Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 24 of 344
Found at i:8150063 original size:51 final size:48
Alignment explanation
Indices: 8149989--8150116 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 48
8149979 CAGGCACTTA
* * * *
8149989 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCAATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTG-TA--AATTCAACACTTTG
* *
8150040 TGTGTCGAATACTGTTACCGTTACTGTTA---TAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTGTAAATTCAACACTTTG
*
8150085 TGTGTTGAATACTGTTACTGTTACTGTTACTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTG
8150117 CTACTGTTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
45 39 0.59
47 2 0.03
51 25 0.38
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (48 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACTGTAAATTCAACACTTTG
Found at i:8150105 original size:6 final size:6
Alignment explanation
Indices: 8150094--8150137 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
8150084 GTGTGTTGAA
*
8150094 TACTGT TACTGT TACTGT TACTGC TACTGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
8150138 TAGGTACTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:8155013 original size:13 final size:13
Alignment explanation
Indices: 8154995--8155019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8154985 CTTGACAGGG
8154995 ACATGCCCATGTA
1 ACATGCCCATGTA
8155008 ACATGCCCATGT
1 ACATGCCCATGT
8155020 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (13 bp):
ACATGCCCATGTA
Found at i:8165479 original size:6 final size:6
Alignment explanation
Indices: 8165468--8165504 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
8165458 TAAATAAAAG
8165468 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT A
8165505 GTAATAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:8167177 original size:5 final size:5
Alignment explanation
Indices: 8167167--8167209 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
8167157 AAGAAATAAT
8167167 TAAAA TAAAA TAAAAA TAAAA TAAAA TAAAA CCTAAAA TAAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA --TAAAA TAAAA
8167210 AAAGTAACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 25 0.71
6 5 0.14
7 5 0.14
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:8167188 original size:16 final size:17
Alignment explanation
Indices: 8167167--8167209 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
8167157 AAGAAATAAT
8167167 TAAAATAAAATAAAA-A
1 TAAAATAAAATAAAACA
*
8167183 TAAAATAAAATAAAACC
1 TAAAATAAAATAAAACA
8167200 TAAAATAAAA
1 TAAAATAAAA
8167210 AAAGTAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (17 bp):
TAAAATAAAATAAAACA
Found at i:8170919 original size:24 final size:24
Alignment explanation
Indices: 8170892--8170937 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
8170882 AACAAAAGAA
8170892 AAATT-AAACTAAAAACAAAAAAGT
1 AAATTGAAAC-AAAAACAAAAAAGT
* *
8170916 AAATTGCAACAAAAAGAAAAAA
1 AAATTGAAACAAAAACAAAAAA
8170938 ATGGCTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.13
Consensus pattern (24 bp):
AAATTGAAACAAAAACAAAAAAGT
Found at i:8183815 original size:24 final size:24
Alignment explanation
Indices: 8183783--8183923 Score: 176
Period size: 24 Copynumber: 5.9 Consensus size: 24
8183773 TCGGTCAAGG
* *
8183783 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATTC
* **
8183807 TAGCCCGCACACATAGTGCC-TTGC
1 AAATCCGCACACATAGTGCCATT-C
* * *
8183831 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
8183855 AAATCCGCACACATAGTGTCATTC
1 AAATCCGCACACATAGTGCCATTC
*
8183879 AAATCTGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
8183903 AAATCCGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
8183924 ATGTCATTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
23 1 0.01
24 96 0.97
25 2 0.02
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATTC
Found at i:8185260 original size:17 final size:17
Alignment explanation
Indices: 8185238--8185271 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8185228 CCCCACTTAA
*
8185238 TATATTATAACTTATTT
1 TATATTATAACATATTT
8185255 TATATTATAACATATTT
1 TATATTATAACATATTT
8185272 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:8198101 original size:53 final size:53
Alignment explanation
Indices: 8198020--8198170 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
8198010 CTTACACGGT
* * *
8198020 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCGCATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
8198075 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
8198128 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
8198171 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:8201957 original size:10 final size:10
Alignment explanation
Indices: 8201942--8201967 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8201932 AATTCACATA
8201942 CAATATCATT
1 CAATATCATT
8201952 CAATATCATT
1 CAATATCATT
8201962 CAATAT
1 CAATAT
8201968 GAATCTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (10 bp):
CAATATCATT
Found at i:8203645 original size:5 final size:5
Alignment explanation
Indices: 8203635--8203691 Score: 105
Period size: 5 Copynumber: 11.4 Consensus size: 5
8203625 ATTAAACTAT
*
8203635 TATAA TATAA TATAA TATAA TATAC TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
8203685 TATAA TA
1 TATAA TA
8203692 ATTACTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:8210515 original size:13 final size:13
Alignment explanation
Indices: 8210497--8210521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8210487 GCCATCATGA
8210497 TATTTACTTACCT
1 TATTTACTTACCT
8210510 TATTTACTTACC
1 TATTTACTTACC
8210522 ATAACATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTACTTACCT
Found at i:8211228 original size:5 final size:5
Alignment explanation
Indices: 8211220--8211261 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
8211210 ATTAAATTAT
8211220 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T-ATAA T
8211262 TACTTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:8214922 original size:6 final size:6
Alignment explanation
Indices: 8214901--8214937 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
8214891 AAAAATAAAT
8214901 AAAAG- AAAAG- AAAAGA AAAAGA ACAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AA
8214938 CAGATAGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.33
6 14 0.47
7 6 0.20
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:8214930 original size:13 final size:13
Alignment explanation
Indices: 8214912--8214936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8214902 AAAGAAAAGA
8214912 AAAGAAAAAGAAC
1 AAAGAAAAAGAAC
8214925 AAAGAAAAAGAA
1 AAAGAAAAAGAA
8214937 ACAGATAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAC
Found at i:8217616 original size:14 final size:14
Alignment explanation
Indices: 8217575--8217617 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
8217565 CTTGCTAAGA
8217575 AAAAAAATAGATAAAG
1 AAAAAAATA-A-AAAG
* *
8217591 AAAAGAAGAAAAAG
1 AAAAAAATAAAAAG
8217605 AAAAAAATAAAAA
1 AAAAAAATAAAAA
8217618 TTAAGAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 15 0.65
15 1 0.04
16 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (14 bp):
AAAAAAATAAAAAG
Found at i:8219598 original size:6 final size:6
Alignment explanation
Indices: 8219589--8219615 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8219579 TTTATTCATA
8219589 AAAGAG AAAGAG AAAGAG AAAGAG AAA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAA
8219616 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:8220115 original size:17 final size:16
Alignment explanation
Indices: 8220093--8220135 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
8220083 AACTTCATCA
8220093 TTAAATAAAAAATATAT
1 TTAAATAAAAAATA-AT
* *
8220110 TTAAATAATAATTAAT
1 TTAAATAAAAAATAAT
8220126 TATAAATAAA
1 T-TAAATAAA
8220136 TGTTAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATAAAAAATAAT
Found at i:8220225 original size:13 final size:13
Alignment explanation
Indices: 8220207--8220246 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
8220197 CGAGAGTTAT
8220207 TAATATTTAATTA
1 TAATATTTAATTA
*
8220220 TAATATTT-ATGA
1 TAATATTTAATTA
8220232 TTAATATTTAATTA
1 -TAATATTTAATTA
8220246 T
1 T
8220247 GTTTGAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TAATATTTAATTA
Found at i:8221046 original size:8 final size:8
Alignment explanation
Indices: 8221035--8221059 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8221025 TTTTTTTTGT
8221035 TTTGTTTA
1 TTTGTTTA
8221043 TTTGTTTA
1 TTTGTTTA
8221051 TTTGTTTA
1 TTTGTTTA
8221059 T
1 T
8221060 AATGTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTGTTTA
Found at i:8221928 original size:26 final size:26
Alignment explanation
Indices: 8221899--8222006 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8221889 TGATACAAAT
8221899 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
8221925 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8221951 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8221977 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8222003 TGAT
1 TGAT
8222007 GGACATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8228862 original size:52 final size:52
Alignment explanation
Indices: 8228800--8228902 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
8228790 AACTTATTTC
*
8228800 ATTCATTTCACTTACTAGCCTATATAACTTTCCACGATTTATTCACAAGTCT
1 ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTCT
8228852 ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTC
1 ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTC
8228903 ATTAAACAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (52 bp):
ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTCT
Found at i:8230292 original size:20 final size:20
Alignment explanation
Indices: 8230269--8230315 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
8230259 TATAATTATT
8230269 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
8230289 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
8230309 TAATTAA
1 TAATTAA
8230316 ATATATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTAATAAATATCTTTTA
Found at i:8230904 original size:19 final size:21
Alignment explanation
Indices: 8230858--8230904 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
8230848 TATAATAAAT
* *
8230858 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
8230879 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
8230897 TAATTAAA
1 TAATTAAA
8230905 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:8243128 original size:20 final size:20
Alignment explanation
Indices: 8243102--8243152 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
8243092 GGACTAATGT
*
8243102 AAAATTTCTAATGTTATATC
1 AAAATTTCTAATGTGATATC
* * *
8243122 GAAATTT-TAAGGTGATATT
1 AAAATTTCTAATGTGATATC
8243141 AAAATTTCTAAT
1 AAAATTTCTAAT
8243153 ACTATATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (20 bp):
AAAATTTCTAATGTGATATC
Found at i:8243161 original size:20 final size:20
Alignment explanation
Indices: 8243136--8243173 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8243126 TTTTAAGGTG
8243136 ATATTAAAATTTCTAATACT
1 ATATTAAAATTTCTAATACT
*
8243156 ATATTAAAATTTTTAATA
1 ATATTAAAATTTCTAATA
8243174 TCATACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAAAATTTCTAATACT
Found at i:8243311 original size:40 final size:41
Alignment explanation
Indices: 8243266--8243401 Score: 125
Period size: 41 Copynumber: 3.3 Consensus size: 41
8243256 TGTAAAACAT
8243266 AGAGCAATAGCGGCA-TTTGACCAAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCATTTTGACCAAAAACGCCGCTAAAAAC
***** *
8243306 AGAGCAATAGCGGCATTTTTTGTTAAAACGCCGCTAAAAAT
1 AGAGCAATAGCGGCATTTTGACCAAAAACGCCGCTAAAAAC
* * ** *
8243347 AGAGCATTAGCGGCTCTTTTG--GTAAAACGCCGCTAAAAGCC
1 AGAGCAATAGCGGC-ATTTTGACCAAAAACGCCGCTAAAA-AC
*
8243388 AGAGCATTAGCGGC
1 AGAGCAATAGCGGC
8243402 GCTTTTGGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
40 31 0.38
41 46 0.57
42 4 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (41 bp):
AGAGCAATAGCGGCATTTTGACCAAAAACGCCGCTAAAAAC
Found at i:8243426 original size:41 final size:40
Alignment explanation
Indices: 8243289--8243425 Score: 202
Period size: 41 Copynumber: 3.4 Consensus size: 40
8243279 CATTTGACCA
* * *
8243289 AAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGC-TCTTTTGGT
*
8243330 AAAACGCCGCTAAAAATAGAGCATTAGCGGCTCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCTCTTTTGGT
* *
8243370 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCTCTTTTGGT
8243411 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
8243426 GTCATATAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 22 0.25
41 66 0.75
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCTCTTTTGGT
Found at i:8243514 original size:23 final size:23
Alignment explanation
Indices: 8243467--8243530 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
8243457 AAAAAATCAT
* * *
8243467 AAACACTAATCT-GTAATCCTTA
1 AAACACTAAACTCCTAAACCTTA
8243489 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACTCCTAAACCTTA
8243512 AAA-ATCTTAAAC-CCTAAAC
1 AAACA-C-TAAACTCCTAAAC
8243531 TATAACCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.33
23 19 0.53
24 5 0.14
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.25
Consensus pattern (23 bp):
AAACACTAAACTCCTAAACCTTA
Found at i:8243785 original size:21 final size:21
Alignment explanation
Indices: 8243759--8243825 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
8243749 GTTAGGGGTC
* *
8243759 TAGGATTAAGAGTTTATATTT
1 TAGGATTAAGAGTTTAGAGTT
* *
8243780 TAGGATTTAG-GATTTAGGGTT
1 TAGGATTAAGAG-TTTAGAGTT
*
8243801 TAGGGATTAAGAGTTTAGGGTT
1 TA-GGATTAAGAGTTTAGAGTT
8243823 TAG
1 TAG
8243826 TTAATTAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.47
22 18 0.47
23 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
TAGGATTAAGAGTTTAGAGTT
Found at i:8243805 original size:7 final size:7
Alignment explanation
Indices: 8243778--8243825 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
8243768 GAGTTTATAT
*
8243778 TTTAGGA
1 TTTAGGG
*
8243785 TTTAGGA
1 TTTAGGG
8243792 TTTAGGG
1 TTTAGGG
8243799 TTTAGGG
1 TTTAGGG
* *
8243806 ATTAAGAG
1 -TTTAGGG
8243814 TTTAGGG
1 TTTAGGG
8243821 TTTAG
1 TTTAG
8243826 TTAATTAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:8243807 original size:15 final size:15
Alignment explanation
Indices: 8243778--8243825 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
8243768 GAGTTTATAT
*
8243778 TTTAGGATTTA-GGA
1 TTTAGGGTTTAGGGA
8243792 TTTAGGGTTTAGGGA
1 TTTAGGGTTTAGGGA
* *
8243807 TTAAGAGTTTAGGG-
1 TTTAGGGTTTAGGGA
8243821 TTTAG
1 TTTAG
8243826 TTAATTAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (15 bp):
TTTAGGGTTTAGGGA
Found at i:8244431 original size:14 final size:13
Alignment explanation
Indices: 8244402--8244441 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
8244392 CATTGATAGC
8244402 AAATAAAA-AT-A
1 AAATAAAATATAA
8244413 AAATAAAATAATAA
1 AAATAAAAT-ATAA
8244427 AAATAAAATATAA
1 AAATAAAATATAA
8244440 AA
1 AA
8244442 TAGAGGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.31
13 8 0.31
14 10 0.38
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATATAA
Found at i:8253614 original size:27 final size:27
Alignment explanation
Indices: 8253574--8253630 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
8253564 TACGCACGAA
8253574 GGGCAAAATAGTCATTTAACACC-CTAG
1 GGGCAAAATAGTCATTTAAC-CCTCTAG
* *
8253601 GGGCAAAATGGTCATTTTACCCTCTAG
1 GGGCAAAATAGTCATTTAACCCTCTAG
8253628 GGG
1 GGG
8253631 TAAATCGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTAACCCTCTAG
Found at i:8253648 original size:27 final size:27
Alignment explanation
Indices: 8253618--8253680 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
8253608 ATGGTCATTT
8253618 TACCCT-CTAGGGGTAAATCGGTAGTCC
1 TACCCTAC-AGGGGTAAATCGGTAGTCC
** * *
8253645 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTAAATCGGTAGTCC
8253672 TACCCTACA
1 TACCCTACA
8253681 AGGATATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (27 bp):
TACCCTACAGGGGTAAATCGGTAGTCC
Found at i:8253688 original size:27 final size:27
Alignment explanation
Indices: 8253635--8253694 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
8253625 TAGGGGTAAA
* *
8253635 TCGGTAGTCCTACCCTACAGGGGTATT
1 TCGGTAGTCCTACCCTACAAGGATATT
* *
8253662 TCGGTATTTCTACCCTACAAGGATATT
1 TCGGTAGTCCTACCCTACAAGGATATT
8253689 TCGGTA
1 TCGGTA
8253695 ATTTTGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
TCGGTAGTCCTACCCTACAAGGATATT
Found at i:8253825 original size:27 final size:27
Alignment explanation
Indices: 8253736--8253811 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
8253726 TGTAACTCGG
* *
8253736 GGGTACTTTGGTAGTTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
8253763 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
8253790 GGGTATTTTGGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
8253812 ACCAGGGGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAGTCGA
Found at i:8253830 original size:27 final size:27
Alignment explanation
Indices: 8253736--8253832 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
8253726 TGTAACTCGG
* * **
8253736 GGGTACTTTGGTAGTTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
**
8253763 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
8253790 GGGTATTTTGGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCGA
*
8253816 GGGGTATTTTAGTAATT
1 -GGGTATTTTGGTAATT
8253833 CTAAAACTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.02
27 63 0.98
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCGA
Found at i:8260074 original size:27 final size:27
Alignment explanation
Indices: 8260036--8260097 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
8260026 CACGAAGGGA
*
8260036 AAAATAGTCATTTAACACC-CTAGGGGC
1 AAAATGGTCATTTAAC-CCTCTAGGGGC
* *
8260063 AAAATGGTCATTTTACCCTCTAGGGGT
1 AAAATGGTCATTTAACCCTCTAGGGGC
*
8260090 AAATTGGT
1 AAAATGGT
8260098 AGTCCTACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAATGGTCATTTAACCCTCTAGGGGC
Found at i:8260125 original size:27 final size:27
Alignment explanation
Indices: 8260095--8260152 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
8260085 GGGGTAAATT
*
8260095 GGTAGTCCTACCCTACAGGGGTATTTC
1 GGTAGTCCTACCCTACAAGGGTATTTC
* *
8260122 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAGTCCTACCCTACAAGGGTATTTC
8260149 GGTA
1 GGTA
8260153 ATTTTGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (27 bp):
GGTAGTCCTACCCTACAAGGGTATTTC
Found at i:8260169 original size:27 final size:27
Alignment explanation
Indices: 8260139--8260270 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 27
8260129 CTACCCTACA
**
8260139 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*** * **
8260166 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
8260193 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTACAAATCG
* *
8260220 AGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
8260247 AGGGTATTTTGGTAATTTTACAAA
1 AGGGTATTTCGGTAATTTTACAAA
8260271 CCAGGGGTAT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 86 0.97
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:8260234 original size:54 final size:55
Alignment explanation
Indices: 8260176--8260292 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 55
8260166 AGGGTAAAAC
* **
8260176 GGTAATTCTGTA-AA-TCGGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTT
1 GGTAATTCT-TACAAGTCGAGGGTACTTTGGTAATTTTACAAACCAG-GGGTATTTT
*
8260230 GGTAATT-TTACAAGTCGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTCTTACAAGTCGAGGGTACTTTGGTAATTTTACAAACCAGGGGTATTTT
*
8260284 AGTAATTCT
1 GGTAATTCT
8260293 AAAACTTATC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
52 2 0.04
53 3 0.06
54 47 0.87
55 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.39
Consensus pattern (55 bp):
GGTAATTCTTACAAGTCGAGGGTACTTTGGTAATTTTACAAACCAGGGGTATTTT
Found at i:8260290 original size:27 final size:27
Alignment explanation
Indices: 8260194--8260269 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
8260184 TGTAAATCGG
*
8260194 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
8260221 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
8260248 GGGTATTTTGGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
8260270 ACCAGGGGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAGTCGA
Found at i:8264075 original size:19 final size:19
Alignment explanation
Indices: 8264051--8264088 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8264041 GTTTTCCAGA
8264051 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
8264070 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
8264089 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:8275124 original size:35 final size:35
Alignment explanation
Indices: 8275083--8275185 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 35
8275073 TAAGTATGTA
*
8275083 CATGTGAGGTCATATTGACTTTGTATATTCGGCTG
1 CATGTGAGGTTATATTGACTTTGTATATTCGGCTG
* * * ** *
8275118 CTTGTGAAGTTATATTGAAC-TTGTATATTTGATTT
1 CATGTGAGGTTATATTG-ACTTTGTATATTCGGCTG
* *
8275153 CATATGAGGTTATATTGAATTTGTATATTCGGC
1 CATGTGAGGTTATATTGACTTTGTATATTCGGC
8275186 CATATGAGAT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
34 1 0.02
35 49 0.94
36 2 0.04
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (35 bp):
CATGTGAGGTTATATTGACTTTGTATATTCGGCTG
Found at i:8279244 original size:197 final size:197
Alignment explanation
Indices: 8278909--8279303 Score: 781
Period size: 197 Copynumber: 2.0 Consensus size: 197
8278899 TATGAGTTTC
8278909 TAGTTATGCCATTTGGACTTACTAATGCACCTGCAGTTTTTATGGATTTGATGAATTGGATGTTT
1 TAGTTATGCCATTTGGACTTACTAATGCACCTGCAGTTTTTATGGATTTGATGAATTGGATGTTT
8278974 AGGCAGTATTTAGATCGATTTGTGGTCGTGTTTATTGATGATATACTGATCTACTCCAGTAATGA
66 AGGCAGTATTTAGATCGATTTGTGGTCGTGTTTATTGATGATATACTGATCTACTCCAGTAATGA
8279039 AACTGAACATGCCGAGCATTTGAGACTTGTGTTACAGAATTTGCGAGAAAAATAGTTGTATGCGA
131 AACTGAACATGCCGAGCATTTGAGACTTGTGTTACAGAATTTGCGAGAAAAATAGTTGTATGCGA
8279104 AG
196 AG
8279106 TAGTTATGCCATTTGGACTTACTAATGCACCTGCAGTTTTTATGGATTTGATGAATTGGATGTTT
1 TAGTTATGCCATTTGGACTTACTAATGCACCTGCAGTTTTTATGGATTTGATGAATTGGATGTTT
*
8279171 AGGCAGTATTTAGATCGATTTGTGGTCGTGTTTATTGATGATATACTGATCTACTCCCGTAATGA
66 AGGCAGTATTTAGATCGATTTGTGGTCGTGTTTATTGATGATATACTGATCTACTCCAGTAATGA
8279236 AACTGAACATGCCGAGCATTTGAGACTTGTGTTACAGAATTTGCGAGAAAAATAGTTGTATGCGA
131 AACTGAACATGCCGAGCATTTGAGACTTGTGTTACAGAATTTGCGAGAAAAATAGTTGTATGCGA
8279301 AG
196 AG
8279303 T
1 T
8279304 TTAGTAAATG
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
197 197 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (197 bp):
TAGTTATGCCATTTGGACTTACTAATGCACCTGCAGTTTTTATGGATTTGATGAATTGGATGTTT
AGGCAGTATTTAGATCGATTTGTGGTCGTGTTTATTGATGATATACTGATCTACTCCAGTAATGA
AACTGAACATGCCGAGCATTTGAGACTTGTGTTACAGAATTTGCGAGAAAAATAGTTGTATGCGA
AG
Found at i:8288821 original size:17 final size:17
Alignment explanation
Indices: 8288801--8288846 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
8288791 CTATTAGAGG
*
8288801 GCTTGCAATCTTGATGA
1 GCTTGCAGTCTTGATGA
*
8288818 GCTTG-AGTCTTGGTGA
1 GCTTGCAGTCTTGATGA
*
8288834 GCTCGCAGTCTTG
1 GCTTGCAGTCTTG
8288847 GGCAAGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (17 bp):
GCTTGCAGTCTTGATGA
Found at i:8288939 original size:18 final size:19
Alignment explanation
Indices: 8288916--8288962 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
8288906 CGCAGATATG
8288916 GTGAGCTCGCA-TCTTTG-A
1 GTGAGCTCGCAGT-TTTGTA
*
8288934 GTGAGCTCACAGTTTTGTA
1 GTGAGCTCGCAGTTTTGTA
8288953 G-GAGCTCGCA
1 GTGAGCTCGCA
8288963 ATTGTGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (19 bp):
GTGAGCTCGCAGTTTTGTA
Found at i:8290265 original size:12 final size:12
Alignment explanation
Indices: 8290248--8290272 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8290238 AGTAAGATGG
8290248 TTGAAAAATCCA
1 TTGAAAAATCCA
8290260 TTGAAAAATCCA
1 TTGAAAAATCCA
8290272 T
1 T
8290273 AAACTGGCCC
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:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTGAAAAATCCA
Found at i:8291008 original size:17 final size:16
Alignment explanation
Indices: 8290966--8291045 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 16
8290956 GCTCATAGTC
8290966 TTGGTGAGCTCAG-AATT
1 TTGGTGAGCTC-GTAA-T
8290983 TTAGGTGAGCTCGTACAT
1 TT-GGTGAGCTCGTA-AT
* *
8291001 TTGGTGAGATCGTATT
1 TTGGTGAGCTCGTAAT
*
8291017 CTTGGTAAGCTCGTAAAT
1 -TTGGTGAGCTCGT-AAT
*
8291035 ATGGTGAGCTC
1 TTGGTGAGCTC
8291046 ACAACTTTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 34 0.67
18 15 0.29
19 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.35
Consensus pattern (16 bp):
TTGGTGAGCTCGTAAT
Found at i:8297278 original size:21 final size:22
Alignment explanation
Indices: 8297239--8297279 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8297229 TCTTTCCCCC
*
8297239 TTCCTTATTTCTTCCCTTTTCT
1 TTCCTTATTCCTTCCCTTTTCT
*
8297261 TTCCTT-TTCCTTCTCTTTT
1 TTCCTTATTCCTTCCCTTTT
8297280 TCCCTTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (22 bp):
TTCCTTATTCCTTCCCTTTTCT
Found at i:8299396 original size:6 final size:6
Alignment explanation
Indices: 8299377--8299449 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
8299367 TTGAGTCCGA
** * * * *
8299377 TTATTT TTACGT TTATGT TTACTT TTATTT TTA-TC TT-CTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
8299423 TTA-TT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
8299450 GTCTATTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
5 11 0.20
6 44 0.80
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:8299419 original size:16 final size:17
Alignment explanation
Indices: 8299395--8299443 Score: 73
Period size: 16 Copynumber: 2.9 Consensus size: 17
8299385 ACGTTTATGT
8299395 TTACTTTTATTTTTATC
1 TTACTTTTATTTTTATC
*
8299412 TT-CTTTTATTTTTATT
1 TTACTTTTATTTTTATC
*
8299428 TTATTTTTATTTTTAT
1 TTACTTTTATTTTTAT
8299444 TTTTATGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTACTTTTATTTTTATC
Found at i:8299456 original size:12 final size:11
Alignment explanation
Indices: 8299388--8299449 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
8299378 TATTTTTACG
*
8299388 TTTATGTTTACT
1 TTTAT-TTTATT
8299400 TTTATTTT-TAT
1 TTTATTTTAT-T
* *
8299411 CTTCTTTTATT
1 TTTATTTTATT
8299422 TTTATTTTATT
1 TTTATTTTATT
8299433 TTTATTTTTATT
1 TTTA-TTTTATT
8299445 TTTAT
1 TTTAT
8299450 GTCTATTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
11 25 0.60
12 17 0.40
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:8300420 original size:10 final size:11
Alignment explanation
Indices: 8300405--8300442 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
8300395 TCATTCAGTC
8300405 AAAAAGAAA-A
1 AAAAAGAAAGA
8300415 AAAAAGAAAGA
1 AAAAAGAAAGA
*
8300426 AAAAAAAGAAGA
1 AAAAAGA-AAGA
8300438 AAAAA
1 AAAAA
8300443 ATATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 7 0.28
12 9 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:8300426 original size:14 final size:14
Alignment explanation
Indices: 8300407--8300443 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
8300397 ATTCAGTCAA
8300407 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
8300421 AAAG-AAAAAAAAG
1 AAAGAAAAAAAAAG
8300434 -AAGAAAAAAA
1 AAAGAAAAAAA
8300444 TATAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 15 0.68
14 4 0.18
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:8300430 original size:13 final size:13
Alignment explanation
Indices: 8300407--8300443 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
8300397 ATTCAGTCAA
8300407 AAAGAAAAAAAAAG
1 AAAG-AAAAAAAAG
8300421 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
8300434 -AAGAAAAAAA
1 AAAGAAAAAAA
8300444 TATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.43
13 9 0.39
14 4 0.17
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:8300432 original size:16 final size:15
Alignment explanation
Indices: 8300405--8300443 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8300395 TCATTCAGTC
8300405 AAAAAGAAAAAAAAAG
1 AAAAA-AAAAAAAAAG
*
8300421 AAAGAAAAAAAAGAAG
1 AAA-AAAAAAAAAAAG
8300437 AAAAAAA
1 AAAAAAA
8300444 TATAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:8303202 original size:14 final size:14
Alignment explanation
Indices: 8303180--8303221 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
8303170 GGGGTTGTTA
*
8303180 TTATATTTTTATTT
1 TTATTTTTTTATTT
*
8303194 TTATTTTTTCA-TT
1 TTATTTTTTTATTT
*
8303207 TGATTTTTTTATTT
1 TTATTTTTTTATTT
8303221 T
1 T
8303222 AGGTTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:8311450 original size:15 final size:15
Alignment explanation
Indices: 8311430--8311458 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8311420 GATGAGGGGA
8311430 TCTCAACTTGGAATT
1 TCTCAACTTGGAATT
8311445 TCTCAACTTGGAAT
1 TCTCAACTTGGAAT
8311459 GTTTGAAACT
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:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
TCTCAACTTGGAATT
Found at i:8315515 original size:59 final size:58
Alignment explanation
Indices: 8315442--8315567 Score: 173
Period size: 59 Copynumber: 2.2 Consensus size: 58
8315432 TGTGTGTACC
* * *
8315442 ATGTGAAAAGGGATAGCTTCGGCTATCGAATGTAAAAAAAGGATAGCTTCGGCTATC-A
1 ATGTGAAAACGGATAGCTTCAGCTATCGAATGT-AAAAAAGGATAGCTTCGGATATCGA
* * *
8315500 GATGTGAAAACGGATAGCTTCAGCTATCGAATGTGAAAAGGGATAGCTTTGGATATCGA
1 -ATGTGAAAACGGATAGCTTCAGCTATCGAATGTAAAAAAGGATAGCTTCGGATATCGA
8315559 ATGTGAAAA
1 ATGTGAAAA
8315568 GGTTAGGTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 28 0.47
59 32 0.53
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (58 bp):
ATGTGAAAACGGATAGCTTCAGCTATCGAATGTAAAAAAGGATAGCTTCGGATATCGA
Found at i:8315519 original size:29 final size:29
Alignment explanation
Indices: 8315442--8315569 Score: 177
Period size: 29 Copynumber: 4.4 Consensus size: 29
8315432 TGTGTGTACC
8315442 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
8315471 ATGTAAAAAAAGGATAGCTTCGGCTATC-A
1 ATGT-GAAAAGGGATAGCTTCGGCTATCGA
* *
8315500 GATGTGAAAACGGATAGCTTCAGCTATCGA
1 -ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
8315530 ATGTGAAAAGGGATAGCTTTGGATATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
8315559 ATGTGAAAAGG
1 ATGTGAAAAGG
8315570 TTAGGTATAC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
29 61 0.70
30 26 0.30
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:8315605 original size:33 final size:33
Alignment explanation
Indices: 8315562--8315691 Score: 136
Period size: 33 Copynumber: 4.0 Consensus size: 33
8315552 ATATCGAATG
** *
8315562 TGAAAAGGTTAGGTATACTTTTTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* ** * * * *
8315595 TGAAATGGTTACGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
*
8315627 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* *
8315660 TGAAAAGGAAAAGTATACTTTGTGTGTACCAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCAC
8315692 TCAGAAAGAA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
32 25 0.32
33 54 0.68
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACA
Found at i:8315641 original size:65 final size:65
Alignment explanation
Indices: 8315562--8315688 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
8315552 ATATCGAATG
** * * ** *
8315562 TGAAAAGGTTAGGTATACTTTTTGTATACCACATGAAATGGTTACGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAAGTACACTTTGTGTGTACACT
* *
8315627 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAAGTATACTTTGTGTGTAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAAGTACACTTTGTGTGTAC
8315689 CACTCAGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (65 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAAGTACACTTTGTGTGTACACT
Found at i:8318365 original size:61 final size:58
Alignment explanation
Indices: 8318291--8318417 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 58
8318281 TGTGTGTACC
**
8318291 ATGTGAAAAGGGATAGCTTTGGCTATCGAATGTAAAAAAAAAGGATAGCTTCGACTATCGA
1 ATGTGAAAAGGGATAGCTTCAGCTATCGAATGT---AAAAAAGGATAGCTTCGACTATCGA
* * * *
8318352 ATGTGAAAAGGGATAGCTTCAGCTATCGAATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCAGCTATCGAATGTAAAAAAGGATAGCTTCGACTATCGA
8318410 ATGTGAAA
1 ATGTGAAA
8318418 GGGTTAGGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 29 0.48
61 31 0.52
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (58 bp):
ATGTGAAAAGGGATAGCTTCAGCTATCGAATGTAAAAAAGGATAGCTTCGACTATCGA
Found at i:8318370 original size:29 final size:29
Alignment explanation
Indices: 8318291--8318417 Score: 157
Period size: 29 Copynumber: 4.3 Consensus size: 29
8318281 TGTGTGTACC
* *
8318291 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGACTATCGA
* *
8318320 ATGTAAAAAAAAAGGATAGCTTCGACTATCGA
1 ATGT---GAAAAGGGATAGCTTCGACTATCGA
8318352 ATGTGAAAAGGGATAGCTTC-AGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGA-CTATCGA
* *
8318381 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGACTATCGA
8318410 ATGTGAAA
1 ATGTGAAA
8318418 GGGTTAGGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
28 1 0.01
29 59 0.69
32 25 0.29
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGACTATCGA
Found at i:8318548 original size:32 final size:32
Alignment explanation
Indices: 8318414--8318581 Score: 142
Period size: 32 Copynumber: 5.2 Consensus size: 32
8318404 TATCGAATGT
* * * *
8318414 GAAAGGGTTAGGTATACTTTGTGTATACCACAT-
1 GAAAAGGTTATGTACACTTTGTGTGTA-CAC-TC
* * * *
8318447 GAAAATGTTATGCACAGTTTGTGTGTACACTT
1 GAAAAGGTTATGTACACTTTGTGTGTACACTC
* *
8318479 GAAAAAGTTAT-TGACACTTTGTGTGTACACTT
1 GAAAAGGTTATGT-ACACTTTGTGTGTACACTC
*
8318511 GAAAAGGTTATATACACTTTGTGTGTACACTC
1 GAAAAGGTTATGTACACTTTGTGTGTACACTC
** * *
8318543 GAAAAGGAAAGGTATACTTTGTGTGTACCACTC
1 GAAAAGGTTATGTACACTTTGTGTGTA-CACTC
*
8318576 AAAAAG
1 GAAAAG
8318582 AAACGCACAC
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.01
32 81 0.72
33 31 0.27
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (32 bp):
GAAAAGGTTATGTACACTTTGTGTGTACACTC
Found at i:8318562 original size:64 final size:64
Alignment explanation
Indices: 8318423--8318570 Score: 163
Period size: 64 Copynumber: 2.3 Consensus size: 64
8318413 TGAAAGGGTT
* * * * * **
8318423 AGGTATACTTTGTGTATACCACATGAAAATGTTATGCACAGTTTGTGTGTACACTTGAAAAAGTT
1 AGGTATACTTTGTGTGTA-CACATGAAAAGGTTATACACACTTTGTGTGTACACTCGAAAAAGAA
* * * * *
8318488 A-TTGACACTTTGTGTGTACACTTGAAAAGGTTATATACACTTTGTGTGTACACTCGAAAAGGAA
1 AGGT-ATACTTTGTGTGTACACATGAAAAGGTTATACACACTTTGTGTGTACACTCGAAAAAGAA
8318552 AGGTATACTTTGTGTGTAC
1 AGGTATACTTTGTGTGTAC
8318571 CACTCAAAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
64 53 0.79
65 14 0.21
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (64 bp):
AGGTATACTTTGTGTGTACACATGAAAAGGTTATACACACTTTGTGTGTACACTCGAAAAAGAA
Found at i:8323743 original size:21 final size:22
Alignment explanation
Indices: 8323713--8323761 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
8323703 GCAGCAGCAA
*
8323713 CATTTTGTTCATTTGTAACTTG
1 CATTTAGTTCATTTGTAACTTG
* * *
8323735 -ATTTAGTTCTTTTTTAATTTG
1 CATTTAGTTCATTTGTAACTTG
8323756 CATTTA
1 CATTTA
8323762 AAGTTGGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.59
Consensus pattern (22 bp):
CATTTAGTTCATTTGTAACTTG
Found at i:8325359 original size:5 final size:6
Alignment explanation
Indices: 8325343--8325384 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
8325333 TACTTTAGCC
*
8325343 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT -TGTTTT ACTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT A
8325385 ATTTACTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 6 0.19
6 26 0.81
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:8325365 original size:17 final size:18
Alignment explanation
Indices: 8325345--8325384 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
8325335 CTTTAGCCAT
8325345 TTTTATTTTTAT-TTTTA-
1 TTTTATTTTT-TGTTTTAC
8325362 TTTTATTTTTTGTTTTAC
1 TTTTATTTTTTGTTTTAC
8325380 TTTTA
1 TTTTA
8325385 ATTTACTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.71
18 5 0.24
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTGTTTTAC
Found at i:8325369 original size:23 final size:23
Alignment explanation
Indices: 8325343--8325389 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8325333 TACTTTAGCC
* *
8325343 ATTTTTAT-TTTTATTTTTATTTT
1 ATTTTT-TGTTTTACTTTTAATTT
8325366 ATTTTTTGTTTTACTTTTAATTT
1 ATTTTTTGTTTTACTTTTAATTT
8325389 A
1 A
8325390 CTAACTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (23 bp):
ATTTTTTGTTTTACTTTTAATTT
Found at i:8328560 original size:14 final size:12
Alignment explanation
Indices: 8328532--8328623 Score: 60
Period size: 14 Copynumber: 7.1 Consensus size: 12
8328522 ATTCTTATAC
8328532 TTATATTTTTTT
1 TTATATTTTTTT
8328544 TTATATTTTAATTT
1 TTATATTTT--TTT
* *
8328558 TTATATACTTTTA
1 TTATAT-TTTTTT
8328571 TTAT-TTTTATTT
1 TTATATTTT-TTT
*
8328583 TTCTATTTCTATTT
1 TTATATTT-T-TTT
*
8328597 TTTTATTTTTTCT
1 TTATATTTTTT-T
*
8328610 TTCGTATTTTTTT
1 TT-ATATTTTTTT
8328623 T
1 T
8328624 ACTATTATCA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.03
12 17 0.26
13 15 0.23
14 29 0.45
15 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.76
Consensus pattern (12 bp):
TTATATTTTTTT
Found at i:8328564 original size:16 final size:18
Alignment explanation
Indices: 8328527--8328580 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
8328517 TTATTATTCT
* * *
8328527 TATACTTATATTTTTTTT
1 TATACTTTTATATTTTTA
8328545 TATA-TTTTA-ATTTTTA
1 TATACTTTTATATTTTTA
8328561 TATACTTTTATTATTTTTA
1 TATACTTTTA-TATTTTTA
8328580 T
1 T
8328581 TTTTCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.30
17 9 0.30
18 4 0.13
19 8 0.27
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
TATACTTTTATATTTTTA
Found at i:8328577 original size:18 final size:17
Alignment explanation
Indices: 8328516--8328580 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
8328506 AATTAATTAA
*
8328516 TTTATTATTCTTATACT
1 TTTATTATTTTTATACT
* *
8328533 TATATTTTTTTTTATA-T
1 TTTA-TTATTTTTATACT
*
8328550 TTTAATT-TTTATATACT
1 TTT-ATTATTTTTATACT
8328567 TTTATTATTTTTAT
1 TTTATTATTTTTAT
8328581 TTTTCTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.26
17 18 0.47
18 10 0.26
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTATTTTTATACT
Found at i:8328602 original size:22 final size:22
Alignment explanation
Indices: 8328569--8328622 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
8328559 TATATACTTT
8328569 TATTATTTTTATTTTTCTATTTC-
1 TATT-TTTTTATTTTT-TATTTCG
*
8328592 TATTTTTTTATTTTTTCTTTCG
1 TATTTTTTTATTTTTTATTTCG
8328614 TATTTTTTT
1 TATTTTTTT
8328623 TACTATTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 20 0.69
23 4 0.14
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (22 bp):
TATTTTTTTATTTTTTATTTCG
Found at i:8328607 original size:8 final size:8
Alignment explanation
Indices: 8328539--8328607 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
8328529 TACTTATATT
8328539 TTTTTTTA
1 TTTTTTTA
* *
8328547 TATTTTAA
1 TTTTTTTA
*
8328555 TTTTTATA
1 TTTTTTTA
**
8328563 TACTTTTA
1 TTTTTTTA
8328571 TTATTTTTA
1 TT-TTTTTA
*
8328580 TTTTTCTA
1 TTTTTTTA
*
8328588 --TTTCTA
1 TTTTTTTA
8328594 TTTTTTTA
1 TTTTTTTA
8328602 TTTTTT
1 TTTTTT
8328608 CTTTCGTATT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
6 6 0.13
8 33 0.72
9 7 0.15
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8340282 original size:27 final size:27
Alignment explanation
Indices: 8340244--8340298 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
8340234 ATTCTCTTGG
* *
8340244 TTTTCAGTCATCTCTACGGTTGGGGGT
1 TTTTCAGCCATCTCTACGGTTGGAGGT
8340271 TTTTCAGCCATCTCTACGGTTGGAGGT
1 TTTTCAGCCATCTCTACGGTTGGAGGT
8340298 T
1 T
8340299 GAGTATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (27 bp):
TTTTCAGCCATCTCTACGGTTGGAGGT
Found at i:8345599 original size:21 final size:21
Alignment explanation
Indices: 8345570--8345626 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
8345560 TTCACTTCTC
*
8345570 CCACACCCGTGTGTGTAAACA
1 CCACGCCCGTGTGTGTAAACA
8345591 CCACGCCCGTGTGTGTAAACA
1 CCACGCCCGTGTGTGTAAACA
*
8345612 CCACGCTCGTGTGTG
1 CCACGCCCGTGTGTG
8345627 CAAGCCTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (21 bp):
CCACGCCCGTGTGTGTAAACA
Found at i:8361923 original size:21 final size:22
Alignment explanation
Indices: 8361893--8361941 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
8361883 GCAGCAGCAA
*
8361893 CATTTTGTTCATTTGTAACTTG
1 CATTTAGTTCATTTGTAACTTG
* *
8361915 -ATTTAGTTCTTTTGTAATTTG
1 CATTTAGTTCATTTGTAACTTG
8361936 CATTTA
1 CATTTA
8361942 AAATTTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (22 bp):
CATTTAGTTCATTTGTAACTTG
Found at i:8381440 original size:13 final size:13
Alignment explanation
Indices: 8381418--8381450 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8381408 AAGGGTTTGT
8381418 TTAT-TAAACTAA
1 TTATCTAAACTAA
8381430 TTATCTAAACTAA
1 TTATCTAAACTAA
*
8381443 TTAACTAA
1 TTATCTAA
8381451 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:8384392 original size:6 final size:5
Alignment explanation
Indices: 8384363--8384422 Score: 52
Period size: 6 Copynumber: 11.4 Consensus size: 5
8384353 TATGTCTTTC
*
8384363 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT ATAAAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT A-AAAT -AAAAT -AAAAT
8384411 AAAAT AAAAT AA
1 AAAAT AAAAT AA
8384423 GTACAAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 3 0.06
5 21 0.45
6 22 0.47
7 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:8389014 original size:13 final size:13
Alignment explanation
Indices: 8388992--8389024 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8388982 AAGGGTTTGT
8388992 TTAT-TAAACTAA
1 TTATCTAAACTAA
8389004 TTATCTAAACTAA
1 TTATCTAAACTAA
*
8389017 TTAACTAA
1 TTATCTAA
8389025 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:8389459 original size:14 final size:14
Alignment explanation
Indices: 8389440--8389475 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8389430 ATACCTGGAA
8389440 TAAGAACACATAAT
1 TAAGAACACATAAT
*
8389454 TAAGAACGCATAAT
1 TAAGAACACATAAT
8389468 TAAGAACA
1 TAAGAACA
8389476 AATCAAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (14 bp):
TAAGAACACATAAT
Found at i:8395265 original size:52 final size:52
Alignment explanation
Indices: 8395187--8395291 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
8395177 ACATAAAGAA
*
8395187 AACCCAAAACTCCTGAAGGGAAATTGAGGGGAGATCTTCAGTCTTGATGGTG
1 AACCCAAAACTCCTGAAGGGAAATTGAGGGGAGATCTTCAATCTTGATGGTG
8395239 AACCCAAAACTCCTGAAGGGAAATTGAGGGGAGATCTTCAATCTTGATGGTG
1 AACCCAAAACTCCTGAAGGGAAATTGAGGGGAGATCTTCAATCTTGATGGTG
8395291 A
1 A
8395292 CTTTGGCTTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (52 bp):
AACCCAAAACTCCTGAAGGGAAATTGAGGGGAGATCTTCAATCTTGATGGTG
Found at i:8398310 original size:46 final size:46
Alignment explanation
Indices: 8398258--8398424 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
8398248 ATTTGGGCAT
*
8398258 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
8398304 CCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTCGGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* * * *
8398349 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTCTGGATACGAATGT
1 --CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
8398397 CCGAACTCATTGAGTTGAGTCCAAGTTC
1 CCGAACTCATTGAGTTGAGTCCGAGTTC
8398425 GTAAGATGTA
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 53 0.54
47 27 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:8398370 original size:47 final size:46
Alignment explanation
Indices: 8398253--8398459 Score: 155
Period size: 46 Copynumber: 4.5 Consensus size: 46
8398243 AGGATATTTG
* * * *
8398253 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCTCTGA--GATG-TAAT
*
8398302 -GC--CCGAACTCATTGAGTTGAGTCCGAGTTC-GTGAGATGTAACT
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCTCTGAGATGTAA-T
*
8398345 CGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTCTG-GATACG-AAT
1 -GGCATCCGAACTCATTGAGTTGAGTCCGAGTT--C-TCTGAGAT--GTAAT
* * *
8398395 -G--TCCGAACTCATTGAGTTGAGTCCAAGTTC-GTAAGATGTAACT
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCTCTGAGATGTAA-T
8398438 AGGCATCCGAACTCATTGAGTT
1 -GGCATCCGAACTCATTGAGTT
8398460 AAATTTGAGT
Statistics
Matches: 130, Mismatches: 10, Indels: 38
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 9 0.07
44 1 0.01
45 5 0.04
46 53 0.41
47 43 0.33
48 3 0.02
49 1 0.01
50 4 0.03
51 4 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCTCTGAGATGTAAT
Found at i:8398412 original size:93 final size:93
Alignment explanation
Indices: 8398253--8398478 Score: 353
Period size: 93 Copynumber: 2.4 Consensus size: 93
8398243 AGGATATTTG
*
8398253 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCATTGAG
* * *
8398318 TTGAGTCCGAGTTCGTGAGATGTAACTC
66 TTGAGTCCAAGTTCGTAAGATGTAACTA
* *
8398346 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTCTGGATACGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCATTGAG
8398411 TTGAGTCCAAGTTCGTAAGATGTAACTA
66 TTGAGTCCAAGTTCGTAAGATGTAACTA
* * * **
8398439 GGCATCCGAACTCATTGAGTTAAATTTGAGTTCACTTATG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
8398479 AACGCCCGAG
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 121 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCATTGAG
TTGAGTCCAAGTTCGTAAGATGTAACTA
Found at i:8404310 original size:46 final size:48
Alignment explanation
Indices: 8404258--8404479 Score: 180
Period size: 47 Copynumber: 4.7 Consensus size: 48
8404248 ATTTGGGCAT
*
8404258 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T-G-C-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAGACA
* * * *
8404304 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGCCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAGACA
* * * * *
8404350 TCCAAACTCGTTGAGCTGAGTCCGAGTTCGTGA--GATGTAACTAGACA
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAGACA
* *
8404397 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC--G-C-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAGACA
*
8404444 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
8404480 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 1 0.01
45 3 0.02
46 59 0.40
47 68 0.46
48 3 0.02
49 1 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (48 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAGACA
Found at i:8404371 original size:47 final size:47
Alignment explanation
Indices: 8404307--8404425 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 47
8404297 CGAATGCCCG
*
8404307 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGCCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCA
* *
8404354 AACTCGTTGAGCTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCA
* *
8404401 AACTCATTGAGTTGAGTCTGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
8404426 ACTTATGGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCA
Found at i:8405522 original size:25 final size:25
Alignment explanation
Indices: 8405494--8405564 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 25
8405484 CCTCTTTTAA
8405494 AAACTGGGGCAAAGCCC-TTTCTGAT
1 AAACTGGGGCAAAGCCCTTTTC-GAT
*
8405519 AAACTGGGGCAAAGCCCTTTTCGGT
1 AAACTGGGGCAAAGCCCTTTTCGAT
* *
8405544 AAACTAGGGCATAGCCCTTTT
1 AAACTGGGGCAAAGCCCTTTT
8405565 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
AAACTGGGGCAAAGCCCTTTTCGAT
Found at i:8413168 original size:24 final size:25
Alignment explanation
Indices: 8413141--8413192 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
8413131 GCCTAGCCTC
8413141 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
8413165 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
8413190 TTT
1 TTT
8413193 CGGTAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:8413176 original size:25 final size:25
Alignment explanation
Indices: 8413148--8413207 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
8413138 CTCTTTTAAT
*
8413148 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
8413173 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
8413198 AACTAGGGCA
1 AACTGGGGCA
8413208 TAGTACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:8413281 original size:21 final size:20
Alignment explanation
Indices: 8413253--8413310 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
8413243 CAACCCATGT
*
8413253 ATATATGTATATATCACT-GC
1 ATATATGTACATATCA-TGGC
*
8413273 ATATCATGTGCATATCATGGC
1 ATAT-ATGTACATATCATGGC
*
8413294 ATATTATGTACAAATCA
1 ATA-TATGTACATATCA
8413311 GTATCATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 5 0.16
21 25 0.81
22 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (20 bp):
ATATATGTACATATCATGGC
Found at i:8413286 original size:11 final size:11
Alignment explanation
Indices: 8413270--8413302 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8413260 TATATATCAC
8413270 TGCATATCATG
1 TGCATATCATG
8413281 TGCATATCATG
1 TGCATATCATG
*
8413292 -GCATATTATG
1 TGCATATCATG
8413302 T
1 T
8413303 ACAAATCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (11 bp):
TGCATATCATG
Found at i:8415699 original size:31 final size:29
Alignment explanation
Indices: 8415662--8415727 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 29
8415652 AAAATAACTA
8415662 AAAATATTAGAGATAGAATTAGATGATGAAT
1 AAAATATT-G-GATAGAATTAGATGATGAAT
*
8415693 AAAATA-TGTATAGAATTAGATGATGAAT
1 AAAATATTGGATAGAATTAGATGATGAAT
8415721 AAAATAT
1 AAAATAT
8415728 GTAATTTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 25 0.76
29 1 0.03
30 1 0.03
31 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (29 bp):
AAAATATTGGATAGAATTAGATGATGAAT
Found at i:8415708 original size:28 final size:28
Alignment explanation
Indices: 8415674--8415730 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
8415664 AATATTAGAG
8415674 ATAGAATTAGATGATGAATAAAATATGT
1 ATAGAATTAGATGATGAATAAAATATGT
8415702 ATAGAATTAGATGATGAATAAAATATGT
1 ATAGAATTAGATGATGAATAAAATATGT
8415730 A
1 A
8415731 ATTTAAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.32
Consensus pattern (28 bp):
ATAGAATTAGATGATGAATAAAATATGT
Found at i:8423940 original size:20 final size:18
Alignment explanation
Indices: 8423901--8423951 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
8423891 TCTTCTGACC
8423901 AAAATAAAAATATATCAA
1 AAAATAAAAATATATCAA
8423919 AAAACTAAAAAGTATAAT-AA
1 AAAA-TAAAAA-TAT-ATCAA
8423939 AAAATAATAAATA
1 AAAATAA-AAATA
8423952 AAAAAGTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 12 0.41
21 2 0.07
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAATAAAAATATATCAA
Found at i:8425083 original size:18 final size:18
Alignment explanation
Indices: 8425056--8425098 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8425046 CGCATAAAAA
* *
8425056 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
8425074 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
8425092 GAAAGAA
1 GAAAGAA
8425099 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:8431884 original size:6 final size:6
Alignment explanation
Indices: 8431873--8431906 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
8431863 TCCTCTTATC
8431873 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
8431907 AAAAGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:8448414 original size:16 final size:15
Alignment explanation
Indices: 8448380--8448413 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8448370 GAGTAAAAAG
8448380 AAAATTGAAAAGAAT
1 AAAATTGAAAAGAAT
8448395 AAAATTTGAAAAG-AT
1 AAAA-TTGAAAAGAAT
8448410 AAAA
1 AAAA
8448414 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (15 bp):
AAAATTGAAAAGAAT
Found at i:8449058 original size:18 final size:19
Alignment explanation
Indices: 8449035--8449072 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
8449025 TTTTAATTTC
8449035 ATTTAACAAT-TTTATAAA
1 ATTTAACAATGTTTATAAA
* *
8449053 ATTTAATAATGTTTTTAAA
1 ATTTAACAATGTTTATAAA
8449072 A
1 A
8449073 ATATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTTAACAATGTTTATAAA
Found at i:8450441 original size:155 final size:155
Alignment explanation
Indices: 8450207--8450501 Score: 403
Period size: 155 Copynumber: 1.9 Consensus size: 155
8450197 TTGCTATCCA
* * **
8450207 GTCATAACAATTTTACTGTGAGTTTGACTAATTTATACAATCTATACAATGCCTTTAATGCTATC
1 GTCATAACAATTTTACTGCGAGTTTGACTAATTTATACAATCTATACAATACCTTTAAACCTATC
* *
8450272 CCTAAACAACCTCATTCTAGAATTGAGAAATTTGAGCAATCAATTTAACACCAGTTTAGCAATGT
66 CCTAAACAACCTCATTCTAGAATT-ACAAATTTCAGCAATCAATTTAACACCAGTTTAGCAATGT
*
8450337 CATTTTTTTTTTTAAATCACGATATG
130 CAGTTTTTTTTTTAAATCACGATATG
* * * * * *
8450363 GTCATAGCAATTTTATTGCGAG-TTGCCTATTTTGTACAATTTATACAATACCTTTAAACCTATC
1 GTCATAACAATTTTACTGCGAGTTTGACTAATTTATACAATCTATACAATACCTTTAAACCTATC
* ** ** *
8450427 CCTAAACAACCTCATTCTAGAATTTCTTATTTCAGCAATGGATTTAACACCAGTTTCGCAATGTC
66 CCTAAACAACCTCATTCTAGAATTACAAATTTCAGCAATCAATTTAACACCAGTTTAGCAATGTC
8450492 AGTTTTTTTT
131 AGTTTTTTTT
8450502 AAGTCATTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
154 42 0.35
155 59 0.49
156 19 0.16
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (155 bp):
GTCATAACAATTTTACTGCGAGTTTGACTAATTTATACAATCTATACAATACCTTTAAACCTATC
CCTAAACAACCTCATTCTAGAATTACAAATTTCAGCAATCAATTTAACACCAGTTTAGCAATGTC
AGTTTTTTTTTTAAATCACGATATG
Found at i:8453573 original size:42 final size:42
Alignment explanation
Indices: 8453510--8453664 Score: 233
Period size: 42 Copynumber: 3.7 Consensus size: 42
8453500 CTTCGTTTTC
** * * *
8453510 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-A
8453553 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
*
8453594 TCGATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
8453636 TCGATGCCAT-GCCCAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
8453665 TGATCACATA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
41 21 0.20
42 82 0.79
43 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:8453728 original size:7 final size:7
Alignment explanation
Indices: 8453716--8453744 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
8453706 TATACGGAAA
8453716 TCACTTG
1 TCACTTG
8453723 TCACTTG
1 TCACTTG
8453730 TCACTTG
1 TCACTTG
8453737 TCACTTG
1 TCACTTG
8453744 T
1 T
8453745 AGCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:8453778 original size:31 final size:31
Alignment explanation
Indices: 8453743--8453829 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
8453733 CTTGTCACTT
*
8453743 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
8453774 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
8453805 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
8453830 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:8453909 original size:50 final size:50
Alignment explanation
Indices: 8453805--8453981 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
8453795 CACTGATCAG
* * * * *
8453805 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTATCCTTGATCAGATAAGT
*
8453856 GTAGTCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTATCCTTGATCAGATAAGT
*
8453906 GTAGCCGAAGCTATTACTTATCACTTTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
8453956 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
8453982 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 3 0.03
50 88 0.76
51 25 0.22
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
Found at i:8458833 original size:26 final size:27
Alignment explanation
Indices: 8458799--8458852 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
8458789 ATATTTTTTA
* *
8458799 TGAAGTTAAAATTTTTGGGTGACATTT
1 TGAAGTTAAAATTTTGGGGGGACATTT
8458826 TGAA-TTAAAATTTTGGGGGGACATTT
1 TGAAGTTAAAATTTTGGGGGGACATTT
8458852 T
1 T
8458853 AAACCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.43
Consensus pattern (27 bp):
TGAAGTTAAAATTTTGGGGGGACATTT
Found at i:8459493 original size:5 final size:5
Alignment explanation
Indices: 8459481--8459516 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
8459471 GTAAAATGAA
* *
8459481 AATCG AGTCG AGTCG AATCG AATCG AATCG AATCG A
1 AATCG AATCG AATCG AATCG AATCG AATCG AATCG A
8459517 GTTAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (5 bp):
AATCG
Found at i:8465297 original size:14 final size:14
Alignment explanation
Indices: 8465278--8465309 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8465268 TAAAAGGTGG
8465278 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
8465292 TTTTATTTTTCTTT
1 TTTTATTTTTATTT
8465306 TTTT
1 TTTT
8465310 CGATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:8466194 original size:17 final size:17
Alignment explanation
Indices: 8466156--8466196 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8466146 TTGTATTCAC
**
8466156 TTATTATTCTTTCATTTT
1 TTATT-TTCTTTCATTAG
8466174 TTATTTTCTTTCATTAG
1 TTATTTTCTTTCATTAG
8466191 TTATTT
1 TTATTT
8466197 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTCTTTCATTAG
Found at i:8466242 original size:21 final size:21
Alignment explanation
Indices: 8466216--8466261 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8466206 ATGCCTTCAT
* *
8466216 TATTATTGGTATTTTGTTATC
1 TATTATTAGTATTTTATTATC
* *
8466237 TATTATTATTTTTTTATTATC
1 TATTATTAGTATTTTATTATC
8466258 TATT
1 TATT
8466262 CATCTATCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (21 bp):
TATTATTAGTATTTTATTATC
Found at i:8466617 original size:26 final size:24
Alignment explanation
Indices: 8466573--8466622 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
8466563 ATTTGTTTTA
*
8466573 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
8466597 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
8466623 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:8469555 original size:2 final size:2
Alignment explanation
Indices: 8469548--8469582 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8469538 TCACAAATCT
8469548 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8469583 TTTTGTCTTT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8478738 original size:14 final size:13
Alignment explanation
Indices: 8478719--8478752 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8478709 AACAAATTAT
8478719 TTAATAATTAGTAA
1 TTAATAATTA-TAA
8478733 TTAATAATTATAA
1 TTAATAATTATAA
8478746 -TAATAAT
1 TTAATAAT
8478753 ACATAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 3 0.15
14 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
TTAATAATTATAA
Found at i:8480118 original size:38 final size:38
Alignment explanation
Indices: 8480076--8480171 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 38
8480066 TTCGTTATTA
8480076 AAATTAAATTAA-AATATTAAATAACTTATTAAAAT-AAT
1 AAATTAAATTAATAATATT-AATAACTTATT-AAATGAAT
* * * *
8480114 AAATTATATTAATTATATTAATAGCTTATTATATGAAT
1 AAATTAAATTAATAATATTAATAACTTATTAAATGAAT
*
8480152 AAATATAAATAAATAGATAT
1 AAAT-TAAATTAATA-ATAT
8480172 GTTTAATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 3 0.06
38 28 0.60
39 12 0.26
40 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (38 bp):
AAATTAAATTAATAATATTAATAACTTATTAAATGAAT
Found at i:8482379 original size:70 final size:70
Alignment explanation
Indices: 8482262--8482396 Score: 261
Period size: 70 Copynumber: 1.9 Consensus size: 70
8482252 CTCAAATAAA
*
8482262 TGGTATAGTTTAATGGTTTATTATTCAATTAAGTTTACGGTGGGGATAATTTTATCTTTTTTTTT
1 TGGTATAGTTTAATGGTTTATTATTCAATTAAGTTTACGGTGAGGATAATTTTATCTTTTTTTTT
8482327 ATTTG
66 ATTTG
8482332 TGGTATAGTTTAATGGTTTATTATTCAATTAAGTTTACGGTGAGGATAATTTTATCTTTTTTTTT
1 TGGTATAGTTTAATGGTTTATTATTCAATTAAGTTTACGGTGAGGATAATTTTATCTTTTTTTTT
8482397 GTTTTTATAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.54
Consensus pattern (70 bp):
TGGTATAGTTTAATGGTTTATTATTCAATTAAGTTTACGGTGAGGATAATTTTATCTTTTTTTTT
ATTTG
Found at i:8490140 original size:3 final size:3
Alignment explanation
Indices: 8490134--8490292 Score: 75
Period size: 3 Copynumber: 54.0 Consensus size: 3
8490124 TTCTAATACC
* * *
8490134 ATT ATT ATT -TT ATT ATT ACT ATT ATT -TCT ATT ATT ATT TTT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * *
8490178 ACT ATT ATT TTT ATT ATG ATT A-T ATT -TT CTT -TT -TT GAGT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* **
8490219 ATCT ACTT ATT ATT -TT ATT ATT AATT AAT -TT AGC ATT ATTT ATT ATT
1 AT-T A-TT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A-TT ATT ATT
* * *
8490266 ATT GTT ATT TTT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8490293 TTTGCTATTT
Statistics
Matches: 116, Mismatches: 26, Indels: 28
0.68 0.15 0.16
Matches are distributed among these distances:
2 15 0.13
3 88 0.76
4 12 0.10
5 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8490176 original size:18 final size:18
Alignment explanation
Indices: 8490136--8490169 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8490126 CTAATACCAT
8490136 TATTATTT-TATTATTAC
1 TATTATTTCTATTATTAC
8490153 TATTATTTCTATTATTA
1 TATTATTTCTATTATTA
8490170 TTTTTATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATTTCTATTATTAC
Done.