Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 362 of 444
Found at i:105273021 original size:43 final size:45
Alignment explanation
Indices: 105272974--105273057 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
105272964 ATTTTTTATC
*
105272974 TTTATTTTTAAGAATTTAATATT-TT-ATTTTTT-AAATTTTCAAA
1 TTTATGTTTAAGAA-TTAATATTATTAATTTTTTAAAATTTTCAAA
**
105273017 TTTATGTTTAATTATTAATATTATTAATTTTTTAAAATTTT
1 TTTATGTTTAAGAATTAATATTATTAATTTTTTAAAATTTT
105273058 TTAATGTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 8 0.23
43 13 0.37
44 7 0.20
45 7 0.20
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (45 bp):
TTTATGTTTAAGAATTAATATTATTAATTTTTTAAAATTTTCAAA
Found at i:105284858 original size:29 final size:29
Alignment explanation
Indices: 105284826--105284882 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
105284816 GGATTTTTAA
*
105284826 AAAACTTAAATTTAAAACTAAAATTAAAG
1 AAAACTTAAATTCAAAACTAAAATTAAAG
*
105284855 AAAACTTAAATTCAAAACTAAATTTAAA
1 AAAACTTAAATTCAAAACTAAAATTAAA
105284883 ACTTAGCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAACTTAAATTCAAAACTAAAATTAAAG
Found at i:105287858 original size:14 final size:14
Alignment explanation
Indices: 105287839--105287865 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105287829 ACCCCAATAA
105287839 CAGATACAGATATT
1 CAGATACAGATATT
105287853 CAGATACAGATAT
1 CAGATACAGATAT
105287866 GACAAATTAA
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:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
CAGATACAGATATT
Found at i:105289767 original size:40 final size:40
Alignment explanation
Indices: 105289702--105289909 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
105289692 TCTTCGGAAT
* ** *
105289702 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
105289741 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
105289781 TTAGCCCAGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
105289821 TTAGCCCGGATATAACAACTCGCACCAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
105289861 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTTGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
105289901 TTAGCCCGG
1 TTAGCCCGG
105289910 GTATCATTCA
Statistics
Matches: 149, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 145 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:105291978 original size:12 final size:12
Alignment explanation
Indices: 105291961--105291988 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
105291951 ACCTAGGGAA
105291961 GATGAAACCTAT
1 GATGAAACCTAT
105291973 GATGAAACCTAT
1 GATGAAACCTAT
105291985 GATG
1 GATG
105291989 GATCATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (12 bp):
GATGAAACCTAT
Found at i:105296016 original size:3 final size:3
Alignment explanation
Indices: 105296008--105296068 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
105295998 CTATTTACTC
105296008 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105296056 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
105296069 TCTTTGTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:105296120 original size:13 final size:14
Alignment explanation
Indices: 105296013--105296123 Score: 50
Period size: 15 Copynumber: 7.9 Consensus size: 14
105296003 TACTCTATTA
* *
105296013 TTATTATTATTATTA
1 TTATTTTTATTA-TC
* *
105296028 TTATTATTATTATTA
1 TTATTTTTATTA-TC
* *
105296043 TTATTATTATTATTA
1 TTATTTTTATTA-TC
*
105296058 TTATTATTATT-TC
1 TTATTTTTATTATC
* *
105296071 TT-TGTTTATT-CC
1 TTATTTTTATTATC
*
105296083 TTTATTTCATATTATC
1 -TTATTT-TTATTATC
105296099 TTATTTTTATTAT-
1 TTATTTTTATTATC
*
105296112 TTCTTTTTATTA
1 TTATTTTTATTA
105296124 CTTTACTTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
12 7 0.08
13 16 0.19
14 8 0.10
15 51 0.61
16 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (14 bp):
TTATTTTTATTATC
Found at i:105297685 original size:7 final size:6
Alignment explanation
Indices: 105297653--105297721 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
105297643 ATTGAGTCCA
* * *
105297653 TTTATT TTTCTT TTCT-TT TTTCTT TTTAGTT TTTATT TTTCTT TTTATT
1 TTTATT TTTATT TT-TATT TTTATT TTTA-TT TTTATT TTTATT TTTATT
* * *
105297702 TTTCTG TTTATT TGTATT TT
1 TTTATT TTTATT TTTATT TT
105297722 CCTAGAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
5 1 0.02
6 42 0.84
7 7 0.14
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:105297685 original size:19 final size:20
Alignment explanation
Indices: 105297663--105297706 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
105297653 TTTATTTTTC
105297663 TTTTCT-TTTTTCTTTTTAG
1 TTTTCTATTTTTCTTTTTAG
*
105297682 TTTT-TATTTTTCTTTTTAT
1 TTTTCTATTTTTCTTTTTAG
105297701 TTTTCT
1 TTTTCT
105297707 GTTTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTCTATTTTTCTTTTTAG
Found at i:105297691 original size:31 final size:30
Alignment explanation
Indices: 105297653--105297721 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
105297643 ATTGAGTCCA
*
105297653 TTTATTTTTCTTTTCT-TTTTTCTTTTTAGTT
1 TTTATTTTTCTTTT-TATTTTTCTGTTTA-TT
105297684 TTTATTTTTCTTTTTATTTTTCTGTTTATT
1 TTTATTTTTCTTTTTATTTTTCTGTTTATT
*
105297714 TGTATTTT
1 TTTATTTT
105297722 CCTAGAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (30 bp):
TTTATTTTTCTTTTTATTTTTCTGTTTATT
Found at i:105300684 original size:17 final size:17
Alignment explanation
Indices: 105300662--105300695 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105300652 ACACAAACTG
105300662 AAACTAACGCAAAAACA
1 AAACTAACGCAAAAACA
* *
105300679 AAACTATCTCAAAAACA
1 AAACTAACGCAAAAACA
105300696 CACCAAAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.24, G:0.03, T:0.12
Consensus pattern (17 bp):
AAACTAACGCAAAAACA
Found at i:105304566 original size:146 final size:146
Alignment explanation
Indices: 105304298--105304590 Score: 428
Period size: 146 Copynumber: 2.0 Consensus size: 146
105304288 CTCAACCAAC
105304298 CAGTCTATTCCCAGAATTAAATCAAACTCCCCAAACGGAAGCTCCATCAAATTTGCCAGAAAGAC
1 CAGTCTATTCCCAGAATTAAATCAAACTCCCCAAACGGAAGCTCCATCAAATTTGCCAGAAAGAC
* * *
105304363 AGCCTCTTGTACCACTAACTAGACATCCCTATAAAGTTTACTAACCCGAACAAACTGCCCCAATG
66 ACCCTCTTATACCACTAACTAGACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAATG
105304428 GACTTAGTACAATAAT
131 GACTTAGTACAATAAT
** * * * *
105304444 CAGTCTATTCCCAGAATTAAATTGAACTCCCTAAATGGAAGCTCTATCAGATTTGCCAGAAAGAC
1 CAGTCTATTCCCAGAATTAAATCAAACTCCCCAAACGGAAGCTCCATCAAATTTGCCAGAAAGAC
* * *
105304509 AACCCT-TTATACCACTAA-TAGGACATTCCTATAGAGTTTACTAACCCAAACAGACTGCCCCAA
66 -ACCCTCTTATACCACTAACTA-GACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAA
* *
105304572 TGGGCTTAGTACAGTAAT
129 TGGACTTAGTACAATAAT
105304590 C
1 C
105304591 TCACTAGAAG
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
145 2 0.02
146 125 0.95
147 4 0.03
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (146 bp):
CAGTCTATTCCCAGAATTAAATCAAACTCCCCAAACGGAAGCTCCATCAAATTTGCCAGAAAGAC
ACCCTCTTATACCACTAACTAGACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAATG
GACTTAGTACAATAAT
Found at i:105308858 original size:124 final size:122
Alignment explanation
Indices: 105308638--105308859 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 122
105308628 GAATTATGTG
* * * *
105308638 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
105308703 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
105308760 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
105308824 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
105308860 TCCGGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 16 0.19
124 65 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:105308903 original size:40 final size:40
Alignment explanation
Indices: 105308818--105308968 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
105308808 AATTGAATGA
* * * *
105308818 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
105308858 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
105308899 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
105308938 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
105308969 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:105308982 original size:40 final size:40
Alignment explanation
Indices: 105308855--105308984 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
105308845 ATGCTGGAAA
* * *
105308855 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
105308895 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
105308935 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
105308975 TTATATCCGG
1 TTATATCCGG
105308985 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:105308983 original size:80 final size:80
Alignment explanation
Indices: 105308817--105308984 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
105308807 AAATTGAATG
* *
105308817 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
105308882 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
105308897 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
105308960 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
105308977 ATATCCGG
1 ATATCCGG
105308985 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:105314495 original size:27 final size:25
Alignment explanation
Indices: 105314465--105314523 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
105314455 TTAAGGAACC
*
105314465 TTAGTGCGCTCTCTGATTTTTAACACG
1 TTAGTGC-C-CTCTGATTATTAACACG
* *
105314492 TTAGTACCCTCTGATTATTAGCACG
1 TTAGTGCCCTCTGATTATTAACACG
105314517 TTAGTGC
1 TTAGTGC
105314524 TCATTGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.75
26 1 0.04
27 6 0.21
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (25 bp):
TTAGTGCCCTCTGATTATTAACACG
Found at i:105320327 original size:53 final size:52
Alignment explanation
Indices: 105320155--105320407 Score: 239
Period size: 53 Copynumber: 4.8 Consensus size: 52
105320145 GACATTAGGG
*
105320155 AGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAA
1 AGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCTAAGGAA
* * *
105320210 AGGATACCATGTAAGA-CATGTCAAGACATTGCATTGATAAGTTACTATAAGGAAA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C--TAAGG-AA
* * * *
105320265 ATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGG-AA
* * * *
105320318 A-GATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-TCA--AA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGAA
* * * *
105320366 AGGATACCATGTAAGACCATGACAAGTCAAGGCAATGGTAAG
1 AGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
105320408 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
48 3 0.02
49 36 0.21
51 4 0.02
52 3 0.02
53 50 0.30
54 30 0.18
55 42 0.25
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
AGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGAA
Found at i:105321996 original size:48 final size:48
Alignment explanation
Indices: 105321851--105321996 Score: 151
Period size: 44 Copynumber: 3.1 Consensus size: 48
105321841 GTGTTACATT
*
105321851 CATATATCGAGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
1 CATATCTC-AGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
* * * ***
105321900 CA-A---CAAGCTGATGCCATGTCCTAGACAGGT-TTACACTAGCTTG
1 CATATCTCAGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
* *
105321943 TATATCTCTAGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCACA
1 CATATCTC-AGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
105321991 CATATC
1 CATATC
105321997 ACCTAATGTC
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
43 11 0.14
44 24 0.32
45 1 0.01
47 15 0.20
48 23 0.30
49 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
CATATCTCAGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
Found at i:105322603 original size:20 final size:20
Alignment explanation
Indices: 105322578--105322616 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
105322568 AAAATTTCAA
105322578 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
105322598 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
105322617 AATAGCCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:105323642 original size:25 final size:25
Alignment explanation
Indices: 105323613--105323664 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
105323603 ACAAGCATAC
105323613 ATAGTCATACTTTCCATAAGTTTGG
1 ATAGTCATACTTTCCATAAGTTTGG
105323638 ATAGTCATACTTTCCATAAGTTTGG
1 ATAGTCATACTTTCCATAAGTTTGG
105323663 AT
1 AT
105323665 GAGTTTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (25 bp):
ATAGTCATACTTTCCATAAGTTTGG
Found at i:105327731 original size:40 final size:40
Alignment explanation
Indices: 105327545--105327767 Score: 287
Period size: 39 Copynumber: 5.7 Consensus size: 40
105327535 TCGAATGATG
* * *
105327545 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
105327585 TCCGGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
105327624 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
105327663 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
105327702 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
105327743 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
105327768 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 95 0.58
40 65 0.40
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:105327798 original size:79 final size:79
Alignment explanation
Indices: 105327545--105327800 Score: 227
Period size: 79 Copynumber: 3.3 Consensus size: 79
105327535 TCGAATGATG
* * * * * **
105327545 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGATCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAATA-CCGGGCTAAGCCCGAAGGCATT
* ** *
105327608 TGTGCGAGTTACTAAT
64 GGAACGAGTTACTAAA
* * * *
105327624 TCCAGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
**
105327688 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
* *
105327702 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
* *
105327766 TGAACGAG-TAGCTATA
64 GGAACGAGTTA-CTAAA
*
105327782 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
105327801 TACGTGATTC
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
78 57 0.39
79 67 0.45
80 24 0.16
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
AACGAGTTACTAAA
Found at i:105336015 original size:29 final size:29
Alignment explanation
Indices: 105335982--105336053 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
105335972 GACGAGATTG
*
105335982 GCACTAAGTGTGC-ATGCTGGAA-ATATATA
1 GCACTAAGTGTGCGA-G-TGGAATACATATA
*
105336011 GCACTAAGTGTGCGAGTTGAATACATATA
1 GCACTAAGTGTGCGAGTGGAATACATATA
105336040 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
105336054 GATTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 4 0.10
29 34 0.87
30 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTGGAATACATATA
Found at i:105338836 original size:39 final size:40
Alignment explanation
Indices: 105338735--105338956 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
105338725 GAATGATGTT
* *
105338735 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TC
* *
105338775 CGGACTAAGAT-CGGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTC
*
105338815 CGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
105338854 CGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
105338893 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
105338933 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
105338957 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 71 0.45
40 77 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:105338909 original size:79 final size:80
Alignment explanation
Indices: 105338735--105338963 Score: 295
Period size: 79 Copynumber: 2.9 Consensus size: 80
105338725 GAATGATGTT
* * * *
105338735 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCGGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTG
* *
105338799 TGCGAGTTACTAATTC
65 TACGAGTTACTAAATC
*
105338815 CGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATTTG
105338877 TACGAGTTACTAAATC
65 TACGAGTTACTAAATC
* * * * * *
105338893 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGT
105338958 ACGAGT
66 ACGAGT
105338964 AGCTATATCC
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
78 34 0.26
79 61 0.47
80 36 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGT
ACGAGTTACTAAATC
Found at i:105338978 original size:79 final size:79
Alignment explanation
Indices: 105338735--105338989 Score: 281
Period size: 79 Copynumber: 3.2 Consensus size: 79
105338725 GAATGATGTT
* * * *
105338735 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CGGAAGGCATTT
1 CGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTT
*
105338798 GTGCGAGTTACTAATTC
64 GTACGAGTTACTAA-TC
* *
105338815 CGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGG
1 CGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTG
105338877 TACGAGTTACTAAATC
65 TACGAGTTACT-AATC
* * * *
105338893 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGA
1 CGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
105338958 ACGAG-TAGCTATATC
66 ACGAGTTA-CTA-ATC
* *
105338973 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
105338990 TACGTGATTC
Statistics
Matches: 153, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
78 32 0.21
79 80 0.52
80 41 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
ACGAGTTACTAATC
Found at i:105343632 original size:49 final size:49
Alignment explanation
Indices: 105343558--105343808 Score: 466
Period size: 49 Copynumber: 5.1 Consensus size: 49
105343548 GTACATAATA
105343558 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
*
105343607 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
105343656 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
*
105343705 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
* *
105343754 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
105343803 ATATAT
1 ATATAT
105343809 ATGTGGTAAA
Statistics
Matches: 197, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 197 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
Found at i:105343932 original size:37 final size:36
Alignment explanation
Indices: 105343882--105343963 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
105343872 AGAAATATGT
105343882 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTACG
1 TCCGGGT-AGACCCGATGACTACGTGTGGAGATTACG
*
105343919 TCCGGGTACGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTA-GACCCGATGACTACGTGTGGAGATTACG
105343956 TCCGGGTA
1 TCCGGGTA
105343964 AGACTTCGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (36 bp):
TCCGGGTAGACCCGATGACTACGTGTGGAGATTACG
Found at i:105345458 original size:21 final size:21
Alignment explanation
Indices: 105345415--105345458 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
105345405 ACACACTCAG
*
105345415 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
*
105345436 CTTAATTGATCTAATT-ATAAA
1 CTTAATTGAGCT-ATTAATAAA
105345457 CT
1 CT
105345459 AAAAGACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:105356664 original size:13 final size:13
Alignment explanation
Indices: 105356646--105356674 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
105356636 TTTAGTTTAA
105356646 TTAGTTAATTAGT
1 TTAGTTAATTAGT
105356659 TTAGTTAATTAGT
1 TTAGTTAATTAGT
105356672 TTA
1 TTA
105356675 ATAAATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:105362742 original size:29 final size:30
Alignment explanation
Indices: 105362680--105362814 Score: 171
Period size: 29 Copynumber: 4.7 Consensus size: 30
105362670 TACATACATG
105362680 CATATGGCCCA-CTAGGCCCAATCTCACTT
1 CATATGGCCCATCTAGGCCCAATCTCACTT
105362709 -ATATGGCCCATCTA-GCCCAAT-TCACGTT
1 CATATGGCCCATCTAGGCCCAATCTCAC-TT
105362737 CATATGGCCCATC-AGGCCCAAT-TCACATT
1 CATATGGCCCATCTAGGCCCAATCTCAC-TT
105362766 CATATGGCCCAT-TAGGCCCAATCTCA-TT
1 CATATGGCCCATCTAGGCCCAATCTCACTT
* *
105362794 TATATGGCCCATC-CGGCCCAA
1 CATATGGCCCATCTAGGCCCAA
105362815 ATCACATTAT
Statistics
Matches: 96, Mismatches: 3, Indels: 15
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.04
28 40 0.42
29 49 0.51
30 3 0.03
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATCTCACTT
Found at i:105362799 original size:57 final size:56
Alignment explanation
Indices: 105362680--105362826 Score: 185
Period size: 57 Copynumber: 2.6 Consensus size: 56
105362670 TACATACATG
105362680 CATATGGCCCA-CTAGGCCCAATCTCAC-TTATATGGCCCATCTAGCCCAATTCACGTT
1 CATATGGCCCATC-AGGCCCAAT-TCACATTATATGGCCCATCTAGCCCAATTCAC-TT
105362737 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCAATCTCA-TT
1 CATATGGCCCATCAGGCCCAATTCACATT-ATATGGCCCATCTA-GCCCAAT-TCACTT
* * *
105362794 TATATGGCCCATCCGGCCCAAATCACATTATAT
1 CATATGGCCCATCAGGCCCAATTCACATTATAT
105362827 TCATGCTCAC
Statistics
Matches: 82, Mismatches: 3, Indels: 11
0.85 0.03 0.11
Matches are distributed among these distances:
56 8 0.10
57 52 0.63
58 19 0.23
59 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (56 bp):
CATATGGCCCATCAGGCCCAATTCACATTATATGGCCCATCTAGCCCAATTCACTT
Found at i:105363059 original size:16 final size:16
Alignment explanation
Indices: 105363038--105363082 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
105363028 GCAGCCAAAC
105363038 TTTTGGCTTTTCGACA
1 TTTTGGCTTTTCGACA
* * *
105363054 TTTTGGATTTTTGGCA
1 TTTTGGCTTTTCGACA
*
105363070 TTTTAGCTTTTCG
1 TTTTGGCTTTTCG
105363083 GCTTTTGTCG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGACA
Found at i:105367184 original size:24 final size:24
Alignment explanation
Indices: 105367118--105367177 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
105367108 CTGCCAGGAG
105367118 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
105367142 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
105367166 AGGATTTAGGAG
1 AGGATTTAGGAG
105367178 CAGATAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:105368648 original size:27 final size:27
Alignment explanation
Indices: 105368608--105368695 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
105368598 AGGAAGCGTC
* *
105368608 CTGGTGGCTATGCCACAATTACCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
105368635 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
105368662 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
105368690 CTGGTG
1 CTGGTG
105368696 ACTGTCACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.06
27 40 0.75
28 10 0.19
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:105370962 original size:40 final size:40
Alignment explanation
Indices: 105370898--105371121 Score: 315
Period size: 40 Copynumber: 5.6 Consensus size: 40
105370888 TATTCGAATG
* *
105370898 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * * * *
105370938 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGACT
*
105370978 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
105371018 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
105371058 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
105371098 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
105371122 CTTGTGCAAG
Statistics
Matches: 161, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 159 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:105371031 original size:80 final size:79
Alignment explanation
Indices: 105370898--105371157 Score: 328
Period size: 80 Copynumber: 3.3 Consensus size: 79
105370888 TATTCGAATG
* * * *
105370898 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGATTATAACCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
* *
105370963 TTCGTGCGAGTTGCT
66 TT-GTGCAAGTAGCT
105370978 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
* *
105371043 TTTGTGCTAG-CGACT
66 -TTGTGCAAGTAG-CT
* * * ** *
105371058 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
*
105371123 TTGTGCAAGTAGTT
66 TTGTGCAAGTAGCT
105371137 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
105371158 ATTACTTGAG
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
78 13 0.08
79 16 0.10
80 129 0.81
81 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
TTGTGCAAGTAGCT
Found at i:105374640 original size:69 final size:69
Alignment explanation
Indices: 105374511--105374641 Score: 208
Period size: 69 Copynumber: 1.9 Consensus size: 69
105374501 AGAAGTTGGA
* * *
105374511 CTCGGCAAACCGGTGATCTCAGAGTTTTAAAAGAGCTTGGTTTGGATTAAATGATTTTTCTTAAA
1 CTCGACAAACCGGTGATCTCAGAGTTTTAAAAGAGCTTGGTTTGGATTAAACGATGTTTCTTAAA
105374576 ATTT
66 ATTT
* * *
105374580 CTCGACAAATCGGTGATCTCAGAGTTTTAAAATAGTTTGGTTTGGATTAAACGATGTTTCTT
1 CTCGACAAACCGGTGATCTCAGAGTTTTAAAAGAGCTTGGTTTGGATTAAACGATGTTTCTT
105374642 TAATTTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (69 bp):
CTCGACAAACCGGTGATCTCAGAGTTTTAAAAGAGCTTGGTTTGGATTAAACGATGTTTCTTAAA
ATTT
Found at i:105377970 original size:50 final size:50
Alignment explanation
Indices: 105377905--105378286 Score: 390
Period size: 50 Copynumber: 7.6 Consensus size: 50
105377895 TCCGTTGTGA
* **
105377905 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * * * * * *
105377955 GTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
105378006 ATCACATGTGTAGCACTAAGTGCAGGCTACTACGTATATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
105378056 GTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
105378106 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
105378157 ATCACATGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** *
105378207 GTCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
105378257 GTCGCATGTGTAGTACTAAGTGCAGGCTAC
1 GTCACATGTGTAGTACTAAGTGCAGGCTAC
105378287 CATGCGTACT
Statistics
Matches: 259, Mismatches: 67, Indels: 12
0.77 0.20 0.04
Matches are distributed among these distances:
49 6 0.02
50 180 0.69
51 71 0.27
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:105378086 original size:101 final size:100
Alignment explanation
Indices: 105377906--105378295 Score: 304
Period size: 101 Copynumber: 3.9 Consensus size: 100
105377896 CCGTTGTGAG
* * * **
105377906 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
105377971 TAAGTGCAAGCTACTATGCGTACCCG-TTAACTTTGA
66 TAAGTGCAAGCTACTACGCGTACCAGATTAA--TAGA
* * * * *
105378007 TCACATGTGTAGCACTAAGTGCAGGCTACTACGTA-TATCAGATGGTTAAGTCACGTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTAC-AAGTACCAGATGGATAAGTCACATGTGTAGTA
* * * *
105378071 CTAAGTGCATGCTACTACGTGTACCAGATTGATAGG
65 CTAAGTGCAAGCTACTACGCGTACCAGATTAATAGA
* *** * ** **
105378107 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGATCACATGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATGGA-TAAG-TCACATGTGTAGT
* * * * *
105378171 ACTAAATGCAGGCTACTACGTGTATCAGATGGTTA-AG-
64 ACTAAGTGCAAGCTACTACGCGTACCAGAT--TAATAGA
** * ** * * *
105378208 TCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
105378273 TAAGTGCAGGCTACCATGCGTAC
66 TAAGTGCAAGCTACTACGCGTAC
105378296 TAGAGAGCTT
Statistics
Matches: 231, Mismatches: 50, Indels: 17
0.78 0.17 0.06
Matches are distributed among these distances:
99 1 0.00
100 69 0.30
101 150 0.65
102 9 0.04
103 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTACGCGTACCAGATTAATAGA
Found at i:105378181 original size:151 final size:151
Alignment explanation
Indices: 105377904--105378295 Score: 685
Period size: 151 Copynumber: 2.6 Consensus size: 151
105377894 ATCCGTTGTG
** *
105377904 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAGGTTGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
105377969 ACTAAGTGCAAGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGCACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGCACTAAATGCAGGCT
105378034 ACTACGTATATCAGATGGTTA
131 ACTACGTATATCAGATGGTTA
*
105378055 AGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
105378120 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGTACTAAATGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGCACTAAATGCAGGCT
*
105378185 ACTACGTGTATCAGATGGTTA
131 ACTACGTATATCAGATGGTTA
* *
105378206 AGTCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
105378271 ACTAAGTGCAGGCTACCATGCGTAC
66 ACTAAGTGCAGGCTACTATGCGTAC
105378296 TAGAGAGCTT
Statistics
Matches: 229, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 229 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGCACTAAATGCAGGCT
ACTACGTATATCAGATGGTTA
Found at i:105385430 original size:13 final size:12
Alignment explanation
Indices: 105385405--105385461 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 12
105385395 ATTTATTTAT
105385405 TTATTTTCAATTA
1 TTATTTTC-ATTA
105385418 TTATTCTTCATTA
1 TTATT-TTCATTA
* *
105385431 TTATTTTTATTG
1 TTATTTTCATTA
105385443 TTATTATTCATTA
1 TTATT-TTCATTA
105385456 -TATTTT
1 TTATTTT
105385462 TTATTAAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 2 0.05
12 14 0.37
13 19 0.50
14 3 0.08
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTTTCATTA
Found at i:105385440 original size:22 final size:22
Alignment explanation
Indices: 105385415--105385467 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
105385405 TTATTTTCAA
*
105385415 TTATTATTCTTCATTATTATTTTT
1 TTATTATTATTCATTA-TA-TTTT
*
105385439 ATTGTTATTATTCATTATATTTT
1 -TTATTATTATTCATTATATTTT
105385462 TTATTA
1 TTATTA
105385468 AGTAGTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 2 0.08
25 14 0.56
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (22 bp):
TTATTATTATTCATTATATTTT
Found at i:105387149 original size:26 final size:26
Alignment explanation
Indices: 105387102--105387163 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 26
105387092 TCTGAGTCCA
* *** *
105387102 TTTATTTTATTTCTTTTTATTTTTAT
1 TTTATTTTTTTTCTTAAGATTTATAT
*
105387128 TTTATTTTTTTTCTTAAGATTTATGT
1 TTTATTTTTTTTCTTAAGATTTATAT
*
105387154 TTTATATTTT
1 TTTATTTTTT
105387164 GAACTATGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTATTTTTTTTCTTAAGATTTATAT
Found at i:105396579 original size:43 final size:43
Alignment explanation
Indices: 105396439--105396602 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
105396429 ATCAAGATGA
* * *
105396439 GATTACATGTAAGACCATGTCTGGGCCATTGGCATTG-TATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATA-TAT
* * *
105396482 GTTTACATGTAAGAACATGTCAGGGACATTGGCATC-ATTATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGA-TATAT
* * * *
105396525 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATAT
* * *
105396568 GATAACATGTAAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGT-AAGACCATGTCTGGGACATTGGCAT
105396603 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
43 80 0.82
44 17 0.18
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATAT
Found at i:105401971 original size:15 final size:15
Alignment explanation
Indices: 105401953--105401982 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
105401943 AACTAGGAAG
105401953 TTAGTGAAAATGATC
1 TTAGTGAAAATGATC
105401968 TTAGTGAAAATGATC
1 TTAGTGAAAATGATC
105401983 AGTTCAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
TTAGTGAAAATGATC
Found at i:105405860 original size:2 final size:2
Alignment explanation
Indices: 105405853--105405881 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105405843 GTTTGATAAT
105405853 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 T
105405882 GTATGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105406418 original size:28 final size:28
Alignment explanation
Indices: 105406407--105406482 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
105406397 AATTTCTAAT
*
105406407 TTTAGATTTTCAATCTTCAAATTTAAAA
1 TTTAAATTTTCAATCTTCAAATTTAAAA
105406435 TTTAAATTTTCAATCTTCAAATTTAAAA
1 TTTAAATTTTCAATCTTCAAATTTAAAA
*
105406463 TTTAAATTTTCAATTTTCAA
1 TTTAAATTTTCAATCTTCAA
105406483 TTTTCAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTAAATTTTCAATCTTCAAATTTAAAA
Found at i:105406425 original size:7 final size:7
Alignment explanation
Indices: 105406381--105406527 Score: 111
Period size: 7 Copynumber: 21.1 Consensus size: 7
105406371 TTCTCAATCC
*
105406381 TCAATCT
1 TCAATTT
**
105406388 TCAATCC
1 TCAATTT
105406395 TCAA-TT
1 TCAATTT
105406401 TCTAATTT
1 TC-AATTT
105406409 T-AGATTT
1 TCA-ATTT
*
105406416 TCAATCT
1 TCAATTT
*
105406423 TCAAATT
1 TCAATTT
* *
105406430 TAAAATT
1 TCAATTT
*
105406437 TAAATTT
1 TCAATTT
*
105406444 TCAATCT
1 TCAATTT
*
105406451 TCAAATT
1 TCAATTT
* *
105406458 TAAAATT
1 TCAATTT
*
105406465 TAAATTT
1 TCAATTT
105406472 TCAATTT
1 TCAATTT
105406479 TCAATTT
1 TCAATTT
105406486 TCAATTT
1 TCAATTT
105406493 TCAA-TT
1 TCAATTT
105406499 TCAATTT
1 TCAATTT
*
105406506 TGAATTT
1 TCAATTT
**
105406513 TCAATCC
1 TCAATTT
105406520 TCAATTT
1 TCAATTT
105406527 T
1 T
105406528 TTAACTTTTT
Statistics
Matches: 114, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
6 9 0.08
7 101 0.89
8 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.01, T:0.50
Consensus pattern (7 bp):
TCAATTT
Found at i:105406523 original size:27 final size:27
Alignment explanation
Indices: 105406470--105406526 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
105406460 AAATTTAAAT
**
105406470 TTTCAATTTTCAATTTTCAATTTTCAA
1 TTTCAATTTTCAATTTTCAATCCTCAA
*
105406497 TTTCAATTTTGAATTTTCAATCCTCAA
1 TTTCAATTTTCAATTTTCAATCCTCAA
105406524 TTT
1 TTT
105406527 TTTAACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.54
Consensus pattern (27 bp):
TTTCAATTTTCAATTTTCAATCCTCAA
Found at i:105415666 original size:2 final size:2
Alignment explanation
Indices: 105415659--105415698 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
105415649 ATTTCAATGA
105415659 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
105415699 GTTAATTTTA
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:105420968 original size:3 final size:3
Alignment explanation
Indices: 105420960--105421126 Score: 246
Period size: 3 Copynumber: 55.3 Consensus size: 3
105420950 AAACTGTTAG
105420960 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * * * *
105421008 ATT ATT ATT ATT ATT ATT ATT AAGC AAT AGAT ACT GTT A-G ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT A-TT ATT ATT ATT ATT ATT
105421054 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
105421102 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
105421127 AGGACTTAAT
Statistics
Matches: 151, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
2 1 0.01
3 146 0.97
4 4 0.03
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:105422667 original size:12 final size:12
Alignment explanation
Indices: 105422650--105422680 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
105422640 TGTATGTAAG
105422650 TATTGTTGTTGT
1 TATTGTTGTTGT
105422662 TATTGTTGTTGT
1 TATTGTTGTTGT
*
105422674 TGTTGTT
1 TATTGTT
105422681 TTTTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (12 bp):
TATTGTTGTTGT
Found at i:105431172 original size:33 final size:32
Alignment explanation
Indices: 105431135--105431207 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
105431125 TAATATTTTT
** *
105431135 ATTTTTTAAAAATTTATTTTTATATATTTTAGA
1 ATTTTTTAAAAAAATATTTTTAAAT-TTTTAGA
* *
105431168 ATTTTATAAAAAAATATTTTTAAATTTTTTGA
1 ATTTTTTAAAAAAATATTTTTAAATTTTTAGA
*
105431200 ATTATTTA
1 ATTTTTTA
105431208 GACATTATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
32 12 0.36
33 21 0.64
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
ATTTTTTAAAAAAATATTTTTAAATTTTTAGA
Found at i:105431850 original size:3 final size:3
Alignment explanation
Indices: 105431842--105431872 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
105431832 TACATATTTG
105431842 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
105431873 GTTTAGCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:105433171 original size:20 final size:21
Alignment explanation
Indices: 105433129--105433173 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
105433119 CAAAAATCAC
*
105433129 AAAAGAATTCAAAATATTGAT
1 AAAAGAATTCAAAATATTCAT
105433150 AAAA-AATTACAAAAT-TTCAT
1 AAAAGAATT-CAAAATATTCAT
105433170 AAAA
1 AAAA
105433174 TGTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAAGAATTCAAAATATTCAT
Found at i:105433218 original size:19 final size:18
Alignment explanation
Indices: 105433196--105433240 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
105433186 TTATTTTAAA
105433196 ATATAAAAATTTAAAGAAT
1 ATATAAAAATTTAAA-AAT
*
105433215 ATATAAAAAGTTAAAAAT
1 ATATAAAAATTTAAAAAT
105433233 -TA-AAAAAT
1 ATATAAAAAT
105433241 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 2 0.08
18 3 0.12
19 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
ATATAAAAATTTAAAAAT
Found at i:105433229 original size:27 final size:26
Alignment explanation
Indices: 105433199--105433249 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
105433189 TTTTAAAATA
*
105433199 TAAAAATTTAAAGAAT-ATATAAAAAGT
1 TAAAAA-TTAAAAAATAAT-TAAAAAGT
105433226 TAAAAATTAAAAAATAATTAAAAA
1 TAAAAATTAAAAAATAATTAAAAA
105433250 AATAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (26 bp):
TAAAAATTAAAAAATAATTAAAAAGT
Found at i:105436909 original size:9 final size:9
Alignment explanation
Indices: 105436895--105436927 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
105436885 ATTCGAGTTG
105436895 ACTCGAATA
1 ACTCGAATA
*
105436904 ACTCGATTA
1 ACTCGAATA
105436913 ACTCGAATA
1 ACTCGAATA
105436922 ACTCGA
1 ACTCGA
105436928 TTCGTGTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:105436918 original size:18 final size:18
Alignment explanation
Indices: 105436895--105436929 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
105436885 ATTCGAGTTG
105436895 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
105436913 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
105436930 CGTGTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:105438130 original size:2 final size:2
Alignment explanation
Indices: 105438118--105438154 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
105438108 TGCCCAAGTA
105438118 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
105438155 TTTTAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:105438564 original size:28 final size:28
Alignment explanation
Indices: 105438517--105438570 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
105438507 AGCCAATTCA
* * *
105438517 AAGTGAATGTTGGTATCATTTACAGACG
1 AAGTGAATGATGATACCATTTACAGACG
*
105438545 AAGTGAATGATGATACCATTTGCAGA
1 AAGTGAATGATGATACCATTTACAGA
105438571 AATAGTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (28 bp):
AAGTGAATGATGATACCATTTACAGACG
Found at i:105441148 original size:13 final size:12
Alignment explanation
Indices: 105441130--105441160 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
105441120 TTTTTCACAA
105441130 CATTTTGAAAAG
1 CATTTTGAAAAG
105441142 CACTTTTGAAAAG
1 CA-TTTTGAAAAG
105441155 CATTTT
1 CATTTT
105441161 TCAACCGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (12 bp):
CATTTTGAAAAG
Found at i:105453923 original size:26 final size:25
Alignment explanation
Indices: 105453877--105453928 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
105453867 AACAACATGC
105453877 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTA-GGGT
* *
105453903 ATTTCGGT-AATTTATCTCCTAGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGT
105453928 A
1 A
105453929 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:105455438 original size:26 final size:26
Alignment explanation
Indices: 105455407--105455513 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
105455397 TGAAATGCCC
105455407 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
105455433 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
105455459 ATCATGGAATATTTACCT-AATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
105455484 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
105455510 ATCA
1 ATCA
105455514 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 22 0.30
26 51 0.70
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:105455498 original size:51 final size:52
Alignment explanation
Indices: 105455407--105455513 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
105455397 TGAAATGCCC
105455407 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
105455459 ATCATGGAATATTTACCT-AATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
105455510 ATCA
1 ATCA
105455514 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 36 0.68
52 17 0.32
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:105460811 original size:21 final size:20
Alignment explanation
Indices: 105460773--105460815 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
105460763 ATCCCAATCC
105460773 CATGCATCAGATAATAACAA
1 CATGCATCAGATAATAACAA
105460793 CATGCATGCAG-TAAATAACAA
1 CATGCAT-CAGAT-AATAACAA
105460814 CA
1 CA
105460816 GTCAAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.19
Consensus pattern (20 bp):
CATGCATCAGATAATAACAA
Found at i:105460863 original size:24 final size:26
Alignment explanation
Indices: 105460827--105460875 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
105460817 TCAAACATGC
105460827 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
105460852 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
105460876 GTAAAACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:105462390 original size:26 final size:26
Alignment explanation
Indices: 105462359--105462466 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
105462349 TGAAATGCCC
*
105462359 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
105462385 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
105462411 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
105462437 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105462463 ATCA
1 ATCA
105462467 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105467879 original size:54 final size:54
Alignment explanation
Indices: 105467801--105467933 Score: 149
Period size: 54 Copynumber: 2.5 Consensus size: 54
105467791 AAAATCTCTT
* * * * *
105467801 GGTTTGTCAATTTTTTATCGCAACCTCCTACTTATGAGATTTTTAGAATCTTAC
1 GGTTTGTCGATTTATAATCACAACCTCCTACTTATGAGATTTTTAAAATCTTAC
* ** * *
105467855 GGTTTGTCGATTTATGATCACAACCTTTTACTTATGAGATTTTTAAAATTTTAT
1 GGTTTGTCGATTTATAATCACAACCTCCTACTTATGAGATTTTTAAAATCTTAC
* * *
105467909 GGTTTGCCGGTTTACAATCACAACC
1 GGTTTGTCGATTTATAATCACAACC
105467934 AATCACTTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (54 bp):
GGTTTGTCGATTTATAATCACAACCTCCTACTTATGAGATTTTTAAAATCTTAC
Found at i:105467942 original size:54 final size:54
Alignment explanation
Indices: 105467830--105467960 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
105467820 GCAACCTCCT
* * ** ** *
105467830 ACTTATGAGATTTTTAGAATCTTACGGTTTGTCGATTTATGATCACAACCTTTT
1 ACTTATGAGATTTTTAGAATTTTACGGTTTGCCGATTTACAATCACAACCAATC
* * *
105467884 ACTTATGAGATTTTTAAAATTTTATGGTTTGCCGGTTTACAATCACAACCAATC
1 ACTTATGAGATTTTTAGAATTTTACGGTTTGCCGATTTACAATCACAACCAATC
** *
105467938 ACTTAAAAGATTTTCAGAATTTT
1 ACTTATGAGATTTTTAGAATTTT
105467961 GTAGTTGCCG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (54 bp):
ACTTATGAGATTTTTAGAATTTTACGGTTTGCCGATTTACAATCACAACCAATC
Found at i:105468364 original size:24 final size:24
Alignment explanation
Indices: 105468305--105468369 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
105468295 TTATTGTTGC
105468305 ACAAC-CACCATAATTTTCTACTAT
1 ACAACTCA-CATAATTTTCTACTAT
** *
105468329 ACAGTTCACATAATTTTCTACTTT
1 ACAACTCACATAATTTTCTACTAT
105468353 ACAACT-AGCATAATTTT
1 ACAACTCA-CATAATTTT
105468370 ATATTTTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 1 0.03
24 31 0.91
25 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (24 bp):
ACAACTCACATAATTTTCTACTAT
Found at i:105474675 original size:1 final size:1
Alignment explanation
Indices: 105474671--105474704 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
105474661 TTTTTTTTTT
* *
105474671 GGGGGGGGGGGGGGGTGGGGGTGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
105474705 TGTTGGGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.94, T:0.06
Consensus pattern (1 bp):
G
Found at i:105476569 original size:20 final size:22
Alignment explanation
Indices: 105476535--105476578 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
105476525 GCTCAACTCT
105476535 TTTTTTTAATATTAA-AAAATA
1 TTTTTTTAATATTAATAAAATA
*
105476556 TTTTTTTCAT-TTAATAAAATA
1 TTTTTTTAATATTAATAAAATA
105476577 TT
1 TT
105476579 ATTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTTTAATATTAATAAAATA
Found at i:105477310 original size:17 final size:17
Alignment explanation
Indices: 105477274--105477316 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
105477264 CAGAACTTGT
*
105477274 AGACGATGAAGACATGG
1 AGACGATGAAGACATAG
*
105477291 AGACGATGAAGACGTAG
1 AGACGATGAAGACATAG
*
105477308 AGACAATGA
1 AGACGATGA
105477317 TAGCTCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.33, T:0.12
Consensus pattern (17 bp):
AGACGATGAAGACATAG
Found at i:105479147 original size:11 final size:11
Alignment explanation
Indices: 105479133--105479177 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
105479123 AGATAAATAT
105479133 TATTTTATTAA
1 TATTTTATTAA
*
105479144 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
105479157 TATTTTATTAT
1 TATTTTATTAA
105479168 TATTTTATTA
1 TATTTTATTA
105479178 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:105481357 original size:46 final size:46
Alignment explanation
Indices: 105481305--105481531 Score: 309
Period size: 46 Copynumber: 5.0 Consensus size: 46
105481295 AGTGTGCTCT
105481305 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAA
*
105481351 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAA
*
105481397 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGC-AA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAA
* **
105481442 CGTGACATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGC-AA
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAA
* * * * *
105481487 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 C-TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
105481532 TCACGTCAAA
Statistics
Matches: 165, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 42 0.25
46 122 0.74
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAA
Found at i:105481511 original size:91 final size:91
Alignment explanation
Indices: 105481310--105481531 Score: 313
Period size: 91 Copynumber: 2.4 Consensus size: 91
105481300 GCTCTCTGAT
* **
105481310 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAACTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-AACTGACATGAAATGAATAAGACCAT
* *
105481375 GGTTGAAAGATACCATGGCAACCTGAT
65 GGTTGAAAGATACCATGGCAACATGAC
*
105481402 ATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-GAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGACATGAAATGAATAAGACCAT
105481466 GGTTGAAAGATACCATGGCAACATGAC
65 GGTTGAAAGATACCATGGCAACATGAC
* * * *
105481493 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
105481532 TCACGTCAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
90 1 0.01
91 70 0.60
92 46 0.39
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (91 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTGACATGAAATGAATAAGACCATG
GTTGAAAGATACCATGGCAACATGAC
Found at i:105481550 original size:91 final size:91
Alignment explanation
Indices: 105481310--105481558 Score: 254
Period size: 91 Copynumber: 2.7 Consensus size: 91
105481300 GCTCTCTGAT
* * * * * * **
105481310 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAAC-TGATATGAAATGTGTAAGACCA
1 ATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGC-AACGTCACAAGAAA-GAATAAGACCA
* *
105481374 TGGTTGAAAGATACCATGGCAACCTGAT
64 TGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
105481402 ATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAGAATAAGACCATG
1 ATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACGTCACAAGAAAGAATAAGACCATG
105481467 GTTGAAAGATACCATGGCAACATGAC
66 GTTGAAAGATACCATGGCAACATGAC
* * *
105481493 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCACGTCA-AAGATA-AATAAGACT
1 ATG-AAATGAGTAAGACCATAGTTGAAAGACACCATGGCA--ACGTCACAAGAAAGAATAAGACC
105481555 ATGG
63 ATGG
105481559 ATGGGAGACG
Statistics
Matches: 138, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.01
91 82 0.59
92 50 0.36
93 5 0.04
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (91 bp):
ATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACGTCACAAGAAAGAATAAGACCATG
GTTGAAAGATACCATGGCAACATGAC
Found at i:105486301 original size:60 final size:60
Alignment explanation
Indices: 105486228--105486346 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
105486218 ATACTAAACT
* *** * *
105486228 AAACACAACAATTTATAGTTTAATCCTAAATTACTAATAAATTGATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
105486288 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
105486347 TAAAAAACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:105486564 original size:17 final size:17
Alignment explanation
Indices: 105486537--105486584 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
105486527 TTATTTATTG
105486537 TTTCT-TCTTCTTCTTC
1 TTTCTCTCTTCTTCTTC
*
105486553 -TTCTGCTCTTCTTCTCC
1 TTTCT-CTCTTCTTCTTC
105486570 TTTCTCTCTT-TTCTT
1 TTTCTCTCTTCTTCTT
105486585 TCTCTCTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 15 0.56
18 4 0.15
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTCTCTCTTCTTCTTC
Found at i:105486582 original size:9 final size:10
Alignment explanation
Indices: 105486539--105486593 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
105486529 ATTTATTGTT
105486539 TCTTCTTCT-
1 TCTTCTTCTC
105486548 TCTTCTTCTGC
1 TCTTCTTCT-C
105486559 TCTTCTTCTC
1 TCTTCTTCTC
105486569 -CTT-TCTCTC
1 TCTTCT-TCTC
*
105486578 TTTTCTTTCTC
1 TCTTC-TTCTC
105486589 TCTTC
1 TCTTC
105486594 GAGTGGGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 1 0.03
9 16 0.42
10 3 0.08
11 17 0.45
12 1 0.03
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (10 bp):
TCTTCTTCTC
Found at i:105486935 original size:26 final size:25
Alignment explanation
Indices: 105486865--105486939 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 25
105486855 TAATAAATTT
*
105486865 AAATATTTTTAATA-AAAATAAAAAAT
1 AAATA-TTTTAATATAAAA-AAAAAAA
* *
105486891 TAATATTTTAAAATTTAAAAAAACAAAA
1 AAATATTTT--AATATAAAAAAA-AAAA
105486919 AAATATTTTAATATAAAAAAA
1 AAATATTTTAATATAAAAAAA
105486940 GGAGTTGCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
25 4 0.10
26 15 0.38
27 6 0.15
28 15 0.38
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATATTTTAATATAAAAAAAAAAA
Found at i:105486938 original size:28 final size:26
Alignment explanation
Indices: 105486865--105486939 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 26
105486855 TAATAAATTT
* * *
105486865 AAATATTTTTAATAAAAATAAAAAAT
1 AAATATTTTAAATAAAAAAAAAAAAA
* * *
105486891 TAATATTTTAAAATTTAAAAAAACAAAA
1 AAATATTTT-AAA-TAAAAAAAAAAAAA
105486919 AAATATTTTAATATAAAAAAA
1 AAATATTTTAA-ATAAAAAAA
105486940 GGAGTTGCGC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
26 8 0.21
27 11 0.29
28 19 0.50
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATATTTTAAATAAAAAAAAAAAAA
Found at i:105488879 original size:37 final size:37
Alignment explanation
Indices: 105488826--105488916 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
105488816 TATAAAAGAA
105488826 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
105488863 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
105488900 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
105488917 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:105489067 original size:49 final size:49
Alignment explanation
Indices: 105489012--105489275 Score: 447
Period size: 49 Copynumber: 5.4 Consensus size: 49
105489002 TTTTACATTA
*
105489012 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
105489061 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
105489110 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
105489159 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
105489208 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
105489257 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
105489276 CATATATGTA
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 201 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
Found at i:105493452 original size:8 final size:8
Alignment explanation
Indices: 105493426--105493463 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
105493416 GTATATTTAC
105493426 TTATTATA
1 TTATTATA
*
105493434 TAATTATA
1 TTATTATA
*
105493442 TTATTAAA
1 TTATTATA
105493450 TTA-TATA
1 TTATTATA
105493457 TTATTAT
1 TTATTAT
105493464 TAAGTAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:105493601 original size:2 final size:2
Alignment explanation
Indices: 105493590--105493634 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
105493580 ATTAAGTTGT
105493590 TA TA -A 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
105493631 TA TA
1 TA TA
105493635 AGTAAAAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:105493746 original size:16 final size:16
Alignment explanation
Indices: 105493702--105493740 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
105493692 AGAGAGCAGG
* *
105493702 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
105493718 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
105493734 GGAAAAA
1 GGAAAAA
105493741 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:105494461 original size:11 final size:11
Alignment explanation
Indices: 105494445--105494469 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
105494435 ATTACCACCC
105494445 TTCTTTTTTTT
1 TTCTTTTTTTT
105494456 TTCTTTTTTTT
1 TTCTTTTTTTT
105494467 TTC
1 TTC
105494470 CGGAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:105496265 original size:46 final size:46
Alignment explanation
Indices: 105496213--105496442 Score: 388
Period size: 46 Copynumber: 5.0 Consensus size: 46
105496203 AGTGTGCTCT
105496213 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
105496259 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
105496305 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
105496351 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
105496397 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
105496443 ATGACAGAAA
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:105496448 original size:46 final size:46
Alignment explanation
Indices: 105496214--105496495 Score: 359
Period size: 46 Copynumber: 6.0 Consensus size: 46
105496204 GTGTGCTCTC
** *
105496214 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
105496260 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
105496306 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
105496352 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
105496398 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
105496444 TGACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATG-A--A-TAAGACCATGGTTGAAAGATACCATGGCAACA
105496494 TG
1 TG
105496496 TCAAAGATAA
Statistics
Matches: 220, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
45 1 0.00
46 187 0.85
47 1 0.00
49 1 0.00
50 30 0.14
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:105504957 original size:40 final size:40
Alignment explanation
Indices: 105504902--105504979 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
105504892 AGTTAGTTAA
105504902 AAGATAAACTAAGTAAATTAAGAGGTACTTGCTATAATAC
1 AAGATAAACTAAGTAAATTAAGAGGTACTTGCTATAATAC
*
105504942 AAGATAAACTAAGTAAATTAGGAGGTACTTGCTATAAT
1 AAGATAAACTAAGTAAATTAAGAGGTACTTGCTATAAT
105504980 GAAAATTGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (40 bp):
AAGATAAACTAAGTAAATTAAGAGGTACTTGCTATAATAC
Found at i:105507302 original size:34 final size:31
Alignment explanation
Indices: 105507227--105507307 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 31
105507217 ATTTGTATTT
*
105507227 TGCATCAAGTTTATTATGATTAGTGTTTTCA
1 TGCATCAAGTTTATTATGATTAATGTTTTCA
* *
105507258 T--ATCAAGTTTATTATGATTAATTTTTATCTT
1 TGCATCAAGTTTATTATGATTAATGTTT-TC-A
105507289 TCGCATCAAGTTTATTATG
1 T-GCATCAAGTTTATTATG
105507308 TTTTTGAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 23 0.55
30 2 0.05
31 2 0.05
34 15 0.36
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (31 bp):
TGCATCAAGTTTATTATGATTAATGTTTTCA
Found at i:105509486 original size:28 final size:28
Alignment explanation
Indices: 105509382--105509486 Score: 111
Period size: 28 Copynumber: 3.7 Consensus size: 28
105509372 AGCCACCACT
**
105509382 GGTACATAGTACCTGGAACTGTAATCACC
1 GGTACATAGTACCTGGAACTG-AAAAACC
* * * *
105509411 GGCACAGAGTGCCTAGAACTGAAAAACC
1 GGTACATAGTACCTGGAACTGAAAAACC
* * * *
105509439 GGTACATAGTACTTGAAACTGAAAGACT
1 GGTACATAGTACCTGGAACTGAAAAACC
105509467 GGTACATAGTACCTGGAACT
1 GGTACATAGTACCTGGAACT
105509487 TTAATCACCG
Statistics
Matches: 60, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 43 0.72
29 17 0.28
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (28 bp):
GGTACATAGTACCTGGAACTGAAAAACC
Found at i:105511739 original size:27 final size:27
Alignment explanation
Indices: 105511709--105511766 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
105511699 CTACCCCGTC
* * *
105511709 TTTACCATCTCGGTAGGCTA-CTCTGTG
1 TTTACCATCACGGCAGACTACCT-TGTG
*
105511736 TTTACTATCACGGCAGACTACCTTGTG
1 TTTACCATCACGGCAGACTACCTTGTG
105511763 TTTA
1 TTTA
105511767 TTATCCCAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTACCATCACGGCAGACTACCTTGTG
Found at i:105525413 original size:13 final size:13
Alignment explanation
Indices: 105525391--105525421 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
105525381 TTTGGGGCTG
*
105525391 TTTTTGTTTTGGA
1 TTTTTATTTTGGA
105525404 TTTTTATTTTGGA
1 TTTTTATTTTGGA
105525417 TTTTT
1 TTTTT
105525422 GGCATGACAC
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:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (13 bp):
TTTTTATTTTGGA
Found at i:105528335 original size:17 final size:17
Alignment explanation
Indices: 105528313--105528345 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
105528303 TGGAATTGGG
*
105528313 TTGAGAAATTTATTTAA
1 TTGAGAAATTAATTTAA
105528330 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
105528346 TATAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:105530450 original size:19 final size:21
Alignment explanation
Indices: 105530410--105530450 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
105530400 CAACCCTTGT
*
105530410 GTTGCAACACTGCAGGCCTGC
1 GTTGCAACACTGCAGCCCTGC
105530431 GTTGCAACACTG-A-CCCTGC
1 GTTGCAACACTGCAGCCCTGC
105530450 G
1 G
105530451 CAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
GTTGCAACACTGCAGCCCTGC
Found at i:105543154 original size:42 final size:41
Alignment explanation
Indices: 105543045--105543160 Score: 119
Period size: 41 Copynumber: 2.8 Consensus size: 41
105543035 TGATAAAATG
* * *
105543045 TGTAAGACCATTTCTGGGACATTGGCATCGTATATGACTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATATGACTCA
* * *
105543086 TGTAAGACCTTGTCCGGGACAGTGGCATCGATATATGA-TAACA
1 TGTAAGACCATATCTGGGACAGTGGCATCG-TATATGACT--CA
* *
105543129 TGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATATCTGGGACAGTGGCATCGTAT
105543161 GAGCTATTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 30 0.48
42 14 0.23
43 18 0.29
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTATATGACTCA
Found at i:105545427 original size:9 final size:9
Alignment explanation
Indices: 105545413--105545441 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
105545403 CATGTATAGG
105545413 ATTTTGGTT
1 ATTTTGGTT
105545422 ATTTTGGTT
1 ATTTTGGTT
105545431 ATTTTGGTT
1 ATTTTGGTT
105545440 AT
1 AT
105545442 AAGTTGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.66
Consensus pattern (9 bp):
ATTTTGGTT
Found at i:105555685 original size:16 final size:16
Alignment explanation
Indices: 105555664--105555700 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
105555654 ATAATTATTC
105555664 AATCATGATTACAATT
1 AATCATGATTACAATT
105555680 AATCATGATTACAATT
1 AATCATGATTACAATT
105555696 AATCA
1 AATCA
105555701 ATCTTATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (16 bp):
AATCATGATTACAATT
Found at i:105557083 original size:15 final size:14
Alignment explanation
Indices: 105557063--105557092 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
105557053 AATAACATCT
105557063 AATTATTAATTAAAA
1 AATTATTAA-TAAAA
105557078 AATTATTAATAAAA
1 AATTATTAATAAAA
105557092 A
1 A
105557093 GGTTAAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTATTAATAAAA
Found at i:105558002 original size:9 final size:9
Alignment explanation
Indices: 105557988--105558028 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
105557978 ATAAATATAA
105557988 AATTAACCG
1 AATTAACCG
*
105557997 AATTAATCG
1 AATTAACCG
105558006 AATTAACCG
1 AATTAACCG
*
105558015 AATTAACCA
1 AATTAACCG
105558024 AATTA
1 AATTA
105558029 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:105558060 original size:6 final size:6
Alignment explanation
Indices: 105558049--105558107 Score: 82
Period size: 6 Copynumber: 9.5 Consensus size: 6
105558039 ATTATATGTT
* *
105558049 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA
105558099 TTTTTA TTT
1 TTTTTA TTT
105558108 ATTAAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 39 0.83
7 7 0.15
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:105558083 original size:20 final size:20
Alignment explanation
Indices: 105558060--105558098 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
105558050 TTTTATTTTT
105558060 ATTTTTAGTTTTAGTTTTAG
1 ATTTTTAGTTTTAGTTTTAG
* *
105558080 ATTTTTATTTTTATTTTTA
1 ATTTTTAGTTTTAGTTTTA
105558099 TTTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
ATTTTTAGTTTTAGTTTTAG
Found at i:105558156 original size:18 final size:18
Alignment explanation
Indices: 105558133--105558170 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
105558123 ATTTTTATGA
105558133 TTGGGTTGAGTAATTGGG
1 TTGGGTTGAGTAATTGGG
*
105558151 TTGGGTTGGGTAATTGGG
1 TTGGGTTGAGTAATTGGG
105558169 TT
1 TT
105558171 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (18 bp):
TTGGGTTGAGTAATTGGG
Found at i:105560652 original size:47 final size:47
Alignment explanation
Indices: 105560586--105560679 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
105560576 CCTATTTTAC
105560586 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
1 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
105560633 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
1 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
105560680 TCTTCATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (47 bp):
ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
Found at i:105563994 original size:231 final size:227
Alignment explanation
Indices: 105563595--105564052 Score: 799
Period size: 231 Copynumber: 2.0 Consensus size: 227
105563585 GTTTTAGTAA
* **
105563595 TATACTAAACAATGTTGATAATTTAAATTCAGTGCTTATATATTTAGTATTTAGTTTTCAGCATT
1 TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATATATTTAGTAGGTAGTTTTCAGCATT
105563660 TTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAAAGAA
66 TTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAAAGAA
*
105563725 AATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATGTTGT
131 AATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATGCTGT
*
105563790 GTATTTTCGATGCTATCACATTGGCTCAACCC
196 GTACTTTCGATGCTATCACATTGGCTCAACCC
* *
105563822 TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATCTCTTTAGTAGGTAGTTTTCAGCATT
1 TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATATATTTAGTAGGTAGTTTTCAGCA-T
*
105563887 TAATGTTTAAGATTATACAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAA
65 T--T-TTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAA
105563952 AGAAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATG
127 AGAAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATG
*
105564017 CTGTGTACTTTCGGTGCTATCACATTGGCTCAACCC
192 CTGTGTACTTTCGATGCTATCACATTGGCTCAACCC
105564053 CTACCCCCTG
Statistics
Matches: 218, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
227 58 0.27
228 2 0.01
230 1 0.00
231 157 0.72
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (227 bp):
TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATATATTTAGTAGGTAGTTTTCAGCATT
TTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAAAGAA
AATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATGCTGT
GTACTTTCGATGCTATCACATTGGCTCAACCC
Found at i:105580765 original size:26 final size:26
Alignment explanation
Indices: 105580736--105580786 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
105580726 TAATTTTTTT
*
105580736 TTGAAAATTTTACCTTTGGTAAAATG
1 TTGAAAATTTTACCTTTAGTAAAATG
**
105580762 TTGACCATTTTACCTTTAGTAAAAT
1 TTGAAAATTTTACCTTTAGTAAAAT
105580787 TTCGAGAAAA
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:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (26 bp):
TTGAAAATTTTACCTTTAGTAAAATG
Found at i:105589231 original size:34 final size:34
Alignment explanation
Indices: 105589193--105589272 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 34
105589183 CTATGTCCCG
*
105589193 TGTCCCTCACACGGCCATGACACGCCCGTGTCTA
1 TGTCCCTCACACGACCATGACACGCCCGTGTCTA
105589227 TGTCCGTGTTCCTCACACGACCATGACACGCCCGTGTCTA
1 TGT-C-----CCTCACACGACCATGACACGCCCGTGTCTA
105589267 TGTCCC
1 TGTCCC
105589273 ATGTCCCTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
34 5 0.13
35 1 0.03
39 1 0.03
40 32 0.82
ACGTcount: A:0.16, C:0.40, G:0.20, T:0.24
Consensus pattern (34 bp):
TGTCCCTCACACGACCATGACACGCCCGTGTCTA
Found at i:105589245 original size:40 final size:41
Alignment explanation
Indices: 105589157--105589299 Score: 207
Period size: 41 Copynumber: 3.5 Consensus size: 41
105589147 ACAGAGGTTT
**
105589157 TCACACGGCCTAAAACACGCCCGTGTCTATGTCCCGTGTCCC
1 TCACACGGCC-ATGACACGCCCGTGTCTATGTCCCGTGTCCC
*
105589199 TCACACGGCCATGACACGCCCGTGTCTATGT-CCGTGTTCC
1 TCACACGGCCATGACACGCCCGTGTCTATGTCCCGTGTCCC
* *
105589239 TCACACGACCATGACACGCCCGTGTCTATGTCCCATGTCCC
1 TCACACGGCCATGACACGCCCGTGTCTATGTCCCGTGTCCC
* *
105589280 TCACACGGCTATGACGCGCC
1 TCACACGGCCATGACACGCC
105589300 TTTGTCCAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 38 0.42
41 43 0.47
42 10 0.11
ACGTcount: A:0.18, C:0.40, G:0.20, T:0.22
Consensus pattern (41 bp):
TCACACGGCCATGACACGCCCGTGTCTATGTCCCGTGTCCC
Found at i:105599762 original size:23 final size:22
Alignment explanation
Indices: 105599736--105599781 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
105599726 TGTGATGACG
105599736 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
105599759 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
105599781 T
1 T
105599782 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:105606475 original size:23 final size:22
Alignment explanation
Indices: 105606449--105606494 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
105606439 TGTGATGACG
105606449 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
105606472 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
105606494 T
1 T
105606495 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:105609741 original size:6 final size:6
Alignment explanation
Indices: 105609727--105609765 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
105609717 GGATTGTAAG
* * *
105609727 TTTCCA TTTCTA TTTCTA TTTCTA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
105609766 TTGGAAGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTCCA
Found at i:105609747 original size:12 final size:12
Alignment explanation
Indices: 105609727--105609765 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
105609717 GGATTGTAAG
105609727 TTTCCATTTCTA
1 TTTCCATTTCTA
*
105609739 TTTCTATTTCTA
1 TTTCCATTTCTA
*
105609751 TTTCCATTTCCA
1 TTTCCATTTCTA
105609763 TTT
1 TTT
105609766 TTGGAAGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTCTA
Found at i:105610958 original size:38 final size:38
Alignment explanation
Indices: 105610899--105611006 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
105610889 TCAATCATGC
*
105610899 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
* *
105610938 ACTGGGCCGAAGCCTTTTCATGTTTCATATCTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
105610976 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
105611007 ACTGGGCCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 53 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:105610964 original size:31 final size:31
Alignment explanation
Indices: 105610922--105611023 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
105610912 CCTTTTCATA
105610922 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
105610953 TTTCATGTTTCATATCTCATAATACTGGGCCGAAGCCT
1 TTTCA----T-AT-T-TCATAATACTGGGCCGAAGCCT
*
105610991 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
105611022 TT
1 TT
105611024 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
31 28 0.44
32 1 0.02
33 2 0.03
34 1 0.02
35 1 0.02
36 2 0.03
37 1 0.02
38 27 0.43
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:105611261 original size:24 final size:24
Alignment explanation
Indices: 105611215--105611332 Score: 143
Period size: 24 Copynumber: 4.9 Consensus size: 24
105611205 GCTTTATCAT
* *
105611215 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTCA
*
105611240 ATAACTGGGGCCA-AATCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTCA
*
105611264 ATAACTGGGGCATAAGCCCTTT-T
1 ATAACTGGGGCATAAGCCCTTTCA
*
105611287 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTCA
105611311 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
105611333 TTCACTTCCT
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 24 0.29
24 47 0.57
25 12 0.14
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTCA
Done.