Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 162 of 171
Found at i:48181413 original size:8 final size:9
Alignment explanation
Indices: 48181364--48181470 Score: 78
Period size: 9 Copynumber: 11.6 Consensus size: 9
48181354 GTGGCACATT
48181364 TTTTATATAA
1 TTTT-TATAA
48181374 TTTTTTATAA
1 -TTTTTATAA
*
48181384 TTTTAATAA
1 TTTTTATAA
* *
48181393 ATTTTAAATA
1 TTTTTATA-A
48181403 TTTTTAT-A
1 TTTTTATAA
48181411 TTTTTATTAA
1 TTTTTA-TAA
48181421 TATTTTATAA
1 T-TTTTATAA
48181431 TTTTTTATAA
1 -TTTTTATAA
* *
48181441 CTTTTATTGA
1 TTTTTA-TAA
48181451 -TTTT-T-A
1 TTTTTATAA
48181457 TTTTTATAA
1 TTTTTATAA
48181466 TTTTT
1 TTTTT
48181471 TTTACATGTC
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.01
7 5 0.06
8 8 0.10
9 29 0.37
10 26 0.33
11 10 0.13
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48181447 original size:19 final size:17
Alignment explanation
Indices: 48181376--48181469 Score: 66
Period size: 19 Copynumber: 5.2 Consensus size: 17
48181366 TTATATAATT
*
48181376 TTTTATAATTTTAATAAA
1 TTTTATAATTTTTAT-AA
* *
48181394 TTTTAAATATTTTTATAT
1 TTTTATA-ATTTTTATAA
48181412 TTTTATTAATATTTTATAA
1 TTTTA-TAAT-TTTTATAA
* *
48181431 TTTTTTATAACTTTTATTGA
1 --TTTTATAATTTTTA-TAA
48181451 TTTT-T-ATTTTTATAA
1 TTTTATAATTTTTATAA
48181466 TTTT
1 TTTT
48181470 TTTTACATGT
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
15 6 0.10
16 6 0.10
17 1 0.02
18 18 0.30
19 20 0.33
20 5 0.08
21 5 0.08
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (17 bp):
TTTTATAATTTTTATAA
Found at i:48181733 original size:88 final size:88
Alignment explanation
Indices: 48181572--48181733 Score: 204
Period size: 88 Copynumber: 1.8 Consensus size: 88
48181562 AGCAAAAAAC
* * **
48181572 CTTTTTGATGCATTTTAACAATTCAAGTACTCAATTATGTGTAAAAAAAAAAGTAGGGATTAATT
1 CTTTTTGATGCATTTTAACAATTCAAGTACCCAATTATGTGCAAAAAAAAAACAAGGGATTAATT
*
48181637 ATTATTTTTTTAAGTTTGAGGGT
66 ACTATTTTTTTAAGTTTGAGGGT
* *
48181660 CTTTTTGATGTATTTTAA-AAGTTCAAGTACCCAATTGA-GTGCAAAAAAATAAACAAGGGCTTA
1 CTTTTTGATGCATTTTAACAA-TTCAAGTACCCAATT-ATGTGCAAAAAAA-AAACAAGGGATTA
*
48181723 ATTGCT-TTTTT
63 ATTACTATTTTT
48181734 AAAAAAGTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
87 2 0.03
88 46 0.73
89 15 0.24
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (88 bp):
CTTTTTGATGCATTTTAACAATTCAAGTACCCAATTATGTGCAAAAAAAAAACAAGGGATTAATT
ACTATTTTTTTAAGTTTGAGGGT
Found at i:48181987 original size:27 final size:28
Alignment explanation
Indices: 48181956--48182008 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
48181946 TTAAATGGTT
* * *
48181956 TTTATTAATTTT-TTTATTCTTTTAAAA
1 TTTATGAATTTTATTTAATATTTTAAAA
48181983 TTTATGAATTTTATTTAATATTTTAA
1 TTTATGAATTTTATTTAATATTTTAA
48182009 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTATGAATTTTATTTAATATTTTAAAA
Found at i:48183055 original size:12 final size:12
Alignment explanation
Indices: 48183016--48183103 Score: 54
Period size: 12 Copynumber: 7.2 Consensus size: 12
48183006 AACTTAATCA
* *
48183016 AACATGTTCACG
1 AACATGTTAATG
* *
48183028 AACAT-TAAACG
1 AACATGTTAATG
*
48183039 AACATGTTCATG
1 AACATGTTAATG
*
48183051 AACAT-ATAATTG
1 AACATGTTAA-TG
48183063 AACATGTTTACATG
1 AACATG-TTA-ATG
* *
48183077 AACATGTTTACG
1 AACATGTTAATG
48183089 AACAATGTTAATG
1 AAC-ATGTTAATG
48183102 AA
1 AA
48183104 TAATAAACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
11 11 0.19
12 25 0.43
13 11 0.19
14 10 0.17
15 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (12 bp):
AACATGTTAATG
Found at i:48183070 original size:24 final size:23
Alignment explanation
Indices: 48182993--48183081 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 23
48182983 AATGTTCACT
* * *
48182993 AACATGTTCATTTAAC-TTAATCA
1 AACATGTTCA-TGAACATTAAACG
*
48183016 AACATGTTCACGAACATTAAACG
1 AACATGTTCATGAACATTAAACG
**
48183039 AACATGTTCATGAACATATAATTG
1 AACATGTTCATGAACAT-TAAACG
48183063 AACATGTTTACATGAACAT
1 AACATG-TT-CATGAACAT
48183082 GTTTACGAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
22 3 0.05
23 31 0.56
24 10 0.18
25 2 0.04
26 9 0.16
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (23 bp):
AACATGTTCATGAACATTAAACG
Found at i:48183080 original size:14 final size:14
Alignment explanation
Indices: 48183061--48183087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48183051 AACATATAAT
48183061 TGAACATGTTTACA
1 TGAACATGTTTACA
48183075 TGAACATGTTTAC
1 TGAACATGTTTAC
48183088 GAACAATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
TGAACATGTTTACA
Found at i:48190006 original size:16 final size:15
Alignment explanation
Indices: 48189972--48190007 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
48189962 TATTTTAAAG
48189972 AAAAATAAATATAGT
1 AAAAATAAATATAGT
*
48189987 AAAAATAAATGTAGT
1 AAAAATAAATATAGT
48190002 AAAAAT
1 AAAAAT
48190008 CTTGGTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (15 bp):
AAAAATAAATATAGT
Found at i:48192172 original size:24 final size:24
Alignment explanation
Indices: 48192137--48192191 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
48192127 AGAGAATGAA
*
48192137 AAAAAAAGTTAAAATAATATAAAAG
1 AAAAAAAGTTAAAATAATA-AAAAC
* *
48192162 AAAAAAA-TTAAATTATTAAAAAC
1 AAAAAAAGTTAAAATAATAAAAAC
48192185 AAAAAAA
1 AAAAAAA
48192192 ATATGAGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 11 0.41
24 9 0.33
25 7 0.26
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAAAAAGTTAAAATAATAAAAAC
Found at i:48192192 original size:24 final size:24
Alignment explanation
Indices: 48192135--48192193 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
48192125 AAAGAGAATG
*
48192135 AAAAAAAAAGTTAAAATAATATAA
1 AAAAAAAAAATTAAAATAATATAA
* * *
48192159 AAGAAAAAAATTAAATTATTA-AA
1 AAAAAAAAAATTAAAATAATATAA
48192182 AACAAAAAAAAT
1 AA-AAAAAAAAT
48192194 ATGAGGACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (24 bp):
AAAAAAAAAATTAAAATAATATAA
Found at i:48199079 original size:8 final size:8
Alignment explanation
Indices: 48199066--48199092 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
48199056 GTATAGAAAA
48199066 ATAATTTT
1 ATAATTTT
48199074 ATAATTTT
1 ATAATTTT
48199082 ATAATTTT
1 ATAATTTT
48199090 ATA
1 ATA
48199093 CAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATAATTTT
Found at i:48201758 original size:7 final size:7
Alignment explanation
Indices: 48201746--48201866 Score: 81
Period size: 7 Copynumber: 17.6 Consensus size: 7
48201736 CCCTAATCAT
48201746 ATAACCC
1 ATAACCC
48201753 ATAACCC
1 ATAACCC
48201760 -TAAACCC
1 AT-AACCC
48201767 ATAACCC
1 ATAACCC
*
48201774 ATAACCT
1 ATAACCC
* **
48201781 AAAATTC
1 ATAACCC
48201788 ATAA-CC
1 ATAACCC
*
48201794 ATAACAC
1 ATAACCC
* *
48201801 AAAATCC
1 ATAACCC
*
48201808 -TAAACC
1 ATAACCC
*
48201814 TTAAACCC
1 AT-AACCC
48201822 ATAACCC
1 ATAACCC
48201829 ATAACCC
1 ATAACCC
48201836 ATAA-CC
1 ATAACCC
*
48201842 ATAACAC
1 ATAACCC
*
48201849 AAAACCC
1 ATAACCC
48201856 -TAAACCC
1 AT-AACCC
48201863 ATAA
1 ATAA
48201867 TCATATAATC
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
6 16 0.18
7 64 0.74
8 7 0.08
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAACCC
Found at i:48201760 original size:21 final size:21
Alignment explanation
Indices: 48201734--48201783 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
48201724 TGAAACTTTA
* *
48201734 AACCCTAATCATATAACCCAT
1 AACCCTAAACACATAACCCAT
*
48201755 AACCCTAAACCCATAACCCAT
1 AACCCTAAACACATAACCCAT
48201776 AA-CCTAAA
1 AACCCTAAA
48201784 ATTCATAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (21 bp):
AACCCTAAACACATAACCCAT
Found at i:48201810 original size:48 final size:48
Alignment explanation
Indices: 48201746--48201866 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
48201736 CCCTAATCAT
* * * **
48201746 ATAACCCATAACCCTAAACCCATAACCCATAACCTAAAATTCATAACC
1 ATAACACAAAACCCTAAACCCATAACCCATAACCCAAAACCCATAACC
* * *
48201794 ATAACACAAAATCCTAAA-CCTTAAACCCATAACCCATAACCCATAACC
1 ATAACACAAAACCCTAAACCCAT-AACCCATAACCCAAAACCCATAACC
48201842 ATAACACAAAACCCTAAACCCATAA
1 ATAACACAAAACCCTAAACCCATAA
48201867 TCATATAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
47 3 0.05
48 55 0.90
49 3 0.05
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.17
Consensus pattern (48 bp):
ATAACACAAAACCCTAAACCCATAACCCATAACCCAAAACCCATAACC
Found at i:48201832 original size:41 final size:41
Alignment explanation
Indices: 48201787--48201866 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
48201777 ACCTAAAATT
* *
48201787 CATAA-CCATAACACAAAATC-CTAAACCTTAAACCCATAACC
1 CATAACCCATAAC-CAAAA-CACAAAACCCTAAACCCATAACC
*
48201828 CATAACCCATAACCATAACACAAAACCCTAAACCCATAA
1 CATAACCCATAACCAAAACACAAAACCCTAAACCCATAA
48201867 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 1 0.03
41 26 0.76
42 7 0.21
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (41 bp):
CATAACCCATAACCAAAACACAAAACCCTAAACCCATAACC
Found at i:48201924 original size:21 final size:21
Alignment explanation
Indices: 48201856--48201926 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
48201846 CACAAAACCC
*
48201856 TAAACCCAT-AATCATATAATCC
1 TAAA-CCATAAATCATA-AATCA
*
48201878 TAAACTC-TAAATCCTAAATCA
1 TAAAC-CATAAATCATAAATCA
* *
48201899 CAAACCATAAATCATAAATCT
1 TAAACCATAAATCATAAATCA
48201920 TAAACCA
1 TAAACCA
48201927 CAAACCCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 11 0.28
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCATAAATCATAAATCA
Found at i:48201937 original size:21 final size:21
Alignment explanation
Indices: 48201885--48201965 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
48201875 TCCTAAACTC
* **
48201885 TAAATCCTAAATCACAAACCA
1 TAAACCCTAAATCTTAAACCA
* *
48201906 TAAATCATAAATCTTAAACCA
1 TAAACCCTAAATCTTAAACCA
* * *
48201927 CAAACCCTAAACCCTAAA-CA
1 TAAACCCTAAATCTTAAACCA
48201947 TATAACCCTAAATCTTAAA
1 TA-AACCCTAAATCTTAAA
48201966 TATTAAACAT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 3 0.06
21 45 0.94
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAATCTTAAACCA
Found at i:48202000 original size:28 final size:27
Alignment explanation
Indices: 48201928--48202001 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
48201918 CTTAAACCAC
*
48201928 AAACCCTAAACCCTAAACATATAACCCT
1 AAACCCT-AACTCTAAACATATAACCCT
* * * * *
48201956 AAATCTTAAATATTAAACATATAACCTT
1 AAACCCTAACT-CTAAACATATAACCCT
48201984 AAACCCTAAGCTCTAAAC
1 AAACCCTAA-CTCTAAAC
48202002 CATAAATATA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
27 2 0.06
28 31 0.91
29 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.24
Consensus pattern (27 bp):
AAACCCTAACTCTAAACATATAACCCT
Found at i:48202050 original size:14 final size:14
Alignment explanation
Indices: 48201998--48202050 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
48201988 CCTAAGCTCT
*
48201998 AAACCATAAATATA
1 AAACCATAAACATA
*
48202012 AAACCCT-AACAATA
1 AAACCATAAAC-ATA
*
48202026 AAACCCTAAACATA
1 AAACCATAAACATA
48202040 AAACCATAAAC
1 AAACCATAAAC
48202051 CCTAAGCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.06
14 29 0.85
15 3 0.09
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCATAAACATA
Found at i:48202050 original size:21 final size:21
Alignment explanation
Indices: 48202026--48202070 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
48202016 CCTAACAATA
48202026 AAACCCTAAACATAAAACCAT
1 AAACCCTAAACATAAAACCAT
* *
48202047 AAACCCTAAGCATAAAACTAT
1 AAACCCTAAACATAAAACCAT
48202068 AAA
1 AAA
48202071 ACTATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.24, G:0.02, T:0.16
Consensus pattern (21 bp):
AAACCCTAAACATAAAACCAT
Found at i:48205185 original size:55 final size:55
Alignment explanation
Indices: 48205126--48205229 Score: 181
Period size: 55 Copynumber: 1.9 Consensus size: 55
48205116 TTGTCTTAAT
* *
48205126 TGTTGAAATACTGCTTCTTTTGAATCAATTTTTTATATGTTTAAATCGATTGTCA
1 TGTTGAAATACTGCTTCTTTTGAATCAATTATTTATATATTTAAATCGATTGTCA
*
48205181 TGTTGAAATACTGTTTCTTTTGAATCAATTATTTATATATTTAAATCGA
1 TGTTGAAATACTGCTTCTTTTGAATCAATTATTTATATATTTAAATCGA
48205230 ATATTACATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.49
Consensus pattern (55 bp):
TGTTGAAATACTGCTTCTTTTGAATCAATTATTTATATATTTAAATCGATTGTCA
Found at i:48210549 original size:28 final size:28
Alignment explanation
Indices: 48210513--48210574 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
48210503 TTTTTTTTTT
* *
48210513 TTTACTAATATATGTTTTTAT-TTTATTG
1 TTTA-TAATATATGTGTATATATTTATTG
*
48210541 TATTATAATATTTGTGTATATATTTATTG
1 T-TTATAATATATGTGTATATATTTATTG
48210570 TTTAT
1 TTTAT
48210575 TTGTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (28 bp):
TTTATAATATATGTGTATATATTTATTG
Found at i:48210665 original size:23 final size:22
Alignment explanation
Indices: 48210596--48210665 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
48210586 TTATTAATAT
*
48210596 TGTTTGTGAACATATTCAATTATA
1 TGTTCGTGAACATATTC-ATTA-A
* * *
48210620 TGTTCATCAACATGTTCATTTAA
1 TGTTCGTGAACATATTCA-TTAA
48210643 TGTTCGTGAACATATTCGATTAA
1 TGTTCGTGAACATATTC-ATTAA
48210666 ATTAAATGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
TGTTCGTGAACATATTCATTAA
Found at i:48210692 original size:23 final size:23
Alignment explanation
Indices: 48210649--48210694 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48210639 TTAATGTTCG
*
48210649 TGAACATATTCGATTAAATTAAA
1 TGAACATATTCGATGAAATTAAA
*
48210672 TGAACATGTTCG-TGAACATTAAA
1 TGAACATATTCGATGAA-ATTAAA
48210695 CAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (23 bp):
TGAACATATTCGATGAAATTAAA
Found at i:48216361 original size:27 final size:27
Alignment explanation
Indices: 48216320--48216374 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48216310 ATCCCAAATC
* * * *
48216320 TCAAGATTTAGGGTTTGAGTTTTAGAT
1 TCAAAATTTAAGGTTCGAGTTTGAGAT
48216347 TCAAAATTTAAGGTTCGAGTTTGAGAT
1 TCAAAATTTAAGGTTCGAGTTTGAGAT
48216374 T
1 T
48216375 TAAGATTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (27 bp):
TCAAAATTTAAGGTTCGAGTTTGAGAT
Found at i:48226661 original size:21 final size:20
Alignment explanation
Indices: 48226630--48226678 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
48226620 AATAATAAAT
*
48226630 AAAATT-AAAAAAGT-TTTAA
1 AAAATTAAAAAAACTATTT-A
48226649 AAAATTAATAAAAACTATTTA
1 AAAATTAA-AAAAACTATTTA
48226670 AAAATTAAA
1 AAAATTAAA
48226679 GTCCAAATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 15 0.58
22 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATTAAAAAAACTATTTA
Found at i:48239080 original size:14 final size:14
Alignment explanation
Indices: 48239057--48239089 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48239047 TATTGAATAT
48239057 TATA-ATATTTTAA
1 TATATATATTTTAA
48239070 TATATATATTTTAA
1 TATATATATTTTAA
*
48239084 TGTATA
1 TATATA
48239090 GTTAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TATATATATTTTAA
Found at i:48239511 original size:30 final size:29
Alignment explanation
Indices: 48239477--48239570 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
48239467 ATAATTTTAA
48239477 CCCCGATTTCATCGAAAATTACCATTTTTC
1 CCCCGATTTCA-CGAAAATTACCATTTTTC
*
48239507 CCCCGATCTTC-C-AAAA-TACCATTTTTAA
1 CCCCGAT-TTCACGAAAATTACCATTTTT-C
* * *
48239535 CCTCGATTTCACCGAAAATGACCATTTTAC
1 CCCCGATTTCA-CGAAAATTACCATTTTTC
48239565 CCCCGA
1 CCCCGA
48239571 ACCTTTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 13 0.25
28 10 0.19
29 2 0.04
30 16 0.31
31 11 0.21
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (29 bp):
CCCCGATTTCACGAAAATTACCATTTTTC
Found at i:48239534 original size:58 final size:60
Alignment explanation
Indices: 48239471--48239720 Score: 248
Period size: 58 Copynumber: 4.3 Consensus size: 60
48239461 ATGTCAATAA
* * * *
48239471 TTTTAACCCCGATTTCATCGAAAATTACCATTTTTCCCCCG-A-TCTTCCAAAATACCAT
1 TTTTAACCCCGATTTCACCGAAAATGACCATTTTACCCCCGAAGTCTTCCAAAATTCCAT
* * ** **
48239529 TTTTAACCTCGATTTCACCGAAAATGACCATTTTACCCCCGAA-CCTTTTAAAATTTTAT
1 TTTTAACCCCGATTTCACCGAAAATGACCATTTTACCCCCGAAGTCTTCCAAAATTCCAT
* * *
48239588 TTTTAACCCCGATTTCACCAAAAATGACCATTTTACCCCTGAAGTC-TCAAAAATTCCA-
1 TTTTAACCCCGATTTCACCGAAAATGACCATTTTACCCCCGAAGTCTTCCAAAATTCCAT
* * * * * *
48239646 TTTTGACCCCGATATT-GCC-AAAATTACCTTTTTACCCCCG-AGT-ATCCAAAAGTCCCAT
1 TTTTAACCCCGAT-TTCACCGAAAATGACCATTTTACCCCCGAAGTCTTCCAAAA-TTCCAT
48239704 TTTTAACCCCGATTTCA
1 TTTTAACCCCGATTTCA
48239721 TCATTTCTTT
Statistics
Matches: 158, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
56 9 0.06
57 24 0.15
58 63 0.40
59 61 0.39
60 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (60 bp):
TTTTAACCCCGATTTCACCGAAAATGACCATTTTACCCCCGAAGTCTTCCAAAATTCCAT
Found at i:48239622 original size:30 final size:30
Alignment explanation
Indices: 48239470--48239626 Score: 89
Period size: 30 Copynumber: 5.4 Consensus size: 30
48239460 AATGTCAATA
* * *
48239470 ATTTTAACCCCGATTTCATCGAAAATTACC
1 ATTTTAACCCCGATTTCACCAAAAATGACC
**
48239500 ATTTTTCCCCCGATCTT--CC-AAAAT-ACC
1 ATTTTAACCCCGAT-TTCACCAAAAATGACC
* *
48239527 ATTTTTAACCTCGATTTCACCGAAAATGACC
1 A-TTTTAACCCCGATTTCACCAAAAATGACC
* * ** *
48239558 ATTTTACCCCCGAACCTTTTA--AAATTTTA--
1 ATTTTAACCCCG-A--TTTCACCAAAAATGACC
*
48239587 TTTTTAACCCCGATTTCACCAAAAATGACC
1 ATTTTAACCCCGATTTCACCAAAAATGACC
48239617 ATTTT-ACCCC
1 ATTTTAACCCC
48239627 TGAAGTCTCA
Statistics
Matches: 94, Mismatches: 20, Indels: 27
0.67 0.14 0.19
Matches are distributed among these distances:
26 4 0.04
27 6 0.06
28 21 0.22
29 18 0.19
30 30 0.32
31 11 0.12
33 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (30 bp):
ATTTTAACCCCGATTTCACCAAAAATGACC
Found at i:48239684 original size:29 final size:28
Alignment explanation
Indices: 48239646--48239716 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
48239636 AAAAATTCCA
* *
48239646 TTTTGACCCCGATATTGCCAAAATTACC-T
1 TTTTAACCCCGATA-T-CCAAAAGTACCAT
* *
48239675 TTTTACCCCCGAGTATCCAAAAGTCCCAT
1 TTTTAACCCCGA-TATCCAAAAGTACCAT
48239704 TTTTAACCCCGAT
1 TTTTAACCCCGAT
48239717 TTCATCATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.29
29 23 0.66
30 2 0.06
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (28 bp):
TTTTAACCCCGATATCCAAAAGTACCAT
Found at i:48239696 original size:57 final size:58
Alignment explanation
Indices: 48239491--48239716 Score: 158
Period size: 59 Copynumber: 3.9 Consensus size: 58
48239481 GATTTCATCG
* * ** * * * *
48239491 AAAATTACCATTTTTCCCCCGATCT-TCCAAAATACCATTTTTAACCTCGAT-TTCACC
1 AAAATGACCATTTTACCCCCGAAGTATCAAAAATCCCATTTTTAACCCCGATATT-GCC
* ** *** *
48239548 GAAAATGACCATTTTACCCCCGAACCT-TTTAAAATTTTATTTTTAACCCCGAT-TTCACC
1 -AAAATGACCATTTTACCCCCGAA-GTATCAAAAATCCCATTTTTAACCCCGATATT-GCC
* * * *
48239607 AAAAATGACCATTTTACCCCTGAAGTCTCAAAAATTCCA-TTTTGACCCCGATATTGCC
1 -AAAATGACCATTTTACCCCCGAAGTATCAAAAATCCCATTTTTAACCCCGATATTGCC
* * *
48239665 AAAATTACCTTTTTACCCCCG-AGTATCCAAAAGTCCCATTTTTAACCCCGAT
1 AAAATGACCATTTTACCCCCGAAGTAT-CAAAAATCCCATTTTTAACCCCGAT
48239717 TTCATCATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
56 4 0.03
57 27 0.20
58 47 0.34
59 60 0.43
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (58 bp):
AAAATGACCATTTTACCCCCGAAGTATCAAAAATCCCATTTTTAACCCCGATATTGCC
Found at i:48242045 original size:15 final size:15
Alignment explanation
Indices: 48242008--48242047 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
48241998 ATTTTTTAAT
48242008 AATTTTTTAATTTTA
1 AATTTTTTAATTTTA
* *
48242023 AATATTTTAATTTTG
1 AATTTTTTAATTTTA
*
48242038 ATTTTTTTAA
1 AATTTTTTAA
48242048 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
AATTTTTTAATTTTA
Found at i:48243613 original size:25 final size:25
Alignment explanation
Indices: 48243584--48243631 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48243574 AGAAATAATC
* *
48243584 TTTCAGTTAAACTCTGTTTATTTGT
1 TTTCAATTAAACTCTATTTATTTGT
48243609 TTTCAATTAAACTCTATTTATTT
1 TTTCAATTAAACTCTATTTATTT
48243632 ATTTGAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTCAATTAAACTCTATTTATTTGT
Found at i:48247565 original size:43 final size:43
Alignment explanation
Indices: 48247504--48247687 Score: 228
Period size: 43 Copynumber: 4.3 Consensus size: 43
48247494 TTATGAGGAA
* * *
48247504 AAACGCCGCTATAGACCATGGTCTTTAGCTG-CACTTATACCAC
1 AAACGCCGCTAAAGACCATGGTCTTTAGC-GACACTTTTCCCAC
*
48247547 AAACGCCGCTAAAGACCATGGTCTTTAGCGATACTTTTCCCAC
1 AAACGCCGCTAAAGACCATGGTCTTTAGCGACACTTTTCCCAC
* * * * *
48247590 AAACGCCGTTAAAGAACATTGTCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTAAAGACCATGGTCTTTAGCGACACTTTTCCCAC
* * *
48247633 AAACGCCGCTAAAAACCAT-GACTTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGGTC-TTTAGCGACACTTTTCCCAC
48247676 AAACGCCGCTAA
1 AAACGCCGCTAA
48247688 CATTAACAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.02
43 121 0.98
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGGTCTTTAGCGACACTTTTCCCAC
Found at i:48256321 original size:6 final size:7
Alignment explanation
Indices: 48256303--48256330 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48256293 TTCTAAAATT
48256303 TAAAAAA
1 TAAAAAA
48256310 TAAAAAA
1 TAAAAAA
48256317 TAAAAAA
1 TAAAAAA
48256324 TAAAAAA
1 TAAAAAA
48256331 GAATATAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:48269234 original size:24 final size:24
Alignment explanation
Indices: 48269195--48269257 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
48269185 TAAACTAATA
* * *
48269195 AGAGTTTGACTCAAATAAATAAAT
1 AGAGTTTAACTGAAATAAATAAAC
*
48269219 AGAGTTTAATTGAAATAAATAAAC
1 AGAGTTTAACTGAAATAAATAAAC
48269243 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
48269258 GATTATTCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (24 bp):
AGAGTTTAACTGAAATAAATAAAC
Found at i:48269524 original size:105 final size:105
Alignment explanation
Indices: 48269342--48269556 Score: 430
Period size: 105 Copynumber: 2.0 Consensus size: 105
48269332 TAAACACAAG
48269342 TGAACCACACTAAATTTGATTATTACACAAGGCAATTAAGAAAAGAAAAAGGAATTAAAAATTGA
1 TGAACCACACTAAATTTGATTATTACACAAGGCAATTAAGAAAAGAAAAAGGAATTAAAAATTGA
48269407 AATCAACAACCATGTTTTTACTTGCATTTAGTAGATATAT
66 AATCAACAACCATGTTTTTACTTGCATTTAGTAGATATAT
48269447 TGAACCACACTAAATTTGATTATTACACAAGGCAATTAAGAAAAGAAAAAGGAATTAAAAATTGA
1 TGAACCACACTAAATTTGATTATTACACAAGGCAATTAAGAAAAGAAAAAGGAATTAAAAATTGA
48269512 AATCAACAACCATGTTTTTACTTGCATTTAGTAGATATAT
66 AATCAACAACCATGTTTTTACTTGCATTTAGTAGATATAT
48269552 TGAAC
1 TGAAC
48269557 TTATGATGCT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 110 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (105 bp):
TGAACCACACTAAATTTGATTATTACACAAGGCAATTAAGAAAAGAAAAAGGAATTAAAAATTGA
AATCAACAACCATGTTTTTACTTGCATTTAGTAGATATAT
Found at i:48279541 original size:21 final size:22
Alignment explanation
Indices: 48279515--48279556 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48279505 CTGAAATTTT
48279515 AAAATTTTA-AAAATTAAAAAC
1 AAAATTTTATAAAATTAAAAAC
*
48279536 AAAATTTTATTAAATTAAAAA
1 AAAATTTTATAAAATTAAAAA
48279557 ATAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATTTTATAAAATTAAAAAC
Found at i:48281849 original size:161 final size:161
Alignment explanation
Indices: 48281319--48281821 Score: 765
Period size: 161 Copynumber: 3.1 Consensus size: 161
48281309 AGTTTTCAAT
* * *
48281319 TTAGTCCTTTGACTGTTTGACTGCACCAAAGACTGCCACATGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* * *
48281384 TCTGGTCCCTATTATTTTTAATTTATCTTAATTTAGTCCCTAAATCAACTTTTATTTAATTATAA
66 TCTAGTCCCTATTA-TTTTAATTTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
* *
48281449 AATTGGCTCAACAATTTTTCAAGATTTAATAAA
130 AATTGGCCCAAGAATTTTTCAAGATTT-ATAAA
*
48281482 TTAGTCCTTTGATTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* *
48281547 TCTAGTCCCTGTTATTTTAAACTTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
66 TCTAGTCCCTATTATTTT-AATTTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
* *
48281612 AATTGGCCTAAGAAATTTT-AAGATTTATAAA
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
* *
48281643 TTAGTCCTTTGACTGTTTGATTGCACCAGAGGCTGTCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* * * *
48281708 TCTAGTCCCTCTTACTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAC
66 TCTAGTCCCTATTA-TTTTAATTTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
* *
48281773 AATTGGCCCAAGAATTTTTCAAGATTTACAAT
130 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
48281805 TTAGTCCCTTGACTGTT
1 TTAGTCCTTTGACTGTT
48281822 GGATGCCTGT
Statistics
Matches: 311, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
161 139 0.45
162 41 0.13
163 131 0.42
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (161 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
TCTAGTCCCTATTATTTTAATTTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAAA
ATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:48281962 original size:29 final size:29
Alignment explanation
Indices: 48281940--48282220 Score: 166
Period size: 29 Copynumber: 9.8 Consensus size: 29
48281930 TTTAATCCCG
48281940 AAAC-TTCCAAAAATTACCATTTACCCCC
1 AAACTTTCCAAAAATTACCATTTACCCCC
* * *
48281968 AAACTTTCC-AAAATT-CTATTTTTAACCTC
1 AAACTTTCCAAAAATTACCA--TTTACCCCC
* *
48281997 -GA-TTTCACAAAAAATACCATTTTACCCCC
1 AAACTTTC-CAAAAATTACCA-TTTACCCCC
* *
48282026 AAACTTT-CTAAAATT-CCATTTTA--ACC
1 AAACTTTCCAAAAATTACCA-TTTACCCCC
* *
48282052 ATGATTTTACCAAAAATTACCATTTTACCCCC
1 A-AACTTT-CCAAAAATTACCA-TTTACCCCC
* *
48282084 AAACTTT-CAAAAATTA-CATTTTTAACCTC
1 AAACTTTCCAAAAATTACCA--TTTACCCCC
*
48282113 -GA-TTTCACCAAAAATTACCATTTTACCCCC
1 AAACTTT--CCAAAAATTACCA-TTTACCCCC
*
48282143 AAACTTTCC-AAAATTACCATTTTACCCCT
1 AAACTTTCCAAAAATTACCA-TTTACCCCC
*
48282172 AAACTTTTC-AAAA-TACCATTTTACCCCC
1 AAACTTTCCAAAAATTACCA-TTTACCCCC
*
48282200 GAACTTTCC-AAAATT-CCATTT
1 AAACTTTCCAAAAATTACCATTT
48282221 TTAACCCCGA
Statistics
Matches: 202, Mismatches: 29, Indels: 45
0.73 0.11 0.16
Matches are distributed among these distances:
26 3 0.01
27 16 0.08
28 51 0.25
29 86 0.43
30 30 0.15
31 10 0.05
32 6 0.03
ACGTcount: A:0.36, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
AAACTTTCCAAAAATTACCATTTACCCCC
Found at i:48282076 original size:30 final size:30
Alignment explanation
Indices: 48282035--48282137 Score: 92
Period size: 30 Copynumber: 3.5 Consensus size: 30
48282025 CAAACTTTCT
48282035 AAAATT-CCATTTTAACCATGATTTTACCA
1 AAAATTACCATTTTAACCATGATTTTACCA
* * *
48282064 AAAATTACCATTTTACCCCCA-AACTTT--CA
1 AAAATTACCATTTTA--ACCATGATTTTACCA
*
48282093 AAAATTA-CATTTTTAACC-TCGATTTCACCA
1 AAAATTACCA-TTTTAACCAT-GATTTTACCA
48282123 AAAATTACCATTTTA
1 AAAATTACCATTTTA
48282138 CCCCCAAACT
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
27 2 0.03
28 5 0.09
29 20 0.34
30 22 0.38
31 6 0.10
32 3 0.05
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATTACCATTTTAACCATGATTTTACCA
Found at i:48282108 original size:116 final size:115
Alignment explanation
Indices: 48281946--48282299 Score: 448
Period size: 116 Copynumber: 3.1 Consensus size: 115
48281936 CCCGAAACTT
48281946 CCAAAAATTACCA-TTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTC-ATTTTTAACCTCGATTTCACAAAAA
* * *
48282010 ATACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTAACCATGATTTTA
65 TTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTAACCCTGATTTTA
*
48282061 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTACATTTTTAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CATTTTTAACCTCGATTTCA-CAAAA
* * *
48282126 ATTACCATTTTACCCCCAAACTTTCCAAAATTACCATTTTACCCCTAAACTTTT-
64 ATTACCATTTTACCCCCAAACTTTCAAAAATT-CCATTTTAACCCT-GA-TTTTA
* *
48282180 -C-AAAA-TACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAT
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CATTTTTAACCTCGATTTCACAAAA-
* * * * * * * *
48282242 ATTACCGTTTTGCCCTCGAACTCTCAAAAATTCCATTTTCACCCCGATTTCA
64 ATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTAACCCTGATTTTA
48282294 CCAAAA
1 CCAAAA
48282300 TTATTATTTT
Statistics
Matches: 208, Mismatches: 21, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
113 3 0.01
114 1 0.00
115 29 0.14
116 118 0.57
117 40 0.19
118 12 0.06
119 1 0.00
120 4 0.02
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (115 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCATTTTTAACCTCGATTTCACAAAAAT
TACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTAACCCTGATTTTA
Found at i:48282136 original size:59 final size:58
Alignment explanation
Indices: 48281946--48282299 Score: 400
Period size: 59 Copynumber: 6.1 Consensus size: 58
48281936 CCCGAAACTT
*
48281946 CCAAAAATTACCA-TTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCA
* * *
48282004 -CAAAAAATACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTAACCAT-GATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACC-TCGATTTCA
* *
48282061 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTACATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCA
* **
48282120 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTACCATTTTACCCCTAAACTTT--
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CCATTTTA-ACCTCGA-TTTCA
* * *
48282179 TC-AAAA-TACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCA
* * * * * * * *
48282236 -CAAAATATTACCGTTTTGCCCTCGAACTCTCAAAAATTCCATTTTCACCCCGATTTCA
1 CCAAAA-ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCTCGATTTCA
48282294 CCAAAA
1 CCAAAA
48282300 TTATTATTTT
Statistics
Matches: 256, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
55 3 0.01
56 7 0.03
57 62 0.24
58 85 0.33
59 90 0.35
60 6 0.02
61 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCTCGATTTCA
Found at i:48282299 original size:28 final size:28
Alignment explanation
Indices: 48282209--48282301 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
48282199 CGAACTTTCC
*
48282209 AAAATTCCATTTTTAACCCCGATTTCACA
1 AAAATTCCA-TTTTCACCCCGATTTCACA
* * ** *
48282238 AAATATTACCGTTTTGC-CCTCGAACTCTCA
1 AAA-ATT-CCATTTT-CACCCCGATTTCACA
*
48282268 AAAATTCCATTTTCACCCCGATTTCACC
1 AAAATTCCATTTTCACCCCGATTTCACA
48282296 AAAATT
1 AAAATT
48282302 ATTATTTTGC
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
27 1 0.02
28 20 0.42
29 6 0.12
30 19 0.40
31 2 0.04
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTCACCCCGATTTCACA
Found at i:48282300 original size:59 final size:59
Alignment explanation
Indices: 48281946--48282299 Score: 397
Period size: 58 Copynumber: 6.1 Consensus size: 59
48281936 CCCGAAACTT
* * *
48281946 CCAAAAATTACCA-TTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCA
* * ** *
48282004 -CAAAAAATACCATTTTACCCCCAAACTTTCTAAAATTCCA-TTTTAACCATGATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCA
* *
48282061 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTACATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCA
* *
48282120 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTACCA-TTTT-ACCCCTAAACTTT--
1 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATT-CCATTTTTAACCCC--GA-TTTCA
* * *
48282179 TC-AAAA-TACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
48282236 -CAAAATATTACCGTTTTGCCCTCGAACTCTCAAAAATTCCA-TTTTCACCCCGATTTCA
1 CCAAAA-ATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCA
48282294 CCAAAA
1 CCAAAA
48282300 TTATTATTTT
Statistics
Matches: 256, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
55 3 0.01
56 5 0.02
57 61 0.24
58 92 0.36
59 89 0.35
60 3 0.01
61 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCA
Found at i:48282339 original size:58 final size:55
Alignment explanation
Indices: 48282206--48282352 Score: 147
Period size: 59 Copynumber: 2.5 Consensus size: 55
48282196 CCCCGAACTT
*
48282206 TCCAAAATTCCATTTTTAACCCCGATTTCACAAAATATTACCGTTTTGCCCTCGAAC
1 TCCAAAATTCCATTTTTCACCCCGATTTCACAAAATATTA-C-TTTTGCCCTCGAAC
*
48282263 TCTCAAAAATTCCA-TTTTCACCCCGATTTCACCAAAATTATTA-TTTTGCCCTCGGGTA-
1 TC-C-AAAATTCCATTTTTCACCCCGATTTCA-CAAAA-TATTACTTTTGCCCTC--GAAC
* *
48282321 TCCAAAAGTCCCATTTTTCAACCCCGTTTTCA
1 TCCAAAA-TTCCATTTTTC-ACCCCGATTTCA
48282353 TCGTTTCTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
56 4 0.05
57 17 0.22
58 24 0.31
59 27 0.35
60 5 0.06
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (55 bp):
TCCAAAATTCCATTTTTCACCCCGATTTCACAAAATATTACTTTTGCCCTCGAAC
Found at i:48294523 original size:76 final size:76
Alignment explanation
Indices: 48294391--48294725 Score: 474
Period size: 76 Copynumber: 4.4 Consensus size: 76
48294381 ATCAGACCAC
* *
48294391 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTATCTCTGA
1 AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACA-AGTCTTTATCTCTGA
48294455 AATTGAAGTAAG
65 AATTGAAGTAAG
* * *
48294467 AGGAAAATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAA
48294532 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * * *
48294543 AGCAAGATCTTTTCCTATCCGCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
1 AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAA
*
48294608 ATTGAAGTAGG
66 ATTGAAGTAAG
* * * * *
48294619 AGCAAGATCATTTCCTATCCTCTTGAAATTGTAGTAAAGTTGGATAAAAAGTCTTTGTCTTTGAA
1 AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAA
*
48294684 ATTAAAGTAAG
66 ATTGAAGTAAG
**
48294695 AGCAAAATCATTTTATATCCTCTTGAAATTG
1 AGCAAAATCATTTCCTATCCTCTTGAAATTG
48294726 CAAAATCATT
Statistics
Matches: 231, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
76 231 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (76 bp):
AGCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:48294742 original size:29 final size:29
Alignment explanation
Indices: 48294696--48294754 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
48294686 TAAAGTAAGA
48294696 GCAAAATCATTTTATATCCTCTTGAAATT
1 GCAAAATCATTTTATATCCTCTTGAAATT
*
48294725 GCAAAATCATTTTCTATCCTCTTGAAATT
1 GCAAAATCATTTTATATCCTCTTGAAATT
48294754 G
1 G
48294755 AAGTAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (29 bp):
GCAAAATCATTTTATATCCTCTTGAAATT
Found at i:48294746 original size:105 final size:105
Alignment explanation
Indices: 48294620--48294830 Score: 307
Period size: 105 Copynumber: 2.0 Consensus size: 105
48294610 TGAAGTAGGA
* * * * *
48294620 GCAAGATCATTTCCTATCCTCTTGAAATTGTAGTAAAGTTGGATAAAAAGTCTTTGTCTTTGAAA
1 GCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAAAAAGTCTTTATCTCTGAAA
48294685 TTAAAGTAAGAGCAAAATCATTTT-ATATCCTCTTGAAATT
66 TTAAAGTAAGAGCAAAATC-TTTTCATATCCTCTTGAAATT
* **
48294725 GCAAAATCATTTTCTATCCTCTTGAAATTGAAGTAAAGCTGGATAGCAAGTCTTTATCTCTGAAA
1 GCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAAAAAGTCTTTATCTCTGAAA
* * *
48294790 TTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATT
66 TTAAAGTAAGAGCAAAATCTTTTCATATCCTCTTGAAATT
48294830 G
1 G
48294831 AAGTAGAATG
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 4 0.04
105 90 0.96
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (105 bp):
GCAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAAAAAGTCTTTATCTCTGAAA
TTAAAGTAAGAGCAAAATCTTTTCATATCCTCTTGAAATT
Found at i:48294789 original size:181 final size:180
Alignment explanation
Indices: 48294544--48294905 Score: 541
Period size: 181 Copynumber: 2.0 Consensus size: 180
48294534 TGAAGTAAGA
* * *
48294544 GCAAGATCTTTTCCTATCCGCTTGAGATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAA
1 GCAAAATCTTTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATAGCAAGTCTTTATCTCTGAAA
* *
48294609 TTGAAGTAGGAGCAAGATCATTTCCTATCCTCTTGAAATTGTAGTA-AAGTTGGATAAAAAGTCT
66 TTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAA--TGGATAAAAAGTCT
* * *
48294673 TTGTCTTTGAAATTAAAGTAAGAGCAAAATCATTTT-ATATCCTCTTGAAATT
129 TTATCTCTGAAATTAAAGTAAGAGCAAAATC-TTTTCATATCCGCTTGAAATT
*
48294725 GCAAAATCATTTT-CTATCCTCTTGAAATTGAAGTAAAGCTGGATAGCAAGTCTTTATCTCTGAA
1 GCAAAATC-TTTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATAGCAAGTCTTTATCTCTGAA
* * *
48294789 ATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAATGGATAACACGTCTT
65 ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAATGGATAAAAAGTCTT
* *
48294854 TATCTCTGAAATTAAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATT
130 TATCTCTGAAATTAAAGTAAGAGCAAAATCTTTTCATATCCGCTTGAAATT
48294905 G
1 G
48294906 AAGTAGAGTT
Statistics
Matches: 164, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
179 4 0.02
180 55 0.34
181 99 0.60
182 6 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (180 bp):
GCAAAATCTTTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATAGCAAGTCTTTATCTCTGAAA
TTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAATGGATAAAAAGTCTTT
ATCTCTGAAATTAAAGTAAGAGCAAAATCTTTTCATATCCGCTTGAAATT
Found at i:48294823 original size:76 final size:76
Alignment explanation
Indices: 48294725--48295169 Score: 680
Period size: 76 Copynumber: 5.8 Consensus size: 76
48294715 TCTTGAAATT
* * *
48294725 GCAAAATCATTTT-CTATCCTCTTGAAATTGAAGTAAAGCTGGATAGCAAGTCTTTATCTCTGAA
1 GCAAGATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAA
48294789 ATTGAAGTAAGA
65 ATTGAAGTAAGA
*
48294801 GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAA--TGGATAACACGTCTTTATCTCTGAA
1 GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTA-AAGTTGGATAACAAGTCTTTATCTCTGAA
*
48294864 ATTAAAGTAAGA
65 ATTGAAGTAAGA
* *
48294876 GCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAA
1 GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAA
48294941 TTGAAGTAAGA
66 TTGAAGTAAGA
* * * *
48294952 GCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAA
1 GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAA
48295017 TTGAAGTAAGA
66 TTGAAGTAAGA
* * *
48295028 GCAAGATCATTTCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAA
1 GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAA
48295093 TTGAAGTAAGA
66 TTGAAGTAAGA
* * *
48295104 GCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATTTCTCTGA
1 GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTA--TCTCTGA
48295169 A
64 A
48295170 GAGCGAGATA
Statistics
Matches: 338, Mismatches: 25, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
74 1 0.00
75 72 0.21
76 255 0.75
77 2 0.01
78 8 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
GCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAA
TTGAAGTAAGA
Found at i:48295479 original size:6 final size:6
Alignment explanation
Indices: 48295461--48295524 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
48295451 TTAAATTGAT
* *
48295461 TTTAAA TTT--A TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
48295506 TTTAAA TACTAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA
48295525 CATTAAAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 4 0.08
5 3 0.06
6 36 0.75
7 5 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:48295500 original size:23 final size:21
Alignment explanation
Indices: 48295462--48295503 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
48295452 TAAATTGATT
48295462 TTAAATTTATTTAAATTTACC
1 TTAAATTTATTTAAATTTACC
48295483 TTAAATTTAAATTTAAATTTA
1 TTAAATTT--ATTTAAATTTA
48295504 AATTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATTTATTTAAATTTACC
Found at i:48295531 original size:13 final size:12
Alignment explanation
Indices: 48295483--48295531 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
48295473 TAAATTTACC
*
48295483 TTAAATTTAAAT
1 TTAAAATTAAAT
*
48295495 TTAAATTTAAAT
1 TTAAAATTAAAT
*
48295507 TTAAATACTAAAT
1 TTAAA-ATTAAAT
48295520 TTAAACATTAAA
1 TTAAA-ATTAAA
48295532 AGTCCATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 17 0.53
13 15 0.47
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAAATTAAAT
Found at i:48297259 original size:162 final size:162
Alignment explanation
Indices: 48296992--48297490 Score: 784
Period size: 162 Copynumber: 3.1 Consensus size: 162
48296982 AGTTTTCAAT
* *
48296992 TTAGTCCTTTGACTATTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* * * *
48297057 TCTGGTCCCTGTTATTTTTAATTTGTCTTAATTTAATCCCTAAATCAACTTTTACTTAATTGTAA
66 TCTAGTCCCTGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
* *
48297122 AATTGGCTCAAGAATTTTTTAAGATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
* *
48297154 TTAGTCCTTTGACTGTTTGACTGCACTAGAGGCTGCCACGTTTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
*
48297219 TCTAGTCCCTGTTATTTTTAACTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
66 TCTAGTCCCTGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
*
48297284 AATTGGCCCAAGAATTTTTCAAGATTCATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
48297316 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* * ** * *
48297381 TCTAGTCCCTATTACTTTTAATTTGTTTTAATTTAATTGCTAAATCAACTTTTATTTAATTACAC
66 TCTAGTCCCTGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
* * *
48297446 AATTAGCCCAAGAA-TTTTCAAGATTTACAAT
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
*
48297477 TTAGTCCCTTGACT
1 TTAGTCCTTTGACT
48297491 ACTGGATGCC
Statistics
Matches: 310, Mismatches: 27, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
161 27 0.09
162 283 0.91
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
TCTAGTCCCTGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTATAA
AATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:48297604 original size:29 final size:28
Alignment explanation
Indices: 48297563--48297750 Score: 116
Period size: 29 Copynumber: 6.5 Consensus size: 28
48297553 CAAACAGTCT
*
48297563 AAAAATTGCATTTTGACCCTAAAATTTC
1 AAAAATTACATTTTGACCCTAAAATTTC
* *
48297591 AAAAAATTACATTTTGACCCCAAAACTTC
1 -AAAAATTACATTTTGACCCTAAAATTTC
* * *
48297620 CAAAATTAACATTTT-ACCCCCAAACTTTC
1 AAAAATT-ACATTTTGA-CCCTAAAATTTC
* * *
48297649 CAAAATTCCATTTTTAACCCT--AATTTCACC
1 AAAAATTACA-TTTTGACCCTAAAATTT---C
*
48297679 AAAAATTACCATTTT-ACCCCTAAACTTTC
1 AAAAATTA-CATTTTGA-CCCTAAAATTTC
* * *
48297708 CAAAATTACCATTTTGCCCCTAAACTTTC
1 AAAAATTA-CATTTTGACCCTAAAATTTC
*
48297737 CAAAA-TACCATTTT
1 AAAAATTA-CATTTT
48297751 ACACCCAAAC
Statistics
Matches: 133, Mismatches: 14, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.03
28 18 0.14
29 89 0.67
30 16 0.12
31 2 0.02
32 4 0.03
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAAATTACATTTTGACCCTAAAATTTC
Found at i:48297638 original size:28 final size:28
Alignment explanation
Indices: 48297593--48297871 Score: 200
Period size: 29 Copynumber: 9.7 Consensus size: 28
48297583 AAAATTTCAA
48297593 AAAATTA-CATTTTGACCCCAAAAC-TTCC
1 AAAATTACCATTTT-ACCCC-AAACTTTCC
*
48297621 AAAATTAACATTTTACCCCCAAACTTTCC
1 AAAATTACCATTTTA-CCCCAAACTTTCC
* *
48297650 AAAATT-CCATTTTTAACCCTAA-TTTCACC
1 AAAATTACCA-TTTTACCCCAAACTTT--CC
48297679 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCC-AAACTTTCC
*
48297709 AAAATTACCATTTTGCCCCTAAACTTTCC
1 AAAATTACCATTTTACCCC-AAACTTTCC
48297738 AAAA-TACCATTTTACACCCAAACTTTCC
1 AAAATTACCATTTTAC-CCCAAACTTTCC
* *
48297766 AAAA-TCCCATTTTTAACCCC-GA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCAAACTTT--CC
* * * *
48297795 AAAAATTACCATTTTGCCCCCGAACTCTCA
1 -AAAATTACCATTTT-ACCCCAAACTTTCC
* *
48297825 AAAATT-CCATTTTAACCCC-GATTTTACC
1 AAAATTACCATTTT-ACCCCAAACTTT-CC
* *
48297853 AAAATTACTATTTTGCCCC
1 AAAATTACCATTTTACCCC
48297872 CAAGTATCCA
Statistics
Matches: 207, Mismatches: 23, Indels: 42
0.76 0.08 0.15
Matches are distributed among these distances:
27 9 0.04
28 69 0.33
29 83 0.40
30 31 0.15
31 10 0.05
32 5 0.02
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAACTTTCC
Found at i:48297686 original size:59 final size:57
Alignment explanation
Indices: 48297619--48297874 Score: 277
Period size: 59 Copynumber: 4.4 Consensus size: 57
48297609 CCCAAAACTT
* *
48297619 CCAAAATTAACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
* *
48297677 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTACCATTTT-GCCCCTAAACTTT--
1 CC-AAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CCATTTTAACCCC--AA-TTTCA
* * *
48297736 CCAAAA-TACCATTTTACACCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCA
* * * * * *
48297793 CCAAAAATTACCATTTTGCCCCCGAACTCTCAAAAATTCCATTTTAACCCCGATTTTA
1 CC-AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCCAATTTCA
* *
48297851 CCAAAATTACTATTTTGCCCCCAA
1 CCAAAATTACCATTTTACCCCCAA
48297875 GTATCCAAAT
Statistics
Matches: 169, Mismatches: 18, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
55 3 0.02
56 4 0.02
57 53 0.31
58 35 0.21
59 66 0.39
60 5 0.03
61 3 0.02
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.32
Consensus pattern (57 bp):
CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCCAATTTCA
Found at i:48297751 original size:87 final size:86
Alignment explanation
Indices: 48297564--48297866 Score: 273
Period size: 87 Copynumber: 3.5 Consensus size: 86
48297554 AAACAGTCTA
* * * *
48297564 AAAATTGCATTTTGACCCTAAAATTTCA-AAAAATTA-CATTTTGACCCCAAAAC-TTCCAAAAT
1 AAAATTCCATTTTAACCCT--AATTTCACCAAAATTACCATTTTAACCCC-AAACTTTCCAAAAT
* *
48297626 TAACATTTTACCCCCAAACTTTCC
63 TACCATTTTGCCCCCAAACTTTCC
48297650 AAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTT-ACCCCTAAACTTTCCAAAAT
1 AAAATTCCA-TTTTAACCCTAATTTCACC-AAAATTACCATTTTAACCCC-AAACTTTCCAAAAT
*
48297714 TACCATTTTGCCCCTAAACTTTCC
63 TACCATTTTGCCCCCAAACTTTCC
* * * *
48297738 AAAATACCATTTTACACCCAAACTTT--CCAAAA-TCCCATTTTTAACCCC-GA-TTTCACCAAA
1 AAAATTCCATTTTA-ACCCTAA-TTTCACCAAAATTACCA-TTTTAACCCCAAACTTT--CC-AA
* * *
48297798 AATTACCATTTTGCCCCCGAACTCTCA
60 AATTACCATTTTGCCCCCAAACTTTCC
** * *
48297825 AAAATTCCATTTTAACCCCGATTTTACCAAAATTACTATTTT
1 AAAATTCCATTTTAACCCTAATTTCACCAAAATTACCATTTT
48297867 GCCCCCAAGT
Statistics
Matches: 182, Mismatches: 20, Indels: 29
0.79 0.09 0.13
Matches are distributed among these distances:
84 3 0.02
85 15 0.08
86 23 0.13
87 85 0.47
88 53 0.29
89 3 0.02
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (86 bp):
AAAATTCCATTTTAACCCTAATTTCACCAAAATTACCATTTTAACCCCAAACTTTCCAAAATTAC
CATTTTGCCCCCAAACTTTCC
Found at i:48297767 original size:116 final size:117
Alignment explanation
Indices: 48297563--48297843 Score: 367
Period size: 116 Copynumber: 2.4 Consensus size: 117
48297553 CAAACAGTCT
* *
48297563 AAAAATT-GCATTTTGA-CCCTAAAATTTCAAAAAATTA-CATTTTGACCCCAAAACTTCCAAAA
1 AAAAATTACCATTTT-ACCCCTAAACTTTC-AAAAATTACCATTTTGACCCCAAAACTTCCAAAA
* * *
48297625 TTAACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACC
64 TTAACATTTTACACCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* *
48297679 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTACCATTTTG-CCCCTAAACTTTCCAAAA-
1 AAAAATTACCATTTTACCCCTAAACTTTCAAAAATTACCATTTTGACCCCAAAAC-TTCCAAAAT
* *
48297742 TACCATTTTACACCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
65 TAACATTTTACACCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* ** * *
48297795 AAAAATTACCATTTTGCCCCCGAACTCTCAAAAATT-CCATTTTAACCCC
1 AAAAATTACCATTTTACCCCTAAACTTTCAAAAATTACCATTTTGACCCC
48297844 GATTTTACCA
Statistics
Matches: 145, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
115 7 0.05
116 106 0.73
117 32 0.22
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCTAAACTTTCAAAAATTACCATTTTGACCCCAAAACTTCCAAAATT
AACATTTTACACCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
Found at i:48297796 original size:29 final size:28
Alignment explanation
Indices: 48297736--48297866 Score: 86
Period size: 28 Copynumber: 4.5 Consensus size: 28
48297726 CCTAAACTTT
**
48297736 CCAAAATACCATTTTACACCCAAACTTT--
1 CCAAAATACCATTTTA-ACCCCGA-TTTCA
*
48297764 CCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATACCA-TTTTAACCCCGATTTCA
** ** *
48297793 CCAAAAATTACCATTTTGCCCCCGAACTCT
1 CC-AAAA-TACCATTTTAACCCCGATTTCA
* * *
48297823 CAAAAATTCCATTTTAACCCCGATTTTA
1 CCAAAATACCATTTTAACCCCGATTTCA
*
48297851 CCAAAATTACTATTTT
1 CCAAAA-TACCATTTT
48297867 GCCCCCAAGT
Statistics
Matches: 77, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
27 3 0.04
28 35 0.45
29 18 0.23
30 17 0.22
31 4 0.05
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (28 bp):
CCAAAATACCATTTTAACCCCGATTTCA
Found at i:48297866 original size:116 final size:114
Alignment explanation
Indices: 48297592--48297909 Score: 340
Period size: 116 Copynumber: 2.7 Consensus size: 114
48297582 TAAAATTTCA
48297592 AAAAATTA-CATTTTGACCCCAAAAC-TTCCAAAATTAACATTTTACCCCCAAACTTTCCAAAAT
1 AAAAATTACCATTTT-ACCCC-AAACTTTCCAAAATT-ACATTTTA-CCCCAAACTTTCCAAAAT
* ** * *
48297655 TCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCTAAACTTTC
62 CCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCTC
* *
48297708 CAAAATTACCATTTTGCCCCTAAACTTTCCAAAA-TACCATTTTACACCCAAACTTTCCAAAATC
1 AAAAATTACCATTTTACCCC-AAACTTTCCAAAATTA-CATTTTAC-CCCAAACTTTCCAAAATC
* *
48297772 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCCCGAACTCTC
63 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCTC
* * * * * * *
48297824 AAAAATT-CCATTTTAACCCC-GATTTTACCAAAATTACTATTTTGCCCCCAAGTATCCAAATGT
1 AAAAATTACCATTTT-ACCCCAAACTTT-CCAAAATTAC-ATTTTACCCCAAACTTTCCAAA-AT
*
48297887 CCCATTTTTCAACCCCGGTTTCA
62 CCCATTTTT-AACCCCGATTTCA
48297910 TCATTTCTTC
Statistics
Matches: 172, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
114 4 0.02
115 28 0.16
116 114 0.66
117 26 0.15
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (114 bp):
AAAAATTACCATTTTACCCCAAACTTTCCAAAATTACATTTTACCCCAAACTTTCCAAAATCCCA
TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCTC
Found at i:48304252 original size:19 final size:19
Alignment explanation
Indices: 48304228--48304274 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
48304218 TCTGTCAACC
48304228 AAACAAATAAAAAAACTAA
1 AAACAAATAAAAAAACTAA
* *
48304247 AAACAAAGTAAAACAACTTA
1 AAACAAA-TAAAAAAACTAA
*
48304267 AAAGAAAT
1 AAACAAAT
48304275 CCTCATAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.72, C:0.11, G:0.04, T:0.13
Consensus pattern (19 bp):
AAACAAATAAAAAAACTAA
Found at i:48304264 original size:20 final size:20
Alignment explanation
Indices: 48304228--48304269 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
48304218 TCTGTCAACC
48304228 AAACAAATAAAAAAAC-TAA
1 AAACAAATAAAAAAACTTAA
*
48304247 AAACAAAGTAAAACAACTTAA
1 AAACAAA-TAAAAAAACTTAA
48304268 AA
1 AA
48304270 GAAATCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 8 0.40
21 5 0.25
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (20 bp):
AAACAAATAAAAAAACTTAA
Found at i:48304420 original size:29 final size:28
Alignment explanation
Indices: 48304370--48304440 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
48304360 AACGGACATT
*
48304370 TTATTATAAGAAATCAGATTAATCCCTTTA
1 TTATTA-AAAAAATCAGATTAAT-CCTTTA
* *
48304400 TTATTAAATAAATCA-ATTTAATCTTTTA
1 TTATTAAAAAAATCAGA-TTAATCCTTTA
*
48304428 CTATTAAAAAAAT
1 TTATTAAAAAAAT
48304441 TAATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 17 0.47
29 13 0.36
30 6 0.17
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (28 bp):
TTATTAAAAAAATCAGATTAATCCTTTA
Found at i:48310965 original size:3 final size:3
Alignment explanation
Indices: 48310951--48310986 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
48310941 TTTAATATAT
*
48310951 ATC ATT ATC ATC ATC ATC ATC ATC ATC ATCC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT-C ATC AT
48310987 ATAATCTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:48325848 original size:3 final size:3
Alignment explanation
Indices: 48325842--48325876 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48325832 CTTTTTTTTA
48325842 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48325877 ATCTAGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48326426 original size:93 final size:93
Alignment explanation
Indices: 48326267--48326452 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
48326257 GTGCAAGGGT
48326267 GGCAAAGAGGTCCTCGGGCAGAAGAGCGACCTCGGGCACCAGAAAGGGCTCGGGAGTTGAGCAGT
1 GGCAAAGAGGTCCTCGGGCAGAAGAGCGACCTCGGGCACCAGAAAGGGCTCGGGAGTTGAGCAGT
*
48326332 CTCGGGAGTCGAGGAGTTAACGGTCAGC
66 CTCGGGAGTCGAGGACTTAACGGTCAGC
48326360 GGCAAAGAGGTCCTCGGGCAGAAGAGCGACCTCGGGCACCAGAAAGGGCTCGGGAGTTGAGCAGT
1 GGCAAAGAGGTCCTCGGGCAGAAGAGCGACCTCGGGCACCAGAAAGGGCTCGGGAGTTGAGCAGT
48326425 CTCGGGAGTCGAGGACTTAACGGTCAGC
66 CTCGGGAGTCGAGGACTTAACGGTCAGC
48326453 CACGTGGCTG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.25, C:0.23, G:0.39, T:0.13
Consensus pattern (93 bp):
GGCAAAGAGGTCCTCGGGCAGAAGAGCGACCTCGGGCACCAGAAAGGGCTCGGGAGTTGAGCAGT
CTCGGGAGTCGAGGACTTAACGGTCAGC
Found at i:48326723 original size:13 final size:13
Alignment explanation
Indices: 48326705--48326730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48326695 AACTTGGGCT
48326705 AATGAACTTTCAA
1 AATGAACTTTCAA
48326718 AATGAACTTTCAA
1 AATGAACTTTCAA
48326731 TTTCAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
AATGAACTTTCAA
Found at i:48332680 original size:5 final size:5
Alignment explanation
Indices: 48332672--48332703 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
48332662 GGGATCGGAT
48332672 CCAAC CCAAC CCAAC CCAAC CCAAC CC-AC CCA
1 CCAAC CCAAC CCAAC CCAAC CCAAC CCAAC CCA
48332704 GAATAACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.38, C:0.62, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAC
Found at i:48337890 original size:26 final size:24
Alignment explanation
Indices: 48337832--48337891 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
48337822 TGTAAGTTTA
48337832 GAATTTAATTTTTTTTTTATTTTG
1 GAATTTAATTTTTTTTTTATTTTG
* *
48337856 GAGATTTTAGTTTTTATTTTTATTTTTT
1 GA-A-TTTAATTTTT-TTTTTA-TTTTG
48337884 GAATTTAA
1 GAATTTAA
48337892 AAATTCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 13 0.45
27 7 0.24
28 6 0.21
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (24 bp):
GAATTTAATTTTTTTTTTATTTTG
Found at i:48345698 original size:15 final size:16
Alignment explanation
Indices: 48345678--48345707 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48345668 ATATTTAATT
48345678 TCATAATT-TAATAAA
1 TCATAATTATAATAAA
48345693 TCATAATTATAATAA
1 TCATAATTATAATAA
48345708 TATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
TCATAATTATAATAAA
Found at i:48353029 original size:26 final size:27
Alignment explanation
Indices: 48352980--48353034 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
48352970 TACTTTTTGA
*
48352980 TAAAATTTAAATTATTGAATTTTTTAT
1 TAAAATTTAAATTATTAAATTTTTTAT
48353007 TAAAA-TTAAA-TATTAAATATTTTTAT
1 TAAAATTTAAATTATTAAAT-TTTTTAT
48353033 TA
1 TA
48353035 CCAAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 14 0.54
27 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TAAAATTTAAATTATTAAATTTTTTAT
Found at i:48353590 original size:16 final size:16
Alignment explanation
Indices: 48353551--48353612 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 16
48353541 ACAAATAATT
*
48353551 TAAAATTTATAAAAATA
1 TAAAAATTA-AAAAATA
48353568 TTCAAAAATTAAAAAATA
1 -T-AAAAATTAAAAAATA
48353586 T-AAAATTCAAAAAATA
1 TAAAAATT-AAAAAATA
*
48353602 TAAAATTTAAA
1 TAAAAATTAAA
48353613 TTATTCATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 6 0.15
16 12 0.31
17 6 0.15
18 8 0.21
19 7 0.18
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAATTAAAAAATA
Found at i:48353597 original size:23 final size:23
Alignment explanation
Indices: 48353567--48353612 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48353557 TTATAAAAAT
*
48353567 ATTCAAAAATTAAAAAATATAAA
1 ATTCAAAAAATAAAAAATATAAA
* *
48353590 ATTCAAAAAATATAAAATTTAAA
1 ATTCAAAAAATAAAAAATATAAA
48353613 TTATTCATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTCAAAAAATAAAAAATATAAA
Found at i:48353771 original size:18 final size:19
Alignment explanation
Indices: 48353736--48353776 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
48353726 TGTATTAAAC
*
48353736 TTTTTAATTAATTTTTTAT
1 TTTTTAATTAATTATTTAT
*
48353755 TTTTTATTTAA-TATTTAT
1 TTTTTAATTAATTATTTAT
48353773 TTTT
1 TTTT
48353777 AAAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTAATTAATTATTTAT
Found at i:48357823 original size:148 final size:147
Alignment explanation
Indices: 48357577--48357864 Score: 368
Period size: 148 Copynumber: 1.9 Consensus size: 147
48357567 TGAGAATATG
* * *
48357577 GAAGCAAAAAACAATGGATTTGAAAGCAGGTTTTTTTGTATTTTTTTCTTAATTGGGACATACAA
1 GAAGCAAAAAAAAAAGGATTTGAAAGCAGG-TTTTTTGGATTTTTTTCTTAATTGGGACATACAA
** * *
48357642 GAAAATGTGAAAACTGAAAAACAATTAGCGGAAATGATC-ACAAACACAGATCTGAGGATTGGAA
65 GAAAATGTGAAAACTGAAAAACAAACAGCGGAAACGA-CGACAAACACAGATCTGAGAATTGGAA
*
48357706 AGCATAAAACAATTGGGAT
129 AGCAAAAAACAATTGGGAT
*
48357725 GAAG-AAAAAAAAAAGGATTTGATAGCAGG-TTTTTGGATTTTTTTCCCTTAATTGACGGA-ATA
1 GAAGCAAAAAAAAAAGGATTTGAAAGCAGGTTTTTTGGATTTTTTT--CTTAATTG--GGACATA
* * * * *
48357787 CAAGAAAATGTGAAAACTGAAAAACAAACAGTGGAAACGACGAGAAACCCAGATTTGAGAATTTG
62 CAAGAAAATGTGAAAACTGAAAAACAAACAGCGGAAACGACGACAAACACAGATCTGAGAATTGG
48357852 AAAGCAAAAAACA
127 AAAGCAAAAAACA
48357865 CTTAGTTCAC
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
145 14 0.12
147 31 0.26
148 73 0.60
149 3 0.02
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (147 bp):
GAAGCAAAAAAAAAAGGATTTGAAAGCAGGTTTTTTGGATTTTTTTCTTAATTGGGACATACAAG
AAAATGTGAAAACTGAAAAACAAACAGCGGAAACGACGACAAACACAGATCTGAGAATTGGAAAG
CAAAAAACAATTGGGAT
Found at i:48359313 original size:69 final size:69
Alignment explanation
Indices: 48359235--48359373 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
48359225 ATAGATGTCA
48359235 AATATCCTCAATTATCTAGTCTTGGGATTATCATGTAATTATCACTTAAATCATCATCCATATCA
1 AATATCCTCAATTATCTAGTCTTGGGATTATCATGTAATTATCACTTAAATCATCATCCATATCA
48359300 AAAT
66 AAAT
48359304 AATATCCTCAATTATCTAGTCTTGGGATTATCATGTAATTATCACTTAAATCATCATCCATATCA
1 AATATCCTCAATTATCTAGTCTTGGGATTATCATGTAATTATCACTTAAATCATCATCCATATCA
48359369 AAAT
66 AAAT
48359373 A
1 A
48359374 CATGAAATAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (69 bp):
AATATCCTCAATTATCTAGTCTTGGGATTATCATGTAATTATCACTTAAATCATCATCCATATCA
AAAT
Found at i:48359997 original size:43 final size:42
Alignment explanation
Indices: 48359945--48360025 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
48359935 GTCAAATAGC
48359945 ATATACTAGACCTAGTTACACCCCATTAACTAACTTAATATT
1 ATATACTAGACCTAGTTACACCCCATTAACTAACTTAATATT
** *
48359987 ATATGACTAGACCTAGTTACATGCCATTAACTAATTTAA
1 ATAT-ACTAGACCTAGTTACACCCCATTAACTAACTTAA
48360026 GACAAAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (42 bp):
ATATACTAGACCTAGTTACACCCCATTAACTAACTTAATATT
Found at i:48361536 original size:29 final size:28
Alignment explanation
Indices: 48361463--48361536 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
48361453 GTTCCTAAGT
*
48361463 ACATGCAAGCCTATATGCAAACCCTAGA
1 ACATGCGAGCCTATATGCAAACCCTAGA
* * * * *
48361491 ACTTGAGAGCTTATATGCGAACCCTAGGT
1 ACATGCGAGCCTATATGCAAACCCTA-GA
*
48361520 GCATGCGAGCCTATATG
1 ACATGCGAGCCTATATG
48361537 ATCATGCCGG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 21 0.60
29 14 0.40
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
ACATGCGAGCCTATATGCAAACCCTAGA
Found at i:48361856 original size:16 final size:16
Alignment explanation
Indices: 48361835--48361867 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48361825 GTGTTATAGA
48361835 GTTTTCAAATATATAT
1 GTTTTCAAATATATAT
*
48361851 GTTTTCAAATTTATAT
1 GTTTTCAAATATATAT
48361867 G
1 G
48361868 CTCTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (16 bp):
GTTTTCAAATATATAT
Found at i:48362519 original size:83 final size:84
Alignment explanation
Indices: 48362301--48362550 Score: 403
Period size: 83 Copynumber: 3.0 Consensus size: 84
48362291 TGCTGTCACT
* * *
48362301 TTTTTATTGTTTTAATGATGAATAATTAAGTAAGAAGAGTCTTCACCACTTTTGCTAGTGGAATA
1 TTTTTATTATTTTTATGATGAATAATTAAGTATGAAGAGTCTTCACCACTTTTGCTAGTGGAATA
* *
48362366 GGCATTCTTGATGTATTAC
66 GGCATTGTTGATGAATTAC
*
48362385 TTTTTATTATTTTTATGATGAATAATTAAGTATGAAGAGTCTTCACGACTTTTGCTAGTGGAATA
1 TTTTTATTATTTTTATGATGAATAATTAAGTATGAAGAGTCTTCACCACTTTTGCTAGTGGAATA
*
48362450 GGCATTGTTGAGGAATTAC
66 GGCATTGTTGATGAATTAC
* *
48362469 -TTTTATTATTTTTATGATGAATAATTAATTATGAAGAGTCTTCACCACTTTTGCAAGTGGAATA
1 TTTTTATTATTTTTATGATGAATAATTAAGTATGAAGAGTCTTCACCACTTTTGCTAGTGGAATA
*
48362533 GGTATTGTTGATGAATTA
66 GGCATTGTTGATGAATTA
48362551 TTATCGTTGT
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 77 0.50
84 77 0.50
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (84 bp):
TTTTTATTATTTTTATGATGAATAATTAAGTATGAAGAGTCTTCACCACTTTTGCTAGTGGAATA
GGCATTGTTGATGAATTAC
Found at i:48365298 original size:17 final size:16
Alignment explanation
Indices: 48365273--48365310 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
48365263 TTTTACTTTG
*
48365273 AAATTAAATTTATTTT
1 AAATTAAATTTAATTT
48365289 AAATTCAAATTTAATTT
1 AAATT-AAATTTAATTT
48365306 AAATT
1 AAATT
48365311 TAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTAAATTTAATTT
Found at i:48366114 original size:21 final size:19
Alignment explanation
Indices: 48366090--48366145 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
48366080 CATTTAATAA
48366090 TTTAATAAGTATTAATAATGT
1 TTTAATAA-TATTAATAAT-T
48366111 TTTAATAATAATTAAT-ATT
1 TTTAATAAT-ATTAATAATT
*
48366130 TTTAATAATAATAATA
1 TTTAATAATATTAATA
48366146 TAAAAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.16
19 10 0.31
20 3 0.09
21 14 0.44
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTAATAATATTAATAATT
Found at i:48366144 original size:18 final size:19
Alignment explanation
Indices: 48366090--48366146 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
48366080 CATTTAATAA
*
48366090 TTTAATAAGTATTAATAATGT
1 TTTAATAA-TAATAAT-ATGT
48366111 TTTAATAATAATTAATAT-T
1 TTTAATAATAA-TAATATGT
48366130 TTTAATAATAATAATAT
1 TTTAATAATAATAATAT
48366147 AAAAAAAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.18
19 12 0.35
20 4 0.12
21 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TTTAATAATAATAATATGT
Found at i:48367389 original size:29 final size:30
Alignment explanation
Indices: 48367338--48367485 Score: 165
Period size: 30 Copynumber: 4.9 Consensus size: 30
48367328 TTGACCCTTG
*
48367338 AACTTCTCCAAAATTACATTTTTAACCCCAA
1 AACTT-TCAAAAATTACATTTTTAACCCCAA
* *
48367369 AACTTTCAAAAATTACATTTTTAATCCTAA
1 AACTTTCAAAAATTACATTTTTAACCCCAA
* * * *
48367399 AACTTTTAAAAATTATATTTTT-GCCCTC-G
1 AACTTTCAAAAATTACATTTTTAACCC-CAA
* * *
48367428 AACTTTTAAAAATTCCATTTTTAACCCTAA
1 AACTTTCAAAAATTACATTTTTAACCCCAA
*
48367458 AACTTTCAAAAATTACATTTTTACCCCC
1 AACTTTCAAAAATTACATTTTTAACCCC
48367486 GAATGTCCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
29 22 0.23
30 69 0.72
31 5 0.05
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (30 bp):
AACTTTCAAAAATTACATTTTTAACCCCAA
Found at i:48367447 original size:59 final size:59
Alignment explanation
Indices: 48367338--48367488 Score: 194
Period size: 59 Copynumber: 2.5 Consensus size: 59
48367328 TTGACCCTTG
* ** *
48367338 AACTTCTCCAAAATTACATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTAATCCTAA
1 AACTT-TCAAAAATTACATTTTT-ACCCCCGAACTTTCAAAAATTACATTTTTAACCCTAA
* * * * * *
48367399 AACTTTTAAAAATTATATTTTTGCCCTCGAACTTTTAAAAATTCCATTTTTAACCCTAA
1 AACTTTCAAAAATTACATTTTTACCCCCGAACTTTCAAAAATTACATTTTTAACCCTAA
48367458 AACTTTCAAAAATTACATTTTTACCCCCGAA
1 AACTTTCAAAAATTACATTTTTACCCCCGAA
48367489 TGTCCAAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 57 0.75
60 14 0.18
61 5 0.07
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (59 bp):
AACTTTCAAAAATTACATTTTTACCCCCGAACTTTCAAAAATTACATTTTTAACCCTAA
Found at i:48367463 original size:89 final size:90
Alignment explanation
Indices: 48367315--48367480 Score: 255
Period size: 89 Copynumber: 1.9 Consensus size: 90
48367305 CTAAACTATC
* * *
48367315 TAAAAATTGTATTTTGACCCTTGAACTTCTCCAAAATTACATTTTTAACCCCAAAACTTTCAAAA
1 TAAAAATTATATTTTGACCCTCGAACTTCTCAAAAATTACATTTTTAACCCCAAAACTTTCAAAA
48367380 ATTACATTTTTAATCCTAAAACTTT
66 ATTACATTTTTAATCCTAAAACTTT
* * *
48367405 TAAAAATTATATTTTTG-CCCTCGAACTT-TTAAAAATTCCATTTTTAACCCTAAAACTTTCAAA
1 TAAAAATTATA-TTTTGACCCTCGAACTTCTCAAAAATTACATTTTTAACCCCAAAACTTTCAAA
48367468 AATTACATTTTTA
65 AATTACATTTTTA
48367481 CCCCCGAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
89 44 0.64
90 20 0.29
91 5 0.07
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (90 bp):
TAAAAATTATATTTTGACCCTCGAACTTCTCAAAAATTACATTTTTAACCCCAAAACTTTCAAAA
ATTACATTTTTAATCCTAAAACTTT
Found at i:48367529 original size:59 final size:57
Alignment explanation
Indices: 48367464--48367623 Score: 162
Period size: 59 Copynumber: 2.8 Consensus size: 57
48367454 CTAAAACTTT
* **
48367464 CAAAAATTACATTTTTACCCCCGAATGTCCAAAATTTTTTTTTTGATCTCGATTTTTTC
1 CAAAAATTACATTTTTACCCCAG-ATGTCCAAAATTTCGTTTTTGATCTCGA-TTTTTC
** ** *
48367523 TTAAAATTAC-TATTTTACCCTGGATGTCCAAAAATTTCGTTTTTGATCTTGATTTTTC
1 CAAAAATTACAT-TTTTACCCCAGATGTCC-AAAATTTCGTTTTTGATCTCGATTTTTC
* * *
48367581 CAAAAATTACCA-TTTTACCCCAGACGTCCAAAATGTCATTTTT
1 CAAAAATTA-CATTTTTACCCCAGATGTCCAAAATTTCGTTTTT
48367624 AAGACCGAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
57 12 0.14
58 34 0.41
59 37 0.45
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (57 bp):
CAAAAATTACATTTTTACCCCAGATGTCCAAAATTTCGTTTTTGATCTCGATTTTTC
Found at i:48367530 original size:89 final size:89
Alignment explanation
Indices: 48367307--48367515 Score: 208
Period size: 89 Copynumber: 2.3 Consensus size: 89
48367297 GGAGGTCCCT
* * * **
48367307 AAACTATCTAAAAATTGTA-TTTTGACCCTTGAACTTCTCCAAAATTACATTTTTAACCCCAAAA
1 AAACTGTC-AAAAATTATATTTTTGA-CCTCGAACTT-TTAAAAATTACATTTTTAACCCCAAAA
* *
48367371 CTTTCAAAAATTACATTTTTAATCCTA
63 CTTTCAAAAATTACATTTTTAACCCCA
* * * * *
48367398 AAACTTTTAAAAATTATATTTTTGCCCTCGAACTTTTAAAAATTCCATTTTTAACCCTAAAACTT
1 AAACTGTCAAAAATTATATTTTTGACCTCGAACTTTTAAAAATTACATTTTTAACCCCAAAACTT
*
48367463 TCAAAAATTACATTTTT-ACCCCC
66 TCAAAAATTACATTTTTAACCCCA
* * * * *
48367486 GAA-TGTCCAAAATTTTTTTTTTGATCTCGA
1 AAACTGTCAAAAATTATATTTTTGACCTCGA
48367516 TTTTTTCTTA
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
87 20 0.21
88 5 0.05
89 43 0.44
90 18 0.19
91 11 0.11
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (89 bp):
AAACTGTCAAAAATTATATTTTTGACCTCGAACTTTTAAAAATTACATTTTTAACCCCAAAACTT
TCAAAAATTACATTTTTAACCCCA
Found at i:48367550 original size:58 final size:56
Alignment explanation
Indices: 48367464--48367623 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 56
48367454 CTAAAACTTT
* **
48367464 CAAAAATTACATTTTTACCCCCGAATGTCCAAAATTTTTTTTTTGATCTCGATTTTTTC
1 CAAAAATTACA-TTTTA-CCCCGGATGTCCAAAATTTCGTTTTTGATCTCGA-TTTTTC
** * *
48367523 TTAAAATTACTATTTTACCCTGGATGTCCAAAAATTTCGTTTTTGATCTTGATTTTTC
1 CAAAAATTAC-ATTTTACCCCGGATGTCC-AAAATTTCGTTTTTGATCTCGATTTTTC
* * * *
48367581 CAAAAATTACCATTTTACCCCAGACGTCCAAAATGTCATTTTT
1 CAAAAATTA-CATTTTACCCCGGATGTCCAAAATTTCGTTTTT
48367624 AAGACCGAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
57 12 0.14
58 38 0.45
59 33 0.39
60 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (56 bp):
CAAAAATTACATTTTACCCCGGATGTCCAAAATTTCGTTTTTGATCTCGATTTTTC
Found at i:48379639 original size:92 final size:92
Alignment explanation
Indices: 48379482--48380669 Score: 2124
Period size: 92 Copynumber: 12.9 Consensus size: 92
48379472 TCAAAATAAT
* * * *
48379482 ATCAATTCCTATCTTTTTAAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAACTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
* *
48379547 TGGTAAGAGCAAGATAAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
48379574 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
*
48379639 TAGTAAGAGCAAGATAAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* * *
48379666 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAACAATTCTTTATCTCTCTGAATTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
*
48379731 TAGTAGGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
48379758 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48379823 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
48379850 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48379915 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* *
48379942 ATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
*
48380007 TAGTAAGAGCAAGATAAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* *
48380034 ATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48380099 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* *
48380126 ATCATTTCCTATCCTTTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48380191 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
*
48380218 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTCATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48380283 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* *
48380310 ATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
*
48380375 TAGTAAGAGCAAGATAAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* *
48380402 ATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48380467 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
* *
48380494 ATCATTTCCTATCCTTTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
48380559 TAGTAAGAGCAAGATGAAGTTTCAAAC
66 TAGTAAGAGCAAGATGAAGTTTCAAAC
*
48380586 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTCATCTCTCTGAAGTTG
1 ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
*
48380651 TAGTAAGAGTAAGATGAAG
66 TAGTAAGAGCAAGATGAAG
48380670 CCTCAACATC
Statistics
Matches: 1058, Mismatches: 38, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 1058 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (92 bp):
ATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTG
TAGTAAGAGCAAGATGAAGTTTCAAAC
Found at i:48380952 original size:11 final size:11
Alignment explanation
Indices: 48380936--48380980 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
48380926 TACTTTGAAA
*
48380936 TTAAATTTATT
1 TTAAATTTAAT
48380947 TTAAATTTAAAT
1 TTAAATTT-AAT
*
48380959 TTGAATTTAAT
1 TTAAATTTAAT
48380970 TTAAATTTAAT
1 TTAAATTTAAT
48380981 ATTATTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:48380956 original size:17 final size:16
Alignment explanation
Indices: 48380936--48380997 Score: 72
Period size: 17 Copynumber: 3.7 Consensus size: 16
48380926 TACTTTGAAA
*
48380936 TTAAATTTATTTTAAAT
1 TTAAATTTAATTT-AAT
48380953 TTAAATTTGAATTTAAT
1 TTAAATTT-AATTTAAT
48380970 TTAAATTTAATATT-AT
1 TTAAATTTAAT-TTAAT
48380986 TATAAATTTAAT
1 T-TAAATTTAAT
48380998 AAAACGTCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
16 6 0.15
17 31 0.76
18 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TTAAATTTAATTTAAT
Found at i:48380957 original size:6 final size:6
Alignment explanation
Indices: 48380936--48380979 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
48380926 TACTTTGAAA
* *
48380936 TTAAAT TT-ATT TTAAAT TTAAAT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
48380980 TATTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 9 0.27
6 24 0.73
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:48381758 original size:21 final size:19
Alignment explanation
Indices: 48381734--48381789 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
48381724 CATTTAATAA
48381734 TTTAATAAGTATTAATAATGT
1 TTTAATAA-TATTAATAAT-T
48381755 TTTAATAATAATTAAT-ATT
1 TTTAATAAT-ATTAATAATT
*
48381774 TTTAATAATAATAATA
1 TTTAATAATATTAATA
48381790 TAAAAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.16
19 10 0.31
20 3 0.09
21 14 0.44
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTAATAATATTAATAATT
Found at i:48381788 original size:18 final size:19
Alignment explanation
Indices: 48381734--48381790 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
48381724 CATTTAATAA
*
48381734 TTTAATAAGTATTAATAATGT
1 TTTAATAA-TAATAAT-ATGT
48381755 TTTAATAATAATTAATAT-T
1 TTTAATAATAA-TAATATGT
48381774 TTTAATAATAATAATAT
1 TTTAATAATAATAATAT
48381791 AAAAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.18
19 12 0.35
20 4 0.12
21 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TTTAATAATAATAATATGT
Found at i:48383086 original size:29 final size:30
Alignment explanation
Indices: 48382985--48383155 Score: 152
Period size: 30 Copynumber: 5.7 Consensus size: 30
48382975 GGAGGTTCCT
* **
48382985 AAACTATCCAAAAATTATA-TTTTAACCCTT
1 AAACT-TCCAAAAATTACATTTTTAACCCCA
* * *
48383015 GAACTTCTCTAAAATTACA-TTTTAACCCTA
1 AAACTTC-CAAAAATTACATTTTTAACCCCA
*** *
48383045 AAACTTTTGAAAATCACATTTTTAACCCCA
1 AAACTTCCAAAAATTACATTTTTAACCCCA
* * *
48383075 AAACTTCCAAAAATTACAATTTT-GCCCTA
1 AAACTTCCAAAAATTACATTTTTAACCCCA
* *
48383104 AAACTT-TAGAAAATTACATTTTTGACCCCA
1 AAACTTCCA-AAAATTACATTTTTAACCCCA
48383134 AAACTTCCAAAAATTACATTTT
1 AAACTTCCAAAAATTACATTTT
48383156 GACCCCCGAA
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.01
29 33 0.29
30 79 0.69
31 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTAACCCCA
Found at i:48383088 original size:59 final size:58
Alignment explanation
Indices: 48383016--48383160 Score: 209
Period size: 59 Copynumber: 2.4 Consensus size: 58
48383006 TTAACCCTTG
* *
48383016 AACTTCTCTAAAATTACATTTTAACCCTAAAACTTTTGAAAATCACATTTTTAACCCCAA
1 AACTTC-CAAAAATTACATTTT-ACCCTAAAACTTTAGAAAATCACATTTTTAACCCCAA
* * *
48383076 AACTTCCAAAAATTACAATTTTGCCCTAAAACTTTAGAAAATTACATTTTTGACCCCAA
1 AACTTCCAAAAATTAC-ATTTTACCCTAAAACTTTAGAAAATCACATTTTTAACCCCAA
48383135 AACTTCCAAAAATTACATTTTGACCC
1 AACTTCCAAAAATTACATTTT-ACCC
48383161 CCGAATGTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
58 5 0.06
59 61 0.79
60 11 0.14
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (58 bp):
AACTTCCAAAAATTACATTTTACCCTAAAACTTTAGAAAATCACATTTTTAACCCCAA
Found at i:48383231 original size:29 final size:28
Alignment explanation
Indices: 48383201--48383305 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 28
48383191 CGATTTTTCA
48383201 AAAATTACCATTTTACCCATAAATAT-CC
1 AAAATTACCATTTTACCC-TAAATATCCC
*
48383229 AAAATGT--CATTTTTAACCCTAAATTTTCCC
1 AAAAT-TACCA-TTTT-ACCCTAAA-TATCCC
* ** *
48383259 AAAATTACAATTTTACCCTCGAGAGTCCC
1 AAAATTACCATTTTACCCTAAATA-TCCC
48383288 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
48383306 CCGGGTATCC
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
27 2 0.03
28 13 0.21
29 35 0.56
30 11 0.18
31 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTAAATATCCC
Found at i:48384662 original size:36 final size:36
Alignment explanation
Indices: 48384598--48384670 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
48384588 TTTGCCTAAC
* * * *
48384598 ATGGTTTGCCTATGACACTTACAAGGTTCACTTATT
1 ATGGCTTGCATATGACACATACAAGGTTCACATATT
* *
48384634 ATGGCTTGCATATGACACATATAGGGTTCACATATT
1 ATGGCTTGCATATGACACATACAAGGTTCACATATT
48384670 A
1 A
48384671 CAATTCATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (36 bp):
ATGGCTTGCATATGACACATACAAGGTTCACATATT
Found at i:48385987 original size:6 final size:6
Alignment explanation
Indices: 48385978--48386042 Score: 91
Period size: 6 Copynumber: 11.2 Consensus size: 6
48385968 ATTTAAATTG
*
48385978 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTT-A CTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA ATTTAA ATTTAA
48386024 ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
48386043 CAATAAACAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 2 0.04
5 6 0.11
6 43 0.81
7 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:48386002 original size:17 final size:16
Alignment explanation
Indices: 48385968--48386042 Score: 105
Period size: 17 Copynumber: 4.4 Consensus size: 16
48385958 TTTAATTTGG
*
48385968 ATTTAAATTGATTTAA
1 ATTTAAATTTATTTAA
48385984 ATTTAAATTTATCTTAA
1 ATTTAAATTTAT-TTAA
48386001 ATTTAAATTTACTTTAA
1 ATTTAAATTTA-TTTAA
48386018 ATTTAAATTTAAATTTAA
1 ATTTAAATTT--ATTTAA
48386036 ATTTAAA
1 ATTTAAA
48386043 CAATAAACAT
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
16 11 0.20
17 29 0.54
18 13 0.24
19 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (16 bp):
ATTTAAATTTATTTAA
Found at i:48386008 original size:23 final size:22
Alignment explanation
Indices: 48385978--48386040 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
48385968 ATTTAAATTG
48385978 ATTTAAATTTAAATTTATCTTAA
1 ATTTAAATTTAAATTTAT-TTAA
*
48386001 ATTTAAATTT-ACTTTAAATTTAA
1 ATTTAAATTTAAATTT--ATTTAA
48386024 ATTTAAATTTAAATTTA
1 ATTTAAATTTAAATTTA
48386041 AACAATAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 5 0.14
23 24 0.69
24 6 0.17
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTAAATTTAAATTTATTTAA
Found at i:48386016 original size:11 final size:11
Alignment explanation
Indices: 48385968--48386042 Score: 71
Period size: 12 Copynumber: 6.6 Consensus size: 11
48385958 TTTAATTTGG
*
48385968 ATTTAAA-TTG
1 ATTTAAATTTA
48385978 ATTTAAATTTAA
1 ATTTAAATTT-A
** *
48385990 ATTTATCTTAA
1 ATTTAAATTTA
48386001 ATTTAAATTTA
1 ATTTAAATTTA
*
48386012 CTTTAAATTTAA
1 ATTTAAATTT-A
48386024 ATTTAAATTTAA
1 ATTTAAATTT-A
48386036 ATTTAAA
1 ATTTAAA
48386043 CAATAAACAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
10 7 0.13
11 20 0.38
12 26 0.49
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:48387084 original size:13 final size:14
Alignment explanation
Indices: 48387059--48387097 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
48387049 TTATGAAAAC
48387059 AAAAA-AAAGGAAG
1 AAAAAGAAAGGAAG
48387072 AAAAAGAAA-GAAG
1 AAAAAGAAAGGAAG
*
48387085 AAAAAGAGAGGAA
1 AAAAAGAAAGGAA
48387098 AAGGGATCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGGAAG
Found at i:48387808 original size:30 final size:30
Alignment explanation
Indices: 48387773--48388007 Score: 375
Period size: 30 Copynumber: 7.9 Consensus size: 30
48387763 AAATTGTCCA
* *
48387773 AAAATTACATTTTAACCCCAAAACTTTCCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
48387803 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
48387833 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
48387863 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
48387893 AAAATTACGTTTTGACCCCAAAAC-TTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
48387922 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
** *
48387952 AAAATTATGTTTTGACCCCAAAAC-TTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
48387981 AAAATTACATTTTGACCCCAAAACTTT
1 AAAATTACATTTTGACCCCAAAACTTT
48388008 CCTAAATCCC
Statistics
Matches: 190, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
29 52 0.27
30 138 0.73
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:48387855 original size:19 final size:19
Alignment explanation
Indices: 48387831--48387885 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 19
48387821 CAAAACTTTT
48387831 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
48387850 CC-AAA--AC-TTTT----
1 CCAAAATTACATTTTGACC
48387861 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
48387880 CCAAAA
1 CCAAAA
48387886 CTTTTCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 3 0.11
14 2 0.07
15 8 0.29
16 2 0.07
18 3 0.11
19 8 0.29
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (19 bp):
CCAAAATTACATTTTGACC
Found at i:48387950 original size:59 final size:59
Alignment explanation
Indices: 48387773--48388007 Score: 380
Period size: 59 Copynumber: 3.9 Consensus size: 59
48387763 AAATTGTCCA
*
48387773 AAAATTACATTTTAACCCCAAAACTTTCCCAAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTT-CCAAAATTACATTTTAACCCCAAAACTTTTCC
*
48387833 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCCAAAATTACATTTTAACCCCAAAACTTTTCC
* *
48387893 AAAATTACGTTTTGACCCCAAAACTTTCCAAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTCCAAAATTACATTTTAACCCCAAAACTTTTCC
** * *
48387952 AAAATTATGTTTTGACCCCAAAACTTTCAAAAATTACATTTTGACCCCAAAACTTT
1 AAAATTACATTTTGACCCCAAAACTTTCCAAAATTACATTTTAACCCCAAAACTTT
48388008 CCTAAATCCC
Statistics
Matches: 165, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
59 85 0.52
60 77 0.47
61 3 0.02
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (59 bp):
AAAATTACATTTTGACCCCAAAACTTTCCAAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:48388058 original size:29 final size:29
Alignment explanation
Indices: 48388020--48388110 Score: 98
Period size: 28 Copynumber: 3.1 Consensus size: 29
48388010 TAAATCCCAT
48388020 TTTTAACCCCGATTTCACCAAAATGTACCA
1 TTTTAACCCCGATTTCACCAAAAT-TACCA
* **
48388050 TTTTACCCCCGAATCTT--TTAAAATT-CCA
1 TTTTAACCCCG-AT-TTCACCAAAATTACCA
*
48388078 TTTTAACCTCGATTTCACCAAAATTACCA
1 TTTTAACCCCGATTTCACCAAAATTACCA
48388107 TTTT
1 TTTT
48388111 GCCCCCCGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 18 0.37
29 8 0.16
30 15 0.31
31 2 0.04
32 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACCAAAATTACCA
Found at i:48392164 original size:21 final size:20
Alignment explanation
Indices: 48392133--48392174 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
48392123 TTTTTTAGAT
48392133 AATTAAGTTTATT-TTCTTTA
1 AATTAAGTTTATTATT-TTTA
48392153 AATTAAGATTTATTATTTTTA
1 AATTAAG-TTTATTATTTTTA
48392174 A
1 A
48392175 CTTCATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 11 0.55
22 2 0.10
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTAAGTTTATTATTTTTA
Found at i:48392498 original size:14 final size:14
Alignment explanation
Indices: 48392479--48392505 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48392469 TGGTATCTAA
48392479 ACAATTTTTTGGTC
1 ACAATTTTTTGGTC
48392493 ACAATTTTTTGGT
1 ACAATTTTTTGGT
48392506 ACCTAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
ACAATTTTTTGGTC
Found at i:48400713 original size:20 final size:20
Alignment explanation
Indices: 48400688--48400725 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48400678 TCATATGACG
48400688 CATACAAGGTTCGCATATGA
1 CATACAAGGTTCGCATATGA
**
48400708 CATACACTGTTCGCATAT
1 CATACAAGGTTCGCATAT
48400726 TACAATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (20 bp):
CATACAAGGTTCGCATATGA
Found at i:48409912 original size:50 final size:49
Alignment explanation
Indices: 48409858--48409981 Score: 128
Period size: 50 Copynumber: 2.5 Consensus size: 49
48409848 ACAAATCCGG
*
48409858 TACCTTAAAAGATATGAAAGGGAAGGTTGAGG-TCGCAACGGTGAGCCCGA
1 TACCTTAAAAGATATG-AAGGGAAGGTTGAGGCT-GCAACGGTGAACCCGA
* * * *
48409908 TACC-TAAGAAGATGTGATGGGAAACGTTGAGGCTGCAACGGTGAACCCGG
1 TACCTTAA-AAGATATGAAGGG-AAGGTTGAGGCTGCAACGGTGAACCCGA
* *
48409958 TACCTT-GAAGAGATGAAGGGAAGG
1 TACCTTAAAAGATATGAAGGGAAGG
48409982 ATTAAGGTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
48 3 0.05
49 17 0.28
50 38 0.63
51 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (49 bp):
TACCTTAAAAGATATGAAGGGAAGGTTGAGGCTGCAACGGTGAACCCGA
Found at i:48410059 original size:50 final size:50
Alignment explanation
Indices: 48410005--48410129 Score: 146
Period size: 49 Copynumber: 2.5 Consensus size: 50
48409995 TGATGAATCT
* * *
48410005 GGTACCTAAAAAGATGCGATGGGAAAGGTTGTGG-CTACAACGACAAACCC
1 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTC-ACAACGACAAACCC
* * * * *
48410055 GGTACC-ACGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGACGAACCC
1 GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCACAACGACAAACCC
*
48410104 GGTACCTAAGAGGATGTGATGGGAAA
1 GGTACCTAAGAAGATGTGATGGGAAA
48410130 AGTAGATACG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 39 0.64
50 22 0.36
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.15
Consensus pattern (50 bp):
GGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCACAACGACAAACCC
Found at i:48410108 original size:99 final size:98
Alignment explanation
Indices: 48409866--48410129 Score: 294
Period size: 99 Copynumber: 2.7 Consensus size: 98
48409856 GGTACCTTAA
* * *
48409866 AAGATATGAAAGGGAAGGTTGAGGTCGCAACGGTGAGCCCGATACCTAAGAAGATGTGATGGGAA
1 AAGATATG-AAGGGAAGGTTGAGGTCGCAACGATGAACCCGGTACCTAAGAAGATGTGATGGGAA
* *** **
48409931 ACGTTGAGGCTGCAACGGTGAACCCGGTACCTTG
65 ACGTTGAGGCTACAACGACAAACCCGGTACCACG
* * * ** * * * * *
48409965 AAGAGATGAAGGGAAGGATTAAGGTTGTGATGATGAATCTGGTACCTAAAAAGATGCGATGGGAA
1 AAGATATGAAGGGAAGG-TTGAGGTCGCAACGATGAACCCGGTACCTAAGAAGATGTGATGGGAA
* *
48410030 AGGTTGTGGCTACAACGACAAACCCGGTACCACG
65 ACGTTGAGGCTACAACGACAAACCCGGTACCACG
* *
48410064 AAGATATGAAGGGAAAGGTTGAGGTCGCAACGACGAACCCGGTACCTAAGAGGATGTGATGGGAA
1 AAGATATGAAGGG-AAGGTTGAGGTCGCAACGATGAACCCGGTACCTAAGAAGATGTGATGGGAA
48410129 A
65 A
48410130 AGTAGATACG
Statistics
Matches: 130, Mismatches: 33, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
98 9 0.07
99 117 0.90
100 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (98 bp):
AAGATATGAAGGGAAGGTTGAGGTCGCAACGATGAACCCGGTACCTAAGAAGATGTGATGGGAAA
CGTTGAGGCTACAACGACAAACCCGGTACCACG
Found at i:48410661 original size:99 final size:99
Alignment explanation
Indices: 48410133--48410696 Score: 446
Period size: 99 Copynumber: 5.7 Consensus size: 99
48410123 TGGGAAAAGT
* * * * ** * * * *
48410133 AGATACGAAGGGAAAGGTTAAGACTGCAACGGTGAACCCGGTACCTAAGAAGATGTGCTAGAAAA
1 AGATACGAAAGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGATGGGAAA
* * * * ** * *
48410198 GGTTGAGGTCGTAATGACGAACCCAGTATCATAA
66 GATTGAGGCCGCAACGGTGAACCCAGTACCATGA
* * * ** * ** * * *
48410232 AGAGATG-AAGGGAAGGATTGAGGCCGTGACGATGAATTCGGTACTTAAGAAGATGCGATGGGAA
1 AGATACGAAAGGAAAGG-TTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGATGGGAA
* * *
48410296 AGGTTGAGGCCGTAACGGTGAACCC-GATACCACT-T
65 AGATTGAGGCCGCAACGGTGAACCCAG-TACCA-TGA
* *
48410331 AGATACGAAGGGAAAGGTTGAGGCCGCAA-TA-GCAACCCAGTACCTAAGAAGATGTGATGGGAA
1 AGATACGAAAGGAAAGGTTGAGGCCGCAACGACG-AACCCAGTACCTAAGAAGATGTGATGGGAA
* * * * **
48410394 AGGTTGAGACCACTACGGCAAACCCAGTACCATGA
65 AGATTGAGGCCGCAACGGTGAACCCAGTACCATGA
* ** *
48410429 AGATACGAAGGGAAAGGTTGAGGCCGCAACGAAAAACCCGGTACCTAAGAAGATGTGATGGGAAA
1 AGATACGAAAGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGATGGGAAA
*
48410494 CATTGAGGCCGCAACGGTGAACCCAGTACCATGA
66 GATTGAGGCCGCAACGGTGAACCCAGTACCATGA
* * * * * * * * * *
48410528 AGAGATG-AAGGGAAGGATTGAGGCCACGATGACGAATCTAGTACCTTAGAAGATGTGGTGGGAA
1 AGATACGAAAGGAAAGG-TTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGATGGGAA
48410592 AGATTGA-GCTCGCAACGGTGAACCC-GATACCATGA
65 AGATTGAGGC-CGCAACGGTGAACCCAG-TACCATGA
* * * * *
48410627 AGATATGAAAGGAAAGGTTGAGGCCGCAACGACGAACCTAGAACCTTAGAA-ACT-TGACGGGAA
1 AGATACGAAAGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGA-TGTGATGGGAA
48410690 AGATTGA
65 AGATTGA
48410697 AGCCACAATG
Statistics
Matches: 375, Mismatches: 76, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
97 2 0.01
98 112 0.30
99 245 0.65
100 16 0.04
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.16
Consensus pattern (99 bp):
AGATACGAAAGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGATGGGAAA
GATTGAGGCCGCAACGGTGAACCCAGTACCATGA
Found at i:48410664 original size:49 final size:49
Alignment explanation
Indices: 48410133--48410664 Score: 281
Period size: 49 Copynumber: 10.8 Consensus size: 49
48410123 TGGGAAAAGT
* * * * ** * *
48410133 AGATACGAAGGGAAAGGTTAAGACTGCAACGGTGAACCCGGTACCTAAGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACC-ATGA
* * * * * * * *
48410183 AGATGTGCTA-GAAAAGGTTGAGGTCGTAATGACGAACCCAGTATCATAA
1 AGATATG-AAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCATGA
* ** * ** * * *
48410232 AGAGATGAAGGG-AAGGATTGAGGCCGTGACGATGAATTCGGTACTTAAGA
1 AGATATGAAGGGAAAGG-TTGAGGCCGCAACGACGAACCCAGTAC-CATGA
** * * ** *
48410282 AGATGCGATGGGAAAGGTTGAGGCCGTAACGGTGAACCC-GATACCACT-T
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCAG-TACCA-TGA
* * *
48410331 AGATACGAAGGGAAAGGTTGAGGCCGCAA-TA-GCAACCCAGTACCTAAGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACG-AACCCAGTACC-ATGA
* * * * * * *
48410380 AGATGTGATGGGAAAGGTTGAGACCACTACGGCAAACCCAGTACCATGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCATGA
* ** * *
48410429 AGATACGAAGGGAAAGGTTGAGGCCGCAACGAAAAACCCGGTACCTAAGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACC-ATGA
* * ** **
48410479 AGATGTGATGGGAAACATTGAGGCCGCAACGGTGAACCCAGTACCATGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCATGA
* * * * * * *
48410528 AGAGATGAAGGG-AAGGATTGAGGCCACGATGACGAATCTAGTACCTTAGA
1 AGATATGAAGGGAAAGG-TTGAGGCCGCAACGACGAACCCAGTACCAT-GA
* ** * **
48410578 AGATGTGGTGGGAAAGATTGA-GCTCGCAACGGTGAACCC-GATACCATGA
1 AGATATGAAGGGAAAGGTTGAGGC-CGCAACGACGAACCCAG-TACCATGA
*
48410627 AGATATGAAAGGAAAGGTTGAGGCCGCAACGACGAACC
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACC
48410665 TAGAACCTTA
Statistics
Matches: 350, Mismatches: 112, Indels: 41
0.70 0.22 0.08
Matches are distributed among these distances:
47 1 0.00
48 16 0.05
49 186 0.53
50 139 0.40
51 8 0.02
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (49 bp):
AGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCATGA
Found at i:48410691 original size:296 final size:296
Alignment explanation
Indices: 48410133--48410696 Score: 692
Period size: 296 Copynumber: 1.9 Consensus size: 296
48410123 TGGGAAAAGT
* *** *
48410133 AGATACGAAGGGAAAGGTTAAGACTGCAACGGTGAACCCGGTACCTAAGAAGATGTGCTAGAAAA
1 AGATACGAAGGGAAAGGTTAAGACCGCAACGAAAAACCCGGTACCTAAGAAGATGTGATAGAAAA
** * * * * **
48410198 GGTTGAGGTCGTAATGACGAACCCAGTATCATAAAGAGATGAAGGGAAGGATTGAGGCCGTGACG
66 CATTGAGGCCGCAACGACGAACCCAGTACCATAAAGAGATGAAGGGAAGGATTGAGGCCACGACG
* * * *
48410263 ATGAATTCGGTACTTAAGAAGATGCGATGGGAAAGGTTGAGGCCGTAACGGTGAACCCGATACCA
131 ACGAATTCAGTACTTAAGAAGATGCGATGGGAAAGATTGAGGCCGCAACGGTGAACCCGATACCA
* * * * *
48410328 CTTAGATACGAAGGGAAAGGTTGAGGCCGCAATAGCAACCCAGTACCTAAGAAGATGTGATGGGA
196 CTAAGATACGAAAGGAAAGGTTGAGGCCGCAAGAGCAACCCAGAACCTAAGAAGATGTGACGGGA
*
48410393 AAGGTTGAGACCACTACGGCAAACCCAGTACCATGA
261 AAGATTGAGACCACTACGGCAAACCCAGTACCATGA
* * * *
48410429 AGATACGAAGGGAAAGGTTGAGGCCGCAACGAAAAACCCGGTACCTAAGAAGATGTGATGGGAAA
1 AGATACGAAGGGAAAGGTTAAGACCGCAACGAAAAACCCGGTACCTAAGAAGATGTGATAGAAAA
** * *
48410494 CATTGAGGCCGCAACGGTGAACCCAGTACCATGAAGAGATGAAGGGAAGGATTGAGGCCACGATG
66 CATTGAGGCCGCAACGACGAACCCAGTACCATAAAGAGATGAAGGGAAGGATTGAGGCCACGACG
* *
48410559 ACGAA-TCTAGTACCTT-AGAAGATGTGGTGGGAAAGATTGA-GCTCGCAACGGTGAACCCGATA
131 ACGAATTC-AGTA-CTTAAGAAGATGCGATGGGAAAGATTGAGGC-CGCAACGGTGAACCCGATA
* * *
48410621 CCA-TGAAGATATGAAAGGAAAGGTTGAGGCCGCAACGA-CGAACCTAGAACCTTAGAA-ACT-T
193 CCACT-AAGATACGAAAGGAAAGGTTGAGGCCGCAA-GAGC-AACCCAGAACCTAAGAAGA-TGT
48410682 GACGGGAAAGATTGA
254 GACGGGAAAGATTGA
48410697 AGCCACAATG
Statistics
Matches: 225, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
295 5 0.02
296 201 0.89
297 19 0.08
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.16
Consensus pattern (296 bp):
AGATACGAAGGGAAAGGTTAAGACCGCAACGAAAAACCCGGTACCTAAGAAGATGTGATAGAAAA
CATTGAGGCCGCAACGACGAACCCAGTACCATAAAGAGATGAAGGGAAGGATTGAGGCCACGACG
ACGAATTCAGTACTTAAGAAGATGCGATGGGAAAGATTGAGGCCGCAACGGTGAACCCGATACCA
CTAAGATACGAAAGGAAAGGTTGAGGCCGCAAGAGCAACCCAGAACCTAAGAAGATGTGACGGGA
AAGATTGAGACCACTACGGCAAACCCAGTACCATGA
Done.