributed among these distances:
74 39 0.09
76 22 0.05
78 1 0.00
79 52 0.12
80 6 0.01
82 5 0.01
83 37 0.09
84 3 0.01
85 10 0.02
86 3 0.01
87 12 0.03
88 109 0.26
89 25 0.06
90 4 0.01
91 92 0.22
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (87 bp):
TGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCGAGGTATTTTCAATTTCCGCTTTTCAAGTTAA
GTTTAAAAAAATCAACTCATAT
Found at i:2582395 original size:165 final size:167
Alignment explanation
Indices: 2582184--2582660 Score: 612
Period size: 165 Copynumber: 2.9 Consensus size: 167
2582174 AAAATCTGCT
* *
2582184 TTTCAAGTTA-AGTT-TC-AAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTATAGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
*
2582246 ACGCGGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTTAAAAAAATCAACTCATATTGC
66 ACGC-GAGGTATTTTCAATTTCTGTTTTTCAATTTCTG-CTTTTAAAAAAATCAACTCATATTGC
* *
2582311 GAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA-A
129 GAGAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATA
* * *
2582347 TTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCAC
1 TTTCAATTTATAGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
*
2582411 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGC
66 ACGC-GAGGTATTTTCAATTTCTGTTTTTCAATTTCTG-CTTTTAAAAAAATCAACTCATATTGC
* *
2582476 GAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTT
129 GAGAGGTGAGTTGAGCCTCAGATCACACACTGAGGTA-TA
* * ** * * * *
2582516 TTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTAC
1 TTTCAATTTATAGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
* ** * *
2582581 ATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-TTTT-CAAAAATCAACTCATATTGCG
66 ACG-CGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCG
*
2582644 AGAAGTGAGTTGAGCCT
130 AGAGGTGAGTTGAGCCT
2582661 TGGCTCACGT
Statistics
Matches: 273, Mismatches: 32, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
163 11 0.04
164 2 0.01
165 123 0.45
166 1 0.00
167 47 0.17
168 3 0.01
169 10 0.04
170 75 0.27
171 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (167 bp):
TTTCAATTTATAGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
ACGCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCTTTTAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCAGATCACACACTGAGGTATA
Found at i:2582396 original size:74 final size:74
Alignment explanation
Indices: 2582272--2582437 Score: 226
Period size: 74 Copynumber: 2.2 Consensus size: 74
2582262 AATTTCCGTT
* *
2582272 TTTCAATTTCTGCCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACA
1 TTTCAATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGCACA
2582336 CGCTGAGGTAA
64 CGCTGAGGTAA
* * * *
2582347 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCACA
1 TTTCAATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAG-CACA
*
2582412 CGCTGAGGTAT
64 CGCTGAGGTAA
2582423 TTTCAATTTCTGTTT
1 TTTCAATTTCTGTTT
2582438 TTCAATTTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
73 2 0.02
74 39 0.48
75 13 0.16
76 27 0.33
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (74 bp):
TTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGCACACG
CTGAGGTAA
Found at i:2582441 original size:14 final size:14
Alignment explanation
Indices: 2582422--2582456 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2582412 CGCTGAGGTA
2582422 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
2582436 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
2582450 CTTTCAA
1 TTTTCAA
2582457 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:2582611 original size:14 final size:13
Alignment explanation
Indices: 2582592--2582627 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2582582 TGTCGAGGTA
2582592 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
2582605 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
2582619 TTTTCAAAA
1 TTTTCAAAA
2582628 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:2582711 original size:170 final size:165
Alignment explanation
Indices: 2582196--2582964 Score: 574
Period size: 167 Copynumber: 4.6 Consensus size: 165
2582186 TCAAGTTAAG
* *
2582196 TTTC-AAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCGGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCGGAGGTATTT
* *
2582260 TCAATTTCCGTTTTTCAATTTCTGCCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TCAATTTCTGTTTTTCAATTTCTG--TTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
2582325 GCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-----T
128 GCCT-TAGTCACGCTGAGGT-ATTTCAATTTCTGTTTTTT
* * * * *
2582360 TGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCACACGCTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCGGAGGTATTT
2582425 TCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TCAATTTCTGTTTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* **
2582490 G-CTTCAGATCACACACTGAGGTATTT---TTTCAATTTATATT
128 GCCTT-AG-T--CACGCTGAGGTATTTCAATTTCTGTTT-T-TT
* * * * * *
2582530 TTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTC-GAGGTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG-CGGAGGTATT
** * *
2582594 TTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
65 TTCAATTTCTGTTTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
2582659 CTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTT
130 CTTAG-TCAC--GCTGAGGTA-TTTCAATTTCTG--TTTTTT
* * * * * ** *
2582701 TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTC-TGC-GA-G-A-
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC--CTCAGGTCACACGCGGAGGTAT
* * * **
2582760 GTT-GAGTTGAGTCTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
64 TTTCAATTTCTGT-TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * ** **
2582823 AACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTT
127 AGCCT-TAGTCAC-GCT-GAGGTA-TTTCAATTTCTG-TTTT----TT
* * * * *
2582871 AAGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCT
1 ---TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCGGAGGT
* *
2582934 ATTTTCAATTTCTATTTTT-AATGTCTGTTTT
62 ATTTTCAATTTCTGTTTTTCAATTTCTGTTTT
2582965 TAGAGAGTCA
Statistics
Matches: 486, Mismatches: 73, Indels: 81
0.76 0.11 0.13
Matches are distributed among these distances:
163 5 0.01
164 10 0.02
165 116 0.24
166 20 0.04
167 118 0.24
168 8 0.02
169 5 0.01
170 82 0.17
171 49 0.10
172 41 0.08
173 10 0.02
175 5 0.01
176 13 0.03
177 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (165 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCGGAGGTATTT
TCAATTTCTGTTTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TTAGTCACGCTGAGGTATTTCAATTTCTGTTTTTT
Found at i:2582759 original size:30 final size:30
Alignment explanation
Indices: 2582723--2582784 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2582713 CAACTCATAT
2582723 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
2582753 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
2582783 TG
1 TG
2582785 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:2582851 original size:255 final size:253
Alignment explanation
Indices: 2582347--2582952 Score: 726
Period size: 255 Copynumber: 2.4 Consensus size: 253
2582337 GCTGAGGTAA
* * * * *
2582347 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGG-TCAC
1 TTTCAAATTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCAC
* *
2582411 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGC
64 GCGCTGAGCTATTTTCAATTTCTG--TTT---TTTCTGTCTTTCAAAAAAATCAACTCATATTGC
*
2582476 GAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAA
124 GAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAA
* * ** * * *
2582541 TCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGT
188 TCAACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
2582606 T
253 T
* *
2582607 TTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
2582671 GCTGAGCTATTTTCAATTTCTGTTTTTT-T-T-TTTCAAAAAATTCAACTCATATTGCGAGAGGT
66 GCTGAGCTATTTTCAATTTCTGTTTTTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGT
* * * * * * *
2582733 GAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAA
131 GAGTTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAA
*
2582795 ATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTG
187 ATCAACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTG
2582860 CT
252 CT
* **
2582862 TTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
1 TTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
2582926 GCTGAGCTATTTTCAATTTCTATTTTT
66 GCTGAGCTATTTTCAATTTCTGTTTTT
2582953 AATGTCTGTT
Statistics
Matches: 303, Mismatches: 32, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
250 40 0.13
251 2 0.01
252 4 0.01
253 5 0.02
254 5 0.02
255 145 0.48
256 8 0.03
257 15 0.05
258 64 0.21
260 15 0.05
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (253 bp):
TTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
GCTGAGCTATTTTCAATTTCTGTTTTTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGT
GAGTTGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCA
CATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCT
Found at i:2582937 original size:88 final size:83
Alignment explanation
Indices: 2582786--2582941 Score: 122
Period size: 88 Copynumber: 1.8 Consensus size: 83
2582776 TAATTTCTGT
* * * * *
2582786 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATATCGAGGTATT
1 TTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-CGGCTCACATGTCGAGCTATT
*
2582849 TTCAAAATCTGCTTTTCAAGTTAAG
65 TTCAAAATCTG-TTTT----TT-TG
* * **
2582874 -TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG-CTGAGCTATT
1 TTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATT
2582937 TTCAA
65 TTCAA
2582942 TTTCTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
87 6 0.10
88 52 0.90
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (83 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTT
TCAAAATCTGTTTTTTTG
Found at i:2583616 original size:15 final size:15
Alignment explanation
Indices: 2583598--2583631 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2583588 AACCTAACCC
*
2583598 AAAAAAAA-ACAAAG
1 AAAAAAAAGAAAAAG
2583612 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
2583627 AAAAA
1 AAAAA
2583632 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:2583646 original size:16 final size:16
Alignment explanation
Indices: 2583627--2583662 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2583617 AAAGAAAAAG
2583627 AAAAACCT-ACCCCAA
1 AAAAACCTAACCCCAA
2583642 AAAAACCTAACCCCAA
1 AAAAACCTAACCCCAA
2583658 AAAAA
1 AAAAA
2583663 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCCAA
Found at i:2590489 original size:21 final size:23
Alignment explanation
Indices: 2590449--2590490 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
2590439 GGTTATTAGA
2590449 ATTTTACAAATTAAAAAATATTT
1 ATTTTACAAATTAAAAAATATTT
*
2590472 ATTTTA-AAA-TAAATAATAT
1 ATTTTACAAATTAAAAAATAT
2590491 AAAATTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTACAAATTAAAAAATATTT
Found at i:2594828 original size:10 final size:10
Alignment explanation
Indices: 2594813--2594837 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2594803 TAAAAATTTT
2594813 ATATAATAAA
1 ATATAATAAA
2594823 ATATAATAAA
1 ATATAATAAA
2594833 ATATA
1 ATATA
2594838 TTTTATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATAATAAA
Found at i:2596301 original size:30 final size:29
Alignment explanation
Indices: 2596267--2596395 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 29
2596257 AAAATTTTAA
2596267 ATTAATAATAATAAAATTATATTTTAATAT
1 ATTAA-AATAATAAAATTATATTTTAATAT
*
2596297 ATTAAAATAATAAAAATTATATTTTAACAT
1 ATTAAAATAAT-AAAATTATATTTTAATAT
* * *
2596327 TTTAAATTTTATAAAA--ATA---TAA-ACT
1 ATTAAA-ATAATAAAATTATATTTTAATA-T
2596352 ATTAAAATAATAAAATTATATTTTTAATAT
1 ATTAAAATAATAAAATTATA-TTTTAATAT
*
2596382 AATAAAATATATAA
1 ATTAAAATA-ATAA
2596396 TTTAATTCCG
Statistics
Matches: 80, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
24 8 0.10
25 9 0.11
26 3 0.04
28 3 0.04
29 6 0.08
30 43 0.54
31 8 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
ATTAAAATAATAAAATTATATTTTAATAT
Found at i:2600409 original size:3 final size:3
Alignment explanation
Indices: 2600401--2600446 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
2600391 ATAGATTTAA
2600401 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2600447 TAAATAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2600461 original size:12 final size:12
Alignment explanation
Indices: 2600400--2600465 Score: 68
Period size: 12 Copynumber: 5.5 Consensus size: 12
2600390 AATAGATTTA
2600400 AAATAATAATA-
1 AAATAATAATAT
2600411 ATAATAATAATA-
1 A-AATAATAATAT
2600423 ATAATAATAATA-
1 A-AATAATAATAT
2600435 ATAATAATAATAT
1 A-AATAATAATAT
2600448 AAATAACTAA-AT
1 AAATAA-TAATAT
2600460 AAATAA
1 AAATAA
2600466 ATCCAAAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.02
12 47 0.90
13 4 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATAATAATAT
Found at i:2601637 original size:19 final size:19
Alignment explanation
Indices: 2601615--2601651 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2601605 TTTTGGTTTT
2601615 GTTTTATTTT-TTTTATTTA
1 GTTTT-TTTTGTTTTATTTA
2601634 GTTTTTTTTGTTTTATTT
1 GTTTTTTTTGTTTTATTT
2601652 TGGTGTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (19 bp):
GTTTTTTTTGTTTTATTTA
Found at i:2605846 original size:18 final size:18
Alignment explanation
Indices: 2605823--2605875 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2605813 TGCATGCATC
*
2605823 ATGCATGCTCTTTGTTTG
1 ATGCATGCTCCTTGTTTG
*
2605841 ATGCATGCTCCGTGTTTG
1 ATGCATGCTCCTTGTTTG
2605859 ATGCATGCTCCTTGTTT
1 ATGCATGCTCCTTGTTT
2605876 CTTACAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (18 bp):
ATGCATGCTCCTTGTTTG
Done.