Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168171.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_41, whole genome shotgun sequence
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: 255648
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
File 4 of 6
Found at i:135330 original size:19 final size:19
Alignment explanation
Indices: 135308--135346 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
135298 TTCAATAGCC
*
135308 ATTAATA-ATATTGTTAATT
1 ATTAATACA-ATTATTAATT
135327 ATTAATACAATTATTAATT
1 ATTAATACAATTATTAATT
135346 A
1 A
135347 ATGATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAATACAATTATTAATT
Found at i:136109 original size:16 final size:16
Alignment explanation
Indices: 136088--136128 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
136078 ATGTTTAAAT
136088 TTATTAACT-ATAATTA
1 TTATTAA-TAATAATTA
136104 TTATTAATAATAATTA
1 TTATTAATAATAATTA
*
136120 TAATTAATA
1 TTATTAATA
136129 GAATATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTAATAATAATTA
Found at i:136820 original size:16 final size:16
Alignment explanation
Indices: 136768--136822 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
136758 TTATTAATTA
136768 TATAATAAA-ATATTAT
1 TATAATAAATAT-TTAT
*
136784 TTTAATAAATAATTTGA-
1 TATAATAAAT-ATTT-AT
136801 -ATAATAAATATTTAT
1 TATAATAAATATTTAT
136816 TATAATA
1 TATAATA
136823 TTCAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 4 0.12
16 22 0.69
17 2 0.06
18 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TATAATAAATATTTAT
Found at i:137080 original size:27 final size:28
Alignment explanation
Indices: 137018--137085 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
137008 AAGTCATGGA
137018 TATAAATCTAATT-AAAATATATCTTAAT
1 TATAAAT-TAATTAAAAATATATCTTAAT
137046 T-TAAATTAATTAAAAATATAT-TT-AT
1 TATAAATTAATTAAAAATATATCTTAAT
*
137071 TATAATATTATTTAA
1 TATAA-ATTAATTAA
137086 TATTAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 3 0.08
26 10 0.28
27 22 0.61
28 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAAATTAATTAAAAATATATCTTAAT
Found at i:137110 original size:35 final size:36
Alignment explanation
Indices: 137044--137111 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
137034 ATATATCTTA
* *
137044 ATTTAAATTAATTAAAAATATATTTATTATAATATT
1 ATTTAAATTAAATAAAAATATATTGATTATAATATT
*
137080 ATTTAATATTAAATAAATAT-TATTGA-TATAAT
1 ATTTAA-ATTAAATAAAAATATATTGATTATAAT
137112 TTCAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 6 0.21
36 11 0.39
37 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTTAAATTAAATAAAAATATATTGATTATAATATT
Found at i:137802 original size:14 final size:15
Alignment explanation
Indices: 137777--137805 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
137767 AATTTAGATC
137777 AATTATAATAATATA
1 AATTATAATAATATA
137792 AATTA-AATAATATA
1 AATTATAATAATATA
137806 TTATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAATAATATA
Found at i:137878 original size:17 final size:16
Alignment explanation
Indices: 137846--137918 Score: 70
Period size: 14 Copynumber: 4.9 Consensus size: 16
137836 AATTAATTAA
137846 TATTAATATTAA-A-T
1 TATTAATATTAATAGT
137860 TATT--TATTAATAGT
1 TATTAATATTAATAGT
*
137874 TATT-ATAGT-ATAGT
1 TATTAATATTAATAGT
137888 TATTAATATATTAATA-T
1 TATT-A-ATATTAATAGT
137905 TATTAATATTAATA
1 TATTAATATTAATA
137919 ATTTATGATA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
12 6 0.12
13 1 0.02
14 18 0.36
15 12 0.24
16 1 0.02
17 9 0.18
18 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
TATTAATATTAATAGT
Found at i:137910 original size:9 final size:9
Alignment explanation
Indices: 137887--137924 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
137877 TATAGTATAG
137887 TTATTAATA
1 TTATTAATA
137896 -TATTAATA
1 TTATTAATA
137904 TTATTAATA
1 TTATTAATA
*
137913 TTAATAAT-
1 TTATTAATA
137921 TTAT
1 TTAT
137925 GATATTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 11 0.42
9 15 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTAATA
Found at i:137924 original size:17 final size:16
Alignment explanation
Indices: 137841--137924 Score: 57
Period size: 17 Copynumber: 5.1 Consensus size: 16
137831 TACATAATTA
*
137841 ATTAATATTAATATTAA
1 ATTAATATTAATATT-T
* *
137858 ATTATTTATTAATAGTT
1 ATTA-ATATTAATATTT
* *
137875 ATT-ATAGT-ATAGTT
1 ATTAATATTAATATTT
137889 ATTAATATATTAATA-TT
1 ATT-A-ATATTAATATTT
137906 ATTAATATTAATAATTT
1 ATTAATATTAAT-ATTT
137923 AT
1 AT
137925 GATATTGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.17
15 11 0.20
16 2 0.04
17 20 0.37
18 12 0.22
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
ATTAATATTAATATTT
Found at i:137990 original size:13 final size:13
Alignment explanation
Indices: 137953--137996 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 13
137943 TTACAACAAA
137953 AAAAATATTATTAAT
1 AAAAATA-TA-TAAT
137968 AATTAAATATATAAT
1 AA--AAATATATAAT
137983 AAAAATATATAAT
1 AAAAATATATAAT
137996 A
1 A
137997 TAATAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.44
15 8 0.30
16 2 0.07
17 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATATATAAT
Found at i:138008 original size:18 final size:18
Alignment explanation
Indices: 137964--138032 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
137954 AAAATATTAT
137964 TAATAATTA-A-AT-ATA
1 TAATAATTATATATAATA
**
137979 TAATAAAAATATATAATA
1 TAATAATTATATATAATA
*
137997 TAATAATTATATATTATA
1 TAATAATTATATATAATA
*
138015 -AATAACTAT-TATTAATA
1 TAATAATTATATA-TAATA
138032 T
1 T
138033 TATGATACAC
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 7 0.17
16 3 0.07
17 14 0.33
18 18 0.43
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATTATATATAATA
Found at i:138008 original size:29 final size:30
Alignment explanation
Indices: 137953--138031 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 30
137943 TTACAACAAA
*
137953 AAAAATATTATTAATAATTAAATATATAAT
1 AAAAATATTATTAATAAATAAATATATAAT
*
137983 AAAAATA-TA-TAATATAATAATTATATATTAT
1 AAAAATATTATTAATA-AATAA--ATATATAAT
138014 AAATAACTATTATTAATA
1 AAA-AA-TATTATTAATA
138032 TTATGATACA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 5 0.12
29 6 0.15
30 7 0.17
31 11 0.28
32 2 0.05
33 2 0.05
34 2 0.05
35 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAAATATTATTAATAAATAAATATATAAT
Found at i:138070 original size:12 final size:13
Alignment explanation
Indices: 138043--138075 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
138033 TATGATACAC
138043 AATTATATATTTTA
1 AATTA-ATATTTTA
138057 AATTAATA-TTTA
1 AATTAATATTTTA
138069 AATTAAT
1 AATTAAT
138076 TAAAACTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATATTTTA
Found at i:138787 original size:31 final size:29
Alignment explanation
Indices: 138738--138818 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
138728 TATTAAATAT
138738 ATTAATAATATTAATAATTTATTCAATAGCC
1 ATTAATAATATTAATAA-TTATT-AATAGCC
** *
138769 ATTAATAATATTGTTAATTATTAATA-CA
1 ATTAATAATATTAATAATTATTAATAGCC
* *
138797 ATTATTAATA--AATGATTATTAA
1 ATTAATAATATTAATAATTATTAA
138819 AATTTTTTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
26 9 0.21
28 10 0.23
29 4 0.09
30 5 0.12
31 15 0.35
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (29 bp):
ATTAATAATATTAATAATTATTAATAGCC
Found at i:138804 original size:19 final size:19
Alignment explanation
Indices: 138726--138805 Score: 51
Period size: 19 Copynumber: 4.1 Consensus size: 19
138716 TTTTAATTGG
*
138726 ATTATTAA-ATATATTAATA
1 ATTATTAATA-ATATTATTA
138745 A-TATTAATAAT-TTATTCA
1 ATTATTAATAATATTATT-A
* *
138763 ATAGCCATTAATAATATTGTTA
1 AT---TATTAATAATATTATTA
138785 ATTATTAATACA-ATTATTA
1 ATTATTAATA-ATATTATTA
138804 AT
1 AT
138806 AAATGATTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
17 4 0.08
18 10 0.21
19 17 0.35
20 1 0.02
22 12 0.25
23 4 0.08
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTATTAATAATATTATTA
Found at i:138979 original size:17 final size:17
Alignment explanation
Indices: 138957--138991 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
138947 TTTAATATAT
*
138957 TAATTATACAATTAATA
1 TAATTAAACAATTAATA
*
138974 TAATTAAATAATTAATA
1 TAATTAAACAATTAATA
138991 T
1 T
138992 TTAAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTAAACAATTAATA
Found at i:139017 original size:15 final size:15
Alignment explanation
Indices: 138952--139020 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
138942 AACTATTTAA
*
138952 TATATTAATTATACAAT
1 TATA-TAATTA-ATAAT
138969 TAATATAATTAAATAAT
1 T-ATATAATT-AATAAT
* *
138986 TA-ATATTTAAAATAT
1 TATATAATTAATA-AT
*
139001 TATATACTTAATAAT
1 TATATAATTAATAAT
139016 TATAT
1 TATAT
139021 CTGTTTGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.07
15 16 0.37
16 9 0.21
17 11 0.26
18 4 0.09
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATAATTAATAAT
Found at i:139649 original size:18 final size:18
Alignment explanation
Indices: 139628--139672 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
139618 TTTATAAATA
*
139628 TTAATTTATTTATACAAC
1 TTAATTTATTAATACAAC
* * *
139646 TTAATTAATTAATACTAT
1 TTAATTTATTAATACAAC
139664 TTAATTTAT
1 TTAATTTAT
139673 AAAATCAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTATTAATACAAC
Found at i:140032 original size:24 final size:23
Alignment explanation
Indices: 139989--140075 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 23
139979 TCTTTATTAT
139989 TTATC-AATAAAT-TTAAATTTTGAA
1 TTATCAAATAAATATT--ATTTT-AA
140013 TTATCAAATAAATATTATTTTAA
1 TTATCAAATAAATATTATTTTAA
* *
140036 TT-TGAAATAAATA-TAATTTAA
1 TTATCAAATAAATATTATTTTAA
*
140057 -TATTTAAATAAATTATTAT
1 TTA-TCAAATAAA-TATTAT
140076 ATAAGCAAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 7 0.13
22 18 0.34
23 6 0.11
24 12 0.23
25 7 0.13
26 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTATCAAATAAATATTATTTTAA
Found at i:140046 original size:22 final size:23
Alignment explanation
Indices: 140018--140075 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
140008 TTGAATTATC
140018 AAATAAATATTATTTTAAT-TTG
1 AAATAAATATTATTTTAATATTG
* *
140040 AAATAAATA-TAATTTAATATTT
1 AAATAAATATTATTTTAATATTG
140062 AAATAAATTATTAT
1 AAATAAA-TATTAT
140076 ATAAGCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 8 0.27
22 18 0.60
23 2 0.07
24 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAAATATTATTTTAATATTG
Found at i:140781 original size:31 final size:30
Alignment explanation
Indices: 140746--140814 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
140736 AATATTTAAC
140746 TAATTAATATT-TTAT-ATTATAGTATAAATAT
1 TAATTAATATTATTATCA--ATAGTATAAA-AT
* *
140777 TAATTAAAATTATTATCAATAGTATATAAT
1 TAATTAATATTATTATCAATAGTATAAAAT
140807 TAATTAAT
1 TAATTAAT
140815 TACATTTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 9 0.27
31 19 0.58
32 4 0.12
33 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (30 bp):
TAATTAATATTATTATCAATAGTATAAAAT
Found at i:140852 original size:22 final size:22
Alignment explanation
Indices: 140824--140869 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
140814 TTACATTTAC
*
140824 AAATT-AATAAATGTTAATTAAT
1 AAATTAAAT-AATATTAATTAAT
140846 AAATTAAATAATATTAATTAAT
1 AAATTAAATAATATTAATTAAT
140868 AA
1 AA
140870 CAATAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTAAATAATATTAATTAAT
Found at i:141716 original size:28 final size:28
Alignment explanation
Indices: 141672--141727 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
141662 TAACATAATA
141672 TAATTATAAATAATAATT-TATTTATAT
1 TAATTATAAATAATAATTATATTTATAT
141699 TAATTATAAAATAATAATTAATATTTATA
1 TAATTAT-AAATAATAATT-ATATTTATA
141728 ATATAGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.27
28 11 0.42
30 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATTATAAATAATAATTATATTTATAT
Found at i:141896 original size:22 final size:22
Alignment explanation
Indices: 141869--141911 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
141859 TTACATTTAT
*
141869 AAATATTAAAATTATTATAATA
1 AAATATTAAAATTATAATAATA
**
141891 AAATATTGTAATTATAATAAT
1 AAATATTAAAATTATAATAAT
141912 TGTTTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTAAAATTATAATAATA
Found at i:142124 original size:14 final size:15
Alignment explanation
Indices: 142101--142129 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
142091 CATGTATATG
142101 TTATTATATATAATA
1 TTATTATATATAATA
142116 TTATT-TATATAATA
1 TTATTATATATAATA
142130 AATTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTATATATAATA
Found at i:142125 original size:16 final size:16
Alignment explanation
Indices: 142104--142145 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
142094 GTATATGTTA
142104 TTATAT-ATAATATTAT
1 TTATATAATAA-ATTAT
142120 TTATATAATAAATTAT
1 TTATATAATAAATTAT
*
142136 ATTAAATAAT
1 -TTATATAAT
142146 GATATTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATATAATAAATTAT
Found at i:142367 original size:31 final size:31
Alignment explanation
Indices: 142299--142367 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
142289 ATAATATAGT
*
142299 TATTAATAATACTATATTATTAATTATTAAA
1 TATTAATAATACTATATTAATAATTATTAAA
*
142330 TAATTAATAA-ACTATA-TAATAATTTATTATTA
1 T-ATTAATAATACTATATTAATAA-TTATTA-AA
142362 TATTAA
1 TATTAA
142368 AAAATAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 5 0.15
31 18 0.55
32 10 0.30
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
TATTAATAATACTATATTAATAATTATTAAA
Found at i:143040 original size:25 final size:24
Alignment explanation
Indices: 143018--143098 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
143008 TAAATAATTA
**
143018 AATATTAAATTTTAATTAT-TAAT
1 AATATTAAATTTTAAGCATATAAT
143041 AATATTAAAATTTTAAGCATATAAT
1 AATATT-AAATTTTAAGCATATAAT
*
143066 AATATTATAATTTTAACGCTTATAA-
1 AATATTA-AATTTTAA-GCATATAAT
*
143091 AATTTTAA
1 AATATTAA
143099 TTGTCAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.12
24 13 0.26
25 24 0.48
26 7 0.14
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
AATATTAAATTTTAAGCATATAAT
Found at i:143442 original size:22 final size:21
Alignment explanation
Indices: 143413--143484 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 21
143403 CTATATTTTT
143413 ATAA-TATTAATC-TTAAATAA
1 ATAATTATTAATCATT-AATAA
* *
143433 TATATTTATTTATTCATTAATAA
1 -ATAATTA-TTAATCATTAATAA
*
143456 ATAATTATTAAT-A-TAATTA
1 ATAATTATTAATCATTAATAA
*
143475 ATATTTATTA
1 ATAATTATTA
143485 TTATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 14 0.33
20 1 0.02
21 7 0.17
22 8 0.19
23 10 0.24
24 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTATTAATCATTAATAA
Found at i:143493 original size:19 final size:19
Alignment explanation
Indices: 143434--143498 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
143424 CTTAAATAAT
*
143434 ATATTTATTTATTCATTAATAA
1 ATATTTA-TTATT-ATT-ATTA
* * *
143456 ATAATTATTAATATAATTA
1 ATATTTATTATTATTATTA
143475 ATATTTATTATTATTATT-
1 ATATTTATTATTATTATTA
143493 ATATTT
1 ATATTT
143499 GTATTAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 6 0.17
19 18 0.50
20 2 0.06
21 4 0.11
22 6 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTATTATTATTATTA
Found at i:144882 original size:179 final size:180
Alignment explanation
Indices: 144080--145220 Score: 709
Period size: 181 Copynumber: 6.4 Consensus size: 180
144070 TAATTATGGC
* * * * * *
144080 CATAACGATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTATTTATTAATTGTCT
1 CATAACTATTTGAACTAGTTTGGTAAACAGAATTATTTTTT-AATCTCTTACTTATTAATT-T-T
* * * * * *
144145 T--AATATTAATAAA-TATGTATTATTTTATTCAAAATAAGTTTAGATGAACAGGAAAAAATT-C
63 TGAAATATTAACAAATTA-GTATTATTTTATTCCAAATAAGCTTATATGAACA-GAAACAATTGT
* * * * * * * * *
144206 TTTATGACAAAACAAAAGGTTATAGCT-ATTTCAAATAGATAATTATTTAAACAAT
126 TTTATGACAAAACAAAAAGTCATA-ATGATTTGAAATATATAATTGTTCAAATAGT
* * * * * * * * * * * *
144261 CCTAATTATTTAAATTTGTTTAGAAAACA-AGGTCATTTTTTAAATCTATTTA-TTATAAAATTT
1 CATAACTATTTGAACTAGTTTGGTAAACAGA-ATTATTTTTT-AATCT-CTTACTTATTAATTTT
* * * * * * ** *
144324 TGGATTATTAATAAAATTAATATTATTTTATTTTC-AATAAGTTTATATGAATTGAAACAATTCT
63 TGAAATATTAA-CAAATTAGTATTATTTTA-TTCCAAATAAGCTTATATGAACAGAAACAATTGT
* * * * *
144388 TTTATGACAAAGCAAAAGGTC------A-TTGAAATAGATAATTATTCAAATTGT
126 TTTATGACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGT
** * * * * * * ** ** * * * **
144436 TGTGATTATTTGATCTAGTGTGGTAAACATATTTATTTTAAAAAAATTTTACTGATTAATTGTCA
1 CATAACTATTTGAACTAGTTTGGTAAACAGAATTATTTT-TTAATCTCTTACTTATTAATTTTTG
* * * *
144501 AAATATTAACAAATTAGTATTATTTTAATCCAAATAAGCTTGTATAAATAGAAACAATTGTTTTA
65 AAATATTAACAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACAGAAACAATTGTTTTA
* * * **
144566 TAACAAAACAAAAAGTCATTATGATTTGAAATAAATAATTACTCAAATAGT
130 TGACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGT
* * * * * *
144617 CATAACTTTTTGAACTAGTTTGATACATAGATTTATTTTTTAA-ATC--ACTTATTAATTTTTGA
1 CATAACTATTTGAACTAGTTTGGTAAACAGAATTATTTTTTAATCTCTTACTTATTAATTTTTGA
* * * * * *
144679 AATATTAATAGATTAGTATTATTTTATTCCAAATAAACTTATATGAACAAAAACATTTGTATTAT
66 AATATTAACAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACAGAAACAATTGTTTTAT
*
144744 GACAAAA-AAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGT
131 GACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGT
* * * * * * *
144793 -ATAATTTTTTGAATTGGTTAGGTATACAGAATTATTTTTTCAATCTCTTATTTATTAATTTTTG
1 CATAACTATTTGAACTAGTTTGGTAAACAGAATTATTTTTT-AATCTCTTACTTATTAATTTTTG
* * * ** *
144857 AAATATTAACAAATTCA-TTTTATTTTATTTCGAATAAGC-TAGTATGAATTGAGAA-AATTATT
65 AAATATTAACAAATT-AGTATTATTTTATTCCAAATAAGCTTA-TATGAACAGA-AACAATTGTT
* * * * * *
144919 TTATGACAAGAC-AAAGGTCATAACGATTTGAATTAGATAATTGTTCATATAGT
127 TTATGACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGT
* * * * * * *
144972 CTTAACTATTTGAATTGGTTCGGTAAATA-AATTTATTTTTTAAATCCCTTAGTTATTAATTTTT
1 CATAACTATTTGAACTAGTTTGGTAAACAGAA-TTATTTTTT-AATCTCTTACTTATTAA-TTTT
* ** * * *** * *
145036 TG-AATACTATTAGATTCA-TATTGTTTTATTTTGAATAAGCTTGTATGAACAGAAATAATTGTT
63 TGAAATATTAACAAATT-AGTATTATTTTATTCCAAATAAGCTTATATGAACAGAAACAATTGTT
* * * * * *
145099 TTATGACAAAACAAAAGGTTATGATGATATGAAGTATAGAATTGTTCAAATAGT
127 TTATGACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGT
* * * *
145153 AATAATTATTTAAACTAGTTTGGTAAACAG-ATTCATTTTTTAAACTCTTACTTATTAATTTTTG
1 CATAACTATTTGAACTAGTTTGGTAAACAGAATT-ATTTTTTAATCTCTTACTTATTAATTTTTG
145217 AAAT
65 AAAT
145221 TGTTAATTTT
Statistics
Matches: 754, Mismatches: 170, Indels: 73
0.76 0.17 0.07
Matches are distributed among these distances:
173 2 0.00
174 62 0.08
175 95 0.13
176 41 0.05
177 75 0.10
178 2 0.00
179 115 0.15
180 129 0.17
181 178 0.24
182 51 0.07
183 4 0.01
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (180 bp):
CATAACTATTTGAACTAGTTTGGTAAACAGAATTATTTTTTAATCTCTTACTTATTAATTTTTGA
AATATTAACAAATTAGTATTATTTTATTCCAAATAAGCTTATATGAACAGAAACAATTGTTTTAT
GACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGT
Found at i:145065 original size:180 final size:180
Alignment explanation
Indices: 144501--145220 Score: 570
Period size: 180 Copynumber: 4.0 Consensus size: 180
144491 TTAATTGTCA
* * * * * * * * *
144501 AAATATTAACAAATT-AGTATTATTTTAATCCAAATAAGCTTGTATAAATAGAAACAATTGTTTT
1 AAATACTAACAAATTCA-TATTATTTTATTTCGAATAAGCTAGTATGAACAGAAATAATTATTTT
* * * * * **
144565 ATAACAAAACAAAAAGTCATTATGATTTGAAATAAATAATTACTCAAATAGTCATAACTT-TTTG
65 ATGACAAAAC-AAAGGTAATAATGATTTGAAATATATAATTGTTCAAATAGT-ATAA-TTATTTG
* * * * * * *
144629 AACTAGTTTGATACATAGATTTATTTTTTAAA--TC--ACTTATTAA-TTTTTG
127 AATTGGTTAGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTTG
* * * * * * * * * * *
144678 AAATATTAATAGATT-AGTATTATTTTATTCCAAATAAACTTA-TATGAACAAAAACATTTGTAT
1 AAATACTAACAAATTCA-TATTATTTTATTTCGAATAAGC-TAGTATGAACAGAAATAATTATTT
* * *
144741 TATGACAAAAAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAATTTTTTGAA
64 TATGACAAAACAAAGGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAATTATTTGAA
* * *
144806 TTGGTTAGGTATACAGAA-TTATTTTTTCAATCTCTTATTTATTAA-TTTTTG
129 TTGGTTAGGTAAACA-AATTTATTTTTTAAATCTCTTACTTATTAATTTTTTG
* * **
144857 AAATATTAACAAATTCATTTTATTTTATTTCGAATAAGCTAGTATGAATTGAGAA-AATTATTTT
1 AAATACTAACAAATTCATATTATTTTATTTCGAATAAGCTAGTATGAACAGA-AATAATTATTTT
* * * * * * * *
144921 ATGACAAGACAAAGGTCATAACGATTTGAATTAGATAATTGTTCATATAGTCTTAACTATTTGAA
65 ATGACAAAACAAAGGTAATAATGATTTGAAATATATAATTGTTCAAATAGT-ATAATTATTTGAA
* * * *
144986 TTGGTTCGGTAAATAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTTG
129 TTGGTTAGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTTG
** * * * * *
145038 -AATACTATTAGATTCATATTGTTTTATTTTGAATAAGCTTGTATGAACAGAAATAATTGTTTTA
1 AAATACTAACAAATTCATATTATTTTATTTCGAATAAGCTAGTATGAACAGAAATAATTATTTTA
* * * * * *
145102 TGACAAAACAAAAGGTTATGATGATATGAAGTATAGAATTGTTCAAATAGTAATAATTATTTAAA
66 TGACAAAAC-AAAGGTAATAATGATTTGAAATATATAATTGTTCAAATAGT-ATAATTATTTGAA
* * * * *
145167 CTAGTTTGGTAAACAGATTCATTTTTTAAA-CTCTTACTTATTAA-TTTTTG
129 TTGGTTAGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTTG
145217 AAAT
1 AAAT
145221 TGTTAATTTT
Statistics
Matches: 440, Mismatches: 87, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
174 2 0.00
175 30 0.07
176 37 0.08
177 62 0.14
178 3 0.01
179 111 0.25
180 122 0.28
181 73 0.17
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (180 bp):
AAATACTAACAAATTCATATTATTTTATTTCGAATAAGCTAGTATGAACAGAAATAATTATTTTA
TGACAAAACAAAGGTAATAATGATTTGAAATATATAATTGTTCAAATAGTATAATTATTTGAATT
GGTTAGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTTG
Found at i:146606 original size:169 final size:176
Alignment explanation
Indices: 145607--147148 Score: 616
Period size: 181 Copynumber: 8.7 Consensus size: 176
145597 ATATTTTAAA
* * * * * **
145607 AATTAATAACTAAGAGATTTAAAAAATAAAAT-TGTTTGCCGAACTAGTTCAAATAGTTAAAACT
1 AATTAATAAGTAAAAGATTTAAAAAAT-AAATCTGTTTACTGAACAAGTTCAAATAGTTATGACT
* * * * * * **
145671 ATATGAATAATTATCTATTTCAAATCATTATAACCGTTTGTTTTGTCATAAAACAATAT-TTTCA
65 ATTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAACAAT-TGTTTTT
* * * * *
145735 ATTCATACTAGCTTATTTAGAATAAAATAAAATAAATTTATTAAAATTTTAA-A-
129 GTTCATACAAGC---TTTAGAAT-AAACAACAT-AATTTATT--AATATTAAGAC
* * * * * * * *
145788 AATTAATAAGTAAGAGAATTAAAAAATAATTATGTTTACCT-AACTAGTTCAAATAATAATGATT
1 AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA-CTGAACAAGTTCAAATAGTTATGACT
* *** * * *
145852 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTG-TTCGCCATAAAACTAA-TGTTTTT
65 ATTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAAC-AATTGTTTTT
* * * * * *
145915 ATTCATATAAG-TTAGATCAAAATAAAATAATACTAATATATTAATATTTCAA-A-
129 GTTCATACAAGCTT---T-AGAAT-AAACAACA-TAATTTATTAATA-TT-AAGAC
* * * * * *
145968 AATTAAT-A--AAAA-TTTTAAAAATTAAATTATGTTTA-TCAA-ATCGATTC-AA-A-TTAAGA
1 AATTAATAAGTAAAAGATTTAAAAAATAAA-TCTGTTTACTGAACA-AG-TTCAAATAGTTATGA
* * * * * * * * *
146024 CTATTT-AAGCAATTATTTATTTAAAAT-ATTATGACTTTTTG-TTCTATTATAAGATAATAGTT
63 CTATTTGAA-CAATTATTTATTTCAAATCACTATAACCTTTTGCTT-TGTCATAAAACAATTGTT
* * * * * * **
146086 TCTATTTATTCAAGCTTATTCAGATTAAAATAATACA-AATTTATTAATATTTTGAC
126 TTTGTTCATACAAGC-T-TT-AGAAT-AAA-CA-ACATAATTTATTAATATTAAGAC
* * * * * * * *
146142 AATTAATAAGTAAAAAATGTAAAAAATTAAATATGTTTACTAAACTAGATCAAACAGTCATGACT
1 AATTAATAAGTAAAAGATTTAAAAAA-TAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACT
* * * * * * * * *
146207 ATTTGAATAGTTATCTATTTCAAATCATTATGACCCTTTTTCTTCTGTCATAAAAAAATTATTTC
65 ATTTGAACAATTATTTATTTCAAATCACTAT-AACCTTTTGCTT-TGTCATAAAACAATTGTTTT
** * * * * * * ** *
146272 AATTCATATAAGATTATTCAAAATAAAATAATATTAAGTTATTAATATTTTGAA
128 TGTTCATACAAG-CT-TT-AGAAT-AAACAACA-TAATTTATTAATATTAAGAC
* * * * * * * *
146326 AATTAATAATTAAGAGATTTAAAAAATGAATCTGTTTACTGAATAAGTTTAAATAATTATAATTA
1 AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTA
* ** **
146391 TTTAAACAATTATTTATTGGAAATCACTATAACCTTTTGCTTTGTCATAAAATGATT-TTTTCTG
66 TTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAACAATTGTTTT-TG
*
146455 TTTATACAAGC-TTA-AAT-AAC-ACA-AATTTATTAA-ATTAAGAC
130 TTCATACAAGCTTTAGAATAAACAACATAATTTATTAATATTAAGAC
* *
146496 AATTAATAAGTAAAAGATTT-AAAAATAAATCTATTTACTGAACAAGTTCAAATCGTTATGACTA
1 AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTA
*** * * *
146560 TTTGAACAATTATTTATTTCAAATTGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTTTGT
66 TTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAACAATTGTTTTTGT
* * **
146625 TCATACTAGCTTATTTAGAATAAACTAATATTAATTTATTAATATTTTGAC
131 TCATACAAGC---TTTAGAATAAAC-AACA-TAATTTATTAATATTAAGAC
* * * ** *
146676 AATTTATAAGTAAAAGATTTAAAAAATAAATATGTTTGCCAAACAAGTTCAAATAGTCATGACTA
1 AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTA
* * * * * * * * *
146741 TTTGAATAATAATCTATTTCAAATCA-TCGTGACCTTTTGTTTTGT-ACTAAAATAATTGCTTTA
66 TTTGAACAATTATTTATTTCAAATCACT-ATAACCTTTTGCTTTGTCA-TAAAACAATTGTTTTT
* * * * **
146804 GTTCATATAAGCCTATT-TAAGATA-AA-ATAA--TA-T--T-CCAA-A-
129 GTTCATACAAG-CT-TTAGAATAAACAACATAATTTATTAATATTAAGAC
* * * * *
146843 AATTAA-AGAGTAATAGAATAAAAAAATAAAAT-T-TCTTA-TCGATCAAGTTAAAATAGTTATG
1 AATTAATA-AGTAAAAGATTTAAAAAAT-AAATCTGT-TTACT-GAACAAGTTCAAATAGTTATG
* * * * * * * * *
146904 ACTATCTAAACAATTATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAATTGGTT
62 ACTATTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAACAATTGTTT
* * * * * *
146969 CTATTCATGCAAGCGTATTTTGAATAAAATAATATAAATTTATTAATATTTCAA-A-
127 TTGTTCATACAAGC---TTTAGAAT-AAACAACAT-AATTTATTAATA-TT-AAGAC
** * * * **
147024 AATTAATAAGTTTAA-TTTTAGAAAATAAAGT-TATTTTTTGAACACA-TTCAAATAGTTATGAC
1 AATTAATAAGTAAAAGATTTAAAAAATAAA-TCTGTTTACTGAACA-AGTTCAAATAGTTATGAC
* * * * * *
147086 TATTTGAACAATTATCTATTTCAAATCATTATGACCATTTGTTTTGTCATAAACCAATTGTTT
64 TATTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAACAATTGTTT
147149 ATTCAATAAT
Statistics
Matches: 1044, Mismatches: 230, Indels: 175
0.72 0.16 0.12
Matches are distributed among these distances:
166 3 0.00
167 101 0.10
168 9 0.01
169 96 0.09
170 30 0.03
171 11 0.01
172 3 0.00
173 30 0.03
174 75 0.07
175 12 0.01
176 25 0.02
177 24 0.02
178 23 0.02
179 33 0.03
180 174 0.17
181 241 0.23
182 22 0.02
183 56 0.05
184 76 0.07
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (176 bp):
AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTA
TTTGAACAATTATTTATTTCAAATCACTATAACCTTTTGCTTTGTCATAAAACAATTGTTTTTGT
TCATACAAGCTTTAGAATAAACAACATAATTTATTAATATTAAGAC
Found at i:147292 original size:17 final size:17
Alignment explanation
Indices: 147252--147296 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
147242 AATATATCAA
147252 TATTCATT-AAT-TAAT
1 TATTCATTAAATATAAT
* *
147267 AATTAATTAAATATAAT
1 TATTCATTAAATATAAT
147284 TATTCATTAAATA
1 TATTCATTAAATA
147297 ATTAATGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 6 0.25
16 3 0.12
17 15 0.62
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTCATTAAATATAAT
Found at i:147756 original size:35 final size:35
Alignment explanation
Indices: 147668--147761 Score: 91
Period size: 40 Copynumber: 2.5 Consensus size: 35
147658 CAATCCAATT
* *
147668 TAATATTAAATTATAATATATTAATTTATTAATTTA
1 TAATATTAAA-TATATTATATTAATTCATTAATTTA
*
147704 TGAAAATTAGTATAATATATTATATTAA-TCATTAATATTA
1 T---AA-TATTA-AATATATTATATTAATTCATTAAT-TTA
147744 TAATATTAAATATATTAT
1 TAATATTAAATATATTAT
147762 TAATAATCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
35 10 0.21
36 5 0.10
37 2 0.04
39 9 0.19
40 20 0.42
41 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (35 bp):
TAATATTAAATATATTATATTAATTCATTAATTTA
Found at i:148077 original size:17 final size:18
Alignment explanation
Indices: 148037--148077 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
148027 AATATATGAT
*
148037 TATAATTTTATTATAATA
1 TATAATTTTATCATAATA
148055 -ATTAATTTT-TCATAATA
1 TA-TAATTTTATCATAATA
148072 TATAAT
1 TATAAT
148078 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTTTATCATAATA
Found at i:148205 original size:19 final size:20
Alignment explanation
Indices: 148175--148214 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
148165 TATAATTGAC
148175 TATTTAAAAATAATAA-ATAT
1 TATTTAAAAAT-ATAATATAT
148195 TATTT-AAAATATAATATAT
1 TATTTAAAAATATAATATAT
148214 T
1 T
148215 TCACATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAAAATATAATATAT
Found at i:148208 original size:21 final size:21
Alignment explanation
Indices: 148139--148210 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
148129 TAGCTTAATA
*
148139 ATAATTAATATTAATTATAAATAT
1 ATAATAAATATT-ATT-TAAA-AT
* * *
148163 ATTATAATTGACTATTTAAAA-
1 ATAATAAAT-ATTATTTAAAAT
148184 ATAATAAATATTATTTAAAAT
1 ATAATAAATATTATTTAAAAT
148205 ATAATA
1 ATAATA
148211 TATTTCACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.26
21 13 0.33
22 1 0.03
23 4 0.10
24 9 0.23
25 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
ATAATAAATATTATTTAAAAT
Found at i:148214 original size:16 final size:17
Alignment explanation
Indices: 148175--148225 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
148165 TATAATTGAC
148175 TATTTAAAAATAATAAATAT
1 TATTT-AAAAT-AT-AATAT
148195 TATTTAAAATATAATA-
1 TATTTAAAATATAATAT
* *
148211 TATTTCACATATAAT
1 TATTTAAAATATAAT
148226 TAATAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 13 0.45
17 4 0.14
18 2 0.07
19 5 0.17
20 5 0.17
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTTAAAATATAATAT
Found at i:148231 original size:44 final size:45
Alignment explanation
Indices: 148134--148232 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
148124 AATAATAGCT
* * * *
148134 TAATAATAATTAATATTAATTATAAATATATTATAATTGACTATT
1 TAATAATAATAAATATTAATTATAAATATAATATAATTCACTATA
* * *
148179 TAAAAATAATAAATATTATTTA-AAATATAATATATTTCAC-ATA
1 TAATAATAATAAATATTAATTATAAATATAATATAATTCACTATA
148222 TAATTAATAAT
1 TAA-TAATAAT
148233 TATAATTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
43 5 0.11
44 21 0.47
45 19 0.42
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (45 bp):
TAATAATAATAAATATTAATTATAAATATAATATAATTCACTATA
Found at i:150118 original size:20 final size:20
Alignment explanation
Indices: 150095--150143 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
150085 ATTTAATTTT
*
150095 ATATTAATTTAACTA-ATATA
1 ATATTAATTTAAATATATA-A
150115 ATA-TAATTTAAATATATAA
1 ATATTAATTTAAATATATAA
150134 ATTATTAATT
1 A-TATTAATT
150144 ATTAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAATTTAAATATATAA
Found at i:150149 original size:23 final size:25
Alignment explanation
Indices: 150113--150180 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
150103 TTAACTAATA
*
150113 TAATATAATTTAAATATATAAATTAT
1 TAATATTA-TTAAATATATAAATTAT
* *
150139 T-A-ATTATTAAATATTTAATTTAT
1 TAATATTATTAAATATATAAATTAT
*
150162 TAATATTAGTAAATATATA
1 TAATATTATTAAATATATA
150181 TTTATTGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 16 0.46
24 4 0.11
25 14 0.40
26 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
TAATATTATTAAATATATAAATTAT
Found at i:150607 original size:180 final size:180
Alignment explanation
Indices: 150280--150801 Score: 466
Period size: 180 Copynumber: 2.9 Consensus size: 180
150270 CAATATCATT
* * * * * * * * *
150280 AATAATACTAATTTATTAATATTTAAAAAATTAATCAGCAAGAGATTTAAAAAGTAAAATGC--T
1 AATAAAACTAATTTAATAATATTTCAAAAATTAATAACCAAGAAAATTAAAAAAT-AAATTCAAT
* * * ** * * * * *
150343 TACCAAACCATTTCAAATAGCTTTAACTATTTTA-AA-ATTTATCTATTTCGAATCATTATAACC
65 TACCGAATCAATTCAAATAG--TTAAGAATATTAGAATAATTATCTATTTCAAATCGTTATGACC
* * * * ** *
150406 TTTTATTTTATCATCAAACAATTGGTTTTGTTTATACTATTTTCTTCGAAATAA
128 TTTTATTTTGTCATAAAACAATT-GTTTTGTTCATACAAGCTTATTCGAAATAA
* * *
150460 AATAAAACTAATTTAATAATA-TTCTGAAACTTAATAACCAAGAAAATTAAAAAATAAATTTAAT
1 AATAAAACTAATTTAATAATATTTC-AAAAATTAATAACCAAGAAAATTAAAAAATAAATTCAAT
* * * *
150524 TGCCGAA-CTAGTTGAAAT-GTTAAGAATA-TATGAATGATTATCTATTTCAAATCGTTATGACC
65 TACCGAATC-AATTCAAATAGTTAAGAATATTA-GAATAATTATCTATTTCAAATCGTTATGACC
* * * * *
150586 TTTTATTTTGTCGTAAAACAATTATTTTGTTCATACAAGCTTATTTGGATTAA
128 TTTTATTTTGTCATAAAACAATTGTTTTGTTCATACAAGCTTATTCGAAATAA
* * * * **
150639 AATAACACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTCGTTT
1 AATAAAACTAATTTAATAATATTTCAAAAATTAATAACCAAGAAAATTAAAAAATAAATTCAATT
* * **
150704 ACCGAATCAATTCAAATATTTAAGACTATTAGAATAATTATCTATTTCAAATCGTTATGATATTT
66 ACCGAATCAATTCAAATAGTTAAGAATATTAGAATAATTATCTATTTCAAATCGTTATGACCTTT
* *
150769 TATTTGGTTATAAAACAATTGTTTTAGTTCATA
131 TATTTTGTCATAAAACAATTGTTTT-GTTCATA
150802 AAAGGGTATT
Statistics
Matches: 273, Mismatches: 57, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
177 2 0.01
178 6 0.02
179 93 0.34
180 150 0.55
181 22 0.08
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (180 bp):
AATAAAACTAATTTAATAATATTTCAAAAATTAATAACCAAGAAAATTAAAAAATAAATTCAATT
ACCGAATCAATTCAAATAGTTAAGAATATTAGAATAATTATCTATTTCAAATCGTTATGACCTTT
TATTTTGTCATAAAACAATTGTTTTGTTCATACAAGCTTATTCGAAATAA
Found at i:151066 original size:13 final size:13
Alignment explanation
Indices: 151018--151079 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
151008 TAATTATCGG
151018 TAATAATAATATA
1 TAATAATAATATA
*
151031 TCAATATTACA-ATTA
1 T-AATAATA-ATA-TA
*
151046 TTATAATAATATA
1 TAATAATAATATA
*
151059 TAATAATAATATT
1 TAATAATAATATA
151072 TAATAATA
1 TAATAATA
151080 TTAATTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
13 23 0.57
14 13 0.32
15 4 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:151121 original size:23 final size:22
Alignment explanation
Indices: 151046--151122 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
151036 ATTACAATTA
* *
151046 TTATAATAATATATAATAATAAT
1 TTATAATAATATTTAAT-TTAAT
151069 ATT-TAATAATA-TTAATTTAAT
1 -TTATAATAATATTTAATTTAAT
*
151090 TTAATTAATAATATTTAATCTTCAT
1 TT-A-TAATAATATTTAAT-TTAAT
151115 TTATAATA
1 TTATAATA
151123 TAGTATAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.04
21 4 0.09
22 4 0.09
23 21 0.47
24 8 0.18
25 6 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAATAATATTTAATTTAAT
Found at i:151122 original size:20 final size:19
Alignment explanation
Indices: 151069--151123 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
151059 TAATAATAAT
*
151069 ATTTAA-TAATATTAATTTA
1 ATTTAATTAATAAT-ATTTA
151088 ATTTAATTAATAATATTTA
1 ATTTAATTAATAATATTTA
* *
151107 ATCTTCATTTATAATAT
1 AT-TTAATTAATAATAT
151124 AGTATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAATAATATTTA
Found at i:151175 original size:23 final size:24
Alignment explanation
Indices: 151143--151193 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
151133 ATATATAATT
*
151143 TATTAGTTAAATAATTTTCAAA-AA
1 TATTAGTTAAAT-ATTTTAAAATAA
*
151167 TATTA-TTAACTATTTTAAAATAA
1 TATTAGTTAAATATTTTAAAATAA
151190 TATT
1 TATT
151194 TACTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 11 0.46
24 5 0.21
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TATTAGTTAAATATTTTAAAATAA
Found at i:151188 original size:20 final size:20
Alignment explanation
Indices: 151163--151205 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
151153 ATAATTTTCA
* *
151163 AAAATATTATTAACTATTTT
1 AAAATAATATTAACTATTAT
*
151183 AAAATAATATTTACTATTAT
1 AAAATAATATTAACTATTAT
151203 AAA
1 AAA
151206 CAACAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATAATATTAACTATTAT
Found at i:151533 original size:15 final size:15
Alignment explanation
Indices: 151493--151536 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
151483 TTTAAAATTT
*
151493 ATTA-AATTATTATA
1 ATTATAATTATAATA
*
151507 AATATCAATTATAATA
1 ATTAT-AATTATAATA
151523 ATTATAATTATAAT
1 ATTATAATTATAAT
151537 TAATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 13 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAATTATAATA
Found at i:151684 original size:23 final size:20
Alignment explanation
Indices: 151645--151685 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
151635 AATAATATAC
151645 TAATAAAATATTATTATAAA
1 TAATAAAATATTATTATAAA
151665 TAATAATAATTATTAGTTATA
1 TAATAA-AA-TATTA-TTATA
151686 CTGATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 5 0.28
23 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATAAAATATTATTATAAA
Found at i:152397 original size:19 final size:18
Alignment explanation
Indices: 152371--152419 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
152361 CAAATTATAA
*
152371 AAATTATTAATAATCATT
1 AAATTATTAATAATAATT
* *
152389 AATATTATTATTAGTAATT
1 AA-ATTATTAATAATAATT
152408 AAATTA-TAATAA
1 AAATTATTAATAA
152420 ATATATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATTATTAATAATAATT
Found at i:152472 original size:16 final size:16
Alignment explanation
Indices: 152406--152474 Score: 63
Period size: 16 Copynumber: 4.3 Consensus size: 16
152396 TTATTAGTAA
*
152406 TTAAATTATAATAAAT
1 TTAAATTATAATATAT
* *
152422 ATATATTAT-ATATAT
1 TTAAATTATAATATAT
152437 TTAAA--ATAATTATCACT
1 TTAAATTATAA-TAT-A-T
152454 TTAAATTATAATATAT
1 TTAAATTATAATATAT
152470 TTAAA
1 TTAAA
152475 ATTTTATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
13 2 0.05
14 1 0.02
15 11 0.26
16 14 0.33
17 7 0.17
18 3 0.07
19 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:153733 original size:21 final size:23
Alignment explanation
Indices: 153693--153739 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
153683 ATATATTATT
*
153693 ATAATAAAATAATTAATTTATTAA
1 ATAATAAAATAATT-ATTTAATAA
153717 ATAAT-AAATAATT-TTTAATAA
1 ATAATAAAATAATTATTTAATAA
153738 AT
1 AT
153740 TATATAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
23 8 0.36
24 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATAAAATAATTATTTAATAA
Found at i:154129 original size:18 final size:18
Alignment explanation
Indices: 154106--154147 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
154096 TTTTGACATA
*
154106 ATATAAAATTATTATAAT
1 ATATAAAATCATTATAAT
154124 ATAT--AA-CATTATAAT
1 ATATAAAATCATTATAAT
154139 ATATAAAAT
1 ATATAAAAT
154148 AATTTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 2 0.10
18 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAAAATCATTATAAT
Found at i:154136 original size:15 final size:15
Alignment explanation
Indices: 154116--154144 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
154106 ATATAAAATT
154116 ATTATAATATATAAC
1 ATTATAATATATAAC
154131 ATTATAATATATAA
1 ATTATAATATATAA
154145 AATAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTATAATATATAAC
Found at i:154205 original size:43 final size:43
Alignment explanation
Indices: 154132--154236 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 43
154122 ATATATAACA
* * * *
154132 TTATAATATATAAAATAATTTTACAAAATAACTTAATACTATT-T
1 TTATAATAT-TATAATAACTATACAAAATAA-ATAATACTATTCT
*
154176 TTATAATATTATAATAACTATA-AAGAATAAATAATATTATTCT
1 TTATAATATTATAATAACTATACAA-AATAAATAATACTATTCT
154219 TTATTATATAATTATAAT
1 TTA-TA-AT-ATTATAAT
154237 TAATATATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 11 0.22
43 19 0.37
44 11 0.22
45 2 0.04
46 8 0.16
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (43 bp):
TTATAATATTATAATAACTATACAAAATAAATAATACTATTCT
Found at i:154256 original size:22 final size:23
Alignment explanation
Indices: 154220--154267 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 23
154210 TATTATTCTT
154220 TATTATATAATTATAATTAATATA
1 TATTATATAATTATAA-TAATATA
154244 TATTATA-AA-TATAATAATATA
1 TATTATATAATTATAATAATATA
154265 TAT
1 TAT
154268 AATTTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 2 0.08
24 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTATATAATTATAATAATATA
Found at i:154282 original size:43 final size:42
Alignment explanation
Indices: 154230--154331 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
154220 TATTATATAA
154230 TTATAATTAATATATATTATAA-ATATAA-TAAT-ATATATAATTT
1 TTAT-ATTAAT-TAT-TTA-AATATATAATTAATAATATATAATTT
* *
154273 GTTTTATTAATTATTTAAATATATAATTATTAATATATAATTT
1 -TTATATTAATTATTTAAATATATAATTAATAATATATAATTT
154316 TTATATTAAATTATTT
1 TTATATT-AATTATTT
154332 TATTAATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
40 2 0.04
41 9 0.18
42 12 0.24
43 25 0.49
44 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (42 bp):
TTATATTAATTATTTAAATATATAATTAATAATATATAATTT
Found at i:154299 original size:16 final size:16
Alignment explanation
Indices: 154280--154331 Score: 60
Period size: 14 Copynumber: 3.6 Consensus size: 16
154270 TTTGTTTTAT
154280 TAATTATTTAAATATA
1 TAATTATTTAAATATA
154296 TAATTA-TT-AATATA
1 TAATTATTTAAATATA
*
154310 TAATT-TTTATAT-TA
1 TAATTATTTAAATATA
154324 -AATTATTT
1 TAATTATTT
154332 TATTAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.12
14 18 0.56
15 4 0.12
16 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTATTTAAATATA
Found at i:154401 original size:17 final size:17
Alignment explanation
Indices: 154379--154434 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
154369 ATACTAATAA
154379 ATTAATTAAAATTAATT
1 ATTAATTAAAATTAATT
* *
154396 ATTAATATTAAA-TAAAT
1 ATTAAT-TAAAATTAATT
154413 ATTAATTATAATATATAATT
1 ATTAATTA-AA-AT-TAATT
154433 AT
1 AT
154435 ATTATATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 1 0.03
17 18 0.60
18 5 0.17
20 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAATTAAAATTAATT
Found at i:154430 original size:20 final size:20
Alignment explanation
Indices: 154385--154449 Score: 53
Period size: 23 Copynumber: 3.0 Consensus size: 20
154375 ATAAATTAAT
154385 TAAA-ATTAATTATTAATATTAAA
1 TAAATATTAATTA-TAATA-T--A
154408 TAAATATTAATTATAATATA
1 TAAATATTAATTATAATATA
154428 TAATTATATTATATTAT-ATATA
1 TAA--ATATTA-ATTATAATATA
154450 AATTGTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.11
22 12 0.32
23 14 0.37
24 8 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATATTAATTATAATATA
Found at i:154435 original size:13 final size:13
Alignment explanation
Indices: 154223--154441 Score: 69
Period size: 13 Copynumber: 17.4 Consensus size: 13
154213 TATTCTTTAT
154223 TATATAATTATAA
1 TATATAATTATAA
154236 TTAATATATATTATAA
1 -T-ATATA-ATTATAA
*
154252 -ATATAATAAT-A
1 TATATAATTATAA
**
154263 TATATAATT-TGT
1 TATATAATTATAA
*
154275 TTTATTAATTATTTAAA
1 TATA-TAATTA--T-AA
154292 TATATAATTATTAA
1 TATATAATTA-TAA
* *
154306 TATATAATTTTTA
1 TATATAATTATAA
**
154319 TAT-TAAATTATTT
1 TATAT-AATTATAA
* *
154332 TAT-TAATAAT-T
1 TATATAATTATAA
*
154343 TAT-TTATT-TAA
1 TATATAATTATAA
154354 -ATA-AATTATAGA
1 TATATAATTATA-A
* * *
154366 GATATACTAATAA
1 TATATAATTATAA
154379 -AT-TAATTA-AA
1 TATATAATTATAA
154389 -AT-TAATTATTAA
1 TATATAATTA-TAA
*
154401 TAT-TAAATA-AA
1 TATATAATTATAA
154412 TAT-TAATTATAA
1 TATATAATTATAA
*
154424 TATATAATTATAT
1 TATATAATTATAA
154437 TATAT
1 TATAT
154442 TATATATAAA
Statistics
Matches: 161, Mismatches: 23, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
10 16 0.10
11 25 0.16
12 30 0.19
13 49 0.30
14 17 0.11
15 7 0.04
16 14 0.09
17 3 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.50
Consensus pattern (13 bp):
TATATAATTATAA
Found at i:154440 original size:18 final size:18
Alignment explanation
Indices: 154400--154447 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
154390 TTAATTATTA
*
154400 ATATTA-AATAAAT-ATT
1 ATATTATAATATATAATT
154416 A-ATTATAATATATAATT
1 ATATTATAATATATAATT
*
154433 ATATTATATTATATA
1 ATATTATAATATATA
154448 TAAATTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 7 0.26
17 4 0.15
18 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTATAATATATAATT
Found at i:155186 original size:22 final size:24
Alignment explanation
Indices: 155154--155208 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
155144 AATTGTACTA
* *
155154 AATTATAAATTTATATAATT-AAT
1 AATTATTAATTTATAAAATTGAAT
155177 -ATTATTAA-TTATAAAATTGAAT
1 AATTATTAATTTATAAAATTGAAT
155199 AATTA-TAATT
1 AATTATTAATT
155209 AAATTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTATTAATTTATAAAATTGAAT
Found at i:155209 original size:29 final size:28
Alignment explanation
Indices: 155152--155217 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
155142 AAAATTGTAC
*
155152 TAAATTAT-AAATTTATATAATTAATAT
1 TAAATTATAAAATTGATATAATTAATAT
155179 TATTAATTATAAAATTGA-ATAATT-ATAAT
1 TA--AATTATAAAATTGATATAATTAAT-AT
155208 TAAATTATAA
1 TAAATTATAA
155218 TATCTATCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 10 0.29
28 2 0.06
29 16 0.47
30 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATTATAAAATTGATATAATTAATAT
Found at i:155555 original size:182 final size:181
Alignment explanation
Indices: 155241--156255 Score: 838
Period size: 181 Copynumber: 5.6 Consensus size: 181
155231 TTGTTATGAT
* * * * * * * *
155241 TTTTGTTCTGTGC-TAAAACATTTAATTTCTATTCA-ACAAGCTTATT-TAGAGTAAAATATTGC
1 TTTTGTTTTGT-CATAAAACAATT-ATTTCAACTCATACAAGCTTATTCGA-AATAAAATAATAC
* * * ** * * *
155303 TAAATTAATAATATTCTAAACGTTAATAAGTAAGGATTTAAAAAATAAATGTGTTTATTGAATC-
63 TAATTTATTAATATTATAAAAATTAATAAGTAAGAATTTAAAAAATAAATCTGTTTATCGAATCA
* *
155367 AGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTTTGACC
128 AGTTCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTATGACC
* * * *
155421 TTTTGTTTAGTCATAAAATAATTACTTCAACTCATACATGCTTATTCGAAATAAAATAATACTAA
1 TTTTGTTTTGTCATAAAACAATTATTTCAACTCATACAAGCTTATTCGAAATAAAATAATACTAA
* * * * * *
155486 TTTATTAACATTCAAAAAAAATTATTAAGTAAGAAATTAGAAAAA-AAATCTATTTATTGAA-CA
66 TTTATTAATATT--ATAAAAATTAATAAGTAAGAATTTA-AAAAATAAATCTGTTTATCGAATCA
* * * * *
155549 AGTTCAAATATTTTTGACTATTTGAATAATTATCTATTTAAAATCATTATAACC
128 AGTTCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTATGACC
* * * * ** * * *
155603 TTATATTTTATCATAAAAACAATTGTTTCAGTTCATAAAAGCTTA-TCTGAAATAGAATAATATT
1 TTTTGTTTTGTCAT-AAAACAATTATTTCAACTCATACAAGCTTATTC-GAAATAAAATAATACT
* * * * * *
155667 ACTTTATTAATATTATAAACATTGATAAGTTAGAGATTTAAAACATAAATCAGTTTATCGAATC-
64 AATTTATTAATATTATAAAAATTAATAAGTAAGA-ATTTAAAAAATAAATCTGTTTATCGAATCA
* * * * * *
155731 AGTTTAAATAATTATGGCCATTTA-AACAATTATCTATTTCAAATCATTATGAAC
128 AGTTCAAATAGTTATGACTA-TTAGAATAATTATCTATTTCAAATCATTATGACC
* **
155785 TTTTGTTTTGTCATAAAACAAATTTTTTTC-A-TCATACAAGCCCATTC-ATAATAAAATAATAC
1 TTTTGTTTTGTCATAAAAC-AA-TTATTTCAACTCATACAAGCTTATTCGA-AATAAAATAATAC
* *
155847 TAATTTATTAATATT-TGAAAAATTAATAAGTAGGAGATTTAAAAAATAAATTTGTTTATCGAAT
63 TAATTTATTAATATTAT-AAAAATTAATAAGTAAGA-ATTTAAAAAATAAATCTGTTTATCGAAT
* * * * * ** *
155911 CAA-TTTAAATAGTTATGACTGTTTGAACAATTATATATTTTTAATCATTATAACC
126 CAAGTTCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTATGACC
* *
155966 TCTTGTTTTGTC--AAAACAATTATTT-ATCTTCATACAAGCTTATTCGAAATAAAATAATACTA
1 TTTTGTTTTGTCATAAAACAATTATTTCAAC-TCATACAAGCTTATTCGAAATAAAATAATACTA
* * * * * * *
156028 ATCTAGTAATATTATGAAATTTAATAACTGATAG-ATTTAAAAAATAAATTTGTTTACCGAA-CT
65 ATTTATTAATATTATAAAAATTAATAAGT-A-AGAATTTAAAAAATAAATCTGTTTATCGAATC-
* * *
156091 AA-TTCAAATTGTTAAGGCTA-TATGAATAATTATCTATTTCAAATCATTATGACC
127 AAGTTCAAATAGTTATGACTATTA-GAATAATTATCTATTTCAAATCATTATGACC
* * * **** * * * * *
156145 TTTTGTTTTGTCGTAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGAAATAAAATAATATTAA
1 TTTTGTTTTGTCATAAAACAATTATTTCAACTCATACAAGCTTATTCGAAATAAAATAATACTAA
*
156210 TTTATTAATATT-TCAAAAATTAATAAG--AG-ATTTAATAAATAAATCT
66 TTTATTAATATTAT-AAAAATTAATAAGTAAGAATTTAAAAAATAAATCT
156256 ATGTACCATA
Statistics
Matches: 667, Mismatches: 135, Indels: 69
0.77 0.15 0.08
Matches are distributed among these distances:
177 22 0.03
178 4 0.01
179 143 0.21
180 57 0.09
181 213 0.32
182 165 0.25
183 63 0.09
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
TTTTGTTTTGTCATAAAACAATTATTTCAACTCATACAAGCTTATTCGAAATAAAATAATACTAA
TTTATTAATATTATAAAAATTAATAAGTAAGAATTTAAAAAATAAATCTGTTTATCGAATCAAGT
TCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTATGACC
Found at i:156142 original size:360 final size:358
Alignment explanation
Indices: 155311--156236 Score: 956
Period size: 360 Copynumber: 2.6 Consensus size: 358
155301 GCTAAATTAA
* * * * * *
155311 TAATATTCTAAACGTTAATAAGTAAG-GATTTAAAAAATAAATGTGTTTATTGAATCAGTTCAAA
1 TAATATTATAAACATTAATAACTGAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAA
* * *
155375 TAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTTTGACCTTTTGTTTAGTCATAAAA-
66 TAGTTAAGGCTATT-GAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAC
* ** * * * *
155439 TAA-TTACTTCAACTCATACATGCTTATTCGAAATAAAATAATACTAATTTATTAACATTCAAAA
130 AAATTTTTTTC-A-TCATACAAGCTCATTC-AAATAAAATAATACTAATTTATTAATATT--TAA
* * * *
155503 AAAATTATTAAGTAAGAAATTAGAAAAAAAATCTATTTATTGAACAAGTTCAAATATTTTTGACT
190 AAAATTAATAAGTAAGAAATTAGAAAAAAAATCTATTTATCGAACAAGTTCAAATAGTTATGACT
* * *
155568 ATTTGAATAATTATCTATTTAAAATCATTATAACCTTATATTTTATCATAAAAACAATTGTTTCA
255 ATTTGAACAATTATATATTTAAAATCATTATAACCTTATATTTTATC--AAAAACAATTATTTCA
* * * * * *
155633 GTTCATAAAAGCTTATCTGAAATAGAATAATATTACTTTAT
318 CTTCATAAAAGCTTATCTGAAATAAAATAATACTAATCTAG
* * * * * *
155674 TAATATTATAAACATTGATAAGTTAGAGATTTAAAACATAAATCAGTTTATCGAATCAGTTTAAA
1 TAATATTATAAACATTAATAACTGAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAA
* * * * * *
155739 TAATTATGGCCATTTAAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCATAAAAC
66 TAGTTAAGGCTA-TTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAC
* *
155804 AAATTTTTTTCATCATACAAGCCCATTCATAATAAAATAATACTAATTTATTAATATTTGAAAAA
130 AAATTTTTTTCATCATACAAGCTCATTCA-AATAAAATAATACTAATTTATTAATATTTAAAAAA
* * * * * *
155869 TTAATAAGTAGGAGATTTA-AAAAATAAATTTGTTTATCGAATCAA-TTTAAATAGTTATGACTG
194 TTAATAAGTAAGA-AATTAGAAAAA-AAATCTATTTATCGAA-CAAGTTCAAATAGTTATGACTA
** * *
155932 TTTGAACAATTATATATTTTTAATCATTATAACCTCT-TGTTTTGTC-AAAACAATTATTT-ATC
256 TTTGAACAATTATATATTTAAAATCATTATAACCT-TATATTTTATCAAAAACAATTATTTCA-C
*
155994 TTCATACAAGCTTAT-TCGAAATAAAATAATACTAATCTAG
319 TTCATAAAAGCTTATCT-GAAATAAAATAATACTAATCTAG
* * * * *
156034 TAATATTATGAAA-TTTAATAACTGATAGATTTAAAAAATAAATTTGTTTACCGAA-CTAATTCA
1 TAATATTAT-AAACATTAATAACTGAGAGATTTAAAAAATAAATCTGTTTATCGAATC-AGTTCA
* *
156097 AATTGTTAAGGCTATATGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCGTAAA
64 AATAGTTAAGGCTAT-TGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAA
* ** * * ** * * *
156162 ACAAATGTTTTTGTTCATATAAGTTTGTTTGAAATAAAATAATATTAATTTATTAATATTTCAAA
128 ACAAATTTTTTTCATCATACAAG-CTCATTCAAATAAAATAATACTAATTTATTAATATTTAAAA
156227 AATTAATAAG
192 AATTAATAAG
156237 AGATTTAATA
Statistics
Matches: 467, Mismatches: 81, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
359 4 0.01
360 205 0.44
361 6 0.01
362 21 0.04
363 92 0.20
364 129 0.28
365 5 0.01
366 5 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (358 bp):
TAATATTATAAACATTAATAACTGAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAA
TAGTTAAGGCTATTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACA
AATTTTTTTCATCATACAAGCTCATTCAAATAAAATAATACTAATTTATTAATATTTAAAAAATT
AATAAGTAAGAAATTAGAAAAAAAATCTATTTATCGAACAAGTTCAAATAGTTATGACTATTTGA
ACAATTATATATTTAAAATCATTATAACCTTATATTTTATCAAAAACAATTATTTCACTTCATAA
AAGCTTATCTGAAATAAAATAATACTAATCTAG
Found at i:158573 original size:180 final size:180
Alignment explanation
Indices: 157200--159153 Score: 1326
Period size: 181 Copynumber: 11.0 Consensus size: 180
157190 TCAAATAAGT
* * ** * * * * * *
157200 GATTTAAAAAGTGAATATGTTTACCAAATCAGTTCAAATAATAATG-GTCATTTCAATAATTATC
1 GATTTAAAAAATAAATATGTTTACTGAATAAGTTCAAATAGTTATGACT-ATTTGAACAATTATC
** * * * ** *
157264 TATTTCAAATTGTTCTTACCTTTTGTTTGGTCATATGACAATTGCTTT-TGA-TCATACAAGCTT
65 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTG-TTTCT-ATTCATACAAGCTT
* * * *
157327 ATTTGGAATAAAATAATACTAATTTTTTAATTTTTCAAAAATTAATAAGTAAGA
128 ATTTTGAATAAAATAATACTAATTTATTAA-TATTCAAAAATTAATAAGTAAAA
* ** * * * *
157381 GATTTAAAAAATAAATTTGTTTACAAAATCAA-TTCAAATAGTTATGACTA-TTAAAGTAGTTGT
1 GATTTAAAAAATAAATATGTTTACTGAAT-AAGTTCAAATAGTTATGACTATTTGAA-CAATTAT
* * ** * * * *
157444 TTACTTCAAATTGTTATAACTTTTTGTTTTTTCATAAAATAATTATTTCTATTCATACAAGCTTA
64 CTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTA
* * * * * *
157509 -TTTGAAATAAAATAAAACTAATCTAATAATATTCTGAAAATTAATAACTAAGA
129 TTTTG-AATAAAATAATACTAATTTATTAATATTC-AAAAATTAATAAGTAAAA
* ** * *
157562 GATTTAAAAAATAAA-ATTGTTT-GTCGAACT-AGTTCAAATAGTTAAAACTATATGAATAATTA
1 GATTTAAAAAATAAATA-TGTTTACT-GAA-TAAGTTCAAATAGTTATGACTATTTGAACAATTA
* * * *
157624 TCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAAACAATAT-TTTCAATTCATACTAGCT
63 TCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAAT-TGTTTCTATTCATACAAGCT
* * *
157688 TATTTAGAATAAAATAA-AATAAATTTATTAAAATTTCAAAAATTAATAAG----A
127 TATTTTGAATAAAATAATACT-AATTTATTAATA-TTCAAAAATTAATAAGTAAAA
* * * * ** * *
157739 GAATTAAAAAATAATTTTATTTACCT-AACCAGTTTAAATAATTATGACTATTTGAACAATTATC
1 GATTTAAAAAATAAATATGTTTA-CTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATC
** * * * *
157803 TATTTCAAATTGTTATAACCTTTTGTTTTGTCATAAAACTAA-TGTTTTTGTTCATATAAG-TT-
65 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAA-TAATTGTTTCTATTCATACAAGCTTA
* *
157865 TGTTCGAAATAAAATAATACTAATATATTAATATTTCAAAAATTAAT-A--AAAA
129 T-TTTG-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGTAAAA
* * * * ** *
157917 -TTTTAAAAAATAAATCTATTTA-TCAAATTGGTTC-AA-A-TTAAGACTATTT-AAGCAATTAT
1 GATTTAAAAAATAAATATGTTTACT-GAATAAGTTCAAATAGTTATGACTATTTGAA-CAATTAT
* * * * * * * *
157976 TTATTTCAAATCATTATGACTTTTTGTTCTATTATAAAATAATAGTTTCTATTTATTCAAGCTTA
64 CTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTA
* * ** *
158041 --TCGAATTAAAATAATACAAATTTATTAATATTTTGACAATTAATAAGTAAAA
129 TTTTGAA-TAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGTAAAA
* * * * * * * * *
158093 AATGTAAACAATTAAATATGTTTACTGAACT-AGATCAAACAGTCATAACTATTTGAATAGTTAT
1 GATTTAAA-AAATAAATATGTTTACTGAA-TAAGTTCAAATAGTTATGACTATTTGAACAATTAT
* * * * * * * * *
158157 CTATTTCATATCGTTATGACCTTTTCTTCTGTCATAAAAAAATTATTTCAATTTATATAAGCTTA
64 CTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTA
* * * ** * *
158222 -TTCGAAATAAAATAATATTAAGTTATTAATATTTTGAAAATTAATAATTAAGA
129 TTTTG-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGTAAAA
* * * * * * * * *
158275 GATTTAAAAAATGAATCTGTTTAGTGAACAAATTTAAATAATTAT-AATCATTTGAACAATTATT
1 GATTTAAAAAATAAATATGTTTACTGAATAAGTTCAAATAGTTATGACT-ATTTGAACAATTATC
** *** * * * *
158339 TA-TGAAAATTGCTATAACCTTTTGCTTTGTCATAAAATGATTTTTTCTATTCATACAAGCTTAT
65 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTAT
*
158403 TTTGAAT-AAATAAATACAAATTTATTAA-ATT-AAGACAATTAATAAGTAAAA
130 TTTGAATAAAAT-AATACTAATTTATTAATATTCAA-A-AATTAATAAGTAAAA
* * * * *
158454 GATTTAAAAAATAAATATGTTTGCTGAATAAGTTCAAATAGTCATGACTATTTGAATAGTAATCT
1 GATTTAAAAAATAAATATGTTTACTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCT
** * * * * *
158519 ATTTCAAATCATCGTGAGCTTTTGTTTTGTAATAAAATAATTGCTTCAATTCAT--AAGCCTA-T
66 ATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATT
** * * ** *
158581 TTGAGATAAAATAATA-T--TCCA--AAAATT-AAAGAGCAA-CA-T---A
131 TTGA-ATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAAA
* * * * * * *
158621 -ATTAAAAAAATAAAT-TTTCTTA-TCAATCAAGTTGAAATAGTTACGACTATATAAACAATTAT
1 GATTTAAAAAATAAATATGT-TTACTGAAT-AAGTTCAAATAGTTATGACTATTTGAACAATTAT
* * * * * *
158683 CTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAATTGGTTCTATTCATGCAAGCGTA
64 CTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTA
*
158748 TTTTGAATAAAATAATA-TAAATTTATTAATATTCAAAAAATTAATAAGTATAA
129 TTTTGAATAAAATAATACT-AATTTATTAATATTC-AAAAATTAATAAGTAAAA
* * * *
158801 -TTTTAGAAAATAAAGCTAT-TTT-TTGAACACA-TTCAAATAGTTATGACTATTTGAAACAATT
1 GATTTAAAAAATAAA--TATGTTTACTGAATA-AGTTCAAATAGTTATGACTATTTG-AACAATT
* ** * *
158862 ATCTATTTCAAATCATTATGACCATTTGTTTTGTCATAAACCAATTGTTTCTGTTCAAACAAGCT
62 ATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCT
* ** * *
158927 TATTTGGAATAAAATAATTTTAATTAATTAATATTCCAAAATTAATAAGTAAAA
127 TATTTTGAATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAAA
* * * * * * * *
158981 GATTTAAAAAATAAATTTGTTTATTGAGTGAGTTCAAATAGTTATGATTGTTTGAATAATTATTT
1 GATTTAAAAAATAAATATGTTTACTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCT
* * * * * * *
159046 ATTTTAAATCGTTATGATCTTTTGTTTTGTTATAAAACAATTGTTTCTATTCATATAAGTTTATT
66 ATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATT
* * *
159111 TGGAATAAAATAATACTAATATATTAACATTCTAAAAATTAAT
131 TTGAATAAAATAATACTAATTTATTAATATTC-AAAAATTAAT
159154 TAGTTTACCG
Statistics
Matches: 1391, Mismatches: 294, Indels: 176
0.75 0.16 0.09
Matches are distributed among these distances:
165 6 0.00
166 89 0.06
167 1 0.00
168 18 0.01
169 5 0.00
170 1 0.00
171 3 0.00
172 5 0.00
173 49 0.04
174 67 0.05
175 13 0.01
176 14 0.01
177 164 0.12
178 37 0.03
179 78 0.06
180 264 0.19
181 507 0.36
182 67 0.05
183 3 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (180 bp):
GATTTAAAAAATAAATATGTTTACTGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCT
ATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATT
TTGAATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAAA
Found at i:159722 original size:181 final size:177
Alignment explanation
Indices: 159413--160433 Score: 566
Period size: 181 Copynumber: 5.7 Consensus size: 177
159403 AAGTTTATGT
* * * ** * *
159413 TCATACAAGCTTATTCAGAGTAAAATATTGCTAAGTTAATAATA-TTCTAAAAATTAATAAGTAA
1 TCATACATGCTTATTCA-AATAAAATAATATTAATTTATTAATATTTC-AAAAATTAATAAGTAA
** * * ** * * *
159477 GGATTTAAAAAATAAATGTGTTTATTGGTCCAATTCAAATAGTTAAGACTATTAGAACAATTATC
64 AAATTTAAAAAATAAATTTATTTA-TGAACCAATTCAAATAATTATGACTATTTGAACAATTATC
* *
159542 TATTTCAAATCATTTTAACCTTTTGTTTAGTCATAAAATAATTGTTTCAG
128 TATTTCAAATCATTTTAACCTTTTGTTTACTCATAAAACAATTGTTTCAG
* * *
159592 TTCATACATGCTTATTCAAAAAATAATAATATTAATTTATTAACA-TTCAAAAATTAATAAGCAA
1 -TCATACATGCTTATTCAAATAA-AATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAA
* * *
159656 TAAATTAAAAAAAATAAATTTATTTACTGAA-CAAGTTCAAATAGTTATGACTATTTGAATAATT
64 -AAATT-TAAAAAATAAATTTATTTA-TGAACCAA-TTCAAATAATTATGACTATTTGAACAATT
* * * * * * *
159720 ATCTATCTAAAATCATTATGACCTTTTTATTTTATTGC--AAAACAATTGTTTTAG
125 ATCTATTTCAAATCATTTTAACC-TTTT-GTTTACT-CATAAAACAATTGTTTCAG
* * * * * * * *
159774 ATCATAAAAGCTTGTCCCAAATAAAATAATATTACTTTATTAATATTTTAAAAATTGATAAGTTG
1 -TCATACATGCTTAT-TCAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAG-TA
* * * * * * *
159839 AAAATTTAAAACATAAA-TCAGTTTATTGAATCAATTAAAATAATTATGGCCATTTGAACATTTA
63 AAAATTTAAAAAATAAATTTA-TTTA-TGAACCAATTCAAATAATTATGACTATTTGAACAATTA
* * *
159903 TCTATTTCAAATCATTATGAA-CTTTTGTTTTCACATAAAACAATTGTTTTTCA-
126 TCTATTTCAAATCATT-TTAACCTTTTGTTTACTCATAAAACAATTG--TTTCAG
** *
159956 TCATAC-TAGCTTATTTGTAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAGGTAG
1 TCATACAT-GCTTA-TTCAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTA-
* * * * *
160020 GAGATTTAAAAAATAAATCTGTTTATCGAACCAATTCAAATAATTATGACTATTTG---TATT-T
63 AAAATTTAAAAAATAAATTTATTTAT-GAACCAATTCAAATAATTATGACTATTTGAACAATTAT
* * * * *
160081 C-AATT----TC-TTATAACCTTTTGTTCT-TTCATAAAACAATTATTTCTAT
127 CTATTTCAAATCATTTTAACCTTTTGTT-TACTCATAAAACAATTGTTTC-AG
* * ** * * * * * *
160127 TCATACAAGTTTATTTGGAATAAAATTATACTAATGTAATAATA-TTCTGAAAATTAATAACTAA
1 TCATACATGCTTA-TTCAAATAAAATAATATTAATTTATTAATATTTC-AAAAATTAATAAGTAA
* * * * * * * ** *
160191 TAGATTTAAAAAATAAATTT-TTTGCCTAAACCAGTTCAAATAGTTAAGGCTATAGGAACAATTC
64 -AAATTTAAAAAATAAATTTATTT--ATGAACCAATTCAAATAATTATGACTATTTGAACAATTA
* * ** * * * * * *
160255 TTTATTTTAAATTGTTATGACATTTTGTTTTA-GCATAAAATAATTTTTTCAG
126 TCTATTTCAAATCATTTTAACCTTTTG-TTTACTCATAAAACAATTGTTTCAG
* * ** *
160307 TTCTTAC-TAACTTATTCAGAATAAAATAA-AAAAAATTATTAATATTTCAAAAATTAATCAA-T
1 -TCATACAT-GCTTATTCA-AATAAAATAATATTAATTTATTAATATTTCAAAAATTAAT-AAGT
* * * * * * * *
160369 AAGAGATTT-ATAAATAATTTTGTTTGCTGAACCAGTTGAAATAATTATGACTATTTGAATAATT
62 AA-AAATTTAAAAAATAAATTTATTT-ATGAACCAATTCAAATAATTATGACTATTTGAACAATT
160433 A
125 A
160434 AAATAAATTA
Statistics
Matches: 646, Mismatches: 146, Indels: 99
0.73 0.16 0.11
Matches are distributed among these distances:
169 4 0.01
170 9 0.01
171 110 0.17
172 4 0.01
174 3 0.00
175 1 0.00
176 6 0.01
177 2 0.00
178 2 0.00
179 59 0.09
180 80 0.12
181 219 0.34
182 107 0.17
183 38 0.06
184 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
TCATACATGCTTATTCAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAAAA
ATTTAAAAAATAAATTTATTTATGAACCAATTCAAATAATTATGACTATTTGAACAATTATCTAT
TTCAAATCATTTTAACCTTTTGTTTACTCATAAAACAATTGTTTCAG
Found at i:164969 original size:21 final size:23
Alignment explanation
Indices: 164945--164998 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
164935 AATATTCTAT
164945 TATAATATAATATAATT-AA-TA
1 TATAATATAATATAATTAAATTA
* * *
164966 TATAATTTATTATAATTAAATTC
1 TATAATATAATATAATTAAATTA
164989 TATAATATAA
1 TATAATATAA
164999 GACTAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 15 0.58
22 2 0.08
23 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TATAATATAATATAATTAAATTA
Found at i:164977 original size:31 final size:30
Alignment explanation
Indices: 164892--164981 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 30
164882 AAGTTATTAA
*
164892 ATAATAT-ATTAATATATTATTTACTAATAAT
1 ATAATATAATTAATATA-TATTTA-TTATAAT
*
164923 -T-AT-TAATGTTATA-ATATTCTATTATAAT
1 ATAATATAAT-TAATATATATT-TATTATAAT
164951 ATAATATAATTAATATATAATTTATTATAAT
1 ATAATATAATTAATATAT-ATTTATTATAAT
164982 TAAATTCTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
28 11 0.23
29 8 0.17
30 11 0.23
31 15 0.31
32 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (30 bp):
ATAATATAATTAATATATATTTATTATAAT
Found at i:165210 original size:21 final size:21
Alignment explanation
Indices: 165186--165229 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
165176 TTAATATAAG
* *
165186 TTTGTTTGAAATAAAATTATA
1 TTTGTTCGAAATAAAATAATA
165207 TTTGTTCGAAATAAAATAATA
1 TTTGTTCGAAATAAAATAATA
165228 TT
1 TT
165230 AATTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (21 bp):
TTTGTTCGAAATAAAATAATA
Found at i:165656 original size:21 final size:21
Alignment explanation
Indices: 165632--165672 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
165622 AATTGATAAT
165632 TAATAATGTT-ATAAAATATAG
1 TAATAAT-TTGATAAAATATAG
*
165653 TAATAATTTGATAAATTATA
1 TAATAATTTGATAAAATATA
165673 AAAGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAATAATTTGATAAAATATAG
Found at i:168529 original size:17 final size:18
Alignment explanation
Indices: 168461--168526 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
168451 TTGATATATT
168461 ATTATTAAATTAATATATCA
1 ATTATTAAATTAATA-AT-A
*
168481 ATATATTAAATTGAACAAT-
1 AT-TATTAAATT-AATAATA
168500 A-TATTTATAATTAATAATA
1 ATTA-TTA-AATTAATAATA
168519 ATTATTAA
1 ATTATTAA
168527 TTATTAGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
17 2 0.05
18 9 0.24
19 9 0.24
20 4 0.11
21 11 0.29
22 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTATTAAATTAATAATA
Found at i:168769 original size:29 final size:30
Alignment explanation
Indices: 168737--168795 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
168727 AATAAATAAT
168737 TAATAA-ATATTGAA-TAATTATTGT-ACAAA
1 TAATAATA-ATTGAATTAATT-TTGTAACAAA
168766 TAATAATAATTGAATTAATTTTGTAACAAA
1 TAATAATAATTGAATTAATTTTGTAACAAA
168796 ATAGACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (30 bp):
TAATAATAATTGAATTAATTTTGTAACAAA
Found at i:168838 original size:21 final size:22
Alignment explanation
Indices: 168794--168834 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
168784 TTTTGTAACA
*
168794 AAATAGACTATTTATTATCAAT
1 AAATAGAATATTTATTATCAAT
168816 AAATAGAAT-TTTATT-TCAA
1 AAATAGAATATTTATTATCAA
168835 ATAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (22 bp):
AAATAGAATATTTATTATCAAT
Found at i:168874 original size:25 final size:25
Alignment explanation
Indices: 168827--168874 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
168817 AATAGAATTT
*
168827 TATTTCAAATAATTTAAACATATAA
1 TATTTCAAATAATTTAAAAATATAA
*
168852 TATTTTAAAT-ATTTATAAAATAT
1 TATTTCAAATAATTTA-AAAATAT
168875 TATAGGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTTCAAATAATTTAAAAATATAA
Found at i:169340 original size:13 final size:13
Alignment explanation
Indices: 169295--169353 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
169285 TAATAAACAA
*
169295 ATTATTAAATTAGT
1 ATTA-TAAATTAAT
*
169309 -TTATAAAATTATT
1 ATTAT-AAATTAAT
*
169322 AATATAAATTAAT
1 ATTATAAATTAAT
*
169335 ATTATAGA-TAAT
1 ATTATAAATTAAT
169347 ATTATAA
1 ATTATAA
169354 TAATTATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 11 0.30
13 23 0.62
14 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
ATTATAAATTAAT
Found at i:169361 original size:21 final size:20
Alignment explanation
Indices: 169331--169370 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
169321 TAATATAAAT
169331 TAATATTATAGA-TAATATTA
1 TAATATTATA-ATTAATATTA
169351 TAATAATTATAATTAATATT
1 TAAT-ATTATAATTAATATT
169371 TAACCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATATTATAATTAATATTA
Found at i:169525 original size:16 final size:16
Alignment explanation
Indices: 169504--169592 Score: 53
Period size: 16 Copynumber: 5.6 Consensus size: 16
169494 ATAATTAAGT
169504 TAATATTATAATTATA
1 TAATATTATAATTATA
* *
169520 TAATATAATAATTTTCA
1 TAATATTATAATTAT-A
* *
169537 TATTA-TATAATTGTTA
1 TAATATTATAATT-ATA
169553 TTAATAATTATAA--ATA
1 -TAAT-ATTATAATTATA
*
169569 TCA-ATTATAATTA-A
1 TAATATTATAATTATA
*
169583 TATTATTATA
1 TAATATTATA
169593 GTAATAAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.12
14 2 0.04
15 9 0.16
16 22 0.39
17 10 0.18
18 1 0.02
19 5 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (16 bp):
TAATATTATAATTATA
Found at i:169629 original size:29 final size:31
Alignment explanation
Indices: 169597--169656 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
169587 ATTATAGTAA
169597 TAAATTAAATATTAA-CAAAT-ATAATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
* * *
169626 TAAATTGATTATTAATCAAATAATCATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
169657 ATTATTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 5 0.19
31 8 0.31
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (31 bp):
TAAATTAAATATTAATCAAATAATAATAATT
Found at i:169797 original size:16 final size:16
Alignment explanation
Indices: 169756--169862 Score: 76
Period size: 16 Copynumber: 6.4 Consensus size: 16
169746 AATATATATA
169756 AATTATCAATATATTTAAT
1 AATTAT-AAT-TATTT-AT
*
169775 AAATATAATTATTTAT
1 AATTATAATTATTTAT
*
169791 AATTATAACTAATTATAT
1 AATTATAA-TTATT-TAT
*
169809 AATTAT-ATAATTTAT
1 AATTATAATTATTTAT
**
169824 -ATTATAAATATAAGTAT
1 AATTAT-AAT-TATTTAT
169841 AATATATAA-TATTTAT
1 AAT-TATAATTATTTAT
169857 AATTAT
1 AATTAT
169863 TTATTATATT
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 24 0.33
17 14 0.19
18 16 0.22
19 8 0.11
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (16 bp):
AATTATAATTATTTAT
Found at i:169805 original size:20 final size:19
Alignment explanation
Indices: 169779--169866 Score: 60
Period size: 20 Copynumber: 4.6 Consensus size: 19
169769 TTTAATAAAT
169779 ATAATTATTTATAATTATA
1 ATAATTATTTATAATTATA
169798 ACTAATTA--TATAATTAT-
1 A-TAATTATTTATAATTATA
*
169815 ATAATTTATATTATAAATATA
1 ATAA-TTAT-TTATAATTATA
* * *
169836 AGT-ATAATATATAA-TATTT
1 A-TAATTATTTATAATTA-TA
169855 ATAATTATTTAT
1 ATAATTATTTAT
169867 TATATTAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
16 3 0.06
17 4 0.07
18 12 0.22
19 15 0.28
20 17 0.31
21 2 0.04
22 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
ATAATTATTTATAATTATA
Found at i:169807 original size:26 final size:25
Alignment explanation
Indices: 169771--169866 Score: 74
Period size: 26 Copynumber: 3.8 Consensus size: 25
169761 TCAATATATT
*
169771 TAATAAATATAATTATTTATAATTA
1 TAATAATTATAATTATTTATAATTA
*
169796 TAACTAATTAT-ATAATTATATAATT-
1 TAA-TAATTATAATTATT-TATAATTA
**
169821 T-AT-ATTATAAATATAAGTATAATATA
1 TAATAATTAT-AAT-TATTTATAAT-TA
*
169847 TAATATTTATAATTATTTAT
1 TAATAATTATAATTATTTAT
169867 TATATTAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
22 5 0.09
23 1 0.02
24 9 0.17
25 11 0.20
26 19 0.35
27 5 0.09
28 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
TAATAATTATAATTATTTATAATTA
Found at i:169828 original size:22 final size:22
Alignment explanation
Indices: 169802--169879 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 22
169792 ATTATAACTA
169802 ATTATATAATTATATAATTTAT
1 ATTATATAATTATATAATTTAT
169824 ATTATA-AATATAAGTATAATATATAAT
1 ATTATATAAT-T-A-TATAAT-T-T-AT
*
169851 ATT-TATAATTAT-TTA-TTAT
1 ATTATATAATTATATAATTTAT
169870 ATTAATATAA
1 ATT-ATATAA
169880 ATTTTAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 19
0.70 0.02 0.29
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 9 0.20
22 7 0.15
23 3 0.07
24 7 0.15
25 2 0.04
26 4 0.09
27 8 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (22 bp):
ATTATATAATTATATAATTTAT
Found at i:170459 original size:20 final size:20
Alignment explanation
Indices: 170395--170463 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 20
170385 AAATAATTTA
*
170395 AATTATTAT-TA-TAATCTAT
1 AATTATTATATATTAATAT-T
*
170414 AACTTATTATTATATTAAGATTTT
1 AA-TTATTA-TATATT-A-ATATT
170438 AATTATTATATATTAATATT
1 AATTATTATATATTAATATT
170458 AATTAT
1 AATTAT
170464 AAATATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.05
20 16 0.38
21 2 0.05
22 8 0.19
23 7 0.17
24 4 0.10
25 3 0.07
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (20 bp):
AATTATTATATATTAATATT
Found at i:170652 original size:18 final size:19
Alignment explanation
Indices: 170629--170669 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
170619 AATTACAATA
*
170629 ATATCATTATAATAATT-T
1 ATATCAATATAATAATTCT
*
170647 ATATCAATATATTAATTCT
1 ATATCAATATAATAATTCT
170666 ATAT
1 ATAT
170670 TTACAAGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATCAATATAATAATTCT
Found at i:170970 original size:12 final size:11
Alignment explanation
Indices: 170944--170997 Score: 58
Period size: 10 Copynumber: 4.8 Consensus size: 11
170934 TATTAAAGTA
*
170944 ATTAA-TATTT
1 ATTAATTATAT
170954 ATTAATTATACT
1 ATTAATTATA-T
170966 ATTAATTATTAT
1 ATTAATTA-TAT
170978 ATTTAATTATA-
1 A-TTAATTATAT
170989 ATTAATTAT
1 ATTAATTAT
170998 TTATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 13 0.33
11 4 0.10
12 13 0.33
13 9 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTAATTATAT
Found at i:170990 original size:19 final size:18
Alignment explanation
Indices: 170952--171011 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
170942 TAATTAATAT
* *
170952 TTATTAATTATACTATTAA
1 TTATTATTTATAATA-TAA
170971 TTATTATATT-TAATTATAA
1 TTATTAT-TTATAA-TATAA
170990 TTAATTATTTATAATATAA
1 TT-ATTATTTATAATATAA
171009 TTA
1 TTA
171012 AGCTATTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.03
19 22 0.63
20 12 0.34
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTATTTATAATATAA
Found at i:171009 original size:25 final size:24
Alignment explanation
Indices: 170944--171011 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
170934 TATTAAAGTA
170944 ATTAA-TATT-TAT-TAATTATAC
1 ATTAATTATTATATATAATTATAC
*
170965 TATTAATTATTATATTTAATTATA-
1 -ATTAATTATTATATATAATTATAC
170989 ATTAATTATTTATAATATAATTA
1 ATTAATTA-TTAT-ATATAATTA
171012 AGCTATTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 7 0.17
25 16 0.40
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTAATTATTATATATAATTATAC
Found at i:171012 original size:19 final size:21
Alignment explanation
Indices: 170942--171012 Score: 85
Period size: 23 Copynumber: 3.3 Consensus size: 21
170932 AATATTAAAG
170942 TAATTAA-TATTTATTAATTA
1 TAATTAATTATTTATTAATTA
170962 TACTATTAATTATTATATTTAATTA
1 TA--ATTAATTATT-TA-TTAATTA
170987 TAATTAATTATTTA-TAA-TA
1 TAATTAATTATTTATTAATTA
171006 TAATTAA
1 TAATTAA
171013 GCTATTAGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.20
20 5 0.11
22 7 0.15
23 14 0.30
24 2 0.04
25 9 0.20
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTAATTATTTATTAATTA
Found at i:171124 original size:10 final size:11
Alignment explanation
Indices: 171107--171138 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
171097 TTGGTATAAG
171107 TAATTAAATTA
1 TAATTAAATTA
171118 TAA-TAAATT-
1 TAATTAAATTA
171127 TAATTAAATTA
1 TAATTAAATTA
171138 T
1 T
171139 GATATATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.16
10 12 0.63
11 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTAAATTA
Found at i:171310 original size:12 final size:11
Alignment explanation
Indices: 171294--171334 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
171284 ATAATTATTC
171294 ATATTAATAAT
1 ATATTAATAAT
171305 AGTATTAATAAT
1 A-TATTAATAAT
* *
171317 ATTTTAATAAA
1 ATATTAATAAT
171328 ATATTAA
1 ATATTAA
171335 ATTAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATATTAATAAT
Found at i:171665 original size:15 final size:15
Alignment explanation
Indices: 171574--171654 Score: 50
Period size: 16 Copynumber: 5.7 Consensus size: 15
171564 TTATAAAACA
*
171574 TAAATATTTATATAGT
1 TAAATATTTA-ATAAT
*
171590 TAAATTATATAATAAT
1 TAAA-TATTTAATAAT
* *
171606 TTAATAATTT-ATACT
1 TAAAT-ATTTAATAAT
171621 T-AATA--T-ATAAT
1 TAAATATTTAATAAT
171632 T--ATATTTAATAAT
1 TAAATATTTAATAAT
171645 TAAATATTTA
1 TAAATATTTA
171655 TTATTATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
12 1 0.02
13 7 0.13
14 3 0.06
15 13 0.25
16 14 0.27
17 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (15 bp):
TAAATATTTAATAAT
Found at i:172123 original size:10 final size:10
Alignment explanation
Indices: 172039--172127 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
172029 GTTATAATTA
172039 TTAATTCATAT
1 TTAATT-ATAT
*
172050 TT-ATTAAAT
1 TTAATTATAT
*
172059 TT-ATTATCT
1 TTAATTATAT
*
172068 TTAATTATAA
1 TTAATTATAT
*
172078 TAAATTA-AT
1 TTAATTATAT
*
172087 TTTATTAGTA-
1 TTAATTA-TAT
172097 TTATATTATACT
1 TTA-ATTATA-T
*
172109 ATAATTATAT
1 TTAATTATAT
172119 TTAATTATA
1 TTAATTATA
172128 AAAATGGTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
9 18 0.30
10 27 0.45
11 13 0.22
12 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (10 bp):
TTAATTATAT
Found at i:172270 original size:19 final size:20
Alignment explanation
Indices: 172227--172271 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
172217 TTAATATTAA
*
172227 AATAATTTTAATTATTTATT
1 AATAATTTTAATTAATTATT
*
172247 TATAATTTTAA-TAATTATT
1 AATAATTTTAATTAATTATT
172266 AATAAT
1 AATAAT
172272 AAGTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAATTTTAATTAATTATT
Found at i:172348 original size:19 final size:20
Alignment explanation
Indices: 172305--172382 Score: 70
Period size: 19 Copynumber: 4.0 Consensus size: 20
172295 CTTTTATAAC
* *
172305 TATATAATTATAAAAATATAT
1 TATATAATTA-ATAAATATAG
172326 TATATAATTAATAAAT-TAG
1 TATATAATTAATAAATATAG
* ** *
172345 TATAGAATTAATTTATATAT
1 TATATAATTAATAAATATAG
*
172365 TATAAAATTAAT-AATATA
1 TATATAATTAATAAATATA
172383 ATCTATTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 20 0.42
20 18 0.38
21 10 0.21
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TATATAATTAATAAATATAG
Found at i:172357 original size:23 final size:20
Alignment explanation
Indices: 172330--172380 Score: 50
Period size: 23 Copynumber: 2.5 Consensus size: 20
172320 ATATATTATA
172330 TAATTAATAAATTAGTATAGAAT
1 TAATTAATAAATTA-TA-A-AAT
* *
172353 TAATTTATATATTATAAAAT
1 TAATTAATAAATTATAAAAT
172373 TAA-TAATA
1 TAATTAATA
172381 TAATCTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.16
20 6 0.24
21 1 0.04
22 2 0.08
23 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (20 bp):
TAATTAATAAATTATAAAAT
Found at i:172520 original size:25 final size:26
Alignment explanation
Indices: 172491--172545 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
172481 TTTATAAACT
*
172491 ATATTATATATAATTAA-TATTT-ATA
1 ATATTATAAATAA-TAATTATTTAATA
*
172516 ATATTGTAAATAATAATTATTTAATA
1 ATATTATAAATAATAATTATTTAATA
172542 ATAT
1 ATAT
172546 ATTAATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 16 0.62
26 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATATTATAAATAATAATTATTTAATA
Found at i:172579 original size:19 final size:19
Alignment explanation
Indices: 172524--172580 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 19
172514 TAATATTGTA
172524 AATAATAATTATTTAATAATAT
1 AATAAT-ATTA-TTAA-AATAT
* *
172546 ATTAAT-TT-CTAAAATAT
1 AATAATATTATTAAAATAT
172563 AATAATATTATTAAAATA
1 AATAATATTATTAAAATA
172581 ATTATTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 10 0.34
18 5 0.17
19 7 0.24
20 2 0.07
22 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAATATTATTAAAATAT
Found at i:173917 original size:18 final size:19
Alignment explanation
Indices: 173872--173927 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
173862 AAAATTATAC
*
173872 TATTTAT-TAATATTAATA
1 TATTTATATAATTTTAATA
*
173890 TAGTTA-ATAATTTTAAT-
1 TATTTATATAATTTTAATA
173907 TATTTATATAAATTTATAATA
1 TATTTATAT-AATTT-TAATA
173928 ACAAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.17
18 16 0.53
19 5 0.17
20 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TATTTATATAATTTTAATA
Found at i:174234 original size:25 final size:25
Alignment explanation
Indices: 174206--174402 Score: 87
Period size: 25 Copynumber: 8.0 Consensus size: 25
174196 ATTTTTAATA
174206 ATTATATAATATTATAATTAATTAT
1 ATTATATAATATTATAATTAATTAT
*
174231 ATTATATTTAATA-TATAATT-ATTAA
1 ATTATA--TAATATTATAATTAATTAT
* * *
174256 ATAAAAATTAAT-TTATAATT-A-TAA
1 AT-TATA-TAATATTATAATTAATTAT
*
174280 ATTATA-AATTATTATAATTTATTA-
1 ATTATATAA-TATTATAATTAATTAT
**
174304 ATTATAATAA-ATTAGCATTAA-TAT
1 ATTAT-ATAATATTATAATTAATTAT
* * *
174328 -TAATA-AATATAATTATATAATTAT
1 ATTATATAATATTATAAT-TAATTAT
* * *
174352 ATTA-ATATTATAATATATTAAATAT
1 ATTATATAATATTATA-ATTAATTAT
* *
174377 ATTA-ATAATTATTATTATTATTTAT
1 ATTATATAA-TATTATAATTAATTAT
174402 A
1 A
174403 AATTAATTAT
Statistics
Matches: 133, Mismatches: 21, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
21 4 0.03
22 7 0.05
23 18 0.14
24 23 0.17
25 58 0.44
26 18 0.14
27 5 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTATATAATATTATAATTAATTAT
Found at i:174255 original size:14 final size:14
Alignment explanation
Indices: 174186--174415 Score: 65
Period size: 14 Copynumber: 16.4 Consensus size: 14
174176 ATAAATAGTC
*
174186 ATAATTATTAATTT
1 ATAATTATTAATAT
* *
174200 TTAATAATTATATAAT
1 ATAATTATTA-AT-AT
* *
174216 ATTATAATTAAT-T
1 ATAATTATTAATAT
*
174229 ATATTATATTTAATAT
1 ATAAT-TA-TTAATAT
174245 ATAATTATTAA-AT
1 ATAATTATTAATAT
* *
174258 A-AA-AATTAATTT
1 ATAATTATTAATAT
*
174270 ATAATTATAAAT-T
1 ATAATTATTAATAT
*
174283 ATAAATTATTATAATTT
1 AT-AATTA-T-TAATAT
*
174300 ATTAATTA-TAATAA
1 A-TAATTATTAATAT
* **
174314 ATTAGCATTAATAT
1 ATAATTATTAATAT
*
174328 -TAATAAATATAATTAT
1 ATAAT-TAT-TAA-TAT
174344 ATAATTATATTAATATT
1 ATAA-T-TATTAATA-T
174361 ATAATATATTAA-AT
1 ATAAT-TATTAATAT
*
174375 AT-ATTAATAAT-T
1 ATAATTATTAATAT
* *
174387 ATTATTATT-ATTT
1 ATAATTATTAATAT
174400 ATAA--ATTAAT-T
1 ATAATTATTAATAT
174411 ATAAT
1 ATAAT
174416 AATAGTTATA
Statistics
Matches: 164, Mismatches: 27, Indels: 52
0.67 0.11 0.21
Matches are distributed among these distances:
11 13 0.08
12 16 0.10
13 28 0.17
14 38 0.23
15 16 0.10
16 30 0.18
17 18 0.11
18 5 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTATTAATAT
Found at i:174277 original size:6 final size:6
Alignment explanation
Indices: 174268--174429 Score: 63
Period size: 6 Copynumber: 26.5 Consensus size: 6
174258 AAAAATTAAT
*
174268 TTATAA TTATAAA TTATAA --ATTA TTATAA TTTATTAA TTATAA -TA-AA
1 TTATAA TTAT-AA TTATAA TTATAA TTATAA -TTA-TAA TTATAA TTATAA
** *
174315 TTAGCA TTA-ATA TTAATAA ATATAA TTATATAA TTAT-A TTA-ATA TTATAA
1 TTATAA TTATA-A TT-ATAA TTATAA -T-TATAA TTATAA TTATA-A TTATAA
* * * *
174365 TATATTAA ATAT-A TTAATAA TTATTA TTATTAT TTATAA AT-TAA TTATAA
1 T-TA-TAA TTATAA TT-ATAA TTATAA TTA-TAA TTATAA TTATAA TTATAA
* *
174415 TAATAG TTATAA TTA
1 TTATAA TTATAA TTA
174430 GTACCATAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 42
0.66 0.10 0.24
Matches are distributed among these distances:
4 5 0.04
5 14 0.12
6 58 0.50
7 28 0.24
8 12 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
TTATAA
Found at i:174288 original size:31 final size:32
Alignment explanation
Indices: 174238--174310 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
174228 TATATTATAT
174238 TTAA-TATATAATTATTAAATAAAAATTAATTTA
1 TTAATTATA-AATTATTAAATAAAAA-TAATTTA
* **
174271 -TAATTATAAATTA-TAAATTATTATAATTTA
1 TTAATTATAAATTATTAAATAAAAATAATTTA
174301 TTAATTATAA
1 TTAATTATAA
174311 TAAATTAGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
30 7 0.20
31 16 0.46
32 8 0.23
33 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TTAATTATAAATTATTAAATAAAAATAATTTA
Found at i:174295 original size:17 final size:17
Alignment explanation
Indices: 174273--174317 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
174263 TTAATTTATA
174273 ATTATAAATTATAAATT
1 ATTATAAATTATAAATT
* *
174290 ATTATAATTTATTAATT
1 ATTATAAATTATAAATT
*
174307 ATAATAAATTA
1 ATTATAAATTA
174318 GCATTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAAATTATAAATT
Found at i:174945 original size:24 final size:22
Alignment explanation
Indices: 174896--174950 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
174886 CTATTGTAAT
* * *
174896 AATAATTATTATAATACTTTAT
1 AATAATTATTATAACACATTAA
174918 AATATATTATTTATAACACATTAA
1 AATA-ATTA-TTATAACACATTAA
*
174942 AATAGTTAT
1 AATAATTAT
174951 GACTATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 5 0.19
23 7 0.26
24 15 0.56
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
AATAATTATTATAACACATTAA
Found at i:175054 original size:23 final size:23
Alignment explanation
Indices: 175005--175055 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
174995 AAATTAATAT
* *
175005 AATATAATTAATTATTAAATTAT
1 AATATAATTAATTAATAAATTAG
175028 AATATAATTAATTAATATAATT-G
1 AATATAATTAATTAATA-AATTAG
175051 AATAT
1 AATAT
175056 TAAGCTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATATAATTAATTAATAAATTAG
Found at i:175230 original size:27 final size:26
Alignment explanation
Indices: 175173--175231 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 26
175163 AACATATTAT
* *
175173 ATATTA-TATAA-TTATACAGTATAAT
1 ATATTAGTATAATTTATA-AATATTAT
*
175198 ATATTAGTATAATTTATAAATATGAT
1 ATATTAGTATAATTTATAAATATTAT
175224 ATAATTAG
1 AT-ATTAG
175232 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.21
26 13 0.45
27 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
ATATTAGTATAATTTATAAATATTAT
Found at i:176337 original size:17 final size:17
Alignment explanation
Indices: 176311--176348 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
176301 TTAGTTATAC
*
176311 TATT-AATAATAATAAT
1 TATTAAATAATAATAAA
*
176327 TATTAAATAATTATAAA
1 TATTAAATAATAATAAA
176344 TATTA
1 TATTA
176349 TATATTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAATAATAATAAA
Found at i:176369 original size:32 final size:34
Alignment explanation
Indices: 176333--176413 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 34
176323 TAATTATTAA
* * *
176333 ATAATTATAAATATTATATA-T-TATACTTATTT
1 ATAATTATAAATATTATAAATTATATAATTAGTT
*
176365 ATAA-TATAAAT-TAATAAATTATATAATTAGTT
1 ATAATTATAAATATTATAAATTATATAATTAGTT
176397 ATAATTATATAATATTA
1 ATAATTATA-AATATTA
176414 ATAGTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 5 0.13
31 8 0.21
32 17 0.44
33 4 0.10
34 3 0.08
35 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (34 bp):
ATAATTATAAATATTATAAATTATATAATTAGTT
Found at i:176377 original size:49 final size:47
Alignment explanation
Indices: 176305--176405 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 47
176295 TTTCAATTAG
*
176305 TTATACTATTAATAATAATAATTATTAAATAATTATAAATA-TTATATA
1 TTATACTATTAATAATAATAATTAATAAATAA-TATAAATAGTTATA-A
* * *
176353 TTATACTTATTTATAAT-ATAAATTAATAAATTATATAATTAGTTATAA
1 TTATAC-TATTAATAATAAT-AATTAATAAATAATATAAATAGTTATAA
176401 TTATA
1 TTATA
176406 TAATATTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
48 21 0.46
49 25 0.54
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (47 bp):
TTATACTATTAATAATAATAATTAATAAATAATATAAATAGTTATAA
Found at i:176560 original size:21 final size:21
Alignment explanation
Indices: 176535--176593 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
176525 TAAATAATTT
176535 ATTATTATATTATATTATATA
1 ATTATTATATTATATTATATA
* * *
176556 ATTATAAT-TTAATATAAAATA
1 ATTATTATATT-ATATTATATA
176577 A-TATTA-ATT-TATTATAT
1 ATTATTATATTATATTATAT
176594 TTATAAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
18 6 0.20
20 8 0.27
21 16 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTATATTATATTATATA
Found at i:176603 original size:21 final size:21
Alignment explanation
Indices: 176542--176603 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
176532 TTTATTATTA
*
176542 TATTATATTATATAATTATAATT
1 TATTATATT-TATAAAT-TAATT
* **
176565 TAATATA-AAATAATATTAATT
1 TATTATATTTATAA-ATTAATT
176586 TATTATATTTATAAATTA
1 TATTATATTTATAAATTA
176604 TGTATAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
21 19 0.63
22 5 0.17
23 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATATTTATAAATTAATT
Found at i:177067 original size:13 final size:15
Alignment explanation
Indices: 177037--177068 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
177027 AGTTTAAATA
177037 ATAAATATAATATAT
1 ATAAATATAATATAT
*
177052 ATAAATATATTATAT
1 ATAAATATAATATAT
177067 AT
1 AT
177069 TATAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATATAATATAT
Found at i:177127 original size:23 final size:23
Alignment explanation
Indices: 177088--177136 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
177078 AATTTAGATT
177088 ATATATAATTAAGTAATATTAAA
1 ATATATAATTAAGTAATATTAAA
* *
177111 ATATATTATCTAA-TAATATTTAA
1 ATATATAAT-TAAGTAATATTAAA
177134 ATA
1 ATA
177137 ATACTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATAATTAAGTAATATTAAA
Found at i:177211 original size:15 final size:15
Alignment explanation
Indices: 177146--177258 Score: 60
Period size: 15 Copynumber: 7.7 Consensus size: 15
177136 AATACTATAT
*
177146 TATT-TAATTAATAAA
1 TATTATAATTAAT-TA
* *
177161 TATT-TAAATATTTA
1 TATTATAATTAATTA
*
177175 TATT-TATATTAAATA
1 TATTATA-ATTAATTA
177190 TATTATAATTAATTA
1 TATTATAATTAATTA
* *
177205 TAATATAGTTATATT-
1 TATTATAATTA-ATTA
*
177220 TATTATAATGTAATAA
1 TATTATAAT-TAATTA
*
177236 TA-TA-AATT-ATAA
1 TATTATAATTAATTA
177248 TATTAATAATT
1 TATT-ATAATT
177259 TGATATATAA
Statistics
Matches: 78, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
12 6 0.08
13 2 0.03
14 11 0.14
15 50 0.64
16 9 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TATTATAATTAATTA
Found at i:177224 original size:20 final size:19
Alignment explanation
Indices: 177167--177228 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
177157 TAAATATTTA
177167 AATAT-TTATATTTA-TATT
1 AATATATTATATTTATTA-T
*
177185 AAATATATTATAATTAATTAT
1 -AATATATTAT-ATTTATTAT
177206 AATATAGTTATATTTATTAT
1 AATATA-TTATATTTATTAT
177226 AAT
1 AAT
177229 GTAATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 5 0.14
20 21 0.57
21 9 0.24
22 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
AATATATTATATTTATTAT
Found at i:177238 original size:20 final size:20
Alignment explanation
Indices: 177200--177257 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
177190 TATTATAATT
* * *
177200 AATTATAATATAGTTATATT
1 AATTATAATATAATAATATA
* *
177220 TATTATAATGTAATAATATA
1 AATTATAATATAATAATATA
177240 AATTATAATATTAATAAT
1 AATTATAATA-TAATAAT
177258 TTGATATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTATAATATAATAATATA
Found at i:177824 original size:12 final size:12
Alignment explanation
Indices: 177807--177836 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
177797 TAAAATAGTA
177807 ATAATATATATT
1 ATAATATATATT
177819 ATAATATATATT
1 ATAATATATATT
177831 A-AATAT
1 ATAATAT
177837 TGTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATATATATT
Done.