Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 65 of 228
Found at i:19467776 original size:15 final size:15
Alignment explanation
Indices: 19467744--19467778 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19467734 GTATTATATA
**
19467744 ATAATGATAATAGTT
1 ATAATGATAATAAAT
19467759 ATAATGATAATAAAT
1 ATAATGATAATAAAT
19467774 ATAAT
1 ATAAT
19467779 AATAGAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (15 bp):
ATAATGATAATAAAT
Found at i:19470398 original size:9 final size:10
Alignment explanation
Indices: 19470332--19470404 Score: 62
Period size: 10 Copynumber: 7.3 Consensus size: 10
19470322 CCAATTCAAG
*
19470332 TTTTTATGAT
1 TTTTTATAAT
19470342 TTTTT-TAA-
1 TTTTTATAAT
*
19470350 TTTTTATAAG
1 TTTTTATAAT
*
19470360 TTTATATCAA-
1 TTTTTAT-AAT
*
19470370 TTTTAATAAT
1 TTTTTATAAT
19470380 TTTTTATATAT
1 TTTTTATA-AT
19470391 TTTTTATAAAT
1 TTTTTAT-AAT
19470402 TTT
1 TTT
19470405 AAAAAAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
8 5 0.10
9 7 0.13
10 23 0.44
11 16 0.31
12 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:19470478 original size:9 final size:8
Alignment explanation
Indices: 19470461--19470529 Score: 50
Period size: 8 Copynumber: 8.0 Consensus size: 8
19470451 AATTATTTAA
19470461 ATAAGTTTT
1 ATAA-TTTT
19470470 ATTAATTTT
1 A-TAATTTT
*
19470479 ATATTTTT
1 ATAATTTT
19470487 ATAATTTACT
1 ATAATTT--T
*
19470497 AGAATTTTT
1 ATAA-TTTT
*
19470506 ATATTTTT
1 ATAATTTT
19470514 ATAATATTT
1 ATAAT-TTT
19470523 AT-ATTTT
1 ATAATTTT
19470530 TTTATATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 3 0.06
8 22 0.45
9 14 0.29
10 7 0.14
11 3 0.06
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (8 bp):
ATAATTTT
Found at i:19470488 original size:8 final size:8
Alignment explanation
Indices: 19470475--19470540 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
19470465 GTTTTATTAA
19470475 TTTTATAT
1 TTTTATAT
19470483 TTTTATAAT
1 TTTTAT-AT
* *
19470492 TTACTAGAAT
1 TT-TTA-TAT
19470502 TTTTATAT
1 TTTTATAT
19470510 TTTTATAAT
1 TTTTAT-AT
*
19470519 ATTTATATTT
1 -TTT-TATAT
19470529 TTTTATAT
1 TTTTATAT
19470537 TTTT
1 TTTT
19470541 TAAAATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
8 22 0.48
9 11 0.24
10 10 0.22
11 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTTATAT
Found at i:19470493 original size:45 final size:44
Alignment explanation
Indices: 19470444--19470579 Score: 120
Period size: 46 Copynumber: 3.0 Consensus size: 44
19470434 CTTTTTTAAA
19470444 AATTTTAAATTATTTAAATAAGTTTTATTAATTTTATATTTTTAT
1 AATTTTAAATTATTT-AATAAGTTTTATTAATTTTATATTTTTAT
*
19470489 AATTTACTAGAATT-TTT-AT-ATTTTTA-TAATATTTATATTTTTTTAT
1 AATTT--TA-AATTATTTAATAAGTTTTATTAAT-TTTATA--TTTTTAT
* *
19470535 ATTTTTTAAAATA-TTAATAAGTTTATATTAATTTTAATATTTTTA
1 A-ATTTTAAATTATTTAATAAGTTT-TATTAATTTT-ATATTTTTA
19470580 ATATTAAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 25
0.72 0.04 0.24
Matches are distributed among these distances:
43 4 0.05
44 17 0.23
45 11 0.15
46 18 0.24
47 13 0.18
48 11 0.15
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (44 bp):
AATTTTAAATTATTTAATAAGTTTTATTAATTTTATATTTTTAT
Found at i:19470522 original size:19 final size:20
Alignment explanation
Indices: 19470479--19470535 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
19470469 TATTAATTTT
*
19470479 ATATTTTTATA-ATTTACTAG
1 ATATTTTTATATTTTTA-TAG
19470499 A-ATTTTTATATTTTTATA-
1 ATATTTTTATATTTTTATAG
* *
19470517 ATATTTATATTTTTTTATA
1 ATATTTTTATATTTTTATA
19470536 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.03
19 26 0.81
20 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATATTTTTATATTTTTATAG
Found at i:19470531 original size:27 final size:29
Alignment explanation
Indices: 19470475--19470549 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
19470465 GTTTTATTAA
19470475 TTTTATATTTTTAT-A-ATTTACTAGAAT
1 TTTTATATTTTTATAATATTTACTAGAAT
**
19470502 TTTTATATTTTTATAATATTTA-TA-TTT
1 TTTTATATTTTTATAATATTTACTAGAAT
*
19470529 TTTTATATTTTTTAAAATATT
1 TTTTATA-TTTTTATAATATT
19470550 AATAAGTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 22 0.52
28 15 0.36
29 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTTATATTTTTATAATATTTACTAGAAT
Found at i:19470539 original size:9 final size:9
Alignment explanation
Indices: 19470501--19470542 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
19470491 TTTACTAGAA
19470501 TTTTTATA-
1 TTTTTATAT
*
19470509 TTTTTATAA
1 TTTTTATAT
*
19470518 TATTTATATT
1 TTTTTATA-T
19470528 TTTTTATAT
1 TTTTTATAT
19470537 TTTTTA
1 TTTTTA
19470543 AAATATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 8 0.28
9 14 0.48
10 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:19470542 original size:19 final size:17
Alignment explanation
Indices: 19470461--19470540 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
19470451 AATTATTTAA
* *
19470461 ATAAGTTTTATTAATTTT
1 ATAATTTTTA-TATTTTT
*
19470479 AT-ATTTTTATAATTTACT
1 ATAATTTTTAT-ATTT-TT
*
19470497 AGAATTTTTATATTTTT
1 ATAATTTTTATATTTTT
*
19470514 ATAATATTTATATTTTT
1 ATAATTTTTATATTTTT
*
19470531 TTATATTTTT
1 ATA-ATTTTT
19470541 TAAAATATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.02
17 27 0.55
18 13 0.27
19 8 0.16
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (17 bp):
ATAATTTTTATATTTTT
Found at i:19470612 original size:28 final size:29
Alignment explanation
Indices: 19470569--19470627 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
19470559 ATATTAATTT
*
19470569 TAATATTTTTAATA-TTAAATATTTTTTA
1 TAATATTTTTAATATTTAAATATCTTTTA
**
19470597 TAATATTTTTCTTATTTTAAATATCTTTTA
1 TAATATTTTTAATA-TTTAAATATCTTTTA
19470627 T
1 T
19470628 GATTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (29 bp):
TAATATTTTTAATATTTAAATATCTTTTA
Found at i:19470632 original size:19 final size:19
Alignment explanation
Indices: 19470592--19470648 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
19470582 ATTAAATATT
* *
19470592 TTTTATAATATTTTTCTTA
1 TTTTATAATATTTTTATGA
19470611 TTTTA-AATATCTTTTATGA
1 TTTTATAATAT-TTTTATGA
19470630 TTTT-TAATCACTTTTTATG
1 TTTTATAAT-A-TTTTTATG
19470649 GAGAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 5 0.16
19 18 0.56
20 8 0.25
21 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATAATATTTTTATGA
Found at i:19470887 original size:23 final size:23
Alignment explanation
Indices: 19470861--19470906 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19470851 GGCTTAACTG
19470861 ATATGTTAAT-AATTTATATTAAA
1 ATATGTTAATAAATTT-TATTAAA
* *
19470884 ATATTTTATTAAATTTTATTAAA
1 ATATGTTAATAAATTTTATTAAA
19470907 TCTATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATGTTAATAAATTTTATTAAA
Found at i:19471274 original size:21 final size:20
Alignment explanation
Indices: 19471246--19471284 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19471236 TATTAGTTTG
19471246 AAAATAA-TATATAATGATTT
1 AAAATAATTA-ATAATGATTT
19471266 AAAACTAATTAATAATGAT
1 AAAA-TAATTAATAATGAT
19471285 ACATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATAATTAATAATGATTT
Found at i:19471847 original size:26 final size:26
Alignment explanation
Indices: 19471817--19471887 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
19471807 ATACATATTT
19471817 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
19471843 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
19471872 AATTATTTAATATTTA
1 AATTATTT-ATATTTA
19471888 AATTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 7 0.18
27 6 0.16
28 7 0.18
29 18 0.47
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:19471856 original size:16 final size:16
Alignment explanation
Indices: 19471835--19471884 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
19471825 ATATTTAGTC
19471835 ATATAATAAATTATTA
1 ATATAATAAATTATTA
19471851 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
19471864 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
19471881 ATAT
1 ATAT
19471885 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:19471860 original size:29 final size:30
Alignment explanation
Indices: 19471827--19471884 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
19471817 AATTATTTAT
19471827 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
19471856 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
19471885 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:19478826 original size:16 final size:16
Alignment explanation
Indices: 19478782--19478826 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
19478772 ATATTCGTTG
*
19478782 AATCCCTAAAATCTTGA
1 AATCCCT-AAATATTGA
*
19478799 AATCCCTGAATATTGA
1 AATCCCTAAATATTGA
*
19478815 AATCTCTAAATA
1 AATCCCTAAATA
19478827 GTTAGCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (16 bp):
AATCCCTAAATATTGA
Found at i:19482206 original size:33 final size:32
Alignment explanation
Indices: 19482169--19482305 Score: 116
Period size: 33 Copynumber: 4.2 Consensus size: 32
19482159 CTGTTAAGGG
19482169 GGGTGATGTTGAAGGGGTAGAAGTTGATGAGGA
1 GGGTGATGTTGAAGGGGTAGAAGTTGATG-GGA
* *
19482202 GGGTGATGATGAAGGGGTAGAA-TCTAATGGTGA
1 GGGTGATGTTGAAGGGGTAGAAGT-TGATGG-GA
* ** * *
19482235 AGGTGAT-TTGGAAATGGTAGAATTTGTTGGGAA
1 GGGTGATGTT-GAAGGGGTAGAAGTTGATGGG-A
* * *
19482268 GGGTGATGTAGAAGGGGTACAAGCTGATGGGGA
1 GGGTGATGTTGAAGGGGTAGAAGTTGAT-GGGA
19482301 GGGTG
1 GGGTG
19482306 TGTCTGCTAC
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
32 4 0.05
33 72 0.89
34 5 0.06
ACGTcount: A:0.28, C:0.02, G:0.45, T:0.25
Consensus pattern (32 bp):
GGGTGATGTTGAAGGGGTAGAAGTTGATGGGA
Found at i:19497523 original size:12 final size:11
Alignment explanation
Indices: 19497492--19497522 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19497482 TTTTATTTTC
*
19497492 AAAACAAAAGG
1 AAAAAAAAAGG
19497503 AAAAAAAAAGG
1 AAAAAAAAAGG
19497514 AAAAAAAAA
1 AAAAAAAAA
19497523 ACCTAGGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:19500101 original size:24 final size:24
Alignment explanation
Indices: 19500073--19500121 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
19500063 AAAGCTTTTG
*
19500073 ACTTATTTATTTGTATTAAAAATA
1 ACTTATTTATTAGTATTAAAAATA
19500097 ACTTATTTATTAGTATTAAAAATA
1 ACTTATTTATTAGTATTAAAAATA
19500121 A
1 A
19500122 TTTCTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
ACTTATTTATTAGTATTAAAAATA
Found at i:19503022 original size:21 final size:21
Alignment explanation
Indices: 19502996--19503039 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19502986 TCTAATAGCA
*
19502996 AATTTTATGTTCCATAAGCTG
1 AATTTTATGTTCCACAAGCTG
*
19503017 AATTTTATGTTCTACAAGCTG
1 AATTTTATGTTCCACAAGCTG
19503038 AA
1 AA
19503040 GTTGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (21 bp):
AATTTTATGTTCCACAAGCTG
Found at i:19503375 original size:2 final size:2
Alignment explanation
Indices: 19503368--19503398 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19503358 AAGATATGAA
*
19503368 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19503399 AGAGGTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:19503717 original size:41 final size:41
Alignment explanation
Indices: 19503672--19503774 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
19503662 GGCTATGTGC
* *
19503672 CTAGCAGGCTTAATGCTGGTGAAATAATTCAGACTTTAAGT
1 CTAGCAGGCTTAATGCTGGTGAAACAATTCAGACTATAAGT
* * * *
19503713 CTAGCAGGCTTAATGCCGGTGAAACATTTCGGACTATAGGT
1 CTAGCAGGCTTAATGCTGGTGAAACAATTCAGACTATAAGT
* *
19503754 CTAGCAGGCTAAAAGCTGGTG
1 CTAGCAGGCTTAATGCTGGTG
19503775 TATCGAATCA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCTGGTGAAACAATTCAGACTATAAGT
Found at i:19504051 original size:35 final size:36
Alignment explanation
Indices: 19503996--19504065 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
19503986 ATAAAGGCAT
* *
19503996 ATGTACATTAGGTATATGCGGTTATTGAATTTATAA
1 ATGTACATTAGGTATATGCGGCTATTAAATTTATAA
*
19504032 ATGTACA-T-GGTGATATGCGGCTGTTAAATTTATA
1 ATGTACATTAGGT-ATATGCGGCTATTAAATTTATA
19504066 TATATGGAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.67
36 7 0.23
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (36 bp):
ATGTACATTAGGTATATGCGGCTATTAAATTTATAA
Found at i:19504916 original size:12 final size:11
Alignment explanation
Indices: 19504901--19504957 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 11
19504891 TAAAAATTAA
19504901 AAAAAGTATTTT
1 AAAAA-TATTTT
19504913 AAAAATATTTT
1 AAAAATATTTT
**
19504924 --AAA-ATTAA
1 AAAAATATTTT
19504932 AAAAAGTATTTT
1 AAAAA-TATTTT
19504944 AAAAA-ATTTT
1 AAAAATATTTT
19504954 AAAA
1 AAAA
19504958 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 12 0.32
11 6 0.16
12 13 0.35
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:19504953 original size:30 final size:31
Alignment explanation
Indices: 19504893--19504966 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
19504883 AATTAAAATA
19504893 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
19504924 AAAATTAAAAAAAGTATTTTAAAAA-ATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
19504954 AAAATTAAAAAAA
1 AAAATTAAAAAAA
19504967 TTAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAATATTTT
Found at i:19504988 original size:11 final size:11
Alignment explanation
Indices: 19504974--19504999 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19504964 AAATTAAAAA
19504974 AAAAGTATTTT
1 AAAAGTATTTT
19504985 AAAAGTATTTT
1 AAAAGTATTTT
19504996 AAAA
1 AAAA
19505000 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:19505008 original size:41 final size:40
Alignment explanation
Indices: 19504930--19505013 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 40
19504920 TTTTAAAATT
19504930 AAAAAAAGTATTTTAAAAAATTTTAAAATTAAAAAAATTAA
1 AAAAAAAGTATTTTAAAAAATTTTAAAATTAAAAAAA-TAA
*
19504971 AAAAAAAGTATTTTAAAAGTATTTTAAAATT-AAAAAATAA
1 AAAAAAAGTATTTTAAAA-AATTTTAAAATTAAAAAAATAA
19505011 AAA
1 AAA
19505014 TATTTATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
40 6 0.15
41 24 0.59
42 11 0.27
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (40 bp):
AAAAAAAGTATTTTAAAAAATTTTAAAATTAAAAAAATAA
Found at i:19506240 original size:12 final size:12
Alignment explanation
Indices: 19506191--19506233 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
19506181 TCATTTTATC
19506191 ATCAAGTC-TTGA
1 ATCAAGTCATT-A
* *
19506203 ACCAAGTCATGA
1 ATCAAGTCATTA
19506215 ATCAAGTCATTA
1 ATCAAGTCATTA
19506227 ATCAAGT
1 ATCAAGT
19506234 TTTTAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 25 0.96
13 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (12 bp):
ATCAAGTCATTA
Found at i:19512600 original size:6 final size:6
Alignment explanation
Indices: 19512589--19512614 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19512579 ATTTTTAAAT
19512589 TTTATG TTTATG TTTATG TTTATG TT
1 TTTATG TTTATG TTTATG TTTATG TT
19512615 GTACTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTATG
Found at i:19513257 original size:61 final size:61
Alignment explanation
Indices: 19513188--19513306 Score: 211
Period size: 61 Copynumber: 2.0 Consensus size: 61
19513178 CCTTTTCACA
* *
19513188 ATGTTAATTATAGGATTAATATTTTTAAATTCGAAAAATAAAAAGATTTAATTTTTAAAAG
1 ATGTTAATTATAGGATTAATATTTTTAAATTCAAAAAATAAAAAGACTTAATTTTTAAAAG
*
19513249 ATGTTAATTATAGGATTAATGTTTTTAAATTCAAAAAATAAAAAGACTTAATTTTTAA
1 ATGTTAATTATAGGATTAATATTTTTAAATTCAAAAAATAAAAAGACTTAATTTTTAA
19513307 CTTTTAAAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (61 bp):
ATGTTAATTATAGGATTAATATTTTTAAATTCAAAAAATAAAAAGACTTAATTTTTAAAAG
Found at i:19516794 original size:7 final size:7
Alignment explanation
Indices: 19516784--19516809 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19516774 CCGGGAAATA
19516784 GGAAGTT
1 GGAAGTT
19516791 GGAAGTT
1 GGAAGTT
19516798 GGAAGTT
1 GGAAGTT
19516805 GGAAG
1 GGAAG
19516810 AAACCGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (7 bp):
GGAAGTT
Found at i:19520870 original size:17 final size:17
Alignment explanation
Indices: 19520803--19520870 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
19520793 TATGTGAATG
*
19520803 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
19520819 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
19520838 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
19520857 TAAAATTATTAATT
1 TAAAATTATTAATT
19520871 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:19521168 original size:45 final size:45
Alignment explanation
Indices: 19520927--19522286 Score: 627
Period size: 45 Copynumber: 30.6 Consensus size: 45
19520917 AGTAAAATTA
* * *
19520927 TTAATTTAGTTTAGAGTTTTTAA-TTAAATTAGGTTAGAGTTTTTAAG
1 TTAA-TTAGGTTAGGGTTTTTAAGTTAAA-TAGGTTAG-GGTTTTAAG
* * * *
19520974 TTAA--GGGTTAGAGTTTTTAAGTT-AA-GGGTTTAGTGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGG-TTAG-GGTTTTAAG
* * *
19521017 TTAA--GGGTTAGGG-TTTTAAGTT-AA-GGGTTAGAGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAG-GGTTTTAAG
* *
19521058 TTAA--GGGTTTAGTGTTTTTAAGTT-AAT-GGTTAGGGTTTTTAAG
1 TTAATTAGG-TTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* * * *
19521101 TTAA--GGGTTAGTGTTTTGAAGTTAAAGAGGTTAGGGTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGGTTTTAAG
*
19521144 TTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* * * *
19521190 -T--TTAGGGTTTA-AGATTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* *
19521234 -T--TTAGGGTTTAGTGTTTTTAA-TTAAATTAGGCTAGGGTTTTTAAG
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAA-TAGGTTAGGG-TTTTAAG
* * *
19521279 -T--TTAGGGTTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* * *
19521324 -T--TTAGGGTTTAGGGTTTTTAA-TTAAATTAGGTCATGGTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAA-TAGGTTA-GGGTTTTAAG
* *
19521369 TTAATAAGGTTAGGGTTTTTAAGTT---TAGGGTTTAAGGTTTTTAA-
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATA-GG-TT-AGGGTTTTAAG
**
19521413 TTAAATTAGGTTAGGGTTTTTAAGTT-AAGGGGTTAGGGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* * *
19521459 -T--TTAGGGTTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* * *
19521504 TTTA-T-GGTTTAAGATTTTTAA-TTAAATTAGGTTAGGGTTTTAAG
1 TTAATTAGG-TTAGGGTTTTTAAGTTAAA-TAGGTTAGGGTTTTAAG
* *
19521548 -T--TTAGGGTTTAGGGCTTTTTTAATTTAATTAGGTTAGGGTTTTTAA-
1 TTAATTA-GG-TTAGGG--TTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
*
19521594 TTAAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
*** *
19521641 TTAAGGGGGTTAGGGTTTTTAAGTT---TA-G---GGTTTTTAA-
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGGTTTTAAG
* * *
19521678 TTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGG-GTTTTAAG
* * *
19521725 -T--TTAGGGTTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* *
19521770 TTAATTAGGTTA-GTTTTTTAAGTT-AATGGGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAAAT-AGGTTAGGG-TTTTAAG
* * * * *
19521815 -T--TTAGGGTTTAGGATTTTTAATTTAACTAGGTTAGGTTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAATAGGTTAGG-GTTTTAAG
*
19521860 TTAATTAGGTTAGGGTTTTTAAGTT---TAGGGATTAGAGTTTTTAA-
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATA-GG-TTAG-GGTTTTAAG
* * **
19521904 TTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTACGATTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAGTTAAATAGGTTA-GGGTTTTAAG
*** *
19521951 TTAAGGGGGTTAGGGTTTTTAAG-----T---TTAGGGTTTTAAAT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGGTTTT-AAG
* * * * * *
19521989 TTAATTACGTTAGAGTTTTTGATTTAATTTGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGG-TTTTAAG
* *
19522035 -T--TTAGGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGGGTTTAAAG
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAA-TAGGTTA-GGGTTTTAAG
* * **
19522080 -T--TTAGGGTTTAGGGTTTTTGA-TTAAATTAAGTTAGGGTTTTTACT
1 TTAATTA-GG-TTAGGGTTTTTAAGTTAAA-TAGGTTAGGG-TTTTAAG
*
19522125 TTAATTAGGTTAGGGTTTTTAAGTT---TAGGGTTTATGGTTTGTAA-
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATA-GG-TTAGGGTTT-TAAG
* *
19522169 TTAAATTAGGTTAGTGTTTTTAAGTT---TAGGGTTTAGGGTTTGTAAT
1 TT-AATTAGGTTAGGGTTTTTAAGTTAAATA-GG-TTAGGGTTT-TAAG
* * *
19522215 TTAATTAGATTAGGGTTTTTAAGTT---TAGGGTTTATGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAATA-GG-TTA-GGGTTTTAAG
19522260 TTAATTAGGTTAGGGTTTTTAAGTTAA
1 TTAATTAGGTTAGGGTTTTTAAGTTAA
19522287 GGGGTTAGGA
Statistics
Matches: 1094, Mismatches: 109, Indels: 220
0.77 0.08 0.15
Matches are distributed among these distances:
37 7 0.01
38 46 0.04
39 2 0.00
41 23 0.02
42 46 0.04
43 92 0.08
44 140 0.13
45 490 0.45
46 185 0.17
47 39 0.04
48 19 0.02
49 2 0.00
50 3 0.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (45 bp):
TTAATTAGGTTAGGGTTTTTAAGTTAAATAGGTTAGGGTTTTAAG
Found at i:19521319 original size:68 final size:66
Alignment explanation
Indices: 19521003--19522308 Score: 718
Period size: 68 Copynumber: 19.6 Consensus size: 66
19520993 AGTTAAGGGT
* * * * * *
19521003 TTAGTGTTTTTAAGTTAAGGGTTAGGG-TTTTAAGTTAA--GGGTTAGAGTTTTTAAGTTAA--G
1 TTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAATTA
19521063 GG
65 GG
* * * * * * * **
19521065 TTTAGTGTTTTTAAGTTAATGGTTAGGGTTTTTAAGTTAA--GGGTTAGTGTTTTGAAGTTAAAG
1 -TTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAATT
19521128 AGG
64 AGG
* *
19521131 TTAGGG-TTTTAAGTTAATTA-GGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGT--T
1 TTAGGGTTTTTAAG-T--TTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAAT
19521192 TAGGG
63 TA-GG
* * * * *
19521197 TTTA-AGATTTTAA-TTTAATTAGGTTAGGGTTTTTAAGTTT-A--GGGTTTAGTGTTTTTAATT
1 -TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAATT
19521257 AAATTAGG
60 -AATTAGG
* * *
19521265 CTAGGGTTTTTAAGTTTAGGGTTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGT--TTA
1 TTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAATTA
19521328 GGG
65 -GG
* * * * *
19521331 TTTAGGGTTTTTAATTAAATTA-GGTCATGGTTTTTAATTTAATAAGGTTAGGGTTTTTAAGT--
1 -TTAGGGTTTTTAAGT---TTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAA
19521393 TTAGGG
62 TTA-GG
* * * ** *
19521399 TTTAAGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGT--
1 -TTAGGGTTTTTAAGT---TTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAA
19521460 TTAGGG
62 TTA-GG
* * * *
19521466 TTTAAGGTTTTTAA-TTTAATTAGGTTAGGGTTTTTAAGTTT-A-T-GGTTTAAGATTTTTAATT
1 -TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAATT
19521527 AAATTAGG
60 -AATTAGG
19521535 TTAGGG-TTTTAAGTTTAGGGTTTAGGGCTTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAAGTTTAGGG-TTAGGG--TTTTTAATTTAATTAGGTTAGGGTTTTTAATT-AA
19521599 TTAGG
62 TTAGG
* *** *
19521604 TTAGGGTTTTTAAGTTAATTA-GGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGT--T
1 TTAGGGTTTTTAAG-T--TTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAAT
19521666 TAGGG
63 TA-GG
* * *
19521671 TT----TTTAATTAA-ATTA-GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTTTTTAAGT--TT
1 TTAGGGTTT--TTAAGTTTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAATT
19521728 AGGG
64 A-GG
* * * *
19521732 TTTAAGGTTTTTAA-TTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTA-GTTTTTTAAGTTA
1 -TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTA
**
19521795 ATGGGG
61 ATTAGG
* * *
19521801 TTAGGGTTTTTAAGTTTAGGGTTTAGGATTTTTAATTTAACTAGGTTAGGTTTTTTAATTTAATT
1 TTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAATT
19521866 AGG
64 AGG
* *
19521869 TTAGGGTTTTTAAGTTTAGGGATTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATT
1 TTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAATT
19521934 AGG
64 AGG
* * * * *
19521937 TTACGATTTTTAAGTTAAGGGGGTTAGGG---TT--TTT-A--AGTTTAGGGTTTTAAATTTAAT
1 TTAGGGTTTTTAAGTTTA--GGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTAAT
*
19521994 TACG
63 TAGG
* * * * *
19521998 TTAGAGTTTTTGA-TTTAATTTGGTTAGGGTTTTTAAGTTT-A--GGGTTTAAGGTTTTTAATTA
1 TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAATT-
19522059 AATTAGG
60 AATTAGG
* * * * * *
19522066 TTAGGGGTTTAAAGTTTAGGGTTTAGGGTTTTTGATTAAATTAAGTTAGGGTTTTTACTTTAATT
1 TTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTA-ATTAATT
19522131 AGG
64 AGG
* * * * *
19522134 TTAGGGTTTTTAAGTTTAGGGTTTATGGTTTGTAATTAAATTAGGTTAGTGTTTTTAAGT--TTA
1 TTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAATTA
19522197 GGG
65 -GG
* * * * *
19522200 TTTAGGGTTTGTAA-TTTAATTAGATTAGGGTTTTTAAGTTT-A--GGGTTTATGGTTTTTAATT
1 -TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAA-T
19522261 TAATTAGG
59 TAATTAGG
* *
19522269 TTAGGGTTTTTAAGTTAAGGGGTTAGGATTTTTAAGTTTA
1 TTAGGGTTTTTAAGTTTA-GGGTTAGGGTTTTTAA-TTTA
19522309 GGGTTTAGGG
Statistics
Matches: 1012, Mismatches: 133, Indels: 191
0.76 0.10 0.14
Matches are distributed among these distances:
60 2 0.00
61 85 0.08
62 2 0.00
63 34 0.03
64 49 0.05
65 23 0.02
66 75 0.07
67 229 0.23
68 389 0.38
69 90 0.09
70 22 0.02
71 7 0.01
72 2 0.00
73 3 0.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (66 bp):
TTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTAATTAG
G
Found at i:19521653 original size:28 final size:23
Alignment explanation
Indices: 19520927--19522331 Score: 750
Period size: 23 Copynumber: 63.2 Consensus size: 23
19520917 AGTAAAATTA
* *
19520927 TTAATTTAGTTTAGAGTTTTTAA-
1 TTAA-TTAGGTTAGGGTTTTTAAG
*
19520950 TTAAATTAGGTTAGAGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
* *
19520974 TTAA--GGGTTAGAGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19520995 TTAA--GGGTTTAGTGTTTTTAAG
1 TTAATTAGG-TTAGGGTTTTTAAG
*
19521017 TTAA--GGGTTAGGG-TTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19521037 TTAA--GGGTTAGAGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19521058 TTAA--GGGTTTAGTGTTTTTAAG
1 TTAATTAGG-TTAGGGTTTTTAAG
19521080 TTAA-T-GGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* * *
19521101 TTAA--GGGTTAGTGTTTTGAAG
1 TTAATTAGGTTAGGGTTTTTAAG
**
19521122 TTAAAGAGGTTAGGG-TTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
19521144 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
19521167 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* * *
19521190 -T--TTAGGGTTTA-AGATTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
19521211 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19521234 -T--TTAGGGTTTAGTGTTTTTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
*
19521255 TTAAATTAGGCTAGGGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
* *
19521279 -T--TTAGGGTTTAGAGTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
19521301 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
19521324 -T--TTAGGGTTTAGGGTTTTTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
* * *
19521345 TTAAATTAGGTCATGGTTTTTAAT
1 TT-AATTAGGTTAGGGTTTTTAAG
*
19521369 TTAATAAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19521392 -T--TTAGGGTTTAAGGTTTTTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
19521413 TTAAATTAGGTTAGGGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
**
19521437 TTAA-GGGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19521459 -T--TTAGGGTTTAAGGTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
19521481 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* * *
19521504 TTTA-T-GGTTTAAGATTTTTAA-
1 TTAATTAGG-TTAGGGTTTTTAAG
19521525 TTAAATTAGGTTAGGG-TTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
*
19521548 -T--TTAGGGTTTAGGGCTTTTTTAAT
1 TTAATTA-GG-TTAGGG--TTTTTAAG
19521572 TTAATTAGGTTAGGGTTTTTAA-
1 TTAATTAGGTTAGGGTTTTTAAG
19521594 TTAAATTAGGTTAGGGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
19521618 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
***
19521641 TTAAGGGGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19521664 -T--TTAGGGTT----TTTAATTAAA
1 TTAATTA-GGTTAGGGTTT--TTAAG
* *
19521683 TTAGGTTA-G---G-GTTTTTAAT
1 TTA-ATTAGGTTAGGGTTTTTAAG
*
19521702 TTAATTAGGTTAGGTTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19521725 -T--TTAGGGTTTAAGGTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
19521747 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19521770 TTAATTAGGTTA-GTTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
**
19521792 TTAATGGGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19521815 -T--TTAGGGTTTAGGATTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
* * *
19521837 TTAACTAGGTTAGGTTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
19521860 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19521883 -T--TTAGGGATTAGAGTTTTTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
*
19521904 TTAAATTAGGTTAGGGTTTTTAAT
1 TT-AATTAGGTTAGGGTTTTTAAG
* *
19521928 TTAATTAGGTTACGATTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
***
19521951 TTAAGGGGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*****
19521974 -T--TTAGGGTT-TTAAATTTAA-
1 TTAATTA-GGTTAGGGTTTTTAAG
* *** * *
19521993 TTACGTTAGAGTTTTTG-ATTTAAT
1 TTA-ATTAG-GTTAGGGTTTTTAAG
**
19522017 TTGGTTAGG-----GTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19522035 -T--TTAGGGTTTAAGGTTTTTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
* *
19522056 TTAAATTAGGTTAGGGGTTTAAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
*
19522080 -T--TTAGGGTTTAGGGTTTTTGA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
* **
19522101 TTAAATTAAGTTAGGGTTTTTACT
1 TT-AATTAGGTTAGGGTTTTTAAG
19522125 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19522148 -T--TTAGGGTTTATGGTTTGTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
*
19522169 TTAAATTAGGTTAGTGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
* *
19522193 -T--TTAGGGTTTAGGGTTTGTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
*
19522215 TTAATTAGATTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
19522238 -T--TTAGGGTTTATGGTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
19522260 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
** *
19522283 TTAA-GGGGTTAGGATTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
19522305 -T--TTAGGGTTTAGGGTTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
19522327 TTAAT
1 TTAAT
19522332 GGTTAGTAGA
Statistics
Matches: 1098, Mismatches: 138, Indels: 290
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.00
16 2 0.00
17 5 0.00
18 8 0.01
19 15 0.01
20 61 0.06
21 135 0.12
22 317 0.29
23 448 0.41
24 53 0.05
25 46 0.04
26 2 0.00
27 3 0.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (23 bp):
TTAATTAGGTTAGGGTTTTTAAG
Found at i:19521990 original size:61 final size:61
Alignment explanation
Indices: 19521914--19522044 Score: 183
Period size: 61 Copynumber: 2.1 Consensus size: 61
19521904 TTAAATTAGG
* *
19521914 TTAGGGTTTTTAATTTAATTAGGTTACGA-TTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGT
1 TTAGGGTTTTAAATTTAATTACGTTA-GAGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGT
* * ***
19521975 TTAGGGTTTTAAATTTAATTACGTTAGAGTTTTTGATTTAATTTGGTTAGGGTTTTTAAGT
1 TTAGGGTTTTAAATTTAATTACGTTAGAGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGT
19522036 TTAGGGTTT
1 TTAGGGTTT
19522045 AAGGTTTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.03
61 60 0.97
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (61 bp):
TTAGGGTTTTAAATTTAATTACGTTAGAGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGT
Found at i:19522007 original size:84 final size:83
Alignment explanation
Indices: 19521891--19522055 Score: 213
Period size: 84 Copynumber: 2.0 Consensus size: 83
19521881 AGTTTAGGGA
* * *
19521891 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTACGATTTTTAAGTTAAG
1 TTAGAGTTTTAAATTAAATTACGTTAGAGTTTTTAATTTAATTAGGTTACGATTTTTAAGTTAA-
*
19521956 GGGGTTAGGGTTTTTAAGT
65 GGGGTTAAGGTTTTTAAGT
* * * * * * *
19521975 TTAGGGTTTTAAATTTAATTACGTTAGAGTTTTTGATTTAATTTGGTTAGGGTTTTTAAGTTTAG
1 TTAGAGTTTTAAATTAAATTACGTTAGAGTTTTTAATTTAATTAGGTTACGATTTTTAAGTTAAG
*
19522040 GGTTTAAGGTTTTTAA
66 GGGTTAAGGTTTTTAA
19522056 TTAAATTAGG
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 15 0.22
84 54 0.78
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (83 bp):
TTAGAGTTTTAAATTAAATTACGTTAGAGTTTTTAATTTAATTAGGTTACGATTTTTAAGTTAAG
GGGTTAAGGTTTTTAAGT
Found at i:19522050 original size:22 final size:22
Alignment explanation
Indices: 19522021--19522329 Score: 183
Period size: 22 Copynumber: 13.8 Consensus size: 22
19522011 TTTAATTTGG
19522021 TTAGGGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAAGTTTAGGGT
* *
19522043 TTAAGGTTTTTAATTAAATTA-GG-
1 TTAGGGTTTTTAAGT---TTAGGGT
* *
19522066 TTAGGGGTTTAAAGTTTAGGGT
1 TTAGGGTTTTTAAGTTTAGGGT
** *
19522088 TTAGGGTTTTTGATTAAATTA-AG-
1 TTAGGGTTTTT-A--AGTTTAGGGT
* *
19522111 TTAGGGTTTTT-ACTTTAATTAGG-
1 TTAGGGTTTTTAAGTTT-A--GGGT
19522134 TTAGGGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAAGTTTAGGGT
* * *
19522156 TTATGGTTTGTAATTAAATTA-GG-
1 TTAGGGTTTTTAAGT---TTAGGGT
*
19522179 TTAGTGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAAGTTTAGGGT
* ** *
19522201 TTAGGGTTTGTAA-TTTAATTAGA
1 TTAGGGTTTTTAAGTTT-A-GGGT
19522224 TTAGGGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAAGTTTAGGGT
* *
19522246 TTATGGTTTTTAA-TTTAATTAGG-
1 TTAGGGTTTTTAAGTTT-A--GGGT
* *
19522269 TTAGGGTTTTTAAGTTAAGGGG
1 TTAGGGTTTTTAAGTTTAGGGT
*
19522291 TTAGGATTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAAGTTTAGGGT
19522313 TTAGGGTTTTTAA-TTTA
1 TTAGGGTTTTTAAGTTTA
19522330 ATGGTTAGTA
Statistics
Matches: 219, Mismatches: 41, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.01
20 7 0.03
21 18 0.08
22 91 0.42
23 74 0.34
24 16 0.07
25 10 0.05
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTTAGGGT
Found at i:19522194 original size:113 final size:112
Alignment explanation
Indices: 19521973--19522235 Score: 384
Period size: 113 Copynumber: 2.3 Consensus size: 112
19521963 GGGTTTTTAA
* * * *
19521973 GTTTAGGGTTTTAAATTTAATTACGTTAGAGTTTTTGATTTAATTTGGTTAGGGTTTTTAAGTTT
1 GTTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTT-ATTTAATTAGGTTAGGGTTTTTAAGTTT
*
19522038 AGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGGTTTAAAGTTTAGG
65 AGGGTTTAAGGTTTGTAATTAAATTAGGTTAGGGGTTTAAAGTTTAGG
* *
19522086 GTTTAGGGTTTTTGATTAAATTAAGTTAGGGTTTTTACTTTAATTAGGTTAGGGTTTTTAAGTTT
1 GTTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTA-TTTAATTAGGTTAGGGTTTTTAAGTTT
* * * *
19522151 AGGGTTTATGGTTTGTAATTAAATTAGGTTAGTGTTTTTAAGTTTAGG
65 AGGGTTTAAGGTTTGTAATTAAATTAGGTTAGGGGTTTAAAGTTTAGG
*
19522199 GTTTAGGGTTTGTAATTTAATT-AGATTAGGGTTTTTA
1 GTTTAGGGTTTTTAATTTAATTAAG-TTAGGGTTTTTA
19522236 AGTTTAGGGT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
112 3 0.02
113 131 0.98
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.50
Consensus pattern (112 bp):
GTTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTATTTAATTAGGTTAGGGTTTTTAAGTTTA
GGGTTTAAGGTTTGTAATTAAATTAGGTTAGGGGTTTAAAGTTTAGG
Found at i:19522205 original size:90 final size:90
Alignment explanation
Indices: 19522110--19522308 Score: 308
Period size: 90 Copynumber: 2.2 Consensus size: 90
19522100 ATTAAATTAA
* *
19522110 GTTAGGGTTTTTACTTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTATGGTTTGTAATTAAAT
1 GTTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAGTTTAGGGTTTATGGTTTGTAATTAAAT
* *
19522175 TAGGTTAGTGTTTTTAAGTTTAGGG
66 TAGGTTAGGGTTTTTAAGTTAAGGG
* * * *
19522200 TTTAGGGTTTGTAATTTAATTAGATTAGGGTTTTTAAGTTTAGGGTTTATGGTTTTTAATTTAAT
1 GTTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAGTTTAGGGTTTATGGTTTGTAATTAAAT
19522265 TAGGTTAGGGTTTTTAAGTTAAGGG
66 TAGGTTAGGGTTTTTAAGTTAAGGG
*
19522290 GTTAGGATTTTTAAGTTTA
1 GTTAGGGTTTTTAA-TTTA
19522309 GGGTTTAGGG
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 93 0.96
91 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.50
Consensus pattern (90 bp):
GTTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAGTTTAGGGTTTATGGTTTGTAATTAAAT
TAGGTTAGGGTTTTTAAGTTAAGGG
Found at i:19522398 original size:25 final size:25
Alignment explanation
Indices: 19522364--19522411 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
19522354 TATCAAAAAT
*
19522364 TTCTATTTTATTACATTAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
19522389 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
19522412 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:19523761 original size:20 final size:20
Alignment explanation
Indices: 19523723--19523761 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19523713 CTTTTATTTT
*
19523723 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
19523743 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
19523762 TATCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:19525067 original size:11 final size:11
Alignment explanation
Indices: 19525051--19525081 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19525041 AAAAAGGGAG
19525051 TTAAGAGAAAC
1 TTAAGAGAAAC
*
19525062 TTAAGAGGAAC
1 TTAAGAGAAAC
19525073 TTAAGAGAA
1 TTAAGAGAA
19525082 TTTTTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:19528106 original size:25 final size:25
Alignment explanation
Indices: 19528075--19528256 Score: 81
Period size: 25 Copynumber: 7.4 Consensus size: 25
19528065 GCTATCTTTC
*
19528075 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
* * *
19528100 GAGCCATGTAATGGGAAGCTTAT-T
1 GAGCCATATAACGGGAAGCTCATGT
* ** * **
19528124 CGGGCTGTATAATGGGAAGCTCATAA
1 -GAGCCATATAACGGGAAGCTCATGT
* * * *
19528150 GAACCATA-ATCAGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGT
* * *
19528174 GAGCCA-ATAACGGGTAGCTC-CGAA
1 GAGCCATATAACGGGAAGCTCATG-T
19528198 GAGCCAT-TAATCGGGAAGCTC-TG-
1 GAGCCATATAA-CGGGAAGCTCATGT
* * * *
19528221 GATAGCCATATATCGGGAAGTTCAAGG
1 G--AGCCATATAACGGGAAGCTCATGT
19528248 GAGCCATAT
1 GAGCCATAT
19528257 TGGGAAGCTC
Statistics
Matches: 116, Mismatches: 30, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
23 3 0.03
24 35 0.30
25 74 0.64
26 3 0.03
27 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:19528274 original size:23 final size:23
Alignment explanation
Indices: 19528189--19528274 Score: 66
Period size: 25 Copynumber: 3.6 Consensus size: 23
19528179 AATAACGGGT
* *
19528189 AGCTCCGAAGAGCCATTAATCGGGA
1 AGCTCCGGAGAGCCA-T-ATTGGGA
* *
19528214 AGCTCTGGATAGCCATATATCGGGA
1 AGCTCCGGAGAGCCATAT-T-GGGA
* *
19528239 AGTTCAAGG-GAGCCATATTGGGA
1 AGCTC-CGGAGAGCCATATTGGGA
19528262 AGCTCCGGAGAGC
1 AGCTCCGGAGAGC
19528275 TATTAATTAG
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
22 2 0.04
23 14 0.29
24 2 0.04
25 28 0.58
26 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (23 bp):
AGCTCCGGAGAGCCATATTGGGA
Found at i:19532910 original size:20 final size:19
Alignment explanation
Indices: 19532885--19532922 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19532875 ATTTGTCTTG
19532885 AGAATAATAATAAAATATTT
1 AGAATAATAA-AAAATATTT
*
19532905 AGAATAATTAAAAATATT
1 AGAATAATAAAAAATATT
19532923 ATTTAATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AGAATAATAAAAAATATTT
Found at i:19534720 original size:27 final size:27
Alignment explanation
Indices: 19534668--19534720 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
19534658 ACAGTGTTGT
* *
19534668 CCCTATTTTTTAGAATTTATAGTTTTA
1 CCCTATTTTTTAGAATTTACAATTTTA
*
19534695 CCCT-TTTTTATAGATTTTACAATTTT
1 CCCTATTTTT-TAGAATTTACAATTTT
19534721 GCCCATGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.57
Consensus pattern (27 bp):
CCCTATTTTTTAGAATTTACAATTTTA
Found at i:19535419 original size:18 final size:18
Alignment explanation
Indices: 19535396--19535431 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19535386 TTTTATTACT
*
19535396 AGTGGTTTATCCACAATG
1 AGTGGTTCATCCACAATG
19535414 AGTGGTTCATCCACAATG
1 AGTGGTTCATCCACAATG
19535432 TGGTGTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (18 bp):
AGTGGTTCATCCACAATG
Found at i:19537565 original size:35 final size:35
Alignment explanation
Indices: 19537526--19537612 Score: 149
Period size: 34 Copynumber: 2.5 Consensus size: 35
19537516 TTTAAATTTT
19537526 AAATATATTAAATTTTTTTTGTCTCTACCTATTAA
1 AAATATATTAAATTTTTTTTGTCTCTACCTATTAA
*
19537561 AAATATATT-AATTTTTTTTGTCTCTATCTATTAA
1 AAATATATTAAATTTTTTTTGTCTCTACCTATTAA
*
19537595 AAATATATTAAATATTTT
1 AAATATATTAAATTTTTT
19537613 AAAATTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 33 0.67
35 16 0.33
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (35 bp):
AAATATATTAAATTTTTTTTGTCTCTACCTATTAA
Found at i:19537694 original size:19 final size:18
Alignment explanation
Indices: 19537670--19537712 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19537660 ATTTTAATAT
19537670 ATTTAAAG-ATATTTAAAA
1 ATTTAAAGTATA-TTAAAA
19537688 ATATT-AAGTATATTAAAA
1 AT-TTAAAGTATATTAAAA
19537706 ATTTAAA
1 ATTTAAA
19537713 ATTGTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 15 0.68
19 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
ATTTAAAGTATATTAAAA
Found at i:19537704 original size:89 final size:89
Alignment explanation
Indices: 19537589--19537764 Score: 246
Period size: 89 Copynumber: 2.0 Consensus size: 89
19537579 TGTCTCTATC
* * ** * *
19537589 TATTAAAAATATATTAAATATTTTAAAATTTTAAAATTGGTTATACTTAATTTTATTTTAATATG
1 TATTAAAAATATATTAAATATATTAAAAATTTAAAATTGGTTATACTTAACATT-TTTTAACATA
*
19537654 TTTGAAATTTTAATATATTTAAAGA
65 TTTAAAATTTTAATATATTTAAAGA
* * *
19537679 TATTTAAAA-ATATTAAGTATATTAAAAATTTAAAATTGTTTATACTTAACATTTTTTAACATAT
1 TATTAAAAATATATTAAATATATTAAAAATTTAAAATTGGTTATACTTAACATTTTTTAACATAT
19537743 TTAAAATTTTAATATATTTAAA
66 TTAAAATTTTAATATATTTAAA
19537765 TTTTTTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
88 30 0.39
89 38 0.50
90 8 0.11
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (89 bp):
TATTAAAAATATATTAAATATATTAAAAATTTAAAATTGGTTATACTTAACATTTTTTAACATAT
TTAAAATTTTAATATATTTAAAGA
Found at i:19537769 original size:17 final size:17
Alignment explanation
Indices: 19537731--19537769 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
19537721 TACTTAACAT
19537731 TTTTTAACATATTTAAA
1 TTTTTAACATATTTAAA
* *
19537748 ATTTTAATATATTTAAA
1 TTTTTAACATATTTAAA
19537765 TTTTT
1 TTTTT
19537770 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTAACATATTTAAA
Found at i:19537963 original size:9 final size:9
Alignment explanation
Indices: 19537949--19538081 Score: 55
Period size: 9 Copynumber: 15.2 Consensus size: 9
19537939 CTTAAAATTT
19537949 TTTAATATA
1 TTTAATATA
*
19537958 TTTAAT-TT
1 TTTAATATA
19537966 TTTAAATATA
1 TTT-AATATA
*
19537976 TTAAATATA
1 TTTAATATA
*
19537985 -TTAAAAT-
1 TTTAATATA
19537992 TTTAA-A-A
1 TTTAATATA
***
19537999 TTGGTTATA
1 TTTAATATA
* * *
19538008 CTTAACATTT
1 TTTAATA-TA
19538018 TTTAATATA
1 TTTAATATA
*
19538027 TTTAAAAT-
1 TTTAATATA
19538035 TTTAATATA
1 TTTAATATA
* *
19538044 TTTAATTTT
1 TTTAATATA
* *
19538053 TTTAATTTT
1 TTTAATATA
*
19538062 TTTAAAAT-
1 TTTAATATA
19538070 TTTAAATATA
1 TTT-AATATA
19538080 TT
1 TT
19538082 AAGAATTTTT
Statistics
Matches: 90, Mismatches: 24, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
7 3 0.03
8 24 0.27
9 52 0.58
10 11 0.12
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
TTTAATATA
Found at i:19537993 original size:69 final size:68
Alignment explanation
Indices: 19537910--19538045 Score: 236
Period size: 69 Copynumber: 2.0 Consensus size: 68
19537900 TAAAAATTTT
**
19537910 AATATATTAAAATTTTAAAATTGGTTATACTTAAAATTTTTTAATATATTTAATTTTTTAAATAT
1 AATATATTAAAATTTTAAAATTGGTTATACTTAAAATTTTTTAATATATTTAAAATTTT-AATAT
19537975 ATTA
65 ATTA
*
19537979 AATATATTAAAATTTTAAAATTGGTTATACTTAACATTTTTTAATATATTTAAAATTTTAATATA
1 AATATATTAAAATTTTAAAATTGGTTATACTTAAAATTTTTTAATATATTTAAAATTTTAATATA
19538044 TT
66 TT
19538046 TAATTTTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 8 0.12
69 56 0.88
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (68 bp):
AATATATTAAAATTTTAAAATTGGTTATACTTAAAATTTTTTAATATATTTAAAATTTTAATATA
TTA
Found at i:19538061 original size:43 final size:43
Alignment explanation
Indices: 19537895--19538063 Score: 118
Period size: 42 Copynumber: 3.9 Consensus size: 43
19537885 ATATATTGAT
* * * **
19537895 TATATTAAAAATTTTAATATATTAAAATTTTAAAATTGGTT--A
1 TATATT-AAAATTTTAATATATTTAATTTTTTAAATTTTTTAAA
* * *
19537937 TA-CTTAAAATTTTTTAATATATTTAATTTTTTAAATATATTAAA
1 TATATTAAAA--TTTTAATATATTTAATTTTTTAAATTTTTTAAA
* **
19537981 TATATTAAAATTTTAA-A-ATTGGTTA-TACTTAACATTTTTT-AA
1 TATATTAAAATTTTAATATATT--TAATTTTTTAA-ATTTTTTAAA
*
19538023 TATATTTAAAATTTTAATATATTTAATTTTTTTAATTTTTT
1 TATA-TTAAAATTTTAATATATTTAATTTTTTAAATTTTTT
19538064 TAAAATTTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
40 4 0.04
41 5 0.05
42 38 0.39
43 34 0.35
44 8 0.08
45 9 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (43 bp):
TATATTAAAATTTTAATATATTTAATTTTTTAAATTTTTTAAA
Found at i:19538072 original size:17 final size:17
Alignment explanation
Indices: 19537828--19538090 Score: 108
Period size: 17 Copynumber: 14.5 Consensus size: 17
19537818 TACCCATTAA
*
19537828 AAAATATTAA-ATATATT
1 AAAATTTTAATATAT-TT
*
19537845 AAAATTTCAATATATTT
1 AAAATTTTAATATATTT
*
19537862 AAAATTGTAATATATTTT
1 AAAATTTTAATATA-TTT
* *
19537880 AAAAAATATATTGATTATATTA
1 --AAAAT-T-TT-AATATATTT
19537902 AAAATTTTAATATA-TT
1 AAAATTTTAATATATTT
*
19537918 AAAATTTTAAAATTGGTTATACTT
1 AAAATTTT--AA-----TATATTT
19537942 AAAATTTTTTAATATATTT
1 AAAA--TTTTAATATATTT
**
19537961 AATTTTTTAA-ATATATT
1 AAAATTTTAATATAT-TT
* *
19537978 AAATATATTAAAAT-TTT
1 AAA-ATTTTAATATATTT
* *
19537995 AAAATTGGT--TATACTT
1 AAAATT-TTAATATATTT
*
19538011 AACATTTTTTAATATATTT
1 AA-A-ATTTTAATATATTT
19538030 AAAATTTTAATATATTT
1 AAAATTTTAATATATTT
** * *
19538047 AATTTTTTTAATTTTTTT
1 AA-AATTTTAATATATTT
19538065 AAAATTTTAA-ATATATT
1 AAAATTTTAATATAT-TT
19538082 AAGAATTTT
1 AA-AATTTT
19538091 TTTTCTTTAC
Statistics
Matches: 186, Mismatches: 31, Indels: 57
0.68 0.11 0.21
Matches are distributed among these distances:
15 2 0.01
16 21 0.11
17 70 0.38
18 39 0.21
19 19 0.10
20 10 0.05
21 1 0.01
22 3 0.02
23 9 0.05
24 8 0.04
26 4 0.02
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (17 bp):
AAAATTTTAATATATTT
Found at i:19538138 original size:30 final size:30
Alignment explanation
Indices: 19538104--19538163 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
19538094 TCTTTACCTA
19538104 TTAAAAATATATAA-TAAATATATTAAAATT
1 TTAAAAATAT-TAAGTAAATATATTAAAATT
* * *
19538134 TTAAATATATTAAGTATATATTTTAAAATT
1 TTAAAAATATTAAGTAAATATATTAAAATT
19538164 AGTTATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (30 bp):
TTAAAAATATTAAGTAAATATATTAAAATT
Found at i:19546024 original size:19 final size:19
Alignment explanation
Indices: 19546002--19546052 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
19545992 TAAATAATAC
19546002 AATTATCATAATATTTTTT
1 AATTATCATAATATTTTTT
19546021 AATTAT--T-ATATTTTTT
1 AATTATCATAATATTTTTT
* * *
19546037 AAATAACATATTATTT
1 AATTATCATAATATTT
19546053 AAATAGGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 1 0.04
19 11 0.42
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTATCATAATATTTTTT
Found at i:19546047 original size:16 final size:16
Alignment explanation
Indices: 19546012--19546057 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
19546002 AATTATCATA
* **
19546012 ATATTTTTTAATTATT
1 ATATTTTTTAAATAAC
19546028 ATATTTTTTAAATAAC
1 ATATTTTTTAAATAAC
*
19546044 ATATTATTTAAATA
1 ATATTTTTTAAATA
19546058 GGTGGAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTTTTAAATAAC
Found at i:19554434 original size:21 final size:23
Alignment explanation
Indices: 19554390--19554435 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
19554380 TATACTCGTA
19554390 TTATTTTTATATGTATTTTCTAT
1 TTATTTTTATATGTATTTTCTAT
19554413 TTATTTTT-T-TG-ATTTATCTAT
1 TTATTTTTATATGTATTT-TCTAT
19554434 TT
1 TT
19554436 TTAATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 1 0.05
23 8 0.36
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (23 bp):
TTATTTTTATATGTATTTTCTAT
Found at i:19563546 original size:11 final size:11
Alignment explanation
Indices: 19563530--19563568 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19563520 CTTTTTAGAT
19563530 AATTATAAAAA
1 AATTATAAAAA
*
19563541 AATTATAGAAA
1 AATTATAAAAA
* *
19563552 ATTTATAAAAT
1 AATTATAAAAA
19563563 AATTAT
1 AATTAT
19563569 TTAAGAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AATTATAAAAA
Found at i:19563579 original size:22 final size:21
Alignment explanation
Indices: 19563525--19563568 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
19563515 CATGACTTTT
*
19563525 TAGATAATTATAAAAAAATTA
1 TAGAAAATTATAAAAAAATTA
*
19563546 TAGAAAATTTATAAAATAATTA
1 TAGAAAA-TTATAAAAAAATTA
19563568 T
1 T
19563569 TTAAGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
TAGAAAATTATAAAAAAATTA
Found at i:19563736 original size:12 final size:12
Alignment explanation
Indices: 19563719--19563757 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19563709 GTTTTTTAAT
19563719 AATTATTAAAAA
1 AATTATTAAAAA
* *
19563731 AATTATGAAATA
1 AATTATTAAAAA
19563743 AATTA-TAAAAA
1 AATTATTAAAAA
19563754 AATT
1 AATT
19563758 TAAAATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTATTAAAAA
Found at i:19563768 original size:21 final size:24
Alignment explanation
Indices: 19563719--19563763 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
19563709 GTTTTTTAAT
*
19563719 AATTATTAAAAAAATTATGAAATA
1 AATTATTAAAAAAATTATAAAATA
19563743 AATTA-TAAAAAAATT-TAAAAT
1 AATTATTAAAAAAATTATAAAAT
19563764 TATTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTATTAAAAAAATTATAAAATA
Found at i:19568171 original size:21 final size:20
Alignment explanation
Indices: 19568128--19568172 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
19568118 TAATAAATTT
**
19568128 TAATTTTAATAATTTTTTTA
1 TAATTTTAATAATTTTTAGA
*
19568148 TAATTCTTAATGATTTTTAGA
1 TAATT-TTAATAATTTTTAGA
19568169 TAAT
1 TAAT
19568173 CTTTGTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TAATTTTAATAATTTTTAGA
Found at i:19570045 original size:19 final size:18
Alignment explanation
Indices: 19570023--19570090 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
19570013 ATTTAAAATT
19570023 TATTAATAATTATAAAAAA
1 TATTAA-AATTATAAAAAA
* *
19570042 TATTAAATTTATTAAAAA
1 TATTAAAATTATAAAAAA
*
19570060 T-TGATAAAATTATTTAATAAA
1 TAT--TAAAATTA--TAAAAAA
19570081 TATTAAAATT
1 TATTAAAATT
19570091 CACGTCCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.03
18 11 0.28
19 13 0.33
20 7 0.18
21 6 0.15
22 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
TATTAAAATTATAAAAAA
Found at i:19570054 original size:39 final size:38
Alignment explanation
Indices: 19569987--19570090 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 38
19569977 GATTTATAGA
** * * *
19569987 AAAATTACAAAAAAACATATAAAATTATTTAAAATTTATT
1 AAAATTATTAAAAAATAT-TAAAATTATTAAAAATTGA-T
*
19570027 AATAATTA-TAAAAAATATTAAATTTATTAAAAATTGAT
1 AA-AATTATTAAAAAATATTAAAATTATTAAAAATTGAT
*
19570065 AAAATTATTTAATAAATATTAAAATT
1 AAAATTA-TTAAAAAATATTAAAATT
19570091 CACGTCCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
37 5 0.09
38 3 0.06
39 31 0.57
40 10 0.19
41 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (38 bp):
AAAATTATTAAAAAATATTAAAATTATTAAAAATTGAT
Found at i:19570056 original size:9 final size:9
Alignment explanation
Indices: 19570006--19570090 Score: 64
Period size: 10 Copynumber: 8.8 Consensus size: 9
19569996 AAAAAACATA
19570006 TAAAATTATT
1 TAAAATTA-T
19570016 TAAAATTTAT
1 TAAAA-TTAT
19570026 TAATAATTAT
1 TAA-AATTAT
* *
19570036 AAAAAATAT
1 TAAAATTAT
*
19570045 TAAATTTAT
1 TAAAATTAT
19570054 TAAAAATTGA-
1 T-AAAATT-AT
19570064 TAAAATTATT
1 TAAAATTA-T
*
19570074 TAATAAATAT
1 TAA-AATTAT
19570084 TAAAATT
1 TAAAATT
19570091 CACGTCCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
8 1 0.02
9 21 0.35
10 28 0.47
11 10 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (9 bp):
TAAAATTAT
Found at i:19570073 original size:28 final size:28
Alignment explanation
Indices: 19570004--19570073 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 28
19569994 CAAAAAAACA
*
19570004 TATAAAATTATTTAAAATTTATTAATAAT
1 TATAAAATTA-TTAAAATTTATTAAAAAT
*
19570033 TATAAAAAATATT-AAATTTATTAAAAAT
1 TAT-AAAATTATTAAAATTTATTAAAAAT
19570061 TGATAAAATTATT
1 T-ATAAAATTATT
19570074 TAATAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 23 0.64
29 7 0.19
30 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (28 bp):
TATAAAATTATTAAAATTTATTAAAAAT
Found at i:19570196 original size:10 final size:9
Alignment explanation
Indices: 19570176--19570280 Score: 52
Period size: 10 Copynumber: 10.9 Consensus size: 9
19570166 TGACATAGTT
19570176 TTAATAATTA
1 TTAA-AATTA
19570186 TTAAAATTTA
1 TTAAAA-TTA
*
19570196 TAAAGTAAATTA
1 TTAA--A-ATTA
*
19570208 -TAAAAATA
1 TTAAAATTA
*
19570216 TTTAAATTA
1 TTAAAATTA
19570225 TTAATAATTA
1 TTAA-AATTA
*
19570235 TAATAAATTA
1 TTA-AAATTA
19570245 TTAAAATTTA
1 TTAAAA-TTA
* *
19570255 TAAAAACATA
1 TTAAAA-TTA
*
19570265 GTAAAA-TA
1 TTAAAATTA
19570273 TTAAAATT
1 TTAAAATT
19570281 TATAGGACAG
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 10 0.14
9 16 0.22
10 38 0.53
11 3 0.04
12 4 0.06
13 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (9 bp):
TTAAAATTA
Found at i:19570241 original size:20 final size:20
Alignment explanation
Indices: 19570177--19570257 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
19570167 GACATAGTTT
19570177 TAAT-AATTATTAAAATTTA
1 TAATAAATTATTAAAATTTA
*
19570196 TAAAGTAAATTA-TAAAA-ATA
1 T-AA-TAAATTATTAAAATTTA
*
19570216 T-TTAAATTATTAATAA-TTA
1 TAATAAATTATTAA-AATTTA
19570235 TAATAAATTATTAAAATTTA
1 TAATAAATTATTAAAATTTA
19570255 TAA
1 TAA
19570258 AAACATAGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.14
18 3 0.06
19 8 0.16
20 22 0.43
21 6 0.12
22 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
TAATAAATTATTAAAATTTA
Found at i:19570257 original size:17 final size:17
Alignment explanation
Indices: 19570201--19570258 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
19570191 ATTTATAAAG
*
19570201 TAAATTATAAAAATATT-
1 TAAATTATTAAAAT-TTA
19570218 TAAATTATTAATAATTATAA
1 TAAATTATTAA-AATT-T-A
19570238 TAAATTATTAAAATTTA
1 TAAATTATTAAAATTTA
19570255 TAAA
1 TAAA
19570259 AACATAGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 16 0.44
18 5 0.14
19 4 0.11
20 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTATTAAAATTTA
Found at i:19579866 original size:106 final size:106
Alignment explanation
Indices: 19579664--19580217 Score: 727
Period size: 106 Copynumber: 5.1 Consensus size: 106
19579654 ACGAAAAAGG
* * ** **
19579664 GAAAAAAACGAAAAAAAAAATTTTGGTGCTGGCCTATCAATGGCCAACACCCAGTACAATTTTTT
1 GAAAAAAA-TAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TTTAA
* *
19579729 AAAAAAATCTTTTTTTTTGTGTCAGAGTCAGATATCAGTATAC
64 AAAAAAATCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
*
19579772 GAAAAAAATAAAAAAAAAATTTTGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
1 GAAAAAAATAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
*
19579837 AAAAATCTTTTTTTTCGTGTCAGAATCAGATATTAGTATAC
66 AAAAATCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
* * *
19579878 G-AAAAAATTAAAAAAAAATTTTGGGTGTTGGCCTATCAATGGCCGGCACCCAGTACAATTTAAA
1 GAAAAAAATAAAAAAAAAATTTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAA
*
19579942 AAAAATTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
65 AAAAAATCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
* *
19579984 GAAAAAAATTAAAAAAAAATAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAAA
1 GAAAAAAA-T-----AAAA-AAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA
* ** * *
19580049 ATTAAAAAAATTTCTTTTTTTTTCGTGTCAGAATCAAATATTAGTATAC
59 TTTAAAAAAAAATC-TTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
* * *
19580098 GAAAAAAAT-AAAAAAAAATTTGGGTGCTGGCCAGTCAATGGCCGGCACCTAGTAC-ATTTAAAA
1 GAAAAAAATAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
*
19580161 AAAAATTCTTTTTTTTTTCCTGTCAGAATCAGATATCAGTATAC
66 AAAAA-TC--TTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
19580205 GAAAAAAAATAAA
1 G-AAAAAAATAAA
19580218 CATAACTATA
Statistics
Matches: 400, Mismatches: 32, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
105 30 0.08
106 167 0.42
107 87 0.22
108 17 0.04
109 2 0.00
113 48 0.12
114 49 0.12
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (106 bp):
GAAAAAAATAAAAAAAAAATTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
AAAAATCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
Found at i:19580113 original size:219 final size:215
Alignment explanation
Indices: 19579675--19580217 Score: 778
Period size: 219 Copynumber: 2.5 Consensus size: 215
19579665 AAAAAAACGA
** *
19579675 AAAAAAAAATTTT-GGTGCTGGCCTATCAATGGCCAACACCCAGTACAATTTTTTAAAAAAA-TC
1 AAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAA--TTTAAAAAAAATTC
* * * *
19579738 TTTTTTTTTGTGTCAGAGTCAGATATCAGTATACGAAAAAAAT---AAAAAAAAAATTTTGGTGT
64 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAAAAATTTGGGTGC
* *
19579800 TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATCTTTTTTTTCGTGTCAGAATCA
129 TGGCCTGTCAATGGCCGGCACCCAGTAAAAATTAAAAAAAAATCTTTTTTTTCGTGTCAGAATCA
* *
19579865 GATATTAGTATACGAAAAAATT
194 AATATTAGTATACGAAAAAAAT
*
19579887 AAAAAAAAATTTTGGGTGTTGGCCTATCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTT
1 AAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTT
19579952 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATTAAAAAAAAATAAAAAATTTGGGT
66 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAA-T--AAAAAAA-AAAAAATTTGGGT
**
19580017 GCTGGCCTGTCAATGGCCGGCACCCAGTAAAAATTAAAAAAATTTCTTTTTTTTTCGTGTCAGAA
127 GCTGGCCTGTCAATGGCCGGCACCCAGTAAAAATTAAAAAAAAATC-TTTTTTTTCGTGTCAGAA
19580082 TCAAATATTAGTATACGAAAAAAAT
191 TCAAATATTAGTATACGAAAAAAAT
*
19580107 AAAAAAAAA-TTTGGGTGCTGGCC-AGTCAATGGCCGGCACCTAGTAC-ATTTAAAAAAAAATTC
1 AAAAAAAAATTTTGGGTGCTGGCCTA-TCAATGGCCGGCACCCAGTACAATTT-AAAAAAAATTC
*
19580169 TTTTTTTTTTCCTGTCAGAATCAGATATCAGTATACGAAAAAAAATAAA
64 --TTTTTTTTCGTGTCAGAATCAGATATCAGTATACG-AAAAAAATAAA
19580218 CATAACTATA
Statistics
Matches: 299, Mismatches: 17, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
211 10 0.03
212 55 0.18
213 33 0.11
218 9 0.03
219 100 0.33
220 50 0.17
221 35 0.12
222 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (215 bp):
AAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTT
TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAAAAATTTGGGTGCTG
GCCTGTCAATGGCCGGCACCCAGTAAAAATTAAAAAAAAATCTTTTTTTTCGTGTCAGAATCAAA
TATTAGTATACGAAAAAAAT
Found at i:19581239 original size:55 final size:54
Alignment explanation
Indices: 19581175--19581336 Score: 245
Period size: 55 Copynumber: 3.0 Consensus size: 54
19581165 TCTGACACTC
* * * * *
19581175 TTTTTTTTCATTCAATCTCATTAATTTTAAATTTTTTTTGTACTTATAACACCT
1 TTTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTTCTACATCTAACACCT
*
19581229 TTTTCTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCCTACATCTAACACCT
1 TTTT-TTTTCATTCAATCTCATTTATTTCAAATTTTTTTTCTACATCTAACACCT
19581284 TTTTTTTTCATTCAATCTCATTTATTTCAGAA-TTTTTTTCTACATCTAACACC
1 TTTTTTTTCATTCAATCTCATTTATTTCA-AATTTTTTTTCTACATCTAACACC
19581337 CTTTCTTCAT
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 49 0.49
55 50 0.51
ACGTcount: A:0.25, C:0.20, G:0.01, T:0.54
Consensus pattern (54 bp):
TTTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTTCTACATCTAACACCT
Found at i:19581340 original size:55 final size:53
Alignment explanation
Indices: 19581175--19581336 Score: 243
Period size: 54 Copynumber: 3.0 Consensus size: 53
19581165 TCTGACACTC
* * * * *
19581175 TTTTTTTTCATTCAATCTCATTAATTTTAAATTTTTTTTGTACTTATAACACCT
1 TTTTTTTTCATTCAATCTCATTTATTTCAAA-TTTTTTTCTACATCTAACACCT
19581229 TTTTCTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCCTACATCTAACACCT
1 TTTT-TTTTCATTCAATCTCATTTATTTCAAATTTTTTT-CTACATCTAACACCT
19581284 TTTTTTTTCATTCAATCTCATTTATTTCAGAATTTTTTTCTACATCTAACACC
1 TTTTTTTTCATTCAATCTCATTTATTTCA-AATTTTTTTCTACATCTAACACC
19581337 CTTTCTTCAT
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
54 50 0.50
55 50 0.50
ACGTcount: A:0.25, C:0.20, G:0.01, T:0.54
Consensus pattern (53 bp):
TTTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCTACATCTAACACCT
Found at i:19584461 original size:107 final size:102
Alignment explanation
Indices: 19584347--19584962 Score: 615
Period size: 107 Copynumber: 5.9 Consensus size: 102
19584337 GCACCAAATT
* * *
19584347 TTTTTTTCGTATATTGATATCTGATTCTGACACGAAAAAAAAATTTTAATTGTACTGGGTGCAGA
1 TTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAATTTTAATTGTACTGGGTGCCGG
* * *
19584412 CCACTGACACGCCAACACCCAAAAAAATTGTTTTTTTTTTTA
66 CCATTGACAGGCCAGCACCC-AAAAAA----TTTTTTTTTTA
* * * *
19584454 TTTTTTTCGTATATTGATATCTGATTCTGACACGAAAAAAAAAATTAAAATGTACTGGGTGCCGG
1 TTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAATTTTAATTGTACTGGGTGCCGG
*
19584519 CCATTGACAGGTCAGCACCCAAAAAATTTTTTTTTTTA
66 CCATTGACAGGCCAGCACCCAAAAAA-TTTTTTTTTTA
* * *
19584557 TTTTTTTCGTATACTGATATTTGATTCTGACACGAAAAAAAAA-TTTATTTGTATTGGGTGCCGG
1 TTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAATTTTAATTGTACTGGGTGCCGG
19584621 CCATTGACAGGCCAGCACCC--AAAATTTTTTTTTTA
66 CCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTA
*****
19584656 TTTTTTT-GTATACTGATATCTGATTCTGACACGAAAATTTTTTTTTTTTTAAATTGTACTGGGT
1 TTTTTTTCGTATACTGATATCTGATTCTGACACGAAAA----AAAAATTTT-AATTGTACTGGGT
* *
19584720 GCCGGCAATTGACAGGCCAGCACCCAAAAAAAGATTTTTTTTTA
61 GCCGGCCATTGACAGGCCAGCACCC-AAAAAA-TTTTTTTTTTA
***
19584764 TTTTTTTCGTATACTGATATCTGATTCTGACA--AAAAGAATTTTTTTTAAAATTGTACTGGGTG
1 TTTTTTTCGTATACTGATATCTGATTCTGACACGAAAA-AA-AAATTTT--AATTGTACTGGGTG
* *
19584827 CCGGCCATTGACAGGTCATCACCC--AAAA---TTTTTTTA
62 CCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTA
* * * * *
19584863 CTTTTTTCGTATTCTAATATTTAATTCTGACACGAAAAAAAAAAGAAATTTTTTTTTTAAATTGT
1 TTTTTTTCGTATACTGATATCTGATTCTGACACG----AAAAAA-AAA------TTTT-AATTGT
19584928 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
54 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
19584963 TTTTTTTTTT
Statistics
Matches: 439, Mismatches: 43, Indels: 50
0.83 0.08 0.09
Matches are distributed among these distances:
98 29 0.07
99 53 0.12
100 4 0.01
102 36 0.08
103 60 0.14
104 37 0.08
105 11 0.03
106 42 0.10
107 84 0.19
108 17 0.04
109 61 0.14
110 4 0.01
111 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (102 bp):
TTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAATTTTAATTGTACTGGGTGCCGG
CCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTA
Found at i:19584987 original size:16 final size:16
Alignment explanation
Indices: 19584966--19584996 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19584956 ACCCAAATTT
*
19584966 TTTTTTTTCGTTTTTC
1 TTTTTTTTCCTTTTTC
19584982 TTTTTTTTCCTTTTT
1 TTTTTTTTCCTTTTT
19584997 TCATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCCTTTTTC
Found at i:19584996 original size:17 final size:17
Alignment explanation
Indices: 19584965--19584998 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19584955 CACCCAAATT
*
19584965 TTTTTTTTTCGTTTTTC
1 TTTTTTTTCCGTTTTTC
*
19584982 TTTTTTTTCCTTTTTTC
1 TTTTTTTTCCGTTTTTC
19584999 ATATATTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCCGTTTTTC
Found at i:19590507 original size:16 final size:16
Alignment explanation
Indices: 19590486--19590518 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19590476 TAAATATATA
19590486 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
19590502 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
19590518 T
1 T
19590519 AAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTAAGTTTTTTATGTT
Found at i:19590617 original size:20 final size:20
Alignment explanation
Indices: 19590589--19590629 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19590579 CCCCTGACAG
* *
19590589 TTTAAGTTTTTAATTTTATT
1 TTTAAGTTTTCAATTTCATT
*
19590609 TTTATGTTTTCAATTTCATT
1 TTTAAGTTTTCAATTTCATT
19590629 T
1 T
19590630 CCCCGACATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAAGTTTTCAATTTCATT
Found at i:19590703 original size:13 final size:14
Alignment explanation
Indices: 19590680--19590710 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
19590670 TATTTATTTA
19590680 TTTTTATGTTTAAG
1 TTTTTATGTTTAAG
19590694 TTTTTA-GTTTAAG
1 TTTTTATGTTTAAG
19590707 TTTT
1 TTTT
19590711 CAATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (14 bp):
TTTTTATGTTTAAG
Found at i:19590717 original size:19 final size:19
Alignment explanation
Indices: 19590695--19590760 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
19590685 ATGTTTAAGT
*
19590695 TTTTAGTTTAAGTTTTCAA
1 TTTTATTTTAAGTTTTCAA
*
19590714 TTTTATTTTTATGTTTTCAA
1 TTTTA-TTTTAAGTTTTCAA
*
19590734 TTTTATTTTTAGTTTTCAA
1 TTTTATTTTAAGTTTTCAA
*
19590753 TTTCATTT
1 TTTTATTT
19590761 CCCCGACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTATTTTAAGTTTTCAA
Found at i:19590730 original size:20 final size:20
Alignment explanation
Indices: 19590676--19590760 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
19590666 TATTTATTTA
19590676 TTTATTTTTATG-TTT-AAGT
1 TTTATTTTTATGTTTTCAA-T
* *
19590695 TTT-TAGTTTAAGTTTTCAAT
1 TTTAT-TTTTATGTTTTCAAT
19590715 TTTATTTTTATGTTTTCAAT
1 TTTATTTTTATGTTTTCAAT
19590735 TTTATTTTTA-GTTTTCAAT
1 TTTATTTTTATGTTTTCAAT
*
19590754 TTCATTT
1 TTTATTT
19590761 CCCCGACAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.02
19 23 0.40
20 30 0.53
21 3 0.05
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTATTTTTATGTTTTCAAT
Found at i:19590738 original size:39 final size:38
Alignment explanation
Indices: 19590676--19590760 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 38
19590666 TATTTATTTA
19590676 TTTATTTTTATGTTTAAGTTTTTAGTTTAAGTTTTCAAT
1 TTTATTTTTATGTTTAAG-TTTTAGTTTAAGTTTTCAAT
* *
19590715 TTTATTTTTATGTTTTCAA-TTTTATTTTTAGTTTTCAAT
1 TTTATTTTTATG-TTT-AAGTTTTAGTTTAAGTTTTCAAT
*
19590754 TTCATTT
1 TTTATTT
19590761 CCCCGACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
39 36 0.88
40 3 0.07
41 2 0.05
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (38 bp):
TTTATTTTTATGTTTAAGTTTTAGTTTAAGTTTTCAAT
Found at i:19591010 original size:16 final size:15
Alignment explanation
Indices: 19590989--19591023 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
19590979 TTGTTACAAT
*
19590989 AATTAATATAATTAA
1 AATTAATACAATTAA
19591004 CAATTAATACAATTAA
1 -AATTAATACAATTAA
19591020 AATT
1 AATT
19591024 TGATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTAATACAATTAA
Found at i:19591114 original size:16 final size:16
Alignment explanation
Indices: 19591093--19591134 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
19591083 AATAATTTGA
*
19591093 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
19591109 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
19591125 TAGTTTTAAT
1 TAATTTTAAT
19591135 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:19591695 original size:14 final size:14
Alignment explanation
Indices: 19591678--19591713 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19591668 ATAATATCCA
19591678 AATAATAACAACAG
1 AATAATAACAACAG
* *
19591692 AATAATAACAATAT
1 AATAATAACAACAG
19591706 AATAATAA
1 AATAATAA
19591714 AATGACAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.22
Consensus pattern (14 bp):
AATAATAACAACAG
Found at i:19598366 original size:22 final size:23
Alignment explanation
Indices: 19598338--19598406 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 23
19598328 TATGTACTAT
19598338 TAAACAGAGAGCACTAAA-ATGC
1 TAAACAGAGAGCACTAAATATGC
* *
19598360 TATACAGAGAGCA-TAAATGTGC
1 TAAACAGAGAGCACTAAATATGC
* *
19598382 TAAACGGAGAGCACT-AATGTGC
1 TAAACAGAGAGCACTAAATATGC
19598404 TAA
1 TAA
19598407 TAATTGGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.10
22 36 0.88
23 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATATGC
Found at i:19607246 original size:43 final size:43
Alignment explanation
Indices: 19607198--19607304 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
19607188 TCCTAGATAT
* * * *
19607198 GGTCTTACATGTTAT-TACATATCGATGCCACTGTCCCAGACGG
1 GGTCTTACACGTAATCT-CATATCGATGCCAATGTCCCAGACAG
*
19607241 GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAG
19607284 GGTCTTACACGTAATCTCATA
1 GGTCTTACACGTAATCTCATA
19607305 CCTCAGAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 57 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAG
Found at i:19612698 original size:21 final size:22
Alignment explanation
Indices: 19612669--19612715 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
19612659 CAGAAGGAGT
*
19612669 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
19612691 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
19612712 GAGT
1 GAGT
19612716 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:19622844 original size:21 final size:21
Alignment explanation
Indices: 19622815--19622915 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 21
19622805 AAAGCCCGAA
* *
19622815 GGCTGAACAGAAGCACATAAG
1 GGCTAAACAGAAGCTCATAAG
* * *
19622836 TGCTAAACAGAAACCCATAAG
1 GGCTAAACAGAAGCTCATAAG
* * *
19622857 GGTTGAACGGAAGCTCATAAG
1 GGCTAAACAGAAGCTCATAAG
* *
19622878 AGCTAAAC-GAAAACTCATAAG
1 GGCTAAACAG-AAGCTCATAAG
*
19622899 GGTTAAACAGAAGCTCA
1 GGCTAAACAGAAGCTCA
19622916 AAAGAGCTGA
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (21 bp):
GGCTAAACAGAAGCTCATAAG
Found at i:19622877 original size:42 final size:41
Alignment explanation
Indices: 19622818--19622969 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
19622808 GCCCGAAGGC
* *
19622818 TGAACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGT
* *
19622860 TGAACGGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACG-AAACCCATAAGGGT
* * * *
19622902 TAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGT
* * * *
19622944 TGAACGGAAACTCATATGAGTTAAAC
1 TGAACAGAAGCTCATAAGAGCTAAAC
19622970 ATAAACTCGT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 89 0.98
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (41 bp):
TGAACAGAAGCTCATAAGAGCTAAACGAAACCCATAAGGGT
Found at i:19622969 original size:84 final size:84
Alignment explanation
Indices: 19622820--19622977 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
19622810 CCGAAGGCTG
* * *
19622820 AACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTAAA
1 AACAGAAGCACAAAAGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAACTCATAAGAGCTAAA
19622885 CGA-AAACTCATAAGGGTTA
66 C-ATAAACTCATAAGGGTTA
* * * * * *
19622904 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTGAACGGAAACTCATATGAGTTAAA
1 AACAGAAGCACAAAAGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAACTCATAAGAGCTAAA
19622969 CATAAACTC
66 CATAAACTC
19622978 GTGAGAGCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 1 0.02
84 63 0.98
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (84 bp):
AACAGAAGCACAAAAGAGCTAAACAGAAACCCATAAGGGTTGAACGGAAACTCATAAGAGCTAAA
CATAAACTCATAAGGGTTA
Found at i:19625500 original size:25 final size:24
Alignment explanation
Indices: 19625451--19625527 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
19625441 TTTCAGCTCT
* *
19625451 TATGAGCTTCCCCTTCTACAGCTCG
1 TATGAGCTTCCCGTT-TACAACTCG
19625476 TATGAGCTTCCCGTTATTA-AACTCG
1 TATGAGCTTCCCG-T-TTACAACTCG
* *
19625501 GAGGAGCTTCCCGTTTACAACTCG
1 TATGAGCTTCCCGTTTACAACTCG
19625525 TAT
1 TAT
19625528 AAGCATACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
23 3 0.07
24 8 0.19
25 28 0.65
26 3 0.07
27 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (24 bp):
TATGAGCTTCCCGTTTACAACTCG
Found at i:19627756 original size:13 final size:11
Alignment explanation
Indices: 19627728--19627770 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
19627718 AGCTAAATAT
19627728 TATTTTATTAA
1 TATTTTATTAA
19627739 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
19627752 TA-TTTATTAT
1 TATTTTATTAA
19627762 TATTTTATT
1 TATTTTATT
19627771 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:19627757 original size:23 final size:23
Alignment explanation
Indices: 19627731--19627774 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19627721 TAAATATTAT
19627731 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
19627754 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
19627775 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:19631537 original size:41 final size:41
Alignment explanation
Indices: 19631475--19631610 Score: 166
Period size: 41 Copynumber: 3.3 Consensus size: 41
19631465 GGAGATAGTG
* *
19631475 TAGCAGGCTTTGTACCAGTGTATATTATCAGGCTTTGTGCC
1 TAGCAGGCTTTGTACCAGTGTATATTATCAGGCCTTGAGCC
* *
19631516 TAGCAAGCTTTGTACCTGTGTATATTATCAGGCCTTGAGCC
1 TAGCAGGCTTTGTACCAGTGTATATTATCAGGCCTTGAGCC
* * * * * *
19631557 TAGCAGGCTTCGTGCCGGTGAAT-TATATCAAGCCTTGGGCC
1 TAGCAGGCTTTGTACCAGTGTATAT-TATCAGGCCTTGAGCC
19631598 TAGCAGGCTTTGT
1 TAGCAGGCTTTGT
19631611 GTCGGTGTAA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 81 0.99
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (41 bp):
TAGCAGGCTTTGTACCAGTGTATATTATCAGGCCTTGAGCC
Found at i:19634996 original size:63 final size:63
Alignment explanation
Indices: 19634924--19635050 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
19634914 ATAAATTATA
*
19634924 TGTTTTAAATATTTATGATTGTTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
1 TGTTTTAAATATTTATGATTATTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
* *
19634987 TGTTTTAAATATTTATGATTATTTTTAAATAGTAAAATGGACCAAACAGACAGAGTTTGAAGT
1 TGTTTTAAATATTTATGATTATTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
19635050 T
1 T
19635051 TGAAGTGGGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (63 bp):
TGTTTTAAATATTTATGATTATTTTTAAATAGTAAAATGGACCAAACAGAAAGAGTTTCAAGT
Found at i:19644333 original size:21 final size:22
Alignment explanation
Indices: 19644304--19644350 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
19644294 CAGAAGGAGT
*
19644304 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
19644326 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
19644347 GAGT
1 GAGT
19644351 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:19647341 original size:127 final size:127
Alignment explanation
Indices: 19647115--19647368 Score: 499
Period size: 127 Copynumber: 2.0 Consensus size: 127
19647105 CATATGAGAA
19647115 AGCCATATACTTCGTCATAATCATACAAAACTATCTTTCACCATAAATGCTTAAACTTCAAGGGC
1 AGCCATATACTTCGTCATAATCATACAAAACTATCTTTCACCATAAATGCTTAAACTTCAAGGGC
19647180 CATAATAATGTGCTATAATGTTAAAAGGTAGGTTCTGGAGTTAGTACATCATAGTTGGCTGT
66 CATAATAATGTGCTATAATGTTAAAAGGTAGGTTCTGGAGTTAGTACATCATAGTTGGCTGT
*
19647242 AGCCATATACTTCGTCATAATCATACAAAACTATCTTTCACCATAAATGCTTAAATTTCAAGGGC
1 AGCCATATACTTCGTCATAATCATACAAAACTATCTTTCACCATAAATGCTTAAACTTCAAGGGC
19647307 CATAATAATGTGCTATAATGTTAAAAGGTAGGTTCTGGAGTTAGTACATCATAGTTGGCTGT
66 CATAATAATGTGCTATAATGTTAAAAGGTAGGTTCTGGAGTTAGTACATCATAGTTGGCTGT
19647369 TGCTGTGCAG
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 126 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (127 bp):
AGCCATATACTTCGTCATAATCATACAAAACTATCTTTCACCATAAATGCTTAAACTTCAAGGGC
CATAATAATGTGCTATAATGTTAAAAGGTAGGTTCTGGAGTTAGTACATCATAGTTGGCTGT
Found at i:19653885 original size:30 final size:30
Alignment explanation
Indices: 19653847--19653903 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
19653837 CGAATGAGGG
19653847 CAAACTTTT-AAAAATGGTCAAATAAATAC
1 CAAACTTTTCAAAAATGGTCAAATAAATAC
* *
19653876 CAAACCTTTTCAAAAGTGTTCAAATAAA
1 CAAA-CTTTTCAAAAATGGTCAAATAAA
19653904 AGCATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 5 0.21
31 15 0.62
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
CAAACTTTTCAAAAATGGTCAAATAAATAC
Found at i:19656795 original size:18 final size:18
Alignment explanation
Indices: 19656772--19656814 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
19656762 GTGACAAGTG
19656772 TGTGTAATTATAAATACA
1 TGTGTAATTATAAATACA
19656790 TGTGTAATTATAAATACA
1 TGTGTAATTATAAATACA
19656808 TGTGTAA
1 TGTGTAA
19656815 AAAGATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (18 bp):
TGTGTAATTATAAATACA
Found at i:19656824 original size:20 final size:18
Alignment explanation
Indices: 19656781--19656825 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19656771 GTGTGTAATT
**
19656781 ATAAATACATGTGTAATT
1 ATAAATACATGTGTAAAG
19656799 ATAAATACATGTGTAAAAAG
1 ATAAATACATGTGT--AAAG
19656819 ATAAATA
1 ATAAATA
19656826 TATACAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 14 0.61
20 9 0.39
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.31
Consensus pattern (18 bp):
ATAAATACATGTGTAAAG
Found at i:19656873 original size:18 final size:18
Alignment explanation
Indices: 19656854--19656889 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19656844 ATATTGTATA
19656854 TTAAATATATATTTATTAT
1 TTAAA-ATATATTTATTAT
*
19656873 TTAAAAGATATTTATTA
1 TTAAAATATATTTATTA
19656890 GATAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAAAATATATTTATTAT
Found at i:19664453 original size:31 final size:31
Alignment explanation
Indices: 19664418--19664481 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
19664408 TAGCCGAGTA
19664418 ACTTAAATCAAAACTTT-TGAATAGTTTAGTG
1 ACTTAAATCAAAA-TTTCTGAATAGTTTAGTG
* *
19664449 ACTTAAATGAGAATTTCTGAATAGTTTAGTG
1 ACTTAAATCAAAATTTCTGAATAGTTTAGTG
19664480 AC
1 AC
19664482 CAAACTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (31 bp):
ACTTAAATCAAAATTTCTGAATAGTTTAGTG
Found at i:19669573 original size:26 final size:26
Alignment explanation
Indices: 19669534--19669584 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19669524 ATCCTTTAAC
*
19669534 TTGTTATTTATTATT-TCATTTAAAT
1 TTGTTATCTATTATTATCATTTAAAT
*
19669559 TTGTATATCTATTATTATTATTTAAA
1 TTGT-TATCTATTATTATCATTTAAA
19669585 CGGTTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 10 0.45
27 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTGTTATCTATTATTATCATTTAAAT
Found at i:19673231 original size:34 final size:34
Alignment explanation
Indices: 19673193--19673258 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
19673183 CAATATTTTA
19673193 ATTCTTTACAAACAATTCCAGATTCATTCATTTC
1 ATTCTTTACAAACAATTCCAGATTCATTCATTTC
19673227 ATTCTTTACAAACAATTCCAGATTCATTCATT
1 ATTCTTTACAAACAATTCCAGATTCATTCATT
19673259 CTTTTGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (34 bp):
ATTCTTTACAAACAATTCCAGATTCATTCATTTC
Found at i:19673899 original size:37 final size:39
Alignment explanation
Indices: 19673858--19674008 Score: 125
Period size: 38 Copynumber: 3.9 Consensus size: 39
19673848 AAAGGATTAG
19673858 ATCAAA-A-AAAAAGAAGAAAAAAGAAAAAAAAATCAAA
1 ATCAAAGACAAAAAGAAGAAAAAAGAAAAAAAAATCAAA
* **
19673895 ATCAAAGTA-AAAAA-AATG-AAAATGAAAAATCAATCAAA
1 ATCAAAG-ACAAAAAGAA-GAAAAAAGAAAAAAAAATCAAA
* *
19673933 ATCAAAAACAAAAAGAAGAAAAAAAAGAAAAATTAAAATCAAG
1 ATCAAAGACAAAAAGAAG--AAAAAAGAAAAA--AAAATCAAA
* * **
19673976 GTCAAAGAGAAAAAGAA-AAAGGAGAAAAAAAAA
1 ATCAAAGACAAAAAGAAGAAAAAAGAAAAAAAAA
19674009 AGAGAGGCCA
Statistics
Matches: 91, Mismatches: 13, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
37 7 0.08
38 35 0.38
39 9 0.10
40 10 0.11
41 10 0.11
43 20 0.22
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (39 bp):
ATCAAAGACAAAAAGAAGAAAAAAGAAAAAAAAATCAAA
Found at i:19673901 original size:21 final size:21
Alignment explanation
Indices: 19673877--19673917 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19673867 AAAGAAGAAA
19673877 AAAGAAAAAAAAATCAAAATC
1 AAAGAAAAAAAAATCAAAATC
* *
19673898 AAAGTAAAAAAAATGAAAAT
1 AAAGAAAAAAAAATCAAAAT
19673918 GAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAGAAAAAAAAATCAAAATC
Found at i:19673940 original size:32 final size:30
Alignment explanation
Indices: 19673874--19673940 Score: 73
Period size: 32 Copynumber: 2.1 Consensus size: 30
19673864 AAAAAAGAAG
*
19673874 AAAAAAGAAAAAAAAATCAAAATCAAAGTAA
1 AAAAAAGAAAAAAAAATC-AAATCAAAATAA
*
19673905 AAAAAATGAAAATGAAAAATC-AATCAAAATCA
1 AAAAAA-GAAAA--AAAAATCAAATCAAAATAA
19673937 AAAA
1 AAAA
19673941 CAAAAAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 6 0.19
32 18 0.58
34 7 0.23
ACGTcount: A:0.75, C:0.07, G:0.06, T:0.12
Consensus pattern (30 bp):
AAAAAAGAAAAAAAAATCAAATCAAAATAA
Found at i:19673954 original size:32 final size:31
Alignment explanation
Indices: 19673858--19673957 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 31
19673848 AAAGGATTAG
**
19673858 ATCAAAAAAAAAGAAGAAAAAAGAA-AAAAAA
1 ATCAAAATCAAAGAA-AAAAAAGAAGAAAAAA
19673889 ATCAAAATCAAAGTAAAAAAAATGAAAATGAAAAATCA
1 ATCAAAATCAAAG-AAAAAAAA-G--AA-GAAAAA--A
*
19673927 ATCAAAATCAAA-AACAAAAAGAAGAAAAAA
1 ATCAAAATCAAAGAAAAAAAAGAAGAAAAAA
19673957 A
1 A
19673958 AGAAAAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
30 2 0.03
31 17 0.29
32 9 0.16
33 2 0.03
34 2 0.03
35 1 0.02
36 12 0.21
38 13 0.22
ACGTcount: A:0.76, C:0.07, G:0.08, T:0.09
Consensus pattern (31 bp):
ATCAAAATCAAAGAAAAAAAAGAAGAAAAAA
Found at i:19674013 original size:13 final size:14
Alignment explanation
Indices: 19673979--19674013 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
19673969 AATCAAGGTC
19673979 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
19673993 AAAGGAGAAAAA-AA
1 AAA-GAGAAAAAGAA
19674007 AAAGAGA
1 AAAGAGA
19674014 GGCCAAGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:19676404 original size:128 final size:128
Alignment explanation
Indices: 19676048--19676393 Score: 539
Period size: 128 Copynumber: 2.7 Consensus size: 128
19676038 ACAGATCAGT
19676048 GAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
1 GAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
* * *
19676113 AACTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTAACCAGCGGTAGAATAGGTTG
66 AAATGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTAACCAGCAGTAGAAGAGGTTG
* * *
19676176 GAAATTGTAGATCTTGTCTCCCTAAGCAGTTGCAGAGCAGATCGAAGACGGCGAATCTTATCTTC
1 GAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
* * * * * *
19676241 AAGTATAAGGAAGTAGATTTAAGCTACAAGTCCTATGTCCCTGACCAGCAGTGGAAGAGGTTG
66 AAATGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTAACCAGCAGTAGAAGAGGTTG
* *
19676304 GAAATTGCAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTT
1 GAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
* * *
19676369 AAATGTAAGAAAGCATATTGAAGCC
66 AAATGTAAGGAAGCAGATTTAAGCC
19676394 GATAATCCTA
Statistics
Matches: 195, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 195 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (128 bp):
GAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
AAATGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTAACCAGCAGTAGAAGAGGTTG
Found at i:19678048 original size:26 final size:26
Alignment explanation
Indices: 19678009--19678059 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19677999 ATCCTTTAAC
*
19678009 TTGTTATTTATTATT-TCATTTAAAT
1 TTGTTATCTATTATTATCATTTAAAT
*
19678034 TTGTATATCTATTATTATTATTTAAA
1 TTGT-TATCTATTATTATCATTTAAA
19678060 CGGTTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 10 0.45
27 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTGTTATCTATTATTATCATTTAAAT
Found at i:19683264 original size:18 final size:18
Alignment explanation
Indices: 19683222--19683256 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19683212 ATAAAAAAAT
19683222 AAAAAA-TT-TAAAATTC
1 AAAAAATTTATAAAATTC
19683238 AAAAAATTTATAAAATTC
1 AAAAAATTTATAAAATTC
19683256 A
1 A
19683257 TAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATTTATAAAATTC
Found at i:19683585 original size:19 final size:19
Alignment explanation
Indices: 19683558--19683604 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19683548 TATTTCATTC
*
19683558 AATTTAATTAAAAT-ATACA
1 AATTAAATTAAAATAATA-A
19683577 AATTAAATTAAAATAATAA
1 AATTAAATTAAAATAATAA
*
19683596 AATAAAATT
1 AATTAAATT
19683605 CATTAACTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTAAATTAAAATAATAA
Found at i:19689192 original size:29 final size:29
Alignment explanation
Indices: 19689155--19689212 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
19689145 TATTTGTATG
* * *
19689155 TTAGGGTTTAGGGTTTTTGGAATAATAAA
1 TTAGAGTTTAGGGTTTTTGAAAAAATAAA
19689184 TTAGAGTTTAGGGTTTTTGAAAAAATAAA
1 TTAGAGTTTAGGGTTTTTGAAAAAATAAA
19689213 CAATAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (29 bp):
TTAGAGTTTAGGGTTTTTGAAAAAATAAA
Found at i:19689291 original size:29 final size:28
Alignment explanation
Indices: 19689230--19689296 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
19689220 TCTTAAATCT
**
19689230 TAAACCCTAATTTATTTTTTTAAACCCA
1 TAAACCCTAATTTATTTTTAAAAACCCA
19689258 TAAACCCTAATTTATTTTTCCAAAAACCC-
1 TAAACCCTAATTTATTTTT--AAAAACCCA
*
19689287 TAAACACTAA
1 TAAACCCTAA
19689297 CATACAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 19 0.56
29 9 0.26
30 6 0.18
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (28 bp):
TAAACCCTAATTTATTTTTAAAAACCCA
Done.