Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 319 of 325
Found at i:102636980 original size:36 final size:36
Alignment explanation
Indices: 102636940--102637012 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
102636930 AAGCATATAT
* *
102636940 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
*
102636976 ATATTAATGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
102637012 A
1 A
102637013 GTCATGCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTTAGCTTCATTTA
Found at i:102637032 original size:52 final size:53
Alignment explanation
Indices: 102636976--102637108 Score: 139
Period size: 59 Copynumber: 2.4 Consensus size: 53
102636966 GCTTCATTTA
102636976 ATATTAATGCATATATATA-ATGT-TTT-GCTTCATTTAAGTCATGCGCATATA-T
1 ATATTAATGCATATATATATAT-TCTTTAGCTTCATTTAAGTCAT--GCATATATT
102637028 ATATTAATGCATTATGCATATATATTCCATTTAGCTTCATTTAAGTCATGCATATATT
1 ATATTAATGCA-TAT--ATATATATT-C-TTTAGCTTCATTTAAGTCATGCATATATT
* *
102637086 ATATTTTATGTATATATATATAT
1 ATA-TTAATGCATATATATATAT
102637109 ATTTAAAAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 16
0.79 0.02 0.18
Matches are distributed among these distances:
52 11 0.16
53 3 0.04
55 6 0.09
56 10 0.14
57 7 0.10
58 10 0.14
59 22 0.32
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (53 bp):
ATATTAATGCATATATATATATTCTTTAGCTTCATTTAAGTCATGCATATATT
Found at i:102637661 original size:36 final size:36
Alignment explanation
Indices: 102637614--102637687 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
102637604 TTTTATAAGT
102637614 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
1 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
102637650 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
1 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
102637686 AA
1 AA
102637688 CGCTTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (36 bp):
AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
Found at i:102640575 original size:21 final size:22
Alignment explanation
Indices: 102640551--102640593 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
102640541 TTACATGTAA
* *
102640551 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
102640572 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
102640594 ATTTCCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:102644463 original size:12 final size:12
Alignment explanation
Indices: 102644448--102644472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102644438 TCATCCTCTC
102644448 CATCAGATTCAT
1 CATCAGATTCAT
102644460 CATCAGATTCAT
1 CATCAGATTCAT
102644472 C
1 C
102644473 CCTCGATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATCAGATTCAT
Found at i:102654060 original size:28 final size:26
Alignment explanation
Indices: 102654029--102654118 Score: 62
Period size: 29 Copynumber: 3.3 Consensus size: 26
102654019 ACGATTCTAA
102654029 TATAAATATTAAAATAATGTTAAAAAAT
1 TATAAATA-TAAAATAAT-TTAAAAAAT
*
102654057 TAT--ATA-AAAATAATAAATAAAAAAT
1 TATAAATATAAAATAAT--TTAAAAAAT
102654082 TATAATATAATATAAAT-ATTTAAAAAAAT
1 TATAA-AT-ATA-AAATAATTT-AAAAAAT
*
102654111 TAAAAATA
1 TATAAATA
102654119 ATATGAACGA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
24 8 0.16
25 11 0.22
26 3 0.06
27 1 0.02
28 8 0.16
29 12 0.24
30 3 0.06
31 4 0.08
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (26 bp):
TATAAATATAAAATAATTTAAAAAAT
Found at i:102654093 original size:25 final size:24
Alignment explanation
Indices: 102654049--102654099 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
102654039 AAAATAATGT
102654049 TAAAAAATTATATAAAAATAATAAA
1 TAAAAAATTATATAAAAAT-ATAAA
*
102654074 TAAAAAATTATA-ATATAATATAAA
1 TAAAAAATTATATA-AAAATATAAA
102654098 TA
1 TA
102654100 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAAAATTATATAAAAATATAAA
Found at i:102660738 original size:1 final size:1
Alignment explanation
Indices: 102660734--102660758 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
102660724 TTTTGTTCTG
102660734 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
102660759 ACTATACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:102661847 original size:38 final size:38
Alignment explanation
Indices: 102661802--102661877 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
102661792 TATAAGGACT
102661802 AAAAATGATAGAAATTAAAATTCAGTAGTAATTGAGAA
1 AAAAATGATAGAAATTAAAATTCAGTAGTAATTGAGAA
102661840 AAAAATGATAGAAATTAAAATTCAGTAGTAATTGAGAA
1 AAAAATGATAGAAATTAAAATTCAGTAGTAATTGAGAA
102661878 TTTAACCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (38 bp):
AAAAATGATAGAAATTAAAATTCAGTAGTAATTGAGAA
Found at i:102661933 original size:28 final size:28
Alignment explanation
Indices: 102661890--102661943 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
102661880 TAACCTTTTC
* *
102661890 GGGTTACTTACTGTATCGGGAATGGCAA
1 GGGTTACTTACAGTATCAGGAATGGCAA
102661918 GGGTTACTTACAGTATCAGGAATGGC
1 GGGTTACTTACAGTATCAGGAATGGC
102661944 CTTTTTGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGGTTACTTACAGTATCAGGAATGGCAA
Found at i:102668833 original size:20 final size:21
Alignment explanation
Indices: 102668800--102668840 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
102668790 AAATGTATAT
* *
102668800 AATAATATTGAAATGTGTAAA
1 AATAATAATGAAATGTCTAAA
102668821 AATAATAAT-AAATGTCTAAA
1 AATAATAATGAAATGTCTAAA
102668841 GTACTCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (21 bp):
AATAATAATGAAATGTCTAAA
Found at i:102676696 original size:14 final size:13
Alignment explanation
Indices: 102676670--102676707 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
102676660 AGTGAAAAAG
102676670 ATTAATTATTATA
1 ATTAATTATTATA
102676683 ATTAATTAATTATA
1 ATTAATT-ATTATA
*
102676697 ATAAATT-TTAT
1 ATTAATTATTAT
102676708 GATTTAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 7 0.30
14 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTAATTATTATA
Found at i:102678945 original size:31 final size:30
Alignment explanation
Indices: 102678875--102678955 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
102678865 TTTAATAGTT
* **
102678875 TATATTTTTATAATTTTTAAAAAAATAAGT
1 TATAATTTTATAATTTTTAAAAAAATAAAA
*
102678905 TA-AATTTTTATTATTTTTAAAAAAATTAAAA
1 TATAA-TTTTATAATTTTTAAAAAAA-TAAAA
* *
102678936 TATAATTTTATCATTATTAA
1 TATAATTTTATAATTTTTAA
102678956 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
29 1 0.02
30 21 0.50
31 18 0.43
32 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAAAAATAAAA
Found at i:102682160 original size:6 final size:6
Alignment explanation
Indices: 102682144--102682175 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
102682134 CCTCCCAAGG
102682144 TATTT- TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TAT
102682176 AACTGTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:102682585 original size:13 final size:13
Alignment explanation
Indices: 102682567--102682601 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
102682557 ATGATAAATA
102682567 GAAAGAACTAGTT
1 GAAAGAACTAGTT
102682580 GAAAGAACTAGTT
1 GAAAGAACTAGTT
102682593 GAAAGAACT
1 GAAAGAACT
102682602 TGCTCCTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.20
Consensus pattern (13 bp):
GAAAGAACTAGTT
Found at i:102691559 original size:22 final size:22
Alignment explanation
Indices: 102691531--102691577 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
102691521 AAATTTGTAA
102691531 ATTTTATCTTAAATTTATTCGG
1 ATTTTATCTTAAATTTATTCGG
102691553 ATTTTATCTTAAATTTATTCGG
1 ATTTTATCTTAAATTTATTCGG
102691575 ATT
1 ATT
102691578 AGTTAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
ATTTTATCTTAAATTTATTCGG
Found at i:102693650 original size:35 final size:34
Alignment explanation
Indices: 102693611--102693690 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
102693601 AATTTAATTT
102693611 ATATTTTATTATTTGATTCA-AATATAATCTGT-AAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
102693646 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
102693681 ATATTTTATT
1 ATATTTTATT
102693691 GTATATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.08
35 27 0.69
36 9 0.23
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Found at i:102693857 original size:19 final size:18
Alignment explanation
Indices: 102693815--102693860 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
102693805 ATATAATTGT
*
102693815 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
102693833 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
102693852 AATAATTTT
1 AATAATTTT
102693861 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:102694000 original size:21 final size:21
Alignment explanation
Indices: 102693972--102694026 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
102693962 ACCGCTGTTT
102693972 CTAATCTCACCGCTACAATATC
1 CTAATCTCACCGCTACAATA-C
*
102693994 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAATAC
102694014 CTAATCTCACCGC
1 CTAATCTCACCGC
102694027 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.29, C:0.40, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAC
Found at i:102695870 original size:25 final size:25
Alignment explanation
Indices: 102695837--102695887 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
102695827 TATGTCACAA
102695837 AAAAAATTTGATTTGGCAGGAAATC
1 AAAAAATTTGATTTGGCAGGAAATC
102695862 AAAAAATTTGATTTGGCAGGAAATC
1 AAAAAATTTGATTTGGCAGGAAATC
102695887 A
1 A
102695888 TATTTAGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAAATTTGATTTGGCAGGAAATC
Found at i:102696048 original size:28 final size:29
Alignment explanation
Indices: 102696017--102696075 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
102696007 CTGAGTGAGC
*
102696017 TTTCATACACTCTTAAAAAAT-GACCTAT
1 TTTCATAAACTCTTAAAAAATCGACCTAT
* * *
102696045 TTTCTTAAATTTTTAAAAAATCGACCTAT
1 TTTCATAAACTCTTAAAAAATCGACCTAT
102696074 TT
1 TT
102696076 GACCAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTCATAAACTCTTAAAAAATCGACCTAT
Found at i:102698453 original size:107 final size:110
Alignment explanation
Indices: 102698298--102698515 Score: 304
Period size: 107 Copynumber: 2.0 Consensus size: 110
102698288 AAGACACTGG
* *
102698298 TTCCCAAACTACTTATGTTCTACTCAAGAAAAACTTGAATTTGACTCAATAATTATCGAGCCAAG
1 TTCCCAAACTACTTATGTTCTACTCAAGAAAAACTTGAATTCGACTCAATAATTATCAAGCCAAG
*
102698363 CTCAAACTATTGGTCAAGCTGAATTTGAGGCTTC-GTAATACTCAGC
66 CTCAAACTATTGGACAAGCTGAATTTGA-GC-TCAGTAATACTCAGC
*
102698409 TTCCCAAACTACTTATG-T-T-C-GAAGAAAAACTTG-ATCTCGACTCAATAATTATCAAGCCAA
1 TTCCCAAACTACTTATGTTCTACTCAAGAAAAACTTGAAT-TCGACTCAATAATTATCAAGCCAA
* * *
102698469 GCTCGAACTATTGGACAATCTGAATTTGAGCTCAGTTATACTCAGC
65 GCTCAAACTATTGGACAAGCTGAATTTGAGCTCAGTAATACTCAGC
102698515 T
1 T
102698516 CAAACAACTT
Statistics
Matches: 98, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
105 2 0.02
106 16 0.16
107 60 0.61
108 1 0.01
109 1 0.01
110 1 0.01
111 17 0.17
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (110 bp):
TTCCCAAACTACTTATGTTCTACTCAAGAAAAACTTGAATTCGACTCAATAATTATCAAGCCAAG
CTCAAACTATTGGACAAGCTGAATTTGAGCTCAGTAATACTCAGC
Found at i:102702350 original size:16 final size:17
Alignment explanation
Indices: 102702319--102702351 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102702309 TATAAAATTT
*
102702319 AACTCGACTGAACTCAA
1 AACTCGAATGAACTCAA
102702336 AACTCGAAT-AACTCAA
1 AACTCGAATGAACTCAA
102702352 TTCGATTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.18
Consensus pattern (17 bp):
AACTCGAATGAACTCAA
Found at i:102702369 original size:16 final size:16
Alignment explanation
Indices: 102702329--102702370 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
102702319 AACTCGACTG
*
102702329 AACTCAAAACTCGAAT
1 AACTCAAAATTCGAAT
*
102702345 AACTC--AATTCGATT
1 AACTCAAAATTCGAAT
102702359 AACTCAAAATTC
1 AACTCAAAATTC
102702371 AAACTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.55
16 10 0.45
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (16 bp):
AACTCAAAATTCGAAT
Found at i:102702470 original size:18 final size:20
Alignment explanation
Indices: 102702439--102702477 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
102702429 CAACTGCTAA
102702439 ATTTTTTACTTAGTT-TTTG
1 ATTTTTTACTTAGTTCTTTG
*
102702458 ATTTTTTGC-TAGTTCTTTG
1 ATTTTTTACTTAGTTCTTTG
102702477 A
1 A
102702478 GAGTCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.15, C:0.08, G:0.13, T:0.64
Consensus pattern (20 bp):
ATTTTTTACTTAGTTCTTTG
Found at i:102706408 original size:21 final size:20
Alignment explanation
Indices: 102706361--102706410 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
102706351 AAGCCCTAGT
* *
102706361 ATTTTTGTTGTTGTTTTTTC
1 ATTTTTGCTGTTGTTTTCTC
102706381 ATATTTTGCTGTTGTTTTCTC
1 AT-TTTTGCTGTTGTTTTCTC
102706402 ACTTTTTGC
1 A-TTTTTGC
102706411 AATTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.08, C:0.12, G:0.14, T:0.66
Consensus pattern (20 bp):
ATTTTTGCTGTTGTTTTCTC
Found at i:102713914 original size:26 final size:27
Alignment explanation
Indices: 102713882--102713932 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
102713872 TTGAAATTTG
102713882 AAAAGT-AA-AGATTAAATTCTTAAAAA
1 AAAAGTAAAGAGATTAAATT-TTAAAAA
102713908 AAAAGTAAAGAGATTAAATTTTAAA
1 AAAAGTAAAGAGATTAAATTTTAAA
102713933 TTTATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.26
27 7 0.30
28 10 0.43
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (27 bp):
AAAAGTAAAGAGATTAAATTTTAAAAA
Found at i:102716536 original size:41 final size:42
Alignment explanation
Indices: 102716474--102716566 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 42
102716464 ATTAAATCAT
* *
102716474 TAACATAAAAATAAATCGTTCAACAATTTATAACCAA-AAAA
1 TAACAAAAAAATAAATAGTTCAACAATTTATAACCAACAAAA
* * ** *
102716515 TAACAAAAAAATTAATAGTTCAATAATTTATATGCAACAAAT
1 TAACAAAAAAATAAATAGTTCAACAATTTATAACCAACAAAA
102716557 TAACAAAAAA
1 TAACAAAAAA
102716567 TAATAATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 31 0.70
42 13 0.30
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (42 bp):
TAACAAAAAAATAAATAGTTCAACAATTTATAACCAACAAAA
Found at i:102723741 original size:31 final size:32
Alignment explanation
Indices: 102723683--102723742 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
102723673 TTTCAATTAC
*
102723683 TAAACTATTCAAAAGTTTTTCATTTAAGTTAT
1 TAAACTATTCAAAAGTTATTCATTTAAGTTAT
* *
102723715 TAAATTATTTAAAAGTTATT-ATTTAAGT
1 TAAACTATTCAAAAGTTATTCATTTAAGT
102723743 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (32 bp):
TAAACTATTCAAAAGTTATTCATTTAAGTTAT
Found at i:102725969 original size:24 final size:26
Alignment explanation
Indices: 102725924--102725971 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
102725914 TTAATACATG
102725924 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
102725950 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
102725972 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:102737584 original size:75 final size:75
Alignment explanation
Indices: 102737443--102738004 Score: 690
Period size: 75 Copynumber: 7.5 Consensus size: 75
102737433 CTACGGTTCA
* * * *
102737443 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGCTGAGGTAATTTCAA
*
102737508 TTTCTGCCTTTC
64 TTTCTGTCTTTC
* * *
102737520 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
102737585 TCTGTCTTTC
66 TCTGTCTTTC
* *** * **
102737595 AAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATAATTTTT
1 ---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
102737660 ATTTCTG--TTTC
63 ATTTCTGTCTTTC
* * * * * * *
102737671 --AAAATTCAACTCATACTGCAAGAAGTGATTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
102737734 TCTGTCTTTC
66 TCTGTCTTTC
* * * * * *
102737744 AAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
102737809 TCTGTCTTTC
66 TCTGTCTTTC
102737819 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
102737883 TCTGTCTTTC
66 TCTGTCTTTC
* * ** *
102737893 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTGATC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
*
102737958 TCCGT-TTTC
66 TCTGTCTTTC
* * *
102737967 --GAAAATCAACTAATATTGCGAGAGGTGAGTGGAGCCTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
102738005 TGATCACATG
Statistics
Matches: 431, Mismatches: 46, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
71 53 0.12
72 34 0.08
73 4 0.01
74 72 0.17
75 165 0.38
76 6 0.01
77 36 0.08
78 61 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
TCTGTCTTTC
Found at i:102737743 original size:149 final size:149
Alignment explanation
Indices: 102737439--102738122 Score: 713
Period size: 149 Copynumber: 4.5 Consensus size: 149
102737429 ATTTCTACGG
* *
102737439 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTT
1 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG--GGACACGCTGAGGTATTT
* * *
102737504 TCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGGACACGC
64 TCAATTTCTG-CTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
102737569 TGAGGTAATTTCAATTTCTGTCT
127 TGAGGTAATTTCAATTTCTGTCT
* *
102737592 TTCAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATAATT
1 TTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGT-ATT
* * * * * * *
102737657 TT-TATTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGATTTGAGCCTCAAGACACGTT
63 TTCAATTTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
*
102737719 GAGGTATTTTCAATTTCTGTCT
128 GAGGTAATTTCAATTTCTGTCT
* * * * *** *
102737741 TTC-AAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTATTTTC
102737805 AATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
66 AATTTCTG-CTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
102737870 GGTAATTTCAATTTCTGTCT
130 GGTAATTTCAATTTCTGTCT
* **
102737890 TTC-AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
1 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGT-ATTTT
* * * * * * * *
102737954 -GATCTCCGTTTTC-GAAAATCAACTAATATTGCGAGAGGTGAGTGGAGCCTC-TGATCACATG-
65 CAATTTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CAC--GC
* *
102738015 TCGAGGTATTTTCAAATTCT-TCTT
127 T-GAGGTAATTTCAATTTCTGTC-T
* * *
102738039 TTCAAATTAAGTTTCAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCT
1 TTC--A--AA-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--GACACGCT
*
102738104 GAGCTATTTTCAATTTCTG
55 GAGGTATTTTCAATTTCTG
102738123 TTTTTAATGT
Statistics
Matches: 445, Mismatches: 60, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
145 5 0.01
146 54 0.12
147 38 0.09
148 11 0.02
149 203 0.46
150 5 0.01
151 4 0.01
153 21 0.05
154 7 0.02
155 41 0.09
159 35 0.08
160 5 0.01
161 16 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (149 bp):
TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTATTTTC
AATTTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCTGTCT
Found at i:102737906 original size:224 final size:223
Alignment explanation
Indices: 102737443--102737953 Score: 695
Period size: 224 Copynumber: 2.3 Consensus size: 223
102737433 CTACGGTTCA
* * *
102737443 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTTCAA
1 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTCAA
* ** * * *
102737508 TTTCTGCCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGGACACGCTGAG
64 TTTCTGCCTTTCAAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAG
*
102737573 GTAATTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTT
129 GTAATTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
** **
102737638 GGGACACGCTGAGATAATTTTTATTTCTGTTTC
191 AAGACACGCTGAGATAATTTCAATTTCTGTTTC
* * * *
102737671 AAAAT--TCAACTCATACTGCAAGAAGTGATTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
* * *
102737734 TCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGT
66 TCTGCCTTTCAAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGT
* *
102737799 ATTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
131 AATTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGAC
*
102737863 ACGCTGAGGTAATTTCAATTTCTGTCTTTC
196 ACGCTGAGATAATTTCAATTTCTG--TTTC
* *
102737893 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
1 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTT
102737954 GATCTCCGTT
Statistics
Matches: 248, Mismatches: 30, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
220 61 0.25
222 9 0.04
224 140 0.56
225 7 0.03
226 27 0.11
228 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (223 bp):
AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
TCTGCCTTTCAAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGAC
ACGCTGAGATAATTTCAATTTCTGTTTC
Found at i:102740367 original size:24 final size:26
Alignment explanation
Indices: 102740322--102740369 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
102740312 TTAATACATG
102740322 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
102740348 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
102740370 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:102742261 original size:20 final size:21
Alignment explanation
Indices: 102742236--102742282 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
102742226 TTTACTATGT
102742236 ATAATT-AACT-ATCAAAATTA
1 ATAATTAAACTGATC-AAATTA
102742256 ATAATTAAACTGATCAAATTA
1 ATAATTAAACTGATCAAATTA
*
102742277 TTAATT
1 ATAATT
102742283 TATTAGTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAATTAAACTGATCAAATTA
Found at i:102751147 original size:14 final size:14
Alignment explanation
Indices: 102751130--102751157 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102751120 AAGTAAAAGT
102751130 TAAGTGTGGTTTTA
1 TAAGTGTGGTTTTA
102751144 TAAGTGTGGTTTTA
1 TAAGTGTGGTTTTA
102751158 GAAATATTTT
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:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TAAGTGTGGTTTTA
Found at i:102752540 original size:53 final size:51
Alignment explanation
Indices: 102752393--102752545 Score: 191
Period size: 52 Copynumber: 2.9 Consensus size: 51
102752383 TGACGGAAAA
*
102752393 AATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTAT-GACATTGGTGC
1 AATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGA-ATCGGTGC
* *
102752445 AATGTGATACGTGTTCCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGT
1 AATGTGATATGTGTT-CCGTATAAGACCATAGCTGGGCTATGGAATCGGTGC
* * * *
102752497 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCG
1 AATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGAATCG
102752546 ATATGATATG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
51 2 0.02
52 50 0.56
53 35 0.39
54 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (51 bp):
AATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGC
Found at i:102752593 original size:99 final size:101
Alignment explanation
Indices: 102752394--102752596 Score: 225
Period size: 105 Copynumber: 2.0 Consensus size: 101
102752384 GACGGAAAAA
* * * *
102752394 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGACATTGGTGCAATGTGATACGTGT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGACA---GTGCAATATGATACGTGA
102752459 TCCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGTG
63 TCCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGTG
* * * *
102752498 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCA-T-CGATATGATATGTGAT-
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGATATGACAGTGCAATATGATACGTGATC
* * **
102752560 CCGTGTAAGACCAT-GGTGGGGCTATGGCTTCGGTGTG
65 CCGTATAAGACCATAGCT-GGGCTATGGAATCGGTGTG
102752597 TGATAAGTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
98 2 0.02
99 30 0.35
100 12 0.14
101 1 0.01
104 7 0.08
105 33 0.39
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (101 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGACAGTGCAATATGATACGTGATCC
CGTATAAGACCATAGCTGGGCTATGGAATCGGTGTG
Found at i:102756045 original size:21 final size:22
Alignment explanation
Indices: 102756010--102756051 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
102756000 TGATTCCGAG
*
102756010 ATATTATTATCAGATTTTCATC
1 ATATTATTATCAGATATTCATC
*
102756032 ATATTATT-TTAGATATTCAT
1 ATATTATTATCAGATATTCAT
102756052 TCTTTACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTATTATCAGATATTCATC
Found at i:102758243 original size:25 final size:25
Alignment explanation
Indices: 102758188--102758244 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
102758178 TAAATTTAAA
* *
102758188 TATTGAAATATGATTATAAAAATAT
1 TATTAAAATATCATTATAAAAATAT
* *
102758213 TTTTAAAATATCATTTTAAAAA-AT
1 TATTAAAATATCATTATAAAAATAT
102758237 TGATTAAA
1 T-ATTAAA
102758245 CATTCCAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (25 bp):
TATTAAAATATCATTATAAAAATAT
Found at i:102758999 original size:306 final size:300
Alignment explanation
Indices: 102758400--102759278 Score: 943
Period size: 303 Copynumber: 2.9 Consensus size: 300
102758390 GTCTAACCCG
* * * * * *
102758400 CACCATATGCATATTTTTATTAATTTTTGTCAAAATAAAAAAAATTAAAATACCCTCGAATAATA
1 CACC-TATGCAAATTTTTATTGATTTTTGTTAAAAT-GAAAAGACTAAAATACCCTCGAATAATA
* * * * * * *
102758465 TGACTTACTTTCATTACGGAAGGCATTTTCGTAATTTCCCTAACCGAGTTGGTGCATGATTGACT
64 TGACTTACTTTAATTACGAAAGACATTTTCGTAATTTTCCTAACCGAG-TAGTGAATGGTTGACT
* ** * * * * *
102758530 CATGACACCAACTCAGCCAGAGATTTTATTAAT--AG----TACAGATATAAAACTGACGGAGAT
128 CGTGACACCAACTCAGTTAGAGATTTTATTAATGAAGTATATATAGATATACAATTGATGAAGAT
* * *** * *
102758589 AGTAAATTGTGCATACTAAAATAAAAATGCCTAGAATATACTAAAATGAAACTTTGGTTGAGTGG
193 AATAAATTGTGCATAATAAAATAAAAATATATAAAATATATTAAAATGAAACTTTGGTTGAGTGG
* *
102758654 TAAATTTAAAATTTTACTAATACAATTGGTGCAGGTTCAATTGC
258 TAAATTTAAAATTTTACTAATACAATTAGTGCAGGTTCAAAT-C
* * *
102758698 CACCTTATGCAAATTTTTATTGGTTTTTGTTAAAATGAAATGACTAAAATACTCTCGAATAATAT
1 CACC-TATGCAAATTTTTATTGATTTTTGTTAAAATGAAAAGACTAAAATACCCTCGAATAATAT
* * **
102758763 GAGTTACTTTAATTACGAAAGAACATTTTTGTAATTTTCCTAACCGAGCTAGTGTTTGGTTGACT
65 GACTTACTTTAATTACGAAAG-ACATTTTCGTAATTTTCCTAACCGAG-TAGTGAATGGTTGACT
102758828 CGTGACACCAACGT-AGTTAGAGATTTTATTAAAATGAAGTATATATAGATATACAATTGATGAA
128 CGTGACACCAAC-TCAGTTAGAGATTTTATT--AATGAAGTATATATAGATATACAATTGATGAA
* * *
102758892 GATAATAAAATGTGCATAATAAAATAAAAATATATAAAATATATTAAAATG-AAGTTCTGGTTGG
190 GATAATAAATTGTGCATAATAAAATAAAAATATATAAAATATATTAAAATGAAACTT-TGGTTGA
* * * *
102758956 GTGGTAAATTTAAGATTTTACTAATGCAATTATTGCGGGTTCAAATC
254 GTGGTAAATTTAAAATTTTACTAATACAATTAGTGCAGGTTCAAATC
* * * * *
102759003 C-CCCATGCAAATTTTAATTGATTTTTGTTAAACTGAAAAGACTAAAATTCCCTCGAATAGTATG
1 CACCTATGCAAATTTTTATTGATTTTTGTTAAAATGAAAAGACTAAAATACCCTCGAATAATATG
* * * * * * *
102759067 ACTTACTTTAATTATGAAAGGGA-ATTTTCATAATTTTTCTAATCGAGTTGAT-AACCGGTTAAC
66 ACTTACTTTAATTACGAAA--GACATTTTCGTAATTTTCCTAACCGAGTAG-TGAA-TGGTTGAC
* * * *
102759130 TTGTGACAACAACTCAATTAGAGATTTTATTAATCGTAAGTATATATATAGATATACAATTTATG
127 TCGTGACACCAACTCAGTTAGAGATTTTATTAAT-G-AAG--TATATATAGATATACAATTGATG
* * *
102759195 AAGATAATAATTTGTACATATTAAAATAAAAATATATAAAATATATTAAAATGAAACTTTGGTTG
188 AAGATAATAAATTGTGCATAATAAAATAAAAATATATAAAATATATTAAAATGAAACTTTGGTTG
102759260 AGTGGTAAATTTAAAATTT
253 AGTGGTAAATTTAAAATTT
102759279 AAAATTTTAT
Statistics
Matches: 485, Mismatches: 75, Indels: 35
0.82 0.13 0.06
Matches are distributed among these distances:
297 42 0.09
298 91 0.19
299 1 0.00
300 3 0.01
301 3 0.01
302 6 0.01
303 126 0.26
304 3 0.01
305 101 0.21
306 109 0.22
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (300 bp):
CACCTATGCAAATTTTTATTGATTTTTGTTAAAATGAAAAGACTAAAATACCCTCGAATAATATG
ACTTACTTTAATTACGAAAGACATTTTCGTAATTTTCCTAACCGAGTAGTGAATGGTTGACTCGT
GACACCAACTCAGTTAGAGATTTTATTAATGAAGTATATATAGATATACAATTGATGAAGATAAT
AAATTGTGCATAATAAAATAAAAATATATAAAATATATTAAAATGAAACTTTGGTTGAGTGGTAA
ATTTAAAATTTTACTAATACAATTAGTGCAGGTTCAAATC
Found at i:102760232 original size:22 final size:23
Alignment explanation
Indices: 102760195--102760255 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
102760185 TGTTAGAACG
102760195 AGAAAAATGATT-TTTTTAAGAT
1 AGAAAAATGATTATTTTTAAGAT
* *
102760217 A-AAAAATGATTA-TTTTATGTT
1 AGAAAAATGATTATTTTTAAGAT
102760238 AGAAAAATGATTATTTTT
1 AGAAAAATGATTATTTTT
102760256 GTAAGAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.53
22 12 0.35
23 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (23 bp):
AGAAAAATGATTATTTTTAAGAT
Found at i:102767216 original size:23 final size:22
Alignment explanation
Indices: 102767157--102767220 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
102767147 TGGCTGAAAT
102767157 TTAATTATAATTTT-TTATAGA
1 TTAATTATAATTTTATTATAGA
* * *
102767178 TTAAAATATGAGTTTATTAT-GTA
1 TT-AATTATAATTTTATTATAG-A
102767201 TTAATTTATAATTTTATTAT
1 TTAA-TTATAATTTTATTAT
102767221 TTTTGAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 12 0.36
23 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (22 bp):
TTAATTATAATTTTATTATAGA
Found at i:102774553 original size:22 final size:22
Alignment explanation
Indices: 102774510--102774550 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
102774500 CTCGACTAAT
* *
102774510 CTTTAATAAATTTTTATATTAA
1 CTTTAATAAATATTCATATTAA
102774532 CTTT-ATAAATATTCATATT
1 CTTTAATAAATATTCATATT
102774551 TAATATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (22 bp):
CTTTAATAAATATTCATATTAA
Found at i:102778861 original size:31 final size:31
Alignment explanation
Indices: 102778787--102778861 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
102778777 AATTAATTGG
* * *
102778787 ACCTTCAAAATTTTTTTAAAATTTTTAGTTAA
1 ACCTTCAAAA-TTATTTAAAAATTTTAATTAA
* * *
102778819 ATCATCTAAATTATTTAAAAATTTTAATTAA
1 ACCTTCAAAATTATTTAAAAATTTTAATTAA
*
102778850 GCCTTCAAAATT
1 ACCTTCAAAATT
102778862 TAATGTTAAG
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (31 bp):
ACCTTCAAAATTATTTAAAAATTTTAATTAA
Found at i:102784831 original size:22 final size:21
Alignment explanation
Indices: 102784773--102784840 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
102784763 AAAATCAAAG
* *
102784773 AAATTTATAAAAATACATAAAT
1 AAATTTA-AAAAATATAAAAAT
** *
102784795 ATTTTTAAAAAATATAATAAT
1 AAATTTAAAAAATATAAAAAT
*
102784816 AAATTTAAATATATATAAAAAT
1 AAATTTAAA-AAATATAAAAAT
102784838 AAA
1 AAA
102784841 AATATTGTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTTAAAAAATATAAAAAT
Found at i:102784843 original size:18 final size:18
Alignment explanation
Indices: 102784802--102784845 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
102784792 AATATTTTTA
102784802 AAAAATATAATAATAAAT
1 AAAAATATAATAATAAAT
**
102784820 TTAAATATATATAA-AAAT
1 AAAAATATA-ATAATAAAT
102784838 AAAAATAT
1 AAAAATAT
102784846 TGTTGATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATATAATAATAAAT
Found at i:102789026 original size:39 final size:39
Alignment explanation
Indices: 102788973--102789051 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
102788963 AAATATGGTT
*
102788973 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
*
102789012 TTAATTAATAATAAAACATAGTAGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
102789051 T
1 T
102789052 CAGCTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
Found at i:102789519 original size:30 final size:32
Alignment explanation
Indices: 102789459--102789520 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
102789449 GCATATCTGT
* *
102789459 TTATATGAAATACCTTTATATTATTATTACTA
1 TTATATGAAATACATTTATATTAATATTACTA
*
102789491 TTATATG-TATACATTTATA-TAATATTACTA
1 TTATATGAAATACATTTATATTAATATTACTA
102789521 ATAGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 10 0.37
31 10 0.37
32 7 0.26
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (32 bp):
TTATATGAAATACATTTATATTAATATTACTA
Found at i:102791104 original size:506 final size:505
Alignment explanation
Indices: 102790304--102791319 Score: 1962
Period size: 506 Copynumber: 2.0 Consensus size: 505
102790294 TCTTTTAAAA
102790304 AATTTCATTAAAACGAAAGAGATGTTCGATATTTAGCAATTCATGGAATCGTGCCCTAACGTGTT
1 AATTTCATTAAAACGAAAGAGATGTTCGATATTTAGCAATTCATGGAATCGTGCCCTAACGTGTT
*
102790369 GGGTTGTAATTTCTCGTTTGCTCAAAATAATCGAATGTCTCTTTAGAATTTCATTCATGTTTTCT
66 GGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCTCTTTAGAATTTCATTCATGTTTTCT
102790434 AAAAAAAACTTATAAAGGAAATGTTCGGTATTTAGCAGTTCGGGGAATAGTACCCTATCGTGTTG
131 AAAAAAAACTTATAAAGGAAATGTTCGGTATTTAGCAGTTCGGGGAATAGTACCCTATCGTGTTG
102790499 GGTTGCAATTTCCTATTTGCTCAAAATAATCGAATATCTCTTTAGAATTTCACTCGTATCTTCCA
196 GGTTGCAATTTCCTATTTGCTCAAAATAATCGAATATCTCTTTAGAATTTCACTCGTATCTTCCA
102790564 AGGTGAGGCAATGGTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTATTGATT
261 AGGTGAGGCAATGGTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTATTGATT
*
102790629 TTTCGTTGGACCAAATAGTTGGGCATCATTTTGTTATTTTCGAATTACAAATTTTCGAACGTTGA
326 TTTCGTTGGACCAAATAGTTGGGCATCATTTTGTTATTTTCGAATTACAAATTTTCGAACGTCGA
102790694 AACAAGAAGATTTTTGGAAATGGACTC-AGGTTATTCAAATGTTATTAACAAGAACCACATTTTA
391 AACAAGAAGATTTTTGGAAATGGACTCGA-GTTATTCAAATGTTATTAACAAGAACCACATTTTA
102790758 AAAACATTTTTAATTTTAGACAAAAGGACAGTATTTAATCGATTTGGTACC
455 AAAACATTTTTAATTTTAGACAAAAGGACAGTATTTAATCGATTTGGTACC
102790809 AATTTCATTAAAACGAAAGAGATGTTCGATATTTAGCAATTCATGGAATCGTGCCCTAACGTGTT
1 AATTTCATTAAAACGAAAGAGATGTTCGATATTTAGCAATTCATGGAATCGTGCCCTAACGTGTT
102790874 GGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCTCTTTAGAATTTCATTCATGTTTTCT
66 GGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCTCTTTAGAATTTCATTCATGTTTTCT
102790939 AAAAAAAAACTTATAAAGGAAATGTTCGGTATTTAGCAGTTCGGGGAATAGTACCCTATCGTGTT
131 -AAAAAAAACTTATAAAGGAAATGTTCGGTATTTAGCAGTTCGGGGAATAGTACCCTATCGTGTT
*
102791004 GGGTTGCAATTTCCTATTTGCTCAAAATAATCGAATATCTCTTTGGAATTTCACTCGTATCTTCC
195 GGGTTGCAATTTCCTATTTGCTCAAAATAATCGAATATCTCTTTAGAATTTCACTCGTATCTTCC
102791069 AAGGTGAGGCAATGGTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTATTGAT
260 AAGGTGAGGCAATGGTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTATTGAT
*
102791134 TTTTCGTTGGACCAAATAGTTGGGCATCATTTTGTTATTTTCGAATTACAAATTTTCGAATGTCG
325 TTTTCGTTGGACCAAATAGTTGGGCATCATTTTGTTATTTTCGAATTACAAATTTTCGAACGTCG
*
102791199 AAACAAGAAGATTTTTGGCAATGGACTCGAGTTATTCAAATGTTATTAACAAGAACCACATTTTA
390 AAACAAGAAGATTTTTGGAAATGGACTCGAGTTATTCAAATGTTATTAACAAGAACCACATTTTA
102791264 AAAACATTTTTAATTTTAGACAAAAGGACAGTATTTAATCGATTTGGTACC
455 AAAACATTTTTAATTTTAGACAAAAGGACAGTATTTAATCGATTTGGTACC
102791315 AATTT
1 AATTT
102791320 TGGGCGTAAT
Statistics
Matches: 504, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
505 129 0.26
506 374 0.74
507 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (505 bp):
AATTTCATTAAAACGAAAGAGATGTTCGATATTTAGCAATTCATGGAATCGTGCCCTAACGTGTT
GGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCTCTTTAGAATTTCATTCATGTTTTCT
AAAAAAAACTTATAAAGGAAATGTTCGGTATTTAGCAGTTCGGGGAATAGTACCCTATCGTGTTG
GGTTGCAATTTCCTATTTGCTCAAAATAATCGAATATCTCTTTAGAATTTCACTCGTATCTTCCA
AGGTGAGGCAATGGTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACTGTGCTGGGTATTGATT
TTTCGTTGGACCAAATAGTTGGGCATCATTTTGTTATTTTCGAATTACAAATTTTCGAACGTCGA
AACAAGAAGATTTTTGGAAATGGACTCGAGTTATTCAAATGTTATTAACAAGAACCACATTTTAA
AAACATTTTTAATTTTAGACAAAAGGACAGTATTTAATCGATTTGGTACC
Found at i:102799174 original size:18 final size:20
Alignment explanation
Indices: 102799132--102799168 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
102799122 ATATTTTATG
*
102799132 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
102799151 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
102799169 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:102799616 original size:11 final size:11
Alignment explanation
Indices: 102799586--102799618 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
102799576 TTGATATGTT
102799586 AGTGAAGAGAA
1 AGTGAAGAGAA
*
102799597 AAT-AAGAGAA
1 AGTGAAGAGAA
102799607 AGTGAAGAGAA
1 AGTGAAGAGAA
102799618 A
1 A
102799619 TGGTGCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:102801367 original size:46 final size:46
Alignment explanation
Indices: 102801315--102801634 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
102801305 AGTGTGCTCT
102801315 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
102801361 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
102801407 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
102801453 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
102801499 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
102801545 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
102801591 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
102801635 TCATGTCAAA
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 250 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:102803193 original size:19 final size:19
Alignment explanation
Indices: 102803171--102803214 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
102803161 CCCATGCATT
102803171 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
* *
102803190 TGCACTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
102803209 TGCATT
1 TGCATT
102803215 AGATTTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:102807294 original size:44 final size:44
Alignment explanation
Indices: 102807231--102807458 Score: 357
Period size: 44 Copynumber: 5.2 Consensus size: 44
102807221 TCATTTAAGC
* *
102807231 AGATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
102807275 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
102807319 AGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
102807363 AGATGACAGATTTGGCGTCTCTGTAGTGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
102807407 AGATGACAGATTTGGCGTCTCTGTAGTGGAGGAGAGTAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
102807451 AAATAACA
1 AGATAACA
102807459 TATCGGTGTT
Statistics
Matches: 172, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 172 1.00
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.22
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:102811328 original size:13 final size:12
Alignment explanation
Indices: 102811306--102811331 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
102811296 ACCAAATGAC
102811306 TTCATTTTTTTT
1 TTCATTTTTTTT
102811318 TTCATTTTTTTT
1 TTCATTTTTTTT
102811330 TT
1 TT
102811332 ATAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTCATTTTTTTT
Found at i:102811924 original size:13 final size:13
Alignment explanation
Indices: 102811906--102811944 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
102811896 GAACCTTAGG
*
102811906 TTCATTTCTCAAT
1 TTCATTTCACAAT
102811919 TTCATTTCAC-AT
1 TTCATTTCACAAT
*
102811931 TTCAATTCACAAT
1 TTCATTTCACAAT
102811944 T
1 T
102811945 CAACTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (13 bp):
TTCATTTCACAAT
Found at i:102812528 original size:3 final size:3
Alignment explanation
Indices: 102812520--102812567 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
102812510 ATTCCCACTC
* * * *
102812520 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
102812568 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:102812568 original size:18 final size:18
Alignment explanation
Indices: 102812521--102812569 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
102812511 TTCCCACTCA
*
102812521 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
102812539 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
102812557 TAATATTAATACT
1 TAATAATAATACT
102812570 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:102812569 original size:12 final size:12
Alignment explanation
Indices: 102812520--102812567 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
102812510 ATTCCCACTC
*
102812520 ATAATAATAATA
1 ATAATACTAATA
102812532 ATAATACTAATA
1 ATAATACTAATA
102812544 ATAATACTAATA
1 ATAATACTAATA
* *
102812556 CTAATATTAATA
1 ATAATACTAATA
102812568 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:102814927 original size:21 final size:21
Alignment explanation
Indices: 102814885--102814927 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
102814875 TCACTATACC
*
102814885 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
102814906 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
102814927 A
1 A
102814928 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:102819839 original size:21 final size:21
Alignment explanation
Indices: 102819797--102819839 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
102819787 TTCACTATAC
*
102819797 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
102819818 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
102819839 A
1 A
102819840 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:102820952 original size:39 final size:37
Alignment explanation
Indices: 102820885--102820977 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
102820875 ACCAGAATGG
* *
102820885 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
102820924 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
102820961 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
102820978 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:102821341 original size:3 final size:3
Alignment explanation
Indices: 102821333--102821380 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
102821323 ATTCCCACTC
* * * *
102821333 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
102821381 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:102821381 original size:18 final size:18
Alignment explanation
Indices: 102821334--102821382 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
102821324 TTCCCACTCA
*
102821334 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
102821352 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
102821370 TAATATTAATACT
1 TAATAATAATACT
102821383 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:102821382 original size:12 final size:12
Alignment explanation
Indices: 102821333--102821380 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
102821323 ATTCCCACTC
*
102821333 ATAATAATAATA
1 ATAATACTAATA
102821345 ATAATACTAATA
1 ATAATACTAATA
102821357 ATAATACTAATA
1 ATAATACTAATA
* *
102821369 CTAATATTAATA
1 ATAATACTAATA
102821381 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:102822120 original size:20 final size:20
Alignment explanation
Indices: 102822086--102822125 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
102822076 TTCTATTCTG
*
102822086 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
102822106 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
102822126 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:102822291 original size:31 final size:28
Alignment explanation
Indices: 102822255--102822322 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
102822245 TTGTCTTTAT
**
102822255 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
102822285 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
102822314 TTAATTTAT
1 TTAATTTAT
102822323 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:102822339 original size:21 final size:20
Alignment explanation
Indices: 102822301--102822339 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
102822291 TAATTTAATA
*
102822301 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
102822321 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
102822340 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:102829991 original size:30 final size:30
Alignment explanation
Indices: 102829956--102830013 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
102829946 CCTTAACTCT
102829956 AACTTTTGCAAAATTACGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTAC-ACTTTTGCCCCTA
* *
102829986 AACTTTTGCATATTTACACTTTTGCCCC
1 AACTTTTGCAAAATTACACTTTTGCCCC
102830014 AAAGCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:102830401 original size:56 final size:55
Alignment explanation
Indices: 102830334--102830445 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 55
102830324 AAACGTAAAG
102830334 AACATTAAAAACGGGGCTTGGAATCACTTACTATGGAGCTTGCAAGCTTGAAACAA
1 AACATTAAAAACGGGGCTTGGAATCACTTACTATGG-GCTTGCAAGCTTGAAACAA
102830390 AACATTAAAAACGGGGCTTGGAATCACTTACTATGGGCTTGCAAGCTTGAAACAA
1 AACATTAAAAACGGGGCTTGGAATCACTTACTATGGGCTTGCAAGCTTGAAACAA
102830445 A
1 A
102830446 CCCTAGCTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 20 0.36
56 36 0.64
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (55 bp):
AACATTAAAAACGGGGCTTGGAATCACTTACTATGGGCTTGCAAGCTTGAAACAA
Found at i:102831042 original size:31 final size:31
Alignment explanation
Indices: 102831007--102831069 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
102830997 ATTACCCTTT
*
102831007 AAATAAGGGTATTTTAATGATTACATGACTA
1 AAATAAGGGTATTTTAATAATTACATGACTA
102831038 AAATAAGGGTATTTTAATAATTACATGACTA
1 AAATAAGGGTATTTTAATAATTACATGACTA
102831069 A
1 A
102831070 GTTGGTGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.35
Consensus pattern (31 bp):
AAATAAGGGTATTTTAATAATTACATGACTA
Found at i:102834973 original size:18 final size:18
Alignment explanation
Indices: 102834950--102834991 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
102834940 CTTCCATGCA
102834950 TGTAATATTGCCCGTATG
1 TGTAATATTGCCCGTATG
102834968 TGTAATATTGCCCGTATG
1 TGTAATATTGCCCGTATG
*
102834986 AGTAAT
1 TGTAAT
102834992 TTCTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (18 bp):
TGTAATATTGCCCGTATG
Found at i:102835308 original size:30 final size:30
Alignment explanation
Indices: 102835272--102835356 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
102835262 ACTTTTCTCA
*
102835272 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
102835302 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
102835332 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
102835357 CTTGTACCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.26, C:0.51, G:0.04, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:102835924 original size:25 final size:25
Alignment explanation
Indices: 102835887--102836060 Score: 74
Period size: 25 Copynumber: 6.9 Consensus size: 25
102835877 ATTCTTTTAA
* *
102835887 TATATTAGGTATAT-T-TTAAATTC
1 TATATTATGTATATATATTTAATTC
* * *
102835910 TATATTACGTATATATATTTTTATAC
1 TATATTATGTATATATA-TTTAATTC
* *
102835936 TATTTTATGTATATATCTTTAATAT-
1 TATATTATGTATATATATTTAAT-TC
* *
102835961 TATATTATTTATATATTTTTTTTTACATGT-
1 TATATTATGTATATA----TATTTA-AT-TC
* *
102835991 TATCTTATGTATATAT-CTTAA--C
1 TATATTATGTATATATATTTAATTC
* * **
102836013 TATATTATGTATGTATTTTTAACAC
1 TATATTATGTATATATATTTAATTC
* *
102836038 TATATTATGTACATATTTTTAAT
1 TATATTATGTATATATATTTAAT
102836061 ATTATCACGT
Statistics
Matches: 116, Mismatches: 22, Indels: 24
0.72 0.14 0.15
Matches are distributed among these distances:
22 14 0.12
23 17 0.15
24 2 0.02
25 42 0.36
26 20 0.17
29 5 0.04
30 16 0.14
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTATGTATATATATTTAATTC
Found at i:102835965 original size:51 final size:50
Alignment explanation
Indices: 102835844--102836065 Score: 162
Period size: 51 Copynumber: 4.5 Consensus size: 50
102835834 CCTTTTTTGT
*
102835844 TATTAT-TATATTTC-TTAATATTATATTA--TATATATTCTTTTA-A-TA
1 TATTATGTATATATCTTTAATATTATATTATGTATATATT-TTTTATACTA
* * *
102835889 TATTAGGTATAT-T-TTAAAT-TCTATATTACGTATATATATTTTTATACTA
1 TATTATGTATATATCTTTAATAT-TATATTATGTATATAT-TTTTTATACTA
* * *
102835938 TTTTATGTATATATCTTTAATATTATATTATTTATATATTTTTTTTTACATGTTA
1 TATTATGTATATATCTTTAATATTATATTATGTATATA-TTTTTTATAC----TA
* * * * *
102835993 TCTTATGTATATATC-TT-A-ACTATATTATGTATGTATTTTTAACACTA
1 TATTATGTATATATCTTTAATATTATATTATGTATATATTTTTTATACTA
* *
102836040 TATTATGTACATATTTTTAATATTAT
1 TATTATGTATATATCTTTAATATTAT
102836066 CACGTATTTA
Statistics
Matches: 139, Mismatches: 19, Indels: 33
0.73 0.10 0.17
Matches are distributed among these distances:
44 1 0.01
45 17 0.12
46 5 0.04
47 26 0.19
48 4 0.03
49 13 0.09
50 5 0.04
51 33 0.24
52 16 0.12
53 1 0.01
54 2 0.01
55 16 0.12
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (50 bp):
TATTATGTATATATCTTTAATATTATATTATGTATATATTTTTTATACTA
Found at i:102836238 original size:16 final size:15
Alignment explanation
Indices: 102836214--102836260 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
102836204 TAATTATTAT
*
102836214 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
102836230 TATTTTAATA-TTTA
1 TATTTTAATATTTTA
102836244 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
102836260 T
1 T
102836261 TATTCACATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 14 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:102836248 original size:14 final size:14
Alignment explanation
Indices: 102836214--102836261 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
102836204 TAATTATTAT
*
102836214 TATTCTAATATTTTGA
1 TATTTTAATA-TTT-A
102836230 TATTTTAATATTTA
1 TATTTTAATATTTA
102836244 TATTTTATATATTT-
1 TATTTTA-ATATTTA
102836258 TATT
1 TATT
102836262 ATTCACATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 12 0.40
15 9 0.30
16 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTAATATTTA
Found at i:102836258 original size:23 final size:22
Alignment explanation
Indices: 102836221--102836264 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
102836211 TATTATTCTA
102836221 ATATTTTGATATTTTAATATTT
1 ATATTTTGATATTTTAATATTT
* *
102836243 ATATTTTATATATTTTATTATT
1 ATATTTT-GATATTTTAATATT
102836265 CACATCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTTGATATTTTAATATTT
Found at i:102837779 original size:16 final size:16
Alignment explanation
Indices: 102837758--102837788 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
102837748 CCAAGTTGTA
102837758 CAAAATAGTTTCAATG
1 CAAAATAGTTTCAATG
102837774 CAAAATAGTTTCAAT
1 CAAAATAGTTTCAAT
102837789 ACTATGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (16 bp):
CAAAATAGTTTCAATG
Found at i:102840965 original size:31 final size:31
Alignment explanation
Indices: 102840927--102840995 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
102840917 TAGTCCAATA
* *
102840927 ACTTAAATAAAAACTTTTGAATAATTTCATG
1 ACTTAAATAAAAACTTTCGAATAATTTAATG
*
102840958 ACTTAAATAAAAACTTTCGAATTATTTAATG
1 ACTTAAATAAAAACTTTCGAATAATTTAATG
102840989 AC-TAAAT
1 ACTTAAAT
102840996 TGTAACTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCGAATAATTTAATG
Found at i:102849464 original size:3 final size:3
Alignment explanation
Indices: 102849458--102849482 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
102849448 TGCTCCTCAG
102849458 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
102849483 ACAATCTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:102855197 original size:16 final size:18
Alignment explanation
Indices: 102855176--102855210 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
102855166 GATGTAATTT
102855176 AAAATGAA-ATT-TAAAA
1 AAAATGAATATTGTAAAA
102855192 AAAATGAATATTGTAAAA
1 AAAATGAATATTGTAAAA
102855210 A
1 A
102855211 TATTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
AAAATGAATATTGTAAAA
Found at i:102867992 original size:132 final size:132
Alignment explanation
Indices: 102867750--102868366 Score: 984
Period size: 132 Copynumber: 4.7 Consensus size: 132
102867740 AAAGAACATA
* * * *
102867750 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
102867815 CGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
102867880 GG
131 GG
*
102867882 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
*
102867947 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
102868012 GG
131 GG
* *
102868014 TCTTGTCTTCCTATATTGGTAGGGAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
102868079 CGAAATAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
102868144 GG
131 GG
* * *
102868146 TCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATTTTGTCTTCCCATAATGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
102868211 CGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
102868276 GG
131 GG
* * * *** *
102868278 TCCTATCTTCCTATATGGGTAGGAAGTGGATCGACGACGCAGATCTTGTCTTCATGTATTGG-CG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
102868342 CGAAGTAGATCGAAGATAGCAGATC
66 CGAAGTAGATCGCAGAAAGCAGATC
102868367 CTGCCTTCCT
Statistics
Matches: 451, Mismatches: 34, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
131 23 0.05
132 428 0.95
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (132 bp):
TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
GG
Found at i:102868391 original size:44 final size:45
Alignment explanation
Indices: 102867755--102868391 Score: 545
Period size: 44 Copynumber: 14.5 Consensus size: 45
102867745 ACATATCCTA
*
102867755 TCTTCCTATATTGGTAG-GAAGTAGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
102867798 TCTTCCCATATTGGTGGCGAAGTAGATC-ACAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGA-AGATAGCAGATCTTG
* * * * * * *
102867843 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGGTCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* *
102867887 TCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
102867930 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * *
102867975 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGGTCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
102868019 TCTTCCTATATTGGTAG-GGAGTGGATCGACGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
102868062 TCTTCCCATATTGGTGGCGAAATAGATCGCAGAAAGTAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * * **
102868107 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGGTCCGG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
102868151 TCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GCAGATTTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
102868194 TCTTCCCATAATGGTGGCGAAGTAGATC-ACAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGA-AGATAGCAGATCTTG
* * * * * * *
102868239 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
102868283 TCTTCCTATATGGGTAG-GAAGTGGATCGACGA-CGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
102868326 TCTTCATGTATTGG-CGCGAAGTAGATCGAAGATAGCAGATCCTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
*
102868370 CCTTCCTATATTGGTAG-GAAGT
1 TCTTCCTATATTGGTAGCGAAGT
102868392 GGATTGAAAA
Statistics
Matches: 458, Mismatches: 117, Indels: 37
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.00
43 113 0.25
44 256 0.56
45 88 0.19
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (45 bp):
TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:102874366 original size:47 final size:48
Alignment explanation
Indices: 102874250--102874385 Score: 150
Period size: 47 Copynumber: 2.9 Consensus size: 48
102874240 AGAACAAGAG
* **
102874250 GGGAACATTCTTAATCAGTTGGCAACTAATTTATGAACATGAGGGTAA
1 GGGAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAAGTAA
* * * * *
102874298 GGGAACATCACTAATCGGTTGGCAACTAATTT-TGAGCTTGAAAGT-A
1 GGGAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAAGTAA
* * *
102874344 GGGAAACATTGTTAATCAGTTGGAAACTAATTTAGGAACATG
1 GGG-AACATTATTAATCAGTTGGCAACTAATTTATGAACATG
102874386 TGACTTATCT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
46 4 0.06
47 33 0.47
48 33 0.47
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (48 bp):
GGGAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAAGTAA
Found at i:102885458 original size:31 final size:31
Alignment explanation
Indices: 102885423--102885489 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
102885413 ATTACAAAAT
*
102885423 AGTTATTAAATTATTCAAAAAATTTTATTTA
1 AGTTATTAAACTATTCAAAAAATTTTATTTA
** **
102885454 AGTTATTAAACTATTTGAAAGTTTTTATTTA
1 AGTTATTAAACTATTCAAAAAATTTTATTTA
102885485 AGTTA
1 AGTTA
102885490 CTATGTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (31 bp):
AGTTATTAAACTATTCAAAAAATTTTATTTA
Found at i:102889659 original size:20 final size:20
Alignment explanation
Indices: 102889605--102889659 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 20
102889595 TGCATTATTG
*
102889605 ATTGTCTCCCATTAATGTTA
1 ATTGTCTACCATTAATGTTA
102889625 A-TG-C-ACCATT-A--TTA
1 ATTGTCTACCATTAATGTTA
*
102889639 ATTGTCTTCCATTAATGTTA
1 ATTGTCTACCATTAATGTTA
102889659 A
1 A
102889660 CAATCTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
14 4 0.15
15 2 0.07
16 2 0.07
17 10 0.37
18 2 0.07
19 2 0.07
20 5 0.19
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTGTCTACCATTAATGTTA
Found at i:102891587 original size:21 final size:21
Alignment explanation
Indices: 102891561--102891601 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102891551 ATCTGCTCAA
* *
102891561 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
102891582 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
102891602 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:102897554 original size:30 final size:30
Alignment explanation
Indices: 102897487--102897556 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
102897477 TTTTTAGGTT
* * *
102897487 CTTTAAAAGTTGGAGAGAAATTTTTTAGGC
1 CTTTAAAAGTTGGAGAAAAAATTTTAAGGC
102897517 CTCTTAAAAGTTGGTA-AAAAAATTTTAAGGC
1 CT-TTAAAAGTTGG-AGAAAAAATTTTAAGGC
102897548 CTTTAAAAG
1 CTTTAAAAG
102897557 CTAAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 25 0.71
32 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (30 bp):
CTTTAAAAGTTGGAGAAAAAATTTTAAGGC
Found at i:102897641 original size:31 final size:31
Alignment explanation
Indices: 102897606--102897669 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
102897596 TTTTTTACTT
*
102897606 TTAAAAGTT-AAAAAAAATATTTTTGTACCCC
1 TTAAAAGTTGAAAAAAAATA-TTTTGAACCCC
*
102897637 TTAAAAGTTGAAAAATAATATTTTGAACCCC
1 TTAAAAGTTGAAAAAAAATATTTTGAACCCC
102897668 TT
1 TT
102897670 TCAGCCTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.70
32 9 0.30
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (31 bp):
TTAAAAGTTGAAAAAAAATATTTTGAACCCC
Found at i:102900926 original size:2 final size:2
Alignment explanation
Indices: 102900919--102900955 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
102900909 TTTATCGCTT
*
102900919 TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
102900956 GTAACAGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:102903027 original size:39 final size:39
Alignment explanation
Indices: 102902981--102903116 Score: 218
Period size: 39 Copynumber: 3.5 Consensus size: 39
102902971 ACTCTGATGA
*
102902981 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
102903020 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
102903059 GCTTCAGTTAGCCTTCCGGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
102903098 GCTTCAGCTAGACTTCGGG
1 GCTTCAGTTAGCCTTCGGG
102903117 TTTCAAATCA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:102903960 original size:4 final size:4
Alignment explanation
Indices: 102903944--102904003 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
102903934 ATTACACTCT
* * * * *
102903944 CTCC CTCC TTCC CTCC CTCT CTCC ATCG CTCC CTCG CTCC CTCGCC CTCC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CT--CC CTCC
102903994 CTCC C-CC CTC
1 CTCC CTCC CTC
102904004 TCTCTCTCTC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
3 3 0.07
4 36 0.84
6 4 0.09
ACGTcount: A:0.02, C:0.67, G:0.05, T:0.27
Consensus pattern (4 bp):
CTCC
Found at i:102903967 original size:8 final size:8
Alignment explanation
Indices: 102903956--102904039 Score: 62
Period size: 8 Copynumber: 10.4 Consensus size: 8
102903946 CCCTCCTTCC
102903956 CTCCCTCT
1 CTCCCTCT
* *
102903964 CTCCATCG
1 CTCCCTCT
*
102903972 CTCCCTCG
1 CTCCCTCT
*
102903980 CTCCCTCGCC
1 CTCCCT--CT
102903990 CTCCCTC-
1 CTCCCTCT
*
102903997 CCCCCTCT
1 CTCCCTCT
*
102904005 CTCTCTCT
1 CTCCCTCT
*
102904013 CTCTCTCT
1 CTCCCTCT
*
102904021 CTCTCTCT
1 CTCCCTCT
*
102904029 CTCTCTCT
1 CTCCCTCT
102904037 CTC
1 CTC
102904040 TTATTTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
7 6 0.09
8 53 0.80
10 7 0.11
ACGTcount: A:0.01, C:0.60, G:0.04, T:0.36
Consensus pattern (8 bp):
CTCCCTCT
Found at i:102904006 original size:2 final size:2
Alignment explanation
Indices: 102904001--102904040 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
102903991 TCCCTCCCCC
102904001 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
102904041 TATTTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:102905550 original size:17 final size:17
Alignment explanation
Indices: 102905530--102905562 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102905520 TGAAAATATA
102905530 ATAGTAATAATAATAAG
1 ATAGTAATAATAATAAG
*
102905547 ATAGTAATAATGATAA
1 ATAGTAATAATAATAA
102905563 TAAAAATTAG
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:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (17 bp):
ATAGTAATAATAATAAG
Found at i:102905636 original size:3 final size:3
Alignment explanation
Indices: 102905628--102906193 Score: 226
Period size: 3 Copynumber: 187.3 Consensus size: 3
102905618 TTAAAAATGT
* * *
102905628 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
102905676 CAA TAA TTA TAA T-A TAT TGA TAA TAA TAA TAA -AA GGAA TCAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA
* * * * * **
102905720 TAA TAG TAA TAA TAA GAA TAT TAA CAA TAG TAA TAA TAA CGA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** *
102905767 TAAA TAC TAA TATA TACA TGAA -AA TAA TAA TAA TAG TTG TAA TCA TAA
1 T-AA TAA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * * *
102905815 CAA TACA TTAA TGA TAA TAA TATA TGT TAA TAA CAA TAA TCA TAA TATG
1 TAA TA-A -TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A
* *** * * * * *
102905864 TAA -AA AAA GGG GAA TAA TAA TAG T-A TAG TAA GAA TAA TAA TAC T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * *
102905909 TGT TAA TAA GAA TAA TAG TAG TAG TAA TAA TAA TAA GGTAA GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA
* * * * * * *
102905956 TAA TGA TAA T-A TAA CAA TGA TAG TAA T-A TAA CAA TAA AAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *** ** * *
102906002 TAA TGAA -AA TAA TAC TAA CGG TAA TAA TAA TAA TAA TGT TGA CAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
102906047 TAGA TAA TAA TAA TAA TAA TAA TAA GGT-A TAA TAA TAA TAG TAA TAAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA T-AA
* * * * * * *
102906095 CAA AAA TAG TAA TAA TAA TAA TGAA -AG TAG TGGA -AA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TAA TAA TAA TAA
** * *
102906140 TAA T-A TAA TGG TAG GAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
102906187 TAA TAA T
1 TAA TAA T
102906194 GGCAAAATAG
Statistics
Matches: 408, Mismatches: 122, Indels: 66
0.68 0.20 0.11
Matches are distributed among these distances:
2 25 0.06
3 348 0.85
4 28 0.07
5 7 0.02
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:102905900 original size:20 final size:20
Alignment explanation
Indices: 102905875--102905944 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
102905865 AAAAAAAGGG
102905875 GAATAATAATAGTATAGTAA
1 GAATAATAATAGTATAGTAA
*
102905895 GAATAATAATACTAT-GTTAA
1 GAATAATAATAGTATAG-TAA
* *
102905915 TAAGAATAATAGTAGTAGTAA
1 GAATAATAATAGTA-TAGTAA
*
102905936 TAATAATAA
1 GAATAATAA
102905945 GGTAAGAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.67
21 12 0.29
22 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.13, T:0.31
Consensus pattern (20 bp):
GAATAATAATAGTATAGTAA
Found at i:102905918 original size:23 final size:24
Alignment explanation
Indices: 102905828--102905925 Score: 87
Period size: 23 Copynumber: 4.2 Consensus size: 24
102905818 TACATTAATG
*
102905828 ATAATAAT-ATATGT-TAATAACA
1 ATAATAATAATATGTATAATAAGA
* * * *
102905850 ATAATCATAATATGTAAAAAAAGG
1 ATAATAATAATATGTATAATAAGA
** *
102905874 GGAATAATAATA-GTATAGTAAGA
1 ATAATAATAATATGTATAATAAGA
*
102905897 ATAATAATACTATGT-TAATAAGA
1 ATAATAATAATATGTATAATAAGA
102905920 ATAATA
1 ATAATA
102905926 GTAGTAGTAA
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
22 7 0.12
23 35 0.61
24 15 0.26
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.31
Consensus pattern (24 bp):
ATAATAATAATATGTATAATAAGA
Found at i:102905982 original size:23 final size:23
Alignment explanation
Indices: 102905951--102906012 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
102905941 ATAAGGTAAG
* *
102905951 AATAATAATGATAATATAACAAT
1 AATAGTAATGATAATATAAAAAT
* *
102905974 GATAGTAAT-ATAACAATAAAAAT
1 AATAGTAATGATAA-TATAAAAAT
*
102905997 AATAGTAATGAAAATA
1 AATAGTAATGATAATA
102906013 ATACTAACGG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 4 0.13
23 23 0.77
24 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (23 bp):
AATAGTAATGATAATATAAAAAT
Found at i:102905999 original size:17 final size:17
Alignment explanation
Indices: 102905961--102906000 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
102905951 AATAATAATG
* *
102905961 ATAATATAACAATGATA
1 ATAATATAACAATAAAA
*
102905978 GTAATATAACAATAAAA
1 ATAATATAACAATAAAA
102905995 ATAATA
1 ATAATA
102906001 GTAATGAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATATAACAATAAAA
Found at i:102907223 original size:22 final size:23
Alignment explanation
Indices: 102907171--102907231 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
102907161 TTTTTCTCTT
102907171 TTTGATTGTTAGTTTGGGCTGGGG
1 TTTGATT-TTAGTTTGGGCTGGGG
* * * *
102907195 CTAGATTTTAG-TTGGGTTTGGG
1 TTTGATTTTAGTTTGGGCTGGGG
102907217 TTTGA-TTT-GTTTGGG
1 TTTGATTTTAGTTTGGG
102907232 TTAGGGCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.03
21 8 0.27
22 12 0.40
23 4 0.13
24 5 0.17
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.49
Consensus pattern (23 bp):
TTTGATTTTAGTTTGGGCTGGGG
Found at i:102907441 original size:41 final size:41
Alignment explanation
Indices: 102907395--102907519 Score: 223
Period size: 41 Copynumber: 3.0 Consensus size: 41
102907385 ACCAAAATAC
*
102907395 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCGT
1 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
* *
102907436 TTGAAGTAAACCAAAATAGATAGGATTTCAAGACTTTTCAT
1 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
102907477 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
1 TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
102907518 TT
1 TT
102907520 TAGTGCCTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (41 bp):
TTGAAGTAAACCAAAATAGATAGAATTTCAAGAGTTTTCAT
Found at i:102907969 original size:22 final size:22
Alignment explanation
Indices: 102907936--102908002 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
102907926 TGCATTATTG
*
102907936 AACAGAGAGCACTAAAGTGCTA
1 AACAAAGAGCACTAAAGTGCTA
* *
102907958 TACAAAGAGCAC-AAATATGCTA
1 AACAAAGAGCACTAAA-GTGCTA
* * *
102907980 AACATAGAGAACTAATGTGCTA
1 AACAAAGAGCACTAAAGTGCTA
102908002 A
1 A
102908003 TAATCGGAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (22 bp):
AACAAAGAGCACTAAAGTGCTA
Found at i:102908348 original size:21 final size:21
Alignment explanation
Indices: 102908323--102908370 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
102908313 TTTTAATCTA
102908323 TTTACAAATTTAAATATATAT
1 TTTACAAATTTAAATATATAT
**
102908344 TTTACATTTTTAAATATATAT
1 TTTACAAATTTAAATATATAT
102908365 TTTACA
1 TTTACA
102908371 TTTCTAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTACAAATTTAAATATATAT
Found at i:102908371 original size:21 final size:21
Alignment explanation
Indices: 102908331--102908373 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
102908321 TATTTACAAA
102908331 TTTAAATATATATTTTACATT
1 TTTAAATATATATTTTACATT
102908352 TTTAAATATATATTTTACATT
1 TTTAAATATATATTTTACATT
102908373 T
1 T
102908374 CTAGTCTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATATATTTTACATT
Found at i:102909475 original size:14 final size:14
Alignment explanation
Indices: 102909429--102909475 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
102909419 CATCAAAACT
102909429 ATACATGAACTTTG
1 ATACATGAACTTTG
102909443 ATACAATGTGTAA-TTTG
1 ATAC-A--TG-AACTTTG
102909460 ATACATGAACTTTG
1 ATACATGAACTTTG
102909474 AT
1 AT
102909476 TTATGCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.07
14 12 0.43
15 1 0.04
16 1 0.04
17 10 0.36
18 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (14 bp):
ATACATGAACTTTG
Found at i:102911584 original size:10 final size:10
Alignment explanation
Indices: 102911571--102911600 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
102911561 TATTCAACAA
102911571 TGAAAACTTT
1 TGAAAACTTT
102911581 TGAAAACTTT
1 TGAAAACTTT
102911591 TGAAAACTTT
1 TGAAAACTTT
102911601 AATAGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (10 bp):
TGAAAACTTT
Found at i:102918965 original size:7 final size:7
Alignment explanation
Indices: 102918955--102918984 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
102918945 TAATAGTGTA
102918955 ATTTTAT
1 ATTTTAT
102918962 ATTTTAT
1 ATTTTAT
102918969 ATTTTAT
1 ATTTTAT
*
102918976 ATATTAT
1 ATTTTAT
102918983 AT
1 AT
102918985 AATACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTAT
Found at i:102921022 original size:23 final size:24
Alignment explanation
Indices: 102920992--102921037 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
102920982 TTTCGGGAGC
102920992 AGAAGGAGAAG-AAGAAAAAGAAA
1 AGAAGGAGAAGAAAGAAAAAGAAA
102921015 AGAAGGAGAAGAAAGAAAAAGAA
1 AGAAGGAGAAGAAAGAAAAAGAA
102921038 GGGGAGGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AGAAGGAGAAGAAAGAAAAAGAAA
Found at i:102921900 original size:151 final size:144
Alignment explanation
Indices: 102921591--102922127 Score: 560
Period size: 151 Copynumber: 3.6 Consensus size: 144
102921581 GCTGACGAGT
* * **
102921591 TTTTTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTTGA
1 TTTTTACTAAAATAATAT---AAAATAAAATA-CAAAATAATATATTTTAAAAAATAAAATACGA
* * *
102921656 AAATAAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATT--AAATTATAAAAAATACTT
62 AAGT-AAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAAAATATAAAAAATACTT
102921719 AAATAATACATTTGAAACA
126 AAATAATACATTTGAAACA
* * *
102921738 TTTTTTGCTAAAATAATAT-AAA-AAAATACGAAAATAATATTAAATTTAAAAAATAATATACGA
1 -TTTTTACTAAAATAATATAAAATAAAATAC-AAAATAATA-T-ATTTTAAAAAATAAAATACGA
* ** * *
102921801 AAGTAAAAAATACGAATAAAGTGATAAAATTAGGGTTATTTATTTAAAAAATATAAAAAATACTT
62 AAGTAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTA-TTAAAAAATATAAAAAATAC-T
102921866 AAATAAATAATACATTTGAAACA
125 ---TAAATAATACATTTGAAACA
* * *
102921889 TTATGTACTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCCA
1 TT-TTTACTAAAATAATAT--A-AAATAAAATA-CAAAATAATATATTTTAAAAAATAAAATAC-
* * * * *
102921954 AAAATTAAAAAATACGAACAAGGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAACAC
60 GAAAGTAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAA-AAATATAAAAAATAC
*
102922019 TTAAGTAATACATTTGAAACAA
124 TTAAATAATACATTTGAAAC-A
* * *
102922041 TTTTTGCTAAAATAATATAAAAAATAAAATACATAAATAATATATTTTAAGAAATAATATACGAA
1 TTTTTACTAAAATAATAT--AAAATAAAATACA-AAATAATATATTTTAAAAAATAAAATACGAA
* *
102922106 AGTAAAAAGTACGAATAAAGTG
63 AGTAAAAAATACGAACAAAGTG
102922128 GTAATATATA
Statistics
Matches: 325, Mismatches: 43, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
143 14 0.04
144 36 0.11
145 22 0.07
147 15 0.05
148 18 0.06
149 21 0.06
150 37 0.11
151 69 0.21
152 3 0.01
154 22 0.07
155 53 0.16
156 15 0.05
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (144 bp):
TTTTTACTAAAATAATATAAAATAAAATACAAAATAATATATTTTAAAAAATAAAATACGAAAGT
AAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATA
ATACATTTGAAACA
Found at i:102924547 original size:17 final size:17
Alignment explanation
Indices: 102924527--102924565 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
102924517 AATACATTAC
102924527 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
102924544 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
102924561 AACAT
1 AACAT
102924566 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:102928682 original size:15 final size:15
Alignment explanation
Indices: 102928658--102928714 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
102928648 TATACCTTCT
102928658 TTTTTCCTTCTCTTTC
1 TTTTT-CTTCTCTTTC
102928674 TTTTTCTTCTC-TTC
1 TTTTTCTTCTCTTTC
*
102928688 TCCTTTCTTTCTCTTT-
1 T-TTTTC-TTCTCTTTC
*
102928704 ATTTTCTTCTC
1 TTTTTCTTCTC
102928715 CTTGTTGCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 9 0.26
15 14 0.40
16 10 0.29
17 2 0.06
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCTTCTCTTTC
Found at i:102928695 original size:21 final size:19
Alignment explanation
Indices: 102928657--102928702 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
102928647 TTATACCTTC
102928657 TTTT-TTCCTTCTCTTTCT
1 TTTTCTTCCTTCTCTTTCT
102928675 TTTTCTTCTCTTCTCCTTTCT
1 TTTTCTTC-CTTCT-CTTTCT
*
102928696 TTCTCTT
1 TTTTCTT
102928703 TATTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 3 0.12
20 5 0.21
21 12 0.50
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCTTCCTTCTCTTTCT
Found at i:102928711 original size:25 final size:26
Alignment explanation
Indices: 102928662--102928717 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
102928652 CCTTCTTTTT
* *
102928662 TCCTTCTCTTTCTTTTTCTTCTCTTC
1 TCCTTCTCTTTCTCTTTATTCTCTTC
*
102928688 TCCTT-TCTTTCTCTTTATTTTCTTC
1 TCCTTCTCTTTCTCTTTATTCTCTTC
102928713 TCCTT
1 TCCTT
102928718 GTTGCTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (26 bp):
TCCTTCTCTTTCTCTTTATTCTCTTC
Found at i:102930979 original size:18 final size:18
Alignment explanation
Indices: 102930936--102930978 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
102930926 AAACAGAAGC
102930936 AACTTAAAACGAAAAAAT
1 AACTTAAAACGAAAAAAT
102930954 -ACTTAAAACGAAAAAAT
1 AACTTAAAACGAAAAAAT
102930971 AAC-TAAAA
1 AACTTAAAA
102930979 ATCAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.16
Consensus pattern (18 bp):
AACTTAAAACGAAAAAAT
Found at i:102933168 original size:5 final size:5
Alignment explanation
Indices: 102933158--102933182 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
102933148 GTGTGTGACA
102933158 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
102933183 GCTTTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:102937130 original size:21 final size:20
Alignment explanation
Indices: 102937106--102937144 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
102937096 TTATGCCACA
102937106 TCAGTAATCTTATCCTGAATC
1 TCAG-AATCTTATCCTGAATC
* *
102937127 TCAGGATTTTATCCTGAA
1 TCAGAATCTTATCCTGAA
102937145 AAAAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (20 bp):
TCAGAATCTTATCCTGAATC
Found at i:102937211 original size:21 final size:20
Alignment explanation
Indices: 102937162--102937213 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
102937152 AAATCCAAAT
* *
102937162 TAAAATACTAAAATTCAAGA
1 TAAAATCCTGAAATTCAAGA
*
102937182 TAAAATCCTGAAATTCAGGA
1 TAAAATCCTGAAATTCAAGA
102937202 TAAGAATCCTGA
1 TAA-AATCCTGA
102937214 TGTGGCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATCCTGAAATTCAAGA
Done.