Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 48 of 226
Found at i:16156863 original size:7 final size:7
Alignment explanation
Indices: 16156853--16156906 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
16156843 AGAGTTAAGA
16156853 TTTAGGG
1 TTTAGGG
16156860 TTTAGGAG
1 TTTAGG-G
16156868 TTTAGGG
1 TTTAGGG
*
16156875 TTTAAGG
1 TTTAGGG
16156882 TTTAGGG
1 TTTAGGG
**
16156889 ATTTCTGG
1 -TTTAGGG
16156897 TTTAGGG
1 TTTAGGG
16156904 TTT
1 TTT
16156907 GAACGGTAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 27 0.69
8 12 0.31
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:16156873 original size:15 final size:14
Alignment explanation
Indices: 16156847--16156906 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
16156837 GAGTTAAGAG
*
16156847 TTAAGATTTAGGGT
1 TTAAGGTTTAGGGT
*
16156861 TTAGGAGTTTAGGGT
1 TTAAG-GTTTAGGGT
16156876 TTAAGGTTTAGGGAT
1 TTAAGGTTTAGGG-T
**
16156891 TTCTGGTTTAGGGT
1 TTAAGGTTTAGGGT
16156905 TT
1 TT
16156907 GAACGGTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
14 15 0.38
15 24 0.62
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (14 bp):
TTAAGGTTTAGGGT
Found at i:16157221 original size:31 final size:30
Alignment explanation
Indices: 16157178--16157259 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
16157168 AATAAAATTT
16157178 TTTAGGGGTTATGGTTTAGGGGTTAGAGGA
1 TTTAGGGGTTATGGTTTAGGGGTTAGAGGA
* * * *
16157208 GTTTAGGGTTTATGCTTTAAGGGTTTAGGGGA
1 -TTTAGGGGTTATGGTTT-AGGGGTTAGAGGA
* *
16157240 ATTAGGGGTTATGGGTTAGG
1 TTTAGGGGTTATGGTTTAGG
16157260 AATTTGGGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 3 0.07
31 28 0.67
32 11 0.26
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.38
Consensus pattern (30 bp):
TTTAGGGGTTATGGTTTAGGGGTTAGAGGA
Found at i:16160333 original size:22 final size:23
Alignment explanation
Indices: 16160308--16160370 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
16160298 AATAAAATTA
16160308 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
16160330 TATTAATAATTA-TATTAGTAATGT
1 TATTAA-AATTATTATTAG-AATAT
16160354 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
16160371 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 16 0.46
23 6 0.17
24 13 0.37
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:16160369 original size:12 final size:11
Alignment explanation
Indices: 16160302--16160382 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
16160292 CTTAATAATA
16160302 AAATTA-TATT
1 AAATTATTATT
16160312 AAAATTATTATT
1 -AAATTATTATT
16160324 AAA-TATTATT
1 AAATTATTATT
16160334 AATAATTA-TATT
1 -A-AATTATTATT
*
16160346 AGTAA-TGTTATT
1 A--AATTATTATT
16160358 AAATTATATATT
1 AAATTAT-TATT
16160370 --ATT-TTATT
1 AAATTATTATT
16160378 AAATT
1 AAATT
16160383 GTACTTAACA
Statistics
Matches: 58, Mismatches: 2, Indels: 21
0.72 0.02 0.26
Matches are distributed among these distances:
8 4 0.07
9 1 0.02
10 15 0.26
11 14 0.24
12 22 0.38
13 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
AAATTATTATT
Found at i:16160533 original size:9 final size:9
Alignment explanation
Indices: 16160505--16160932 Score: 203
Period size: 9 Copynumber: 49.8 Consensus size: 9
16160495 AACAACTCAA
16160505 AACTTACAT
1 AACTTACAT
* *
16160514 AACCTAAAT
1 AACTTACAT
16160523 AACTTACAT
1 AACTTACAT
16160532 AACTTACAT
1 AACTTACAT
*
16160541 AA--TACAA
1 AACTTACAT
*
16160548 AACTCACAT
1 AACTTACAT
*
16160557 AACTTAAAT
1 AACTTACAT
** *
16160566 CTCTTACAC
1 AACTTACAT
16160575 AACTTACAT
1 AACTTACAT
16160584 AACCTT-CAT
1 AA-CTTACAT
16160593 AA--TACATTT
1 AACTTACA--T
16160602 AACTTACAT
1 AACTTACAT
*
16160611 GACTTACAT
1 AACTTACAT
*
16160620 AATACATA-AT
1 -A-ACTTACAT
16160630 AACTTAC--
1 AACTTACAT
16160637 AACTTACAT
1 AACTTACAT
16160646 AA--TACATCT
1 AACTTACA--T
16160655 AACTTAC--
1 AACTTACAT
16160662 AACTTACAT
1 AACTTACAT
16160671 AA--TACATTT
1 AACTTACA--T
16160680 AACTTAC--
1 AACTTACAT
16160687 AACTTACAT
1 AACTTACAT
16160696 AA--TACATTT
1 AACTTACA--T
16160705 AACTTACAT
1 AACTTACAT
*
16160714 AACTTACGT
1 AACTTACAT
* *
16160723 AA-TCCATCTT
1 AACT-TA-CAT
16160733 AACTTACAT
1 AACTTACAT
*
16160742 AATACATA-AT
1 -A-ACTTACAT
16160752 AACTTAC--
1 AACTTACAT
16160759 AACTTACAT
1 AACTTACAT
*
16160768 AACATACAT
1 AACTTACAT
* **
16160777 TACTTTGAT
1 AACTTACAT
16160786 AACTTACAT
1 AACTTACAT
16160795 AAC-T---T
1 AACTTACAT
16160800 -ACTTACAT
1 AACTTACAT
16160808 AACTTACAT
1 AACTTACAT
16160817 AACTTACAT
1 AACTTACAT
*
16160826 AACTAACAT
1 AACTTACAT
* *
16160835 TA--TACAC
1 AACTTACAT
16160842 AACTTACAT
1 AACTTACAT
16160851 AA--TACAT
1 AACTTACAT
*
16160858 TACTTACAT
1 AACTTACAT
16160867 AACTTAAAGCAT
1 AACTT--A-CAT
16160879 AA--TA-AT
1 AACTTACAT
16160885 AACTTACAT
1 AACTTACAT
*
16160894 AA--TACAC
1 AACTTACAT
16160901 AACTTACAT
1 AACTTACAT
* *
16160910 AGCTTACAC
1 AACTTACAT
16160919 AA--TACAT
1 AACTTACAT
16160926 AACTTAC
1 AACTTAC
16160933 TCGTGTAATT
Statistics
Matches: 314, Mismatches: 49, Indels: 112
0.66 0.10 0.24
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 5 0.02
7 70 0.22
8 14 0.04
9 178 0.57
10 14 0.04
11 24 0.08
12 5 0.02
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:16160550 original size:43 final size:43
Alignment explanation
Indices: 16160502--16160585 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
16160492 CTGAACAACT
* *
16160502 CAAAACTTACATAACCTAAATAACTTACATAACTTACATAATA
1 CAAAACTCACATAACCTAAATAACTTACACAACTTACATAATA
* **
16160545 CAAAACTCACATAACTTAAATCTCTTACACAACTTACATAA
1 CAAAACTCACATAACCTAAATAACTTACACAACTTACATAA
16160586 CCTTCATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (43 bp):
CAAAACTCACATAACCTAAATAACTTACACAACTTACATAATA
Found at i:16160663 original size:25 final size:24
Alignment explanation
Indices: 16160590--16160796 Score: 201
Period size: 25 Copynumber: 8.2 Consensus size: 24
16160580 ACATAACCTT
16160590 CATAATACATTTAACTTACATGACTTA
1 CATAATACA-TTAACTTACA--ACTTA
16160617 CATAATACATAATAACTTACAACTTA
1 CATAATACAT--TAACTTACAACTTA
16160643 CATAATACATCTAACTTACAACTTA
1 CATAATACAT-TAACTTACAACTTA
16160668 CATAATACATTTAACTTACAACTTA
1 CATAATACA-TTAACTTACAACTTA
16160693 CATAATACATTTAACTTACATAACTTA
1 CATAATACA-TTAACTTAC--AACTTA
* *
16160720 CGTAATCCA-T--CTT--AACTTA
1 CATAATACATTAACTTACAACTTA
16160739 CATAATACATAATAACTTACAACTTA
1 CATAATACAT--TAACTTACAACTTA
*
16160765 CATAACATACATT-ACTTTGATAACTTA
1 CAT-A-ATACATTAAC-TT-ACAACTTA
16160792 CATAA
1 CATAA
16160797 CTTACTTACA
Statistics
Matches: 158, Mismatches: 6, Indels: 34
0.80 0.03 0.17
Matches are distributed among these distances:
19 13 0.08
22 1 0.01
23 3 0.02
24 3 0.02
25 60 0.38
26 30 0.19
27 33 0.21
28 15 0.09
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.34
Consensus pattern (24 bp):
CATAATACATTAACTTACAACTTA
Found at i:16160736 original size:103 final size:104
Alignment explanation
Indices: 16160590--16160865 Score: 276
Period size: 103 Copynumber: 2.7 Consensus size: 104
16160580 ACATAACCTT
* * **
16160590 CATAATACATTTAACTTACATGACTTACATAATACATAATAACTTACAACTTACATAATACATCT
1 CATAATACATTTAACTTACATAACTTACATAATCCATCTTAACTTACAACTTACATAATACAT-T
16160655 AACTTACAACTTACAT-A-ATACATTTAAC-TT-ACAACTTA
65 AACTTACAACTTACATAACATACA-TT-ACTTTGACAACTTA
*
16160693 CATAATACATTTAACTTACATAACTTACGTAATCCATCTTAACTTAC-A--TA-ATACATA-A-T
1 CATAATACATTTAACTTACATAACTTACATAATCCATCTTAACTTACAACTTACATA-ATACATT
*
16160752 AACTTACAACTTACATAACATACATTACTTTGATAACTTA
65 AACTTACAACTTACATAACATACATTACTTTGACAACTTA
* *
16160792 CATAACTTAC-TTACATAACTTACATAACTTACATAA-CTAACATTATAC--ACAACTTACATAA
1 CATAA--TACATT---TAACTTACATAACTTACATAATCCATC-TTA-ACTTACAACTTACATAA
16160853 TACATT-ACTTACA
59 TACATTAACTTACA
16160866 TAACTTAAAG
Statistics
Matches: 146, Mismatches: 9, Indels: 33
0.78 0.05 0.18
Matches are distributed among these distances:
97 19 0.13
98 5 0.03
99 21 0.14
100 7 0.05
101 3 0.02
102 6 0.04
103 66 0.45
104 2 0.01
105 5 0.03
106 11 0.08
107 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (104 bp):
CATAATACATTTAACTTACATAACTTACATAATCCATCTTAACTTACAACTTACATAATACATTA
ACTTACAACTTACATAACATACATTACTTTGACAACTTA
Found at i:16160737 original size:19 final size:19
Alignment explanation
Indices: 16160712--16160759 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
16160702 TTTAACTTAC
* * *
16160712 ATAACTTACGTAATCCATC
1 ATAACTTACATAATACATA
*
16160731 TTAACTTACATAATACATA
1 ATAACTTACATAATACATA
16160750 ATAACTTACA
1 ATAACTTACA
16160760 ACTTACATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:16160803 original size:13 final size:13
Alignment explanation
Indices: 16160787--16160814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16160777 TACTTTGATA
16160787 ACTTACATAACTT
1 ACTTACATAACTT
16160800 ACTTACATAACTT
1 ACTTACATAACTT
16160813 AC
1 AC
16160815 ATAACTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTACATAACTT
Found at i:16160865 original size:25 final size:26
Alignment explanation
Indices: 16160654--16160895 Score: 171
Period size: 25 Copynumber: 9.5 Consensus size: 26
16160644 ATAATACATC
16160654 TAACTTAC--AACTTACATAATACATT
1 TAACTTACATAACTTACATAATACA-T
16160679 TAACTTAC--AACTTACATAATACATT
1 TAACTTACATAACTTACATAATACA-T
* *
16160704 TAACTTACATAACTTACGTAATCCATCT
1 TAACTTACATAACTTACATAATACA--T
16160732 TAACTTACATAA--TACATAATA-ACT
1 TAACTTACATAACTTACATAATACA-T
* *
16160756 TACAACTTACATAACATACAT--TACTTT
1 T--AACTTACATAACTTACATAATAC-AT
16160783 GATAACTTACATAACTTAC-T--TACA-
1 --TAACTTACATAACTTACATAATACAT
16160807 TAACTTACATAACTTACATAACTAACAT
1 TAACTTACATAACTTACATAA-T-ACAT
*
16160835 T-A--TACACAACTTACATAATACAT
1 TAACTTACATAACTTACATAATACAT
16160858 T-ACTTACATAACTTAAAGCATAATA-A-
1 TAACTTACATAACTT--A-CATAATACAT
16160884 TAACTTACATAA
1 TAACTTACATAA
16160896 TACACAACTT
Statistics
Matches: 184, Mismatches: 10, Indels: 44
0.77 0.04 0.18
Matches are distributed among these distances:
22 17 0.09
23 7 0.04
24 4 0.02
25 58 0.32
26 26 0.14
27 45 0.24
28 26 0.14
29 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (26 bp):
TAACTTACATAACTTACATAATACAT
Found at i:16160887 original size:59 final size:56
Alignment explanation
Indices: 16160786--16160910 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 56
16160776 TTACTTTGAT
*
16160786 AACTTACAT-AACTTACTTACATAACTTACATAACTTACATAACTAACATTATACAC
1 AACTTACATAAACTTACTTACATAACTTACATAAC-TACATAACTAACATAATACAC
*
16160842 AACTTACATAATACATTACTTACATAACTTAAAGCATAA-TA-ATAACTTACATAATACAC
1 AACTTACATAA-AC-TTACTTACATAACTT--A-CATAACTACATAACTAACATAATACAC
16160901 AACTTACATA
1 AACTTACATA
16160911 GCTTACACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
56 9 0.15
57 1 0.02
58 2 0.03
59 41 0.67
60 2 0.03
61 1 0.02
62 5 0.08
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (56 bp):
AACTTACATAAACTTACTTACATAACTTACATAACTACATAACTAACATAATACAC
Found at i:16160889 original size:43 final size:43
Alignment explanation
Indices: 16160800--16160932 Score: 141
Period size: 43 Copynumber: 3.1 Consensus size: 43
16160790 TACATAACTT
*
16160800 ACTTACATAACTTACATAACTTACATAAC-T-AACATTATACACA
1 ACTTACATAA--TACATAACTTACATAACTTAAACATAATACACA
* *
16160843 ACTTACATAATACATTACTTACATAACTTAAAGCATAATA-ATA
1 ACTTACATAATACATAACTTACATAACTTAAA-CATAATACACA
* * * *
16160886 ACTTACATAATACACAACTTACATAGCTT--ACACAATACATA
1 ACTTACATAATACATAACTTACATAACTTAAACATAATACACA
16160927 ACTTAC
1 ACTTAC
16160933 TCGTGTAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
40 6 0.08
41 26 0.33
42 1 0.01
43 40 0.51
44 6 0.08
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.30
Consensus pattern (43 bp):
ACTTACATAATACATAACTTACATAACTTAAACATAATACACA
Found at i:16166432 original size:66 final size:65
Alignment explanation
Indices: 16166324--16166494 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
16166314 GAGCAAATTA
* * * * *
16166324 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCA
16166388 G
65 G
*
16166389 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
16166454 G
65 G
* * * * *
16166455 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
16166495 CGGCAACGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.95
67 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
Found at i:16166492 original size:21 final size:21
Alignment explanation
Indices: 16166466--16166509 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16166456 AGCAGCTTAG
* *
16166466 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAACAAGAGA
*
16166487 AGCAGAGGCGGCAACGAGAGA
1 AGCAGAGGCGGCAACAAGAGA
16166508 AG
1 AG
16166510 TACAGGCTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.41, T:0.02
Consensus pattern (21 bp):
AGCAGAGGCGGCAACAAGAGA
Found at i:16166516 original size:21 final size:21
Alignment explanation
Indices: 16166473--16166516 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16166463 TAGAGCAGAT
* *
16166473 GCGGCAGCAAGAGAAGCAGAG
1 GCGGCAACAAGAGAAGCACAG
* *
16166494 GCGGCAACGAGAGAAGTACAG
1 GCGGCAACAAGAGAAGCACAG
16166515 GC
1 GC
16166517 TGCTAAGAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.41, T:0.02
Consensus pattern (21 bp):
GCGGCAACAAGAGAAGCACAG
Found at i:16166537 original size:21 final size:21
Alignment explanation
Indices: 16166485--16166577 Score: 91
Period size: 21 Copynumber: 4.4 Consensus size: 21
16166475 GGCAGCAAGA
* *
16166485 GAAGCAGAGGCGGCAACGAGA
1 GAAGCAGAGGCTGCAACGAGG
* *
16166506 GAAGTACAGGCTGCTAA-GAGG
1 GAAGCAGAGGCTGC-AACGAGG
*
16166527 GAAGCAGAGGCT-AAAGCGAGG
1 GAAGCAGAGGCTGCAA-CGAGG
* *
16166548 GAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAACGAGG
16166569 GAAGCAGAG
1 GAAGCAGAG
16166578 CAGCGTTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.04
21 52 0.91
22 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAACGAGG
Found at i:16167048 original size:43 final size:43
Alignment explanation
Indices: 16167001--16167092 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 43
16166991 ACAAATGCCA
*
16167001 CTAAAGACCCT-GATCTATAGCGGCGCTTTTACCAAAAACGCCG
1 CTAAAGACCCTAG-TCTATAGCGGCGCTTATACCAAAAACGCCG
16167044 CTAAAGACCCTAGTCTATAGCGGCGCTTATACCAAAAACGCCG
1 CTAAAGACCCTAGTCTATAGCGGCGCTTATACCAAAAACGCCG
16167087 CTAAAG
1 CTAAAG
16167093 GTATTACTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
CTAAAGACCCTAGTCTATAGCGGCGCTTATACCAAAAACGCCG
Found at i:16167109 original size:43 final size:43
Alignment explanation
Indices: 16167019--16167153 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 43
16167009 CCTGATCTAT
* * * *
16167019 AGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTAGTCTAT-
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCT-TC
* *
16167062 AGCGGCGCTTATACCAAAAACGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
* * * * *
16167105 AGCGGCGCTTCTA-CTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
16167147 AGCGGCG
1 AGCGGCG
16167154 TTTGTGATAT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 32 0.41
43 47 0.59
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (43 bp):
AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
Found at i:16168694 original size:16 final size:18
Alignment explanation
Indices: 16168668--16168700 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16168658 TAAAAAAAAT
16168668 GTATAAAATATA-TACAG
1 GTATAAAATATACTACAG
16168685 GTAT-AAATATACTACA
1 GTATAAAATATACTACA
16168701 TAAAAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (18 bp):
GTATAAAATATACTACAG
Found at i:16168802 original size:27 final size:26
Alignment explanation
Indices: 16168722--16168802 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 26
16168712 ATATATATAG
* *
16168722 ATATATTATAAAAAAAACCCATGCGAG-
1 ATATATTATATAAAAAA--CATGCGTGT
* *
16168749 -TATATTATAT-AAAAACATGCATAT
1 ATATATTATATAAAAAACATGCGTGT
16168773 ATATATTATATAAAAAACAATGCGTGT
1 ATATATTATATAAAAAAC-ATGCGTGT
16168800 ATA
1 ATA
16168803 AATATAGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 5 0.11
25 15 0.34
26 15 0.34
27 9 0.20
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (26 bp):
ATATATTATATAAAAAACATGCGTGT
Found at i:16169970 original size:17 final size:18
Alignment explanation
Indices: 16169943--16169976 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16169933 ATTATGTAGT
16169943 GATTCAATACTTTAATTC
1 GATTCAATACTTTAATTC
16169961 GATT-AATACTTTAATT
1 GATTCAATACTTTAATT
16169977 TAGGTAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (18 bp):
GATTCAATACTTTAATTC
Found at i:16171868 original size:25 final size:25
Alignment explanation
Indices: 16171840--16171905 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
16171830 CAGCTTAAAA
* *
16171840 GAGCGTCCCGTTATTTAGCTCTTAT
1 GAGCATCCCGTTATTTAGCTCTCAT
** *
16171865 GAGCATCCCGTTAAATGGCTCTCAT
1 GAGCATCCCGTTATTTAGCTCTCAT
* *
16171890 GAGCTTCCCGATATTT
1 GAGCATCCCGTTATTT
16171906 GGATTTCATG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
GAGCATCCCGTTATTTAGCTCTCAT
Found at i:16171958 original size:25 final size:25
Alignment explanation
Indices: 16171857--16171973 Score: 101
Period size: 25 Copynumber: 4.7 Consensus size: 25
16171847 CCGTTATTTA
* * * *
16171857 GCTCTTATGAGCATCCCGTTAAATG
1 GCTCTCATGAGCTTCCCGATAATTG
*
16171882 GCTCTCATGAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATAATTG
* * ** *
16171907 GATTTCATGAGCTTTTCAATTAA-TG
1 GCTCTCATGAGCTTCCCGA-TAATTG
*
16171932 GCTCTCTTGAGCTTCCCGATAATTG
1 GCTCTCATGAGCTTCCCGATAATTG
* *
16171957 GCTCGCAAGAGCTTCCC
1 GCTCTCATGAGCTTCCC
16171974 TTTATACAAC
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
24 3 0.04
25 65 0.93
26 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATAATTG
Found at i:16173848 original size:24 final size:25
Alignment explanation
Indices: 16173821--16173868 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
16173811 CAGCTCGAAA
* *
16173821 GAGCGTCCTGTTA-ATAGCTCTCAT
1 GAGCATCCTGATATATAGCTCTCAT
*
16173845 GAGCATCCTGATATTTAGCTCTCA
1 GAGCATCCTGATATATAGCTCTCA
16173869 CGAGTTCCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (25 bp):
GAGCATCCTGATATATAGCTCTCAT
Found at i:16174007 original size:25 final size:25
Alignment explanation
Indices: 16173979--16174043 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
16173969 CTTATGAGTG
16173979 TCCCGA-TATATGGCTCTACGAAGCT
1 TCCCGATTA-ATGGCTCTACGAAGCT
* * *
16174004 TCCCAATTAATGGCTCTCCGGAGCT
1 TCCCGATTAATGGCTCTACGAAGCT
*
16174029 TCCCGATTAACGGCT
1 TCCCGATTAATGGCT
16174044 TGCTTGAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTACGAAGCT
Found at i:16174077 original size:49 final size:50
Alignment explanation
Indices: 16174024--16174132 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 50
16174014 TGGCTCTCCG
** * **
16174024 GAGCTTCCCGATTA-ACGGCTTGCTTGAACTTTCCGATTACA-GCTCTTAT
1 GAGCTTCCCGATTACACGGCTCACATGAACTTTCC-ATTACAGGCTCACAT
*
16174073 GAGCTTCCC-ATTACACGGCTCACATGAGCTTTCCATTACATGGCTCACAT
1 GAGCTTCCCGATTACACGGCTCACATGAACTTTCCATTACA-GGCTCACAT
16174123 GAGCTTCCCG
1 GAGCTTCCCG
16174133 TGATATGGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
48 10 0.20
49 25 0.50
50 15 0.30
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GAGCTTCCCGATTACACGGCTCACATGAACTTTCCATTACAGGCTCACAT
Found at i:16174085 original size:23 final size:24
Alignment explanation
Indices: 16174054--16174131 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
16174044 TGCTTGAACT
* **
16174054 TTCCGATTACA-GCTCTTATGAGC
1 TTCCCATTACAGGCTCACATGAGC
16174077 TTCCCATTACACGGCTCACATGAGC
1 TTCCCATTACA-GGCTCACATGAGC
*
16174102 TTTCCATTACATGGCTCACATGAGC
1 TTCCCATTACA-GGCTCACATGAGC
16174127 TTCCC
1 TTCCC
16174132 GTGATATGGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.21
25 37 0.79
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (24 bp):
TTCCCATTACAGGCTCACATGAGC
Found at i:16174143 original size:25 final size:25
Alignment explanation
Indices: 16174071--16174131 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
16174061 TACAGCTCTT
*
16174071 ATGAGCTTCCCATTACACGGCTCAC
1 ATGAGCTTCCCATTACATGGCTCAC
*
16174096 ATGAGCTTTCCATTACATGGCTCAC
1 ATGAGCTTCCCATTACATGGCTCAC
16174121 ATGAGCTTCCC
1 ATGAGCTTCCC
16174132 GTGATATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCATTACATGGCTCAC
Found at i:16177654 original size:26 final size:21
Alignment explanation
Indices: 16177603--16177643 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
16177593 TAATAAATAT
16177603 TTTAATAATTAAAGTATGAAA
1 TTTAATAATTAAAGTATGAAA
16177624 TTTAATAATTAAAGTATGAA
1 TTTAATAATTAAAGTATGAA
16177644 TATTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (21 bp):
TTTAATAATTAAAGTATGAAA
Found at i:16178088 original size:129 final size:130
Alignment explanation
Indices: 16177839--16178092 Score: 422
Period size: 129 Copynumber: 2.0 Consensus size: 130
16177829 TAAAATATTA
*
16177839 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTCTAAGCAAAAAATATAAAAA
1 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTCTAAACAAAAAATATAAAAA
* * *
16177904 CAATAAGATTTAAATTTAAAACACTGTATTTTGATGATTTGTACTTTATCATTTCAACTAAATTT
66 CAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCATTTCAACTAAATTT
16177969 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATAATTTT-TAAACAAAAAATA-AAAA
1 TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTAT-ATTTTCTAAACAAAAAATATAAAA
* * *
16178032 ATAATTAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCCTTTCAACTA
65 ACAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCATTTCAACTA
16178093 GATTCTTACT
Statistics
Matches: 116, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
129 59 0.51
130 52 0.45
131 5 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (130 bp):
TTATTTTATAAAATAAATTATATTATTTTGAGAGTGTTATATTTTCTAAACAAAAAATATAAAAA
CAATAAGATTTAAATTTAAAACACTGTATTTTGAAGATATGTACTTTACCATTTCAACTAAATTT
Found at i:16195595 original size:24 final size:25
Alignment explanation
Indices: 16195547--16195608 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
16195537 TTCAAATACA
*
16195547 ATTTTAGAATTTAGATTTTATTATT
1 ATTTTAGAATTTAGAATTTATTATT
*
16195572 ATTTTGGAATTT-GAATTTATTATTT
1 ATTTTAGAATTTAGAATTTATTA-TT
16195597 ATATTTA-AATTT
1 AT-TTTAGAATTT
16195609 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.28
25 20 0.62
26 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTTTAGAATTTAGAATTTATTATT
Found at i:16197308 original size:22 final size:22
Alignment explanation
Indices: 16197283--16197334 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
16197273 AAATAATAGC
16197283 ATATTAGA-AATTATATAATCTT
1 ATATTA-ATAATTATATAATCTT
* *
16197305 ATATTAATATTTATATAATTTT
1 ATATTAATAATTATATAATCTT
16197327 A-ATTAATA
1 ATATTAATA
16197335 TTTGAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAATAATTATATAATCTT
Found at i:16197343 original size:21 final size:22
Alignment explanation
Indices: 16197293--16197337 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
16197283 ATATTAGAAA
16197293 TTATATAATCTTATATTAATAT
1 TTATATAATCTTATATTAATAT
*
16197315 TTATATAATTTTA-ATTAATAT
1 TTATATAATCTTATATTAATAT
16197336 TT
1 TT
16197338 GAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATAATCTTATATTAATAT
Found at i:16200686 original size:20 final size:20
Alignment explanation
Indices: 16200661--16200707 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16200651 TGAATTTATA
16200661 TTTTTTAGAATCATT-AATAT
1 TTTTTTAGAAT-ATTAAATAT
* *
16200681 TTTTTTATAATTTTAAATAT
1 TTTTTTAGAATATTAAATAT
16200701 TTTTTTA
1 TTTTTTA
16200708 TAGTTTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTTAGAATATTAAATAT
Found at i:16200708 original size:20 final size:20
Alignment explanation
Indices: 16200676--16200714 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16200666 TAGAATCATT
16200676 AATATTTTTTTATAATTTTA
1 AATATTTTTTTATAATTTTA
*
16200696 AATATTTTTTTATAGTTTT
1 AATATTTTTTTATAATTTT
16200715 GCACTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
AATATTTTTTTATAATTTTA
Found at i:16200871 original size:15 final size:16
Alignment explanation
Indices: 16200834--16200872 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
16200824 ATATTAATAC
*
16200834 TTTTTTA-ATTTTTAA
1 TTTTTTATATTTTGAA
16200849 TTTTTTATA-TTTGAA
1 TTTTTTATATTTTGAA
16200864 TTTTTTATA
1 TTTTTTATA
16200873 ACTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTTATATTTTGAA
Found at i:16202418 original size:12 final size:12
Alignment explanation
Indices: 16202403--16202448 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
16202393 TAGCAACAAT
16202403 AACAGCAAAAAC
1 AACAGCAAAAAC
* *
16202415 AACAACAAAATC
1 AACAGCAAAAAC
*
16202427 AATAGCAAAAAC
1 AACAGCAAAAAC
*
16202439 AACACCAAAA
1 AACAGCAAAA
16202449 TATCAGGAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.24, G:0.04, T:0.04
Consensus pattern (12 bp):
AACAGCAAAAAC
Found at i:16202433 original size:36 final size:36
Alignment explanation
Indices: 16202379--16202448 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
16202369 AAAAAACCCA
* * * * *
16202379 AACAACAAAAAGAGTAGCAACAATAACAGCAAAAAC
1 AACAACAAAAACAATAGCAAAAACAACACCAAAAAC
*
16202415 AACAACAAAATCAATAGCAAAAACAACACCAAAA
1 AACAACAAAAACAATAGCAAAAACAACACCAAAA
16202449 TATCAGGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.06
Consensus pattern (36 bp):
AACAACAAAAACAATAGCAAAAACAACACCAAAAAC
Found at i:16202771 original size:14 final size:14
Alignment explanation
Indices: 16202729--16202771 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
16202719 AGTAGTAAAA
*
16202729 ATAAATATATTATTT
1 ATAAA-ATATTATAT
*
16202744 ATAAAATGTTATAT
1 ATAAAATATTATAT
*
16202758 ATAAAATATCATAT
1 ATAAAATATTATAT
16202772 CACTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (14 bp):
ATAAAATATTATAT
Found at i:16204988 original size:20 final size:20
Alignment explanation
Indices: 16204963--16205000 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16204953 TGTTATAAGA
16204963 GAATACCAAAAAAATTGATG
1 GAATACCAAAAAAATTGATG
16204983 GAATACCAAAAAAATTGA
1 GAATACCAAAAAAATTGA
16205001 GGGAGTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (20 bp):
GAATACCAAAAAAATTGATG
Found at i:16206075 original size:26 final size:26
Alignment explanation
Indices: 16206016--16206080 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
16206006 CGTTTTAGGG
16206016 GTTAGGTTTTCTTTTCCTTTCATTTTTA
1 GTTAGG-TTT-TTTTCCTTTCATTTTTA
*
16206044 GATTAGGTTTTTTTCTTTTC-TTTTTAA
1 G-TTAGGTTTTTTTCCTTTCATTTTT-A
*
16206071 GTTAGATTTT
1 GTTAGGTTTT
16206081 AGTTTTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 13 0.39
27 11 0.33
28 4 0.12
29 5 0.15
ACGTcount: A:0.14, C:0.09, G:0.12, T:0.65
Consensus pattern (26 bp):
GTTAGGTTTTTTTCCTTTCATTTTTA
Found at i:16216213 original size:166 final size:166
Alignment explanation
Indices: 16215939--16216264 Score: 580
Period size: 166 Copynumber: 2.0 Consensus size: 166
16215929 CCAACAGCAG
*
16215939 ACAATTTTAGCTTTTTGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
1 ACAATTTTAGCTTTTCGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
* * *
16216004 GCTAAAATAGTCCCCTAGCACTCCAAAGCCTATAATTGAACAAATAACACTAATTTAATCTCACA
66 GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
16216069 TAACGTGATCCCAAATCGAACTCGTATCAATAGAAT
131 TAACGTGATCCCAAATCGAACTCGTATCAATAGAAT
*
16216105 ACAATTTTAGCTTTTCGTCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
1 ACAATTTTAGCTTTTCGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
**
16216170 GCTAAAACAGTCTTCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
66 GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
*
16216235 TAATGTGATCCCAAATCGAACTCGTATCAA
131 TAACGTGATCCCAAATCGAACTCGTATCAA
16216265 GGTTTTAACC
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 152 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (166 bp):
ACAATTTTAGCTTTTCGCCGAATCCCATTTTCTGCGTTTCAGATACACACCTGGTTTTGTTTGAT
GCTAAAACAGTCCCCGAGCACTCCAAAGCCTATAATTGAACAAAGAACACTAATTTAATCTCACA
TAACGTGATCCCAAATCGAACTCGTATCAATAGAAT
Found at i:16220390 original size:52 final size:50
Alignment explanation
Indices: 16220326--16220435 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 50
16220316 AATTCATATC
16220326 CGGGAATGCTCATATGAGCACAT-AAACAGGAAGCTCACTCTCGAGCCGTATAA
1 CGGGAA-GCTCATATGAGC-CATGAAACAGGAAGCTCA-T-TCGAGCCGTATAA
* * * *
16220379 CGGGAAGCTCATGTGAGCCATGTAACGGGAAGCTCATTCGAGCTGTATAA
1 CGGGAAGCTCATATGAGCCATGAAACAGGAAGCTCATTCGAGCCGTATAA
16220429 CGGGAAG
1 CGGGAAG
16220436 TTCAAGCGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
50 19 0.37
51 4 0.08
52 23 0.44
53 6 0.12
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (50 bp):
CGGGAAGCTCATATGAGCCATGAAACAGGAAGCTCATTCGAGCCGTATAA
Found at i:16220404 original size:25 final size:24
Alignment explanation
Indices: 16220326--16220415 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 24
16220316 AATTCATATC
*
16220326 CGGGAATGCTCATATGAGCACATAAA
1 CGGGAA-GCTCATATGAGC-CATTAA
* * *
16220352 CAGGAAGCTCACTCTCGAGCCGTATAA
1 CGGGAAGCTCA-TAT-GAGCCAT-TAA
*
16220379 CGGGAAGCTCATGTGAGCCATGTAA
1 CGGGAAGCTCATATGAGCCAT-TAA
16220404 CGGGAAGCTCAT
1 CGGGAAGCTCAT
16220416 TCGAGCTGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
25 26 0.49
26 11 0.21
27 16 0.30
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATATGAGCCATTAA
Found at i:16220421 original size:25 final size:26
Alignment explanation
Indices: 16220354--16220435 Score: 105
Period size: 25 Copynumber: 3.2 Consensus size: 26
16220344 CACATAAACA
16220354 GGAAGCTCACTCTCGAGCCGTATAACG
1 GGAAGCTCA-TCTCGAGCCGTATAACG
* * *
16220381 GGAAGCTCATGT-GAGCCATGTAACG
1 GGAAGCTCATCTCGAGCCGTATAACG
*
16220406 GGAAGCTCAT-TCGAGCTGTATAACG
1 GGAAGCTCATCTCGAGCCGTATAACG
16220431 GGAAG
1 GGAAG
16220436 TTCAAGCGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.02
25 36 0.75
26 2 0.04
27 9 0.19
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (26 bp):
GGAAGCTCATCTCGAGCCGTATAACG
Found at i:16220445 original size:25 final size:25
Alignment explanation
Indices: 16220367--16220447 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
16220357 AGCTCACTCT
16220367 CGAGCCGTATAACGGGAAGCTCATG
1 CGAGCCGTATAACGGGAAGCTCATG
* * * *
16220392 TGAGCCATGTAACGGGAAGCTCATT
1 CGAGCCGTATAACGGGAAGCTCATG
* * *
16220417 CGAGCTGTATAACGGGAAGTTCAAG
1 CGAGCCGTATAACGGGAAGCTCATG
16220442 CGAGCC
1 CGAGCC
16220448 AATATCGAGA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (25 bp):
CGAGCCGTATAACGGGAAGCTCATG
Found at i:16221548 original size:27 final size:26
Alignment explanation
Indices: 16221518--16221739 Score: 194
Period size: 27 Copynumber: 8.3 Consensus size: 26
16221508 CCCAAAATAA
* *
16221518 GTAAAATAACCAAAATAACCCCATAGA
1 GTAAAATGACCAAAAT-ACCCCATAGG
* *
16221545 GTAAAATGACCGAAATACCCTATAGG
1 GTAAAATGACCAAAATACCCCATAGG
*
16221571 GTAAAATGACCAAAATACCCACGTAGG
1 GTAAAATGACCAAAATACCC-CATAGG
* * *
16221598 GTAAAAT-AACAGAAATACCCTAACAGG
1 GTAAAATGACCA-AAATACCC-CATAGG
* * * *
16221625 GGAAAATGATCGAAATACCCCTATAAG
1 GTAAAATGACCAAAATACCCC-ATAGG
* ** * *
16221652 GTAAAATAACTGAAATGCCCCCTAGG
1 GTAAAATGACCAAAATACCCCATAGG
*
16221678 ATAAAATGACCAAAATACCCCCCATAGG
1 GTAAAATGACCAAAATA--CCCCATAGG
*
16221706 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATA-CCCCATAGG
16221733 GTAAAAT
1 GTAAAAT
16221740 AACTGTTATG
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 45 0.29
27 86 0.55
28 25 0.16
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.17
Consensus pattern (26 bp):
GTAAAATGACCAAAATACCCCATAGG
Found at i:16221720 original size:81 final size:80
Alignment explanation
Indices: 16221519--16221744 Score: 258
Period size: 81 Copynumber: 2.8 Consensus size: 80
16221509 CCAAAATAAG
* * * **
16221519 TAAAATAACCAAAATAACCCCATAGAGTAAAATGACCGAAATA-CCCTATAGGGTAAAATGACCA
1 TAAAAT-ACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATAACTG
* *
16221583 AAATACCCACGTAGGG
65 AAATACCCACCTAGGA
* ** * * * *
16221599 TAAAATAACAGAAATACCCTAACAGGGGAAAATGATCGAAATACCCCTATAAGGTAAAATAACTG
1 TAAAATACCA-AAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATAACTG
*
16221664 AAATGCCC-CCTAGGA
65 AAATACCCACCTAGGA
*
16221679 TAAAATGACCAAAATACCCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACT
1 TAAAAT-ACCAAAATA-CCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATAACT
16221744 G
64 G
16221745 TTATGGCCCT
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 3 0.03
80 47 0.39
81 69 0.58
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (80 bp):
TAAAATACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATAACTGA
AATACCCACCTAGGA
Found at i:16221727 original size:54 final size:53
Alignment explanation
Indices: 16221518--16221739 Score: 230
Period size: 54 Copynumber: 4.1 Consensus size: 53
16221508 CCCAAAATAA
* * * * **
16221518 GTAAAATAACCAAAATAACCCCATAGAGTAAAATGACCGAAATACCCTATAGG
1 GTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCCCCTAGG
* * * *
16221571 GTAAAATGACCAAAATACCCACGTAGGGTAAAATAACAGAAATACCCTAAC-AGG
1 GTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCC--CCTAGG
* * * * * * *
16221625 GGAAAATGATCGAAATACCCCTATAAGGTAAAATAACTGAAATGCCCCCTAGG
1 GTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCCCCTAGG
* *
16221678 ATAAAATGACCAAAATACCCCCCATAGGGTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATA-CCCCCATAGGGTAAAATAACCGAAATACCCCC-TAGG
16221733 GTAAAAT
1 GTAAAAT
16221740 AACTGTTATG
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.01
53 56 0.41
54 68 0.50
55 10 0.07
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.17
Consensus pattern (53 bp):
GTAAAATGACCAAAATACCCCCATAGGGTAAAATAACCGAAATACCCCCTAGG
Found at i:16225196 original size:27 final size:27
Alignment explanation
Indices: 16225166--16225494 Score: 385
Period size: 27 Copynumber: 12.3 Consensus size: 27
16225156 CCTAAAATAA
*
16225166 GTAAAATAACCAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
*
16225193 GTAAAATGACC-AAATA-TCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* **
16225218 GTAAAATAACCAAAATACCCTTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
16225245 GTAAAAT-AACAGAAATACGCCCATAGG
1 GTAAAATGACCA-AAATACCCCCATAGG
* * *
16225272 GTAAAATGACCGAAATGCCCTCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* **
16225299 GTAAAATGACAAAAATACCCCCATAAA
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
16225326 GAAAAATGACCAAAATATCGCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
16225353 GTAAAATGACTAAAATACCCCTATAGA
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
16225380 ATAAAATGACTAAAATACCCTCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
16225407 GTAAAATGATCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
16225434 GTAAAATGACCAAAATACCTCTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
*
16225461 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
16225488 GTAAAAT
1 GTAAAAT
16225495 AATTGTTATA
Statistics
Matches: 249, Mismatches: 49, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
25 18 0.07
26 13 0.05
27 216 0.87
28 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCAAAATACCCCCATAGG
Found at i:16233717 original size:21 final size:22
Alignment explanation
Indices: 16233679--16233720 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16233669 TATATAATTC
*
16233679 ACATATACAATATTCAATTTAA
1 ACATATACAATATACAATTTAA
16233701 ACATATA-AATATACAATTTA
1 ACATATACAATATACAATTTA
16233721 GTTACACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (22 bp):
ACATATACAATATACAATTTAA
Found at i:16239098 original size:23 final size:23
Alignment explanation
Indices: 16239071--16239146 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
16239061 AATGTTATTG
16239071 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16239094 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16239117 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16239140 ATCAGTG
1 ATCAGTG
16239147 TGGTACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16248768 original size:16 final size:17
Alignment explanation
Indices: 16248728--16248769 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
16248718 AATCCAGTTC
16248728 GTGTTTTCAAAAAAGCCT
1 GTGTTTTCAAAAAA-CCT
* *
16248746 TTGTTTTCATAAAA-CT
1 GTGTTTTCAAAAAACCT
16248762 GTGTTTTC
1 GTGTTTTC
16248770 CATCATGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
GTGTTTTCAAAAAACCT
Found at i:16265839 original size:36 final size:33
Alignment explanation
Indices: 16265763--16265841 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 33
16265753 ATTTTGTTCC
* *
16265763 AAGTTTGTTGCAATAAATCTAATTTAAATTACA
1 AAGTTTGTTCCAATAAATCTAATATAAATTACA
16265796 ACA-TTTGTTCCAATAAATCTCAACTAAATAAA-TACA
1 A-AGTTTGTTCCAATAAATCT-AA-T--ATAAATTACA
16265832 AAGTTTGTTC
1 AAGTTTGTTC
16265842 AAACATATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
33 17 0.45
34 3 0.08
35 2 0.05
36 12 0.32
37 4 0.11
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (33 bp):
AAGTTTGTTCCAATAAATCTAATATAAATTACA
Found at i:16267664 original size:22 final size:23
Alignment explanation
Indices: 16267637--16267697 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
16267627 AGTTACTAAC
* *
16267637 AAAATAACTTTAAAATAA-ATTA
1 AAAATAACTTAAAAATAACAATA
*
16267659 AAAATAACATAAAAATAACAATA
1 AAAATAACTTAAAAATAACAATA
16267682 AAAA-AAC-TAAATAATA
1 AAAATAACTTAAA-AATA
16267698 CTAACAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.12
22 23 0.68
23 7 0.21
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAATAACTTAAAAATAACAATA
Found at i:16267678 original size:11 final size:11
Alignment explanation
Indices: 16267637--16267697 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
16267627 AGTTACTAAC
* *
16267637 AAAATAACTTT
1 AAAATAACATA
16267648 AAAATAA-ATTA
1 AAAATAACA-TA
16267659 AAAATAACATA
1 AAAATAACATA
16267670 AAAATAACAATA
1 AAAATAAC-ATA
16267682 AAAA-AAC-TA
1 AAAATAACATA
16267691 AATAATA
1 AA-AATA
16267698 CTAACAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
9 4 0.09
10 2 0.05
11 29 0.67
12 8 0.19
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAACATA
Found at i:16267707 original size:33 final size:33
Alignment explanation
Indices: 16267630--16267709 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 33
16267620 TTATAATAGT
** *
16267630 TACTAACAAAATAACTTTAAAATAAATTAAAAA
1 TACTAACAAAATAACAATAAAATAAACTAAAAA
16267663 TAAC-ATA-AAAATAACAATAAAA-AAACTAAATAA
1 T-ACTA-ACAAAATAACAATAAAATAAACTAAA-AA
16267696 TACTAACAAAATAA
1 TACTAACAAAATAA
16267710 TTTATAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
32 10 0.26
33 26 0.67
34 3 0.08
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (33 bp):
TACTAACAAAATAACAATAAAATAAACTAAAAA
Found at i:16271136 original size:97 final size:97
Alignment explanation
Indices: 16270970--16271165 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 97
16270960 TTTAGGGACT
16270970 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
1 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
16271035 AAAAATTGTAGATTGGAGAAGAGATCACTGGG
66 AAAAATTGTAGATTGGAGAAGAGATCACTGGG
16271067 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
1 GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
*
16271132 AAAAATTGTAGATTGGAGAAGAGATCACTTGG
66 AAAAATTGTAGATTGGAGAAGAGATCACTGGG
16271164 GT
1 GT
16271166 TTCTTGCTAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (97 bp):
GTCTCAAAGTTTGGCATGTTACTTTAAAATAACTAGGTTGCCCACCAGAACTGTCATATAGAGAG
AAAAATTGTAGATTGGAGAAGAGATCACTGGG
Found at i:16276196 original size:42 final size:43
Alignment explanation
Indices: 16276112--16276241 Score: 253
Period size: 43 Copynumber: 3.0 Consensus size: 43
16276102 AATGTTTTAG
16276112 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
1 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
16276155 AAAAAGACACTTATCCTTGTTGAA-TGATAAAATCTCAATTAT
1 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
16276197 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
1 AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
16276240 AA
1 AA
16276242 TCATAAATGT
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
42 42 0.49
43 44 0.51
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (43 bp):
AAAAAGACACTTATCCTTGTTGAATTGATAAAATCTCAATTAT
Found at i:16277035 original size:37 final size:38
Alignment explanation
Indices: 16276984--16277055 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
16276974 TTTTTCTCTC
**
16276984 CCATCAACTTTTTTTTTC-TTCTTCTTCTCATTCATTA
1 CCATCAACCCTTTTTTTCTTTCTTCTTCTCATTCATTA
*
16277021 CCATCAACCCTTTTTTTCTTTCTTTTTCTCATTCA
1 CCATCAACCCTTTTTTTCTTTCTTCTTCTCATTCA
16277056 CTACATATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (38 bp):
CCATCAACCCTTTTTTTCTTTCTTCTTCTCATTCATTA
Found at i:16285800 original size:10 final size:10
Alignment explanation
Indices: 16285751--16285798 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
16285741 TAAATTCCTA
16285751 AAAGATAAAT
1 AAAGATAAAT
** *
16285761 AAATTTAATT
1 AAAGATAAAT
*
16285771 GAAGATAAAT
1 AAAGATAAAT
16285781 AAAGATAAAT
1 AAAGATAAAT
16285791 AAA-ATAAA
1 AAAGATAAA
16285799 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:16292697 original size:10 final size:10
Alignment explanation
Indices: 16292648--16292695 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
16292638 TAAATTCCTA
16292648 AAAGATAAAT
1 AAAGATAAAT
** *
16292658 AAATTTAATT
1 AAAGATAAAT
*
16292668 GAAGATAAAT
1 AAAGATAAAT
16292678 AAAGATAAAT
1 AAAGATAAAT
16292688 AAA-ATAAA
1 AAAGATAAA
16292696 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:16298823 original size:13 final size:14
Alignment explanation
Indices: 16298800--16298828 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16298790 CTAATTTTAA
16298800 TATTATTAATATTT
1 TATTATTAATATTT
16298814 TATT-TTAATATTT
1 TATTATTAATATTT
16298827 TA
1 TA
16298829 AAAATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTAATATTT
Found at i:16301800 original size:24 final size:24
Alignment explanation
Indices: 16301763--16301818 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
16301753 TATACAGAAT
* * *
16301763 CAAATGTATTTTCATAACCAGATA
1 CAAATGCATATTCAGAACCAGATA
* **
16301787 CAGATGCATATTCAGATTCAGATA
1 CAAATGCATATTCAGAACCAGATA
16301811 CAAATGCA
1 CAAATGCA
16301819 GACACAGGTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
CAAATGCATATTCAGAACCAGATA
Found at i:16302375 original size:9 final size:9
Alignment explanation
Indices: 16302361--16302386 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16302351 TCAAAATATG
16302361 GGCCCAACT
1 GGCCCAACT
16302370 GGCCCAACT
1 GGCCCAACT
16302379 GGCCCAAC
1 GGCCCAAC
16302387 CCGTGTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (9 bp):
GGCCCAACT
Found at i:16307160 original size:21 final size:21
Alignment explanation
Indices: 16307134--16307177 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16307124 CATACATCTG
16307134 AAATATCATAAGCATACACAC
1 AAATATCATAAGCATACACAC
16307155 AAATATCATAAGCATACACAC
1 AAATATCATAAGCATACACAC
16307176 AA
1 AA
16307178 CTAGGGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.05, T:0.18
Consensus pattern (21 bp):
AAATATCATAAGCATACACAC
Found at i:16308231 original size:9 final size:9
Alignment explanation
Indices: 16308217--16308250 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
16308207 TATAGTTTGA
16308217 TATTCGAAT
1 TATTCGAAT
16308226 TATTCGAAT
1 TATTCGAAT
16308235 TATTCGAAT
1 TATTCGAAT
16308244 TATTCGA
1 TATTCGA
16308251 GTATTTCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16309159 original size:46 final size:46
Alignment explanation
Indices: 16309109--16309197 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
16309099 CATAGAATGA
16309109 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
1 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
*
16309155 GTTTGGCATAGAGAGAGACTCAAACCTAAGATTTAAGAGTTGA
1 GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGA
16309198 CTGACCTCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (46 bp):
GTTTGGCATAGAGAGAGACTCAAACCTAAGATCTAAGAGTTGAGAG
Found at i:16312912 original size:22 final size:25
Alignment explanation
Indices: 16312887--16312938 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
16312877 ATCAGAGTTG
*
16312887 ATGTAGACA-CTT-ATTTT-TTGAC
1 ATGTAGACATATTAATTTTGTTGAC
16312909 ATGT-GACATATTAATTTTGTTGAC
1 ATGTAGACATATTAATTTTGTTGAC
16312933 ATGTAG
1 ATGTAG
16312939 CAATTGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 6 0.24
23 5 0.20
24 9 0.36
25 1 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (25 bp):
ATGTAGACATATTAATTTTGTTGAC
Found at i:16313361 original size:21 final size:22
Alignment explanation
Indices: 16313335--16313375 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16313325 ACTATTTTTA
16313335 TTAAAAA-TTAATTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
16313356 TTAAAAATTTAATTTTAATC
1 TTAAAAATTTAATTTTAATC
16313376 TCACATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAAAATTTAATTTTAATCCC
Found at i:16313675 original size:69 final size:69
Alignment explanation
Indices: 16313516--16313685 Score: 188
Period size: 69 Copynumber: 2.5 Consensus size: 69
16313506 TATAAATATT
* *
16313516 TTTTCCCTATTTTCA-TAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCATATAGC
1 TTTTCACTAATTTCATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCATATAGC
*
16313580 TCAC
66 TCAA
* * * * * *
16313584 TTTTTACTATTTTTATTGAAAAAAATT-ATTTTAATCTCTCATTGACTAGAGAATACTC-TCATA
1 TTTTCACTAATTTCATT-AAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCAT-ATA
*
16313647 GTTCAA
64 GCTCAA
16313653 TTCTTCACTAATTTCATT--AAAAATTAATTTTAA
1 TT-TTCACTAATTTCATTAAAAAAATTAATTTTAA
16313686 CTAGAGAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
67 7 0.08
68 20 0.23
69 38 0.44
70 21 0.24
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (69 bp):
TTTTCACTAATTTCATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACTCATATAGC
TCAA
Found at i:16315522 original size:35 final size:35
Alignment explanation
Indices: 16315482--16315552 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
16315472 GTCAATCTAG
*
16315482 AGGTAAAGATAGATGCCGAGACAAATGGCGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
* *
16315517 AGGTAAAGACAGATGCCGAGGCAAATGGTGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
16315552 A
1 A
16315553 CCGACCTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.35, T:0.14
Consensus pattern (35 bp):
AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
Found at i:16316797 original size:29 final size:29
Alignment explanation
Indices: 16316741--16316797 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
16316731 TTGTCATGTC
**
16316741 AGCATAAAACACGTTGACGTGGGGAAATT
1 AGCATAAAACACGTTGACGTGGCAAAATT
**
16316770 AGCATAAAATGCGTTGACGTGGCAAAAT
1 AGCATAAAACACGTTGACGTGGCAAAAT
16316798 CGCTCCCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (29 bp):
AGCATAAAACACGTTGACGTGGCAAAATT
Found at i:16318768 original size:18 final size:18
Alignment explanation
Indices: 16318745--16318779 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16318735 GTCAGGTGCG
*
16318745 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
16318763 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
16318780 GTTTCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:16319236 original size:29 final size:29
Alignment explanation
Indices: 16319203--16319287 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 29
16319193 GTACAAACTT
16319203 ATTTATATTATTTTATTTAATAAAATAAA
1 ATTTATATTATTTTATTTAATAAAATAAA
* * * * *
16319232 ATTTACTTTTAATAT-TTTAATAGTAAATTAT
1 ATTTA-TATTATTTTATTTAATA--AAATAAA
*
16319263 TTTTATA-T-TTTTATTTAATAAAATA
1 ATTTATATTATTTTATTTAATAAAATA
16319288 GAAGTTCTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 20 0.48
30 7 0.17
31 9 0.21
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
ATTTATATTATTTTATTTAATAAAATAAA
Found at i:16322493 original size:125 final size:126
Alignment explanation
Indices: 16322150--16322672 Score: 832
Period size: 126 Copynumber: 4.2 Consensus size: 126
16322140 TAACGCCAAA
* * * *
16322150 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGTTGTCAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
** * * **
16322215 ATATTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAAGTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
16322276 CAGGAGCTACTGTAGAAAAAGAATGTCCACGTATGAGCTTTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* * * *
16322341 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
16322402 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGC-TTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
16322466 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
16322527 CAGGAACTACTGTAGAAAAAGAACGTCCATGTAGGAGTTTTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* *
16322592 ATCATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
16322653 CAGGAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
16322673 AAAATCCTTA
Statistics
Matches: 366, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
125 117 0.32
126 249 0.68
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:16322594 original size:251 final size:252
Alignment explanation
Indices: 16322150--16322672 Score: 850
Period size: 251 Copynumber: 2.1 Consensus size: 252
16322140 TAACGCCAAA
* * * *
16322150 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGTTGTCAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* * * **
16322215 ATATTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAAGTGTCTTCTCAAAATTATTTTTTCAGG
66 ATACTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
* * * *
16322280 AGCTACTGTAGAAAAAGAATGTCCACGTATGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
131 AACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCA
* **
16322345 TGCTTGAAGCATTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
196 TGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
16322402 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGC-TTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
*
16322466 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
66 ATACTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
* *
16322531 AACTACTGTAGAAAAAGAACGTCCATGTAGGAGTTTTTTTCATCAATTTTGCTGACAGTGCATCA
131 AACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCA
* *
16322596 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTT
196 TGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
16322653 CAGGAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
16322673 AAAATCCTTA
Statistics
Matches: 250, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
251 214 0.86
252 36 0.14
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (252 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACATAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATACTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGG
AACTACTGTAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCA
TGCTTGAAGCATTTTTGACACTATTTGTTCAAAACCATCTTCTCAAAATTATTTTTT
Found at i:16322771 original size:34 final size:33
Alignment explanation
Indices: 16322729--16322831 Score: 125
Period size: 34 Copynumber: 3.1 Consensus size: 33
16322719 CACAAAGTTA
*
16322729 TTTTAAAAACCCTAAACCCCAATTTAATTAATT
1 TTTTAAAAACCCTAAACCCTAATTTAATTAATT
* * * *
16322762 TTCTTAAAAACTCTACACCTTAATTTAATTTATT
1 TT-TTAAAAACCCTAAACCCTAATTTAATTAATT
* *
16322796 TATTTAAAACCCCTAAAACCTAATTTAATTAATT
1 T-TTTAAAAACCCTAAACCCTAATTTAATTAATT
16322830 TT
1 TT
16322832 AAAAAAACAC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 3 0.05
34 53 0.93
35 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (33 bp):
TTTTAAAAACCCTAAACCCTAATTTAATTAATT
Found at i:16325358 original size:13 final size:13
Alignment explanation
Indices: 16325337--16325374 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
16325327 TAAAAATGTG
*
16325337 AATTAATATATAT
1 AATTTATATATAT
16325350 AATTTATAT-TAT
1 AATTTATATATAT
*
16325362 AAATTATATATAT
1 AATTTATATATAT
16325375 TACTTTAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTATATATAT
Found at i:16335480 original size:14 final size:15
Alignment explanation
Indices: 16335461--16335493 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16335451 GGGGCAAAGC
*
16335461 TAAAAAT-CTTGAAT
1 TAAAAATGCTTAAAT
16335475 TAAAAATGCTTAAAT
1 TAAAAATGCTTAAAT
16335490 TAAA
1 TAAA
16335494 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (15 bp):
TAAAAATGCTTAAAT
Found at i:16336355 original size:195 final size:195
Alignment explanation
Indices: 16336023--16336387 Score: 635
Period size: 195 Copynumber: 1.9 Consensus size: 195
16336013 TAGAAAATAG
* *
16336023 AATTTAAATCCATTTTCGAACTTTAATTATTTAATTAAATAATAATTGAAAAAACTTAAATTAAT
1 AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTGAAAAAACTTAAATTAAT
16336088 TCTCAGGTCATTTCTATACTAAGTGAGAAACCACATTCATTTTCGAATGTAACCCATTCTCTAAC
66 TCTCAGGTCATTTCTATACTAAGTGAGAAACCACATTCATTTTCGAATGTAACCCATTCTCTAAC
*
16336153 TTTATCATTTTTATCCATTTTTGTTCATTTGATTCATTATTCAACAGATTTCATAATGACCAATT
131 TTTATCATTTCTATCCATTTTTGTTCATTTGATTCATTATTCAACAGATTTCATAATGACCAATT
* *
16336218 AATTTAATTCCATTTTCGAACTTCAATTATTAAATTAAATAATAATT-AAAAAATTTAAATTAAT
1 AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTGAAAAAACTTAAATTAAT
* *
16336282 TCTTAGGTCATTT-TCATAGTAAGTGAGAAACCACATTCATTTTCGAATGTAACCCATTTCTCTA
66 TCTCAGGTCATTTCT-ATACTAAGTGAGAAACCACATTCATTTTCGAATGTAACCCA-TTCTCTA
16336346 ACTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATTAT
129 ACTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATTAT
16336388 GCAATTCATT
Statistics
Matches: 161, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
193 1 0.01
194 68 0.42
195 92 0.57
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (195 bp):
AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTGAAAAAACTTAAATTAAT
TCTCAGGTCATTTCTATACTAAGTGAGAAACCACATTCATTTTCGAATGTAACCCATTCTCTAAC
TTTATCATTTCTATCCATTTTTGTTCATTTGATTCATTATTCAACAGATTTCATAATGACCAATT
Found at i:16340191 original size:91 final size:91
Alignment explanation
Indices: 16340036--16340529 Score: 656
Period size: 91 Copynumber: 5.4 Consensus size: 91
16340026 TAATGATTGA
* * * * * *
16340036 AGGATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATATGATGT-CATAGTATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATATGATTTCCATAATATCTT
*
16340100 TCAACCATGGTCTTTTTCATTTTCAAT
65 TCAACCATGGTCTTATTCATTTTCAAT
* * *
16340127 AGGATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATTTCCATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATTTCCATAATATCTTT
*
16340192 CAACCATGGTCTTATTCATTTTCGAT
66 CAACCATGGTCTTATTCATTTTCAAT
* * * * * *
16340218 AGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATATGATGT-CATAGTGTCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATATGATTTCCATAATATCTT
*
16340282 TCAACCATGGTTTTATTCATTTTCCAAT
65 TCAACCATGGTCTTATTCATTTT-CAAT
* *
16340310 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGA-TGCCATAATATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATATGATTTCCATAATATCTT
16340374 TCAA-CATGGTCTTATTCATTTTCCAAT
65 TCAACCATGGTCTTATTCATTTT-CAAT
* *
16340401 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGA-TGCCATAATATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATATGATTTCCATAATATCTT
*
16340465 TCAACCATGGTCTTATTCATTTTCGAT
65 TCAACCATGGTCTTATTCATTTTCAAT
* * * *
16340492 AGGCTGCCATAGTGTTTTTCAACTATGGTCTTACTCAT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAT
16340530 CTGAATCATG
Statistics
Matches: 363, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
90 14 0.04
91 261 0.72
92 88 0.24
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (91 bp):
AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGATTTCCATAATATCTTT
CAACCATGGTCTTATTCATTTTCAAT
Found at i:16340203 original size:46 final size:45
Alignment explanation
Indices: 16340038--16340569 Score: 647
Period size: 46 Copynumber: 11.7 Consensus size: 45
16340028 ATGATTGAAG
* * * *
16340038 GATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATAT
* * * * *
16340084 GATGTCATAGTATCTTTCAACCATGGTCTTTTTCATTTTCAATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* *
16340129 GATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * *
16340174 GATTTCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GA-TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * *
16340220 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATAT
* * *
16340266 GATGTCATAGTGTCTTTCAACCATGGTTTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
16340312 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
* * *
16340358 GATGCCATAATATCTTTCAA-CATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
16340403 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
* * *
16340449 GATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * * * *
16340494 GCTGCCATAGTGTTTTTCAACTATGGTCTTACTCA-TCT-GAATCAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-AT-AT
** * *
16340539 GATGCCATAACGTCTTTCAGCTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTA
16340570 CTCGTTTGAA
Statistics
Matches: 426, Mismatches: 54, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 186 0.44
46 235 0.55
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
Found at i:16340291 original size:137 final size:136
Alignment explanation
Indices: 16340038--16340569 Score: 683
Period size: 137 Copynumber: 3.9 Consensus size: 136
16340028 ATGATTGAAG
* * * * * * *
16340038 GATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTCGATATGATGTCATAGTATCTTTCA
1 GATGCCATAATGTCTTTCAACCATGGTCTTATTC-ATTTTCGATAGGATGCCATAGTATCTTTCA
* ** * * *
16340103 ACCATGGTCTTTTTCATTTTCAATAGGATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTT
65 ACTATGGTCTTACTCATTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT
*
16340168 -CGATAG
130 CCGATAT
* *
16340174 GATTTCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTGTCTTTCA
1 GA-TGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTATCTTTCA
* * *
16340239 ACTATGGTCTTACTCACTTTCCGATATGATGTCATAGTGTCTTTCAACCATGGTTTTATTCATTT
65 ACTATGGTCTTACTCA-TTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT
*
16340304 TCCAATAT
129 TCCGATAT
* * *
16340312 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTTCA
1 GATGCCATAATGTCTTTCAACCATGGTCTTATTCATTTT-CGATAGGATGCCATAGTATCTTTCA
*
16340377 AC-ATGGTCTTATTCATTTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT
65 ACTATGGTCTTACTCA-TTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTT
16340441 TCCGATAT
129 TCCGATAT
* * * *
16340449 GATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAGGCTGCCATAGTGTTTTTCAA
1 GATGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTATCTTTCAA
* * ** * *
16340514 CTATGGTCTTACTCATCT-GAATCATGATGCCATAACGTCTTTCAGCTATGGTCTTA
66 CTATGGTCTTACTCATTTCCAAT-ATGATGCCATAGTGTCTTTCAACCATGGTCTTA
16340570 CTCGTTTGAA
Statistics
Matches: 345, Mismatches: 45, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
135 3 0.01
136 95 0.28
137 217 0.63
138 30 0.09
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (136 bp):
GATGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGATGCCATAGTATCTTTCAA
CTATGGTCTTACTCATTTCCAATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTC
CGATAT
Found at i:16345700 original size:68 final size:69
Alignment explanation
Indices: 16345570--16345704 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
16345560 TGATTAAACT
* * * *
16345570 TAATCACTATAATATTAAATTAGTAGAATATTTATAAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
16345635 AAGA
66 AAGA
* * * *
16345639 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
16345703 AA
66 AA
16345705 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 31 0.53
69 27 0.47
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (69 bp):
TAATCACTATAATATTAAATTAATAAAATATCTATAAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:16349393 original size:28 final size:30
Alignment explanation
Indices: 16349345--16349411 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 30
16349335 ATTTACCCCA
* *
16349345 TGTTTATTGTCCCGACGGAC-TCT-ATCTG
1 TGTTTACTGTCCCGACAGACATCTGATCTG
*
16349373 TGTTTACTGTCCC-AGCAGACTATCTGTTCTG
1 TGTTTACTGTCCCGA-CAGAC-ATCTGATCTG
16349404 TGTTTACT
1 TGTTTACT
16349412 ATACCTACGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 16 0.50
30 3 0.09
31 12 0.38
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (30 bp):
TGTTTACTGTCCCGACAGACATCTGATCTG
Found at i:16354107 original size:27 final size:28
Alignment explanation
Indices: 16354073--16354137 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
16354063 ATAAAAAATA
16354073 ACCAAAATATTAT-AACTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
16354100 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
16354128 ACCAAAATAT
1 ACCAAAATAT
16354138 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 13 0.36
28 23 0.64
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAACTTTTTTTATTT
Found at i:16365066 original size:21 final size:21
Alignment explanation
Indices: 16365031--16365098 Score: 86
Period size: 22 Copynumber: 3.3 Consensus size: 21
16365021 CAAAAGTGAA
16365031 AATCATGTG--ATTAGCAATC
1 AATCATGTGACATTAGCAATC
16365050 AATCATGTGACATTAGCAATC
1 AATCATGTGACATTAGCAATC
* * *
16365071 AAACATTGTTACATCAGCAATC
1 AATCA-TGTGACATTAGCAATC
16365093 AATCAT
1 AATCAT
16365099 TATTGAAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.21
21 15 0.36
22 18 0.43
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (21 bp):
AATCATGTGACATTAGCAATC
Found at i:16370055 original size:40 final size:41
Alignment explanation
Indices: 16369964--16370073 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 41
16369954 ATTAATGATT
* * * * * **
16369964 AATTGCACATATGTACCCTTGTTTCTACATCGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
*
16370005 AATCGCACATACGTGCCCCTGTTTGTACTTCAATA-CCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
* *
16370045 AATTGCACATACATGCCCCTGATTGTACT
1 AATTGCACATACGTGCCCCTGTTTGTACT
16370074 ACGGTACCCT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 31 0.53
41 27 0.47
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTG
Found at i:16370082 original size:40 final size:40
Alignment explanation
Indices: 16369994--16370083 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
16369984 GTTTCTACAT
* * *
16369994 CGGTACCCCTGAATCGCACATACGTGCCCCTGTTTGTACTT
1 CGGTA-CCCTGAATCGCACATACATGCCCCTGATTGTACTA
** *
16370035 CAATACCCTGAATTGCACATACATGCCCCTGATTGTACTA
1 CGGTACCCTGAATCGCACATACATGCCCCTGATTGTACTA
16370075 CGGTACCCT
1 CGGTACCCT
16370084 TGGATATACT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 38 0.93
41 3 0.07
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (40 bp):
CGGTACCCTGAATCGCACATACATGCCCCTGATTGTACTA
Found at i:16378603 original size:6 final size:6
Alignment explanation
Indices: 16378592--16378633 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
16378582 ATATATATGC
16378592 ATGTAA ATGTAA ATGTAA ATGTAA ATGTAA ATGTAA ATGTAA
1 ATGTAA ATGTAA ATGTAA ATGTAA ATGTAA ATGTAA ATGTAA
16378634 TGACTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATGTAA
Found at i:16380217 original size:17 final size:18
Alignment explanation
Indices: 16380182--16380224 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
16380172 GGGTCTGATT
16380182 ATTATATAATAAAATATAA
1 ATTATA-AATAAAATATAA
*
16380201 ATTATAAATATAA-ATAA
1 ATTATAAATAAAATATAA
16380218 ATTATAA
1 ATTATAA
16380225 TAATCGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 6 0.26
19 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATAAATAAAATATAA
Found at i:16383080 original size:19 final size:18
Alignment explanation
Indices: 16383058--16383095 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
16383048 AAAATTACAA
16383058 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAA-ATTTAT
*
16383077 AAAAATTCCAAAATTTAT
1 AAAAATTCAAAAATTTAT
16383095 A
1 A
16383096 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTCAAAAATTTAT
Found at i:16383567 original size:18 final size:18
Alignment explanation
Indices: 16383546--16383580 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16383536 TAAATCGTCT
16383546 GTTCTTTTTCTTTTTTTG
1 GTTCTTTTTCTTTTTTTG
16383564 GTTCTTTTTCTTTTTTT
1 GTTCTTTTTCTTTTTTT
16383581 CTTTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (18 bp):
GTTCTTTTTCTTTTTTTG
Found at i:16389396 original size:147 final size:142
Alignment explanation
Indices: 16389100--16389404 Score: 326
Period size: 146 Copynumber: 2.1 Consensus size: 142
16389090 ATTACTTAAC
** * * * * *
16389100 CTTAATTATATAATGCTAATTGTATAAATTAAAATTTAGCATAAAGTTAGCACGTTTAGAGTTTA
1 CTTAATTATATAATGCTAACAGTATAAATTAAAATCTACCATAAAGCTAGCACGTTTAAAATTTA
* * * ***
16389165 GGCTTCAATATCATTAATATAAAAATGAACATTATAATATAATAATTTATATAGTGTTACATATC
66 AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
*
16389230 ACTAATAATATA
131 ACTAATAATAGA
** *
16389242 CTCTAATTATATAATGCTAACAGTATATGTTATAATCTACCATAAAGCTAGTTACACGTTTAAAA
1 CT-TAATTATATAATGCTAACAGTATAAATTAAAATCTACCATAAAGCTAG---CACGTTTAAAA
* *
16389307 TTTAAGC-TCACATATCATTAATATAAAAAAGTACAATATAATA-ACATAGTTGTATATAAAATT
62 TTTAAGCTTCA-ATATCATTAATATAAAAAAGAACAATATAATATA-ATAATT-TATATAAAATT
* * *
16389370 GCATATCATTCATAATAGA
124 ACATATCACTAATAATAGA
16389389 TCTTAATTATATAATG
1 -CTTAATTATATAATG
16389405 ATAATTATAT
Statistics
Matches: 133, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
142 2 0.02
143 40 0.30
145 4 0.03
146 49 0.37
147 36 0.27
148 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (142 bp):
CTTAATTATATAATGCTAACAGTATAAATTAAAATCTACCATAAAGCTAGCACGTTTAAAATTTA
AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
ACTAATAATAGA
Found at i:16389411 original size:14 final size:15
Alignment explanation
Indices: 16389392--16389425 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16389382 TAATAGATCT
16389392 TAATTATATA-ATGA
1 TAATTATATATATGA
*
16389406 TAATTATATATATTA
1 TAATTATATATATGA
16389421 TAATT
1 TAATT
16389426 TATCATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAATTATATATATGA
Found at i:16389416 original size:147 final size:142
Alignment explanation
Indices: 16389100--16389424 Score: 341
Period size: 147 Copynumber: 2.2 Consensus size: 142
16389090 ATTACTTAAC
* * * * * * * *
16389100 CTTAATTATATAATGCTAATTGTATAAATTAAAATTTAGCATAAAGTTAGCACGTTTAGAGTTTA
1 CTTAATTATATAATGCTAATTATATATATTATAATCTACCATAAAGCTAGCACGTTTAAAATTTA
* * * ***
16389165 GGCTTCAATATCATTAATATAAAAATGAACATTATAATATAATAATTTATATAGTGTTACATATC
66 AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
*
16389230 ACTAATAATATA
131 ACTAATAATAGA
* *
16389242 CTCTAATTATATAATGCTAA-CAGTATATGTTATAATCTACCATAAAGCTAGTTACACGTTTAAA
1 CT-TAATTATATAATGCTAATTA-TATATATTATAATCTACCATAAAGCTAG---CACGTTTAAA
* *
16389306 ATTTAAGC-TCACATATCATTAATATAAAAAAGTACAATATAATA-ACATAGTTGTATATAAAAT
61 ATTTAAGCTTCA-ATATCATTAATATAAAAAAGAACAATATAATATA-ATAATT-TATATAAAAT
* * *
16389369 TGCATATCATTCATAATAGA
123 TACATATCACTAATAATAGA
*
16389389 TCTTAATTATATAATGATAATTATATATATTATAAT
1 -CTTAATTATATAATGCTAATTATATATATTATAAT
16389425 TTATCATAGA
Statistics
Matches: 148, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
142 2 0.01
143 39 0.26
145 4 0.03
146 49 0.33
147 51 0.34
148 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (142 bp):
CTTAATTATATAATGCTAATTATATATATTATAATCTACCATAAAGCTAGCACGTTTAAAATTTA
AGCTTCAATATCATTAATATAAAAAAGAACAATATAATATAATAATTTATATAAAATTACATATC
ACTAATAATAGA
Found at i:16389676 original size:19 final size:19
Alignment explanation
Indices: 16389652--16389695 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16389642 AATATTTATT
16389652 TTAATTATATA-AATATTAA
1 TTAATTATATATAAT-TTAA
* *
16389671 TTAATTTTTTATAATTTAA
1 TTAATTATATATAATTTAA
16389690 TTAATT
1 TTAATT
16389696 GAGTTGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATTATATATAATTTAA
Found at i:16390892 original size:5 final size:5
Alignment explanation
Indices: 16390882--16390912 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
16390872 AAAAATAAGC
*
16390882 AAATA AAATA AAATA AAATA AAATA GAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
16390913 TAATTAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:16392379 original size:31 final size:31
Alignment explanation
Indices: 16392312--16392381 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
16392302 CTTAACAGTC
16392312 TAATGACTTAAATAACAACTTTTGAATAACT
1 TAATGACTTAAATAACAACTTTTGAATAACT
* * * * *
16392343 CAATGACTTAAGTGAA-AGCTTTTGAATGATT
1 TAATGACTTAAAT-AACAACTTTTGAATAACT
16392374 TAATGACT
1 TAATGACT
16392382 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (31 bp):
TAATGACTTAAATAACAACTTTTGAATAACT
Found at i:16404951 original size:3 final size:3
Alignment explanation
Indices: 16404943--16404985 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
16404933 ATTAATTACT
16404943 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
16404986 CTAGTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16406067 original size:109 final size:109
Alignment explanation
Indices: 16405797--16406214 Score: 423
Period size: 109 Copynumber: 3.8 Consensus size: 109
16405787 AAATTGAGGT
** * *
16405797 AATATTTAGTATTTGGAAA-TTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTTTCCCT
1 AATATTTAGCGTTTGGAAATTTGAA-AAAACATGCCCTAAGGTGCTGGGTGTCG-ATTTTT--CT
* *
16405861 CGTTCAACCCAAATGGCTTAATATCTTTTTTAAAAAATTT-TAAAATAAGGC
62 CGTTCAA-CCAAATGGCTAAATATC--CTTTAAAAAATTTCT-AAATAAGGC
* * * * * *
16405912 AATGTTTTGCGTTTGAAAATTTGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTTGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * * *
16405977 CAACCAAATAGCTAAATATCCTTTCAAAAATTTCTAATTGAGGT
66 CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
*
16406021 AATATTTAGCCTTTGGAAATTTGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTTGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * *
16406086 CAACCAAATGGCTTAATATCATTCTTAAAAATTTCAAAATAAGGC
66 CAACCAAATGGCTAAATATCCTT-TAAAAAATTTCTAAATAAGGC
* * * * ** * *
16406131 AATGTTTTGCGTCTGGAAATTCG-AGGAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGTT
1 AATATTTAGCGTTTGGAAATTTGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * *
16406193 TAACCAAATTGCCAAATATCCT
66 CAACCAAATGGCTAAATATCCT
16406215 ATTGAAATTA
Statistics
Matches: 254, Mismatches: 46, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
107 26 0.10
109 121 0.48
110 35 0.14
111 15 0.06
112 9 0.04
114 5 0.02
115 40 0.16
116 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATATTTAGCGTTTGGAAATTTGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
Found at i:16406210 original size:224 final size:222
Alignment explanation
Indices: 16405788--16406214 Score: 616
Period size: 224 Copynumber: 1.9 Consensus size: 222
16405778 TTTTTTTTTA
* *
16405788 AATTGAGGTAATATTTAGTATTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTT
1 AATTGAGGTAATATTTAGCATTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGTAT
* * *
16405853 TTTTCCCTCGTTCAACCCAAATGGCTTAATATCTTTTTTAAAAAATTTTAAAATAAGGCAATGTT
66 TTTT-CCTCGTTCAACCCAAATGGCTTAATATCATTCTTAAAAAATTTCAAAATAAGGCAATGTT
* *
16405918 TTGCGTTTGAAAATTTGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTTCTCGTTCAACCA
130 TTGCGTCTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGA-TTTTCTCGTTCAACCA
16405983 AATAGCTAAATATCCTTTCAAAAATTTCT
194 AATAGCTAAATATCCTTTCAAAAATTTCT
* *
16406012 AATTGAGGTAATATTTAGCCTTTGGAAATTTGAA-AAAACATGCCCTAAGGTGCTGGGTGTCG-A
1 AATTGAGGTAATATTTAGCATTTGGAAA-TTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGTA
16406075 TTTTT-CTCGTTCAA-CCAAATGGCTTAATATCATTCTT-AAAAATTTCAAAATAAGGCAATGTT
65 TTTTTCCTCGTTCAACCCAAATGGCTTAATATCATTCTTAAAAAATTTCAAAATAAGGCAATGTT
* * * * * * *
16406137 TTGCGTCTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA-TTTCTCGTTTAACCAA
130 TTGCGTCTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTCTCGTTCAACCAA
* *
16406200 ATTGCCAAATATCCT
195 ATAGCTAAATATCCT
16406215 ATTGAAATTA
Statistics
Matches: 184, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
216 28 0.15
218 23 0.12
219 40 0.22
220 21 0.11
221 9 0.05
223 5 0.03
224 54 0.29
225 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (222 bp):
AATTGAGGTAATATTTAGCATTTGGAAATTCAAGAAAACATGCCCTAAGGTGCTGGGTGTCGTAT
TTTTCCTCGTTCAACCCAAATGGCTTAATATCATTCTTAAAAAATTTCAAAATAAGGCAATGTTT
TGCGTCTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTCTCGTTCAACCAAA
TAGCTAAATATCCTTTCAAAAATTTCT
Found at i:16413561 original size:109 final size:109
Alignment explanation
Indices: 16413370--16413587 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
16413360 TGTTGAGGAT
16413370 GTTAGAGTAGGAAAAGAAACAGATTCTACCTCACGAGGAGATGATAGAGACAGTGATCCTGGAAG
1 GTTAGAGTAGGAAAAGAAACAGATTCTACCTCACGAGGAGATGATAGAGACAGTGATCCTGGAAG
16413435 AGGGAAAGGTGGTAAAGATCGGCACGTGTATAGCTGAAGAAGTA
66 AGGGAAAGGTGGTAAAGATCGGCACGTGTATAGCTGAAGAAGTA
16413479 GTTAGAGTAGGAAAAGAAACAGATTCTACCTCACGAGGAGATGATAGAGACAGTGATCCTGGAAG
1 GTTAGAGTAGGAAAAGAAACAGATTCTACCTCACGAGGAGATGATAGAGACAGTGATCCTGGAAG
*
16413544 AGGGAAATGTGGTAAAGATCGGCACGTGTATAGCTGAAGAAGTA
66 AGGGAAAGGTGGTAAAGATCGGCACGTGTATAGCTGAAGAAGTA
16413588 AAACAAGACC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.19
Consensus pattern (109 bp):
GTTAGAGTAGGAAAAGAAACAGATTCTACCTCACGAGGAGATGATAGAGACAGTGATCCTGGAAG
AGGGAAAGGTGGTAAAGATCGGCACGTGTATAGCTGAAGAAGTA
Found at i:16418331 original size:25 final size:25
Alignment explanation
Indices: 16418285--16418334 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16418275 AGTTAAAAAA
* * *
16418285 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
16418310 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
16418335 ACGCCTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:16418480 original size:125 final size:125
Alignment explanation
Indices: 16418159--16418779 Score: 1091
Period size: 125 Copynumber: 5.0 Consensus size: 125
16418149 CAATTCAAAT
* *
16418159 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGTGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
16418224 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACATTGCAGTTAAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTT-AAAAA
* *
16418285 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCTCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
16418350 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
16418410 GATTAAAGCCACATCGGTGAATCTTGACTAAAGCTACAACAGTGAATCTTACGCCCCGAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
16418475 TAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAC
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
16418535 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
16418600 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
16418660 GATTAAAGCCACATTGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
16418725 CAGTGGAACAGATTAGAA-CCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTT
66 CAGTGGAATAGATTA-AAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTT
16418780 TCGATTCGTT
Statistics
Matches: 471, Mismatches: 23, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
125 354 0.75
126 117 0.25
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:16420696 original size:109 final size:109
Alignment explanation
Indices: 16420426--16420843 Score: 466
Period size: 109 Copynumber: 3.8 Consensus size: 109
16420416 AAATTGAGGT
** ** *
16420426 AATATTTAGTATTTGGAAATTCGAGAAAACATGCTTTAAGGTGCTGGGTGTCGTTTTTTTCCCTC
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCG-ATTTTT--CTC
*
16420491 GTTCAACCCAAATGGCTTAATATCCTTTTTAAAAAATTT-TAAAATAAGGC
63 GTTCAA-CCAAATGGCTAAATATCC--TTTAAAAAATTTCT-AAATAAGGC
* * * * *
16420541 AATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * * *
16420606 CAACCAAATAGCTAAATATCCTTTCAAAAATTTCTAATTGAGGT
66 CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
*
16420650 AATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * * *
16420715 CAACCAAATGGCTTAATATCATTCTTAAAAATTTCAAAATAAGGC
66 CAACCAAATGGCTAAATATCCTT-TAAAAAATTTCTAAATAAGGC
* * * * * *
16420760 AATGTTTTGCGTCTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGTT
1 AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
* * *
16420822 TAACCAAATTGCCAAATATCCT
66 CAACCAAATGGCTAAATATCCT
16420844 ATTGAAATTA
Statistics
Matches: 259, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
107 26 0.10
109 121 0.47
110 38 0.15
111 16 0.06
112 9 0.03
114 5 0.02
115 44 0.17
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
CAACCAAATGGCTAAATATCCTTTAAAAAATTTCTAAATAAGGC
Found at i:16420839 original size:224 final size:222
Alignment explanation
Indices: 16420417--16420843 Score: 632
Period size: 224 Copynumber: 1.9 Consensus size: 222
16420407 TTTTTTTTTA
* ** *
16420417 AATTGAGGTAATATTTAGTATTTGGAAATTCGAGAAAACATGCTTTAAGGTGCTGGGTGTCGTTT
1 AATTGAGGTAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTAT
* * *
16420482 TTTTCCCTCGTTCAACCCAAATGGCTTAATATCCTTTTTAAAAAATTTTAAAATAAGGCAATGTT
66 TTTT-CCTCGTTCAACCCAAATGGCTTAATATCATTCTTAAAAAATTTCAAAATAAGGCAATGTT
*
16420547 TTGCGTTTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTTCTCGTTCAACCA
130 TTGCGTCTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGA-TTTTCTCGTTCAACCA
16420612 AATAGCTAAATATCCTTTCAAAAATTTCT
194 AATAGCTAAATATCCTTTCAAAAATTTCT
*
16420641 AATTGAGGTAATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCG-AT
1 AATTGAGGTAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTAT
16420705 TTTT-CTCGTTCAA-CCAAATGGCTTAATATCATTCTT-AAAAATTTCAAAATAAGGCAATGTTT
66 TTTTCCTCGTTCAACCCAAATGGCTTAATATCATTCTTAAAAAATTTCAAAATAAGGCAATGTTT
* * * * * * *
16420767 TGCGTCTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA-TTTCTCGTTTAACCAAA
131 TGCGTCTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTCTCGTTCAACCAAA
* *
16420830 TTGCCAAATATCCT
196 TAGCTAAATATCCT
16420844 ATTGAAATTA
Statistics
Matches: 185, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
216 28 0.15
218 23 0.12
219 41 0.22
220 21 0.11
221 9 0.05
223 5 0.03
224 58 0.31
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (222 bp):
AATTGAGGTAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTAT
TTTTCCTCGTTCAACCCAAATGGCTTAATATCATTCTTAAAAAATTTCAAAATAAGGCAATGTTT
TGCGTCTGAAAATTCGAGAAAACATGCCCCAAGGAGCTGGGTGTCGATTTTCTCGTTCAACCAAA
TAGCTAAATATCCTTTCAAAAATTTCT
Found at i:16421718 original size:56 final size:55
Alignment explanation
Indices: 16421653--16421784 Score: 183
Period size: 55 Copynumber: 2.4 Consensus size: 55
16421643 TCACGTGCTG
* *
16421653 GGACACTGATGGCCGGCATCCTTGTACCAGATTTGAGAAAAAAAATTTTGGTACTA
1 GGACACTGATGGCCGGCACCCTTGTACCAGATTTGA-AAAAAAAATTTGGGTACTA
* * * *
16421709 GGACACTGATGGTCGACACCCTTGTACCAGATTTGAAAAAAAAATTTGGGTGCTG
1 GGACACTGATGGCCGGCACCCTTGTACCAGATTTGAAAAAAAAATTTGGGTACTA
* *
16421764 GGATACTGATGGCTGGCACCC
1 GGACACTGATGGCCGGCACCC
16421785 ACTTAGTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
55 33 0.50
56 33 0.50
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (55 bp):
GGACACTGATGGCCGGCACCCTTGTACCAGATTTGAAAAAAAAATTTGGGTACTA
Found at i:16421784 original size:55 final size:56
Alignment explanation
Indices: 16421647--16421784 Score: 190
Period size: 56 Copynumber: 2.5 Consensus size: 56
16421637 TTTTTTTCAC
* * *
16421647 GTGCTGGGACACTGATGGCCGGCATCCTTGTACCAGATTTGAGAAAAAAAATTTTG
1 GTGCTGGGACACTGATGGCTGGCACCCTTGTACCAGATTTGAGAAAAAAAATTTGG
* * *
16421703 GTACTAGGACACTGATGG-TCGACACCCTTGTACCAGATTTGA-AAAAAAAATTTGG
1 GTGCTGGGACACTGATGGCT-GGCACCCTTGTACCAGATTTGAGAAAAAAAATTTGG
*
16421758 GTGCTGGGATACTGATGGCTGGCACCC
1 GTGCTGGGACACTGATGGCTGGCACCC
16421785 ACTTAGTTGG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
55 33 0.47
56 37 0.53
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (56 bp):
GTGCTGGGACACTGATGGCTGGCACCCTTGTACCAGATTTGAGAAAAAAAATTTGG
Found at i:16422368 original size:20 final size:21
Alignment explanation
Indices: 16422332--16422377 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
16422322 TTTGTTGGTC
*
16422332 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTAAAT
16422353 AAATTTTATA-TTTCGTAAAT
1 AAATTTTATATTTTCGTAAAT
16422373 AAATT
1 AAATT
16422378 ATTCTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
AAATTTTATATTTTCGTAAAT
Found at i:16422380 original size:109 final size:110
Alignment explanation
Indices: 16422244--16422489 Score: 413
Period size: 109 Copynumber: 2.2 Consensus size: 110
16422234 TTGTTGGTTG
* * * *
16422244 AATTTTATATTTTTGTAAATAAGTTATTCTAAAATGTTTGTATTATTTTGGGGTGTTGTAAAAAT
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
*
16422309 ATTTTAATTCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
66 ATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
16422354 AATTTTATA-TTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
*
16422418 ATTTTAATCCATATTTGTTGGTCGAATTTTATATTTTCGTATATA
66 ATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
* *
16422463 AATTTTATATTTTCGTATATACATTAT
1 AATTTTATATTTTCGTAAATAAATTAT
16422490 ATTTTTTTCG
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
109 103 0.81
110 24 0.19
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (110 bp):
AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
ATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATATA
Found at i:16422468 original size:21 final size:21
Alignment explanation
Indices: 16422442--16422501 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
16422432 TTGTTGGTCG
16422442 AATTTTATATTTTCGTATATA
1 AATTTTATATTTTCGTATATA
16422463 AATTTTATATTTTCGTATATA
1 AATTTTATATTTTCGTATATA
* * *
16422484 CATTATATTTTTTTCGTA
1 AATTTTA-TATTTTCGTA
16422502 AATTAGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 26 0.74
22 9 0.26
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (21 bp):
AATTTTATATTTTCGTATATA
Found at i:16422569 original size:18 final size:17
Alignment explanation
Indices: 16422542--16422575 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16422532 TTTATTATTA
*
16422542 TTTGAGTTATATTATTTG
1 TTTGAATTATA-TATTTG
16422560 TTTGAATTATATATTT
1 TTTGAATTATATATTT
16422576 TTGACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTGAATTATATATTTG
Found at i:16423326 original size:30 final size:27
Alignment explanation
Indices: 16423263--16423327 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
16423253 TTCTTGATTT
*
16423263 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
16423290 ATATTATAAATTATATTAATTAAAGTTAAG
1 ATATTATAAA-AATATT-ATTAAA-TTAAA
16423320 ATATTATA
1 ATATTATA
16423328 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 5 0.16
30 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:16424833 original size:23 final size:23
Alignment explanation
Indices: 16424806--16424851 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
16424796 GCTTTGTCGA
16424806 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
16424829 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
16424852 AGGCACCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATC
Found at i:16424855 original size:21 final size:21
Alignment explanation
Indices: 16424800--16424857 Score: 91
Period size: 23 Copynumber: 2.7 Consensus size: 21
16424790 TTATCGGCTT
16424800 TGTCG-ATCAGGCACTTTATG
1 TGTCGTATCAGGCACTTTATG
16424820 TGTCGTATCTCAGGCACTTTATG
1 TGTCGTA--TCAGGCACTTTATG
16424843 TGTCGTATCAGGCAC
1 TGTCGTATCAGGCAC
16424858 CCCGTGTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.14
21 9 0.26
23 21 0.60
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (21 bp):
TGTCGTATCAGGCACTTTATG
Found at i:16426281 original size:8 final size:8
Alignment explanation
Indices: 16426229--16426283 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
16426219 TTTTTTGAAG
16426229 TATATTAT
1 TATATTAT
*
16426237 TATTTTAT
1 TATATTAT
*
16426245 TATATT-G
1 TATATTAT
*
16426252 TAAATTATAT
1 TATA-T-TAT
16426262 TATATTAT
1 TATATTAT
16426270 TATATTAT
1 TATATTAT
16426278 TATATT
1 TATATT
16426284 TTAAATAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 3 0.08
8 30 0.79
9 2 0.05
10 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATATTAT
Done.