Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 15 of 32
Found at i:2012947 original size:2 final size:2
Alignment explanation
Indices: 2012940--2012974 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2012930 TGGGTGTTGA
2012940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2012975 ATTAAGTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2013418 original size:19 final size:20
Alignment explanation
Indices: 2013396--2013438 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2013386 CATCAACCTT
2013396 ATGAA-ACTACATCGAGATC
1 ATGAACACTACATCGAGATC
* *
2013415 ATGAACTACTTCATTGAGATC
1 ATGAAC-ACTACATCGAGATC
2013436 ATG
1 ATG
2013439 TATCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGAACACTACATCGAGATC
Found at i:2013461 original size:2 final size:2
Alignment explanation
Indices: 2013456--2013487 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2013446 TATCTAGCTG
2013456 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2013488 AGCCTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2013636 original size:13 final size:12
Alignment explanation
Indices: 2013601--2013635 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
2013591 CAAATTTTTT
2013601 TAAAAAAAAAAG
1 TAAAAAAAAAAG
*
2013613 TAAAAAAAAAAT
1 TAAAAAAAAAAG
2013625 TAAAAAAAAAA
1 TAAAAAAAAAA
2013636 AGGAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (12 bp):
TAAAAAAAAAAG
Found at i:2014716 original size:21 final size:23
Alignment explanation
Indices: 2014673--2014718 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2014663 ATATCGTATT
2014673 TTATATTAATTATAATTAAATTTA
1 TTATATTAATTATAATT-AATTTA
* *
2014697 TTATATTTATTAT-ATTATTTTA
1 TTATATTAATTATAATTAATTTA
2014719 AACTATGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 3 0.15
24 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATTAATTATAATTAATTTA
Found at i:2014992 original size:6 final size:7
Alignment explanation
Indices: 2014963--2014991 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2014953 GTTATGAATG
2014963 TTTAAA-
1 TTTAAAT
2014969 TTTAAAT
1 TTTAAAT
2014976 TTTAAAT
1 TTTAAAT
2014983 TTTAAAT
1 TTTAAAT
2014990 TT
1 TT
2014992 ATTAAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTAAAT
Found at i:2018104 original size:15 final size:17
Alignment explanation
Indices: 2018078--2018118 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2018068 TACATAATAG
2018078 AATAAAAA-AA-TTAA-
1 AATAAAAATAATTTAAC
2018092 AATAAAAATAATTTAATC
1 AATAAAAATAATTTAA-C
2018110 AATAAAAAT
1 AATAAAAAT
2018119 TTAAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 2 0.09
16 4 0.17
18 9 0.39
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAATAATTTAAC
Found at i:2018217 original size:26 final size:26
Alignment explanation
Indices: 2018140--2018218 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 26
2018130 TTTTTAAAAA
* * * *
2018140 TAAAATATATTATATGTGATTAAATTT
1 TAAAA-ATATTTTATTTAATTAAATAT
* * *
2018167 TAAAATTTTTTTA-TTAGA-TATATAT
1 TAAAAATATTTTATTTA-ATTAAATAT
2018192 TAAAAATATTTTATTTAATTAAATAT
1 TAAAAATATTTTATTTAATTAAATAT
2018218 T
1 T
2018219 TATTTAATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
25 18 0.46
26 16 0.41
27 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
TAAAAATATTTTATTTAATTAAATAT
Found at i:2018222 original size:16 final size:17
Alignment explanation
Indices: 2018195--2018240 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
2018185 TATATATTAA
2018195 AAATATTTTATTTAAT-T
1 AAATA-TTTATTTAATAT
2018212 AAATATTTATTTAATAT
1 AAATATTTATTTAATAT
*
2018229 TAA-ATTTATTTA
1 AAATATTTATTTA
2018241 TTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATATTTATTTAATAT
Found at i:2018260 original size:20 final size:18
Alignment explanation
Indices: 2018195--2018265 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 18
2018185 TATATATTAA
2018195 AAATATTTTATTT-A-ATT
1 AAAT-TTTTATTTAATATT
*
2018212 AAATATTTATTTAATATT
1 AAATTTTTATTTAATATT
*
2018230 AAATTTATTTATTTATTATTTT
1 AAA-TT-TTTATTTA--ATATT
*
2018252 AAATTTTTAATTAA
1 AAATTTTTATTTAA
2018266 ATCAAATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
16 7 0.16
17 5 0.11
18 7 0.16
19 1 0.02
20 15 0.34
21 2 0.05
22 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAATTTTTATTTAATATT
Found at i:2018498 original size:12 final size:12
Alignment explanation
Indices: 2018481--2018505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2018471 AAGAAATTGG
2018481 AAAATAATAATA
1 AAAATAATAATA
2018493 AAAATAATAATA
1 AAAATAATAATA
2018505 A
1 A
2018506 TAAAAAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:2018503 original size:15 final size:15
Alignment explanation
Indices: 2018483--2018511 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2018473 GAAATTGGAA
2018483 AATAATAATAAAAAT
1 AATAATAATAAAAAT
2018498 AATAATAATAAAAA
1 AATAATAATAAAAA
2018512 GGCAAAAAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAAAT
Found at i:2018522 original size:18 final size:19
Alignment explanation
Indices: 2018493--2018537 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
2018483 AATAATAATA
2018493 AAAATAATAATAATAAAAAGGC
1 AAAA-AATAA-AAT-AAAAGGC
*
2018515 AAAAAATAAAATAAAAGTC
1 AAAAAATAAAATAAAAGGC
2018534 AAAA
1 AAAA
2018538 CCTTCACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 3 0.14
21 5 0.23
22 4 0.18
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAAAATAAAATAAAAGGC
Found at i:2018774 original size:32 final size:33
Alignment explanation
Indices: 2018713--2018777 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
2018703 AATTAAAAAT
*
2018713 TTTAATAATATTAAAAATAAATATTATTTTAAA
1 TTTAATAATATTAAAAATAAATATCATTTTAAA
** *
2018746 TTTAATAATA-TAATGATGAATATCATTTTAAA
1 TTTAATAATATTAAAAATAAATATCATTTTAAA
2018778 ATATCTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (33 bp):
TTTAATAATATTAAAAATAAATATCATTTTAAA
Found at i:2020016 original size:21 final size:21
Alignment explanation
Indices: 2020003--2020051 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2019993 TAACTAAGTG
*
2020003 AAATTTCTAGTTAAAATTTGC
1 AAATTTCTAGTTAAAATGTGC
*
2020024 AAATTTCTAGTTAAAATTTGC
1 AAATTTCTAGTTAAAATGTGC
2020045 AAATTTC
1 AAATTTC
2020052 CTAATGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (21 bp):
AAATTTCTAGTTAAAATGTGC
Found at i:2023021 original size:29 final size:30
Alignment explanation
Indices: 2022979--2023042 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
2022969 TAAATTTATA
*
2022979 TATT-ATTAATAAATTAGATAATTA-TATCT
1 TATTAATTAATAAATAAGAT-ATTATTATCT
2023008 TATTAATTAA-AAATAAGATATTATTATCT
1 TATTAATTAATAAATAAGATATTATTATCT
*
2023037 GATTAA
1 TATTAA
2023043 CTCACTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.13
29 22 0.71
30 5 0.16
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (30 bp):
TATTAATTAATAAATAAGATATTATTATCT
Found at i:2025258 original size:6 final size:6
Alignment explanation
Indices: 2025247--2025308 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
2025237 TAAAAATTTA
2025247 TATATT TATA-T TACT-TT TATATT TATATCT ATATCATT TA-A-T TAT-TT
1 TATATT TATATT TA-TATT TATATT TATAT-T -TAT-ATT TATATT TATATT
2025294 TATATT TATATT TAT
1 TATATT TATATT TAT
2025309 TAAAAAAGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
4 3 0.06
5 9 0.19
6 26 0.55
7 3 0.06
8 4 0.09
9 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:2025589 original size:18 final size:19
Alignment explanation
Indices: 2025558--2025594 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2025548 GATATAGTAA
2025558 TATATATTCATATCATATT
1 TATATATTCATATCATATT
*
2025577 TATATATT-TTATCATATT
1 TATATATTCATATCATATT
2025595 ATAACCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATATTCATATCATATT
Found at i:2025815 original size:15 final size:15
Alignment explanation
Indices: 2025778--2025828 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
2025768 TAAAGTATTT
*
2025778 TTTATTTATATAAAA
1 TTTATATATATAAAA
2025793 TTTA-ATATATTAATAA
1 TTTATATATA-TAA-AA
*
2025809 TTTATATTATATAAAT
1 TTTATA-TATATAAAA
2025825 TTTA
1 TTTA
2025829 AAATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 11 0.37
17 4 0.13
18 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATATATAAAA
Found at i:2025835 original size:16 final size:16
Alignment explanation
Indices: 2025784--2025837 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
2025774 ATTTTTTATT
*
2025784 TATATAAAATTTAATA
1 TATATAAAATTTAAAA
* *
2025800 TAT-TAATAATTTATAT
1 TATATAA-AATTTAAAA
*
2025816 TATATAAATTTTAAAA
1 TATATAAAATTTAAAA
2025832 TATATA
1 TATATA
2025838 TTTATTTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATAAAATTTAAAA
Found at i:2032109 original size:2 final size:2
Alignment explanation
Indices: 2032102--2032140 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2032092 ATCCTTTTGC
2032102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2032141 GATCTACCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2032703 original size:17 final size:18
Alignment explanation
Indices: 2032676--2032714 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2032666 CTTATGATTG
2032676 TTTACATTTTTATAAATT
1 TTTACATTTTTATAAATT
* *
2032694 TTTA-ATTTTTTTAATTT
1 TTTACATTTTTATAAATT
2032711 TTTA
1 TTTA
2032715 TATTCATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTACATTTTTATAAATT
Found at i:2033233 original size:10 final size:11
Alignment explanation
Indices: 2033218--2033261 Score: 65
Period size: 10 Copynumber: 4.1 Consensus size: 11
2033208 TTTTACTTTG
2033218 TATAT-TATAT
1 TATATATATAT
2033228 TATAT-TATAT
1 TATATATATAT
2033238 TATATATATAT
1 TATATATATAT
2033249 ATATATATATAT
1 -TATATATATAT
2033261 T
1 T
2033262 TTACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.47
11 6 0.19
12 11 0.34
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATATAT
Found at i:2033245 original size:2 final size:2
Alignment explanation
Indices: 2033218--2033260 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
2033208 TTTTACTTTG
2033218 TA TA T- TA TA T- TA TA T- TA TA T- 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
2033256 TA TA T
1 TA TA T
2033261 TTTACTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.11
2 33 0.89
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:2033942 original size:2 final size:2
Alignment explanation
Indices: 2033937--2033961 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2033927 AAGAAACCTT
2033937 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 T
2033962 GTACACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2034195 original size:28 final size:29
Alignment explanation
Indices: 2034139--2034195 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
2034129 TTAATTTGAT
** *
2034139 ATTTAATAATTAAAATATATATTATTTAA
1 ATTTAATAATTAAAATATATAAAAATTAA
*
2034168 ATTTAATTA-TAAAATATATAAAAATTAA
1 ATTTAATAATTAAAATATATAAAAATTAA
2034196 TATAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTAATAATTAAAATATATAAAAATTAA
Found at i:2034673 original size:21 final size:20
Alignment explanation
Indices: 2034649--2034696 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2034639 AAATTTAATT
*
2034649 AATTT-ATATAATTATTTTTAA
1 AATTTAATA-AATTAATTTT-A
2034670 AATTTAATAAATTAATTTTA
1 AATTTAATAAATTAATTTTA
2034690 AATTTAA
1 AATTTAA
2034697 ATCTTAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 14 0.56
22 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTAATAAATTAATTTTA
Found at i:2034893 original size:2 final size:2
Alignment explanation
Indices: 2034882--2034926 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
2034872 CAAACAAAAC
* * *
2034882 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2034923 TA TA
1 TA TA
2034927 CACACCTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2036580 original size:12 final size:12
Alignment explanation
Indices: 2036563--2036587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2036553 CTGCATCCAT
2036563 TTCGAGTTTGGC
1 TTCGAGTTTGGC
2036575 TTCGAGTTTGGC
1 TTCGAGTTTGGC
2036587 T
1 T
2036588 CTGCTTCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TTCGAGTTTGGC
Found at i:2042102 original size:36 final size:37
Alignment explanation
Indices: 2042038--2042107 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
2042028 ATTTAAAATT
2042038 AATAATAAAAATAAAAATTAATTAATTTA-ATATTTA
1 AATAATAAAAATAAAAATTAATTAATTTATATATTTA
* * *
2042074 AATAATATAAAAT-AATATTACTTTATTTATATAT
1 AATAATA-AAAATAAAAATTAATTAATTTATATAT
2042108 ATATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 20 0.69
37 9 0.31
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (37 bp):
AATAATAAAAATAAAAATTAATTAATTTATATATTTA
Found at i:2042544 original size:24 final size:24
Alignment explanation
Indices: 2042517--2042565 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2042507 TGATAATTTA
* **
2042517 TATGAATAATTAATTTATTAAAAT
1 TATGAATAATAAAAATATTAAAAT
*
2042541 TATGAATTATAAAAATATTAAAAT
1 TATGAATAATAAAAATATTAAAAT
2042565 T
1 T
2042566 TATATAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TATGAATAATAAAAATATTAAAAT
Found at i:2044153 original size:19 final size:19
Alignment explanation
Indices: 2044115--2044154 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2044105 ATTTATCTTG
*
2044115 TTAAATTAATGTTAAAAAA
1 TTAAATTAATATTAAAAAA
2044134 TTAAATTAA-ATTAAAGAAA
1 TTAAATTAATATTAAA-AAA
2044153 TT
1 TT
2044155 TTATAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
TTAAATTAATATTAAAAAA
Found at i:2044256 original size:17 final size:18
Alignment explanation
Indices: 2044215--2044266 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
2044205 CTTTTAATTT
2044215 TTAAAAAATAATTATTCA
1 TTAAAAAATAATTATTCA
2044233 TTAAAAAATAATTATTCA
1 TTAAAAAATAATTATTCA
*
2044251 TTAAAAAATAAATATT
1 TTAAAAAATAATTATT
2044267 TATTTATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATAATTATTCA
Found at i:2046676 original size:20 final size:19
Alignment explanation
Indices: 2046637--2046677 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2046627 AAATTATCGG
*
2046637 TTAAATCGATTTTTATTGA
1 TTAAATCGATTTTGATTGA
*
2046656 TTAAATTGATTTTAGATTGA
1 TTAAATCGATTTT-GATTGA
2046676 TT
1 TT
2046678 CTAACATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (19 bp):
TTAAATCGATTTTGATTGA
Found at i:2047373 original size:18 final size:17
Alignment explanation
Indices: 2047332--2047386 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
2047322 AGGGTTGTCT
*
2047332 TAAAATTTATGTAA-TA
1 TAAAATTTATATAATTA
2047348 T-AAA-TTAT-TAATGTA
1 TAAAATTTATATAAT-TA
2047363 TCAAAATTTATATAATTA
1 T-AAAATTTATATAATTA
2047381 TAAAAT
1 TAAAAT
2047387 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 6 0.18
16 1 0.03
17 8 0.24
18 7 0.21
19 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAATTA
Found at i:2047385 original size:17 final size:16
Alignment explanation
Indices: 2047332--2047399 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
2047322 AGGGTTGTCT
2047332 TAAAATTTATGTAA-TA
1 TAAAATTTAT-TAATTA
2047348 T-AAA-TTATTAATGTA
1 TAAAATTTATTAAT-TA
2047363 TCAAAATTTATATAATTA
1 T-AAAATTTAT-TAATTA
*
2047381 TAAAATATTTTTAA-TA
1 TAAAAT-TTATTAATTA
2047397 TAA
1 TAA
2047400 TTATAATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
13 3 0.07
14 4 0.09
15 6 0.14
16 6 0.14
17 11 0.25
18 10 0.23
19 4 0.09
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (16 bp):
TAAAATTTATTAATTA
Found at i:2047408 original size:11 final size:11
Alignment explanation
Indices: 2047372--2047411 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
2047362 ATCAAAATTT
2047372 ATATAATTATA
1 ATATAATTATA
* * *
2047383 AAATATTTTTA
1 ATATAATTATA
2047394 ATATAATTATA
1 ATATAATTATA
2047405 ATATAAT
1 ATATAAT
2047412 ATGATAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATAATTATA
Found at i:2047763 original size:24 final size:23
Alignment explanation
Indices: 2047721--2047778 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
2047711 TATGTAAATA
*
2047721 TAAAT-TTTAAAATTATAAATAT
1 TAAATATTTAAAATTATAAACAT
* *
2047743 TTAATATTTAAAATTTTTAAACAT
1 TAAATATTTAAAA-TTATAAACAT
*
2047767 TAAATATATAAA
1 TAAATATTTAAA
2047779 TAAGTATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 4 0.14
23 7 0.24
24 18 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATATTTAAAATTATAAACAT
Found at i:2048251 original size:27 final size:26
Alignment explanation
Indices: 2048200--2048263 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
2048190 GGATATTTTT
* *
2048200 TATTAATTA-AAATAATATTTTTAAA
1 TATTAATTATAAATAATATATATAAA
2048225 -ATTTAATTATAAATATATATATATAAA
1 TA-TTAATTATAAATA-ATATATATAAA
2048252 TATTAATTATAA
1 TATTAATTATAA
2048264 TTTTTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 7 0.21
26 5 0.15
27 19 0.58
28 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTAATTATAAATAATATATATAAA
Found at i:2053702 original size:18 final size:18
Alignment explanation
Indices: 2053679--2053733 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
2053669 TTCAAAATCT
*
2053679 ATATATTACAAATTATTA
1 ATATATTAAAAATTATTA
*
2053697 ATATATAAAAAATTATATA
1 ATATATTAAAAATTAT-TA
2053716 A-ATA-TAAAAATATATTA
1 ATATATTAAAAAT-TATTA
2053733 A
1 A
2053734 ATACGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.28
18 20 0.62
19 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATTAAAAATTATTA
Found at i:2055241 original size:26 final size:27
Alignment explanation
Indices: 2055212--2055268 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
2055202 TTGTTTCAAT
*
2055212 TTGTTAGGTCCCATAGCCTGAA-TTAA
1 TTGTTAGGTCCCATAACCTGAATTTAA
2055238 TTGTTAGGTCCCATAACCTGAATTTAA
1 TTGTTAGGTCCCATAACCTGAATTTAA
2055265 TTGT
1 TTGT
2055269 ACTATTTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
TTGTTAGGTCCCATAACCTGAATTTAA
Found at i:2057615 original size:3 final size:3
Alignment explanation
Indices: 2057607--2057638 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2057597 TCTTAAATAC
2057607 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2057639 ACTCCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2061215 original size:22 final size:24
Alignment explanation
Indices: 2061176--2061221 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
2061166 AAGATCCAAA
*
2061176 TCTCAATATTTATAACTTTTTTTT
1 TCTCAATATTTATAACTTCTTTTT
*
2061200 TCTCAA-A-TTATGACTTCTTTTT
1 TCTCAATATTTATAACTTCTTTTT
2061222 GTAAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (24 bp):
TCTCAATATTTATAACTTCTTTTT
Found at i:2064757 original size:2 final size:2
Alignment explanation
Indices: 2064752--2064783 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2064742 TATTCATGTC
*
2064752 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2064784 CTCTCGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2064838 original size:2 final size:2
Alignment explanation
Indices: 2064831--2064864 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2064821 GTAATCATAC
2064831 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
2064865 GCTGCAAGAT
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):
AT
Found at i:2065663 original size:16 final size:15
Alignment explanation
Indices: 2065598--2065664 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 15
2065588 TAAAAAAATT
* *
2065598 AATAACTTAAAATAA
1 AATAATTTAAATTAA
*
2065613 ATTAATTTAAACTTAA
1 AATAATTTAAA-TTAA
*
2065629 AAGTAATTTGAATATAA
1 AA-TAATTTAAAT-TAA
2065646 AATAATTTAAATTCAA
1 AATAATTTAAATT-AA
2065662 AAT
1 AAT
2065665 GAAACGACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
15 10 0.24
16 19 0.45
17 13 0.31
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAATTTAAATTAA
Found at i:2066113 original size:16 final size:18
Alignment explanation
Indices: 2066099--2066134 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
2066089 TTTAAATAAT
2066099 TTAAATATAAAATAAATA
1 TTAAATATAAAATAAATA
2066117 TTAAATAT--AATAAATA
1 TTAAATATAAAATAAATA
2066133 TT
1 TT
2066135 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAATATAAAATAAATA
Found at i:2067438 original size:13 final size:13
Alignment explanation
Indices: 2067420--2067450 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2067410 TAGAATGAAA
2067420 AAATTATCTTTAT
1 AAATTATCTTTAT
*
2067433 AAATTATTTTTAT
1 AAATTATCTTTAT
2067446 AAATT
1 AAATT
2067451 TTAAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATTATCTTTAT
Found at i:2068475 original size:13 final size:13
Alignment explanation
Indices: 2068457--2068482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2068447 TTTTTATAAA
2068457 ATAATAAAATTTT
1 ATAATAAAATTTT
2068470 ATAATAAAATTTT
1 ATAATAAAATTTT
2068483 TCATTCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATAAAATTTT
Found at i:2068858 original size:18 final size:20
Alignment explanation
Indices: 2068843--2068888 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2068833 AGAATTTATT
2068843 TATAA-ATATAATTTTAATA
1 TATAATATATAATTTTAATA
** *
2068862 TATAATATATAAGGTAAATA
1 TATAATATATAATTTTAATA
2068882 TATAATA
1 TATAATA
2068889 ATGGTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TATAATATATAATTTTAATA
Found at i:2069585 original size:33 final size:32
Alignment explanation
Indices: 2069548--2069623 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
2069538 ATTTTATGTG
*
2069548 TCATAATTAAATTTTA-AATAAAAATTAATTAT
1 TCATAATTAAATTTTATAAT-AAAATAAATTAT
*
2069580 ATCAT-ATAAAAATTTTATAATAAAATAAATTAT
1 -TCATAAT-TAAATTTTATAATAAAATAAATTAT
2069613 TCA-AATTAAAT
1 TCATAATTAAAT
2069624 CTTCACTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
31 4 0.11
32 7 0.19
33 23 0.62
34 3 0.08
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (32 bp):
TCATAATTAAATTTTATAATAAAATAAATTAT
Found at i:2074409 original size:15 final size:15
Alignment explanation
Indices: 2074351--2074421 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
2074341 GCAGGGAAAA
*
2074351 GATGATGATGACGAT
1 GATGATGATGACGAG
* *
2074366 GACGATGATGACGAC
1 GATGATGATGACGAG
* * **
2074381 GATCAAGACAACGAG
1 GATGATGATGACGAG
2074396 GATGATGATGACGATG
1 GATGATGATGACGA-G
2074412 G-TGATGATGA
1 GATGATGATGA
2074422 TAACTAAAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 41 0.95
16 2 0.05
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.20
Consensus pattern (15 bp):
GATGATGATGACGAG
Found at i:2079437 original size:16 final size:15
Alignment explanation
Indices: 2079408--2079451 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
2079398 GGATTACTCG
2079408 TTTAATTT-AATAAA
1 TTTAATTTAAATAAA
2079422 TTTAATTTAAAATAAA
1 TTTAATTT-AAATAAA
2079438 TTTAATTTATAATA
1 TTTAATTTA-AATA
2079452 GGATGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.30
15 1 0.04
16 18 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATTTAAATAAA
Found at i:2079525 original size:20 final size:19
Alignment explanation
Indices: 2079473--2079525 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
2079463 TTTAAATTTG
*
2079473 ATTTAA-ATTATTATTTTA
1 ATTTAATATAATTATTTTA
*
2079491 A-TTAATAAAAATTATTTTA
1 ATTTAAT-ATAATTATTTTA
2079510 TATTTAATATAATTAT
1 -ATTTAATATAATTAT
2079526 ATAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.14
18 1 0.04
19 10 0.36
20 8 0.29
21 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAATATAATTATTTTA
Found at i:2079547 original size:21 final size:20
Alignment explanation
Indices: 2079515--2079553 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2079505 TTTTATATTT
2079515 AATATAATTATATAAAATATA
1 AATATAATTATA-AAAATATA
2079536 AATATTAA-TATAAAAATA
1 AATA-TAATTATAAAAATA
2079554 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATAATTATAAAAATATA
Found at i:2080324 original size:17 final size:17
Alignment explanation
Indices: 2080282--2080333 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
2080272 ATATAAACAC
2080282 AATATAAATTATTAAATA
1 AATAT-AATTATTAAATA
2080300 AATCATAATT-TTAAATAA
1 AAT-ATAATTATTAAAT-A
2080318 AATATAATATATTAAA
1 AATATAAT-TATTAAA
2080334 AATATCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 11 0.37
18 12 0.40
19 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAATTATTAAATA
Found at i:2081032 original size:17 final size:17
Alignment explanation
Indices: 2080970--2081059 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
2080960 TTAGAGGGAT
* *
2080970 TTTTATATTATATAAAA
1 TTTTATATTATATTATA
* *
2080987 TTTAAAATATATATT-TA
1 TTTTATAT-TATATTATA
**
2081004 TAATATATTTATATTA-A
1 TTTTATA-TTATATTATA
*
2081021 TTTTTATATTATATTGTA
1 -TTTTATATTATATTATA
*
2081039 TTTTATATTATATTTTA
1 TTTTATATTATATTATA
2081056 TTTT
1 TTTT
2081060 TAATAGTATA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
17 44 0.79
18 12 0.21
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTTATATTATATTATA
Found at i:2081044 original size:12 final size:12
Alignment explanation
Indices: 2080994--2081061 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
2080984 AAATTTAAAA
*
2080994 TATATATTTATAA
1 TATAT-TTTATAT
2081007 TATA-TTTATAT
1 TATATTTTATAT
2081018 TA-ATTTTTATAT
1 TATA-TTTTATAT
* *
2081030 TATATTGTATTT
1 TATATTTTATAT
* *
2081042 TATATTATATTT
1 TATATTTTATAT
2081054 TAT-TTTTA
1 TATATTTTA
2081062 ATAGTATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
10 1 0.02
11 12 0.26
12 29 0.62
13 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:2081264 original size:7 final size:6
Alignment explanation
Indices: 2081223--2081255 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2081213 TTTAATATAT
2081223 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
2081256 TAATATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:2082458 original size:25 final size:27
Alignment explanation
Indices: 2082429--2082479 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
2082419 TGAATCACAT
2082429 AAATTTTATATGTT-TT-TATTTTTTA
1 AAATTTTATATGTTATTATATTTTTTA
* *
2082454 AAATTTTTTATTTTATTATATTTTTT
1 AAATTTTATATGTTATTATATTTTTT
2082480 GCTCGATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 2 0.09
27 8 0.36
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (27 bp):
AAATTTTATATGTTATTATATTTTTTA
Found at i:2082476 original size:17 final size:16
Alignment explanation
Indices: 2082432--2082479 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
2082422 ATCACATAAA
2082432 TTTTATATGTTTTTATT
1 TTTTATAT-TTTTTATT
*
2082449 TTTTAAAATTTTTTATT
1 TTTT-ATATTTTTTATT
2082466 TTATTATATTTTTT
1 TT-TTATATTTTTT
2082480 GCTCGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTATATTTTTTATT
Found at i:2082519 original size:26 final size:27
Alignment explanation
Indices: 2082488--2082548 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
2082478 TTGCTCGATA
* *
2082488 TATAATTTTAATTAT-ATCATA-TTTAC
1 TATAATTATAAATATAAT-ATATTTTAC
*
2082514 TATAATTATAAATATAATATATTTTAT
1 TATAATTATAAATATAATATATTTTAC
2082541 TATAATTA
1 TATAATTA
2082549 ATTATTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATTATAAATATAATATATTTTAC
Found at i:2082955 original size:18 final size:19
Alignment explanation
Indices: 2082931--2082978 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
2082921 TGATGTGATA
2082931 ATTTATATATTTATATTAT
1 ATTTATATATTTATATTAT
2082950 -TTTATA-ATATTATATTAT
1 ATTTATATAT-TTATATTAT
2082968 ATTTA-ATATTT
1 ATTTATATATTT
2082979 TATAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.08
18 18 0.69
19 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTATATATTTATATTAT
Found at i:2082995 original size:27 final size:28
Alignment explanation
Indices: 2082932--2082996 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 28
2082922 GATGTGATAA
*
2082932 TTTATATATTTATATTATTTTATAATAT
1 TTTATATATTTATATTATTTTATAAAAT
*
2082960 TATATTATATTTA-A-TATTTTATAAAATT
1 TTTA-TATATTTATATTATTTTATAAAA-T
2082988 TTTATATAT
1 TTTATATAT
2082997 CATAACTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 16 0.50
28 8 0.25
29 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATATATTTATATTATTTTATAAAAT
Found at i:2086849 original size:17 final size:17
Alignment explanation
Indices: 2086829--2086863 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2086819 CGATATAAAT
*
2086829 ATATTTAATTTTTTTAA
1 ATATTTAATTTATTTAA
*
2086846 ATATTTTATTTATTTAA
1 ATATTTAATTTATTTAA
2086863 A
1 A
2086864 AAATTATATC
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTAATTTATTTAA
Found at i:2087195 original size:30 final size:31
Alignment explanation
Indices: 2087161--2087266 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 31
2087151 GTCAATTTAT
2087161 ATTAAAAATTTATTTAAGTAT-AAATTAAAA
1 ATTAAAAATTTATTTAAGTATCAAATTAAAA
* * *
2087191 ATTAACAGTTTATTTAAGTATCAAATT-AAT
1 ATTAAAAATTTATTTAAGTATCAAATTAAAA
** * * *
2087221 ATTCATTAACTTA-TT-CGGATACAAATTAAAA
1 ATT-AAAAATTTATTTAAGTAT-CAAATTAAAA
2087252 ATTAAAAATTTATTT
1 ATTAAAAATTTATTT
2087267 TAACATAATA
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
29 3 0.05
30 38 0.66
31 17 0.29
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTAAAAATTTATTTAAGTATCAAATTAAAA
Found at i:2089592 original size:19 final size:19
Alignment explanation
Indices: 2089570--2089610 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2089560 TAGTATTACA
2089570 TTATCTTATGGTTATTTCT
1 TTATCTTATGGTTATTTCT
*
2089589 TTATCTTATGGTTCTTTCT
1 TTATCTTATGGTTATTTCT
2089608 TTA
1 TTA
2089611 ATATTAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (19 bp):
TTATCTTATGGTTATTTCT
Found at i:2090410 original size:15 final size:15
Alignment explanation
Indices: 2090383--2090506 Score: 50
Period size: 17 Copynumber: 8.3 Consensus size: 15
2090373 TATATTTTAA
2090383 TATATTA-AT-AATT
1 TATATTATATAAATT
2090396 TATATTATATAAATT
1 TATATTATATAAATT
2090411 T-TA--ATAT-AATT
1 TATATTATATAAATT
* *
2090422 ATATATTTTATTTATATT
1 -TATA--TTATATAAATT
2090440 TATATTTATATTATAA-T
1 TATA-TTATA-TA-AATT
* *
2090457 TAT-TTATATTATTT
1 TATATTATATAAATT
*
2090471 TATTATTTTATCAAATTT
1 TA-TATTATAT-AAA-TT
*
2090489 TAAATTAT-TAAATT
1 TATATTATATAAATT
2090503 TATA
1 TATA
2090507 ATTTTGTTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 31
0.66 0.10 0.25
Matches are distributed among these distances:
11 4 0.05
12 5 0.06
13 10 0.12
14 13 0.16
15 14 0.17
16 11 0.13
17 18 0.22
18 8 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATATAAATT
Found at i:2090453 original size:17 final size:17
Alignment explanation
Indices: 2090354--2090478 Score: 77
Period size: 17 Copynumber: 7.4 Consensus size: 17
2090344 TTATAATTTA
*
2090354 TATATTTATGTTATAATT
1 TATATTTATATTAT-ATT
*
2090372 ATATATTT-TAATATATT
1 -TATATTTATATTATATT
*
2090389 AATAATTTATATTATA--
1 TAT-ATTTATATTATATT
* *
2090405 TAAATTT-TAATATAATT
1 TATATTTATATTAT-ATT
2090422 ATATATTT-TATTTATATT
1 -TATATTTATA-TTATATT
*
2090440 TATATTTATATTATA-A
1 TATATTTATATTATATT
2090456 T-TATTTATATTAT-TT
1 TATATTTATATTATATT
2090471 TATTATTT
1 TA-TATTT
2090479 TATCAAATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
14 5 0.06
15 18 0.21
16 4 0.05
17 24 0.29
18 23 0.27
19 10 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (17 bp):
TATATTTATATTATATT
Found at i:2090453 original size:21 final size:19
Alignment explanation
Indices: 2090354--2090481 Score: 68
Period size: 21 Copynumber: 6.5 Consensus size: 19
2090344 TTATAATTTA
*
2090354 TATATTTATGTTATAATTA-
1 TATATTTATATTAT-ATTAT
* *
2090373 TATATTT-TAATATATTAA
1 TATATTTATATTATATTAT
*
2090391 TA-ATTTATATTATATAAATTT
1 TATATTTATATTATAT---TAT
*
2090412 TAATATAATTATA-TATTTTATT
1 T-ATAT--TTATATTATATTA-T
2090434 TATATTTATATTTATATTAT
1 TATATTTATA-TTATATTAT
* *
2090454 AATTATTTATATTATTTTAT
1 TA-TATTTATATTATATTAT
2090474 TAT-TTTAT
1 TATATTTAT
2090482 CAAATTTTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 27
0.69 0.09 0.22
Matches are distributed among these distances:
17 8 0.09
18 18 0.21
19 13 0.15
20 11 0.13
21 21 0.25
22 3 0.04
23 2 0.02
24 4 0.05
25 5 0.06
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TATATTTATATTATATTAT
Found at i:2091103 original size:15 final size:15
Alignment explanation
Indices: 2091083--2091125 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2091073 TTTTTATTTT
2091083 TTTAAAATATTTATA
1 TTTAAAATATTTATA
2091098 TTTAAAATA--TATA
1 TTTAAAATATTTATA
2091111 TTTAATATATATTTA
1 TTTAA-A-ATATTTA
2091126 AATATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.38
14 1 0.04
15 12 0.50
17 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAAATATTTATA
Found at i:2091110 original size:13 final size:12
Alignment explanation
Indices: 2091094--2091131 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
2091084 TTAAAATATT
2091094 TATATTTAAAATA
1 TATATTT-AAATA
2091107 TATATTT-AATA
1 TATATTTAAATA
2091118 TATATTTAAATA
1 TATATTTAAATA
2091130 TA
1 TA
2091132 AATATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 6 0.25
13 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATTTAAATA
Found at i:2091146 original size:21 final size:21
Alignment explanation
Indices: 2091122--2091207 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
2091112 TTAATATATA
2091122 TTTAAATATAAATATATATTT
1 TTTAAATATAAATATATATTT
* *
2091143 TTTAAATATATAA-AAAAATATT
1 TTTAAATATA-AATATATAT-TT
* **
2091165 TTTAAATTTAAATATATACAT
1 TTTAAATATAAATATATATTT
* *
2091186 ATTAAATATAAATTTATATTT
1 TTTAAATATAAATATATATTT
2091207 T
1 T
2091208 ATATTTAATT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 33 0.67
22 16 0.33
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAATATAAATATATATTT
Found at i:2091150 original size:15 final size:15
Alignment explanation
Indices: 2091080--2091154 Score: 52
Period size: 15 Copynumber: 5.0 Consensus size: 15
2091070 AATTTTTTAT
2091080 TTTTTTAAA-ATAT-
1 TTTTTTAAATATATA
2091093 TTATATTTAAA-ATATA
1 TT-T-TTTAAATATATA
*
2091109 -TATTT-AATATATA
1 TTTTTTAAATATATA
*
2091122 TTTAAATATAAATATATA
1 TTT---TTTAAATATATA
2091140 TTTTTTAAATATATA
1 TTTTTTAAATATATA
2091155 AAAAAATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
12 2 0.04
13 10 0.20
14 2 0.04
15 22 0.45
17 2 0.04
18 11 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTTTAAATATATA
Found at i:2091151 original size:29 final size:29
Alignment explanation
Indices: 2091080--2091163 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
2091070 AATTTTTTAT
* *
2091080 TTTTTTAAAATATTTATATTTAAAATATATA
1 TTTTTT-AAATATTTAAATAT-AAATATATA
** *
2091111 TTTAATATATATTTAAATATAAATATATA
1 TTTTTTAAATATTTAAATATAAATATATA
*
2091140 TTTTTTAAATATATAAA-A-AAATAT
1 TTTTTTAAATATTTAAATATAAATAT
2091164 TTTTAAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 6 0.14
28 1 0.02
29 22 0.50
30 11 0.25
31 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTTTAAATATTTAAATATAAATATATA
Found at i:2091667 original size:20 final size:18
Alignment explanation
Indices: 2091642--2091706 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 18
2091632 ATGATGAAAG
*
2091642 TAATATAAAATTTAATTATA
1 TAATAT-AAATATAA-TATA
2091662 TAATATAAATATAATATA
1 TAATATAAATATAATATA
* *
2091680 TAA-AAAAAT-TAA-AAA
1 TAATATAAATATAATATA
2091695 TAATATAAATAT
1 TAATATAAATAT
2091707 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 5 0.13
16 8 0.21
17 6 0.15
18 7 0.18
19 7 0.18
20 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATATAAATATAATATA
Found at i:2091675 original size:11 final size:11
Alignment explanation
Indices: 2091659--2091706 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
2091649 AAATTTAATT
2091659 ATATAATATAA
1 ATATAATATAA
2091670 ATATAATATATA
1 ATATAATATA-A
* *
2091682 AAAAAAT-TAA
1 ATATAATATAA
*
2091692 AAATAATATAA
1 ATATAATATAA
2091703 ATAT
1 ATAT
2091707 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAATATAA
Found at i:2091683 original size:33 final size:30
Alignment explanation
Indices: 2091644--2091809 Score: 84
Period size: 33 Copynumber: 5.5 Consensus size: 30
2091634 GATGAAAGTA
2091644 ATATAAAATTTAATTATATAATATAAATATAAT
1 ATATAAAA-TT-ATTATA-AATATAAATATAAT
**
2091677 ATATAAAAAAATTA-AAA-AT-AATATAAAT
1 ATATAAAATTATTATAAATATAAATAT-AAT
* *
2091705 ATTTTAAAATT-TTAAATAATATAAATTATTAAT
1 A-TATAAAATTATTATA-AATATAAA-TA-TAAT
2091738 ATATTAAAATT-TATATAAATATAAA-ATAAT
1 ATA-TAAAATTAT-TATAAATATAAATATAAT
**
2091768 A-A-AATTTTATTAT-AATA-AAATAT-AT
1 ATATAAAATTATTATAAATATAAATATAAT
*
2091793 ATCAAAAAATTAATTAT
1 AT-ATAAAATT-ATTAT
2091810 TAGATGTAGG
Statistics
Matches: 106, Mismatches: 11, Indels: 36
0.69 0.07 0.24
Matches are distributed among these distances:
25 6 0.06
26 6 0.06
27 13 0.12
28 14 0.13
29 15 0.14
30 8 0.08
31 7 0.07
32 3 0.03
33 30 0.28
34 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
ATATAAAATTATTATAAATATAAATATAAT
Found at i:2091713 original size:26 final size:26
Alignment explanation
Indices: 2091669--2091760 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
2091659 ATATAATATA
**
2091669 AATATAATATATAAAAAAATTAAAAAT
1 AATATAA-ATATATTAAAATTAAAAAT
* **
2091696 AATATAAATATTTTAAAATTTTAAAT
1 AATATAAATATATTAAAATTAAAAAT
*
2091722 AATATAAAT-TATTAATATATTAAAATT
1 AATATAAATATATTAA-A-ATTAAAAAT
*
2091749 TATATAAATATA
1 AATATAAATATA
2091761 AAATAATAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
25 5 0.10
26 24 0.46
27 21 0.40
28 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATAAATATATTAAAATTAAAAAT
Found at i:2091722 original size:17 final size:17
Alignment explanation
Indices: 2091700--2091749 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
2091690 AAAAATAATA
2091700 TAAATATTTTAAAATTT
1 TAAATATTTTAAAATTT
* *
2091717 TAAATAATAT-AAATTAT
1 TAAATATTTTAAAATT-T
*
2091734 T-AATATATTAAAATTT
1 TAAATATTTTAAAATTT
2091750 ATATAAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATATTTTAAAATTT
Found at i:2091752 original size:25 final size:25
Alignment explanation
Indices: 2091723--2091774 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
2091713 ATTTTAAATA
* *
2091723 ATATAAATTATTAATATATTAAAATTT
1 ATATAAA-TA-TAAAATAATAAAATTT
2091750 ATATAAATATAAAATAATAAAATTT
1 ATATAAATATAAAATAATAAAATTT
2091775 TATTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 14 0.61
26 2 0.09
27 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATAAATATAAAATAATAAAATTT
Found at i:2091759 original size:59 final size:58
Alignment explanation
Indices: 2091661--2091791 Score: 142
Period size: 59 Copynumber: 2.2 Consensus size: 58
2091651 ATTTAATTAT
**
2091661 ATAATATAAATATAATATATAAAAAAATTAAAAATAATATAAATATTTTAAAATTTTAA
1 ATAATATAAATATAATATATAAAAAAATTAAAAATAATATAAA-ATAATAAAATTTTAA
* * * * *
2091720 ATAATATAAATTATTAATATAT-TAAAATTTATATA-AATATAAAATAATAAAATTTTATT
1 ATAATATAAA-TA-TAATATATAAAAAAATTAAAAATAATATAAAATAATAAAATTTTA-A
2091779 ATAATA-AAATATA
1 ATAATATAAATATA
2091792 TATCAAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
56 2 0.03
57 2 0.03
58 15 0.24
59 24 0.39
60 11 0.18
61 8 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (58 bp):
ATAATATAAATATAATATATAAAAAAATTAAAAATAATATAAAATAATAAAATTTTAA
Found at i:2092094 original size:3 final size:3
Alignment explanation
Indices: 2092086--2092127 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
2092076 AATAACCCAC
2092086 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2092128 GTAAAACCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2094672 original size:24 final size:23
Alignment explanation
Indices: 2094606--2094672 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 23
2094596 ATATTTATTC
*
2094606 ATATTTAATAATAAAAATATATAA
1 ATATTT-ATTATAAAAATATATAA
* * *
2094630 GTA-TTATATAGAAATAATATTTAA
1 ATATTTAT-TATAAA-AATATATAA
2094654 ATATTTATTATAAAGAATA
1 ATATTTATTATAAA-AATA
2094673 AAACAAGCTC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
22 2 0.06
23 6 0.18
24 21 0.64
25 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
ATATTTATTATAAAAATATATAA
Found at i:2094841 original size:7 final size:7
Alignment explanation
Indices: 2094829--2094869 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
2094819 GCAATTGAAT
2094829 TTTCTTC
1 TTTCTTC
2094836 TTTCTTC
1 TTTCTTC
2094843 TTTCTTC
1 TTTCTTC
2094850 TTTCTTC
1 TTTCTTC
2094857 TTTCTTC
1 TTTCTTC
2094864 TTTCTT
1 TTTCTT
2094870 TTCCTTCTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCTTC
Found at i:2094855 original size:21 final size:20
Alignment explanation
Indices: 2094828--2094877 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
2094818 CGCAATTGAA
2094828 TTTTCTTCTTTCTTCTTTCT
1 TTTTCTTCTTTCTTCTTTCT
2094848 TCTTTCTTCTTTCTTCTTTCT
1 T-TTTCTTCTTTCTTCTTTCT
*
2094869 TTTCCTTCT
1 TTTTCTTCT
2094878 GTGATGTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTCTTTCTTCTTTCT
Found at i:2095019 original size:5 final size:5
Alignment explanation
Indices: 2095011--2095043 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
2095001 CCCCCATTCC
2095011 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
2095044 TCTGTTTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:2095692 original size:13 final size:14
Alignment explanation
Indices: 2095674--2095702 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2095664 TTTCAATAGC
2095674 TTTTATTT-TTATT
1 TTTTATTTATTATT
2095687 TTTTATTTATTATT
1 TTTTATTTATTATT
2095701 TT
1 TT
2095703 CTTTTGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTATTATT
Found at i:2096293 original size:28 final size:30
Alignment explanation
Indices: 2096228--2096293 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 30
2096218 TATTTATTTA
** * *
2096228 AATATTTTATTTTATTTTTAATTTAATATT
1 AATATTTTATAATATTATTAATATAATATT
2096258 AATA--TTATAATATTATTAA-ATAA-ATT
1 AATATTTTATAATATTATTAATATAATATT
2096284 AATATTTTAT
1 AATATTTTAT
2096294 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
26 7 0.23
27 3 0.10
28 16 0.53
30 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
AATATTTTATAATATTATTAATATAATATT
Found at i:2096311 original size:31 final size:32
Alignment explanation
Indices: 2096250--2096323 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
2096240 TATTTTTAAT
*
2096250 TTAATATTAATATTATAATATTATTAAATAAA
1 TTAATATTAATATTATAAAATTATTAAATAAA
* * *
2096282 TTAATATT-TTATTTTAAAATTTTTAAATAAA
1 TTAATATTAATATTATAAAATTATTAAATAAA
2096313 -TAATAATTAAT
1 TTAAT-ATTAAT
2096324 TAAATTATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 4 0.11
31 22 0.63
32 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
TTAATATTAATATTATAAAATTATTAAATAAA
Found at i:2096737 original size:26 final size:26
Alignment explanation
Indices: 2096704--2096754 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2096694 TCAATTATTT
*
2096704 CTCTTTTAATTAAAATTTTATTTTTA
1 CTCTTTTAAATAAAATTTTATTTTTA
* *
2096730 CTCTTTTAAATAGATTTTTATTTTT
1 CTCTTTTAAATAAAATTTTATTTTT
2096755 TAATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (26 bp):
CTCTTTTAAATAAAATTTTATTTTTA
Found at i:2096766 original size:20 final size:21
Alignment explanation
Indices: 2096717--2096766 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
2096707 TTTTAATTAA
2096717 AATTT-TATTTTTACTCTTTT
1 AATTTATATTTTTACTCTTTT
* * *
2096737 AA-ATAGATTTTTA-TTTTTT
1 AATTTATATTTTTACTCTTTT
2096756 AATTTATATTT
1 AATTTATATTT
2096767 AAATAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (21 bp):
AATTTATATTTTTACTCTTTT
Found at i:2096852 original size:30 final size:29
Alignment explanation
Indices: 2096818--2096896 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
2096808 TTTATTAGAT
*
2096818 ATAAATTAAATATTAAAAAATTATTTAAAA
1 ATAAATTAAA-AATAAAAAATTATTTAAAA
* * *
2096848 ATAAATTTAAAAATAAATATTTATTTAAAT
1 ATAAA-TTAAAAATAAAAAATTATTTAAAA
2096878 AT-AATTAAAAATAAAAAAT
1 ATAAATTAAAAATAAAAAAT
2096897 ATTAAATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 13 0.31
29 2 0.05
30 22 0.52
31 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
ATAAATTAAAAATAAAAAATTATTTAAAA
Found at i:2096855 original size:12 final size:12
Alignment explanation
Indices: 2096840--2096865 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2096830 TTAAAAAATT
2096840 ATTTAAAAATAA
1 ATTTAAAAATAA
2096852 ATTTAAAAATAA
1 ATTTAAAAATAA
2096864 AT
1 AT
2096866 ATTTATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTTAAAAATAA
Found at i:2096909 original size:26 final size:27
Alignment explanation
Indices: 2096819--2096910 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 27
2096809 TTATTAGATA
* *
2096819 TAAATTAAATATTAAAAAATTATTTAAAAA
1 TAAATTAAA-AATAAAAAA-TATTT-AAAT
**
2096849 TAAATTTAAAAATAAATATTTATTTAAA-
1 TAAA-TTAAAAATAAA-AAATATTTAAAT
2096877 TATAATTAAAAATAAAAAATA-TTAAAT
1 TA-AATTAAAAATAAAAAATATTTAAAT
2096904 TAAATTA
1 TAAATTA
2096911 TCGATTTTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
26 10 0.19
27 5 0.09
28 13 0.25
29 5 0.09
30 14 0.26
31 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTAAAAATAAAAAATATTTAAAT
Found at i:2097604 original size:21 final size:21
Alignment explanation
Indices: 2097580--2097637 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
2097570 TTTAAAATAA
* *
2097580 TTTT-ATTTAATTTTTATATAT
1 TTTTAATTAAATTATTAT-TAT
2097601 TTTTAATTAAATTATTATTAT
1 TTTTAATTAAATTATTATTAT
*
2097622 TTAATTAATAAAATTA
1 TT--TTAATTAAATTA
2097638 ATTTAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAATTAAATTATTATTAT
Found at i:2097616 original size:30 final size:29
Alignment explanation
Indices: 2097546--2097616 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
2097536 GTAAAAAGAT
2097546 ATAAATATATTTAATTTTAAATTTTTTAAA
1 ATAAAT-TATTTAATTTTAAATTTTTTAAA
* *
2097576 ATAATTTTATTTAATTTTTATATATTTTT-AA
1 ATAA-ATTATTTAA-TTTTAAAT-TTTTTAAA
*
2097607 TTAAATTATT
1 ATAAATTATT
2097617 ATTATTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 16 0.47
31 13 0.38
32 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
ATAAATTATTTAATTTTAAATTTTTTAAA
Found at i:2097624 original size:19 final size:19
Alignment explanation
Indices: 2097593--2097629 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2097583 TATTTAATTT
2097593 TTATATATTTTTAATTAAA
1 TTATATATTTTTAATTAAA
2097612 TTAT-TATTATTTAATTAA
1 TTATATATT-TTTAATTAA
2097630 TAAAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATATTTTTAATTAAA
Found at i:2097680 original size:22 final size:22
Alignment explanation
Indices: 2097652--2097699 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
2097642 AATAATAATT
2097652 TTAAAAATAATAAAAATTATTA
1 TTAAAAATAATAAAAATTATTA
2097674 TTAAAAATAATAAAAATTATTA
1 TTAAAAATAATAAAAATTATTA
2097696 TTAA
1 TTAA
2097700 CTTGCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAAATAATAAAAATTATTA
Found at i:2098589 original size:16 final size:18
Alignment explanation
Indices: 2098559--2098591 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2098549 AAATTTCACA
2098559 TTTATAAATTCAATAAAT
1 TTTATAAATTCAATAAAT
2098577 TTTA-AAATT-AATAAA
1 TTTATAAATTCAATAAA
2098592 AAATATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATAAATTCAATAAAT
Found at i:2099863 original size:2 final size:2
Alignment explanation
Indices: 2099856--2099933 Score: 120
Period size: 2 Copynumber: 39.0 Consensus size: 2
2099846 AGGAAAGTAA
* *
2099856 AT AT AT AT AT AT AT AT AT AT GT AT TT 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 AT
* *
2099898 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2099934 GATGGTTGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2100246 original size:21 final size:21
Alignment explanation
Indices: 2100220--2100268 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2100210 ATAATACATT
*
2100220 AAAAAATA-TGTTATTTATTCA
1 AAAAAATATTGTTATTT-TTAA
*
2100241 AAAAAATATTTTTATTTTTAA
1 AAAAAATATTGTTATTTTTAA
2100262 AAAAAAT
1 AAAAAAT
2100269 TAAGATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAAATATTGTTATTTTTAA
Found at i:2101729 original size:2 final size:2
Alignment explanation
Indices: 2101722--2101747 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2101712 TTAGATTTCA
2101722 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
2101748 GCACCAACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2101886 original size:18 final size:16
Alignment explanation
Indices: 2101863--2101905 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
2101853 ATTTTAAAAA
2101863 ATATTAAAATATTATTTT
1 ATATTAAAATA-TA-TTT
*
2101881 ATATTAACATATATTT
1 ATATTAAAATATATTT
2101897 ATAATTAAA
1 AT-ATTAAA
2101906 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 7 0.32
18 10 0.45
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAAAATATATTT
Found at i:2102421 original size:17 final size:18
Alignment explanation
Indices: 2102384--2102424 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2102374 TATCTTTTAA
*
2102384 ATATATAAATATATCTCT
1 ATATATAAATATATATCT
*
2102402 ATAT-TAAATATATATTT
1 ATATATAAATATATATCT
2102419 ATATAT
1 ATATAT
2102425 TATTTAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATATAAATATATATCT
Found at i:2103253 original size:40 final size:41
Alignment explanation
Indices: 2103198--2103278 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 41
2103188 CACTGATTCT
2103198 AATTTATAATGCTTGTGTGGCAAAAA-AAAAAAAGTTGTGC
1 AATTTATAATGCTTGTGTGGCAAAAAGAAAAAAAGTTGTGC
2103238 AATTTATAATGCTTGTGTGGCAAAAAGAAAAAAAGTTGTGC
1 AATTTATAATGCTTGTGTGGCAAAAAGAAAAAAAGTTGTGC
2103279 TTATGTTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (41 bp):
AATTTATAATGCTTGTGTGGCAAAAAGAAAAAAAGTTGTGC
Found at i:2103547 original size:23 final size:22
Alignment explanation
Indices: 2103507--2103550 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2103497 TATTTTCATT
**
2103507 TGAAAAATAAATGAATATTTTC
1 TGAAAAATAAAAAAATATTTTC
2103529 TGAAAAATAAAAAATATATTTT
1 TGAAAAATAAAAAA-ATATTTT
2103551 TTGTCTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
TGAAAAATAAAAAAATATTTTC
Found at i:2103748 original size:23 final size:24
Alignment explanation
Indices: 2103717--2103764 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2103707 TTTTTATATT
* *
2103717 TATTTAATA-TTAAAATTTTTAAA
1 TATTAAATATTTAAAATTTTAAAA
*
2103740 TATTAAATATTTATAATTTTAAAA
1 TATTAAATATTTAAAATTTTAAAA
2103764 T
1 T
2103765 TTATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTAAATATTTAAAATTTTAAAA
Found at i:2103766 original size:15 final size:15
Alignment explanation
Indices: 2103721--2103769 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
2103711 TATATTTATT
*
2103721 TAATATTAAAATTTT
1 TAATATTAAAATTTA
2103736 TAAATATTAAATATTTA
1 T-AATATTAAA-ATTTA
*
2103753 TAATTTTAAAATTTA
1 TAATATTAAAATTTA
2103768 TA
1 TA
2103770 TTTATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.27
16 17 0.57
17 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTAAAATTTA
Found at i:2106827 original size:13 final size:12
Alignment explanation
Indices: 2106791--2106825 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2106781 AGTGATTATG
2106791 TGGCTGGAAAATA
1 TGGCT-GAAAATA
2106804 TGGCTGAAAATA
1 TGGCTGAAAATA
*
2106816 TGGTTGAAAA
1 TGGCTGAAAA
2106826 ATGATCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.26
Consensus pattern (12 bp):
TGGCTGAAAATA
Found at i:2107306 original size:20 final size:20
Alignment explanation
Indices: 2107283--2107333 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
2107273 ACATTGAAAA
*
2107283 ATGTATCGATATATTTATAC
1 ATGTATCGATATATTCATAC
*
2107303 ATGTATCGATATATTCATAT
1 ATGTATCGATATATTCATAC
2107323 ATGTATCGATA
1 ATGTATCGATA
2107334 CATCTGGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATATATTCATAC
Found at i:2108013 original size:31 final size:29
Alignment explanation
Indices: 2107978--2108048 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
2107968 TATATGTATT
2107978 TTTATATTTAA-AATATTATTTATTATATAAA
1 TTTATATTTAATAAT-TTA--TATTATATAAA
*
2108009 TTTATTATATTAATAATTTATATTTTATAAA
1 TTTA-TAT-TTAATAATTTATATTATATAAA
2108040 TTTATATTT
1 TTTATATTT
2108049 TTTATTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 2 0.06
30 3 0.08
31 18 0.50
32 3 0.08
33 7 0.19
34 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTATATTTAATAATTTATATTATATAAA
Found at i:2108053 original size:17 final size:15
Alignment explanation
Indices: 2107998--2108049 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
2107988 AAATATTATT
*
2107998 TATTATATAAATTTA
1 TATTTTATAAATTTA
*
2108013 TTATATTA-ATAATTTA
1 -TATTTTATA-AATTTA
2108029 TATTTTATAAATTTA
1 TATTTTATAAATTTA
2108044 TATTTT
1 TATTTT
2108050 TTATTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATAAATTTA
Found at i:2108103 original size:6 final size:6
Alignment explanation
Indices: 2108069--2108124 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
2108059 TATAACTTTT
* * * *
2108069 TATTTA TATTTT TAATTA T-TTTT TATTTA TATTTA TATTATA TATTTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATT-TA TATTTA
2108117 TA-TTA TAT
1 TATTTA TAT
2108125 ACAAAGTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 7 0.18
6 26 0.67
7 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TATTTA
Found at i:2108125 original size:13 final size:12
Alignment explanation
Indices: 2108065--2108124 Score: 79
Period size: 12 Copynumber: 5.1 Consensus size: 12
2108055 TTAATATAAC
2108065 TTTTTATTTATA
1 TTTTTATTTATA
*
2108077 TTTTTAATTAT-
1 TTTTTATTTATA
2108088 TTTTTATTTATA
1 TTTTTATTTATA
*
2108100 TTTATATTATATA
1 TTTTTATT-TATA
2108113 TTTTTA-TTATA
1 TTTTTATTTATA
2108124 T
1 T
2108125 ACAAAGTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 15 0.36
12 18 0.43
13 9 0.21
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:2108592 original size:29 final size:29
Alignment explanation
Indices: 2108558--2108621 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2108548 AAAGAAAAAG
*
2108558 TTTTTAAATTATTTTATT-TTTA-AAATAAA
1 TTTTTAAA-T-TTTTATTATATATAAATAAA
*
2108587 TTTTTATATTTTTATTATATATAAATAAA
1 TTTTTAAATTTTTATTATATATAAATAAA
2108616 TTTTTA
1 TTTTTA
2108622 TTTTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 4 0.13
29 20 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTAAATTTTTATTATATATAAATAAA
Found at i:2108986 original size:38 final size:38
Alignment explanation
Indices: 2108942--2109042 Score: 175
Period size: 38 Copynumber: 2.6 Consensus size: 38
2108932 ATTAACTAAA
2108942 TTTTAAAATATATATTTAAAAATTAATTTATTCAAAAT
1 TTTTAAAATATATATTTAAAAATTAATTTATTCAAAAT
* *
2108980 TTTTAAAAAACATATTTAAAAATTAATTTATTCAAAAT
1 TTTTAAAATATATATTTAAAAATTAATTTATTCAAAAT
2109018 TTTTAAAATATATATTTTAAAAATT
1 TTTTAAAATATATA-TTTAAAAATT
2109043 TATCAATAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 48 0.83
39 10 0.17
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (38 bp):
TTTTAAAATATATATTTAAAAATTAATTTATTCAAAAT
Found at i:2109091 original size:16 final size:16
Alignment explanation
Indices: 2109059--2109088 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2109049 TAATAAATAT
2109059 AAATTTATAAAATTTA
1 AAATTTATAAAATTTA
2109075 AAATTTA-AAAATTT
1 AAATTTATAAAATTT
2109089 TAATCATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTTATAAAATTTA
Found at i:2109593 original size:26 final size:26
Alignment explanation
Indices: 2109564--2109614 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
2109554 TTTTAATTCG
2109564 CCTTGGTTTTGATCTGGGTTTTTCTA
1 CCTTGGTTTTGATCTGGGTTTTTCTA
2109590 CCTTGGTTTTGATCTGGGTTTTTCT
1 CCTTGGTTTTGATCTGGGTTTTTCT
2109615 TTTTATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.06, C:0.16, G:0.24, T:0.55
Consensus pattern (26 bp):
CCTTGGTTTTGATCTGGGTTTTTCTA
Found at i:2112276 original size:26 final size:27
Alignment explanation
Indices: 2112246--2112300 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
2112236 ATTTTAGATT
2112246 AAATTAATTTAAAATTTAAA-ATTTTA
1 AAATTAATTTAAAATTTAAATATTTTA
* * *
2112272 AAATTATTTTTAAGTTTAAATTATTTTA
1 AAATTAATTTAAAATTTAAA-TATTTTA
2112300 A
1 A
2112301 GTTCGGATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
28 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
AAATTAATTTAAAATTTAAATATTTTA
Done.