Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold496
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: 765014
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 2 of 7
Found at i:95097 original size:12 final size:11
Alignment explanation
Indices: 95061--95097 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
95051 AAAAATTTAG
95061 ATTTTAATTAA
1 ATTTTAATTAA
95072 ATTTTAATTAAA
1 ATTTTAATT-AA
95084 ATTTTCAATTAA
1 ATTTT-AATTAA
95096 AT
1 AT
95098 GCTCCGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.38
12 11 0.46
13 4 0.17
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTTAATTAA
Found at i:104700 original size:42 final size:42
Alignment explanation
Indices: 104645--104763 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
104635 TTCTTCTCTC
* *
104645 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCATGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
104687 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
104729 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
104764 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
Found at i:106653 original size:23 final size:23
Alignment explanation
Indices: 106602--106654 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
106592 TTATTTTATA
106602 TAATA-TTTTTATATAATTAATC
1 TAATATTTTTTATATAATTAATC
* *
106624 CAGATATTTATTTATA-AATTAATT
1 TA-ATATTT-TTTATATAATTAATC
106648 TAATATT
1 TAATATT
106655 CATACCCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.04
23 8 0.32
24 10 0.40
25 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATATTTTTTATATAATTAATC
Found at i:106830 original size:157 final size:157
Alignment explanation
Indices: 106641--106964 Score: 603
Period size: 157 Copynumber: 2.1 Consensus size: 157
106631 TTATTTATAA
*
106641 ATTAATTTAATATTCATACCCAACCTTAAACAATTATTATAAATTTAATTTTCATAATTAACATA
1 ATTAA-TTAATATTCATACCCAACCTTAAACAATTATTATAAATTTAATTTTCACAATTAACATA
106706 ATATATTAAAAACTAATATTATTAAAATTTAAGAATAGAAAAATTAAAAAGTAAATAAAACTTTA
65 ATATATTAAAAACTAATATTATTAAAATTTAAGAATAGAAAAATTAAAAAGTAAATAAAACTTTA
106771 TAAAATTTAAAATTATTTTTTATAAATG
130 TAAAATTTAAAATTATTTTTTATAAATG
* * *
106799 ATTAATTAATATTCATACTCAATCTTAAACAATTGTTATAAATTTAATTTTCACAATTAACATAA
1 ATTAATTAATATTCATACCCAACCTTAAACAATTATTATAAATTTAATTTTCACAATTAACATAA
106864 TATATTAAAAACTAATATTATTAAAATTTAAGAATAGAAAAATTAAAAAGTAAATAAAACTTTAT
66 TATATTAAAAACTAATATTATTAAAATTTAAGAATAGAAAAATTAAAAAGTAAATAAAACTTTAT
106929 AAAATTTAAAATTATTTTTTATAAATG
131 AAAATTTAAAATTATTTTTTATAAATG
106956 ATTAATTAA
1 ATTAATTAA
106965 AAATTTTATT
Statistics
Matches: 162, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
157 157 0.97
158 5 0.03
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (157 bp):
ATTAATTAATATTCATACCCAACCTTAAACAATTATTATAAATTTAATTTTCACAATTAACATAA
TATATTAAAAACTAATATTATTAAAATTTAAGAATAGAAAAATTAAAAAGTAAATAAAACTTTAT
AAAATTTAAAATTATTTTTTATAAATG
Found at i:107388 original size:24 final size:24
Alignment explanation
Indices: 107328--107388 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
107318 ATAAAAATAA
* * **
107328 AAAAATTATTAAATATATTTAATT
1 AAAAATTATTATACATAAATAATT
107352 AAAAA-TATGTATACATAAATAATT
1 AAAAATTAT-TATACATAAATAATT
107376 AAAAATTATTATA
1 AAAAATTATTATA
107389 TTATATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AAAAATTATTATACATAAATAATT
Found at i:107445 original size:26 final size:27
Alignment explanation
Indices: 107416--107489 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
107406 ATTAATTATT
107416 AAAATTATTTTTATATAAAAAATT-AA
1 AAAATTATTTTTATATAAAAAATTAAA
** * *
107442 AAAATTATACTTACATTAAATAATTAAA
1 AAAATTATTTTTATA-TAAAAAATTAAA
*
107470 AAAATTATTTATAT-TAAAAA
1 AAAATTATTTTTATATAAAAA
107490 TAAATGAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
26 17 0.46
27 8 0.22
28 12 0.32
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTATTTTTATATAAAAAATTAAA
Found at i:107490 original size:28 final size:27
Alignment explanation
Indices: 107416--107492 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
107406 ATTAATTATT
*
107416 AAAATTATTTTTA-TATAAAA-AATTAA
1 AAAATTATTTATATTA-AAAATAATTAA
*
107442 AAAATTATACTTACATT--AAATAATTAAA
1 AAAATTAT--TTATATTAAAAATAATT-AA
107470 AAAATTATTTATATTAAAAATAA
1 AAAATTATTTATATTAAAAATAA
107493 ATGAATATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
26 17 0.41
27 4 0.10
28 19 0.46
29 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTATTTATATTAAAAATAATTAA
Found at i:107781 original size:36 final size:36
Alignment explanation
Indices: 107734--107802 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
107724 TAATCTTAAT
107734 TTAATTAAATTTAGA-GTAAAGTTTTTA-TTAATTGAA
1 TTAATTAAATTT-GATGTAAA-TTTTTATTTAATTGAA
* *
107770 TTAATTTAATTTGATTTAAATTTTTATTTAATT
1 TTAATTAAATTTGATGTAAATTTTTATTTAATT
107803 ATTTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (36 bp):
TTAATTAAATTTGATGTAAATTTTTATTTAATTGAA
Found at i:107818 original size:25 final size:26
Alignment explanation
Indices: 107789--107844 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
107779 TTTGATTTAA
* *
107789 ATTTTTATTT-AATT-ATTTAAAATT
1 ATTTTTATTTAAATTAATTAAAAAAT
107813 ATTTTTATTTAAATTAATTAAAAAAT
1 ATTTTTATTTAAATTAATTAAAAAAT
107839 ATTTTT
1 ATTTTT
107845 TAATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 10 0.36
25 4 0.14
26 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTTTATTTAAATTAATTAAAAAAT
Found at i:107882 original size:20 final size:20
Alignment explanation
Indices: 107820--107889 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
107810 ATTATTTTTA
107820 TTTAAATTAATTAAA-AAATATT
1 TTTAAA-TAATTAAATAAA-A-T
* * *
107842 TTTTAATATTTAAAT-ATAT
1 TTTAAATAATTAAATAAAAT
107861 TTTAAATAATTAAATAAAAT
1 TTTAAATAATTAAATAAAAT
*
107881 TTTGAATAA
1 TTTAAATAA
107890 CTGAATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 14 0.36
20 12 0.31
21 8 0.21
22 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (20 bp):
TTTAAATAATTAAATAAAAT
Found at i:108079 original size:17 final size:18
Alignment explanation
Indices: 108057--108107 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
108047 ATCAATTTGG
108057 TTTAATTTAAATTATTA-
1 TTTAATTTAAATTATTAT
**
108074 TTTAATAAAAATATTATTAT
1 TTTAAT-TTAA-ATTATTAT
108094 TTTAATTT-AATTAT
1 TTTAATTTAAATTAT
108108 AATATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 11 0.41
18 3 0.11
19 7 0.26
20 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATTTAAATTATTAT
Found at i:108130 original size:21 final size:21
Alignment explanation
Indices: 108078--108133 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
108068 TTATTATTTA
* *
108078 ATAAAAATATTATTATTTTAAT
1 ATAAAAATAATA-TATATTAAT
* **
108100 TTAATTATAATATATATTAAT
1 ATAAAAATAATATATATTAAT
108121 ATAAAAATAATAT
1 ATAAAAATAATAT
108134 TTAAATAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAAAATAATATATATTAAT
Found at i:109206 original size:2 final size:2
Alignment explanation
Indices: 109199--109226 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109189 CAAAATACTT
109199 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109227 AAGAAGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115090 original size:17 final size:17
Alignment explanation
Indices: 115068--115105 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
115058 ATATTAATAT
115068 AAAAAAATAAAATTTTCA
1 AAAAAAAT-AAATTTTCA
*
115086 AAAAAAATAAATTTTGA
1 AAAAAAATAAATTTTCA
115103 AAA
1 AAA
115106 TTAGTGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAAAATAAATTTTCA
Found at i:117520 original size:30 final size:30
Alignment explanation
Indices: 117484--117540 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
117474 TTAATGTTGT
117484 TTTTAAAAT-TAATTATTAAAATA-ATATTTA
1 TTTTAAAATAT-ATTA-TAAAATATATATTTA
117514 TTTTAAAATATATTATAAAATATATAT
1 TTTTAAAATATATTATAAAATATATAT
117541 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 7 0.28
30 17 0.68
31 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTTAAAATATATTATAAAATATATATTTA
Found at i:117799 original size:18 final size:18
Alignment explanation
Indices: 117771--117808 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
117761 TTGTTTTTAT
117771 AAAATAATAAAATA-TAA
1 AAAATAATAAAATATTAA
117788 AAAATAAATAAAATATTAA
1 AAAAT-AATAAAATATTAA
117807 AA
1 AA
117809 TTTATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAATAAAATATTAA
Found at i:118934 original size:9 final size:9
Alignment explanation
Indices: 118916--119058 Score: 66
Period size: 9 Copynumber: 16.1 Consensus size: 9
118906 AATTTATTTT
118916 TAAT-TATA
1 TAATATATA
*
118924 TATTATATA
1 TAATATATA
*
118933 TAATATAAA
1 TAATATATA
*
118942 TAAAAT-TA
1 TAATATATA
*
118950 T-ATTTATA
1 TAATATATA
*
118958 TAATA-ATT
1 TAATATATA
*
118966 TAAAAATATA
1 T-AATATATA
118976 TAATATAATA
1 TAATAT-ATA
*
118986 TAATATTTA
1 TAATATATA
* *
118995 TATTATACA
1 TAATATATA
*
119004 TTATATAT-
1 TAATATATA
119012 TATATAATATA
1 TA-AT-ATATA
119023 TAAT-TAT-
1 TAATATATA
**
119030 TTTTATATAA
1 TAATATAT-A
*
119040 TAATATAAA
1 TAATATATA
*
119049 TAATTTATA
1 TAATATATA
119058 T
1 T
119059 TTTAAAAGTT
Statistics
Matches: 96, Mismatches: 27, Indels: 23
0.66 0.18 0.16
Matches are distributed among these distances:
7 4 0.04
8 18 0.19
9 49 0.51
10 23 0.24
11 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (9 bp):
TAATATATA
Found at i:118938 original size:14 final size:14
Alignment explanation
Indices: 118921--119041 Score: 61
Period size: 12 Copynumber: 9.2 Consensus size: 14
118911 ATTTTTAATT
118921 ATATATTATATATA
1 ATATATTATATATA
*
118935 ATATA--A-ATAAA
1 ATATATTATATATA
118946 ATTATATT-TATATA
1 A-TATATTATATATA
*
118960 ATA-ATT-TA-AAA
1 ATATATTATATATA
118971 ATATATAATATAATATA
1 ATATAT--TAT-ATATA
118988 ATAT-TTATAT-T-
1 ATATATTATATATA
*
118999 ATACATTATATAT-
1 ATATATTATATATA
*
119012 -TATATAATATATA
1 ATATATTATATATA
*
119025 AT-TATTTTTATATA
1 ATATA-TTATATATA
119039 ATA
1 ATA
119042 ATATAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 31
0.67 0.07 0.25
Matches are distributed among these distances:
11 13 0.16
12 29 0.35
13 7 0.09
14 24 0.29
15 1 0.01
16 2 0.02
17 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATATTATATATA
Found at i:118949 original size:28 final size:28
Alignment explanation
Indices: 118917--119051 Score: 101
Period size: 28 Copynumber: 5.0 Consensus size: 28
118907 ATTTATTTTT
118917 AATTATATATTATATATAATATAAATAA
1 AATTATATATTATATATAATATAAATAA
118945 AATTATAT-TTATATAATAAT-T---TAA
1 AATTATATATTATAT-ATAATATAAATAA
*
118969 AA--ATATA-TA-ATATAATATAATATTTA
1 AATTATATATTATATATAATATAA-A-TAA
* * * *
118995 TATTATACATTATATATTATATAATATAT
1 AATTATATATTATATATAATATAA-ATAA
*
119024 AATTAT-TTTTATATAATAATATAAATAA
1 AATTATATATTATAT-ATAATATAAATAA
119052 TTTATATTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
20 5 0.06
21 3 0.04
22 6 0.07
24 5 0.06
26 3 0.04
27 7 0.08
28 26 0.31
29 16 0.19
30 12 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTATATATTATATATAATATAAATAA
Found at i:120537 original size:19 final size:21
Alignment explanation
Indices: 120493--120538 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
120483 TAATTTTAAT
*
120493 TAAAATATTATTTAGTAAAACA
1 TAAATTATTATTTA-TAAAACA
120515 -AAATTATTATTT-TAAAA-A
1 TAAATTATTATTTATAAAACA
120533 TAAATT
1 TAAATT
120539 GTAACATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 1 0.05
19 10 0.45
21 11 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATTATTATTTATAAAACA
Found at i:120693 original size:12 final size:12
Alignment explanation
Indices: 120684--120720 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
120674 TTAAAATTTT
120684 TTAAAAAATTAA
1 TTAAAAAATTAA
120696 TTAAAAAA-TAA
1 TTAAAAAATTAA
*
120707 -AAAAAAATTAA
1 TTAAAAAATTAA
120718 TTA
1 TTA
120721 TACTTACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TTAAAAAATTAA
Found at i:120885 original size:2 final size:2
Alignment explanation
Indices: 120878--120918 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
120868 TGAGAAGAAA
* *
120878 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120919 CACATATGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:121260 original size:29 final size:29
Alignment explanation
Indices: 121192--121265 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
121182 ATAATTTTAT
*
121192 TTAAATAAATTTTTATATTTTTATTATAC
1 TTAAATAAATTTTTATATTTTTATTACAC
* *
121221 TCAAATAAAATTTTTAT-TTTTATTTTACAC
1 TTAAAT-AAATTTTTATATTTT-TATTACAC
* *
121251 TTAAGTAAATCTTTA
1 TTAAATAAATTTTTA
121266 ACCTTTTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (29 bp):
TTAAATAAATTTTTATATTTTTATTACAC
Found at i:124154 original size:22 final size:23
Alignment explanation
Indices: 124129--124176 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
124119 AAAATTTTAA
124129 AAATTA-AAAAA-AAAAAAAAGAG
1 AAATTAGAAAAAGAAAAAAAAG-G
*
124151 AAATTAGAAAAAGAAAATAAAGG
1 AAATTAGAAAAAGAAAAAAAAGG
124174 AAA
1 AAA
124177 ATTTTAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 9 0.39
24 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (23 bp):
AAATTAGAAAAAGAAAAAAAAGG
Found at i:124178 original size:24 final size:21
Alignment explanation
Indices: 124128--124179 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
124118 AAAAATTTTA
124128 AAAATTAAAAAAAAAAAAAAG
1 AAAATTAAAAAAAAAAAAAAG
*
124149 AGAAATTAGAAAAAGAAAATAAAGG
1 A-AAATTA-AAAAA-AAAA-AAAAG
124174 AAAATT
1 AAAATT
124180 TTAGAGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 6 0.23
23 5 0.19
24 9 0.35
25 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (21 bp):
AAAATTAAAAAAAAAAAAAAG
Found at i:125040 original size:13 final size:13
Alignment explanation
Indices: 125004--125041 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
124994 TTTTTTATTT
125004 AAAATTAATTT-A
1 AAAATTAATTTAA
*
125016 AAAATAATATTTAA
1 AAAATTA-ATTTAA
125030 AAAATTAATTTA
1 AAAATTAATTTA
125042 TAATTTGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 9 0.41
14 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATTAATTTAA
Found at i:125685 original size:19 final size:21
Alignment explanation
Indices: 125649--125703 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 21
125639 TTATAAAATT
125649 TATATTTTTATAATATAATAA
1 TATATTTTTATAATATAATAA
125670 TATATTTTTATAATAATAATAA
1 TATATTTTTATAAT-ATAATAA
*
125692 TAATAATTTTAT
1 T-ATATTTTTAT
125704 TTGTTATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 14 0.45
22 8 0.26
23 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTTTTATAATATAATAA
Found at i:127330 original size:2 final size:2
Alignment explanation
Indices: 127323--127358 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
127313 TGGCTAACTA
127323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127359 GTCCATGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128417 original size:2 final size:2
Alignment explanation
Indices: 128410--128446 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
128400 ACATATTTAT
128410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128447 TCTTAATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:129838 original size:19 final size:18
Alignment explanation
Indices: 129814--129851 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
129804 TATATTTTTA
129814 TTATATTCAT-ATTAATATT
1 TTATATT-ATAATT-ATATT
129833 TTATATTATAATTATATT
1 TTATATTATAATTATATT
129851 T
1 T
129852 AAAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATTATAATTATATT
Found at i:129874 original size:20 final size:20
Alignment explanation
Indices: 129835--129874 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
129825 TTAATATTTT
*
129835 ATATTATAATTATATTTAAA
1 ATATTATAATTATATATAAA
129855 ATATTATATATT-TATATAAA
1 ATATTATA-ATTATATATAAA
129875 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATAATTATATATAAA
Found at i:130352 original size:20 final size:20
Alignment explanation
Indices: 130327--130369 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
130317 ATTTACGCTG
* *
130327 TATATAAATGTGTGCATGTA
1 TATATAAATATATGCATGTA
*
130347 TATATATATATATGCATGTA
1 TATATAAATATATGCATGTA
130367 TAT
1 TAT
130370 GTATACTAAA
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:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (20 bp):
TATATAAATATATGCATGTA
Found at i:131723 original size:2 final size:2
Alignment explanation
Indices: 131716--131757 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
131706 TTAAAACTTT
131716 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
131758 GTAATTGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:132073 original size:59 final size:60
Alignment explanation
Indices: 132006--132207 Score: 162
Period size: 64 Copynumber: 3.2 Consensus size: 60
131996 GACAACAATG
132006 AATTTAAAATTTAATTTAATTTATTTATATAATTATTTTAAAAAATATTT-ATAATTTAA
1 AATTTAAAATTTAATTTAATTTATTTATATAATTATTTTAAAAAATATTTAATAATTTAA
* * * *
132065 AATTTAAAATTTTTATATTTATAATTATTT-T-TTATT-TTTGAATAAATAATTTAATAATCATT
1 AATTTAAAA--TTTA-ATTTA-ATTTATTTATATAATTATTTTAAAAAAT-ATTTAATAAT--TT
132127 AA
59 AA
* ** * * * *
132129 AATTAAAAATTTAATCAAATTAATTAATATAATTATTTTTAAAATATAATATTTAATAAAATTAT
1 AATTTAAAATTTAATTTAATTTATTTATATAATTA-TTTT-AAA-A-AATATTTAAT-AATTTAA
132194 AATTT-AAATTTAAT
1 AATTTAAAATTTAAT
132208 ACATATAATT
Statistics
Matches: 111, Mismatches: 16, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
59 9 0.08
60 14 0.13
61 16 0.14
62 19 0.17
63 7 0.06
64 24 0.22
65 9 0.08
66 8 0.07
67 5 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.50
Consensus pattern (60 bp):
AATTTAAAATTTAATTTAATTTATTTATATAATTATTTTAAAAAATATTTAATAATTTAA
Found at i:132176 original size:17 final size:18
Alignment explanation
Indices: 132154--132197 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
132144 CAAATTAATT
*
132154 AATATAATTATTT-TTAA
1 AATATAATTATTTAATAA
132171 AATATAA-TATTTAATAA
1 AATATAATTATTTAATAA
132188 AATTATAATT
1 AA-TATAATT
132198 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 12 0.52
18 5 0.22
19 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATAATTATTTAATAA
Found at i:132517 original size:13 final size:13
Alignment explanation
Indices: 132501--132543 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
132491 TTTTTTATGT
*
132501 TTTATTTTTATTA
1 TTTATTTGTATTA
132514 TTTATTATGTA-TA
1 TTTATT-TGTATTA
132527 TTATATTTGTATTA
1 TT-TATTTGTATTA
132541 TTT
1 TTT
132544 TTTATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (13 bp):
TTTATTTGTATTA
Found at i:132518 original size:27 final size:27
Alignment explanation
Indices: 132487--132548 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 27
132477 GGTGAGTTTA
*
132487 ATTATTTTTTATGT-T-TTAT-TTT-T
1 ATTATTTATTATGTATATTATATTTGT
132510 ATTATTTATTATGTATATTATATTTGT
1 ATTATTTATTATGTATATTATATTTGT
*
132537 ATTATTTTTTAT
1 ATTATTTATTAT
132549 ATTTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 13 0.39
24 1 0.03
25 4 0.12
26 3 0.09
27 12 0.36
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (27 bp):
ATTATTTATTATGTATATTATATTTGT
Found at i:132549 original size:23 final size:23
Alignment explanation
Indices: 132487--132551 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 23
132477 GGTGAGTTTA
* * *
132487 ATTATTTTTTATGTTTTATTTTT
1 ATTATTTTTTATATTATATTTGT
132510 ATTATTTATTATGTATATTATATTTGT
1 ATTA-TT-TT-T-TATATTATATTTGT
132537 ATTATTTTTTATATT
1 ATTATTTTTTATATT
132552 TAAAATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 10 0.29
24 3 0.09
25 4 0.11
26 3 0.09
27 15 0.43
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.71
Consensus pattern (23 bp):
ATTATTTTTTATATTATATTTGT
Found at i:132582 original size:21 final size:21
Alignment explanation
Indices: 132558--132630 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
132548 TATTTAAAAT
*
132558 ATTATAAATTTTTATATGTTA
1 ATTATAAATTTATATATGTTA
** *
132579 ATTATTTATTTATATATTTTA
1 ATTATAAATTTATATATGTTA
132600 A-TAT--ATTTATATAT-TTA
1 ATTATAAATTTATATATGTTA
132617 TATTAT--ATTTATAT
1 -ATTATAAATTTATAT
132631 TATTTTCGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.07
18 11 0.24
19 11 0.24
20 3 0.07
21 18 0.39
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
ATTATAAATTTATATATGTTA
Found at i:132596 original size:8 final size:8
Alignment explanation
Indices: 132580--132619 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
132570 TATATGTTAA
*
132580 TTATTTAT
1 TTATATAT
132588 TTATATATT
1 TTATATA-T
132597 TTAATATAT
1 TT-ATATAT
132606 TTATATAT
1 TTATATAT
132614 TTATAT
1 TTATAT
132620 TATATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 18 0.62
9 6 0.21
10 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATATAT
Found at i:132598 original size:29 final size:31
Alignment explanation
Indices: 132556--132624 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
132546 TATATTTAAA
* * *
132556 ATATTATAAATTTTTATATGTTAAT-TATTT
1 ATATTATATATTTTAATATATTAATATATTT
*
132586 AT-TTATATATTTTAATATATTTATATATTT
1 ATATTATATATTTTAATATATTAATATATTT
132616 ATATTATAT
1 ATATTATAT
132625 TTATATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.55
30 9 0.27
31 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
ATATTATATATTTTAATATATTAATATATTT
Found at i:132645 original size:22 final size:19
Alignment explanation
Indices: 132512--132650 Score: 94
Period size: 18 Copynumber: 7.4 Consensus size: 19
132502 TTATTTTTAT
*
132512 TATTTAT-TATGTATATTA
1 TATTTATATATTTATATTA
*
132530 TATTTGTATTATTT-T-TTA
1 TATTTATA-TATTTATATTA
* *
132548 TATTTA-AAATATTATA-AA
1 TATTTATATAT-TTATATTA
* * *
132566 TTTTTATATGTTAATTATT-
1 TATTTATATATTTA-TATTA
*
132585 TATTTATATATTT-TAATA
1 TATTTATATATTTATATTA
132603 TATTTATATATTTATATTA
1 TATTTATATATTTATATTA
*
132622 TATTTATATTATTTTCGTATTA
1 TATTTATA-TA-TTT-ATATTA
132644 TATTTAT
1 TATTTAT
132651 GTCATAGCTC
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
16 2 0.02
17 6 0.07
18 36 0.39
19 27 0.29
20 6 0.07
21 3 0.03
22 12 0.13
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.63
Consensus pattern (19 bp):
TATTTATATATTTATATTA
Found at i:132963 original size:15 final size:14
Alignment explanation
Indices: 132945--132982 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
132935 ATTTTATAAA
132945 TTATTTTTAATTTTT
1 TTATTTTTAA-TTTT
*
132960 TTATATTTAATTTT
1 TTATTTTTAATTTT
132974 TTATTTTTA
1 TTATTTTTA
132983 TTAAGGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTTAATTTT
Found at i:132964 original size:22 final size:22
Alignment explanation
Indices: 132936--132981 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
132926 TAAAAAAATA
132936 TTTTATAAATT-ATTTTTAATTT
1 TTTTAT-AATTAATTTTTAATTT
* *
132958 TTTTATATTTAATTTTTTATTT
1 TTTTATAATTAATTTTTAATTT
132980 TT
1 TT
132982 ATTAAGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTATAATTAATTTTTAATTT
Found at i:133518 original size:17 final size:18
Alignment explanation
Indices: 133478--133517 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
133468 CAGAAAAAAG
*
133478 TTTTGAAAAATAAATTTA
1 TTTTTAAAAATAAATTTA
* *
133496 TTTTTAAAAATTATTTTA
1 TTTTTAAAAATAAATTTA
133514 TTTT
1 TTTT
133518 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATAAATTTA
Found at i:134115 original size:32 final size:32
Alignment explanation
Indices: 134079--134145 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
134069 GTGTATGATT
* * *
134079 ATTTTAATATTTTTAACATAAAATAA-TATTTA
1 ATTTTAATAATATTAA-ATAAAATAATTATTAA
*
134111 ATTTTAATAATATTAAATATAATAATTATTAA
1 ATTTTAATAATATTAAATAAAATAATTATTAA
134143 ATT
1 ATT
134146 ATCGTAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 8 0.27
32 22 0.73
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTTTAATAATATTAAATAAAATAATTATTAA
Found at i:134140 original size:16 final size:15
Alignment explanation
Indices: 134100--134144 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
134090 TTTAACATAA
* *
134100 AATAATATTTAATTTT
1 AATAATA-TTAAATAT
134116 AATAATATTAAATAT
1 AATAATATTAAATAT
134131 AATAATTATTAAAT
1 AATAA-TATTAAAT
134145 TATCGTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAATATTAAATAT
Found at i:134831 original size:1 final size:1
Alignment explanation
Indices: 134825--134939 Score: 194
Period size: 1 Copynumber: 115.0 Consensus size: 1
134815 TATGATGGGG
*
134825 TTTTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
134890 TTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
134940 AATCAACGGT
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 106 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:135768 original size:28 final size:27
Alignment explanation
Indices: 135720--135773 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
135710 CCTAAACTAA
*
135720 AAAAGATCAAGTGGGTGTTTTTTAAATT
1 AAAAGATCAAGT-GGAGTTTTTTAAATT
*
135748 AAAAGATCAAGTGGAATTTTTTAAAT
1 AAAAGATCAAGTGGAGTTTTTTAAAT
135774 ATTACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.37
Consensus pattern (27 bp):
AAAAGATCAAGTGGAGTTTTTTAAATT
Found at i:136348 original size:18 final size:19
Alignment explanation
Indices: 136311--136351 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
136301 TATAAAATTT
*
136311 ATATTTTTATACTGTAAATA
1 ATATTTTTATAC-ATAAATA
136331 ATATTTTTATA-ATAAATA
1 ATATTTTTATACATAAATA
136349 ATA
1 ATA
136352 ATCATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTTTTATACATAAATA
Found at i:136523 original size:14 final size:14
Alignment explanation
Indices: 136506--136535 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
136496 ACACCCACAA
*
136506 CCCCACAAACCACC
1 CCCCACAAAACACC
136520 CCCCACAAAACACC
1 CCCCACAAAACACC
136534 CC
1 CC
136536 AAAAACCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.63, G:0.00, T:0.00
Consensus pattern (14 bp):
CCCCACAAAACACC
Found at i:136603 original size:19 final size:19
Alignment explanation
Indices: 136581--136626 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
136571 AAAAAACCAA
*
136581 CAAAAACACCCCACCACCC
1 CAAAAACACCCCACCACAC
**
136600 CAAACCCACCCCACCACAC
1 CAAAAACACCCCACCACAC
136619 CACAAAAC
1 CA-AAAAC
136627 CAACACACCC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (19 bp):
CAAAAACACCCCACCACAC
Found at i:136698 original size:15 final size:15
Alignment explanation
Indices: 136654--136707 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
136644 AAAAACCAAC
*
136654 CCCACCACCACAACAA
1 CCCAACACCAC-ACAA
*
136670 -CC-ACA-CACAAAA
1 CCCAACACCACACAA
136682 CCCAACACCACACAA
1 CCCAACACCACACAA
*
136697 CCCAACCCCAC
1 CCCAACACCAC
136708 CCCACAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 3 0.10
13 5 0.16
14 5 0.16
15 18 0.58
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (15 bp):
CCCAACACCACACAA
Found at i:136708 original size:49 final size:44
Alignment explanation
Indices: 136596--136719 Score: 119
Period size: 49 Copynumber: 2.7 Consensus size: 44
136586 ACACCCCACC
* *
136596 ACCCCAAACCC-ACCCCACCACACCACAA-AACCAACACACCCCAA
1 ACCCAAAACCCAACCCCA-C-CACCACAACAACCAACACAACCCAA
*
136640 ACCCAAAAACCAACCCCACCACCACAACAACCACACACAAAACCCAA
1 ACCCAAAACCCAACCCCACCACCACAACAACCA-ACAC--AACCCAA
*
136687 CACCACACAACCCAACCCCACC-CCACAAACAAC
1 -ACC-CAAAACCCAACCCCACCACCAC-AACAAC
136720 AATCCAAAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
43 8 0.12
44 15 0.22
45 10 0.15
47 6 0.09
48 7 0.10
49 21 0.31
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (44 bp):
ACCCAAAACCCAACCCCACCACCACAACAACCAACACAACCCAA
Found at i:136762 original size:23 final size:24
Alignment explanation
Indices: 136736--136781 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
136726 AAACAAACCA
136736 CCAAC-CCACAACCAAC-CACACCC
1 CCAACACCAC-ACCAACACACACCC
*
136759 CCAACACTACACCAACACACACC
1 CCAACACCACACCAACACACACC
136782 AAAAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.41, C:0.57, G:0.00, T:0.02
Consensus pattern (24 bp):
CCAACACCACACCAACACACACCC
Found at i:136852 original size:14 final size:14
Alignment explanation
Indices: 136800--136849 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
136790 CCCCAAACAC
136800 GGTGGGGTGGGTGGG
1 GGTGGGG-GGGTGGG
136815 GG-GGGGGGGT-GG
1 GGTGGGGGGGTGGG
** *
136827 GGTTTGGGGTTGGG
1 GGTGGGGGGGTGGG
136841 GGTGGGGGG
1 GGTGGGGGG
136850 TTGTTTGGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 4 0.14
13 9 0.32
14 13 0.46
15 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (14 bp):
GGTGGGGGGGTGGG
Found at i:136872 original size:13 final size:13
Alignment explanation
Indices: 136847--136884 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
136837 TGGGGGTGGG
136847 GGGTTGTTTGGGTT
1 GGGTTG-TTGGGTT
136861 GGGTTGTTGGGTT
1 GGGTTGTTGGGTT
*
136874 GGGGTGTTGGG
1 GGGTTGTTGGG
136885 GTTTTGTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (13 bp):
GGGTTGTTGGGTT
Found at i:136914 original size:17 final size:18
Alignment explanation
Indices: 136871--136934 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 18
136861 GGGTTGTTGG
136871 GTTGGGGT-GT-TGGGGT
1 GTTGGGGTGGTGTGGGGT
* * *
136887 -TTTGTGTGGTGTGTGG-
1 GTTGGGGTGGTGTGGGGT
*
136903 GTTGGGGTGGTGGGGGGT
1 GTTGGGGTGGTGTGGGGT
136921 GTTGGGG-GGTGTGG
1 GTTGGGGTGGTGTGG
136935 TTTTTGTGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
15 5 0.14
16 2 0.06
17 22 0.61
18 7 0.19
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (18 bp):
GTTGGGGTGGTGTGGGGT
Found at i:136976 original size:14 final size:14
Alignment explanation
Indices: 136951--137058 Score: 57
Period size: 14 Copynumber: 7.8 Consensus size: 14
136941 TGTGTTGTGT
136951 GGGGGTGGGGGTTTG
1 GGGGGT-GGGGTTTG
136966 GGGGGTGGGG-TTG
1 GGGGGTGGGGTTTG
136979 GTGGGG-GGGG---G
1 G-GGGGTGGGGTTTG
* *
136990 GGGGGGGGGGTTGG
1 GGGGGTGGGGTTTG
* *
137004 GGGGGTTGGGTTTTT
1 GGGGG-TGGGGTTTG
*
137019 GGTGGTGGGTTGTTTG
1 GGGGGTGGG--GTTTG
* *
137035 TGGGGT-GGTTTTG
1 GGGGGTGGGGTTTG
*
137048 GGGGGGGGGGT
1 GGGGGTGGGGT
137059 GGGTGGTGGT
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
10 4 0.06
11 6 0.08
13 16 0.23
14 21 0.30
15 17 0.24
16 7 0.10
ACGTcount: A:0.00, C:0.00, G:0.71, T:0.29
Consensus pattern (14 bp):
GGGGGTGGGGTTTG
Found at i:136981 original size:24 final size:24
Alignment explanation
Indices: 136954--137013 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
136944 GTTGTGTGGG
* *
136954 GGTGGGGGTTTGGGGGGTGGGGTT
1 GGTGGGGGTTGGGGGGGGGGGGTT
**
136978 GGTGGGGGGGGGGGGGGGGGGGTT
1 GGTGGGGGTTGGGGGGGGGGGGTT
137002 GG-GGGGGTTGGG
1 GGTGGGGGTTGGG
137014 TTTTTGGTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 8 0.27
24 22 0.73
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (24 bp):
GGTGGGGGTTGGGGGGGGGGGGTT
Found at i:137154 original size:27 final size:27
Alignment explanation
Indices: 137136--137193 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
137126 GTTGGTTTGT
*
137136 GGTGGTGGGTGTGTTGTGTGGGTTGGG
1 GGTGGGGGGTGTGTTGTGTGGGTTGGG
* *
137163 GGTGGGGGGTGTG-GGTGTGTG-TGGG
1 GGTGGGGGGTGTGTTGTGTGGGTTGGG
137188 GGTGGG
1 GGTGGG
137194 TGGTTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 10 0.36
26 6 0.21
27 12 0.43
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (27 bp):
GGTGGGGGGTGTGTTGTGTGGGTTGGG
Found at i:137237 original size:22 final size:21
Alignment explanation
Indices: 137196--137238 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
137186 GGGGTGGGTG
* *
137196 GTTTTTTGGTGGGGGTTTTGT
1 GTTTTTGGGTGGGGGGTTTGT
137217 GTTTTTGGGTGGGGGGGTTTGT
1 GTTTTTGGGT-GGGGGGTTTGT
137239 TGTGGGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (21 bp):
GTTTTTGGGTGGGGGGTTTGT
Found at i:137239 original size:20 final size:21
Alignment explanation
Indices: 137183--137253 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
137173 GTGGGTGTGT
* *
137183 GTGGGGGTGGGTG-GTTTTTTG
1 GTGGGGG-GGTTGTGTTTTTGG
**
137204 GTGGGGGTTTTGTGTTTTTGG
1 GTGGGGGGGTTGTGTTTTTGG
*
137225 GTGGGGGGGTT-TG-TTGTGG
1 GTGGGGGGGTTGTGTTTTTGG
*
137244 GGGGGGGGGT
1 GTGGGGGGGT
137254 GTGGGGTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.34
20 4 0.10
21 23 0.56
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (21 bp):
GTGGGGGGGTTGTGTTTTTGG
Found at i:137323 original size:9 final size:9
Alignment explanation
Indices: 137309--137344 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
137299 TGTTGTGTGT
137309 GGTGGGGGG
1 GGTGGGGGG
*
137318 GGTGGGGGT
1 GGTGGGGGG
*
137327 GGTGGGGGT
1 GGTGGGGGG
137336 GGTGGGGGG
1 GGTGGGGGG
137345 TTGGGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.83, T:0.17
Consensus pattern (9 bp):
GGTGGGGGG
Found at i:137330 original size:18 final size:18
Alignment explanation
Indices: 137307--137343 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
137297 GGTGTTGTGT
137307 GTGGTGGGGGGGGTGGGG
1 GTGGTGGGGGGGGTGGGG
*
137325 GTGGTGGGGGTGGTGGGG
1 GTGGTGGGGGGGGTGGGG
137343 G
1 G
137344 GTTGGGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (18 bp):
GTGGTGGGGGGGGTGGGG
Found at i:137350 original size:70 final size:68
Alignment explanation
Indices: 137202--137399 Score: 165
Period size: 76 Copynumber: 2.9 Consensus size: 68
137192 GGTGGTTTTT
* * * * *
137202 TGGTGGGGGTTTTGTGTTT-TTGG-GTGGGGGGGT-TTGT-TGTGGGGGGGGGGGTGTGGGGTTG
1 TGGTGGGGGGTTGGGGTTTGTTGGTGTGGGGTGGTGTTGTGTGTGGTGGGGGGGGTG-GGGGTTG
137263 GGGG
65 GGGG
* ***
137267 -GTTGTTTGG-TGGGGTTTGTTGGTGTGGGGTGGTGTTGTGTGTGGTGGGGGGGGTGGGGGTGGT
1 TGGTGGGGGGTTGGGGTTTGTTGGTGTGGGGTGGTGTTGTGTGTGGTGGGGGGGGTGGGGGT--T
137330 GGGGG
64 GGGGG
* **
137335 TGGTGGGGGGTTGGGGTTTTGGTTTGTGTGTTGTTTGGTGTGTGTTGTGTGGTGGGGGGGGTGGG
1 TGGTGGGGGGTTGGGG-TTT-G-TTG-GTGTGGGGTGGTGT-TG-TGTGTGGTGGGGGGGGTGGG
137400 TGTTCGTGGT
Statistics
Matches: 103, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
63 6 0.06
64 8 0.08
65 9 0.09
66 9 0.09
67 15 0.15
68 6 0.06
69 5 0.05
70 5 0.05
71 3 0.03
72 1 0.01
73 3 0.03
74 11 0.11
75 2 0.02
76 20 0.19
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (68 bp):
TGGTGGGGGGTTGGGGTTTGTTGGTGTGGGGTGGTGTTGTGTGTGGTGGGGGGGGTGGGGGTTGG
GGG
Found at i:137378 original size:14 final size:14
Alignment explanation
Indices: 137359--137388 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
137349 GGTTTTGGTT
*
137359 TGTGTGTTGTTTGG
1 TGTGTGTTGTGTGG
137373 TGTGTGTTGTGTGG
1 TGTGTGTTGTGTGG
137387 TG
1 TG
137389 GGGGGGGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (14 bp):
TGTGTGTTGTGTGG
Found at i:137410 original size:13 final size:13
Alignment explanation
Indices: 137397--137509 Score: 51
Period size: 13 Copynumber: 8.6 Consensus size: 13
137387 TGGGGGGGGT
137397 GGGTGTTCGTGGTG
1 GGGTGTT-GTGGTG
137411 GGGTGTTGTGGGGTTG
1 GGGTGTTGT--GG-TG
*
137427 GGGGGTTGT-G-G
1 GGGTGTTGTGGTG
*
137438 GGGTG-TGGGGTG
1 GGGTGTTGTGGTG
*
137450 GGGTG-TGGGGTG
1 GGGTGTTGTGGTG
*
137462 GGTGGGTTGTGG-G
1 GG-GTGTTGTGGTG
*
137475 GTTGTGTTGTTGGT-
1 G-GGTGTTG-TGGTG
*
137489 TGGTGTTGT-GTG
1 GGGTGTTGTGGTG
137501 GTGGTGTTG
1 G-GGTGTTG
137510 GGGGTGGTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
10 2 0.03
11 8 0.10
12 16 0.21
13 25 0.32
14 14 0.18
15 2 0.03
16 10 0.13
ACGTcount: A:0.00, C:0.01, G:0.62, T:0.37
Consensus pattern (13 bp):
GGGTGTTGTGGTG
Found at i:137421 original size:10 final size:9
Alignment explanation
Indices: 137408--137447 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
137398 GGTGTTCGTG
137408 GTGGGGTGTT
1 GTGGGG-GTT
137418 GT-GGGGTT
1 GTGGGGGTT
137426 G-GGGGGTT
1 GTGGGGGTT
137434 GTGGGGG-T
1 GTGGGGGTT
137442 GTGGGG
1 GTGGGG
137448 TGGGGTGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 18 0.64
9 8 0.29
10 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.70, T:0.30
Consensus pattern (9 bp):
GTGGGGGTT
Found at i:137434 original size:16 final size:17
Alignment explanation
Indices: 137415--137478 Score: 78
Period size: 16 Copynumber: 3.7 Consensus size: 17
137405 GTGGTGGGGT
137415 GTTGTGGGGTTGGG-GG
1 GTTGTGGGGTTGGGTGG
137431 GTTGTGGGGGTGTGGGGTGG
1 GTTGT-GGGGT-T-GGGTGG
*
137451 GGTGTGGGG-TGGGTGG
1 GTTGTGGGGTTGGGTGG
137467 GTTGTGGGGTTG
1 GTTGTGGGGTTG
137479 TGTTGTTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 19 0.46
17 8 0.20
18 1 0.02
19 7 0.17
20 6 0.15
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (17 bp):
GTTGTGGGGTTGGGTGG
Found at i:137454 original size:12 final size:12
Alignment explanation
Indices: 137437--137463 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
137427 GGGGGTTGTG
137437 GGGGTGTGGGGT
1 GGGGTGTGGGGT
137449 GGGGTGTGGGGT
1 GGGGTGTGGGGT
137461 GGG
1 GGG
137464 TGGGTTGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.78, T:0.22
Consensus pattern (12 bp):
GGGGTGTGGGGT
Found at i:137460 original size:115 final size:115
Alignment explanation
Indices: 137297--137504 Score: 257
Period size: 115 Copynumber: 1.8 Consensus size: 115
137287 GGTGTGGGGT
* * * **
137297 GGTGTTGTGTGTGGTGGGGGGGGTGGGGGTGGTGGGGGTGGTGGGGGGT-TG-GGGTTTTGGTTT
1 GGTGTTGTGTGTGGTGGGGGGGGTGGGGGTGGTGGGGGGGGTGGGGGGTGGGTGGGTTGTGGGGT
137360 GTGTGTTGTTTGG-TGTGTGTTGTGTGGTGGGGGGGGTGGGTGTTCGTGGTGG
66 -TGTGTTG-TTGGTTG-GTGTTGTGTGGTGGGGGGGGTGGGTGTTCGTGGTGG
* *
137412 GGTGTTGTG-G-GGTTGGGGGGTTGTGGGGGT-GTGGGGTGGGGTGTGGGGTGGGTGGGTTGTGG
1 GGTGTTGTGTGTGG-TGGGGGG-GGTGGGGGTGGTGGGG-GGGGTGGGGGGTGGGTGGGTTGTGG
137474 GGTTGTGTTGTTGGTTGGTGTTGTGTGGTGG
63 GGTTGTGTTGTTGGTTGGTGTTGTGTGGTGG
137505 TGTTGGGGGT
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
113 2 0.03
114 14 0.17
115 45 0.56
116 10 0.12
117 9 0.11
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (115 bp):
GGTGTTGTGTGTGGTGGGGGGGGTGGGGGTGGTGGGGGGGGTGGGGGGTGGGTGGGTTGTGGGGT
TGTGTTGTTGGTTGGTGTTGTGTGGTGGGGGGGGTGGGTGTTCGTGGTGG
Found at i:137479 original size:8 final size:8
Alignment explanation
Indices: 137415--137480 Score: 61
Period size: 8 Copynumber: 8.8 Consensus size: 8
137405 GTGGTGGGGT
137415 GTTGTGGG
1 GTTGTGGG
*
137423 GTTGGGGG
1 GTTGTGGG
137431 GTTGTGGG
1 GTTGTGGG
*
137439 GGTGT-GG
1 GTTGTGGG
137446 G--GTGGG
1 GTTGTGGG
137452 G-TGTGGG
1 GTTGTGGG
*
137459 G-TGGGTGG
1 GTTGTG-GG
137467 GTTGTGGG
1 GTTGTGGG
137475 GTTGTG
1 GTTGTG
137481 TTGTTGGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
7 12 0.24
8 29 0.59
9 3 0.06
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (8 bp):
GTTGTGGG
Found at i:137535 original size:24 final size:22
Alignment explanation
Indices: 137500--137580 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
137490 GGTGTTGTGT
*
137500 GGTGGTGTTGGGGGTGGTTGGGGG
1 GGTGGTGGTGGGGGTGG--GGGGG
137524 GGTGGTGGTGGGTGG-GGGGGGG
1 GGTGGTGGTGGG-GGTGGGGGGG
* *
137546 GGTTGTTGGT-TGGGTGGGGGGG
1 GG-TGGTGGTGGGGGTGGGGGGG
137568 GG-GGTGGTGGGGG
1 GGTGGTGGTGGGGG
137581 GTTTGGAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.10
21 5 0.10
22 17 0.35
23 6 0.12
24 13 0.27
25 2 0.04
ACGTcount: A:0.00, C:0.00, G:0.75, T:0.25
Consensus pattern (22 bp):
GGTGGTGGTGGGGGTGGGGGGG
Found at i:137561 original size:34 final size:34
Alignment explanation
Indices: 137500--137583 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 34
137490 GGTGTTGTGT
* *
137500 GGTGGTGTTGGGGGTGGTTGGGGGGGTGGTGGTGGGTG
1 GGTGGTG--GGGGGTTGTTGGGGGGGTGG-GG-GGGGG
**
137538 GG-GG-GGGGGGTTGTTGGTTGGGTGGGGGGGGG
1 GGTGGTGGGGGGTTGTTGGGGGGGTGGGGGGGGG
137570 GGTGGTGGGGGGTT
1 GGTGGTGGGGGGTT
137584 TGGAACAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
32 6 0.15
33 4 0.10
34 25 0.62
36 1 0.03
37 2 0.05
38 2 0.05
ACGTcount: A:0.00, C:0.00, G:0.74, T:0.26
Consensus pattern (34 bp):
GGTGGTGGGGGGTTGTTGGGGGGGTGGGGGGGGG
Found at i:137668 original size:1 final size:1
Alignment explanation
Indices: 137664--137709 Score: 92
Period size: 1 Copynumber: 46.0 Consensus size: 1
137654 ACCACCCAAA
137664 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
137710 AACCAAAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:137755 original size:29 final size:29
Alignment explanation
Indices: 137719--137774 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
137709 TAACCAAAAA
*
137719 CACAAAAACCCAA-CACCACAAACAAACCC
1 CACAAAAAACCAACCACC-CAAACAAACCC
*
137748 CACAAAAAACCAACCACCCACACAAAC
1 CACAAAAAACCAACCACCCAAACAAAC
137775 AACACCCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (29 bp):
CACAAAAAACCAACCACCCAAACAAACCC
Found at i:139432 original size:2 final size:2
Alignment explanation
Indices: 139425--139466 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
139415 TTTGGCTAAC
139425 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
139466 T
1 T
139467 GTCCATGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:140508 original size:2 final size:2
Alignment explanation
Indices: 140501--140533 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
140491 TATTATCTAA
140501 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
140534 CTTATCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:140808 original size:14 final size:14
Alignment explanation
Indices: 140791--140852 Score: 56
Period size: 14 Copynumber: 4.3 Consensus size: 14
140781 GTTTTATATG
140791 ATTTATATTATTTA
1 ATTTATATTATTTA
*
140805 ATTTATAAGTTATTTT
1 ATTTAT-A-TTATTTA
140821 ATCTT-TATTATTTA
1 AT-TTATATTATTTA
*
140835 GA-TTATATTATCTA
1 -ATTTATATTATTTA
140849 ATTT
1 ATTT
140853 TTAATAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
13 3 0.08
14 22 0.56
15 3 0.08
16 9 0.23
17 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
ATTTATATTATTTA
Found at i:142370 original size:20 final size:20
Alignment explanation
Indices: 142345--142387 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
142335 ATTTACGCTG
* *
142345 TATATAAATGTGTGCATGTA
1 TATATAAATATATGCATGTA
*
142365 TATATATATATATGCATGTA
1 TATATAAATATATGCATGTA
142385 TAT
1 TAT
142388 GTATACTAAA
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:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (20 bp):
TATATAAATATATGCATGTA
Found at i:143082 original size:20 final size:20
Alignment explanation
Indices: 143045--143083 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
143035 TTTTTATTAT
143045 ATTTTGATTATTATATAATA
1 ATTTTGATTATTATATAATA
143065 A-TTT--TTATTATATAATA
1 ATTTTGATTATTATATAATA
143082 AT
1 AT
143084 CAATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
17 14 0.78
19 3 0.17
20 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTGATTATTATATAATA
Found at i:143711 original size:2 final size:2
Alignment explanation
Indices: 143704--143745 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
143694 ATTAAAACTT
143704 TA TA TA TA TA -A TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143744 TA
1 TA
143746 GTAATGGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:143726 original size:17 final size:17
Alignment explanation
Indices: 143704--143750 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
143694 ATTAAAACTT
143704 TATATATATAATATATA
1 TATATATATAATATATA
*
143721 TATATATATTATATATA
1 TATATATATAATATATA
143738 TATATATAGTAAT
1 TATATATA-TAAT
143751 GGCCAGCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 24 0.89
18 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATATATATAATATATA
Found at i:143744 original size:15 final size:15
Alignment explanation
Indices: 143704--143744 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
143694 ATTAAAACTT
*
143704 TATATATATAATATA
1 TATATATATATTATA
143719 TATATATATATTATA
1 TATATATATATTATA
143734 TATATATATAT
1 TATATATATAT
143745 AGTAATGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATATATATTATA
Found at i:147567 original size:13 final size:13
Alignment explanation
Indices: 147531--147568 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
147521 TTTTTTATTT
147531 AAAATTAATTT-A
1 AAAATTAATTTAA
*
147543 AAAATAATATTTAA
1 AAAATTA-ATTTAA
147557 AAAATTAATTTA
1 AAAATTAATTTA
147569 TAATTTGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 9 0.41
14 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATTAATTTAA
Found at i:148183 original size:21 final size:22
Alignment explanation
Indices: 148158--148221 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
148148 GAACAATAAG
* *
148158 TTTTTTA-ATTATAA-AATTTA
1 TTTTTTATAATATAATAATATA
148178 TATTTTTATAATATAATAATATA
1 T-TTTTTATAATATAATAATATA
148201 TTTTTTATAATAATAATAATA
1 TTTTTTATAAT-ATAATAATA
148222 ATAATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 1 0.03
21 6 0.16
22 16 0.42
23 15 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTTATAATATAATAATATA
Found at i:148184 original size:23 final size:22
Alignment explanation
Indices: 148158--148221 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
148148 GAACAATAAG
148158 TTTTTTAATTATAA-AATTTATAT
1 TTTTTTAATTATAATAA--TATAT
*
148181 TTTTATAA-TATAATAATATAT
1 TTTTTTAATTATAATAATATAT
*
148202 TTTTTATAATAATAATAATA
1 TTTTT-TAATTATAATAATA
148222 ATAATAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 9 0.26
22 8 0.23
23 18 0.51
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTTAATTATAATAATATAT
Found at i:148213 original size:20 final size:20
Alignment explanation
Indices: 148158--148218 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
148148 GAACAATAAG
* *
148158 TTTTTTAATTATAA-AATTTA
1 TTTTTT-ATAATAATAATATA
148178 TATTTTTATAATATAATAATATA
1 T-TTTTTAT-A-ATAATAATATA
148201 TTTTTTATAATAATAATA
1 TTTTTTATAATAATAATA
148219 ATAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 12 0.34
21 6 0.17
22 11 0.31
23 6 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTATAATAATAATATA
Found at i:148245 original size:28 final size:26
Alignment explanation
Indices: 148163--148241 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 26
148153 ATAAGTTTTT
*
148163 TAATTATAA-AATTTATATTTTTATAA
1 TAATAATAATAATTT-TATTTTTATAA
*
148189 T-ATAATAATATATTTT-TTATAATAATAA
1 TAATAATAATA-ATTTTATT-T--TTATAA
148217 TAATAATAATAATTTTATTTGTTAT
1 TAATAATAATAATTTTATTT-TTAT
148242 TAATTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
25 8 0.19
26 4 0.10
27 7 0.17
28 12 0.29
29 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
TAATAATAATAATTTTATTTTTATAA
Found at i:149892 original size:2 final size:2
Alignment explanation
Indices: 149885--149924 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
149875 TGGCTAACTA
149885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
149925 GTCCATGAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:152340 original size:17 final size:17
Alignment explanation
Indices: 152324--152373 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
152314 TTTATCATAT
*
152324 TTAT-ATTATTTTTATA
1 TTATAATTATATTTATA
*
152340 TTATAATTATATTTAAA
1 TTATAATTATATTTATA
* *
152357 ATATTA-TATATTTATA
1 TTATAATTATATTTATA
152373 T
1 T
152374 AAATTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATTATATTTATA
Found at i:152376 original size:20 final size:20
Alignment explanation
Indices: 152337--152376 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
152327 TATTATTTTT
*
152337 ATATTATAATTATATTTAAA
1 ATATTATAATTATATATAAA
152357 ATATTATATATT-TATATAAA
1 ATATTATA-ATTATATATAAA
152377 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATAATTATATATAAA
Found at i:152880 original size:20 final size:20
Alignment explanation
Indices: 152833--152880 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
152823 ATTTAGGCTG
* *
152833 TATATAAATGTGTGCATGTA
1 TATATATATATGTGCATGTA
152853 TATATATATATGTGCATGTA
1 TATATATATATGTGCATGTA
*
152873 TATGTATA
1 TATATATA
152881 CTAAAAGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (20 bp):
TATATATATATGTGCATGTA
Found at i:153396 original size:22 final size:22
Alignment explanation
Indices: 153356--153406 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
153346 GATATTTTAT
153356 AATTTTTTTATTACAATAA-TA
1 AATTTTTTTATTACAATAATTA
*
153377 ATATTTTTTTATTTTC-ATAATTA
1 A-ATTTTTTTA-TTACAATAATTA
153400 AATTTTT
1 AATTTTT
153407 CGAAAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 19 0.73
23 6 0.23
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTTTTTTATTACAATAATTA
Found at i:153667 original size:16 final size:16
Alignment explanation
Indices: 153646--153677 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
153636 AAATATAAAA
153646 TATTATTTTATATATT
1 TATTATTTTATATATT
*
153662 TATTATTTTATTTATT
1 TATTATTTTATATATT
153678 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTATTTTATATATT
Found at i:154048 original size:14 final size:14
Alignment explanation
Indices: 154029--154055 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
154019 TTAATGTGAT
154029 ATTAAAATTTTTAA
1 ATTAAAATTTTTAA
154043 ATTAAAATTTTTA
1 ATTAAAATTTTTA
154056 TTATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTAAAATTTTTAA
Found at i:154227 original size:2 final size:2
Alignment explanation
Indices: 154220--154253 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
154210 TTAAAACTTT
154220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
154254 GTAATTGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:155006 original size:13 final size:13
Alignment explanation
Indices: 154988--155034 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
154978 GTTTAATTAT
154988 TTTTTATGTTTTA
1 TTTTTATGTTTTA
155001 TTTTTATGTTTTA
1 TTTTTATGTTTTA
* * *
155014 TTATGTATATTATA
1 TT-TTTATGTTTTA
155028 TTTTTAT
1 TTTTTAT
155035 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.72
Consensus pattern (13 bp):
TTTTTATGTTTTA
Found at i:155080 original size:43 final size:45
Alignment explanation
Indices: 155023--155116 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 45
155013 ATTATGTATA
* * *
155023 TTATATTTTTATTATTT-TTT-TATA-TTTAAAATATTATAAATTT
1 TTATATGTTAATTATTTATTTATATATTTTAAAATATT-TAAATAT
* *
155066 TTATATGTTAATTATTTATTTATATATTTTAATATATTTATATAT
1 TTATATGTTAATTATTTATTTATATATTTTAAAATATTTAAATAT
155111 TTATAT
1 TTATAT
155117 TATATTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 15 0.35
44 3 0.07
45 15 0.35
46 10 0.23
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (45 bp):
TTATATGTTAATTATTTATTTATATATTTTAAAATATTTAAATAT
Found at i:155093 original size:8 final size:8
Alignment explanation
Indices: 155077--155116 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
155067 TATATGTTAA
*
155077 TTATTTAT
1 TTATATAT
155085 TTATATATT
1 TTATATA-T
155094 TTAATATAT
1 TT-ATATAT
155103 TTATATAT
1 TTATATAT
155111 TTATAT
1 TTATAT
155117 TATATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 18 0.62
9 6 0.21
10 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATATAT
Found at i:155095 original size:29 final size:31
Alignment explanation
Indices: 155053--155121 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
155043 TATATTTAAA
* * *
155053 ATATTATAAATTTTTATATGTTAAT-TATTT
1 ATATTATATATTTTAATATATTAATATATTT
*
155083 AT-TTATATATTTTAATATATTTATATATTT
1 ATATTATATATTTTAATATATTAATATATTT
155113 ATATTATAT
1 ATATTATAT
155122 TTATATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.55
30 9 0.27
31 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
ATATTATATATTTTAATATATTAATATATTT
Found at i:155141 original size:22 final size:19
Alignment explanation
Indices: 155010--155147 Score: 90
Period size: 19 Copynumber: 7.3 Consensus size: 19
155000 ATTTTTATGT
*
155010 TTTAT-TATGTATATTATA
1 TTTATATATTTATATTATA
* *
155028 TTTTTATTATTT-TTTTATA
1 TTTATA-TATTTATATTATA
* * *
155047 TTTA-AAATATTATA-AATT
1 TTTATATAT-TTATATTATA
* *
155065 TTTATATGTTAATTATT-TA
1 TTTATATATTTA-TATTATA
*
155084 TTTATATATTT-TAATATA
1 TTTATATATTTATATTATA
155102 TTTATATATTTATATTATA
1 TTTATATATTTATATTATA
*
155121 TTTATATTATTTTCGTATTATA
1 TTTATA-TA-TTT-ATATTATA
155143 TTTAT
1 TTTAT
155148 GTCATAGCTC
Statistics
Matches: 90, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
17 5 0.06
18 28 0.31
19 36 0.40
20 6 0.07
21 3 0.03
22 12 0.13
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATATATTTATATTATA
Found at i:155462 original size:15 final size:15
Alignment explanation
Indices: 155444--155482 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
155434 ATTTTATAAA
155444 TTATTTTTAATTTTT
1 TTATTTTTAATTTTT
*
155459 TTATATTTAATTTTT
1 TTATTTTTAATTTTT
155474 TTATTTTTA
1 TTATTTTTA
155483 TTAAGGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTTAATTTTT
Found at i:156022 original size:17 final size:18
Alignment explanation
Indices: 155982--156021 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
155972 CAGAAAAAAG
*
155982 TTTTGAAAAATAAATTTA
1 TTTTTAAAAATAAATTTA
* *
156000 TTTTTAAAAATTATTTTA
1 TTTTTAAAAATAAATTTA
156018 TTTT
1 TTTT
156022 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATAAATTTA
Found at i:159179 original size:148 final size:148
Alignment explanation
Indices: 158911--159207 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
158901 ACAGTAGTAC
158911 ACAAATATTTGTGCCTGGTTTTCCTTCCTTATGGTACAGTTGTTATCTACAAGCTAATTGAATGC
1 ACAAATATTTGTGCCTGGTTTTCCTTCCTTATGGTACAGTTGTTATCTACAAGCTAATTGAATGC
158976 TATTGAAGCGGGTTGGCTTTCATCTTTTGCCTCTTGGGGAAAGTTCGTTTTATGAGCATCATTTG
66 TATTGAAGCGGGTTGGCTTTCATCTTTTGCCTCTTGGGGAAAGTTCGTTTTATGAGCATCATTTG
159041 AAAAAAAAAACATAAAAA
131 AAAAAAAAAACATAAAAA
159059 ACAAATATTTGTGCCTGGTTTTCCTTCCTTATGGTACAGTTGTTATCTACAAGCTAATTGAATGC
1 ACAAATATTTGTGCCTGGTTTTCCTTCCTTATGGTACAGTTGTTATCTACAAGCTAATTGAATGC
159124 TATTGAAGCGGGTTGGCTTTCATCTTTTGCCTCTTGGGGAAAGTTCGTTTTATGAGCATCATTTG
66 TATTGAAGCGGGTTGGCTTTCATCTTTTGCCTCTTGGGGAAAGTTCGTTTTATGAGCATCATTTG
159189 AAAAAAAAAACATAAAAA
131 AAAAAAAAAACATAAAAA
159207 A
1 A
159208 AAAGAAAGAT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (148 bp):
ACAAATATTTGTGCCTGGTTTTCCTTCCTTATGGTACAGTTGTTATCTACAAGCTAATTGAATGC
TATTGAAGCGGGTTGGCTTTCATCTTTTGCCTCTTGGGGAAAGTTCGTTTTATGAGCATCATTTG
AAAAAAAAAACATAAAAA
Found at i:161668 original size:21 final size:21
Alignment explanation
Indices: 161627--161668 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
161617 ATTTTTATTT
* *
161627 TAAAATTATTTTTGTTCAAAA
1 TAAAATTATTTTAGTTAAAAA
161648 TAAAATTGA-TTTAGTTAAAAA
1 TAAAATT-ATTTTAGTTAAAAA
161669 CAATATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (21 bp):
TAAAATTATTTTAGTTAAAAA
Found at i:161958 original size:115 final size:115
Alignment explanation
Indices: 161821--162047 Score: 427
Period size: 115 Copynumber: 2.0 Consensus size: 115
161811 TAATTCAACT
* *
161821 TTTTAATAATTGATTTTGATTTTATATTTTAGTTTTCAATATTTTTTATAAGTTATAAAAGAAAA
1 TTTTAATAATTGATTCTAATTTTATATTTTAGTTTTCAATATTTTTTATAAGTTATAAAAGAAAA
161886 CCATTTTGTTTTCAAAAAATTATTTTGAAAATAACTCCAATTGAGTAAAC
66 CCATTTTGTTTTCAAAAAATTATTTTGAAAATAACTCCAATTGAGTAAAC
*
161936 TTTTAATAATTGATTCTAATTTTATATTTTAGTTTTTAATATTTTTTATAAGTTATAAAAGAAAA
1 TTTTAATAATTGATTCTAATTTTATATTTTAGTTTTCAATATTTTTTATAAGTTATAAAAGAAAA
162001 CCATTTTGTTTTCAAAAAATTATTTTGAAAATAACTCCAATTGAGTA
66 CCATTTTGTTTTCAAAAAATTATTTTGAAAATAACTCCAATTGAGTA
162048 GAGAGTTGTC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (115 bp):
TTTTAATAATTGATTCTAATTTTATATTTTAGTTTTCAATATTTTTTATAAGTTATAAAAGAAAA
CCATTTTGTTTTCAAAAAATTATTTTGAAAATAACTCCAATTGAGTAAAC
Found at i:163267 original size:25 final size:25
Alignment explanation
Indices: 163197--163268 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
163187 AAATATGAAT
* *
163197 TTTTTTAAATAAAAAATAGG-TAGC
1 TTTTTTAAGTAAAAAAGAGGATAGC
* *
163221 TTTTATAAGT-AAAAAGATGGATAGG
1 TTTTTTAAGTAAAAAAGA-GGATAGC
163246 TTTTTTAAGTAAAAAAGAGGATA
1 TTTTTTAAGTAAAAAAGAGGATA
163269 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.15
24 10 0.25
25 17 0.43
26 7 0.17
ACGTcount: A:0.46, C:0.01, G:0.18, T:0.35
Consensus pattern (25 bp):
TTTTTTAAGTAAAAAAGAGGATAGC
Found at i:163274 original size:25 final size:25
Alignment explanation
Indices: 163194--163276 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
163184 TAAAAATATG
* *
163194 AATTTTTTTAAATAAAAAATAGG-T
1 AATTTTTTTAAGTAAAAAAGAGGAT
** *
163218 AGCTTTTATAAGT-AAAAAGATGGAT
1 AATTTTTTTAAGTAAAAAAGA-GGAT
**
163243 AGGTTTTTTAAGTAAAAAAGAGGAT
1 AATTTTTTTAAGTAAAAAAGAGGAT
163268 AATTTTTTT
1 AATTTTTTT
163277 TTAAAAATTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.13
24 11 0.23
25 23 0.49
26 7 0.15
ACGTcount: A:0.43, C:0.01, G:0.16, T:0.40
Consensus pattern (25 bp):
AATTTTTTTAAGTAAAAAAGAGGAT
Found at i:164695 original size:29 final size:30
Alignment explanation
Indices: 164647--164704 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
164637 ATTATTTATT
*
164647 TTAATTTCAAAAGTATAAAAATAAAAATAC
1 TTAATTTCAAAAGTAAAAAAATAAAAATAC
* *
164677 TTAATTT-AATAGTAAAAAAATTAAAATA
1 TTAATTTCAAAAGTAAAAAAATAAAAATA
164705 TTCTTTTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (30 bp):
TTAATTTCAAAAGTAAAAAAATAAAAATAC
Found at i:166622 original size:164 final size:165
Alignment explanation
Indices: 166441--166768 Score: 525
Period size: 164 Copynumber: 2.0 Consensus size: 165
166431 TTTTTTAAAA
*
166441 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATTTAATTTCTATTTTTGAA
1 CTTAATTCTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATTTAATTTCTATTTTTGAA
* * * *
166506 TTTTTTTGATCGTAACTTTGTTTCTTCATCTGA-ATT-TTTTCTAGCAATTTTTTGGTAGTCATT
66 ATTTTTTGATCGTAAC-GTGTTTCTTCATCTGATATTATTTTCTACCAATTTTTTGGTACTCATT
* * * *
166569 ATATCGGATTTCGATGCTTAGATCTTCAATTTCAGT
130 ACATCGGATTTAGATGCTTAGATCTTAAACTTCAGT
*
166605 CTTAATTCTGCGTTTAATTATTGATAATTCTGCTGCATTATCAGCATTTAATTTCTATTTTTGAA
1 CTTAATTCTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATTTAATTTCTATTTTTGAA
*
166670 ATTTTTTGATCGTAACGTGTTTCTTCATCTGATTTTATTTTCTACCAATTTTTTGGTACTCATTA
66 ATTTTTTGATCGTAACGTGTTTCTTCATCTGATATTATTTTCTACCAATTTTTTGGTACTCATTA
*
166735 CATCGGATTTAGATGCTTGGATCTTAAACTTCAG
131 CATCGGATTTAGATGCTTAGATCTTAAACTTCAG
166769 GATCATTTTT
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
163 15 0.10
164 80 0.53
165 55 0.37
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (165 bp):
CTTAATTCTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATTTAATTTCTATTTTTGAA
ATTTTTTGATCGTAACGTGTTTCTTCATCTGATATTATTTTCTACCAATTTTTTGGTACTCATTA
CATCGGATTTAGATGCTTAGATCTTAAACTTCAGT
Found at i:167435 original size:209 final size:206
Alignment explanation
Indices: 166605--167656 Score: 1110
Period size: 209 Copynumber: 5.2 Consensus size: 206
166595 CAATTTCAGT
* * *
166605 CTTAATTCTGCGTTTAATTATTGATAATTCTGCTGCATTATCAGCATTTAATTTCTATTTTTG--
1 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
* * *
166668 A--AA--TTTTT-TGATCGTAAC-GTGTTTCTTCATCTGATTTTATTTTCTACCAATTTTTTGGT
66 ATTAATTTTTTTCTGATCGTAACTTTGTTTCTTCATCTGATTTTTTTTTCTAGCAATTTTTTGGT
* * * * *
166727 ACTCATTACATCGGATTTAGATGCTTGGATCTTAAACTTCAGGATCATTTTTATTGTAAAATTCT
131 TCTCATTAGATCGGATTTCGATGCTTAGATCTTCAACTTCAGGATCATTTTTATTGTAAAATTCT
*
166792 GAATTTTTTTA
196 GAATTGTTTTA
** * *
166803 CTTAATGGTGCGTTTAGTTATTGATAATTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
1 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
* * * * *
166868 ATTAATTTTTTTCTGATCGTACCTTTGTTTCTTCATTTGA--TTTTTTTCTATCAGTTTTTTTGT
66 ATTAATTTTTTTCTGATCGTAACTTTGTTTCTTCATCTGATTTTTTTTTCTAGCAATTTTTTGGT
* * * * *
166931 TCTAATTAGATCGGATTTGGCTGCTTAGATATTCAACTTCAGGATCATTTTTAATGTAAAATTCT
131 TCTCATTAGATCGGATTTCGATGCTTAGATCTTCAACTTCAGGATCATTTTTATTGTAAAATTCT
* *
166996 -TATTTTTTTA
196 GAATTGTTTTA
* * *
167006 CTTAATTTTGCGTTTAGTTATTGATAACTCTGCTGCATTATCTGCATTTAATTTCTATTTTTGAA
1 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
* *
167071 A--AGA--TCTTT-TGATCGTAACTTTGTTTCTTCATCTCA---TTTTTTCTAGCAA-TTTTTGG
66 ATTA-ATTTTTTTCTGATCGTAACTTTGTTTCTTCATCTGATTTTTTTTTCTAGCAATTTTTTGG
* * * *
167127 TACTCATAACG-TC-GAGTTTCGATGCTTAGATCTTCAACTTGAGGATTATTTTTATTGTAAAAT
130 TTCTCATTA-GATCGGA-TTTCGATGCTTAGATCTTCAACTTCAGGATCATTTTTATTGTAAAAT
*
167190 ACTGAA-TGTTTTTA
193 TCTGAATTG-TTTTA
* * * * * *
167204 CTTTATTTTGTGTTTAATTATTGATAACTATGCTTCATTGTCAGCGTTTAATTTCTATCTTTGAA
1 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
* * * *
167269 CTTAATTTTTTTTTCTGATCGTACCTTTGTTTCTTGATCTGATTTTTTTTTTCTATCAATTTTTT
66 ATTAA--TTTTTTTCTGATCGTAACTTTGTTTCTTCATCTGA-TTTTTTTTTCTAGCAATTTTTT
* * * * * * * *
167334 TGTTCTTATTGGATTGGATTTCGATGCTTAGATATTCAACTCCAGGATCATTTTTATTATAAATT
128 GGTTCTCATTAGATCGGATTTCGATGCTTAGATCTTCAACTTCAGGATCATTTTTATTGTAAAAT
167399 TCTGAATTGTTTTA
193 TCTGAATTGTTTTA
* * *
167413 CGTAATTTTGTGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTATAATTTCTATTTTTGAA
1 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
* * *
167478 ATTAATTTTTTTTTCTGATCGTTACTTTG-TTCTTTCATTTGTTTTTTTTTTCTCTAGCAACTTT
66 ATTAA--TTTTTTTCTGATCGTAACTTTGTTTC-TTCATCTG-ATTTTTTTT-TCTAGCAA-TTT
* * * * * *
167542 TTGGGTTTTAATTAGATCGGATTTCGATGCTTAGATCTTCAAATTCAGGATCA-TTTTAATATAA
125 TTTGGTTCTCATTAGATCGGATTTCGATGCTTAGATCTTCAACTTCAGGATCATTTTTATTGTAA
*
167606 AATTCT--A----CTTA
190 AATTCTGAATTGTTTTA
* *
167617 --AAATTTT-CGTATAATTATTGATAACTCTGCTGCATTATCA
1 CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCA
167657 TGGTACAGAT
Statistics
Matches: 720, Mismatches: 102, Indels: 61
0.82 0.12 0.07
Matches are distributed among these distances:
196 2 0.00
197 58 0.08
198 133 0.18
199 25 0.03
200 6 0.01
201 32 0.04
202 9 0.01
203 74 0.10
204 107 0.15
205 9 0.01
206 14 0.02
208 17 0.02
209 161 0.22
210 26 0.04
211 47 0.07
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (206 bp):
CTTAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTTTAATTTCTATTTTTGAA
ATTAATTTTTTTCTGATCGTAACTTTGTTTCTTCATCTGATTTTTTTTTCTAGCAATTTTTTGGT
TCTCATTAGATCGGATTTCGATGCTTAGATCTTCAACTTCAGGATCATTTTTATTGTAAAATTCT
GAATTGTTTTA
Found at i:167559 original size:401 final size:393
Alignment explanation
Indices: 166607--167478 Score: 1007
Period size: 401 Copynumber: 2.2 Consensus size: 393
166597 ATTTCAGTCT
* * *
166607 TAATTCTGCGTTTAATTATTGATAATTCTGCTGCATTATCAGCATTTAATTTCTATTTTTG--AA
1 TAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATATAATTTCTATTTTTGAAAA
* * * *
166670 -ATTTTTTGATCGTAAC-GTGTTTCTTCATCTGATTTTATTTTCTACCAATTTTTTGGTACTCAT
66 GATCTTTTGATCGTAACTTTGTTTCTT-ATCTCA--TT-TTTTCT----A-TTTTT-GTACTCAC
* * ** * * *
166733 TACATCG-GATTTAGATGCTTGGATCTTAAACTTCAGGATCATTTTTATTGTAAAATTCTGAATT
121 AACGTCGAG-TTT--ATAATTAGATCTTAAACTTCAGGATCATTTTTATTGTAAAATACTGAATG
* * * *
166797 TTTTTACTTAATGGTGCGTTTAGTTATTGATAATTCTGCTGCATTATCAGCGTTTAATTTCTATT
183 TTTTTACTTAATGGTGCGTTTAATTATTGATAACTATGCTGCATTATCAGCGTTTAATTTCTATC
* *
166862 TTTGAAATTAATTTTTTTCTGATCGTACCTTTGTTTCTTCATTTGATTTTTTTCTATCAGTTTTT
248 TTTGAAATTAATTTTTTTCTGATCGTACCTTTGTTTCTTCATCTGATTTTTTTCTATCAATTTTT
* * * *
166927 TTGTTCTAATTAGATCGGATTTGGCTGCTTAGATATTCAACTTCAGGATCATTTTTAATGTAAAA
313 TTGTTCTAATTAGATCGGATTTCGATGCTTAGATATTCAACTCCAGGATCATTTTTAATATAAAA
* * *
166992 TTCTTATTTTTTTACT
378 TTCTAATTGTTTTACG
* * *
167008 TAATTTTGCGTTTAGTTATTGATAACTCTGCTGCATTATCTGCATTTAATTTCTATTTTTGAAAA
1 TAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATATAATTTCTATTTTTGAAAA
*
167073 GATCTTTTGATCGTAACTTTGTTTCTTCATCTCATTTTTTCTAGCAATTTTTGGTACTCATAACG
66 GATCTTTTGATCGTAACTTTGTTTCTT-ATCTCATTTTTTCT----ATTTTT-GTACTCACAACG
** * * *
167138 TCGAGTTTCGATGCTTAGATCTTCAACTTGAGGATTATTTTTATTGTAAAATACTGAATGTTTTT
125 TCGAGTTT--ATAATTAGATCTTAAACTTCAGGATCATTTTTATTGTAAAATACTGAATGTTTTT
* ** * * *
167203 ACTTTATTTTGTGTTTAATTATTGATAACTATGCTTCATTGTCAGCGTTTAATTTCTATCTTTGA
188 ACTTAATGGTGCGTTTAATTATTGATAACTATGCTGCATTATCAGCGTTTAATTTCTATCTTTGA
* *
167268 ACTTAATTTTTTTTTCTGATCGTACCTTTGTTTCTTGATCTGATTTTTTTTTTCTATCAATTTTT
253 AATTAA--TTTTTTTCTGATCGTACCTTTGTTTCTTCATCTGA---TTTTTTTCTATCAATTTTT
* * * * *
167333 TTGTTCTTATTGGATTGGATTTCGATGCTTAGATATTCAACTCCAGGATCATTTTTATTATAAAT
313 TTGTTCTAATTAGATCGGATTTCGATGCTTAGATATTCAACTCCAGGATCATTTTTAATATAAAA
167398 TTCTGAATTGTTTTACG
378 TTCT-AATTGTTTTACG
* *
167415 TAATTTTGTGTTTAATTATTGATAACTCTGCTGCATTATCAGCGTATAATTTCTATTTTTGAAA
1 TAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATATAATTTCTATTTTTGAAA
167479 TTAATTTTTT
Statistics
Matches: 412, Mismatches: 48, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
401 189 0.46
402 11 0.03
403 37 0.09
404 15 0.04
405 14 0.03
406 78 0.19
407 68 0.17
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (393 bp):
TAATTTTGCGTTTAATTATTGATAACTCTGCTGCATTATCAGCATATAATTTCTATTTTTGAAAA
GATCTTTTGATCGTAACTTTGTTTCTTATCTCATTTTTTCTATTTTTGTACTCACAACGTCGAGT
TTATAATTAGATCTTAAACTTCAGGATCATTTTTATTGTAAAATACTGAATGTTTTTACTTAATG
GTGCGTTTAATTATTGATAACTATGCTGCATTATCAGCGTTTAATTTCTATCTTTGAAATTAATT
TTTTTCTGATCGTACCTTTGTTTCTTCATCTGATTTTTTTCTATCAATTTTTTTGTTCTAATTAG
ATCGGATTTCGATGCTTAGATATTCAACTCCAGGATCATTTTTAATATAAAATTCTAATTGTTTT
ACG
Found at i:172270 original size:29 final size:31
Alignment explanation
Indices: 172227--172288 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
172217 GATAAAAGTA
172227 TATTTTAATTTTTATACTA-TT-AAATTAAAG
1 TATTTTAATTTTTATA-TATTTAAAATTAAAG
172257 TATTTT-ATTTTTATATATTTAAAATTAAAG
1 TATTTTAATTTTTATATATTTAAAATTAAAG
172287 TA
1 TA
172289 AACAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 11 0.37
30 17 0.57
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (31 bp):
TATTTTAATTTTTATATATTTAAAATTAAAG
Found at i:172457 original size:22 final size:20
Alignment explanation
Indices: 172419--172458 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
172409 TTTAAATTTA
*
172419 TATATCACATTTTATAAAAT
1 TATATCACATTTAATAAAAT
172439 TATATCACTATTTAAATAAA
1 TATATCAC-ATTT-AATAAA
172459 TTTTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (20 bp):
TATATCACATTTAATAAAAT
Found at i:172522 original size:30 final size:31
Alignment explanation
Indices: 172488--172553 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
172478 TAATTTATTT
* ** *
172488 TATTTATTTTAATTTTAAATAAA-TAAAAAA
1 TATTTAATTTAATAATAAAAAAATTAAAAAA
*
172518 TATTTAATTTAATAATAAAAAAATTAAAATA
1 TATTTAATTTAATAATAAAAAAATTAAAAAA
172549 TATTT
1 TATTT
172554 TTAATTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
TATTTAATTTAATAATAAAAAAATTAAAAAA
Found at i:172541 original size:23 final size:25
Alignment explanation
Indices: 172495--172539 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
172485 TTTTATTTAT
172495 TTTAATTTTAAATAAATAAAAAATA
1 TTTAATTTTAAATAAATAAAAAATA
172520 TTTAA-TTT-AAT-AATAAAAAA
1 TTTAATTTTAAATAAATAAAAAA
172540 ATTAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 3 0.15
25 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTAATTTTAAATAAATAAAAAATA
Found at i:172801 original size:9 final size:9
Alignment explanation
Indices: 172787--172844 Score: 66
Period size: 9 Copynumber: 6.3 Consensus size: 9
172777 AATTTTGAGG
172787 AATTAATTA
1 AATTAATTA
172796 AATTAATTA
1 AATTAATTA
172805 AATTAGATT-
1 AATTA-ATTA
172814 AATTAATTA
1 AATTAATTA
*
172823 AGA-AAATTA
1 A-ATTAATTA
172832 AATTAATTTA
1 AATTAA-TTA
172842 AAT
1 AAT
172845 ATATTGATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 4 0.10
9 28 0.67
10 10 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:172931 original size:23 final size:21
Alignment explanation
Indices: 172877--172931 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
172867 TAATTTTAAT
172877 TATTTAAAATATTTTATATAA
1 TATTTAAAATATTTTATATAA
** *
172898 TATAAATAAATATATTTATGTAA
1 TATTTA-AAATAT-TTTATATAA
172921 TAATTTAAAAT
1 T-ATTTAAAAT
172932 TATACAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 4 0.15
22 6 0.23
23 13 0.50
24 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTTAAAATATTTTATATAA
Done.