Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 21 of 335
Found at i:7847837 original size:7 final size:7
Alignment explanation
Indices: 7847825--7847853 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
7847815 AGCTTTGGCT
7847825 ACAAGTG
1 ACAAGTG
7847832 ACAAGTG
1 ACAAGTG
7847839 ACAAGTG
1 ACAAGTG
7847846 ACAAGTG
1 ACAAGTG
7847853 A
1 A
7847854 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:7847926 original size:47 final size:48
Alignment explanation
Indices: 7847857--7847982 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 48
7847847 CAAGTGATTT
* *
7847857 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
** * *
7847904 CTGTATAAGACCATATCTGGGATATGATATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* *
7847952 C-GTGTAAGACCATAGT-TGGGCTATGGCATCA
1 CTGTATAAGACCATA-TCTGGGATATGGCATCA
7847983 TTATGTAAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 63 0.94
48 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:7850592 original size:13 final size:15
Alignment explanation
Indices: 7850570--7850602 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7850560 ATTCTCTTGA
7850570 TTTTCTTTTTCC-TT
1 TTTTCTTTTTCCATT
7850584 TTTTC-TTTTCCATT
1 TTTTCTTTTTCCATT
7850598 TTTTC
1 TTTTC
7850603 GTAGGTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTTTTCCATT
Found at i:7854914 original size:62 final size:62
Alignment explanation
Indices: 7854841--7854958 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 62
7854831 CAGAAAAAAC
* *
7854841 AATAAACTGTTTTAAATACTTACCACATGTCTATCAAAGATCAAAATACATGTCGATTGTCA
1 AATAAACTGTTTTAAATACTTACCACATGCCTATCAAAGAACAAAATACATGTCGATTGTCA
* * * * *
7854903 AATAAATTGTTTTAAATACTTACTACGTGCCTATCAAGGAACTAAATACATGTCGA
1 AATAAACTGTTTTAAATACTTACCACATGCCTATCAAAGAACAAAATACATGTCGA
7854959 ACATATATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (62 bp):
AATAAACTGTTTTAAATACTTACCACATGCCTATCAAAGAACAAAATACATGTCGATTGTCA
Found at i:7855502 original size:78 final size:76
Alignment explanation
Indices: 7855418--7855568 Score: 196
Period size: 76 Copynumber: 2.0 Consensus size: 76
7855408 AAAGAAAAAA
*
7855418 CAAATTTTTATAAGCAGAAATTATAA-ATTTTTACAAACAAATTATGTTAATTTTTTATTATATA
1 CAAATTTTTATAAACA-AAATT-TAATA-TTTTACAAACAAATTATGTTAATTTTTTATTATATA
7855482 AATATTATTTATCT
63 AATATTATTTATCT
* * * ** *
7855496 CAAATTTTTATAAATAAAATTTATTATTTTACAAACAAATTATTTTGTTTTTTTATTATATAATT
1 CAAATTTTTATAAACAAAATTTAATATTTTACAAACAAATTATGTTAATTTTTTATTATATAAAT
*
7855561 GTTATTTA
66 ATTATTTA
7855569 CCTCTCAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
76 44 0.69
77 6 0.09
78 14 0.22
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.51
Consensus pattern (76 bp):
CAAATTTTTATAAACAAAATTTAATATTTTACAAACAAATTATGTTAATTTTTTATTATATAAAT
ATTATTTATCT
Found at i:7855733 original size:22 final size:22
Alignment explanation
Indices: 7855708--7855751 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7855698 TAATATATAA
7855708 TAAAAATT-ATATAAAAATATTT
1 TAAAAATTAAT-TAAAAATATTT
* *
7855730 TAAAATTTAATTAAATATATTT
1 TAAAAATTAATTAAAAATATTT
7855752 ATATTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAAATTAATTAAAAATATTT
Found at i:7855752 original size:21 final size:21
Alignment explanation
Indices: 7855722--7855769 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
7855712 AATTATATAA
7855722 AAATAT-TTTAAAATTTA-ATT
1 AAATATATTT-AAATTTATATT
*
7855742 AAATATATTTATATTTATATT
1 AAATATATTTAAATTTATATT
7855763 AAATATA
1 AAATATA
7855770 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATATTTAAATTTATATT
Found at i:7857081 original size:48 final size:48
Alignment explanation
Indices: 7856989--7857081 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
7856979 AATGATAGCC
* ** *
7856989 TCATAAATCTTAGTTTGGCTTTCACTATTCAAAAGGTATTGTGGTAGT
1 TCATAAATCTTAGTTTGACTTTCACTATTCAAAAACTATGGTGGTAGT
* * *
7857037 TCATAAATCTTGGTTTGACTTTCACTATTGAAAAACTGTGGTGGT
1 TCATAAATCTTAGTTTGACTTTCACTATTCAAAAACTATGGTGGT
7857082 TCAAAAGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (48 bp):
TCATAAATCTTAGTTTGACTTTCACTATTCAAAAACTATGGTGGTAGT
Found at i:7857266 original size:17 final size:17
Alignment explanation
Indices: 7857244--7857276 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7857234 ACAATTTAAT
7857244 ATTGATATTAAAATTAC
1 ATTGATATTAAAATTAC
7857261 ATTGATATTAAAATTA
1 ATTGATATTAAAATTA
7857277 AAAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTGATATTAAAATTAC
Found at i:7859807 original size:87 final size:87
Alignment explanation
Indices: 7859661--7859882 Score: 295
Period size: 87 Copynumber: 2.6 Consensus size: 87
7859651 CGCTTTCTCT
* *
7859661 TGCCAGTAATCAGGA-TATCAGTTTCCAATACTTTGATCTCCCTCATTGCTGATAGATCCATCTT
1 TGCCAGTAATC-GGAGTATCAGTTTCCAATACTTCGATCTCCCTCACTGCTGATAGATCCATCTT
7859725 -TCCAGTGACACAAAGGTTATCAG
65 AT-CAGTGACACAAAGGTTATCAG
* *
7859748 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCAATCTCCCTCACTGCTGATATATCCATCTTA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCACTGCTGATAGATCCATCTTA
* ***
7859813 TCAGTGACACGAAGGTTATTTT
66 TCAGTGACACAAAGGTTATCAG
* * * * *
7859835 TGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTCCCCCACTG
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCACTG
7859883 TTTGATCAAT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
86 3 0.03
87 115 0.97
88 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (87 bp):
TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCACTGCTGATAGATCCATCTTA
TCAGTGACACAAAGGTTATCAG
Found at i:7860847 original size:39 final size:39
Alignment explanation
Indices: 7860804--7860888 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
7860794 TTCGCAGCTA
7860804 CAAGCTTTGGTTTCTTTT-CCTTGACTAGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTT-ACTAGCTTTGGAGTTG
* *
7860843 CAAGCCTTGGTTTCTTTTCCCTTACTTGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTTACTAGCTTTGGAGTTG
7860882 CAAGCTT
1 CAAGCTT
7860889 CAGTGTGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (39 bp):
CAAGCTTTGGTTTCTTTTCCCTTACTAGCTTTGGAGTTG
Found at i:7876188 original size:18 final size:18
Alignment explanation
Indices: 7876147--7876193 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7876137 TAAAAAGAAA
* *
7876147 CCTCATCAGACTCGTCAT
1 CCTCATCAGAATCATCAT
* *
7876165 CGTCATCAGAATCATCTT
1 CCTCATCAGAATCATCAT
7876183 CCTCATCAGAA
1 CCTCATCAGAA
7876194 CCACTCTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.28
Consensus pattern (18 bp):
CCTCATCAGAATCATCAT
Found at i:7881598 original size:22 final size:22
Alignment explanation
Indices: 7881570--7881614 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7881560 AAAAGAAAGA
7881570 ATTTTTCCTTCGATCAACACTC
1 ATTTTTCCTTCGATCAACACTC
*
7881592 ATTTTTCCTTCGATCAGCACTC
1 ATTTTTCCTTCGATCAACACTC
7881614 A
1 A
7881615 GTAGAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.07, T:0.40
Consensus pattern (22 bp):
ATTTTTCCTTCGATCAACACTC
Found at i:7882049 original size:14 final size:14
Alignment explanation
Indices: 7882030--7882056 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7882020 GCTACCATTT
7882030 TACTATTATGTTGC
1 TACTATTATGTTGC
7882044 TACTATTATGTTG
1 TACTATTATGTTG
7882057 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:7887485 original size:2 final size:2
Alignment explanation
Indices: 7887478--7887512 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7887468 TTTTACAAAT
7887478 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7887513 TTTGGTAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7888921 original size:31 final size:31
Alignment explanation
Indices: 7888884--7888949 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
7888874 TAAAATATAC
*
7888884 ACATGAAACTTTGATTGTAG-TTCAACCATAT
1 ACATGAAACTTTAATT-TAGATTCAACCATAT
* *
7888915 ACATGAAACTTTAATTTTGATTCAATCATAT
1 ACATGAAACTTTAATTTAGATTCAACCATAT
7888946 ACAT
1 ACAT
7888950 TTAAAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (31 bp):
ACATGAAACTTTAATTTAGATTCAACCATAT
Found at i:7889000 original size:21 final size:22
Alignment explanation
Indices: 7888974--7889063 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 22
7888964 ACGTTAATTT
7888974 ATTATTTGTTAAATA-AATATA
1 ATTATTTGTTAAATACAATATA
* *
7888995 ATTATTTTTGTATGCAATATATAAT-TT
1 ATTA--TTTGT-T--AA-ATACAATATA
7889022 ATTATTTGTTAAATA-AATATA
1 ATTATTTGTTAAATACAATATA
*
7889043 ATTATTT-TTATATACAATATA
1 ATTATTTGTTAAATACAATATA
7889064 TATAAAACAT
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
20 9 0.16
21 21 0.37
22 2 0.04
23 5 0.09
24 2 0.04
25 5 0.09
26 2 0.04
27 8 0.14
28 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTATTTGTTAAATACAATATA
Found at i:7889013 original size:25 final size:24
Alignment explanation
Indices: 7888972--7889068 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 24
7888962 ATACGTTAAT
*
7888972 TTATTATTTGT-TAAATAAATATAA
1 TTATT-TTTGTATCAATAAATATAA
7888996 TTATTTTTGTATGCAAT--ATATAA
1 TTATTTTTGTAT-CAATAAATATAA
*
7889019 TTTATTATTTGT-TAAATAAATATAA
1 -TTATT-TTTGTATCAATAAATATAA
* *
7889044 TTATTTTTATATACAATATATATAA
1 TTATTTTTGTAT-CAATAAATATAA
7889069 AACATAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
23 18 0.30
24 18 0.30
25 24 0.40
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TTATTTTTGTATCAATAAATATAA
Found at i:7889024 original size:48 final size:48
Alignment explanation
Indices: 7888968--7889065 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
7888958 ATAAATACGT
* *
7888968 TAATTTATTATTTGTTAAATAAATATAATTATTTTTGTATGCAATATA
1 TAATTTATTATTTGTTAAATAAATATAATTATTTTTATATACAATATA
7889016 TAATTTATTATTTGTTAAATAAATATAATTATTTTTATATACAATATA
1 TAATTTATTATTTGTTAAATAAATATAATTATTTTTATATACAATATA
7889064 TA
1 TA
7889066 TAAAACATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (48 bp):
TAATTTATTATTTGTTAAATAAATATAATTATTTTTATATACAATATA
Found at i:7889722 original size:19 final size:18
Alignment explanation
Indices: 7889695--7889748 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
7889685 TGAAAATTTT
7889695 AAAAATATTAAAAAAAT-
1 AAAAATATTAAAAAAATA
* *
7889712 AAAAAT-TTATTAAAACTA
1 AAAAATATTA-AAAAAATA
7889730 AAAAATATTAAAAAAATA
1 AAAAATATTAAAAAAATA
7889748 A
1 A
7889749 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 3 0.10
17 11 0.37
18 13 0.43
19 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATTAAAAAAATA
Found at i:7898647 original size:50 final size:50
Alignment explanation
Indices: 7898589--7898688 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
7898579 TATTATTCAG
* *
7898589 ATTCACAATTTAAATAGTCTTTAATTTTAATTATAAAAACTTATATAAAC
1 ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
7898639 ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
1 ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
7898689 TTAATTTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (50 bp):
ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
Found at i:7898997 original size:13 final size:13
Alignment explanation
Indices: 7898966--7898998 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7898956 AATAAATATA
7898966 TTATAA-AATTTT
1 TTATAATAATTTT
7898978 TTA-AATAATTTT
1 TTATAATAATTTT
7898990 TTATAATAA
1 TTATAATAA
7898999 ACTTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 12 0.63
13 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATAATAATTTT
Found at i:7901473 original size:3 final size:3
Alignment explanation
Indices: 7901467--7901494 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7901457 AAGCATGTTG
7901467 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7901495 AATTTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7914225 original size:3 final size:3
Alignment explanation
Indices: 7914217--7914259 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
7914207 GCCCTAGTAT
7914217 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7914260 TTACTTGTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:7931563 original size:10 final size:10
Alignment explanation
Indices: 7931548--7931573 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7931538 AGGGTATGAT
7931548 GGAATAGCGA
1 GGAATAGCGA
7931558 GGAATAGCGA
1 GGAATAGCGA
7931568 GGAATA
1 GGAATA
7931574 ACCGGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.38, T:0.12
Consensus pattern (10 bp):
GGAATAGCGA
Found at i:7936291 original size:14 final size:14
Alignment explanation
Indices: 7936272--7936299 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7936262 GAAATAAAAT
7936272 TTAATTTATTCAGA
1 TTAATTTATTCAGA
7936286 TTAATTTATTCAGA
1 TTAATTTATTCAGA
7936300 ACAAACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTTATTCAGA
Found at i:7939593 original size:46 final size:46
Alignment explanation
Indices: 7939540--7939632 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
7939530 AGACAAAGAG
7939540 AAAGCACGTTAAAGAATAATGCAAATTGCTGATGTTTAGAAGCTCA
1 AAAGCACGTTAAAGAATAATGCAAATTGCTGATGTTTAGAAGCTCA
7939586 AAAGCACGTTAAAGAATAATGCAAATTGCTGATGTTTAGAAGCTCA
1 AAAGCACGTTAAAGAATAATGCAAATTGCTGATGTTTAGAAGCTCA
7939632 A
1 A
7939633 GCGACTAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (46 bp):
AAAGCACGTTAAAGAATAATGCAAATTGCTGATGTTTAGAAGCTCA
Found at i:7941175 original size:22 final size:22
Alignment explanation
Indices: 7941150--7941200 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7941140 ATATTGTAGC
7941150 AAAATAGTGAG-AAAATAATAAA
1 AAAATAGT-AGCAAAATAATAAA
*
7941172 AAAATAGTAGCAAAATAGTAAA
1 AAAATAGTAGCAAAATAATAAA
7941194 AAGAATA
1 AA-AATA
7941201 AGAAAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 20 0.77
23 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAATAAA
Found at i:7941208 original size:33 final size:33
Alignment explanation
Indices: 7941145--7941207 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
7941135 TATTGATATT
*
7941145 GTAGCAAAATAGTGAGAAAATAATAAAAAAATA
1 GTAGCAAAATAGTGAGAAAAGAATAAAAAAATA
7941178 GTAGCAAAATAGT-A-AAAAGAATAAGAAAAA
1 GTAGCAAAATAGTGAGAAAAGAATAA-AAAAA
7941208 ACAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 9 0.32
32 6 0.21
33 13 0.46
ACGTcount: A:0.65, C:0.03, G:0.16, T:0.16
Consensus pattern (33 bp):
GTAGCAAAATAGTGAGAAAAGAATAAAAAAATA
Found at i:7946147 original size:2 final size:2
Alignment explanation
Indices: 7946140--7946172 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7946130 TCTAAACATA
7946140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7946173 AAACTTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7950253 original size:21 final size:20
Alignment explanation
Indices: 7950138--7950256 Score: 63
Period size: 21 Copynumber: 6.0 Consensus size: 20
7950128 TTATATTTTC
* *
7950138 TATTA-AAAATTAATATAAA
1 TATTATAAAATTTATAAAAA
*
7950157 T-TTATAAAAAATTCATAAAAA
1 TATTAT--AAAATTTATAAAAA
* *
7950178 CA-TAT-AAATATTATACAAA
1 TATTATAAAAT-TTATAAAAA
* *
7950197 TACTA-ATAAA-TTATTAAAA
1 TATTATA-AAATTTATAAAAA
*
7950216 TATTATAAAATTAATAAAACA
1 TATTATAAAATTTATAAAA-A
7950237 TATT-TAAAATTTTATAAAAA
1 TATTATAAAA-TTTATAAAAA
7950257 CTCACCAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
18 7 0.09
19 23 0.30
20 15 0.20
21 31 0.41
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTATAAAATTTATAAAAA
Found at i:7950787 original size:3 final size:3
Alignment explanation
Indices: 7950779--7950807 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7950769 AAAAATTCAA
7950779 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7950808 AATCCGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7951064 original size:10 final size:10
Alignment explanation
Indices: 7951037--7951121 Score: 74
Period size: 9 Copynumber: 8.8 Consensus size: 10
7951027 ATAAATGAAT
7951037 TTTTAT-ATA
1 TTTTATAATA
7951046 TTTTA-AATA
1 TTTTATAATA
*
7951055 TTTTAGAATA
1 TTTTATAATA
7951065 TTTTATAAGT-
1 TTTTATAA-TA
7951075 TTTTATAATA
1 TTTTATAATA
7951085 -TTTATAAGTA
1 TTTTATAA-TA
* *
7951095 -TTAATGAATT
1 TTTTAT-AATA
7951105 TTTTATAAT-
1 TTTTATAATA
7951114 TTTTATAA
1 TTTTATAA
7951122 GTTTATAGGA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
9 29 0.45
10 29 0.45
11 7 0.11
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (10 bp):
TTTTATAATA
Found at i:7951206 original size:20 final size:21
Alignment explanation
Indices: 7951161--7951206 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
7951151 ATGTTTTTTG
7951161 GATTTTTATAATTTATTAGAA
1 GATTTTTATAATTTATTAGAA
*
7951182 -TTTTTTAT-ATTTA-TAGTAA
1 GATTTTTATAATTTATTAG-AA
7951201 GATTTT
1 GATTTT
7951207 ATGATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.14
19 7 0.33
20 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (21 bp):
GATTTTTATAATTTATTAGAA
Found at i:7951240 original size:20 final size:18
Alignment explanation
Indices: 7951221--7951261 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
7951211 TTTTTTTATA
7951221 ATTTTTAAAGTTTATATAT
1 ATTTTTAAAGTTTA-ATAT
*
7951240 ATTTTTAAATTTTAATAT
1 ATTTTTAAAGTTTAATAT
7951258 -TTTT
1 ATTTT
7951262 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAAAGTTTAATAT
Found at i:7951243 original size:19 final size:17
Alignment explanation
Indices: 7951214--7951262 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
7951204 TTTATGATTT
7951214 TTTTATA-ATTTTTAAA
1 TTTTATATATTTTTAAA
7951230 GTTTATATATATTTTTAAA
1 -TTT-TATATATTTTTAAA
7951249 TTTTA-ATATTTTTA
1 TTTTATATATTTTTA
7951263 TGATTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 7 0.23
19 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATATTTTTAAA
Found at i:7951801 original size:67 final size:67
Alignment explanation
Indices: 7951724--7951858 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
7951714 TGTAAATGGC
7951724 TAGTCTAAATCTATTTTAAGTTTCTCCATAGTATTTTATTTTTTAAAAATGTTTATACTATTTTT
1 TAGTCTAAATCTATTTTAAGTTTCTCCATAGTATTTTATTTTTTAAAAATGTTTATACTATTTTT
7951789 AT
66 AT
7951791 TAGTCTAAATCTATTTTAAGTTTCTCCATAGTATTTTATTTTTTAAAAATGTTTATACTATTTTT
1 TAGTCTAAATCTATTTTAAGTTTCTCCATAGTATTTTATTTTTTAAAAATGTTTATACTATTTTT
7951856 AT
66 AT
7951858 T
1 T
7951859 TTAATATTTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.56
Consensus pattern (67 bp):
TAGTCTAAATCTATTTTAAGTTTCTCCATAGTATTTTATTTTTTAAAAATGTTTATACTATTTTT
AT
Found at i:7972808 original size:45 final size:45
Alignment explanation
Indices: 7972756--7972854 Score: 182
Period size: 45 Copynumber: 2.2 Consensus size: 45
7972746 TTTATTAAAC
7972756 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAATAAT
1 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAATAAT
7972801 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAATAAT
1 AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAATAAT
7972846 -ATATATAAA
1 AATA-ATAAA
7972855 AAGAAAAGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 3 0.06
45 50 0.94
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (45 bp):
AATAATAAATTAATGTTTATTTAATGGTTTACTTAATATAATAAT
Found at i:7973194 original size:55 final size:55
Alignment explanation
Indices: 7973087--7973194 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
7973077 TAATCTTAAT
* * **
7973087 TGTTGGAATACTACTTCTTTTAAATATATTTTTTATATGTTTAAATTGATTGTGA
1 TGTTGGAATACTACTTCTTTTAAATATATTATTTATATATTTAAATCAATTGTGA
* *
7973142 TGTTGGAATATTATCTT-TTTTGAATCA-ATTATTTATATATTTAAATCAATTGT
1 TGTTGGAATACTA-CTTCTTTTAAAT-ATATTATTTATATATTTAAATCAATTGT
7973195 TACATAGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 41 0.91
56 4 0.09
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (55 bp):
TGTTGGAATACTACTTCTTTTAAATATATTATTTATATATTTAAATCAATTGTGA
Found at i:7980584 original size:48 final size:48
Alignment explanation
Indices: 7980493--7980584 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
7980483 TTAGAGTGTT
** ** * *
7980493 GATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGTGAGTTATAAC
1 GATTTGGCTTCAAGCCATGATATCAATACTTCGGGTATAAGTTATAAC
7980541 GATTTGGCTTCAAGCCATGATATCAATACTTCGGAG-ATAAGTTA
1 GATTTGGCTTCAAGCCATGATATCAATACTTCGG-GTATAAGTTA
7980585 CCTTGTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 36 0.97
49 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (48 bp):
GATTTGGCTTCAAGCCATGATATCAATACTTCGGGTATAAGTTATAAC
Found at i:7982041 original size:22 final size:22
Alignment explanation
Indices: 7982012--7982079 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
7982002 TGCACAAACG
7982012 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
7982034 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
7982056 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
7982079 A
1 A
7982080 TAATAGAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:7983259 original size:7 final size:7
Alignment explanation
Indices: 7983249--7983337 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
7983239 TACTTATGTT
7983249 TTATATA
1 TTATATA
7983256 -T-TATA
1 TTATATA
7983261 TTATATA
1 TTATATA
*
7983268 TAATATA
1 TTATATA
*
7983275 ATA-ATA
1 TTATATA
*
7983281 TGATATA
1 TTATATA
7983288 TTATATA
1 TTATATA
7983295 TTA-ATA
1 TTATATA
*
7983301 CTTAAATA
1 -TTATATA
7983309 TTA-A-A
1 TTATATA
7983314 TTAATATA
1 TT-ATATA
*
7983322 ATATATA
1 TTATATA
*
7983329 ATATATA
1 TTATATA
7983336 TT
1 TT
7983338 TTTATATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.11
6 11 0.17
7 43 0.65
8 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:7983286 original size:20 final size:20
Alignment explanation
Indices: 7983258--7983300 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7983248 TTTATATATT
*
7983258 ATATTATATATAATATAATA
1 ATATGATATATAATATAATA
* *
7983278 ATATGATATATTATATATTA
1 ATATGATATATAATATAATA
7983298 ATA
1 ATA
7983301 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATATAATATAATA
Found at i:7984791 original size:46 final size:45
Alignment explanation
Indices: 7984718--7984893 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
7984708 TATTTGGGCA
* *
7984718 TCCGAGCTCGTTGAGTTGAATCCGAGTTCATTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
7984764 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
7984809 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
7984857 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7984894 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:7984873 original size:93 final size:93
Alignment explanation
Indices: 7984714--7984885 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
7984704 GGAATATTTG
* * **
7984714 GGCATCCGAGCTCGTTGAGTTGAATCCGAGTTCATTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
7984779 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
7984807 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
7984872 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
7984886 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:7989268 original size:38 final size:38
Alignment explanation
Indices: 7989210--7989503 Score: 185
Period size: 38 Copynumber: 7.0 Consensus size: 38
7989200 TTTCAAATTA
* *
7989210 ACATGTATAA-CGTGGCATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
7989247 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
7989288 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACTACGTT
1 --A-C-ATGT-T-TAACCGTGGTATATCCACTTAGCACCACGTT
* *
7989332 ACATGTATCAATATATGTAATCGTGGTATATCTACTTAGCACCACGTT
1 ACATG--------T-T-TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
7989380 ACACGTATAACCGTGGTATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
* * *
7989418 ACATGTATCAATATATGTAATCGTGGTATAACCACTTAGCACCACATT
1 ACATG--------T-T-TAACCGTGGTATATCCACTTAGCACCACGTT
* *
7989466 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
7989504 TTTCCATTCC
Statistics
Matches: 205, Mismatches: 24, Indels: 55
0.72 0.08 0.19
Matches are distributed among these distances:
37 9 0.04
38 84 0.41
39 1 0.00
40 4 0.02
41 2 0.01
42 1 0.00
43 1 0.00
44 2 0.01
45 3 0.01
46 3 0.01
47 27 0.13
48 68 0.33
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:7989363 original size:48 final size:48
Alignment explanation
Indices: 7989254--7989473 Score: 264
Period size: 48 Copynumber: 4.8 Consensus size: 48
7989244 GTTACATGTT
*
7989254 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
7989301 TAACCGTGGCATATCCACTTAGCACTACGTTACATGTATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
7989349 TAATCGTGGTATATCTACTTAGCACCACGTTAC----A-C---GTA--
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
*
7989387 TAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * * *
7989435 TAATCGTGGTATAACCACTTAGCACCACATTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
7989474 AACCGTGGTA
Statistics
Matches: 147, Mismatches: 15, Indels: 21
0.80 0.08 0.11
Matches are distributed among these distances:
38 30 0.20
40 2 0.01
42 1 0.01
43 2 0.01
44 1 0.01
46 2 0.01
47 30 0.20
48 79 0.54
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:7989410 original size:86 final size:86
Alignment explanation
Indices: 7989301--7989503 Score: 352
Period size: 86 Copynumber: 2.4 Consensus size: 86
7989291 TCAATATATG
* * * *
7989301 TAACCGTGGCATATCCACTTAGCACTACGTTACATGTATCAATATATGTAATCGTGGTATATCTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCGTGGTATAACCA
*
7989366 CTTAGCACCACGTTACACGTA
66 CTTAGCACCACATTACACGTA
*
7989387 TAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAATATATGTAATCGTGGTATAACCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCGTGGTATAACCA
7989452 CTTAGCACCACATTACACGTA
66 CTTAGCACCACATTACACGTA
7989473 TAACCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
7989504 TTTCCATTCC
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 110 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (86 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCGTGGTATAACCA
CTTAGCACCACATTACACGTA
Found at i:7992666 original size:19 final size:20
Alignment explanation
Indices: 7992620--7992666 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
7992610 ATCGAGTGAT
*
7992620 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
7992641 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
7992660 TAATTAG
1 TAATTAG
7992667 GAAAAAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:8003164 original size:25 final size:25
Alignment explanation
Indices: 8003136--8003197 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
8003126 TTTCTAACTA
* *
8003136 ATCACTAAATTGATAAAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
** *
8003161 ATCAATATTTTCATACAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
8003186 ATCATATAAATT
1 ATCA-ATAAATT
8003198 TTCAAGCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
ATCAATAAATTCATAAAATTTTCCT
Found at i:8004818 original size:51 final size:54
Alignment explanation
Indices: 8004733--8004851 Score: 156
Period size: 51 Copynumber: 2.3 Consensus size: 54
8004723 AAGTGTCGCC
* *
8004733 TTACTGTTACTGTTCCGGATTCGTTCCATAGAGGTACT-T-TGTACC-TTACTG
1 TTACTGTTACTGTTCCGAATTCGTTCCATAGAGGTACTCTGTGTACCGCTACTG
* * *
8004784 TTACTGTTACTGTTTCGAATTTGTTTCGAT-GAGGTACTCTGTGTACCGCTACTG
1 TTACTGTTACTGTTCCGAATTCG-TTCCATAGAGGTACTCTGTGTACCGCTACTG
8004838 TTACTGTTACTGTT
1 TTACTGTTACTGTT
8004852 ACCGTTACGG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 28 0.47
52 6 0.10
53 6 0.10
54 19 0.32
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
TTACTGTTACTGTTCCGAATTCGTTCCATAGAGGTACTCTGTGTACCGCTACTG
Found at i:8005511 original size:20 final size:20
Alignment explanation
Indices: 8005486--8005530 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
8005476 CTTTCTTTAC
*
8005486 AATTTAGTCTTTCCACCAAA
1 AATTTAGTATTTCCACCAAA
* * *
8005506 AATTTATTATTTTCACCTAA
1 AATTTAGTATTTCCACCAAA
8005526 AATTT
1 AATTT
8005531 GAAAGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTTAGTATTTCCACCAAA
Found at i:8007301 original size:46 final size:46
Alignment explanation
Indices: 8007229--8007544 Score: 382
Period size: 46 Copynumber: 6.9 Consensus size: 46
8007219 GTACTCTCTA
* * * *
8007229 ATATGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCAACCTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * **
8007275 ATATGAAATGTGCAAGACCGTGGTTGAAAGATACCATGGCAACCGG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
8007321 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
8007367 ATATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAGCATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*** * * *
8007413 ACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
8007459 ACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * *
8007505 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGC
8007545 GTCATGTCAG
Statistics
Matches: 242, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 241 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:8007852 original size:16 final size:17
Alignment explanation
Indices: 8007831--8007863 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8007821 ATGATGGAGC
8007831 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
8007847 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
8007864 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:8008494 original size:18 final size:18
Alignment explanation
Indices: 8008471--8008528 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
8008461 TAAATAAAGG
* *
8008471 TACTGAATAATTAACTGC
1 TACTGAATAACTGACTGC
*
8008489 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
*
8008507 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGC
8008525 TACT
1 TACT
8008529 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:8008568 original size:18 final size:18
Alignment explanation
Indices: 8008541--8008587 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8008531 AAAAAAATTC
* *
8008541 TTACTTAATAATTGATTA
1 TTACTGAATAATTGATCA
* *
8008559 TTACTGAATAATTTATCG
1 TTACTGAATAATTGATCA
8008577 TTACTGAATAA
1 TTACTGAATAA
8008588 CTGACTGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (18 bp):
TTACTGAATAATTGATCA
Found at i:8010556 original size:21 final size:21
Alignment explanation
Indices: 8010542--8010623 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
8010532 GACACATAAA
8010542 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
8010563 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* * * *
8010584 GTGTCTGATACGACACGCGAG
1 GTGCCTAAAACGACACACGAG
8010605 GTGCCTAAAATACGACACA
1 GTGCCT-AAA-ACGACACA
8010624 TAAAGTGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 43 0.84
22 1 0.02
23 7 0.14
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:8028101 original size:3 final size:3
Alignment explanation
Indices: 8028088--8028129 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
8028078 GTGATACGCC
*
8028088 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8028130 TATTTTTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8041762 original size:3 final size:3
Alignment explanation
Indices: 8041754--8041789 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
8041744 GATCCAAATC
8041754 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8041790 TTTATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8053197 original size:15 final size:15
Alignment explanation
Indices: 8053171--8053226 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
8053161 CAAGGAAACC
8053171 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
8053186 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
8053201 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
8053216 GAATAAAGAAA
1 GAATAAAGAAA
8053227 CCCAAGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:8056267 original size:46 final size:46
Alignment explanation
Indices: 8056200--8056371 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
8056190 ACCCGCCCAT
*
8056200 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAC
* * * * * *
8056246 AAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAG-TTACATC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCATCCA-C
** * * * *
8056293 -TCTCGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAC
* *
8056339 AAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA
8056372 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
46 65 0.66
47 33 0.34
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAC
Found at i:8056332 original size:93 final size:93
Alignment explanation
Indices: 8056204--8056374 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
8056194 GCCCATAAGT
* * *
8056204 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGAACTCAACTCAA
8056269 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * *
8056297 GAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGAACTCAACTCAA
* *
8056362 CGAGTTCGGATGC
66 CGAGCTCAGATGC
8056375 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGAACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:8061020 original size:19 final size:19
Alignment explanation
Indices: 8060989--8061029 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
8060979 AAAAGCGGGG
8060989 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGA-A
8061009 AAAGAAAG-AAGAAAGGAA
1 AAAGAAAGAAAGAAAGGAA
8061027 AAA
1 AAA
8061030 TTGTCTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAGAAAGGAA
Found at i:8066641 original size:39 final size:39
Alignment explanation
Indices: 8066565--8066711 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
8066555 AAACAATCAA
* * * *
8066565 TAACAATCAGTTATTTAGTACAGTAATTTAGTCATTCAG
1 TAACTATCAATTATTCAGTACAGTAATTTAGTTATTCAG
* * * * *
8066604 TAAGTATCAAATATTCAGTGCAGTAGTTTAGTTATTCAA
1 TAACTATCAATTATTCAGTACAGTAATTTAGTTATTCAG
* *
8066643 TAACTATCAATTATTTAATACAGTAATTTAGTTATTCAG
1 TAACTATCAATTATTCAGTACAGTAATTTAGTTATTCAG
*
8066682 TAACTATCAATTATTCAGTACAGTAGTTTA
1 TAACTATCAATTATTCAGTACAGTAATTTA
8066712 CCCCTATTAA
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (39 bp):
TAACTATCAATTATTCAGTACAGTAATTTAGTTATTCAG
Found at i:8066657 original size:78 final size:78
Alignment explanation
Indices: 8066561--8066711 Score: 239
Period size: 78 Copynumber: 1.9 Consensus size: 78
8066551 TATCAAACAA
* * * *
8066561 TCAATAACAATCAGTTATTTAGTACAGTAATTTAGTCATTCAGTAAGTATCAAATATTCAGTGCA
1 TCAATAACAATCAATTATTTAATACAGTAATTTAGTCATTCAGTAACTATCAAATATTCAGTACA
8066626 GTAGTTTAGTTAT
66 GTAGTTTAGTTAT
* * *
8066639 TCAATAACTATCAATTATTTAATACAGTAATTTAGTTATTCAGTAACTATCAATTATTCAGTACA
1 TCAATAACAATCAATTATTTAATACAGTAATTTAGTCATTCAGTAACTATCAAATATTCAGTACA
8066704 GTAGTTTA
66 GTAGTTTA
8066712 CCCCTATTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (78 bp):
TCAATAACAATCAATTATTTAATACAGTAATTTAGTCATTCAGTAACTATCAAATATTCAGTACA
GTAGTTTAGTTAT
Found at i:8068206 original size:10 final size:10
Alignment explanation
Indices: 8068191--8068248 Score: 64
Period size: 10 Copynumber: 5.6 Consensus size: 10
8068181 AATATCTATT
8068191 TAAATAATTA
1 TAAATAATTA
*
8068201 TAAATAATAA
1 TAAATAATTA
8068211 TAAAT-ATCTA
1 TAAATAAT-TA
8068221 TTTAAATAATTA
1 --TAAATAATTA
*
8068233 TAAATAATAA
1 TAAATAATTA
8068243 TAAATA
1 TAAATA
8068249 TCTATTTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.05
10 30 0.73
12 7 0.17
13 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAATAATTA
Found at i:8068212 original size:16 final size:16
Alignment explanation
Indices: 8068193--8068245 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
8068183 TATCTATTTA
8068193 AATAATTATAAATAAT
1 AATAATTATAAATAAT
* ** *
8068209 AATAAATATCTAT-TT
1 AATAATTATAAATAAT
8068224 AAATAATTATAAATAAT
1 -AATAATTATAAATAAT
8068241 AATAA
1 AATAA
8068246 ATATCTATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATTATAAATAAT
Found at i:8068216 original size:32 final size:32
Alignment explanation
Indices: 8068160--8068256 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
8068150 TAAAAATCTT
*
8068160 ATAATATATATAATTATAATAAATATCTATTTAA
1 ATAAT-TATA-AATAATAATAAATATCTATTTAA
8068194 ATAATTATAAATAATAATAAATATCTATTTAA
1 ATAATTATAAATAATAATAAATATCTATTTAA
8068226 ATAATTATAAATAATAATAAATATCTATTTA
1 ATAATTATAAATAATAATAAATATCTATTTA
8068257 CTTTAATAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 53 0.85
33 4 0.06
34 5 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (32 bp):
ATAATTATAAATAATAATAAATATCTATTTAA
Found at i:8070482 original size:12 final size:12
Alignment explanation
Indices: 8070465--8070495 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8070455 GAAGCAGGGG
8070465 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
8070477 AGAAAAAGGGAA
1 AGAAAAAGAGAA
8070489 AGAAAAA
1 AGAAAAA
8070496 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:8072620 original size:2 final size:2
Alignment explanation
Indices: 8072613--8072638 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8072603 CCAAAAATCA
8072613 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8072639 CTTTCATTTA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8079138 original size:12 final size:12
Alignment explanation
Indices: 8079108--8079140 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8079098 TATATATTTT
8079108 AAAATT-ATATA
1 AAAATTAATATA
8079119 AAAA-TAATATA
1 AAAATTAATATA
8079130 AAAATTAATAT
1 AAAATTAATAT
8079141 GAACTTGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:8079473 original size:31 final size:30
Alignment explanation
Indices: 8079413--8079474 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
8079403 TCACTCTGCT
**
8079413 TATATATATACATATATTGTTTATTTTAAA
1 TATATATATACATATATTGTTTAAATTAAA
* *
8079443 TATATTTATACTATATATTTTTTAAATTAAA
1 TATATATATAC-ATATATTGTTTAAATTAAA
8079474 T
1 T
8079475 TCAACCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (30 bp):
TATATATATACATATATTGTTTAAATTAAA
Found at i:8089461 original size:25 final size:25
Alignment explanation
Indices: 8089433--8089488 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
8089423 TCGCGAAGAG
*
8089433 AAAGAAAAAAATAAA-AGAAAATACA
1 AAAGAAAAAAATAAATA-AAAATAAA
*
8089458 AAAGAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAATAAATAAAAATAAA
8089483 AAAGAA
1 AAAGAA
8089489 CCAAGAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (25 bp):
AAAGAAAAAAATAAATAAAAATAAA
Found at i:8090288 original size:43 final size:43
Alignment explanation
Indices: 8090240--8090575 Score: 264
Period size: 43 Copynumber: 7.8 Consensus size: 43
8090230 TTATTTGATT
*
8090240 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * ** *
8090283 TTCAGCTTGTTACCCTACTTCTTA-GGGGTTAAGGCCCTTCGT--C
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAA
* * * *
8090326 TTC-GATCTGTTTCCCTACTGCTTAGGGCGTTAAAATCTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
** *
8090369 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--C
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAA
* * * * *
8090413 TTC-GATCTGTTTCCCTACTACTTAGGGAGCTAAGATCTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
**
8090456 TTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCCCTTCGT--A
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAA
* *
8090499 TTCGATCTCT-TT-CCCTACTGCTTAGGGGGCTAAGATCTGTAAA
1 TTC-AGC-CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
*
8090542 TTCAGCCTGTTACCCTACTGCTCAGGGGGTTAAG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
8090576 GCCCTTCGTC
Statistics
Matches: 225, Mismatches: 43, Indels: 50
0.71 0.14 0.16
Matches are distributed among these distances:
41 8 0.04
42 22 0.10
43 137 0.61
44 49 0.22
45 7 0.03
46 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (43 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:8090393 original size:86 final size:87
Alignment explanation
Indices: 8090246--8090596 Score: 571
Period size: 86 Copynumber: 4.1 Consensus size: 87
8090236 GATTTTCAGC
* * * *
8090246 CTGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTTCTTA-GGG
1 CTGTTTCCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
8090310 GTTAAGGCCCTTCGTCTTCGAT
66 GTTAAGGCCCTTCGTCTTCGAT
* * * *
8090332 CTGTTTCCCTACTGCTTAGGGCGTTAAAATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
8090397 GTTAAGGCCCTTCGTCTTCGAT
66 GTTAAGGCCCTTCGTCTTCGAT
*
8090419 CTGTTTCCCTACTACTTAGGGAGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA-GGG
1 CTGTTTCCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
*
8090483 GTTAAGGCCCTTCGTATTCGAT
66 GTTAAGGCCCTTCGTCTTCGAT
* * *
8090505 CTCTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTCAGGGG
1 CTGTTTCCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
8090570 GTTAAGGCCCTTCGTCTTCGAT
66 GTTAAGGCCCTTCGTCTTCGAT
8090592 CTGTT
1 CTGTT
8090597 ACACCATTCT
Statistics
Matches: 246, Mismatches: 17, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
86 136 0.55
87 110 0.45
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (87 bp):
CTGTTTCCCTACTACTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
GTTAAGGCCCTTCGTCTTCGAT
Found at i:8090541 original size:173 final size:173
Alignment explanation
Indices: 8090246--8090598 Score: 607
Period size: 173 Copynumber: 2.0 Consensus size: 173
8090236 GATTTTCAGC
* * * *
8090246 CTGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTTCTTAGGGG
1 CTGTTACCCTACTACTTAGGGAGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* * *
8090311 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGCGTTAAAATCTGTAAATTCAGCC
66 TTAAGGCCCTTCGTATTCGATCTCTTTCCCTACTGCTTAGGGCGCTAAAATCTGTAAATTCAGCC
*
8090376 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
131 TGTTACCCTACTGCTCAGGGGGTTAAGGCCCTTCGTCTTCGAT
*
8090419 CTGTTTCCCTACTACTTAGGGAGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTACCCTACTACTTAGGGAGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* *
8090484 TTAAGGCCCTTCGTATTCGATCTCTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGCC
66 TTAAGGCCCTTCGTATTCGATCTCTTTCCCTACTGCTTAGGGCGCTAAAATCTGTAAATTCAGCC
8090549 TGTTACCCTACTGCTCAGGGGGTTAAGGCCCTTCGTCTTCGAT
131 TGTTACCCTACTGCTCAGGGGGTTAAGGCCCTTCGTCTTCGAT
8090592 CTGTTAC
1 CTGTTAC
8090599 ACCATTCTTT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
173 168 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (173 bp):
CTGTTACCCTACTACTTAGGGAGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
TTAAGGCCCTTCGTATTCGATCTCTTTCCCTACTGCTTAGGGCGCTAAAATCTGTAAATTCAGCC
TGTTACCCTACTGCTCAGGGGGTTAAGGCCCTTCGTCTTCGAT
Found at i:8098593 original size:19 final size:20
Alignment explanation
Indices: 8098565--8098606 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
8098555 GTCTTTTCGC
* *
8098565 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
8098584 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
8098604 GAA
1 GAA
8098607 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:8100667 original size:3 final size:3
Alignment explanation
Indices: 8100562--8100650 Score: 65
Period size: 3 Copynumber: 29.7 Consensus size: 3
8100552 GAATATAAGT
* * * * * * *
8100562 ATA ATA ATA ATA GTA ATA AT- ATA ATA ATG ACA ATA GTG ACA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* *
8100610 ACA ACA ATA ATA ATA ATA ATA ATA ATA AT- ATCA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT
8100651 GATGATGATG
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 4 0.06
3 59 0.88
4 4 0.06
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:8105839 original size:46 final size:44
Alignment explanation
Indices: 8105780--8105894 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
8105770 ACAGGACAGA
* *
8105780 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
8105826 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
8105870 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
8105895 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:8105875 original size:44 final size:45
Alignment explanation
Indices: 8105780--8105913 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
8105770 ACAGGACAGA
* *
8105780 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
8105826 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
8105870 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
8105914 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:8111966 original size:25 final size:25
Alignment explanation
Indices: 8111926--8111982 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
8111916 TCGCGAAGAG
*
8111926 AAAGAAAAAAAATAAA-AGAAAATACA
1 AAAG-AAAAAAATAAATA-AAAATAAA
*
8111952 AAAGAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAATAAATAAAAATAAA
8111977 AAAGAA
1 AAAGAA
8111983 CCAAGAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.09
Consensus pattern (25 bp):
AAAGAAAAAAATAAATAAAAATAAA
Found at i:8116475 original size:2 final size:2
Alignment explanation
Indices: 8116468--8116498 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8116458 ATAATAGGTA
8116468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8116499 AAACAGCTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8119459 original size:5 final size:5
Alignment explanation
Indices: 8119449--8119479 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
8119439 GTTGGGTGTT
8119449 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC T
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC T
8119480 GCAAGGCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
TTCCC
Found at i:8119582 original size:27 final size:27
Alignment explanation
Indices: 8119551--8119603 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
8119541 TTTGTTGATT
8119551 TTCTTTTCATTTCCCTTTCGTTTTTAA
1 TTCTTTTCATTTCCCTTTCGTTTTTAA
8119578 TTCTTTTCATTTCCCTTTCGTTTTTA
1 TTCTTTTCATTTCCCTTTCGTTTTTA
8119604 CTTTCTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.09, C:0.23, G:0.04, T:0.64
Consensus pattern (27 bp):
TTCTTTTCATTTCCCTTTCGTTTTTAA
Found at i:8140365 original size:31 final size:30
Alignment explanation
Indices: 8140316--8140375 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8140306 ATGTTAACAA
* *
8140316 TTGGACATAAATTTTAAAATTTAAAAAGTAG
1 TTGGACATAAATTCTAAAA-GTAAAAAGTAG
8140347 TTGGA-ATAAACTTCTAAAAGTAAAAAGTA
1 TTGGACATAAA-TTCTAAAAGTAAAAAGTA
8140376 CTAAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (30 bp):
TTGGACATAAATTCTAAAAGTAAAAAGTAG
Found at i:8141241 original size:16 final size:16
Alignment explanation
Indices: 8141222--8141255 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8141212 TAAGTATTTT
*
8141222 TTTTTGATAAAAAATA
1 TTTTTGAGAAAAAATA
8141238 TTTTTGAGAAAAAATA
1 TTTTTGAGAAAAAATA
8141254 TT
1 TT
8141256 AATAAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTTTGAGAAAAAATA
Found at i:8168459 original size:51 final size:51
Alignment explanation
Indices: 8168400--8168509 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
8168390 CTGATCACAT
8168400 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
8168451 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
8168502 TTGTCACT
1 TTATCACT
8168510 GATCAGAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:8170155 original size:21 final size:21
Alignment explanation
Indices: 8170131--8170182 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
8170121 CTTTTTATTC
8170131 AATTAAC-TATCGAAACTTTAA
1 AATTAACTTA-CGAAACTTTAA
*
8170152 AATT-TCTTGACGAAACTTTAA
1 AATTAACTT-ACGAAACTTTAA
*
8170173 TATTAACTTA
1 AATTAACTTA
8170183 TTAACACTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (21 bp):
AATTAACTTACGAAACTTTAA
Found at i:8171674 original size:16 final size:16
Alignment explanation
Indices: 8171643--8171676 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8171633 ACTTTATGTT
**
8171643 TATTATATTATTATAA
1 TATTATATTAACATAA
8171659 TATTATATTAACATAA
1 TATTATATTAACATAA
8171675 TA
1 TA
8171677 ATAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATATTAACATAA
Found at i:8171759 original size:23 final size:23
Alignment explanation
Indices: 8171707--8171752 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8171697 AAGTAAAGAC
* *
8171707 ATGTATGTATTACAAATGTATAT
1 ATGTATTTATTACAAATGTACAT
*
8171730 ATGTATTTATTACACATGTACAT
1 ATGTATTTATTACAAATGTACAT
8171753 TATTATTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (23 bp):
ATGTATTTATTACAAATGTACAT
Found at i:8182138 original size:53 final size:53
Alignment explanation
Indices: 8181983--8182147 Score: 210
Period size: 53 Copynumber: 3.1 Consensus size: 53
8181973 ACGAAAAATG
* **
8181983 TGTGATAA-GTGCAC-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAA
1 TGTGATAATGTG-ACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAA
*
8182035 TGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATAGCATCGGTATAA
1 TGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAA
* * *
8182088 TGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATA
1 TGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-A
8182143 TGTGA
1 TGTGA
8182148 ACCGTGTAAG
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
52 11 0.11
53 82 0.82
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (53 bp):
TGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAA
Found at i:8183933 original size:2 final size:2
Alignment explanation
Indices: 8183926--8183959 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8183916 AATCCATTCA
8183926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8183960 CAATTCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8195338 original size:16 final size:18
Alignment explanation
Indices: 8195311--8195345 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8195301 ATGTAATTTA
8195311 TAAAATTTTATAA-ATAT
1 TAAAATTTTATAATATAT
8195328 TAAAA-TTTATAATATAT
1 TAAAATTTTATAATATAT
8195345 T
1 T
8195346 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTTATAATATAT
Found at i:8203395 original size:16 final size:16
Alignment explanation
Indices: 8203363--8203440 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 16
8203353 ATAATTATTT
8203363 TTATTTTTA-A-TATAA
1 TTATTTTTATATTA-AA
8203378 TTATTTTTATATTAAA
1 TTATTTTTATATTAAA
*
8203394 TTATATTAAAATATGATTAAA
1 TTAT-TT---TTAT-ATTAAA
* *
8203415 ATATTATTTTTATTAAA
1 TTATT-TTTATATTAAA
8203432 TTATTTTTA
1 TTATTTTTA
8203441 ATAATAATTC
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
15 9 0.18
16 10 0.20
17 14 0.29
18 2 0.04
20 4 0.08
21 10 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (16 bp):
TTATTTTTATATTAAA
Found at i:8203401 original size:21 final size:21
Alignment explanation
Indices: 8203350--8203394 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8203340 TAATAAAAAT
* *
8203350 AATATAATTATTTTTATTTTT
1 AATATAATTATTTTTATATTA
8203371 AATATAATTATTTTTATATTA
1 AATATAATTATTTTTATATTA
8203392 AAT
1 AAT
8203395 TATATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATATAATTATTTTTATATTA
Found at i:8203417 original size:11 final size:10
Alignment explanation
Indices: 8203385--8203418 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8203375 TAATTATTTT
*
8203385 TATATTAAAT
1 TATATTAAAA
8203395 TATATTAAAA
1 TATATTAAAA
8203405 TATGATTAAAA
1 TAT-ATTAAAA
8203416 TAT
1 TAT
8203419 TATTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
TATATTAAAA
Found at i:8217326 original size:31 final size:31
Alignment explanation
Indices: 8217288--8217348 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
8217278 ATCAAACGAA
8217288 ACAGAGAGCAGGGGAAAGAAAGAAGAAAGGT
1 ACAGAGAGCAGGGGAAAGAAAGAAGAAAGGT
*
8217319 ACAGAGAGCAGGGGAAAGAAAGAAGGAAGG
1 ACAGAGAGCAGGGGAAAGAAAGAAGAAAGG
8217349 AAAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.41, T:0.02
Consensus pattern (31 bp):
ACAGAGAGCAGGGGAAAGAAAGAAGAAAGGT
Found at i:8217357 original size:15 final size:16
Alignment explanation
Indices: 8217331--8217368 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
8217321 AGAGAGCAGG
*
8217331 GGAAAGAAAGAAGGAA
1 GGAAAGAAAGAAAGAA
8217347 GGAAA-AAAGAAAGAA
1 GGAAAGAAAGAAAGAA
8217362 GGAAAGA
1 GGAAAGA
8217369 TGGGAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
GGAAAGAAAGAAAGAA
Found at i:8217977 original size:2 final size:2
Alignment explanation
Indices: 8217970--8218000 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8217960 AAATTATTGG
8217970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8218001 GTAGGTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8218271 original size:16 final size:16
Alignment explanation
Indices: 8218250--8218283 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8218240 AAATATAGTT
8218250 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
8218266 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
8218282 AA
1 AA
8218284 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:8218703 original size:18 final size:18
Alignment explanation
Indices: 8218650--8218717 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
8218640 AAAGATCGAC
*
8218650 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
8218669 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
8218687 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
8218705 TGTTACTGGATAA
1 TGTTACTGAATAA
8218718 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:8223161 original size:22 final size:23
Alignment explanation
Indices: 8223134--8223176 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8223124 AAATTAAAAG
*
8223134 TAATATAAGT-ATTTTAAAATAA
1 TAATATAAGTGAATTTAAAATAA
8223156 TAATATAAGTGAATTTAAAAT
1 TAATATAAGTGAATTTAAAAT
8223177 GGATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
TAATATAAGTGAATTTAAAATAA
Found at i:8224086 original size:34 final size:34
Alignment explanation
Indices: 8224043--8224111 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8224033 TCACACAGAT
8224043 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
1 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
8224077 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
1 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
8224111 C
1 C
8224112 ATGTATCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (34 bp):
CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
Found at i:8232456 original size:17 final size:18
Alignment explanation
Indices: 8232430--8232468 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8232420 TCCTTAATAC
*
8232430 ATTCATGTATA-TAAAAT
1 ATTCAAGTATACTAAAAT
8232447 ATTCAAGTATACCTAAAAT
1 ATTCAAGTATA-CTAAAAT
8232466 ATT
1 ATT
8232469 GAGAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
19 9 0.47
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTCAAGTATACTAAAAT
Found at i:8241044 original size:27 final size:27
Alignment explanation
Indices: 8240918--8241049 Score: 192
Period size: 27 Copynumber: 4.9 Consensus size: 27
8240908 GTTTACCAAG
* *
8240918 TTACTGAAATACCCCTATAAGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
8240945 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
8240972 TTACTGAAATACCCCTATAGAGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
*
8240999 TTACTAAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* * *
8241026 TTACCGAAATACTCTTGTAGGGTA
1 TTACTGAAATACCCCTGTAGGGTA
8241050 AAACTTCTCC
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTAGGGTAGAA
Found at i:8248605 original size:53 final size:53
Alignment explanation
Indices: 8248464--8248614 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
8248454 ACAAGTGTGC
* **
8248464 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
8248517 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
8248570 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
8248615 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:8256564 original size:17 final size:16
Alignment explanation
Indices: 8256529--8256585 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
8256519 GAATATTTTA
*
8256529 AAAAATTAGAAATTCC
1 AAAAATTATAAATTCC
*
8256545 AAAAATTATAAATGTGC
1 AAAAATTATAAAT-TCC
*
8256562 AAAAATATATATATT--
1 AAAAAT-TATAAATTCC
8256577 AAAAATTAT
1 AAAAATTAT
8256586 TAAAATTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 12 0.33
17 9 0.25
18 6 0.17
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAAATTATAAATTCC
Found at i:8258236 original size:12 final size:12
Alignment explanation
Indices: 8258219--8258262 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
8258209 ATTAACATTG
8258219 TTAAATTTTTTA
1 TTAAATTTTTTA
* *
8258231 TTAAATTTATTG
1 TTAAATTTTTTA
8258243 TTAAATTTTTTA
1 TTAAATTTTTTA
8258255 TTAAATTT
1 TTAAATTT
8258263 ATTCACGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:8258243 original size:24 final size:24
Alignment explanation
Indices: 8258215--8258265 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
8258205 AATGATTAAC
8258215 ATTGTTAAATTTTTTATTAAATTT
1 ATTGTTAAATTTTTTATTAAATTT
8258239 ATTGTTAAATTTTTTATTAAATTT
1 ATTGTTAAATTTTTTATTAAATTT
8258263 ATT
1 ATT
8258266 CACGTGACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTGTTAAATTTTTTATTAAATTT
Found at i:8258441 original size:29 final size:30
Alignment explanation
Indices: 8258383--8258453 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
8258373 GTTGAAGTTG
* * *
8258383 AATATTAAAATTTAAAAAGTAGAAGAACTA
1 AATACTAAAAATTAAAAAGTACAAGAACTA
8258413 AATACTAAAAATT-AAAAGTAC-AGAGACTA
1 AATACTAAAAATTAAAAAGTACAAGA-ACTA
* *
8258442 AATTCCAAAAAT
1 AATACTAAAAAT
8258454 ATGAAGAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.09
29 21 0.60
30 11 0.31
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (30 bp):
AATACTAAAAATTAAAAAGTACAAGAACTA
Found at i:8266816 original size:19 final size:19
Alignment explanation
Indices: 8266774--8266816 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8266764 TAATAAAATC
* *
8266774 ATTTT-TAATTATTTATTA
1 ATTTTATAAATATTTAATA
*
8266792 ACTTTATAAATATTTAATA
1 ATTTTATAAATATTTAATA
8266811 ATTTTA
1 ATTTTA
8266817 ATTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATATTTAATA
Found at i:8273678 original size:11 final size:11
Alignment explanation
Indices: 8273659--8273701 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
8273649 AGGGAATGAT
* *
8273659 GGAACGGAAAA
1 GGAAAGGAAAG
8273670 GGAAAGGAAAG
1 GGAAAGGAAAG
8273681 GGAAAGGGAAAG
1 GGAAA-GGAAAG
8273693 GGAAAGGAA
1 GGAAAGGAA
8273702 GAAGATGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.00
Consensus pattern (11 bp):
GGAAAGGAAAG
Found at i:8273684 original size:6 final size:6
Alignment explanation
Indices: 8273664--8273699 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
8273654 ATGATGGAAC
*
8273664 GGAAAA GGAAA- GGAAAG GGAAAG GGAAAG GGAAAG G
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG G
8273700 AAGAAGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:8276447 original size:21 final size:22
Alignment explanation
Indices: 8276401--8276447 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
8276391 TTATTAATTC
8276401 AAATTTTCAAATTGAATATTTT
1 AAATTTTCAAATTGAATATTTT
*
8276423 -AATTTT-AAATAT-AATTTTTT
1 AAATTTTCAAAT-TGAATATTTT
8276443 AAATT
1 AAATT
8276448 GAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATTTTCAAATTGAATATTTT
Found at i:8277373 original size:15 final size:15
Alignment explanation
Indices: 8277341--8277379 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8277331 ATAGTAAAAA
* *
8277341 TATAATTTTATTTTTT
1 TATAA-TTTATATATT
8277357 TATAATTTATATATT
1 TATAATTTATATATT
8277372 TATAATTT
1 TATAATTT
8277380 TTAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATAATTTATATATT
Found at i:8277408 original size:29 final size:29
Alignment explanation
Indices: 8277337--8277442 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 29
8277327 TATAATAGTA
*
8277337 AAAATATAATTTTATT-TTTTT-ATAATT
1 AAAATATAATTTTATTATTTTTAAAAATT
* *
8277364 --TATAT-A-TTTATAATTTTTAAAATATT
1 AAAATATAATTTTATTATTTTTAAAA-ATT
* *
8277390 AAATTA-AATTTTATTATTTTTTGAAAATT
1 AAAATATAATTTTATTA-TTTTTAAAAATT
*
8277419 AAAATATAATTTTATTATTATTAA
1 AAAATATAATTTTATTATTTTTAA
8277443 TTTAAAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
23 5 0.08
24 6 0.10
25 6 0.10
26 3 0.05
28 3 0.05
29 19 0.32
30 18 0.30
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (29 bp):
AAAATATAATTTTATTATTTTTAAAAATT
Found at i:8277430 original size:30 final size:30
Alignment explanation
Indices: 8277377--8277437 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
8277367 ATATTTATAA
*
8277377 TTTTTAAAATATTAAATTAAATTTTATTAT
1 TTTTTAAAATATTAAAATAAATTTTATTAT
*
8277407 TTTTTGAAA-ATTAAAATATAATTTTATTAT
1 TTTTTAAAATATTAAAATA-AATTTTATTAT
8277437 T
1 T
8277438 ATTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTTAAAATATTAAAATAAATTTTATTAT
Found at i:8295252 original size:2 final size:2
Alignment explanation
Indices: 8295239--8295271 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
8295229 GAAAGACAAA
8295239 AG AG AG ATG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG
8295272 TTACAGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:8300756 original size:23 final size:23
Alignment explanation
Indices: 8300730--8300774 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8300720 TGAGTAAAAG
*
8300730 AATATTTA-AATATTAAAATATAC
1 AATATTAAGAATATT-AAATATAC
8300753 AATATTAAGAATATTAAATATA
1 AATATTAAGAATATTAAATATA
8300775 AGATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AATATTAAGAATATTAAATATAC
Found at i:8300776 original size:15 final size:16
Alignment explanation
Indices: 8300727--8300777 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
8300717 TTGTGAGTAA
8300727 AAGAATATTTAAATATT
1 AAGAATA-TTAAATATT
8300744 AA-AATA-TACAATATT
1 AAGAATATTA-AATATT
8300759 AAGAATATTAAATA-T
1 AAGAATATTAAATATT
8300774 AAGA
1 AAGA
8300778 TTTGAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.06
15 13 0.42
16 12 0.39
17 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (16 bp):
AAGAATATTAAATATT
Done.