Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 75 of 84
Found at i:16225843 original size:20 final size:20
Alignment explanation
Indices: 16225818--16225861 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
16225808 TCTCTTAGCT
* *
16225818 TAATATCCTTTAACATGTGA
1 TAATATCCCTTAACATGGGA
16225838 TAATATCCCTTAACATGGGA
1 TAATATCCCTTAACATGGGA
16225858 TAAT
1 TAAT
16225862 CTCATTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
TAATATCCCTTAACATGGGA
Found at i:16238745 original size:22 final size:22
Alignment explanation
Indices: 16238720--16238784 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
16238710 TTAATTTTAT
16238720 TTAAATATTAATAAAAATATTA
1 TTAAATATTAATAAAAATATTA
*
16238742 TTAATATTTTAAT-AAAATATTA
1 TTAA-ATATTAATAAAAATATTA
*
16238764 -TATTATATATAATAAAAATAT
1 TTA-AATAT-TAATAAAAATAT
16238785 AATTTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.14
22 17 0.47
23 14 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAATATTAATAAAAATATTA
Found at i:16238791 original size:22 final size:22
Alignment explanation
Indices: 16238716--16238824 Score: 86
Period size: 23 Copynumber: 5.0 Consensus size: 22
16238706 TTATTTAATT
*
16238716 TTATTTAAATATTAATAAAAATA
1 TTATTTATATA-TAATAAAAATA
* *
16238739 TTATTAATATTTTAAT-AAAATA
1 TTATTTATA-TATAATAAAAATA
16238761 TTATATTATATATAATAAAAATA
1 TTAT-TTATATATAATAAAAATA
*
16238784 TAATTTAT-T-T--TAAAAATA
1 TTATTTATATATAATAAAAATA
16238802 -TATTTATGAATATAATAATAAAT
1 TTATTTAT--ATATAATAA-AAAT
16238825 TAAAATCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.09
18 8 0.12
20 2 0.03
21 2 0.03
22 19 0.28
23 27 0.39
24 5 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TTATTTATATATAATAAAAATA
Found at i:16238805 original size:43 final size:43
Alignment explanation
Indices: 16238724--16238824 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 43
16238714 TTTTATTTAA
* *
16238724 ATAT-TAATAAAAATATTATTAATATTTTAATAAAATATTATATT
1 ATATATAATAAAAATATAATT-ATATTTTAATAAAATATT-TATG
16238768 ATATATAATAAAAATATAATT-TATTTTAA-AAATATATTTATG
1 ATATATAATAAAAATATAATTATATTTTAATAAA-ATATTTATG
16238810 A-ATATAATAATAAAT
1 ATATATAATAA-AAAT
16238825 TAAAATCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
41 9 0.17
42 11 0.21
43 13 0.25
44 4 0.08
45 15 0.29
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (43 bp):
ATATATAATAAAAATATAATTATATTTTAATAAAATATTTATG
Found at i:16239074 original size:18 final size:18
Alignment explanation
Indices: 16239033--16239074 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16239023 AAAAAAGAAT
16239033 AAATAAAAATTAATTAAA
1 AAATAAAAATTAATTAAA
*
16239051 ACAATAAAAA-TAGTTAAA
1 A-AATAAAAATTAATTAAA
16239069 CAAATA
1 -AAATA
16239075 TTAATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAAAAATTAATTAAA
Found at i:16241443 original size:9 final size:9
Alignment explanation
Indices: 16241429--16241462 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
16241419 AAATTTATCC
16241429 AAATAAAAT
1 AAATAAAAT
16241438 AAAT-AAAT
1 AAATAAAAT
*
16241446 AAATAAAAG
1 AAATAAAAT
16241455 AAATAAAA
1 AAATAAAA
16241463 AGGAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:16241451 original size:17 final size:17
Alignment explanation
Indices: 16241429--16241461 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16241419 AAATTTATCC
*
16241429 AAATAAAATAAATAAAT
1 AAATAAAAGAAATAAAT
16241446 AAATAAAAGAAATAAA
1 AAATAAAAGAAATAAA
16241462 AAGGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAAGAAATAAAT
Found at i:16244655 original size:27 final size:26
Alignment explanation
Indices: 16244608--16244665 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
16244598 CTCATTGAAT
* *
16244608 TTTTTTTTCAATTGCAGCTATAATAA
1 TTTTTTTTCAAATGCAACTATAATAA
* *
16244634 CTTTTTTTTCAAATGTAACTATAGTAA
1 -TTTTTTTTCAAATGCAACTATAATAA
16244661 TTTTT
1 TTTTT
16244666 ATTACTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.53
Consensus pattern (26 bp):
TTTTTTTTCAAATGCAACTATAATAA
Found at i:16246226 original size:18 final size:19
Alignment explanation
Indices: 16246185--16246232 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
16246175 TTAATTTTTT
16246185 ACAAATA-TATTTTCTATTA
1 ACAAATATTA-TTTCTATTA
16246204 A-AAATATTATTT-TATTA
1 ACAAATATTATTTCTATTA
*
16246221 ACAAATCTTATT
1 ACAAATATTATT
16246233 ATAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.23
18 17 0.65
19 3 0.12
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (19 bp):
ACAAATATTATTTCTATTA
Found at i:16247751 original size:100 final size:101
Alignment explanation
Indices: 16247570--16247751 Score: 296
Period size: 100 Copynumber: 1.8 Consensus size: 101
16247560 AGTAACACTT
16247570 AAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAAATTTCACAAGATATTGGCTACCTTGT
1 AAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAAATTTCACAAGATATTGGCTACCTTGT
*
16247635 AATTGGTTAAAAAAAAACCTTTTCCTTTTACTATTG
66 AAGTGGTTAAAAAAAAACCTTTTCCTTTTACTATTG
* * * *
16247671 AAAAAT-TTAATTGATCACTAATTATTTTTAAAAG-AAAATTTCTATAAGATATTTGTTACCTTG
1 AAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAAATTTC-ACAAGATATTGGCTACCTTG
16247734 TAAGTGGTTAAAAAAAAA
65 TAAGTGGTTAAAAAAAAA
16247752 AAACCTTTGC
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
99 8 0.11
100 61 0.81
101 6 0.08
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (101 bp):
AAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAAATTTCACAAGATATTGGCTACCTTGT
AAGTGGTTAAAAAAAAACCTTTTCCTTTTACTATTG
Found at i:16259856 original size:13 final size:13
Alignment explanation
Indices: 16259838--16259862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16259828 AGTGTATTTT
16259838 ATTTTTTTTTGTA
1 ATTTTTTTTTGTA
16259851 ATTTTTTTTTGT
1 ATTTTTTTTTGT
16259863 TGATTATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (13 bp):
ATTTTTTTTTGTA
Found at i:16264094 original size:20 final size:20
Alignment explanation
Indices: 16264040--16264094 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
16264030 ATTTGATAAG
*
16264040 ATAAAAAAATA-ATTATAAA
1 ATAAAAAAATATATTAAAAA
* *
16264059 AGAAGAATAATGATATTAAAAA
1 ATAA-AAAAAT-ATATTAAAAA
16264081 ATAAAAAAATATAT
1 ATAAAAAAATATAT
16264095 AAATAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.11
20 9 0.32
21 6 0.21
22 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (20 bp):
ATAAAAAAATATATTAAAAA
Found at i:16269351 original size:28 final size:29
Alignment explanation
Indices: 16269304--16269358 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
16269294 TTTTATTATT
* *
16269304 ATATTAATTATAATTCATT-ATAAAAATA
1 ATATTAATTATAACTAATTAATAAAAATA
*
16269332 ATATTAATTATTACTAATTAATAAAAA
1 ATATTAATTATAACTAATTAATAAAAA
16269359 ATTAATCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATTAATTATAACTAATTAATAAAAATA
Found at i:16273237 original size:14 final size:13
Alignment explanation
Indices: 16273217--16273260 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
16273207 GTTTTTGTAC
16273217 TTATTTGTTTTTA
1 TTATTTGTTTTTA
16273230 TATATTTGTTTATTCA
1 T-TATTTGTTT-TT-A
*
16273246 TTATTTATTTTTA
1 TTATTTGTTTTTA
16273259 TT
1 TT
16273261 TAGGTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 11 0.41
15 10 0.37
16 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (13 bp):
TTATTTGTTTTTA
Found at i:16274028 original size:44 final size:45
Alignment explanation
Indices: 16273978--16274065 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
16273968 TTAACCTTTT
16273978 GTTTATTTTGTA-ACTTATGATTTTTT-ATGTGTACTAATTTATTA
1 GTTTATTTTGTAGA-TTATGATTTTTTCATGTGTACTAATTTATTA
* *
16274022 GTTTATTTTGTAGATTTTGATTTTTTCATGTGTCCTAATTTATT
1 GTTTATTTTGTAGATTATGATTTTTTCATGTGTACTAATTTATT
16274066 TGATTGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 23 0.57
45 17 0.43
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (45 bp):
GTTTATTTTGTAGATTATGATTTTTTCATGTGTACTAATTTATTA
Found at i:16277976 original size:7 final size:7
Alignment explanation
Indices: 16277964--16278012 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
16277954 AATGACAAAG
16277964 AAGAAAA
1 AAGAAAA
16277971 AAG-AAA
1 AAGAAAA
16277977 AAGAAAGA
1 AAGAAA-A
*
16277985 AAGGAAA
1 AAGAAAA
*
16277992 AAGGAAA
1 AAGAAAA
16277999 AA-AAAA
1 AAGAAAA
16278005 AAGAAAA
1 AAGAAAA
16278012 A
1 A
16278013 CTTAAATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 11 0.30
7 20 0.54
8 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:16277987 original size:24 final size:22
Alignment explanation
Indices: 16277960--16278009 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
16277950 AAAGAATGAC
16277960 AAAGAAGAAAAAAGAAAAAGAAA
1 AAAGAAGAAAAAAGAAAAA-AAA
*
16277983 GAAAG--GAAAAAGGAAAAAAAA
1 -AAAGAAGAAAAAAGAAAAAAAA
16278004 AAAGAA
1 AAAGAA
16278010 AAACTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
20 4 0.17
21 3 0.13
22 12 0.52
24 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAGAAGAAAAAAGAAAAAAAA
Found at i:16278004 original size:12 final size:12
Alignment explanation
Indices: 16277944--16278012 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 12
16277934 AGAGATGTGG
16277944 AAAAAAAAAGAA
1 AAAAAAAAAGAA
* * *
16277956 TGACAAAGAAGAA
1 -AAAAAAAAAGAA
16277969 AAAAGAAAAAGAA
1 AAAA-AAAAAGAA
16277982 AGAAAGGAAAAAGGAA
1 A-AAA--AAAAA-GAA
16277998 AAAAAAAAAGAA
1 AAAAAAAAAGAA
16278010 AAA
1 AAA
16278013 CTTAAATTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 8 0.17
13 22 0.48
14 3 0.07
15 9 0.20
16 4 0.09
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:16279299 original size:39 final size:40
Alignment explanation
Indices: 16279242--16279348 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
16279232 GACGGTGGAA
* * *
16279242 CATTTTAAATTTCCAAAGTTCCAAAGCCTCGAT-CGGGAG
1 CATTTTAAATTTTCAAAGTTTCAAAACCTCGATGCGGGAG
* * * * * *
16279281 TATTTTAAATTTTTAAAGTTTTAAAACCTTGGTGGGGGAG
1 CATTTTAAATTTTCAAAGTTTCAAAACCTCGATGCGGGAG
16279321 CATTTTAAATTTTCAAAGTTTCAAAACC
1 CATTTTAAATTTTCAAAGTTTCAAAACC
16279349 CCTGATGAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 25 0.45
40 30 0.55
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (40 bp):
CATTTTAAATTTTCAAAGTTTCAAAACCTCGATGCGGGAG
Found at i:16284907 original size:27 final size:27
Alignment explanation
Indices: 16284869--16284925 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16284859 AACACAATTT
* *
16284869 TTATATTAATTTAAAGCAA-TATCTTA
1 TTATATTAATTTAAAACAACTATATTA
*
16284895 TTATGATTTATTTAAAACAACTATATTA
1 TTAT-ATTAATTTAAAACAACTATATTA
16284923 TTA
1 TTA
16284926 ATATGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 13 0.50
28 9 0.35
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (27 bp):
TTATATTAATTTAAAACAACTATATTA
Found at i:16285774 original size:4 final size:4
Alignment explanation
Indices: 16285758--16285832 Score: 66
Period size: 4 Copynumber: 19.5 Consensus size: 4
16285748 TTATCTCATT
* * *
16285758 TATA TACA TATA TATA TACA TA-A TATA TATA CATA TATA TATA T-TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
16285804 TGTA TATG TATT TATA TAT- TATG TATA TA
1 TATA TATA TATA TATA TATA TATA TATA TA
16285833 ATACGTGATG
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
3 9 0.16
4 49 0.84
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (4 bp):
TATA
Found at i:16285809 original size:21 final size:21
Alignment explanation
Indices: 16285769--16285830 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
16285759 ATATACATAT
* * *
16285769 ATATATACATAATATATATAC
1 ATATATATATATTATGTATAC
*
16285790 ATATATATATATTATGTATAT
1 ATATATATATATTATGTATAC
* *
16285811 GTATTTATATATTATGTATA
1 ATATATATATATTATGTATA
16285831 TAATACGTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATATATATATTATGTATAC
Found at i:16285809 original size:25 final size:25
Alignment explanation
Indices: 16285758--16285832 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
16285748 TTATCTCATT
* *
16285758 TATATACATATATATATA-CATAATA
1 TATATACATATATATATATTAT-GTA
16285783 TATATACATATATATATATTATGTA
1 TATATACATATATATATATTATGTA
*
16285808 TATGT--AT-T-TATATATTATGTA
1 TATATACATATATATATATTATGTA
16285829 TATA
1 TATA
16285833 ATACGTGATG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 16 0.36
22 1 0.02
23 2 0.04
25 24 0.53
26 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
TATATACATATATATATATTATGTA
Found at i:16288008 original size:32 final size:32
Alignment explanation
Indices: 16287956--16288024 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
16287946 TCTATTCCAA
* * * *
16287956 GAAAAGTAGTAGATATGACAATTAATGCTTAT
1 GAAATGTAGTAAATACGACAATTAATGCATAT
16287988 GAAATGTAGTAAATACGACAATTAATGCATAT
1 GAAATGTAGTAAATACGACAATTAATGCATAT
16288020 GAAAT
1 GAAAT
16288025 CATAGAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (32 bp):
GAAATGTAGTAAATACGACAATTAATGCATAT
Found at i:16288204 original size:65 final size:64
Alignment explanation
Indices: 16288061--16288206 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 64
16288051 ATTTAACTTT
* *
16288061 AAAGAAATGCAGTAATTAATTATACACATGGTTTAAAAAATGAACAATTATTACACTTTGCTTC
1 AAAGAAATGCAGTAATTAATTATACACATGGTTTAAAAAATAAACAATTATTACACTTTGCTTA
* * * *
16288125 GAAGAAACGTAGTAATTAATTATACACAT-G-TTACATTACAATAAACAATTATTACA-TTT-CT
1 AAAGAAATGCAGTAATTAATTATACACATGGTTTA-A--AAAATAAACAATTATTACACTTTGC-
16288186 ATTA
62 -TTA
16288190 AAAGAAATGCAGTAATT
1 AAAGAAATGCAGTAATT
16288207 GAGCTTTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 29 0.43
65 33 0.49
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (64 bp):
AAAGAAATGCAGTAATTAATTATACACATGGTTTAAAAAATAAACAATTATTACACTTTGCTTA
Found at i:16292765 original size:17 final size:17
Alignment explanation
Indices: 16292743--16292785 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16292733 ATTTAATTCC
16292743 AATTTTGAAAATTAAAA
1 AATTTTGAAAATTAAAA
** * *
16292760 AATTTTTCAATTTAAGA
1 AATTTTGAAAATTAAAA
16292777 AATTTTGAA
1 AATTTTGAA
16292786 TCTTGAGACT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (17 bp):
AATTTTGAAAATTAAAA
Found at i:16296102 original size:15 final size:16
Alignment explanation
Indices: 16296080--16296116 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16296070 GACCCTAACA
* *
16296080 TAAAAAAATTCAAATC
1 TAAAAAACTTCAAACC
16296096 TAAAAAACTTCAAACC
1 TAAAAAACTTCAAACC
16296112 TAAAA
1 TAAAA
16296117 TAACCCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAAACTTCAAACC
Found at i:16300424 original size:2 final size:2
Alignment explanation
Indices: 16300417--16300442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16300407 TAACCAAAAG
16300417 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
16300443 AGTAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16301677 original size:22 final size:22
Alignment explanation
Indices: 16301651--16301692 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16301641 TGTATATTTA
* *
16301651 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
16301673 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
16301693 GGATAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:16301949 original size:25 final size:25
Alignment explanation
Indices: 16301897--16301969 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 25
16301887 GGGAAGCAAA
* *
16301897 ATTTTCAGCCTTCATTGCTAACTTCT
1 ATTTT-AGCCTTCATTGCGAACTCCT
16301923 ATTTTAGCCTTCATTGCCGAA-TCCT
1 ATTTTAGCCTTCATTG-CGAACTCCT
16301948 A-TTTAGGCCTTCATTGTCGAAC
1 ATTTTA-GCCTTCATTG-CGAAC
16301970 CTTTTCAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.10
25 29 0.71
26 8 0.20
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (25 bp):
ATTTTAGCCTTCATTGCGAACTCCT
Found at i:16305501 original size:14 final size:14
Alignment explanation
Indices: 16305478--16305513 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
16305468 GCAATGCAAC
16305478 ATTT-CAAGAAATT
1 ATTTCCAAGAAATT
16305491 ATTTCCAAGAAATT
1 ATTTCCAAGAAATT
16305505 ATTTCCAAG
1 ATTTCCAAG
16305514 CTGGGAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (14 bp):
ATTTCCAAGAAATT
Found at i:16305632 original size:22 final size:22
Alignment explanation
Indices: 16305606--16305647 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16305596 TGTATATTTA
* *
16305606 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
16305628 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
16305648 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:16305989 original size:20 final size:20
Alignment explanation
Indices: 16305964--16306007 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
16305954 TCTCTTAGCT
*
16305964 TAATATCCCTTAACATGTGA
1 TAATATCCCTTAACATGGGA
*
16305984 TAATATCCTTTAACATGGGA
1 TAATATCCCTTAACATGGGA
16306004 TAAT
1 TAAT
16306008 CTCATTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
TAATATCCCTTAACATGGGA
Found at i:16319083 original size:24 final size:25
Alignment explanation
Indices: 16319056--16319129 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
16319046 TTATTTATTT
*
16319056 AATTTTATATTTATATATTAGT-AA
1 AATTTTATATTTATATATTAATAAA
* *
16319080 AATTGTTAT-TTAATATTTTAATAAA
1 AATT-TTATATTTATATATTAATAAA
*
16319105 AATATTATATTTATATA-TAATAAA
1 AATTTTATATTTATATATTAATAAA
16319129 A
1 A
16319130 GTATAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 26 0.63
25 15 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
AATTTTATATTTATATATTAATAAA
Found at i:16319427 original size:18 final size:18
Alignment explanation
Indices: 16319386--16319427 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16319376 AAATAAGAAT
16319386 AAATAAAAATTAATTAAA
1 AAATAAAAATTAATTAAA
*
16319404 ACAATAAAAA-TATTTAAA
1 A-AATAAAAATTAATTAAA
16319422 CAAATA
1 -AAATA
16319428 TTAATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAAATTAATTAAA
Found at i:16321822 original size:16 final size:14
Alignment explanation
Indices: 16321782--16321824 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
16321772 TCCAAATAAA
16321782 AAAAATAAAATAAAT
1 AAAAATAAAA-AAAT
* *
16321797 AAAAAGAAAAAATT
1 AAAAATAAAAAAAT
16321811 ATAAAATAAAAAAA
1 A-AAAATAAAAAAA
16321825 GCTCATAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:16322480 original size:15 final size:15
Alignment explanation
Indices: 16322444--16322482 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16322434 AAAAATTGAC
16322444 AAAAAAAGCAAAAAT
1 AAAAAAAGCAAAAAT
* *
16322459 TAAAAAAGCAAAAAA
1 AAAAAAAGCAAAAAT
16322474 AATAAAAAG
1 AA-AAAAAG
16322483 TTAACACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAGCAAAAAT
Found at i:16324124 original size:7 final size:8
Alignment explanation
Indices: 16324100--16324166 Score: 59
Period size: 8 Copynumber: 8.8 Consensus size: 8
16324090 CAACTAAGAT
16324100 ATCTAAAC
1 ATCTAAAC
*
16324108 ATCAAAAC
1 ATCTAAAC
16324116 AT-TAAAC
1 ATCTAAAC
*
16324123 ATCTAACC
1 ATCTAAAC
16324131 ATCT-AA-
1 ATCTAAAC
*
16324137 ATTTAAAC
1 ATCTAAAC
* *
16324145 ATCAAAAT
1 ATCTAAAC
*
16324153 ATCAAAAC
1 ATCTAAAC
16324161 ATCTAA
1 ATCTAA
16324167 TGAAAGTTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
6 3 0.07
7 9 0.20
8 34 0.74
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (8 bp):
ATCTAAAC
Found at i:16325007 original size:27 final size:27
Alignment explanation
Indices: 16324949--16325007 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
16324939 CTCATTGAAT
* * *
16324949 TTTTTTTTTCAATTGCAGCTGTAATAA
1 TTTTTTTTTCAAATGCAACTATAATAA
* * *
16324976 CTTTTTTTTCAAATGTAACTATAGTAA
1 TTTTTTTTTCAAATGCAACTATAATAA
16325003 TTTTT
1 TTTTT
16325008 ATTACTGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (27 bp):
TTTTTTTTTCAAATGCAACTATAATAA
Found at i:16326552 original size:18 final size:19
Alignment explanation
Indices: 16326511--16326558 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
16326501 TTAATTTTTT
16326511 ACAAATATATTTTCTATTA
1 ACAAATATATTTTCTATTA
16326530 A-AAATAT-TATTT-TATTA
1 ACAAATATAT-TTTCTATTA
16326547 ACAAATCATATT
1 ACAAAT-ATATT
16326559 ATTATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 7 0.28
18 13 0.52
19 4 0.16
20 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (19 bp):
ACAAATATATTTTCTATTA
Found at i:16326842 original size:20 final size:20
Alignment explanation
Indices: 16326806--16326843 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16326796 GGTATTGAAT
*
16326806 TTTTTAAAAAAGAATTTTAA
1 TTTTTAAAAAACAATTTTAA
*
16326826 TTTTTAAAAAACTATTTT
1 TTTTTAAAAAACAATTTT
16326844 CTATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTTAAAAAACAATTTTAA
Found at i:16327758 original size:21 final size:20
Alignment explanation
Indices: 16327717--16327754 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16327707 GAATTTAACT
*
16327717 TTTTTTAATTTATCTTTAGA
1 TTTTTTAATTTATCTTAAGA
16327737 TTTTTTAAGTTTAT-TTAA
1 TTTTTTAA-TTTATCTTAA
16327755 AGATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTTAATTTATCTTAAGA
Found at i:16328063 original size:98 final size:98
Alignment explanation
Indices: 16327891--16328070 Score: 283
Period size: 98 Copynumber: 1.8 Consensus size: 98
16327881 TTAGTAACAC
16327891 TTAAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAATTTTCACAAGATATTGGCTACCTT
1 TTAAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAATTTTCACAAGATATTGGCTACCTT
*
16327956 GTAATTGGTTAAAAAAACCTTTGCCTTTTACTA
66 GTAAGTGGTTAAAAAAACCTTTGCCTTTTACTA
* * * *
16327989 TTAAACAAT-TTAATTGATCACTAATTATTTTTAAAAG-AAAGTTTCTATAAGATATTTGCTACC
1 TTAAA-AATCTTAAATGATCACTAATTATTTTTAAAAGAAAATTTTC-ACAAGATATTGGCTACC
16328052 TTGTAAGTGGTTAAAAAAA
64 TTGTAAGTGGTTAAAAAAA
16328071 AAAAAAAAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
97 7 0.09
98 65 0.87
99 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (98 bp):
TTAAAAATCTTAAATGATCACTAATTATTTTTAAAAGAAAATTTTCACAAGATATTGGCTACCTT
GTAAGTGGTTAAAAAAACCTTTGCCTTTTACTA
Found at i:16348585 original size:13 final size:12
Alignment explanation
Indices: 16348567--16348615 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
16348557 AATCTATTTA
16348567 AATATTTAAAAAT
1 AATA-TTAAAAAT
16348580 AATATT-AAAAT
1 AATATTAAAAAT
*
16348591 AATATAAAAAAT
1 AATATTAAAAAT
*
16348603 AAAATTTAAAAAT
1 AATA-TTAAAAAT
16348616 TAATGAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 10 0.32
12 10 0.32
13 11 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATTAAAAAT
Found at i:16349080 original size:17 final size:19
Alignment explanation
Indices: 16349055--16349096 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
16349045 TATTTAATTT
*
16349055 ATTTCAAATATAAAA-A-A
1 ATTTAAAATATAAAATATA
*
16349072 ATTTAAAATTTAAAATATA
1 ATTTAAAATATAAAATATA
16349091 ATTTAA
1 ATTTAA
16349097 TTTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
18 1 0.05
19 7 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTAAAATATAAAATATA
Found at i:16349196 original size:28 final size:28
Alignment explanation
Indices: 16349165--16349254 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
16349155 TTAGATTTTT
16349165 AAAATTAATAAATTTATTTGGATTAATA
1 AAAATTAATAAATTTATTTGGATTAATA
* * *
16349193 AAAA-TAAAATAATATAATTTGG-TTAATTT
1 AAAATTAATA-AAT-TTATTTGGATTAA-TA
*
16349222 GAAATTAATAAATTTATTTGGATTAATA
1 AAAATTAATAAATTTATTTGGATTAATA
16349250 AAAAT
1 AAAAT
16349255 AAAATAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
27 4 0.08
28 23 0.47
29 18 0.37
30 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (28 bp):
AAAATTAATAAATTTATTTGGATTAATA
Found at i:16349212 original size:29 final size:28
Alignment explanation
Indices: 16349171--16349269 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 28
16349161 TTTTAAAATT
*
16349171 AATAAATTTATTTGGATTAATAAAAATAA
1 AATAAA-TAATTTGGATTAATAAAAATAA
** *
16349200 AATAATATAATTTGG-TTAATTTGAAAT-T
1 AATAA-ATAATTTGGATTAA-TAAAAATAA
*
16349228 AATAAATTTATTTGGATTAATAAAAATAA
1 AATAAA-TAATTTGGATTAATAAAAATAA
16349257 AATAAAATAATTT
1 AAT-AAATAATTT
16349270 AATTTGAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
27 1 0.02
28 21 0.38
29 29 0.53
30 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (28 bp):
AATAAATAATTTGGATTAATAAAAATAA
Found at i:16349234 original size:57 final size:53
Alignment explanation
Indices: 16349166--16349283 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 53
16349156 TAGATTTTTA
*
16349166 AAATTAATAAATTTATTTGGATTAATAAAAATAAAATAATATAATTTGGTTAATTTG
1 AAATTAATAAATTTATTTGGATTAATAAAAATAAAATAAAATAA--T--TTAATTTG
16349223 AAATTAATAAATTTATTTGGATTAATAAAAATAAAATAAAATAATTTAATTTG
1 AAATTAATAAATTTATTTGGATTAATAAAAATAAAATAAAATAATTTAATTTG
16349276 AAATTAAT
1 AAATTAAT
16349284 TGAATTAACT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
53 16 0.27
55 1 0.02
57 43 0.72
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (53 bp):
AAATTAATAAATTTATTTGGATTAATAAAAATAAAATAAAATAATTTAATTTG
Found at i:16353059 original size:15 final size:15
Alignment explanation
Indices: 16353039--16353070 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16353029 ACAAAATCTC
16353039 TAAGTTTTCGAAGAA
1 TAAGTTTTCGAAGAA
*
16353054 TAAGTTTTTGAAGAA
1 TAAGTTTTCGAAGAA
16353069 TA
1 TA
16353071 TTTGCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (15 bp):
TAAGTTTTCGAAGAA
Found at i:16354515 original size:57 final size:57
Alignment explanation
Indices: 16354433--16355122 Score: 714
Period size: 56 Copynumber: 12.1 Consensus size: 57
16354423 TTTTTTTAGC
* * * * *
16354433 TAAAAATAATTTCAAAAAAA--ATTTGAGAAAAAATTAAAATAACAAATTTTCTTAAA
1 TAAAAA-AATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
*
16354489 TAAAAAAATTTCAAAAAAATGTTTTGA-AGAAAAGTTGAAATATCAAATTTTCTTAAGTAAA
1 TAAAAAAATTTCAAAAAAATGTTTTGAGA-AAAAGTTGAAATATCAATTTTTC-T---TAAA
* *
16354550 CAAATAAAATTTCAAAAAAATGTTTTGAGAAAAAGATGAAATATCAATTTTTCTTAAA
1 TAAA-AAAATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
* * *
16354608 TAAAAAAATTTC-AAAAATTATTTTGAGGAAAAA-TTGAAGTATCAATTTTTCTTAAA
1 TAAAAAAATTTCAAAAAAATGTTTTGA-GAAAAAGTTGAAATATCAATTTTTCTTAAA
* * * * * *
16354664 TAAAAAAAATTTCAAAATAATATTTTGAGGAAAAGTTGAAGTATTAATTTTTTTTAAA
1 T-AAAAAAATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
* * * * *
16354722 TAAAAAAATTTC-AAAAAATATTTTAAGGAAAAGTTGAAATATCAATTTTTTTTGAA
1 TAAAAAAATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
* * * *
16354778 T-AAAAAATTT-TAAAAAATCTTTTAAGGAAAAGTTGAAATATCAATTTTTCTTAAA
1 TAAAAAAATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
* * * *
16354833 T-AAAAAATTTCAAAAAAATGTTTTGAGGAGAAGTTGAAGTATTAA-TTTTCTTTAAA
1 TAAAAAAATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTC-TTAAA
* * *
16354889 TAAAAAAATATTTC-AAAAAATATTTTAAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
1 T-AAAAAA-ATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
*
16354947 TAAAAAATATTTC-AAAAAATG-CTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
1 TAAAAAA-ATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
* * * *
16355003 TAAAAAAATATTTTAAAAAAA-G-TTTGAGAAAAAGTTGAAGTATTAATTTTTCTAAAA
1 T-AAAAAA-ATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
* * *
16355060 TAAAAAATATTTC--CAAAAT-ATTTGAGAAAAAAGTTGAAAGCATCAATTTTTTCTTAAA
1 TAAAAAA-ATTTCAAAAAAATGTTTTGAG-AAAAAGTTGAAA-TATCAA-TTTTTCTTAAA
16355118 TAAAA
1 TAAAA
16355123 TATTAATTTT
Statistics
Matches: 556, Mismatches: 51, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
54 4 0.01
55 84 0.15
56 170 0.31
57 133 0.24
58 102 0.18
59 10 0.02
61 8 0.01
62 44 0.08
63 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (57 bp):
TAAAAAAATTTCAAAAAAATGTTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
Found at i:16354727 original size:114 final size:113
Alignment explanation
Indices: 16354433--16355122 Score: 761
Period size: 114 Copynumber: 6.0 Consensus size: 113
16354423 TTTTTTTAGC
* * * * * * *
16354433 TAAAAATAATTTCAAAAAA-AATTTGAGAAAAAATTAAAATAACAAATTTTCTTAAATAAAAAAA
1 TAAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAA
* * * *
16354497 TTTCAAAAAAATGTTTTGAAGAAAAGTTGAAATATCAAATTTTCTTAAGTA
66 TTTC-AAAAAATATTTTGAGGAAAAATTGAAATATCAATTTTTCTTAA--A
* * * *
16354548 AACAAATAAAATTTCAAAAAAATGTTTTGAGAAAAAGATGAAATATCAATTTTTCTTAAATAAAA
1 TA-AAA-AAAATTTC-AAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAA
* *
16354613 AAATTTCAAAAATTATTTTGAGGAAAAATTGAAGTATCAATTTTTCTTAAA
63 AAATTTCAAAAAATATTTTGAGGAAAAATTGAAATATCAATTTTTCTTAAA
* * *
16354664 TAAAAAAAATTTCAAAATAATATTTTGAGGAAAAGTTGAAGTATTAATTTTTTTTAAATAAAAAA
1 TAAAAAAAATTTCAAAA-AATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAA
* * * *
16354729 ATTTCAAAAAATATTTTAAGGAAAAGTTGAAATATCAATTTTTTTTGAA
65 ATTTCAAAAAATATTTTGAGGAAAAATTGAAATATCAATTTTTCTTAAA
* * * * *
16354778 T--AAAAAATTTTAAAAAATCTTTTAAGGAAAAGTTGAAATATCAATTTTTCTTAAAT-AAAAAA
1 TAAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAA
* * * * *
16354840 TTTCAAAAAAATGTTTTGAGGAGAAGTTGAAGTATTAA-TTTTCTTTAAA
66 TTTC-AAAAAATATTTTGAGGAAAAATTGAAATATCAATTTTTC-TTAAA
*
16354889 TAAAAAAATATTTCAAAAAATATTTTAAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAA
1 TAAAAAAA-ATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAA
**
16354954 TATTTCAAAAAAT-GCTTGA-GAAAAAGTTGAAATATCAATTTTTCTTAAA
65 -ATTTCAAAAAATATTTTGAGGAAAAA-TTGAAATATCAATTTTTCTTAAA
* * * *
16355003 TAAAAAAATATTTTAAAAAA-AGTTTGAGAAAAAGTTGAAGTATTAATTTTTCTAAAATAAAAAA
1 TAAAAAAA-ATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAA
* * *
16355067 TATTTC-CAAAATA-TTTGAGAAAAAAGTTGAAAGCATCAATTTTTTCTTAAA
65 -ATTTCAAAAAATATTTTGAGGAAAAA-TTGAAA-TATCAA-TTTTTCTTAAA
16355118 TAAAA
1 TAAAA
16355123 TATTAATTTT
Statistics
Matches: 497, Mismatches: 60, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
110 14 0.03
111 69 0.14
112 22 0.04
113 71 0.14
114 182 0.37
115 37 0.07
116 10 0.02
117 7 0.01
118 43 0.09
119 42 0.08
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (113 bp):
TAAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAA
TTTCAAAAAATATTTTGAGGAAAAATTGAAATATCAATTTTTCTTAAA
Found at i:16355141 original size:24 final size:24
Alignment explanation
Indices: 16355104--16355149 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16355094 TGAAAGCATC
16355104 AATTTTTTCTT-AAATAAAATATT
1 AATTTTTTCTTAAAATAAAATATT
*
16355127 AATTTTTTTTGTAAAATAAAATA
1 AATTTTTTCT-TAAAATAAAATA
16355150 AAAAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTTTTCTTAAAATAAAATATT
Found at i:16360106 original size:17 final size:17
Alignment explanation
Indices: 16360084--16360124 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16360074 AAAATTTTAA
* *
16360084 ATAAAACAAATAATATG
1 ATAAAAAAAACAATATG
16360101 ATAAAAAAAACAATATG
1 ATAAAAAAAACAATATG
16360118 A-AAAAAA
1 ATAAAAAA
16360125 TATGAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (17 bp):
ATAAAAAAAACAATATG
Found at i:16361289 original size:2 final size:2
Alignment explanation
Indices: 16361282--16361306 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16361272 CTTAATTTAT
16361282 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 T
16361307 TTCTTGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16362695 original size:18 final size:18
Alignment explanation
Indices: 16362672--16362742 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
16362662 ATTTGAGAAT
*
16362672 GATACATTTGTGGTGGGG
1 GATACATTTGTGGTGGAG
*
16362690 GATACATTTGTGGTAGAG
1 GATACATTTGTGGTGGAG
* * * *
16362708 GATACATTAGAGATGGAA
1 GATACATTTGTGGTGGAG
16362726 GATACATTTGTGGTGGA
1 GATACATTTGTGGTGGA
16362743 TAATAACCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.28, C:0.06, G:0.35, T:0.31
Consensus pattern (18 bp):
GATACATTTGTGGTGGAG
Found at i:16362697 original size:51 final size:52
Alignment explanation
Indices: 16362640--16362741 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 52
16362630 TTTGTTCTTT
* * * *
16362640 ATACATTTGAGATGGAGGATATATTTGAGA-ATGATACATTTGTGGTGGGGG
1 ATACATTTGAGATAGAGGATACATTAGAGAGAAGATACATTTGTGGTGGGGG
* *
16362691 ATACATTTGTGGTAGAGGATACATTAGAGATGGAAGATACATTTGTGGTGG
1 ATACATTTGAGATAGAGGATACATTAGAGA--GAAGATACATTTGTGGTGG
16362742 ATAATAACCA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 25 0.60
54 17 0.40
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.32
Consensus pattern (52 bp):
ATACATTTGAGATAGAGGATACATTAGAGAGAAGATACATTTGTGGTGGGGG
Found at i:16363263 original size:16 final size:17
Alignment explanation
Indices: 16363233--16363264 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16363223 CATCATTATA
16363233 ATTCTTTTGTTCTATTC
1 ATTCTTTTGTTCTATTC
16363250 ATTCTTTT-TTCTATT
1 ATTCTTTTGTTCTATT
16363265 TGTTTGTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.16, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTCTTTTGTTCTATTC
Found at i:16364912 original size:50 final size:52
Alignment explanation
Indices: 16364873--16365009 Score: 136
Period size: 52 Copynumber: 2.7 Consensus size: 52
16364863 AACTGTAGTT
* *
16364873 GAGAGATTTTTGAGATTTAATTCCAGAATCAATTGGCTTTAATAATGATGTG
1 GAGAGATTATCGAGATTTAATTCCAGAATCAATTGGCTTTAATAATGATGTG
* * ** *
16364925 GAGAGATTATCGGGATTTAATTCCATAATCAATTCACATTAA-AATGATAG-G
1 GAGAGATTATCGAGATTTAATTCCAGAATCAATTGGCTTTAATAATGAT-GTG
** * *
16364976 GAGAGATT-TTTAGGATTTGATTTCAGAATCAATT
1 GAGAGATTATCGA-GATTTAATTCCAGAATCAATT
16365010 CTCATTAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
50 1 0.01
51 33 0.47
52 36 0.51
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (52 bp):
GAGAGATTATCGAGATTTAATTCCAGAATCAATTGGCTTTAATAATGATGTG
Found at i:16364932 original size:52 final size:51
Alignment explanation
Indices: 16364873--16365019 Score: 163
Period size: 51 Copynumber: 2.9 Consensus size: 51
16364863 AACTGTAGTT
** *
16364873 GAGAGATTTTTGAGATTTAATTCCAGAATCAATTGGCTTTAATAATGAT-GTG
1 GAGAGATTTTTGAGATTTAATTCCAGAATCAATTCACATTAA-AATGATAG-G
* * * *
16364925 GAGAGATTATCGGGATTTAATTCCATAATCAATTCACATTAAAATGATAGG
1 GAGAGATTTTTGAGATTTAATTCCAGAATCAATTCACATTAAAATGATAGG
* * *
16364976 GAGAGATTTTT-AGGATTTGATTTCAGAATCAATTCTCATTAAAA
1 GAGAGATTTTTGA-GATTTAATTCCAGAATCAATTCACATTAAAA
16365020 CTGAAATCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
51 43 0.54
52 36 0.46
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (51 bp):
GAGAGATTTTTGAGATTTAATTCCAGAATCAATTCACATTAAAATGATAGG
Found at i:16365538 original size:14 final size:14
Alignment explanation
Indices: 16365514--16365565 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
16365504 CCATTTTCTG
16365514 TTTTGATTTTATTT-
1 TTTT-ATTTTATTTA
16365528 TTCTTATTTTATTTA
1 TT-TTATTTTATTTA
**
16365543 TTTTATTTTGGTTA
1 TTTTATTTTATTTA
16365557 TTTTTATTT
1 -TTTTATTT
16365566 ACTCTTGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:16365545 original size:23 final size:24
Alignment explanation
Indices: 16365519--16365566 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
16365509 TTCTGTTTTG
*
16365519 ATTTTATTTTTCTTA-TTTTATTT
1 ATTTTATTTTGCTTATTTTTATTT
*
16365542 ATTTTATTTTGGTTATTTTTATTT
1 ATTTTATTTTGCTTATTTTTATTT
16365566 A
1 A
16365567 CTCTTGCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (24 bp):
ATTTTATTTTGCTTATTTTTATTT
Found at i:16366539 original size:15 final size:15
Alignment explanation
Indices: 16366504--16366545 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
16366494 TTGAGATTAT
*
16366504 TTTTTTTCTTTCCTA
1 TTTTTTTCTTTTCTA
16366519 TTTTTTTCTTTTC-A
1 TTTTTTTCTTTTCTA
*
16366533 TTGTTTTTATTTT
1 TT-TTTTTCTTTT
16366546 GTTTAGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTTTCTA
Found at i:16369686 original size:22 final size:22
Alignment explanation
Indices: 16369657--16369699 Score: 77
Period size: 22 Copynumber: 1.9 Consensus size: 22
16369647 AAAGGTGTGC
16369657 AAAAAAAAACAAACAAAAAAAGG
1 AAAAAAAAA-AAACAAAAAAAGG
16369680 AAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAACAAAAAAA
16369700 ATTACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAACAAAAAAAGG
Found at i:16369700 original size:12 final size:12
Alignment explanation
Indices: 16369657--16369712 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
16369647 AAAGGTGTGC
16369657 AAAAAAAAACAA
1 AAAAAAAAACAA
16369669 ACAAAAAAAGGA-AA
1 A-AAAAAAA--ACAA
16369683 AAAAAAAAACAA
1 AAAAAAAAACAA
**
16369695 AAAAAATTACAA
1 AAAAAAAAACAA
16369707 AAAAAA
1 AAAAAA
16369713 GAGATAGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 1 0.03
12 19 0.50
13 14 0.37
14 3 0.08
15 1 0.03
ACGTcount: A:0.86, C:0.07, G:0.04, T:0.04
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:16370754 original size:115 final size:115
Alignment explanation
Indices: 16370603--16370833 Score: 302
Period size: 115 Copynumber: 2.0 Consensus size: 115
16370593 TTTTCCTAAA
* * * * *
16370603 TTGTGACATCATCTTGGTCATTCATCTTTGACCTCAATTCGATCCTGATCA-TTTTCAAACTCAT
1 TTGTGACATCATCTCGATCATTCATCTTCGACCTCAACTCGATCCTGATCACTTTT-AAACTCAC
** *
16370667 GACATTGTCTCGATCATTCGATCTTAGCTTAGTCCAGATCATTTTTTTGAC
65 GACATCATCTCGATCATTCGATCTTAACTTAGTCCAGATCATTTTTTTGAC
* * * * * *
16370718 TTGTGACATCTTCTCGATCATTCATCTTCGATCTCAACTCGATCTTGGTTACTTTTAGACTCACG
1 TTGTGACATCATCTCGATCATTCATCTTCGACCTCAACTCGATCCTGATCACTTTTAAACTCACG
* *
16370783 ATATCATCTCGATCATTCGATCTTAACTTAGTCTAGATCATTTTTTTGAC
66 ACATCATCTCGATCATTCGATCTTAACTTAGTCCAGATCATTTTTTTGAC
16370833 T
1 T
16370834 CACTGCATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
115 95 0.96
116 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (115 bp):
TTGTGACATCATCTCGATCATTCATCTTCGACCTCAACTCGATCCTGATCACTTTTAAACTCACG
ACATCATCTCGATCATTCGATCTTAACTTAGTCCAGATCATTTTTTTGAC
Found at i:16370904 original size:115 final size:113
Alignment explanation
Indices: 16370620--16370905 Score: 299
Period size: 115 Copynumber: 2.5 Consensus size: 113
16370610 ATCATCTTGG
* * * **
16370620 TCATTCATCTTTGACCTCAATTCGATCCTGATCATTTTCAAACTCATGACATTGTCTCGATCATT
1 TCATTCATC-TTGACCTCAACTCGATCCTGGTCATTTTC-AACTCACGACATCATCTCGATCATT
* ** *
16370685 CGATCTTAGCTTAGTCCAGATCATTTTTTTGACTTGTGACATCTTCTCGA
64 CGATCTTAACTTAGTCCAGATCATTTTTTTGACTACTGACATATTCTCGA
* * * *
16370735 TCATTCATCTTCGATCTCAACTCGATCTTGGTTACTTTT-AGACTCACGATATCATCTCGATCAT
1 TCATTCATCTT-GACCTCAACTCGATCCTGGTCA-TTTTCA-ACTCACGACATCATCTCGATCAT
* *
16370799 TCGATCTTAACTTAGTCTAGATCATTTTTTTGACTCACTG-CATAATT-TTGA
63 TCGATCTTAACTTAGTCCAGATCATTTTTTTGACT-ACTGACAT-ATTCTCGA
* * * *
16370850 TCATTCATCTATGACCTCGACTCGGTCCTGGTCATTTTCAATTTAGCGACATCATC
1 TCATTCATCT-TGACCTCAACTCGATCCTGGTCATTTTCAACTCA-CGACATCATC
16370906 CTGGCCATTC
Statistics
Matches: 140, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
114 10 0.07
115 121 0.86
116 9 0.06
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.40
Consensus pattern (113 bp):
TCATTCATCTTGACCTCAACTCGATCCTGGTCATTTTCAACTCACGACATCATCTCGATCATTCG
ATCTTAACTTAGTCCAGATCATTTTTTTGACTACTGACATATTCTCGA
Found at i:16371254 original size:18 final size:17
Alignment explanation
Indices: 16371231--16371274 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
16371221 TCTTTTTTTC
16371231 TGCAAATCTGAAAGTCCT
1 TGCAAATCTGAAA-TCCT
* *
16371249 TGCAAACCTGAAATCTT
1 TGCAAATCTGAAATCCT
16371266 TGCAAATCT
1 TGCAAATCT
16371275 AGAACCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (17 bp):
TGCAAATCTGAAATCCT
Found at i:16375617 original size:20 final size:21
Alignment explanation
Indices: 16375583--16375624 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16375573 ACTAAGAGGA
16375583 TTTAAGCCTCTGGTGAA-TTC
1 TTTAAGCCTCTGGTGAAGTTC
16375603 TTTAA-CCTCTCGGTGAAGTTC
1 TTTAAGCCTCT-GGTGAAGTTC
16375624 T
1 T
16375625 CCAAAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
TTTAAGCCTCTGGTGAAGTTC
Found at i:16379038 original size:57 final size:55
Alignment explanation
Indices: 16378977--16379235 Score: 224
Period size: 57 Copynumber: 4.6 Consensus size: 55
16378967 TTGAAAAACC
* * * *
16378977 ATTTTTTAGGTAAAAAAAGTTTCAAAATAT-TTTTAAGAAAAAGTTGAAGTATTAAGT
1 ATTTTTTA-ATAAAAAAA-TTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAA-T
* *
16379034 ATTTTTTAACAAATAATATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAAT
1 ATTTTTTAATAAA-AAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAAT
* * * *
16379090 -TTTTTTAAATAAAAAAAATTAAAAAAATGTTTTGAGAAAAAGTTGAAGTATCAGT
1 ATTTTTT-AATAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAAT
* * *
16379145 -TTTCCTTAAATAAAAAAATATTTCAAAAAA-ATATTTGAAAAAAAGTTGAATTATCAAT
1 ATTT--TTTAAT-AAAAAA-ATTTCAAAAAATAT-TTTGAGAAAAAGTTGAAGTATCAAT
* *
16379203 -TTTTTCAAAATAAAGAATATTTC-AAAAATATTT
1 ATTTTT--TAATAAA-AAAATTTCAAAAAATATTT
16379236 AAGGAAAATT
Statistics
Matches: 170, Mismatches: 20, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
55 46 0.27
56 31 0.18
57 53 0.31
58 40 0.24
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.37
Consensus pattern (55 bp):
ATTTTTTAATAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAAT
Found at i:16379123 original size:55 final size:54
Alignment explanation
Indices: 16379000--16379216 Score: 220
Period size: 55 Copynumber: 3.9 Consensus size: 54
16378990 AAAAAGTTTC
* * * * * * *
16379000 AAAATATTTTTAAGAAAAAGTTGAAGTATTAAGTATTTTTTAACA-AATAATATTTC
1 AAAAAATTTTTGAGAAAAAGTTGAAGTATCAA-T-TTTTTTAA-ATAAAAAAAATTA
16379056 AAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTTTAAATAAAAAAAATTA
1 AAAAAAT-TTTTGAGAAAAAGTTGAAGTATCAATTTTTTTAAATAAAAAAAATTA
* *
16379111 AAAAAATGTTTTGAGAAAAAGTTGAAGTATCAGTTTTCCTTAAATAAAAAAATATTTCA
1 AAAAAAT-TTTTGAGAAAAAGTTGAAGTATCAATTTT-TTTAAATAAAAAAA-A-TT-A
* * * *
16379170 AAAAAATATTTGAAAAAAAGTTGAATTATCAATTTTTTCAAAATAAA
1 AAAAAATTTTTGAGAAAAAGTTGAAGTATCAATTTTTT-TAAATAAA
16379217 GAATATTTCA
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
54 1 0.01
55 50 0.36
56 20 0.14
57 25 0.18
58 34 0.25
59 8 0.06
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (54 bp):
AAAAAATTTTTGAGAAAAAGTTGAAGTATCAATTTTTTTAAATAAAAAAAATTA
Found at i:16379174 original size:13 final size:13
Alignment explanation
Indices: 16379156--16379188 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
16379146 TTCCTTAAAT
16379156 AAAAAAATATTTC
1 AAAAAAATATTTC
*
16379169 AAAAAAATATTTG
1 AAAAAAATATTTC
16379182 AAAAAAA
1 AAAAAAA
16379189 GTTGAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAAAATATTTC
Found at i:16379273 original size:58 final size:57
Alignment explanation
Indices: 16379048--16379275 Score: 186
Period size: 55 Copynumber: 4.0 Consensus size: 57
16379038 TTTAACAAAT
*
16379048 AATATTTCAAAAAATATTTTGAGAAAAAGTTGAAGT-ATCAATTTTT--TTAAATAAA-
1 AATATTTCAAAAAATA-TTTGAAAAAAAGTTGAA-TAATCAATTTTTCCTTAAATAAAG
* * * * * * *
16379103 AAAAATTAAAAAAATGTTTTGAGAAAAAGTTGAAGT-ATC-AGTTTTCCTTAAATAAAAA
1 AATATTTCAAAAAAT-ATTTGAAAAAAAGTTGAA-TAATCAATTTTTCCTTAAAT-AAAG
* * *
16379161 AATATTTCAAAAAAATATTTGAAAAAAAGTTGAATTATCAATTTTTTC-AAAATAAAG
1 AATATTTC-AAAAAATATTTGAAAAAAAGTTGAATAATCAATTTTTCCTTAAATAAAG
** *
16379218 AATATTTC-AAAAATATTT-AAGGAAAATTTTGAAATAATCAATTTTTGCTTAAATAAAG
1 AATATTTCAAAAAATATTTGAA--AAAAAGTTG-AATAATCAATTTTTCCTTAAATAAAG
16379276 CATTATTTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
54 7 0.05
55 44 0.31
56 13 0.09
57 29 0.20
58 36 0.25
59 13 0.09
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (57 bp):
AATATTTCAAAAAATATTTGAAAAAAAGTTGAATAATCAATTTTTCCTTAAATAAAG
Found at i:16382684 original size:18 final size:18
Alignment explanation
Indices: 16382643--16382716 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
16382633 ATATTTGAGA
*
16382643 ATGATACATTTGTGGTGG
1 ATGATACATTTGTGGTAG
**
16382661 GGGATACATTTGTGGTAG
1 ATGATACATTTGTGGTAG
* * * *
16382679 ATGATACATTAGAGATGG
1 ATGATACATTTGTGGTAG
*
16382697 AAGATACATTTGTGGTAG
1 ATGATACATTTGTGGTAG
16382715 AT
1 AT
16382717 AATAACCATG
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.31, T:0.34
Consensus pattern (18 bp):
ATGATACATTTGTGGTAG
Found at i:16384926 original size:51 final size:51
Alignment explanation
Indices: 16384806--16384953 Score: 181
Period size: 51 Copynumber: 2.9 Consensus size: 51
16384796 AATTGTAATT
* **
16384806 GAGAGATTTTTGGGATTTAATTTCAGAATTAATTGGCATTAATAATGATGTG
1 GAGAGATTTTTGGGATTTAATTTCAGAATCAATTCACATTAA-AATGATGTG
* * * * *
16384858 GAGAGATTATCGAGATTTAATTCCATAATCAATTCACATTAAAATGAT-TGG
1 GAGAGATTTTTGGGATTTAATTTCAGAATCAATTCACATTAAAATGATGT-G
* *
16384909 GAGAGATTTTTGGGATTTGATTTCAGAATCAATTCTCATTAAAAT
1 GAGAGATTTTTGGGATTTAATTTCAGAATCAATTCACATTAAAAT
16384954 TGAAATAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.01
51 45 0.56
52 34 0.43
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (51 bp):
GAGAGATTTTTGGGATTTAATTTCAGAATCAATTCACATTAAAATGATGTG
Found at i:16385461 original size:19 final size:18
Alignment explanation
Indices: 16385439--16385478 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16385429 TTCCACTCCA
16385439 TTTTC-TATTTTGATTTTAT
1 TTTTCTTATTTT-A-TTTAT
16385458 TTTTCTTATTTTATTTAT
1 TTTTCTTATTTTATTTAT
16385476 TTT
1 TTT
16385479 ATTTTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTCTTATTTTATTTAT
Found at i:16385470 original size:14 final size:14
Alignment explanation
Indices: 16385444--16385497 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
16385434 CTCCATTTTC
16385444 TATTTTGATTTTATT
1 TATTTT-ATTTTATT
16385459 T-TTCTTATTTTATT
1 TATT-TTATTTTATT
*
16385473 TATTTTATTTTGTT
1 TATTTTATTTTATT
16385487 TATTTTTATTT
1 TA-TTTTATTT
16385498 ACACTTGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:16385471 original size:5 final size:5
Alignment explanation
Indices: 16385444--16385497 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
16385434 CTCCATTTTC
* *
16385444 TATTT TGATTT TATTT T-TCT TATTT TA-TT TATTT TATTT T-GTT TATTTT
1 TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT
16385493 TATTT
1 TATTT
16385498 ACACTTGCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 10 0.25
5 21 0.52
6 9 0.22
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:16389545 original size:20 final size:21
Alignment explanation
Indices: 16389512--16389553 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16389502 ACTAAGAGGT
16389512 TTTAAGCCTCTGGTGAA-TTC
1 TTTAAGCCTCTGGTGAAGTTC
16389532 TTTAA-CCTCTTGGTGAAGTTC
1 TTTAAGCCTC-TGGTGAAGTTC
16389553 T
1 T
16389554 CCAAAGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TTTAAGCCTCTGGTGAAGTTC
Found at i:16394383 original size:57 final size:55
Alignment explanation
Indices: 16394285--16394597 Score: 291
Period size: 57 Copynumber: 5.6 Consensus size: 55
16394275 TGAAAAAGCA
** * *
16394285 TTTTTTAGGTAAAAATAATTTCAAAAAAT-TTTTG-AGAAAAAGTTGAAGTATTAAGT
1 TTTTTTAAATAAAAA-AATTTCAAAAAATATTTTGAAG-AAAAGTTAAAGTATCAA-T
16394341 TTTTTTAAATAAATAAAATTTCAAAAAATATTTTGAAGAAAAGTTAAAGTATCAA-
1 TTTTTTAAATAAA-AAAATTTCAAAAAATATTTTGAAGAAAAGTTAAAGTATCAAT
* *
16394396 TTTTTTAAATAAAAAAA-TTCAAAAAATGTTTTG-AGAGAAAGTTAAAATATCAAT
1 TTTTTTAAATAAAAAAATTTCAAAAAATATTTTGAAGA-AAAGTTAAAGTATCAAT
* * * * *
16394450 TTTCCTTAAATAAAAAATATTTCAAAAAAT-GTAT-AAGAAAAAGTAAAAGTATAAAT
1 TTT-TTTAAATAAAAAA-ATTTCAAAAAATATTTTGAAG-AAAAGTTAAAGTATCAAT
* * *
16394506 TTTCTTTAAATAAAAAAATATTTCAAAAAAAATATTTGAAGAAAAGTTGAATTATCAAT
1 TTT-TTTAAAT-AAAAAA-ATTTCAAAAAATAT-TTTGAAGAAAAGTTAAAGTATCAAT
** *
16394565 TTTTCCAAAATAAAGAATATTTC-AAAAATATTT
1 TTTT-TTAAATAAA-AAAATTTCAAAAAATATTT
16394598 AAGGAAAAAG
Statistics
Matches: 217, Mismatches: 24, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
52 3 0.01
53 30 0.14
54 7 0.03
55 25 0.12
56 55 0.25
57 58 0.27
58 11 0.05
59 25 0.12
60 3 0.01
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.36
Consensus pattern (55 bp):
TTTTTTAAATAAAAAAATTTCAAAAAATATTTTGAAGAAAAGTTAAAGTATCAAT
Found at i:16394636 original size:57 final size:54
Alignment explanation
Indices: 16394295--16394635 Score: 225
Period size: 56 Copynumber: 6.0 Consensus size: 54
16394285 TTTTTTAGGT
* * * * *
16394295 AAAAATAATTTCAAAAAATTTTTGAGAAAAAGTTGAAGTATTAAGTTTT-TTTAAATA
1 AAAAAT-ATTTC-AAAAATATTTAAGAAAAAG-TGAAATA-TAAATTTTCCTTAAATA
* *
16394352 AATAAA-ATTTCAAAAAATATTTTGAAG-AAAAGTTAAAGTATCAATTTT--TTAAATA
1 AA-AAATATTTC-AAAAATA-TTT-AAGAAAAAGTGAAA-TATAAATTTTCCTTAAATA
* * * * *
16394407 AAAAA-A-TTCAAAAAATGTTTTGAGAGAAAGTTAAAATATCAATTTTCCTTAAATA
1 AAAAATATTTC-AAAAAT-ATTTAAGAAAAAG-TGAAATATAAATTTTCCTTAAATA
* *
16394462 AAAAATATTTCAAAAA-ATGTATAAGAAAAAGTAAAAGTATAAATTTTCTTTAAATAA
1 AAAAATATTTCAAAAATAT-T-TAAGAAAAAGTGAAA-TATAAATTTTCCTTAAAT-A
* * *
16394519 AAAAATATTTCAAAAAAAATATTTGAAG-AAAAGTTGAATTATCAATTTTTCC-AAAATA
1 AAAAATATTTC---AAAAATATTT-AAGAAAAAG-TGAAATAT-AAATTTTCCTTAAATA
*
16394577 AAGAATATTTCAAAAATATTTAAGGAAAAAGTCGAAATAATAAATTTTCCTTAAATA
1 AAAAATATTTCAAAAATATTTAA-GAAAAAGT-GAAAT-ATAAATTTTCCTTAAATA
16394634 AA
1 AA
16394636 GCATTATTTT
Statistics
Matches: 233, Mismatches: 24, Indels: 54
0.75 0.08 0.17
Matches are distributed among these distances:
52 2 0.01
53 27 0.12
54 11 0.05
55 39 0.17
56 68 0.29
57 36 0.15
58 16 0.07
59 13 0.06
60 19 0.08
61 2 0.01
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (54 bp):
AAAAATATTTCAAAAATATTTAAGAAAAAGTGAAATATAAATTTTCCTTAAATA
Found at i:16398717 original size:17 final size:17
Alignment explanation
Indices: 16398695--16398727 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16398685 CATCATTATA
16398695 ATTCTTTTCTTCTATTC
1 ATTCTTTTCTTCTATTC
*
16398712 ATTCTTTTTTTCTATT
1 ATTCTTTTCTTCTATT
16398728 TGTTTGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTCTTTTCTTCTATTC
Found at i:16400396 original size:51 final size:51
Alignment explanation
Indices: 16400278--16400423 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 51
16400268 ACTGTAATTA
16400278 AGAGATTTTTGGGATTTAATTCCAAAATCAATT-AGCATTAATAATGATGTGG
1 AGAGATTTTTGGGATTTAATTCCAAAATCAATTCA-CATTAA-AATGATGTGG
* * * *
16400330 AGAGGTTATCGGGATTTAATTCCATAATCAATTCACATTAAAATGATAG-GG
1 AGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAATGAT-GTGG
* * * *
16400381 AGAGATTTTTGGGATTTGATTTCAGAATCAATTCTCATTAAAA
1 AGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAA
16400424 CTGAAATCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 44 0.54
52 36 0.44
53 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (51 bp):
AGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAATGATGTGG
Found at i:16400942 original size:14 final size:14
Alignment explanation
Indices: 16400918--16400969 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
16400908 CCATTTTCTG
*
16400918 TTTTGATTTTATTT
1 TTTTTATTTTATTT
*
16400932 TTCTTATTTTATTT
1 TTTTTATTTTATTT
*
16400946 TTTTTATTTTGTTT
1 TTTTTATTTTATTT
16400960 ATTTTTATTT
1 -TTTTTATTT
16400970 ACTTTTGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:16400954 original size:23 final size:24
Alignment explanation
Indices: 16400924--16400969 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
16400914 TCTGTTTTGA
16400924 TTTTATTTT-TCTTA-TTTTATTTT
1 TTTTATTTTGT-TTATTTTTATTTT
16400947 TTTTATTTTGTTTATTTTTATTT
1 TTTTATTTTGTTTATTTTTATTT
16400970 ACTTTTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (24 bp):
TTTTATTTTGTTTATTTTTATTTT
Found at i:16404740 original size:19 final size:20
Alignment explanation
Indices: 16404718--16404757 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16404708 ATAATGAAAA
16404718 AAAAAAAAAAGAA-AAATTG
1 AAAAAAAAAAGAAGAAATTG
**
16404737 AAAAAATGAAGAAGAAATTG
1 AAAAAAAAAAGAAGAAATTG
16404757 A
1 A
16404758 TGGGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAAAAAAAAGAAGAAATTG
Found at i:16405055 original size:1 final size:1
Alignment explanation
Indices: 16405051--16405112 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
16405041 CTAAAAAAGT
* * * ** * * *
16405051 AAAAAAAAAAAAAAAACAAAAAAAAGAGAGCAAAAAAGAAAAAATAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16405113 GAAAGCTTAG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.02
Consensus pattern (1 bp):
A
Found at i:16405057 original size:9 final size:9
Alignment explanation
Indices: 16405043--16405116 Score: 73
Period size: 8 Copynumber: 8.1 Consensus size: 9
16405033 TGTGCAAACT
16405043 AAAAAAGTAA
1 AAAAAAG-AA
16405053 AAAAAA-AA
1 AAAAAAGAA
*
16405061 AAAAAACAA
1 AAAAAAGAA
16405070 AAAAAAGAGA
1 AAAAAAGA-A
16405080 GCAAAAAAGAA
1 --AAAAAAGAA
*
16405091 AAAATA-AA
1 AAAAAAGAA
16405099 AAAAAAG-A
1 AAAAAAGAA
16405107 AAAAAAGAA
1 AAAAAAGAA
16405116 A
1 A
16405117 GCTTAGATCG
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
8 23 0.42
9 16 0.29
10 7 0.13
11 1 0.02
12 8 0.15
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:16407802 original size:15 final size:15
Alignment explanation
Indices: 16407782--16407819 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
16407772 TCTGTTTTGA
16407782 TTTTATTTT-TCTTAT
1 TTTTATTTTGTC-TAT
16407797 TTTTATTTTGTCTAT
1 TTTTATTTTGTCTAT
16407812 TTTTATTT
1 TTTTATTT
16407820 ACTCTTGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTATTTTGTCTAT
Found at i:16413694 original size:22 final size:23
Alignment explanation
Indices: 16413669--16413725 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
16413659 TACCTAAATC
16413669 TATTTAAAT-ATATT-AAAAATAA
1 TATTTAAATAAT-TTAAAAAATAA
*
16413691 TATTAAAATAATTTAAAAAATAA
1 TATTTAAATAATTTAAAAAATAA
*
16413714 AATTTAAA-AATT
1 TATTTAAATAATT
16413726 AATGAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATTTAAATAATTTAAAAAATAA
Found at i:16413695 original size:12 final size:12
Alignment explanation
Indices: 16413674--16413724 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
16413664 AAATCTATTT
16413674 AAAT-ATATTAA
1 AAATAATATTAA
16413685 AAATAATATT-A
1 AAATAATATTAA
16413696 AAATAAT-TTAAA
1 AAATAATATT-AA
*
16413708 AAATAAAATTTAA
1 AAATAATA-TTAA
16413721 AAAT
1 AAAT
16413725 TAATGAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 2 0.06
11 12 0.35
12 12 0.35
13 6 0.18
14 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATAATATTAA
Found at i:16414210 original size:23 final size:23
Alignment explanation
Indices: 16414155--16414211 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
16414145 AGATTAGTTT
*
16414155 ATTTAATTT--ATTTCAAATATA
1 ATTTAATTTAAATTTAAAATATA
* *
16414176 AA-AAATTATAAATTTAAAATATA
1 ATTTAATT-TAAATTTAAAATATA
16414199 ATTTAATTTAAAT
1 ATTTAATTTAAAT
16414212 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.15
21 2 0.07
23 17 0.63
24 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTTAAATTTAAAATATA
Found at i:16418101 original size:15 final size:15
Alignment explanation
Indices: 16418081--16418112 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16418071 ACAAAATCTC
16418081 TAAGTTTTCGAAGAA
1 TAAGTTTTCGAAGAA
*
16418096 TAAGTTTTTGAAGAA
1 TAAGTTTTCGAAGAA
16418111 TA
1 TA
16418113 TTTGCACGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (15 bp):
TAAGTTTTCGAAGAA
Found at i:16419757 original size:27 final size:27
Alignment explanation
Indices: 16419727--16419811 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 27
16419717 TCAAAAAATA
16419727 TTTTAAGGAAAAGTTGAAATATCAATTT
1 TTTTAAGGAAAAGTTGAAATATCAA-TT
** * * *
16419755 TTTTGAATAAAAAATTTTAAA-A--AATC
1 TTTT-AA-GGAAAAGTTGAAATATCAATT
16419781 TTTTAAGGAAAAGTTGAAATATCAATT
1 TTTTAAGGAAAAGTTGAAATATCAATT
16419808 TTTT
1 TTTT
16419812 TTAAATAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
24 9 0.21
25 3 0.07
26 5 0.12
27 9 0.21
28 4 0.10
29 3 0.07
30 9 0.21
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (27 bp):
TTTTAAGGAAAAGTTGAAATATCAATT
Found at i:16419757 original size:57 final size:56
Alignment explanation
Indices: 16419474--16420107 Score: 647
Period size: 56 Copynumber: 11.1 Consensus size: 56
16419464 TTTTTTTAGC
* * * * *
16419474 TAAAAATAATTTCAAAAAA-AATTTGAGAAAAAATTAAAATAACAATTTTTCTTAAA
1 TAAAAA-AATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
* *
16419530 TAAAAAAATTTCAAAAATTATTTTGAGGAAAAA-TTGAAGTATCAATTTTCCTAAAATAAA
1 TAAAAAAATTTCAAAAAATATTTTGA-GAAAAAGTTGAAGTATCAATTTTTCT----TAAA
* * * *
16419590 AAAAATAATATTTCAAAAAAATATTTTGTGAAAAAATTGATGTATCAATTTTTCTTAAA
1 TAAAA-AA-ATTTC-AAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
* * *
16419649 TAAAAAATATTTCAAAACAATATTTTGAGGAAAAGTTGAAGTATTAATTTTTTTTAAA
1 TAAAAAA-ATTTCAAAA-AATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
* * * *
16419707 TAAAAAAATTTCAAAAAATATTTTAAGGAAAAGTTGAAATATCAATTTTT-TTGAA
1 TAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
* * * * * *
16419762 T-AAAAAATTTTAAAAAATCTTTTAAGGAAAAGTTGAAATATCAATTTTTTTTAAA
1 TAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
* * * * *
16419817 T-AAAAAATTTAAAAAAAAATGTTTTGAGGAGAAGTTGAAGTATTAA-TTTTCTTTAAA
1 TAAAAAAATTT--CAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTC-TTAAA
*
16419874 TAAAAAAATATTTCAAAAAATATTTTAAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
1 T-AAAAAA-ATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
** *
16419932 TAAAAAATATTTCAAAAAAT-GCTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAA
1 TAAAAAA-ATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
* * * * * *
16419988 TAAAAAAATATTTAAAAAAAAGTTTGAGAAAAAGTTGAAGTATTAGTTTTTCTAAAA
1 TAAAAAAAT-TTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
*
16420045 TAAAAAATATTTC-CAAAATA-TTTGAGAAAAAAGTTGAAAGTATCAATTTTTTCTTAAA
1 TAAAAAA-ATTTCAAAAAATATTTTGAG-AAAAAGTTG-AAGTATCAA-TTTTTCTTAAA
16420103 TAAAA
1 TAAAA
16420108 TATTAATTTT
Statistics
Matches: 498, Mismatches: 55, Indels: 48
0.83 0.09 0.08
Matches are distributed among these distances:
54 46 0.09
55 38 0.08
56 123 0.25
57 119 0.24
58 100 0.20
59 18 0.04
60 12 0.02
61 2 0.00
62 11 0.02
63 29 0.06
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.36
Consensus pattern (56 bp):
TAAAAAAATTTCAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAA
Found at i:16425186 original size:17 final size:17
Alignment explanation
Indices: 16425164--16425204 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16425154 AAAATTTTAA
* *
16425164 ATAAAACAAATAATATG
1 ATAAAAAAAACAATATG
16425181 ATAAAAAAAACAATATG
1 ATAAAAAAAACAATATG
16425198 A-AAAAAA
1 ATAAAAAA
16425205 TATGAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (17 bp):
ATAAAAAAAACAATATG
Found at i:16426370 original size:2 final size:2
Alignment explanation
Indices: 16426363--16426391 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16426353 CTTAATTTAT
16426363 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16426392 TTCTTGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16427788 original size:18 final size:18
Alignment explanation
Indices: 16427765--16427808 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
16427755 ATTTGAGAAT
* *
16427765 GATACATTTGTGGTGGGG
1 GATACATTTGTGGTAGAG
16427783 GATACATTTGTGGTAGAG
1 GATACATTTGTGGTAGAG
16427801 GATACATT
1 GATACATT
16427809 AGAGATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (18 bp):
GATACATTTGTGGTAGAG
Found at i:16427790 original size:51 final size:52
Alignment explanation
Indices: 16427733--16427834 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 52
16427723 TTTGTTCTTT
* * * *
16427733 ATACATTTGAGATTGAGGATATATTTGAGA-ATGATACATTTGTGGTGGGGG
1 ATACATTTGAGATAGAGGATACATTAGAGATAAGATACATTTGTGGTGGGGG
* *
16427784 ATACATTTGTGGTAGAGGATACATTAGAGATGTAAGATACATTTGTGGTGG
1 ATACATTTGAGATAGAGGATACATTAGAGA--TAAGATACATTTGTGGTGG
16427835 ATAATAACCA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 25 0.60
54 17 0.40
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.34
Consensus pattern (52 bp):
ATACATTTGAGATAGAGGATACATTAGAGATAAGATACATTTGTGGTGGGGG
Found at i:16428356 original size:16 final size:17
Alignment explanation
Indices: 16428327--16428358 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16428317 ATCATTATAG
16428327 TTCTTTTGTTCTATTTA
1 TTCTTTTGTTCTATTTA
16428344 TTCTTTT-TTCTATTT
1 TTCTTTTGTTCTATTT
16428359 GTTTGTGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.75
Consensus pattern (17 bp):
TTCTTTTGTTCTATTTA
Found at i:16430024 original size:52 final size:51
Alignment explanation
Indices: 16429967--16430113 Score: 136
Period size: 51 Copynumber: 2.9 Consensus size: 51
16429957 AACTGTAGTT
** * *
16429967 GAGAGATTTTTGAGATTTAATTTCAGAATCAATTGGCTTTGATAATGAT-GTA
1 GAGAGATTTTTGAGATTTAATTTCAGAATCAATTCACATT-AAAATGATAG-A
* * * * * *
16430019 GAGAGATTATCGGGATTTAATTCCATAATCAATTCACATTAAAATGATAGG
1 GAGAGATTTTTGAGATTTAATTTCAGAATCAATTCACATTAAAATGATAGA
* * *
16430070 GAGAGATTTTT-AGGATTTGATTTTAGAATCAATTCTCATTAAAA
1 GAGAGATTTTTGA-GATTTAATTTCAGAATCAATTCACATTAAAA
16430114 CTAAAATCAA
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
51 42 0.56
52 33 0.44
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.37
Consensus pattern (51 bp):
GAGAGATTTTTGAGATTTAATTTCAGAATCAATTCACATTAAAATGATAGA
Found at i:16430623 original size:19 final size:18
Alignment explanation
Indices: 16430597--16430640 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
16430587 CCTTTTCCAC
16430597 TTTA-TTTTC-TATTTTGA
1 TTTATTTTTCTTATTTT-A
16430614 TTTTATTTTTCTTATTTTA
1 -TTTATTTTTCTTATTTTA
16430633 TTTATTTT
1 TTTATTTT
16430641 ATTTTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.50
19 6 0.25
20 6 0.25
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTATTTTTCTTATTTTA
Found at i:16430632 original size:14 final size:14
Alignment explanation
Indices: 16430606--16430659 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
16430596 CTTTATTTTC
16430606 TATTTTGATTTTATT
1 TATTTT-ATTTTATT
16430621 T-TTCTTATTTTATT
1 TATT-TTATTTTATT
*
16430635 TATTTTATTTTGTT
1 TATTTTATTTTATT
16430649 TATTTTTATTT
1 TA-TTTTATTT
16430660 ACTCTTGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:16430633 original size:5 final size:5
Alignment explanation
Indices: 16430606--16430659 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
16430596 CTTTATTTTC
* *
16430606 TATTT TGATTT TATTT T-TCT TATTT TA-TT TATTT TATTT T-GTT TATTTT
1 TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT
16430655 TATTT
1 TATTT
16430660 ACTCTTGCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 10 0.25
5 21 0.52
6 9 0.22
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:16434455 original size:19 final size:20
Alignment explanation
Indices: 16434431--16434472 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
16434421 TGAAAAATGA
*
16434431 TGAAAAAAGAAA-AGAAAAT
1 TGAAAAAAGAAAGAAAAAAT
*
16434450 TGAAAAAATAAAGAAAAAAT
1 TGAAAAAAGAAAGAAAAAAT
16434470 TGA
1 TGA
16434473 TGGGGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (20 bp):
TGAAAAAAGAAAGAAAAAAT
Found at i:16440699 original size:20 final size:21
Alignment explanation
Indices: 16440665--16440706 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16440655 ACTAAGAGGT
16440665 TTTAAGCCTCTGGTGAA-TTC
1 TTTAAGCCTCTGGTGAAGTTC
16440685 TTTAA-CCTCTCGGTGAAGTTC
1 TTTAAGCCTCT-GGTGAAGTTC
16440706 T
1 T
16440707 CCAAAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
TTTAAGCCTCTGGTGAAGTTC
Found at i:16445640 original size:55 final size:55
Alignment explanation
Indices: 16445445--16445786 Score: 259
Period size: 55 Copynumber: 6.1 Consensus size: 55
16445435 AATTTTTAGG
* * * *
16445445 TAAAAATAATTTTC-AAAAATTTTTGAGAAAAAGTTGAAGTATTAAGTTTT-TTTAAA
1 TAAAAAT-A-TTTCAAAAAATGTTTAAGAAAAAGTTGAAGTA-TAAATTTTCCTTAAA
* * * *
16445501 CAAATAATATTTCAAAAAATATTTTGAGGAAAAGTTGAAGTATCAAATTTT--TTAAA
1 TAAA-AATATTTCAAAAAAT-GTTTAAGAAAAAGTTGAAGTAT-AAATTTTCCTTAAA
* * *
16445557 TAAAAA-AATTCAAAAAATGTTTTGAGAAAAAGTTGAAGTATCAATTTTCCTTAAA
1 TAAAAATATTTCAAAAAATG-TTTAAGAAAAAGTTGAAGTATAAATTTTCCTTAAA
* ** *
16445612 TAAAAATATTTCAAAAAATGTATAAGAAAAAGTAAAAAG-ATAAATTTTCTTTAAAGA
1 TAAAAATATTTCAAAAAATGTTTAAGAAAAAGT-TGAAGTATAAATTTTCCTT-AA-A
* * * * * * **
16445669 AAAAAATATTTCAAAAAAAATATTTGAAG-AAAAGTAGAATTATTAATTTCCCCAAAA
1 TAAAAATATTTC--AAAAAATGTTT-AAGAAAAAGTTGAAGTATAAATTTTCCTTAAA
* * *
16445726 TAAAAAATATTTC-AAAAATATTTAAGAAAAAGTCGAAATAATAAATTTTCCTTAAA
1 T-AAAAATATTTCAAAAAATGTTTAAGAAAAAGTTGAAGT-ATAAATTTTCCTTAAA
16445782 TAAAA
1 TAAAA
16445787 CATTATTTTT
Statistics
Matches: 236, Mismatches: 32, Indels: 37
0.77 0.10 0.12
Matches are distributed among these distances:
53 6 0.03
54 34 0.14
55 63 0.27
56 49 0.21
57 42 0.18
58 16 0.07
59 23 0.10
60 3 0.01
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.33
Consensus pattern (55 bp):
TAAAAATATTTCAAAAAATGTTTAAGAAAAAGTTGAAGTATAAATTTTCCTTAAA
Found at i:16445868 original size:18 final size:19
Alignment explanation
Indices: 16445835--16445870 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16445825 TAAGAAAATT
16445835 TTGAAATATCAATTTTTTC
1 TTGAAATATCAATTTTTTC
*
16445854 TTGAAAT-TTAATTTTTT
1 TTGAAATATCAATTTTTT
16445871 TAAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (19 bp):
TTGAAATATCAATTTTTTC
Found at i:16449328 original size:18 final size:18
Alignment explanation
Indices: 16449305--16449375 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
16449295 ATTAGAGAAT
**
16449305 GATACATTTGTGGTGGGG
1 GATACATTTGTGGTGGAA
* *
16449323 GATACATTTGTGGTAGAT
1 GATACATTTGTGGTGGAA
* * *
16449341 GATACATTAGAGATGGAA
1 GATACATTTGTGGTGGAA
16449359 GATACATTTGTGGTGGA
1 GATACATTTGTGGTGGA
16449376 TAATAACCAT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.32
Consensus pattern (18 bp):
GATACATTTGTGGTGGAA
Found at i:16449350 original size:51 final size:52
Alignment explanation
Indices: 16449273--16449374 Score: 134
Period size: 51 Copynumber: 1.9 Consensus size: 52
16449263 TTTGTTCTTT
* *
16449273 ATACATTTGAGATAGAGGATATATTAGAGA-ATGATACATTTGTGGTGGGGG
1 ATACATTTGAGATAGAGGATACATTAGAGAGAAGATACATTTGTGGTGGGGG
* * *
16449324 ATACATTTGTGGTAGATGATACATTAGAGATGGAAGATACATTTGTGGTGG
1 ATACATTTGAGATAGAGGATACATTAGAGA--GAAGATACATTTGTGGTGG
16449375 ATAATAACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 26 0.60
54 17 0.40
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.32
Consensus pattern (52 bp):
ATACATTTGAGATAGAGGATACATTAGAGAGAAGATACATTTGTGGTGGGGG
Found at i:16449896 original size:16 final size:17
Alignment explanation
Indices: 16449866--16449897 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16449856 CATCGTTATA
16449866 ATTCTTTTGTTCTATTC
1 ATTCTTTTGTTCTATTC
16449883 ATTCTTTT-TTCTATT
1 ATTCTTTTGTTCTATT
16449898 TGTTTGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.16, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTCTTTTGTTCTATTC
Found at i:16451546 original size:52 final size:51
Alignment explanation
Indices: 16451490--16451647 Score: 140
Period size: 52 Copynumber: 3.1 Consensus size: 51
16451480 ATTAGGCTTT
* * * **
16451490 AAATGTAATTGAGAGATTTTTGTGATTAAATTCCAGAATCAATTGGCATTAA
1 AAATG-AATTGAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAA
* * *
16451542 AAATG-ATGTGGAGAGATTATCGAGATTTAATTCCATAATCAATTCACATT-A
1 AAATGAAT-T-GAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAA
** * * * *
16451593 AAATGATAGGGAGAGATTTTTGGGATTTGATTTCAAAATCAATTCTCATTAA
1 AAATGA-ATTGAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAA
16451645 AAA
1 AAA
16451648 AAAAATCAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
50 2 0.02
51 40 0.47
52 42 0.49
53 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (51 bp):
AAATGAATTGAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAA
Found at i:16451620 original size:51 final size:51
Alignment explanation
Indices: 16451500--16451646 Score: 161
Period size: 51 Copynumber: 2.9 Consensus size: 51
16451490 AAATGTAATT
* * * **
16451500 GAGAGATTTTTGTGATTAAATTCCAGAATCAATTGGCATTAAAAATGATGTG
1 GAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATT-AAAATGATGTG
* * *
16451552 GAGAGATTATCGAGATTTAATTCCATAATCAATTCACATTAAAATGATAG-G
1 GAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAAAATGAT-GTG
* * * *
16451603 GAGAGATTTTTGGGATTTGATTTCAAAATCAATTCTCATTAAAA
1 GAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAAAA
16451647 AAAAAATCAA
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
51 46 0.57
52 34 0.43
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (51 bp):
GAGAGATTTTTGAGATTTAATTCCAAAATCAATTCACATTAAAATGATGTG
Found at i:16452154 original size:19 final size:18
Alignment explanation
Indices: 16452132--16452189 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
16452122 TTCCACTCCA
16452132 TTTTC-TATTTTGATTTTAT
1 TTTTCTTATTTT-A-TTTAT
16452151 TTTTCTTATTTTATTTAT
1 TTTTCTTATTTTATTTAT
*
16452169 TTTAT-TTATTTATTTTTAT
1 TTT-TCTTATTT-TATTTAT
16452188 TT
1 TT
16452190 ACTATTGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 14 0.40
19 15 0.43
20 6 0.17
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTCTTATTTTATTTAT
Found at i:16452161 original size:9 final size:9
Alignment explanation
Indices: 16452146--16452189 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
16452136 CTATTTTGAT
16452146 TTTATTTT-
1 TTTATTTTA
16452154 TCTTATTTTA
1 T-TTATTTTA
16452164 TTTATTTTA
1 TTTATTTTA
*
16452173 TTTATTTATT
1 TTTATTT-TA
16452183 TTTATTT
1 TTTATTT
16452190 ACTATTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 1 0.03
9 22 0.69
10 9 0.28
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:16452163 original size:14 final size:14
Alignment explanation
Indices: 16452137--16452189 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
16452127 CTCCATTTTC
16452137 TATTTTGATTTTATT
1 TATTTT-ATTTTATT
16452152 T-TTCTTATTTTATT
1 TATT-TTATTTTATT
16452166 TATTTTA-TTTATT
1 TATTTTATTTTATT
16452179 TATTTTTATTT
1 TA-TTTTATTT
16452190 ACTATTGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.24
14 19 0.56
15 7 0.21
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:16452164 original size:5 final size:5
Alignment explanation
Indices: 16452137--16452189 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
16452127 CTCCATTTTC
*
16452137 TATTT TGATTT TATTT T-TCT TATTT TA-TT TATTT TA-TT TA-TT TATTTT
1 TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT
16452185 TATTT
1 TATTT
16452190 ACTATTGCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 15 0.37
5 17 0.41
6 9 0.22
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:16452178 original size:13 final size:13
Alignment explanation
Indices: 16452146--16452211 Score: 57
Period size: 13 Copynumber: 5.0 Consensus size: 13
16452136 CTATTTTGAT
16452146 TTTATTT-TTCTTA
1 TTTATTTATT-TTA
16452159 TTTTATTTATTTTA
1 -TTTATTTATTTTA
16452173 TTTATTTATTTTTA
1 TTTATTTA-TTTTA
* *
16452187 TTTA-CTATTGCTA
1 TTTATTTATT-TTA
16452200 TTT-TTTATTTTA
1 TTTATTTATTTTA
16452212 AATTGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.09
13 19 0.43
14 19 0.43
15 2 0.05
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:16455951 original size:20 final size:20
Alignment explanation
Indices: 16455928--16455966 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16455918 AAAACAAAAG
16455928 AAAA-AAAAAAGAAAATTAAA
1 AAAATAAAAAAG-AAATTAAA
*
16455948 AAAATAAAGAAGAAATTAA
1 AAAATAAAAAAGAAATTAA
16455967 TGGGGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAATAAAAAAGAAATTAAA
Found at i:16457838 original size:18 final size:17
Alignment explanation
Indices: 16457815--16457859 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
16457805 ATATTTTTTT
16457815 TTGCAAATCTGAAAGTCC
1 TTGCAAATCTGAAA-TCC
* *
16457833 TTGCAAACCTGAAATCT
1 TTGCAAATCTGAAATCC
16457850 TTGCAAATCT
1 TTGCAAATCT
16457860 AGAACCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (17 bp):
TTGCAAATCTGAAATCC
Found at i:16458367 original size:52 final size:52
Alignment explanation
Indices: 16458311--16458457 Score: 163
Period size: 51 Copynumber: 2.8 Consensus size: 52
16458301 AATCCTAATT
** *
16458311 GAGAGATTTTTAGGATTTAATTCCAGAATCAATTGGCATTAAAAATAATATG
1 GAGAGATTTTTAGGATTTAATTCCAGAATCAATTCACATTAAAAATAATAGG
* * * *
16458363 GAGAGATTGTCAGGATTTAATTCCATAATCAATTCACATT-AAAATGATAGG
1 GAGAGATTTTTAGGATTTAATTCCAGAATCAATTCACATTAAAAATAATAGG
* * * * *
16458414 GAAAGATTTTT-GAGATTTGATTTCGGAATCAATTCTCATTAAAA
1 GAGAGATTTTTAG-GATTTAATTCCAGAATCAATTCACATTAAAA
16458458 CAGAAATAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
50 1 0.01
51 39 0.50
52 38 0.49
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (52 bp):
GAGAGATTTTTAGGATTTAATTCCAGAATCAATTCACATTAAAAATAATAGG
Done.